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Sample records for chain variable region

  1. The 48-base-long primordial building block of immunoglobulin light-chain variable regions is complementary to the primordial building block of heavy-chain variable regions.

    OpenAIRE

    Ohno, S; Matsunaga, T

    1982-01-01

    The ancestral gene for immunoglobulin light-chain variable regions (Ig VLs) of the kappa as well as the lambda class apparently arose from about 12 tandem repeats of the 48-base-long primordial building block sequence TCT-TGC-GCA-GTA-AGT-CCA-CTC-CAG-GTC-ATA-TCC-AGT-CAG-GCT-GCT-GAA. Even today, amino acid residues 67 to 82 of each Ig V kappa L are still specified by a direct descendant in toto of the above-noted primordial building block, whereas amino acid residues 14 to 25 are invariably spe...

  2. Diversity and structure of human T-cell receptor α-chain variable region genes

    International Nuclear Information System (INIS)

    The nucleotide sequences of 27 T-cell receptor α-chain variable region (V/sub α/)-containing cDNA clones isolated from a cDNA library derived from human peripheral blood lymphocytes were determined. Eighteen different V/sub α/ and 26 different joining (J/sub α/) gene segments are utilized in these clones. The V/sub α/ gene segments belong to 12 different subfamilies, each containing from one to seven members. Comparisons with the 16 different V/sub α/ and 21 different Jα sequences previously reported suggest that the germ-line repertoires for these gene segments are greater than previously estimated. Flexibility in the sites of gene segment joining and possibly N-region diversification also contribute to human α-chain diversity. Comparisons of human V/sub α/ regions indicate a high degree of variability spread uniformly across the entire V/sub α/ region without obvious hypervariable regions. However, amino acids important for the maintenance of V gene structure are conserved

  3. Anti-Staphylococcus aureus single-chain variable region fragments provide protection against mastitis in mice.

    Science.gov (United States)

    Wang, Man; Zhang, Yan; Zhu, Jianguo

    2016-03-01

    Staphylococcus aureus is a leading causative agent of bovine mastitis, which can result in significant economic losses to the dairy industry. However, available vaccines against bovine mastitis do not confer adequate protection, although passive immunization with antibodies may be useful to prevent disease. Hence, we constructed a bovine single-chain variable region fragment (scFv) phage display library using cDNAs from peripheral blood lymphocytes of cows with S. aureus-induced mastitis. After four rounds of selection, eight scFvs that bound S. aureus antigens with high affinity were obtained. The framework regions of the variable domains (VH and VL) of the eight scFvs were highly conserved, and the complementarity-determining regions (CDRs) displayed significant diversity, especially CDR3 of the VH domain. All eight scFvs inhibited S. aureus growth in culture medium. Lactating mice were challenged by injecting S. aureus into the fourth mammary gland. Histopathological analysis showed that treatment with these scFvs prior to bacterial challenge maintained the structure of the mammary acini, decreased infiltration of polymorphonuclear neutrophils, increased levels of interferon-gamma and interleukin-4, and reduced tumor necrosis factor-alpha levels in mammary tissues, as compared with mice treatment with physiological saline (P < 0.05). These novel bovine scFvs may be suitable candidates for therapeutic agents for the prevention of S. aureus-induced bovine mastitis. PMID:26512007

  4. Physical linkage of a human immunoglobulin heavy chain variable region gene segment to diversity and joining region elements

    International Nuclear Information System (INIS)

    Antibody genes are assembled from a series of germ-line gene segments that are juxtaposed during the maturation of B lymphocytes. Although diversification of the adult antibody repertoire results in large part from the combinatorial joining of these gene segments, a restricted set of antibody heavy chain variable (VH), diversity (DH), and joining (JH) region gene segments appears preferentially in the human fetal repertoire. The authors report here that one of these early-expressed VH elements (termed VH6) is the most 3' VH gene segment, positioned 77 kilobases on the 5' side of the JH locus and immediately adjacent to a set of previously described DH sequences. In addition to providing a physical map linking human VH, DH, and JH elements, these results support the view that the programmed development of the antibody VH repertoire is determined in part by the chromosomal position of these gene segments

  5. Possible deletion of a developmentally regulated heavy-chain variable region gene in autoimmune diseases

    Energy Technology Data Exchange (ETDEWEB)

    Yang, Pei-Ming; Olee, Tsaiwei; Kozin, F.; Carson, D.A.; Chen, P.P. (Research Institute of Scripps Clinic, La Jolla, CA (USA)); Olsen, N.J. (Vanderbilt Univ., Nashville, TN (USA)); Siminovitch, K.A. (Univ. of Toronto (Canada))

    1990-10-01

    Several autoantibody-associated variable region (V) genes are preferentially expressed during early ontogenic development, suggesting strongly that they are of developmental and physiological importance. As such, it is possible that polymorphisms in one or more of these genes may alter susceptibility to autoimmune disease. The authors have searched extensively for a probe related to a developmentally regulated V gene that has the power to differentiate among highly homologous V genes in human populations. Using such a probe (i.e., Humhv3005/P1) related to both anti-DNA and anti-IgG autoantibodies, they studied restriction fragment length polymorphisms in patients with rheumatoid arthritis and systemic lupus erythematosus and found an apparent heavy-chain V (V{sub H}) gene deletion that was nearly restricted to the autoimmune patients. These data suggest that deletions of physiologically important V{sub H} genes may increase the risk of autoimmunity through indirect effects on the development and homeostasis of the B-cell repertoire.

  6. Suppression of Aggrus/podoplanin-induced platelet aggregation and pulmonary metastasis by a single-chain antibody variable region fragment

    International Nuclear Information System (INIS)

    Almost all highly metastatic tumor cells possess high platelet aggregating abilities, thereby form large tumor cell-platelet aggregates in the microvasculature. Embolization of tumor cells in the microvasculature is considered to be the first step in metastasis to distant organs. We previously identified the platelet aggregation-inducing factor expressed on the surfaces of highly metastatic tumor cells and named as Aggrus. Aggrus was observed to be identical to the marker protein podoplanin (alternative names, T1α, OTS-8, and others). Aggrus is frequently overexpressed in several types of tumors and enhances platelet aggregation by interacting with the platelet receptor C-type lectin-like receptor 2 (CLEC-2). Here, we generated a novel single-chain antibody variable region fragment (scFv) by linking the variable regions of heavy and light chains of the neutralizing anti-human Aggrus monoclonal antibody MS-1 with a flexible peptide linker. Unfortunately, the generated KM10 scFv failed to suppress Aggrus-induced platelet aggregation in vitro. Therefore, we performed phage display screening and finally obtained a high-affinity scFv, K-11. K-11 scFv was able to suppress Aggrus-induced platelet aggregation in vitro. Moreover, K-11 scFv prevented the formation of pulmonary metastasis in vivo. These results suggest that K-11 scFv may be useful as metastasis inhibitory scFv and is expected to aid in the development of preclinical and clinical examinations of Aggrus-targeted cancer therapies

  7. Immunoglobulin heavy chain variable region gene repertoire and B-cell receptor stereotypes in Indian patients with chronic lymphocytic leukemia.

    Science.gov (United States)

    Rani, Lata; Mathur, Nitin; Gogia, Ajay; Vishnubhatla, Sreenivas; Kumar, Lalit; Sharma, Atul; Dube, Divya; Kaur, Punit; Gupta, Ritu

    2016-10-01

    In chronic lymphocytic leukemia (CLL), the geographical bias in immunoglobulin heavy-chain variable (IGHV) gene usage lead us to analyze IGHV gene usage and B-cell receptor stereotypy in 195 patients from India. IGHV3, IGHV4, and IGHV1 families were the most frequently used. 20.5% sequences had stereotyped BCR and were clustered in 12 pre-defined and 6 novel subsets. Unmutated IGHV was significantly associated with reduced time to first treatment (p cases (p = 0.045) in early stage patients. Regarding subfamily usage, only IGHV1-69 expression was found to have statistically significant poor outcome (p = 0.017). Our results from the analysis of various molecular and clinical features suggest that the expression of specific IGHV gene influences the outcome in early stage CLL, and hence its assessment may be added to the clinical leukemia laboratory armamentarium. PMID:26942309

  8. Heavy chain V region diversity in the duck-billed platypus (Ornithorhynchus anatinus): long and highly variable complementarity-determining region 3 compensates for limited germline diversity.

    Science.gov (United States)

    Johansson, Jeannette; Aveskogh, Maria; Munday, Barry; Hellman, Lars

    2002-05-15

    In this work, to study the emergence of the H chain V region repertoire during mammalian evolution, we present an analysis of 25 independent H chain V regions from a monotreme, the Australian duck-billed platypus, Ornithorhynchus anatinus. All the sequences analyzed were found to form a single branch within the clan III of mammalian V region sequences in a distance tree. However, compared with a classical V gene family this branch was more diversified in sequence. Sequence analysis indicates that the apparent lack of diversity in germline V segments is well compensated for by relatively long and highly diversified D and N nucleotides. In addition, extensive sequence variation was observed in the framework region 3. Furthermore, at least five and possibly seven different J segments seem to be actively used in recombination. Interestingly, internal cysteine bridges in the complementarity-determining region (CDR)3 loop, or between the CDR2 and CDR3 loops, are found in approximately 36% of the platypus V(H) sequences. Such cysteine bridges have also been observed in cow, camel, and shark. Internal cysteine bridges may play a role in stabilizing long and diversified CDR3 and thereby have a role in increasing the affinity of the Ab-Ag interaction. PMID:11994470

  9. Stochastically Perturbed Chains of Variable Memory

    OpenAIRE

    Garcia, Nancy L.; Moreira, Lucas

    2013-01-01

    In this paper, we study inference for chains of variable order under two distinct contamination regimes. Consider we have a chain of variable memory on a finite alphabet containing zero. At each instant of time an independent coin is flipped and if it turns head a contamination occurs. In the first regime a zero is read independent of the value of the chain. In the second regime, the value of another chain of variable memory is observed instead of the original one. Our results state that the ...

  10. Somatic diversification in the heavy chain variable region genes expressed by human autoantibodies bearing a lupus-associated nephritogenic anti-DNA idiotype

    Energy Technology Data Exchange (ETDEWEB)

    Demaison, C.; Chastagner, P.; Theze, J.; Zouali, M. (Institut Pasteur, Paris (France))

    1994-01-18

    Monoclonal anti-DNA antibodies bearing a lupus nephritis-associated idiotype were derived from five patients with systemic lupus erythematosus (SLE). Genes encoding their heavy (H)-chain variable (V[sub H]) regions were cloned and sequenced. When compared with their closest V[sub h] germ-line gene relatives, these sequences exhibit a number of silent (S) and replacement (R) substitutions. The ratios of R/S mutations were much higher in the complementarity-determining regions (CDRs) of the antibodies than in the framework regions. Molecular amplification of genomic V[sub H] genes and Southern hybridization with somatic CDR2-specific oligonucleotide probes showed that the configuration of the V[sub H] genes corresponding to V[sub H] sequences in the nephritogenic antibodies is not present in the patient's own germ-line DNA, implying that the B-cell clones underwent somatic mutation in vivo. These findings, together with the characteristics of the diversity and junctional gene elements utilized to form the antibody, indicate that these autoantibodies have been driven through somatic selection processes reminiscent of those that govern antibody responses triggered by exogenous stimuli.

  11. Stochastic chains with memory of variable length

    OpenAIRE

    Galves, Antonio; Loecherbach, Eva

    2008-01-01

    International audience Stochastic chains with memory of variable length constitute an interesting family of stochastic chains of infinite order on a finite alphabet. The idea is that for each past, only a finite suffix of the past, called context, is enough to predict the next symbol. These models were first introduced in the information theory literature by Rissanen (1983) as a universal tool to perform data compression. Recently, they have been used to model up scientific data in areas a...

  12. Single-Chain Fragment Variable Passive Immunotherapies for Neurodegenerative Diseases

    OpenAIRE

    Liang Huang; Federoff, Howard J.; Xiaomin Su

    2013-01-01

    Accumulation of misfolded proteins has been implicated in a variety of neurodegenerative diseases including prion diseases, Alzheimer’s disease (AD), Parkinson’s disease (PD), and Huntington’s disease (HD). In the past decade, single-chain fragment variable (scFv) -based immunotherapies have been developed to target abnormal proteins or various forms of protein aggregates including Aβ, SNCA, Htt, and PrP proteins. The scFvs are produced by fusing the variable regions of the antibody heavy and...

  13. Single-Chain Fragment Variable Passive Immunotherapies for Neurodegenerative Diseases

    Directory of Open Access Journals (Sweden)

    Liang Huang

    2013-09-01

    Full Text Available Accumulation of misfolded proteins has been implicated in a variety of neurodegenerative diseases including prion diseases, Alzheimer’s disease (AD, Parkinson’s disease (PD, and Huntington’s disease (HD. In the past decade, single-chain fragment variable (scFv -based immunotherapies have been developed to target abnormal proteins or various forms of protein aggregates including Aβ, SNCA, Htt, and PrP proteins. The scFvs are produced by fusing the variable regions of the antibody heavy and light chains, creating a much smaller protein with unaltered specificity. Because of its small size and relative ease of production, scFvs are promising diagnostic and therapeutic reagents for protein misfolded diseases. Studies have demonstrated the efficacy and safety of scFvs in preventing amyloid protein aggregation in preclinical models. Herein, we discuss recent developments of these immunotherapeutics. We review efforts of our group and others using scFv in neurodegenerative disease models. We illustrate the advantages of scFvs, including engineering to enhance misfolded conformer specificity and subcellular targeting to optimize therapeutic action.

  14. Bayesian analysis of variable-order, reversible Markov chains

    OpenAIRE

    Bacallado, Sergio

    2011-01-01

    We define a conjugate prior for the reversible Markov chain of order $r$. The prior arises from a partially exchangeable reinforced random walk, in the same way that the Beta distribution arises from the exchangeable Poly\\'{a} urn. An extension to variable-order Markov chains is also derived. We show the utility of this prior in testing the order and estimating the parameters of a reversible Markov model.

  15. The association of heavy and light chain variable domains in antibodies: implications for antigen specificity.

    KAUST Repository

    Chailyan, Anna

    2011-06-28

    The antigen-binding site of immunoglobulins is formed by six regions, three from the light and three from the heavy chain variable domains, which, on association of the two chains, form the conventional antigen-binding site of the antibody. The mode of interaction between the heavy and light chain variable domains affects the relative position of the antigen-binding loops and therefore has an effect on the overall conformation of the binding site. In this article, we analyze the structure of the interface between the heavy and light chain variable domains and show that there are essentially two different modes for their interaction that can be identified by the presence of key amino acids in specific positions of the antibody sequences. We also show that the different packing modes are related to the type of recognized antigen.

  16. Separation of variables in the open XXX chain

    International Nuclear Information System (INIS)

    We apply the Sklyanin method of separation of variables to the reflection algebra underlying the open spin-1/2 XXX chain with non-diagonal boundary fields. The spectral problem can be formulated in terms of a TQ-equation which leads to the known Bethe equations for boundary parameters satisfying a constraint. For generic boundary parameters we study the asymptotic behaviour of the solutions of the TQ-equation

  17. Climatological variability in regional air pollution

    International Nuclear Information System (INIS)

    Although some air pollution modeling studies examine events that have already occurred (e.g., the Chernobyl plume) with relevant meteorological conditions largely known, most pollution modeling studies address expected or potential scenarios for the future. Future meteorological conditions, the major pollutant forcing function other than emissions, are inherently uncertain although much relevant information is contained in past observational data. For convenience in our discussions of regional pollutant variability unrelated to emission changes, we define meteorological variability as short-term (within-season) pollutant variability and climatological variability as year-to-year changes in seasonal averages and accumulations of pollutant variables. In observations and in some of our simulations the effects are confounded because for seasons of two different years both the mean and the within-season character of a pollutant variable may change. Effects of climatological and meteorological variability on means and distributions of air pollution parameters, particularly those related to regional visibility, are illustrated. Over periods of up to a decade climatological variability may mask or overstate improvements resulting from emission controls. The importance of including climatological uncertainties in assessing potential policies, particularly when based partly on calculated source-receptor relationships, is highlighted

  18. Value chain dynamics, settlement trajectories and regional development

    DEFF Research Database (Denmark)

    Fold, Niels

    2014-01-01

    Global value chain (GVC) analysis has little to say about the interaction between regions and global chain dynamics. However, recent calls to address broader development issues have resulted in efforts to incorporate a spatial dimension in GVC analysis. Addressing this issue, the paper argues that...... GVC analysis needs to be combined with the examination of livelihoods at settlement level. Livelihood diversification – or lack thereof – indicates particular settlement trajectories that constitute regional development pathways. It is also suggested that the understanding of how regions are shaped by...

  19. Regional Variability in Sea Level Rise

    OpenAIRE

    Meyssignac, Benoit

    2012-01-01

    Over the XXth century, tide gauge records indicate a rise in global sea level of 1.7 mm.a-1. For the past two decades, satellite altimetry data indicate a faster sea level rise of 3.2 mm.a-1 (period 1993-2011). Thanks to its global coverage, they also reveal a strong regional variability in sea level rise that is several times bigger than the global rise in many regions of the world. This regional signal, which must be added to the global sea level rise to compute the total sea level signal, ...

  20. Functional antibody lacking a variable-region disulfide bridge.

    OpenAIRE

    Rudikoff, S.; Pumphrey, J G

    1986-01-01

    In 1981, Auffray et al. [Auffray, C., Sikorav, J. L., Ollo, R. & Rougeon, F. (1981) Ann. Immunol. (Inst. Pasteur) 132D, 77-88] reported a partial cDNA sequence of the heavy chain from the ABPC48 plasmacytoma whose protein product had previously been shown to bind bacterial and grass levan. In the cDNA sequence the second half-cystine of the heretofore invariant disulfide bridge had been replaced by a tyrosine. Since the presence of invariant variable-region disulfide bridges has been consider...

  1. The partition of regional sea level variability

    Science.gov (United States)

    Forget, Gaël; Ponte, Rui M.

    2015-09-01

    The existing altimetric record offers an unprecedented view of sea level (ζ) variability on a global scale for more than 2 decades. Optimal inference from the data involves appropriate partition of signal and noise, in terms of relevant scales, physical processes and forcing mechanisms. Such partition is achieved here through fitting a general circulation model to altimeter and other datasets to produce a "best" estimate of ζ variability directly forced by the atmosphere-the signal of primary interest here. In this context noise comes primarily from instrument errors and meso-scale eddies, as expected, but spatial smoothing effectively reduces this noise. A separate constraint is thus formulated to measure the fit to monthly, large-scale altimetric variability that unlike the daily, pointwise constraint shows a high signal-to-noise ratio. The estimate is explored to gain insight into dynamics, forcing, and other factors controlling ζ variability. Contributions from thermo-steric, halo-steric and bottom pressure terms are all important depending on region, but slopes of steric spectra (red) and bottom pressure spectra (white) are nearly invariant with latitude. Much ζ variability can be represented by a seasonal cycle and linear trend, plus a few EOFs that can be associated with known modes of climate variability and/or with topographic controls. Both wind and buoyancy forcing are important. The response is primarily basin-bound in nature, but uneven patterns of propagation across basin boundaries are clearly present, with the Pacific being able to affect large portions of the Indian and Atlantic basins, but the Atlantic affecting mostly the Arctic.

  2. Implications Of Human Resource Variables On Supply Chain Performance And Competitiveness

    Directory of Open Access Journals (Sweden)

    Amit Kumar Marwah

    2014-02-01

    Full Text Available This paper proposes a conceptual model indicating the effect of Human Resource (HR variables on supply chain (SC performance and to suggest best approach suited for Indian manufacturing organizations, in general, and automotive industries, in particular. This study is a part of a larger research project exploring SC related practices. The methodology of critical evaluation involved literature review of empirical research articles on performance measurement, SCM and HR practices. A critical analysis is carried out so as to identify research gaps in content of effect of HR on performance measurement of supply chains, as well as to propose directions for future research. A conceptual model is also proposed. Critical investigation of selected articles led to an idea that there can be significant effect of the role of human involvement on overall SC Performance. It is to be seen that how various parameters, taken from the literature review, affect SC performance and ultimately contributing to its competitiveness. The study is limited to supply chains of the automotive industries and their ancillaries located in Malwa region of M.P., India. Further research can be carried out by using data of various supply chains located in other parts of India to generalize the research. Also, other sectors and industries can be included.

  3. Improving performance of supply chain processes by reducing variability

    OpenAIRE

    Poiger, Martin

    2010-01-01

    Supply chain management (SCM) has become one of the most popular and fastest growing areas in management. One major issue of SCM is the proper design of supply chains to serve customers effectively (high customer service) and efficiently (at low costs). This is particularly difficult as companies nowadays face a series of challenges like shrinking product life cycles, the proliferation of product variants (mass customization), and increasing uncertainty on both the demand and the supply side....

  4. On the variability of cold region flooding

    Science.gov (United States)

    Matti, Bettina; Dahlke, Helen E.; Lyon, Steve W.

    2016-03-01

    Cold region hydrological systems exhibit complex interactions with both climate and the cryosphere. Improving knowledge on that complexity is essential to determine drivers of extreme events and to predict changes under altered climate conditions. This is particularly true for cold region flooding where independent shifts in both precipitation and temperature can have significant influence on high flows. This study explores changes in the magnitude and the timing of streamflow in 18 Swedish Sub-Arctic catchments over their full record periods available and a common period (1990-2013). The Mann-Kendall trend test was used to estimate changes in several hydrological signatures (e.g. annual maximum daily flow, mean summer flow, snowmelt onset). Further, trends in the flood frequency were determined by fitting an extreme value type I (Gumbel) distribution to test selected flood percentiles for stationarity using a generalized least squares regression approach. Results highlight shifts from snowmelt-dominated to rainfall-dominated flow regimes with all significant trends (at the 5% significance level) pointing toward (1) lower magnitudes in the spring flood; (2) earlier flood occurrence; (3) earlier snowmelt onset; and (4) decreasing mean summer flows. Decreasing trends in flood magnitude and mean summer flows suggest widespread permafrost thawing and are supported by increasing trends in annual minimum daily flows. Trends in selected flood percentiles showed an increase in extreme events over the full periods of record (significant for only four catchments), while trends were variable over the common period of data among the catchments. An uncertainty analysis emphasizes that the observed trends are highly sensitive to the period of record considered. As such, no clear overall regional hydrological response pattern could be determined suggesting that catchment response to regionally consistent changes in climatic drivers is strongly influenced by their physical

  5. Mutations in specific structural regions of immunoglobulin light chains are associated with free light chain levels in patients with AL amyloidosis.

    Directory of Open Access Journals (Sweden)

    Tanya L Poshusta

    Full Text Available BACKGROUND: The amyloidoses are protein misfolding diseases characterized by the deposition of amyloid that leads to cell death and tissue degeneration. In immunoglobulin light chain amyloidosis (AL, each patient has a unique monoclonal immunoglobulin light chain (LC that forms amyloid deposits. Somatic mutations in AL LCs make these proteins less thermodynamically stable than their non-amyloidogenic counterparts, leading to misfolding and ultimately the formation of amyloid fibrils. We hypothesize that location rather than number of non-conservative mutations determines the amyloidogenicity of light chains. METHODOLOGY/PRINCIPAL FINDINGS: We performed sequence alignments on the variable domain of 50 kappa and 91 lambda AL light chains and calculated the number of non-conservative mutations over total number of patients for each secondary structure element in order to identify regions that accumulate non-conservative mutations. Among patients with AL, the levels of circulating immunoglobulin free light chain varies greatly, but even patients with very low levels can have very advanced amyloid deposition. CONCLUSIONS: Our results show that in specific secondary structure elements, there are significant differences in the number of non-conservative mutations between normal and AL sequences. AL sequences from patients with different levels of secreted light chain have distinct differences in the location of non-conservative mutations, suggesting that for patients with very low levels of light chains and advanced amyloid deposition, the location of non-conservative mutations rather than the amount of free light chain in circulation may determine the amyloidogenic propensity of light chains.

  6. Cloning and Sequence Analysis of Light Variable Region Gene of Anti-human Retinoblastoma Monoclonal Antibody

    Institute of Scientific and Technical Information of China (English)

    Xiufeng Zhong; Yongping Li; Shuqi Huang; Bo Ning; Chunyan Zhang; Jianliang Zheng; Guanguang Feng

    2002-01-01

    Purpose: To clone the variable region gene of light chain of monoclonal antibody against human retinoblastoma and to analyze the characterization of its nucleotide sequence as well as amino acid sequence.Methods: Total RNA was extracted from 3C6 hybridoma cells secreting specific monoclonal antibody(McAb)against human retinoblastoma(RB), then transcripted reversely into cDNA with olig-dT primers.The variable region of the light chain (VL) gene fragments was amplified using polymeerase chain reaction(PCR) and further cloned into pGEM(R) -T Easy vector. Then, 3C6 VL cDNA was sequenced by Sanger's method.Homologous analysis was done by NCBI BLAST.Results: The complete nucleotide sequence of 3C6 VL cDNA consisted of 321 bp encoding 107 amino acid residues, containing four workframe regions(FRs)and three complementarity-determining regions (CDRs) as well as the typical structure of two cys residues. The sequence is most homological to a member of the Vk9 gene family, and its chain utilizes the Jkl gene segment.Conclusion: The light chain variable region gene of the McAb against human RB was amplified successfully , which belongs to the Vk9 gene family and utilizes Vk-Jk1 gene rearrangement. This study lays a good basis for constructing a recombinant antibody and for making a new targeted therapeutic agents against retinoblastoma.

  7. Gladiolus plants transformed with single-chain variable fragment antibodies to Cucumber mosaic virus

    Science.gov (United States)

    Transgenic plants of Gladiolus ‘Peter Pears’ or ‘Jenny Lee’ were developed that contain single-chain variable fragments (scFv) to Cucumber mosaic virus (CMV) subgroup I or II. The CMV subgroup I heavy and light chain scFv fragments were placed under control of either the duplicated CaMV 35S or suga...

  8. Preparation and Identification of a Single-chain Variable Fragment Antibody Against Canine Distemper Virus.

    Science.gov (United States)

    Yi, Li; Cheng, Shipeng

    2015-08-01

    The variable regions of the heavy chain (VH) and light chain (VL) were amplified by RT-PCR from the hybridoma 1N8, which secretes the monoclonal antibody against CDV N protein (aa 277-471). The VL and VH amplicons were combined using SOE-PCR by a 12 amino acid flexible linker (SSGGGGSGGGGS), which produced the scFv gene (named scFv/1N8). After sequence analysis, the scFv/1N8 gene was cloned into the prokaryotic expression vector PET32a with a His-tag. The recombinant scFv/1N8 protein was successfully expressed in recombinant Escherichia coli by IPTG induction. Moreover, the binding activity and specificity of the scFv were determined by indirect ELISA (His-tag) and competitive ELISA. The recombinant scFv/1N8 protein reported here will provide some basis for further antiviral drug research based on the scFv molecule. PMID:26301925

  9. Separation of Variables in the Classical Integrable SL(3) Magnetic Chain

    OpenAIRE

    Sklyanin, E. K.

    1992-01-01

    There are two fundamental problems studied by the theory of hamiltonian integrable systems: integration of equations of motion, and construction of action-angle variables. The third problem, however, should be added to the list: separation of variables. Though much simpler than two others, it has important relations to the quantum integrability. Separation of variables is constructed for the $SL(3)$ magnetic chain --- an example of integrable model associated to a nonhyperelliptic algebraic c...

  10. Lead time variability management in pharmaceutical supply chains: Case Orion Oyj

    OpenAIRE

    Neva, Mikko

    2015-01-01

    This study examines process lead time variability management in a pharmaceutical supply chain environment. Motivation for the study stems from exceptional structure and regulation of pharmaceutical supply chains as well as current trends reforming the cornerstones of industry's business model. When the historical focus in pharmaceutical business has been in R&D and patent protection, this industry is today facing increasing requirements related to operational excellence development. One signi...

  11. An Analysis of Some Moderating Variables on the Value, Brand Trust and Brand Loyalty Chain

    OpenAIRE

    Kambiz Heidarzadeh Hanzaee; Leila Andervazh

    2012-01-01

    The objective in this study was to investigate the moderating effect of some variables on the value, brand trust, and brand loyalty chain. These moderating variables are customer characteristics (Age, Gender, Involvement, Price consciousness, Brand consciousness). More specifically, we investigate both the link between hedonic and utilitarian values of a product and brand trust and the link between brand trust and attitudinal and purchase loyalty and the impact of selected customer characteri...

  12. Expression and Functional Properties of an Anti-Triazophos High-Affinity Single-Chain Variable Fragment Antibody with Specific Lambda Light Chain

    Directory of Open Access Journals (Sweden)

    Rui Liu

    2016-06-01

    Full Text Available Triazophos is a widely used organophosphorous insecticide that has potentially adverse effects to organisms. In the present study, a high-affinity single-chain variable fragment (scFv antibody with specific lambda light chain was developed for residue monitoring. First, the specific variable regions were correctly amplified from a hybridoma cell line 8C10 that secreted monoclonal antibody (mAb against triazophos. The regions were then assembled as scFv via splicing by overlap extension polymerase chain reaction. Subsequently, the recombinant anti-triazophos scFv-8C10 was successfully expressed in Escherichia coli strain HB2151 in soluble form, purified through immobilized metal ion affinity chromatography, and verified via Western blot and peptide mass fingerprinting analyses. Afterward, an indirect competitive enzyme-linked immunosorbent assay was established based on the purified anti-triazophos scFv-8C10 antibody. The assay exhibited properties similar to those based on the parent mAb, with a high sensitivity (IC50 of 1.73 ng/mL to triazophos and no cross reaction for other organophosphorus pesticides; it was reliable in detecting triazophos residues in spiked water samples. Moreover, kinetic measurement using a surface plasmon resonance biosensor indicated that the purified scFv-8C10 antibody had a high affinity of 1.8 × 10−10 M and exhibited good binding stability. Results indicated that the recombinant high-affinity scFv-8C10 antibody was an effective detection material that would be promising for monitoring triazophos residues in environment samples.

  13. Expression and production of llama variable heavy-chain antibody fragments (VHHs) by Aspergillus awamori

    NARCIS (Netherlands)

    Joosten, V.; Gouka, R.J.; Hondel, C.A.M.J.J. van den; Verrips, C.T.; Lokman, B.C.

    2005-01-01

    We report the expression and production of llama variable heavy-chain antibody fragments (VHHs) by Aspergillus awamori. Fragments encoding VHHs were cloned in a suitable Aspergillus expression vector and transformants secreting VHH fragments were analysed for integrated gene copy-numbers, mRNA level

  14. Chimeric antibody with human constant regions and mouse variable regions directed against carcinoma-associated antigen 17-1A

    International Nuclear Information System (INIS)

    The authors have cloned the genomic DNA fragments encoding the heavy and light chain variable regions of monoclonal antibody 17-1A, and they have inserted them into mammalian expression vectors containing genomic DNA segments encoding human γ3 and kappa constant regions. The transfer of these expression vectors containing mouse-human chimeric immunoglobulin genes into Sp2/0 mouse myeloma cells resulted in the production of functional IgG that retained the specific binding to the surface antigen 17-1A expressed on colorectal carcinoma cells

  15. Affinity improvement by fine tuning of single-chain variable fragment against aflatoxin B1.

    Science.gov (United States)

    Min, Won-Ki; Na, Kang-In; Yoon, Jung-Hyun; Heo, Yoon-Jee; Lee, Daesang; Kim, Sung-Gun; Seo, Jin-Ho

    2016-10-15

    Aflatoxin B1 (AFB1) produced in Aspergillus flavus is a major hepatocarcinogen found in foods and feed. For effective immunological detection of AFB1 at low concentrations, the development of high affinity antibody for AFB1 is required. Previously, an affinity-maturated single-chain variable fragment containing 6 mutations (scFv-M37) was isolated from an artificial mutagenic library, which showed a 9-fold higher affinity than its wild type scFv. In this study, the effect of the 6 mutated residues on the affinity improvement was characterized using surface plasmon resonance analysis, which identified a deleterious mutation (VH-A110T) located on a framework region of the scFv-M37. The back mutation of VH-A110T resulted in a 3.2-fold affinity improvement, which was attributed to decrease of dissociation rate constant (kd) in interaction between AFB1 and the back mutant scFv. The biophysical analyses using circular dichroism and gel filtration revealed that the back mutation of VH-A110T caused a subtle conformational change of the scFv toward tighter binding to AFB1. PMID:27173568

  16. Climate variability in the Carpathian Mountains Region over 1961-2010

    Science.gov (United States)

    Cheval, Sorin; Birsan, Marius-Victor; Dumitrescu, Alexandru

    2014-07-01

    The Carpathian Mountains Region (CMR) lies over parts of the territories of seven Central and Southeastern European countries, and the mountain chain induces major changes in the temperate climate specific to the latitudes between 43° and 49°N. Different administrations govern the long-term meteorological networks; the infrastructure, collection protocols, and storage capacities are specific to each country, so that a comprehensive study on the climate of the area has met considerable difficulties along time. Climate of the Carpathian Region (CARPATCLIM) is a regional initiative developed between 2010 and 2013 aiming to enhance the climatic information in the area by providing comprehensive, temporally and spatially homogenous data sets of the main meteorological variables. Based on daily data aggregated to a monthly scale at 10-km resolution, this study exploits and promotes the results of the CARPATCLIM project, documenting the variability of the main climatic variables over 1961-2010. For each month, the significant increasing or decreasing trends were identified, mapped and placed in the context of previous studies and climate change perspectives. The study has revealed several patterns in the climatic variability, i.e., positive or negative trends prevailing over the entire area, very distinct delineation between various trends induced by the Carpathian Mountain chain, and pledges for further scientific approaches, i.e., causes of the variability and applications in other domains.

  17. ZnO hybrid photovoltaics with variable side-chain lengths of thienothiophene polymer

    International Nuclear Information System (INIS)

    The effect of the side-chain length of poly(3,6-dialkylthieno[3,2-b]thiophene-co-bithiophene) (pATBT) on the performance of hybrid polymer-metal oxide photovoltaics (PVs) utilizing zinc oxide (ZnO) acceptor is investigated. The pATBT attached with a dodecyl side chain (pATBT-C12) in hybrid photovoltaics with ZnO was compared to pATBT with a hexadecyl side chain (pATBT-C16). Atomic force microscopic analysis reveals a smoother surface for the pATBT-C16 photoactive layer compared to the pATBT-C12. For hybrid PVs using pATBT-C16, the relative intensity of the external quantum efficiency (EQE) increased particularly in wavelength region associated with the ZnO. Furthermore, the EQE spectrum shows a red shift for pATBT-C16 indicating better structural ordering compared to hybrid PVs with pATBT-C12. As a result, the hybrid PV utilizing pATBT-C16:ZnO blend layer is observed to display a better performance with a power conversion efficiency of 1.02% compared to 0.672% of pATBT-C12:ZnO PV. - Highlights: • The effect of polymer side-chain length on hybrid photovoltaics is investigated. • Longer side chains positively influence structural and optical properties of hybrid films. • Longer side-chain length leads to better photovoltaic performance

  18. Production of Single-Chain Variable-Fragments against Carbohydrate Antigens

    OpenAIRE

    Yoko Fujita-Yamaguchi

    2014-01-01

    The production of human single-chain variable-fragments (scFvs) against carbohydrate antigens by phage display technology is seemingly a logical strategy towards the development of antibody therapeutics, since carbohydrates are self-antigens. Panning and screening of phages displaying human scFvs using a variety of neoglycolipids presenting structurally-defined carbohydrates resulted in a number of candidate phage clones as judged by cautious evaluation of DNA sequences and specific binding t...

  19. Analysis of Users’ Web Navigation Behavior using GRPA with Variable Length Markov Chains

    Directory of Open Access Journals (Sweden)

    Bindu Madhuri. Ch

    2011-03-01

    Full Text Available With the never-ending growth of Web services and Web-based information systems, the volumes of click stream and user data collected by Web-based organizations in their daily operations has reached enormous proportions. Analyzing such huge data can help to evaluate the effectiveness of promotional campaigns, optimize the functionality of Web-based applications, and provide more personalized content to visitors. In the previous work, we had proposed a method, Grey Relational Pattern Analysis using Markov chains, which involves to discovering the meaningful patterns and relationships from a large collection of data, often stored in Web and applications server access logs, proxy logs etc. Herein, we propose a novel approach to analyse the navigational behavior of User using GRPA with Variable-Length Markov Chains. A VLMC is a model extension that allows variable length history to be captured. GRPA with VariableLength Markov Chains, which reflects on sequential information in Web usage data effectively and efficiently, and it can be extended to allow integration with a Web user navigation behavior prediction model for better Web Usage mining Applications.

  20. Applying Markov Chains for NDVI Time Series Forecasting of Latvian Regions

    Directory of Open Access Journals (Sweden)

    Stepchenko Arthur

    2015-12-01

    Full Text Available Time series of earth observation based estimates of vegetation inform about variations in vegetation at the scale of Latvia. A vegetation index is an indicator that describes the amount of chlorophyll (the green mass and shows the relative density and health of vegetation. NDVI index is an important variable for vegetation forecasting and management of various problems, such as climate change monitoring, energy usage monitoring, managing the consumption of natural resources, agricultural productivity monitoring, drought monitoring and forest fire detection. In this paper, we make a one-step-ahead prediction of 7-daily time series of NDVI index using Markov chains. The choice of a Markov chain is due to the fact that a Markov chain is a sequence of random variables where each variable is located in some state. And a Markov chain contains probabilities of moving from one state to other.

  1. SDI and Markov Chains for Regional Drought Characteristics

    Directory of Open Access Journals (Sweden)

    Chen-Feng Yeh

    2015-08-01

    Full Text Available In recent years, global climate change has altered precipitation patterns, causing uneven spatial and temporal distribution of precipitation that gradually induces precipitation polarization phenomena. Taiwan is located in the subtropical climate zone, with distinct wet and dry seasons, which makes the polarization phenomenon more obvious; this has also led to a large difference between river flows during the wet and dry seasons, which is significantly influenced by precipitation, resulting in hydrological drought. Therefore, to effectively address the growing issue of water shortages, it is necessary to explore and assess the drought characteristics of river systems. In this study, the drought characteristics of northern Taiwan were studied using the streamflow drought index (SDI and Markov chains. Analysis results showed that the year 2002 was a turning point for drought severity in both the Lanyang River and Yilan River basins; the severity of rain events in the Lanyang River basin increased after 2002, and the severity of drought events in the Yilan River basin exhibited a gradual upward trend. In the study of drought severity, analysis results from periods of three months (November to January and six months (November to April have shown significant drought characteristics. In addition, analysis of drought occurrence probabilities using the method of Markov chains has shown that the occurrence probabilities of drought events are higher in the Lanyang River basin than in the Yilan River basin; particularly for extreme events, the occurrence probability of an extreme drought event is 20.6% during the dry season (November to April in the Lanyang River basin, and 3.4% in the Yilan River basin. This study shows that for analysis of drought/wet occurrence probabilities, the results obtained for the drought frequency and occurrence probability using short-term data with the method of Markov chains can be used to predict the long-term occurrence

  2. Business systems, value chains and inclusive regional development in South-East Asia

    NARCIS (Netherlands)

    E. Andriesse; N. Beerepoot; B. van Helvoirt; G. van Westen

    2011-01-01

    Regional economic development is played out in a network of relations along value chains and within a territorial setting. Chain insertion favours growth but also exclusion or inclusion on adverse terms. This may happen at different levels of scale, especially when a nation-state has not produced a

  3. Climatic variability on local/regional scale in India

    International Nuclear Information System (INIS)

    In this paper local/regional climatic variability was studied to work out any significant trend in the meteorological sub-division comprising the states of Haryana, Delhi and Chandigarh in Northwest India. The monthly rainfall and air temperature data of recent 30 years (1970-99) at different locations in the region were used for the study. The annual mean rainfall in the sub-division ranged between 422.8 mm at Sirsa and 1132.6 mm at Chandigarh. All locations except Delhi received more rainfall in monsoon season during the decade (1990-99) showing general increasing trend in the rainfall behavior in recent times. All the locations in the entire sub-division exhibited overall increasing trend in monsoon rainfall over the period under study, Hisar, Bhiwani, Kamal and Ambala observed decreasing trend in annual mean air temperature at 0.02 deg C/annum and the remaining other locations observed increasing trend at 0.01 to 0.03 deg C/annum in annual mean air temperature. Spatial and temporal rainfall variability observed was quite high in the entire region. Thus, in the event of uncertainties in regional climatic variability, the information on the minimum assured and maximum possible monthly and monsoon season rainfall for each location will be useful for water harvesting/hydrological projects and planning of agricultural operations for maintaining the sustainable agricultural development in the region. (author)

  4. Porous silicon biosensor for detection of variable domain of heavy-chain of HCAb antibody

    Institute of Scientific and Technical Information of China (English)

    ZHANG Hong-yan; Lü Xiao-yi; JIA Zhen-hong; LI Jiang-wei; ZHANG Fu-chun

    2012-01-01

    In this paper,we produce porous silicon (PSi) by electrochemical etching,and it is the first time to evaluate the performance of label-free porous silicon biosensor for detection of variable domain of heavy chain of heavy-chain antibody (VHH).The binding of hen egg white lysozyme (HEWL) and VHH causes a red shift in the reflection spectrum of the biosensor.The red shift is proportional to the VHH concentration in the range from 14 μg · ml-1 to 30μg·ml-1 with a detection limit of 0.648 ng ·ml-1.The research is useful for the development of label-free biosensor applied in the rapid and sensitive determination of small molecules.

  5. ZnO hybrid photovoltaics with variable side-chain lengths of thienothiophene polymer

    Energy Technology Data Exchange (ETDEWEB)

    Han, SeungJin [Advanced Technology Institute, Department of Electronic Engineering, University of Surrey, Guildford GU2 7XH (United Kingdom); Fei, Zhuping [Department of Chemistry and Centre for Plastic Electronics, Imperial College London, South Kensington SW7 2AZ (United Kingdom); Jayawardena, K.D.G.I.; Beliatis, Michail J. [Advanced Technology Institute, Department of Electronic Engineering, University of Surrey, Guildford GU2 7XH (United Kingdom); Hahn, Yoon-Bong [School of Chemical Engineering, Chonbuk National University, Jeon-ju, Jeonbuk 561-756 (Korea, Republic of); Adikaari, A.A.D.T. [Advanced Technology Institute, Department of Electronic Engineering, University of Surrey, Guildford GU2 7XH (United Kingdom); Heeney, Martin J. [Department of Chemistry and Centre for Plastic Electronics, Imperial College London, South Kensington SW7 2AZ (United Kingdom); Silva, S. Ravi P., E-mail: s.silva@surrey.ac.uk [Advanced Technology Institute, Department of Electronic Engineering, University of Surrey, Guildford GU2 7XH (United Kingdom)

    2015-02-02

    The effect of the side-chain length of poly(3,6-dialkylthieno[3,2-b]thiophene-co-bithiophene) (pATBT) on the performance of hybrid polymer-metal oxide photovoltaics (PVs) utilizing zinc oxide (ZnO) acceptor is investigated. The pATBT attached with a dodecyl side chain (pATBT-C{sub 12}) in hybrid photovoltaics with ZnO was compared to pATBT with a hexadecyl side chain (pATBT-C{sub 16}). Atomic force microscopic analysis reveals a smoother surface for the pATBT-C{sub 16} photoactive layer compared to the pATBT-C{sub 12}. For hybrid PVs using pATBT-C{sub 16}, the relative intensity of the external quantum efficiency (EQE) increased particularly in wavelength region associated with the ZnO. Furthermore, the EQE spectrum shows a red shift for pATBT-C{sub 16} indicating better structural ordering compared to hybrid PVs with pATBT-C{sub 12}. As a result, the hybrid PV utilizing pATBT-C{sub 16}:ZnO blend layer is observed to display a better performance with a power conversion efficiency of 1.02% compared to 0.672% of pATBT-C{sub 12}:ZnO PV. - Highlights: • The effect of polymer side-chain length on hybrid photovoltaics is investigated. • Longer side chains positively influence structural and optical properties of hybrid films. • Longer side-chain length leads to better photovoltaic performance.

  6. Basic Variables of Economic and Social Development in Balkan Region (Regional Development -Industrialisation-Humanpower

    Directory of Open Access Journals (Sweden)

    Fazil Yozgat

    2014-10-01

    Full Text Available In this study, three subjects had been investigated. Firstly history of industry Balkan region, secondly basic variables economic and social development, thirdly relation to variables. Industry is basic element of development. In addition to in this paper theoretical and literal concept has been investigated. In this study is aimed at presenting the most important new trends of economic, social, political and institutional development of Balkan region with relation to four major factors shaping the regions countries. Industrial Revolution in Europe and made major investments in the first half of the 19th century particularly central Europe and Balkan region. Balkan regions represent complex and diverse reality. These regions are from Old Continent to Central Europe, South East Europe and Mediterranean. From Adriatic to Black Sea and Mediterranean also. In these regions there are some different economic, social and political events. I.e. Croatia moves to final round member of European Union some countries face to particular problems of political subjects.I offer framework analysis of the regional country by country based on the existing set of criteria, which are variables of social and economic development. Those variables are including (cluster industry, expenditure R&D od GDP, variations of capitals, population and market, some trade block which are impact of economic and social developmentProposed key pillars to support sustainable competitiveness in the Western Balkans. Sustaining competitiveness =Human capital development==Regional Cluster==SectorPolicy reforms.(OECD,2008Key words. Balkan region, Social development, Globalisation, Sustainable development

  7. Development of single-chain variable fragments (scFv) against influenza virus targeting hemagglutinin subunit 2 (HA2).

    Science.gov (United States)

    Li, Tai-Wei; Cheng, Shu-Fang; Tseng, Yen-Tzu; Yang, Yu-Chih; Liu, Wen-Chun; Wang, Sheng-Cyuan; Chou, Mei-Ju; Lin, Yu-Jen; Wang, Yueh; Hsiao, Pei-Wen; Wu, Suh-Chin; Chang, Ding-Kwo

    2016-01-01

    Influenza A viruses (IAV) are widespread in birds and domestic poultry, occasionally causing severe epidemics in humans and posing health threats. Hence, the need to develop a strategy for prophylaxis or therapy, such as a broadly neutralizing antibody against IAV, is urgent. In this study, single-chain variable fragment (scFv) phage display technology was used to select scFv fragments recognizing influenza envelope proteins. The Tomlinson I and J scFv phage display libraries were screened against the recombinant HA2 protein (rHA2) for three rounds. Only the third-round elution sample of the Tomlinson J library showed high binding affinity to rHA2, from which three clones (3JA18, 3JA62, and 3JA78) were chosen for preparative-scale production as soluble antibody by E. coli. The clone 3JA18 was selected for further tests due to its broad affinity for influenza H1N1, H3N2 and H5N1. Simulations of the scFv 3JA18-HA trimer complex revealed that the complementarity-determining region of the variable heavy chain (VH-CDR2) bound the stem region of HA. Neutralization assays using a peptide derived from VH-CDR2 also supported the simulation model. Both the selected antibody and its derived peptide were shown to suppress infection with H5N1 and H1N1 viruses, but not H3N2 viruses. The results also suggested that the scFvs selected from rHA2 could have neutralizing activity by interfering with the function of the HA stem region during virus entry into target cells. PMID:26446888

  8. Cloning approach and functional analysis of anti-intimin single-chain variable fragment (scFv

    Directory of Open Access Journals (Sweden)

    Elias Waldir P

    2011-02-01

    Full Text Available Abstract Background Intimin is an important virulence factor involved in the pathogenesis of enteropathogenic Escherichia coli (EPEC and enterohemorrhagic Escherichia coli (EHEC. Both pathogens are still important causes of diarrhea in children and adults in many developing and industrialized countries. Considering the fact that antibodies are important tools in the detection of various pathogens, an anti-intimin IgG2b monoclonal antibody was previously raised in immunized mice with the conserved sequence of the intimin molecule (int388-667. In immunoblotting assays, this monoclonal antibody showed excellent specificity. Despite good performance, the monoclonal antibody failed to detect some EPEC and EHEC isolates harboring variant amino acids within the 338-667 regions of intimin molecules. Consequently, motivated by its use for diagnosis purposes, in this study we aimed to the cloning and expression of the single-chain variable fragment from this monoclonal antibody (scFv. Findings Anti-intimin hybridoma mRNA was extracted and reversely transcripted to cDNA, and the light and heavy chains of the variable fragment of the antibody were amplified using commercial primers. The amplified chains were cloned into pGEM-T Easy vector. Specific primers were designed and used in an amplification and chain linkage strategy, obtaining the scFv, which in turn was cloned into pAE vector. E. coli BL21(DE3pLys strain was transformed with pAE scFv-intimin plasmid and subjected to induction of protein expression. Anti-intimin scFv, expressed as inclusion bodies (insoluble fraction, was denatured, purified and submitted to refolding. The protein yield was 1 mg protein per 100 mL of bacterial culture. To test the functionality of the scFv, ELISA and immunofluorescence assays were performed, showing that 275 ng of scFv reacted with 2 mg of purified intimin, resulting in an absorbance of 0.75 at 492 nm. The immunofluorescence assay showed a strong reactivity with

  9. Climate variability and change: a perspective from the oceania region

    Science.gov (United States)

    Beer, Tom

    2014-12-01

    This brief review identifies seven key science questions in relation to climate variability and change and examines recent research within the Australian and Pacific context: 1. How do the key processes controlling climate variability and predictability operate? 2. What are the nature and causes of regional climate anomalies, past variations in regional climate and extreme weather events and how will they change in the future? 3. How can we provide improved seasonal-to-interannual climate predictions? 4. What are the best projection methods? 5. What are the sea-level changes now and in the future; and how will these impact the coasts? 6. How to have significant benefits on climate service delivery and environmental management? 7. What are the best methods for assessing climate change risks, vulnerability and adaptation options?

  10. POTENTIAL IMPACTS OF CLIMATIC VARIABILITY ON INDIAN HIMALAYAN REGION

    OpenAIRE

    Kavita Tariyal; Dhanesh Mohan Bartwal

    2014-01-01

    The Himalayan region represents enormous variability of climates, hydrological and ecological systems, plus a diversity of cultures and communities. It is an essentiality to the ecological security of the Indian landmass, through providing forest cover, feeding recurrent rivers that are the source of potable water, irrigation, and hydropower, conserving biodiversity, providing a rich foundation for high value agriculture, and spectacular landscapes for sustainable tourism. Increasing concentr...

  11. Form factors and complete spectrum of XXX antiperiodic higher spin chains by quantum separation of variables

    CERN Document Server

    Niccoli, G

    2013-01-01

    The antiperiodic transfer matrix associated to higher spin representations of the rational 6-vertex Yang-Baxter algebra is analyzed by generalizing the approach introduced recently in [1], for the cyclic representations, in [2], for the spin-1/2 highest weight (h.w.) representations, and in [3], for the spin 1/2 h.w. representations of the reflection algebra. Here, we derive the complete characterization of the transfer matrix spectrum and we prove its simplicity in the framework of Sklyanin's quantum separation of variables (SOV). Then, the characterization of local operators by Sklyanin's quantum separate variables and the expression of the scalar products of separates states by determinant formulae allow to compute the form factors of the local spin operators by one determinant formulae similar to the scalar product ones. Finally, let us comment that these results represent the SOV analogous in the antiperiodic higher spin XXX quantum chains of the results obtained for the periodic chains in [4] in the fra...

  12. Mid-Holocene regional reorganization of climate variability

    Directory of Open Access Journals (Sweden)

    K. W. Wirtz

    2009-01-01

    Full Text Available We integrate 130 globally distributed proxy time series to refine the understanding of climate variability during the Holocene. Cyclic anomalies and temporal trends in periodicity from the Lower to the Upper Holocene are extracted by combining Lomb-Scargle Fourier-transformed spectra with bootstrapping. Results were cross-checked by counting events in the time series. Main outcomes are: First, the propensity of the climate system to fluctuations is a region specific property. Many records of adjacent sites reveal a similar change in variability although they belong to different proxy types (e.g., δ18O, lithic composition. Secondly, at most sites, irreversible change occured in the Mid-Holocene. We suggest that altered ocean circulation together with slightly modified coupling intensity between regional climate subsystems around the 5.5 kyr BP event (termination of the African Humid Period were responsible for the shift. Fluctuations especially intensified along a pan-American corridor. This may have led to an unequal crisis probability for early human civilizations in the Old and New World. Our study did not produce evidence for millennial scale cyclicity in some solar activity proxies for the Upper Holocene, nor for a privileged role of the prominent 250, 550, 900 and 1450 yr cycles. This lack of global periodicities corroborates the regional character of climate variability.

  13. Development of single chain variable fragment (scFv) antibodies against Xylella fastidiosa subsp. pauca by phage display.

    Science.gov (United States)

    Yuan, Qing; Jordan, Ramon; Brlansky, Ronald H; Istomina, Olga; Hartung, John

    2015-10-01

    Xylella fastidiosa is a member of the gamma proteobacteria. It is fastidious, insect-vectored and xylem-limited and causes a variety of diseases, some severe, on a wide range of economically important perennial crops, including grape and citrus. Antibody based detection assays are commercially available for X. fastidiosa, and are effective at the species, but not at the subspecies level. We have made a library of scFv antibody fragments directed against X. fastidiosa subsp. pauca strain 9a5c (citrus) by using phage display technology. Antibody gene repertoires were PCR-amplified using 23 primers for the heavy chain variable region (V(H)) and 21 primers for the light chain variable region (V(L)). The V(H) and V(L) were joined by overlap extension PCR, and then the genes of the scFv library were ligated into the phage vector pKM19. The library contained 1.2×10(7) independent clones with full-length scFv inserts. In each of 3cycles of affinity-selection with 9a5c, about 1.0×10(12) phage were used for panning with 4.1×10(6), 7.1×10(6), 2.1×10(7) phage recovered after the first, second and third cycles, respectively. Sixty-six percent of clones from the final library bound X. fastidiosa 9a5c in an ELISA. Some of these scFv antibodies recognized strain 9a5c and did not recognize X. fastidiosa strains that cause Pierce's disease of grapevine. PMID:26232710

  14. An efficient method for variable region assembly in the construction of scFv phage display libraries using independent strand amplification

    OpenAIRE

    Sotelo, Pablo H.; Collazo, Noberto; Zuñiga, Roberto; Gutiérrez-González, Matías; Catalán, Diego; Ribeiro, Carolina Hager; Aguillón, Juan Carlos; MOLINA, MARÍA CARMEN

    2012-01-01

    Phage display library technology is a common method to produce human antibodies. In this technique, the immunoglobulin variable regions are displayed in a bacteriophage in a way that each filamentous virus displays the product of a single antibody gene on its surface. From the collection of different phages, it is possible to isolate the virus that recognizes specific targets. The most common form in which to display antibody variable regions in the phage is the single chain variable fragment...

  15. Regional crustal thickness and precipitation in young mountain chains.

    Science.gov (United States)

    Ernst, W G

    2004-10-19

    Crustal thickness is related to climate through precipitation-induced erosion. Along the Andes, the highest mountains and thickest crust (approximately 70 km) occur at 25 degrees south, a region of low precipitation. Westerly winds warm passing over the Atacama Desert; precipitation is modest in the High Andes and eastward over the Altiplano. Severe aridity, hence low erosion rates, helps to account for the elevated volcanogenic contractional arc and high, internally draining plateau in its rain shadow. Weak erosion along the north-central arc provides scant amounts of sediment to the Chile-Peru Trench, starving the subduction channel. Subcrustal removal might be expected to reduce the crustal thickness, but is not a factor at 25 degrees south. The thickness of the gravitationally compensated continental crust cannot reflect underplating and/or partial fusion of sediments, but must be caused chiefly by volcanism-plutonism and contraction. Contrasting climate typifies the terrain at 45 degrees south where moisture-laden westerly winds encounter a cool margin, bringing abundant precipitation. The alpine landscape is of lower average elevation compared with the north-central Andes and is supported by thinner continental crust (approximately 35 km). Intense erosion supplies voluminous clastic debris to the offshore trench, and vast quantities are subducted. However, the southern Andean crust is only about half as thick as that at 25 degrees south, suggesting that erosion, not subcrustal sediment accretion or anatexis, is partly responsible for the thickness of the mountain belt. The Himalayas plus Tibetan Plateau, the Sierra Nevada plus Colorado Plateau, and the Japanese Islands exhibit analogous relationships between crustal thickness and climate. PMID:15471988

  16. North Karelia regional chain of care: Finnish experiences.

    Science.gov (United States)

    Itkonen, Pentti

    2004-01-01

    Information--and communication technology is one of the most important cornerstones in more and more data and knowledge intensive health care sector. However these factors don't create financial gains and productivity benefits spontaneously. They need organisational and social innovations and new business models. The growth of productivity is connected to the process and organisational innovations and not to the number of computers and the growth of using ICT. One of the problems prohibiting health care profession to move to real e-work environment is the lack of the reliable measures and on these measures based performance measurement and strategic management. Health care can be improved by utilizing ICT and tools like performance measuring are key weapons in the arsenal of new e-work environment and measuring based new strategic management. Neither public sector nor not-for-profit hospitals look for financial rewards as their ultimate proof of success. Instead, they seek to achieve ambitious missions aimed at improving the health standards and wellbeing of the citizens. ICT- based new way of managing in the public sector is just beginning to gain a critical level of digitalization and will most likely come to its own in the coming years. Therefore, it is essential to research on how the health care sector can be moved towards new regional models and clinical workflow using intelligent standard based strategic management and performance measurement. If the breakthrough of the eight-hour working day and shortening of working time are evaluated afterwards, it can be stated that they have made the society more anthropocentric and humane. During one century the annual working time has shortened from 3000 hours to 1700 hours in the European Union countries. These foundations of a more humane society--eight-hour working day and shortening of regular working time--are however disappearing in the post-industrialized information society. There are various grounds for the

  17. Ancestry inference in complex admixtures via variable-length Markov chain linkage models.

    Science.gov (United States)

    Rodriguez, Jesse M; Bercovici, Sivan; Elmore, Megan; Batzoglou, Serafim

    2013-03-01

    Inferring the ancestral origin of chromosomal segments in admixed individuals is key for genetic applications, ranging from analyzing population demographics and history, to mapping disease genes. Previous methods addressed ancestry inference by using either weak models of linkage disequilibrium, or large models that make explicit use of ancestral haplotypes. In this paper we introduce ALLOY, an efficient method that incorporates generalized, but highly expressive, linkage disequilibrium models. ALLOY applies a factorial hidden Markov model to capture the parallel process producing the maternal and paternal admixed haplotypes, and models the background linkage disequilibrium in the ancestral populations via an inhomogeneous variable-length Markov chain. We test ALLOY in a broad range of scenarios ranging from recent to ancient admixtures with up to four ancestral populations. We show that ALLOY outperforms the previous state of the art, and is robust to uncertainties in model parameters. PMID:23421795

  18. Fusion protein of single-chain variable domain fragments for treatment of myasthenia gravis

    Institute of Scientific and Technical Information of China (English)

    Fangfang Li; Fanping Meng; Quanxin Jin; Changyuan Sun; Yingxin Li; Honghua Li; Songzhu Jin

    2014-01-01

    Single-chain variable domain fragment (scFv) 637 is an antigen-specific scFv of myasthenia gravis. In this study, scFv and human serum albumin genes were conjugated and the fusion pro-tein was expressed in Pichia pastoris. The afifnity of scFv-human serum albumin fusion protein to bind to acetylcholine receptor at the neuromuscular junction of human intercostal muscles was detected by immunolfuorescence staining. The ability of the fusion protein to block myas-thenia gravis patient sera binding to acetylcholine receptors and its stability in healthy serum were measured by competitive ELISA. The results showed that the inhibition rate was 2.0-77.4%, and the stability of fusion protein in static healthy sera was about 3 days. This approach suggests the scFv-human serum albumin is a potential candidate for speciifc immunosuppressive therapy of myasthenia gravis.

  19. Using Intensive Variables to Constrain Magma Source Regions

    Science.gov (United States)

    Edwards, B. R.; Russell, J. K.

    2006-05-01

    In the modern world of petrology, magma source region characterization is commonly the realm of trace element and isotopic geochemistry. However, major element analyses of rocks representing magmatic compositions can also be used to constrain source region charactertistics, which enhance the results of isotopic and trace element studies. We show examples from the northern Cordilleran volcanic province (NCVP), in the Canadian Cordillera, where estimations of thermodynamic intensive variables are used to resolve different source regions for mafic alkaline magmas. We have taken a non-traditional approach to using the compositions of three groups of mafic, alkaline rocks to characterize the source regions of magmas erupted in the NCVP. Based on measured Fe2O3 and FeO in rocks from different locations, the Atlin volcanic district (AVD), the Fort Selkirk volcanic complex (FSVC), the West Tuya volcanic field, (WTVF), we have estimated oxygen fugacities (fO2) for the source regions of magmas based on the model of Kress and Carmichael (1991) and the computational package MELTS/pMelts (Ghiorso and Sack, 1995; Ghiorso et al., 2002). We also have used Melts/pMelts to estimate liquidus conditions for the compositions represented by the samples as well as activities of major element components. The results of our calculations are useful for distinguishing between three presumably different magma series: alkaline basalts, basanites, and nephelinites (Francis and Ludden, 1990; 1995). Calculated intensive variables (fO2, activities SiO2, KAlSiO4, Na2SiO3) show clear separation of the samples into two groups: i) nephelinites and ii) basanites/alkaline basalts. The separation is especially evident on plots of log fO2 versus activity SiO2. The source region for nephelinitic magmas in the AVD is up to 2 log units more oxidized than that for the basanites/basalts as well as having a distinctly lower range of activities of SiO2. Accepting that our assumptions about the magmas

  20. SST Diurnal Variability: Regional Extent & Implications in Atmospheric Modelling

    DEFF Research Database (Denmark)

    Karagali, Ioanna; Høyer, Jacob L.

    2013-01-01

    General Ocean Turbulence Model (GOTM). The activities within this task include sensitivity tests on the GOTM set-up, comparison of GOTM, SEVIRI and buoys in point locations and a focus in the North Sea/Baltic Sea with comparisons of GOTM, SEVIRI and 3 diurnal variability schemes. The impact of the diurnal...... regional diurnal warming over the SEVIRI disk, a SEVIRI derived reference field representative of the well mixed night-time conditions is required. Different methodologies are tested and the results are validated against SEVIRI pre-dawn SSTs and in situ data from moored and drifting buoys....

  1. Variability in dose estimates associated with the food-chain transport and ingestion of selected radionuclides

    International Nuclear Information System (INIS)

    Dose predictions for the ingestion of 90Sr and 137Cs, using aquatic and terrestrial food chain transport models similar to those in the Nuclear Regulatory Commission's Regulatory Guide 1.109, are evaluated through estimating the variability of model parameters and determining the effect of this variability on model output. The variability in the predicted dose equivalent is determined using analytical and numerical procedures. In addition, a detailed discussion is included on 90Sr dosimetry. The overall estimates of uncertainty are most relevant to conditions where site-specific data is unavailable and when model structure and parameter estimates are unbiased. Based on the comparisons performed in this report, it is concluded that the use of the generic default parameters in Regulatory Guide 1.109 will usually produce conservative dose estimates that exceed the 90th percentile of the predicted distribution of dose equivalents. An exception is the meat pathway for 137Cs, in which use of generic default values results in a dose estimate at the 24th percentile. Among the terrestrial pathways of exposure, the non-leafy vegetable pathway is the most important for 90Sr. For 90Sr, the parameters for soil retention, soil-to-plant transfer, and internal dosimetry contribute most significantly to the variability in the predicted dose for the combined exposure to all terrestrial pathways. For 137Cs, the meat transfer coefficient the mass interception factor for pasture forage, and the ingestion dose factor are the most important parameters. The freshwater finfish bioaccumulation factor is the most important parameter for the dose prediction of 90Sr and 137Cs transported over the water-fish-man pathway

  2. 寻常性银屑病患者外周血T细胞受体β可变区优势表达分析%Preferential expressions of peripheral blood T cell receptor beta chain variable region subfamilies in patients with psoriasis vulgaris

    Institute of Scientific and Technical Information of China (English)

    崔红宙; 侯瑞霞; 李俊琴; 尹国华; 张静; 李新华; 张开明

    2011-01-01

    Objective To assess the preferential expressions of peripheral blood T cell receptor beta chain variable region (TRBV) subfamilies in patients with psoriasis vulgaris(PV), and to estimate their role in the pathogenesis of psoriasis. Methods Thirty-three upstream primers were designed to target the human functional TRBV genes, downstream primers to target the common T cell receptor beta constant (TRBC) gene,with T cell receptor alpha constant (TRAC) gene as the internal reference. Total RNA was extracted from the peripheral blood T cells of 10 health human controls and 10 patients with PV, and transcribed into cDNA.Then, TRBV genes were amplified by real-time fluorescence quantitative PCR (RFQ-PCR) and the fluorescence intensity of each samples was detected. The expression levels of TRBV genes in the control group were used to calculate the cut-off values (mean expression levels of TRBV subfamilies in the 10 normal controls + 3 standard deviations). When the expression level of a TRBV subfamily from patients with PV was equal to or higher than the cut-off value, it was considered as the preferentially expressed TRBV subfamily. Results The threshold cycle (Ct) value varied from 21 to 24 for TRAC gene. The difference in the Ct value between TRBV subfamily genes and TRAC gene in patients with PV was 2.98 for TRBV2 gene, 3.24 for TRBV5-7 gene, 2.52 for TRBV6-6/6-9 gene, 2.04 for TRBV 12 gene, 3.56 for TRBV 24 gene, and 4.12 for TRBV 29 gene, and the expression levels of these subfamily genes were significantly higher than those in the normal controls (all P < 0.05). According to the above standard, TRBV6-6/6-9, TRBV12 and TRBV29 were considered to be preferentially expressed subfamilies. Conclusions There is a preferential expression of TRBV gene subfamilies in peripheral blood of patients with psoriasis vulgaris, which may play a vital role in the abnormal T cell-mediated immune responses in psoriasis.%目的 分析寻常性银屑病患者外周血中T细胞受体β

  3. Statistical study of atmospheric gravity waves in the mesopause region observed by a lidar chain in eastern China

    Science.gov (United States)

    Gong, Shaohua; Yang, Guotao; Dou, Xiankang; Xu, Jiyao; Chen, Chunxia; Gong, Shunsheng

    2015-08-01

    Atmospheric gravity wave activities in the mesopause region have been observed and statistically investigated with a sodium lidar chain in eastern China. In total, there were 471 gravity waves identified from over 5400 h of observations at Hainan (19.99°N, 110.34°E), Hefei (31.87°N, 117.23°E), and Beijing (40.47°N, 115.97°E). These waves typically had vertical wavelengths of λz = 2 - 4 km, observed periods of Tob = 1 - 4 h, amplitude growth factors of β = - 0.025 ~ + 0.05 km-1, and wave amplitudes of Aeβ * 90km = 1.5 - 6 %. Strong systematic parameter relationships were found, and they agree with the predictions of diffusive filtering theory. Statistical results show that the seasonal variability of gravity wave activity had a summer-maximum and winter-minimum characteristics in the mesopause region over eastern China. A qualitative interpretation is proposed regarding the seasonal and geographic variability observed by the lidar chain, based on analysis of source properties and influences from background wind, which vary by season.

  4. Caracterización de la región variable de integrones clase 1 presentes en cepas nosocomiales de Klebsiella pneumoniae Characterization of the variable region within class 1 integrons in Klebsiella pneumoniae nosocomials strains

    OpenAIRE

    MILITZA GUZMÁN; GUILLERMINA ALONSO

    2010-01-01

    Background: Integrons are responsible for the capture and dissemination of resistance genes in Gram-negative bacteria. Aim: To characterize the variable region within class 1 integrons in nosocomial strains of Klebsiella pneumoniae. Material and Methods: Twenty-nine Klebsiella pneumoniae strains isolated from hospitalized patients were analyzed. The variable region of class 1 integrons was characterized by polymerase chain reaction and direct sequencing. Genetic localization of class 1 integr...

  5. An Analysis of Some Moderating Variables on the Value, Brand Trust and Brand Loyalty Chain

    Directory of Open Access Journals (Sweden)

    Kambiz Heidarzadeh Hanzaee

    2012-05-01

    Full Text Available The objective in this study was to investigate the moderating effect of some variables on the value, brand trust, and brand loyalty chain. These moderating variables are customer characteristics (Age, Gender, Involvement, Price consciousness, Brand consciousness. More specifically, we investigate both the link between hedonic and utilitarian values of a product and brand trust and the link between brand trust and attitudinal and purchase loyalty and the impact of selected customer characteristics on these relationships in the context of four product groups (mobile phones, sunglasses, running shoes, and notebooks that can be characterized as consumer durables with high brand relevance. In a basic research model after reviewing the literature on brand trust, hedonic and utilitarian value as selected contributors to brand trust and brand loyalty as an important outcome of trust, we measured the effects of product value-brand loyalty on brand trust. Then in the second phase we analyzed the moderator effects. The proposed relationships have been tested using Structural Equation Modeling (SEM via lisrel. We first report the main effect model and then present the impact of moderators.

  6. Investigation of adolescent accident predictive variables in hilly regions.

    Science.gov (United States)

    Mohanty, Malaya; Gupta, Ankit

    2016-09-01

    The study aims to determine the significant personal and environmental factors in predicting the adolescent accidents in the hilly regions taking into account two cities Hamirpur and Dharamshala, which lie at an average elevation of 700--1000 metres above the mean sea level (MSL). Detailed comparisons between the results of 2 cities are also studied. The results are analyzed to provide the list of most significant factors responsible for adolescent accidents. Data were collected from different schools and colleges of the city with the help of a questionnaire survey. Around 690 responses from Hamirpur and 460 responses from Dharamshala were taken for study and analysis. Standard deviations (SD) of various factors affecting accidents were calculated and factors with relatively very low SD were discarded and other variables were considered for correlations. Correlation was developed using Kendall's-tau and chi-square tests and factors those were found significant were used for modelling. They were - the victim's age, the character of road, the speed of vehicle, and the use of helmet for Hamirpur and for Dharamshala, the kind of vehicle involved was an added variable found responsible for adolescent accidents. A logistic regression was performed to know the effect of each category present in a variable on the occurrence of accidents. Though the age and the speed of vehicle were considered to be important factors for accident occurrence according to Indian accident data records, even the use of helmet comes out as a major concern. The age group of 15-18 and 18-21 years were found to be more susceptible to accidents than the higher age groups. Due to the presence of hilly area, the character of road becomes a major concern for cause of accidents and the topography of the area makes the kind of vehicle involved as a major variable for determining the severity of accidents. PMID:26077876

  7. A precipitation-based regionalization for Western Iran and regional drought variability

    Directory of Open Access Journals (Sweden)

    T. Raziei

    2008-12-01

    Full Text Available The spatial distribution of the seasonal and annual precipitation was analyzed in western Iran using data from 140 stations covering the period 1965–2000. Applying the Precipitation Concentration Index (PCI, the intra-annual precipitation variability was also studied. Furthermore, nine precipitation-derived parameters were used to regionalize climate in western Iran using principal component analysis and clustering techniques. Results suggest that five spatially homogenous sub-regions can be identified characterized by different precipitation regimes. The spatial pattern of seasonal precipitation seems to be highly controlled by the wide latitudinal extent of the region and by the pronounced orographic relieves, and the time of occurrence of the maximum precipitation varies from spring in the north to winter in the south.

    The time variability of dry and wet periods in the identified sub-regions was analyzed using the Precipitation Index (PI and the existence of any long-term trend was tested. Results show that the northern and southern regions of western Iran are characterized by different climatic variability. Furthermore, a negative long-term linear trend in the north and a weak positive trend in the south of the study area have been detected though they are not statistically significant.

  8. The global monsoon across timescales: coherent variability of regional monsoons

    Science.gov (United States)

    Wang, P. X.; Wang, B.; Cheng, H.; Fasullo, J.; Guo, Z. T.; Kiefer, T.; Liu, Z. Y.

    2014-11-01

    Monsoon has earned increasing attention from the climate community since the last century, yet only recently have regional monsoons been recognized as a global system. It remains a debated issue, however, as to what extent and at which timescales the global monsoon can be viewed as a major mode of climate variability. For this purpose, a PAGES (Past Global Changes) working group (WG) was set up to investigate the concept of the global monsoon and its future research directions. The WG's synthesis is presented here. On the basis of observation and proxy data, the WG found that the regional monsoons can vary coherently, although not perfectly, at various timescales, varying between interannual, interdecadal, centennial, millennial, orbital and tectonic timescales, conforming to the global monsoon concept across timescales. Within the global monsoon system, each subsystem has its own features, depending on its geographic and topographic conditions. Discrimination between global and regional components in the monsoon system is a key to revealing the driving factors in monsoon variations; hence, the global monsoon concept helps to enhance our understanding and to improve future projections of the regional monsoons. This paper starts with a historical review of the global monsoon concept in both modern and paleo-climatology, and an assessment of monsoon proxies used in regional and global scales. The main body of the paper is devoted to a summary of observation data at various timescales, providing evidence of the coherent global monsoon system. The paper concludes with a projection of future monsoon shifts in a warming world. The synthesis will be followed by a companion paper addressing driving mechanisms and outstanding issues in global monsoon studies.

  9. Preparation of single chain variable fragment of MG7 mAb by phage display technology

    Institute of Scientific and Technical Information of China (English)

    Zhao-Cai Yu; Jie Ding; Yong-Zhan Nie; Dai-Ming Fan; Xue-Yong Zhang

    2001-01-01

    AIM To develop the single chain variable fragment of MG7 murine anti-human gastric cancer monoclonal antibody using the phage display technology for obtaining a tumor-targeting mediator. METHODS mRNA was isolated from MG7-producing murine hybridoma cell line and converted into cDNA. The variable fragments of heavy and light chain were amplified separately and assembled into ScFv with a specially constructed DNA linker by PCR. The ScFvs DNA was ligated into the phagmid vector pCANTAB5E and the ligated sample was transformed into competent E. Coli TG1. The transformed cells were infected with M13K07 helper phage to form MG7 recombinant phage antibody library. The volume and recombinant rate of the library were evaluated by means of bacterial colony count and restriction analysis. After two rounds of panning with gastric cancer cell line KATOⅢ of highly expressing MG7binding antigen, the phage clones displaying ScFv of the antibody were selected by ELISA from the enriched phage clones. The antigen-binding affinity of the positive clone was detected by competition ELISA. HB2151 E. Coli was transfected with the positive phage clone demonstrated by competition ELISA for production of a soluble form of the MG7 ScFv. ELISA assay was used to detect the antigenbinding affinity of the soluble MG7 ScFv. Finally, the relative molecular mass of soluble MG7 ScFv was measured by SDS-PAGE. RESULTS The VH, VL and ScFv DNAs were about 340bp,320bp and 750bp, respectively. The volume of the library was up to 2 × 106 and 8 of 11 random clones were recombinants. Two phage clones could strongly compete with the original MG7 antibody for binding to the antigen expressed on KATO Ⅲ cells. Within 2 strong positive phage clones, the soluble MG7 ScFv from one clone was found to have the binding activity with KATO Ⅲ cells.SDS-PAGE showed that the relative molecular weight of soluble MG7 ScFv was 32. CONCLUSION The MG7 ScFv was successfully produced by phage antibody technology, which may

  10. Regional Patterns of Baseflow Variability in Mexican Subwatersheds

    Directory of Open Access Journals (Sweden)

    Víctor Salas-Aguilar

    2016-03-01

    Full Text Available One of the challenges faced by subwatershed hydrology is the discovery of patterns associated with climate and landscape variability with the available data. This study has three objectives: (1 to evaluate the annual recession curves; (2 to relate the recession parameter (RP with physiographic characteristics of 21 Mexican subwatersheds in different climate regions; and (3 to formulate a Baseflow (BF model based on a top-down approach. The RP was calibrated utilizing the largest magnitude curves. The RP was related to topographical, climate and soil variables. A non-linear model was employed to separate the baseflow which considers RP as a recharge rate. Our results show that RP increases with longitude and decreases with latitude. RP displayed a sustained non-linear behavior determined by precipitation rate and evapotranspiration replace the P/E parts with \\(\\frac{P}{E}\\ over years and subwatersheds. The model was fit to a parameter concurrent with invariance and space-time symmetry conditions. The dispersion of our model was associated with the product of replace the P/E parts with \\(\\frac{P}{E}\\ by the aquifer’s transmissivity. We put forward a generalized baseflow model, which made the discrimination of baseflow from direct flow in subwatersheds possible. The proposed model involves the recharge-storage-discharge relation and could be implemented in basins where there are no suitable ground-based data.

  11. Leading chiral three-nucleon forces along isotope chains in the calcium region

    CERN Document Server

    Somà, V; Barbieri, C; Navrátil, P; Duguet, T

    2013-01-01

    Three-nucleon forces (3NFs), and in particular terms of the Fujita-Miyazawa type, strongly influence the structure of neutron-rich exotic isotopes. Ab-initio calculations have shown that chiral two- and three-nucleon interactions correctly reproduce binding energy systematics and neutron driplines of oxygen and nearby isotopes. Exploiting the novel self-consistent Gorkov-Green's function approach, we present the first investigation of Ar, K, Ca, Sc and Ti isotopic chains. Leading chiral 3N interactions are mandatory to reproduce the trend of binding energies throughout these chains and to obtain a good description of two-neutron separation energies. At the same time, nuclei in this mass region are systematically overbound by about 40 MeV and the $N=20$ magic gap is significantly overestimated. We conclude that ab-initio many-body calculations of mid-mass isotopic chains challenge modern theories of elementary nuclear interactions.

  12. Climate variability and wine quality over Portuguese regions

    Science.gov (United States)

    Gouveia, Célia M.; Gani, Érico A.; Liberato, Margarida L. R.

    2015-04-01

    characterized in each region by high/low quality wines. Finally, we also investigated how climate variability is related to DOC wine quality for different regions using North Atlantic Oscillation (NAO) index. Results reveal a strong dependence of wine quality for all regions on maximum temperature and precipitation during spring and summer (the growing season) as expected. However the role of temperature on wine quality seems to be distinct among the diverse regions probably due to their different climate zoning. Moreover, it is shown that the differences associated with high/low quality wine are in agreement with different synoptic fields patterns. Our results suggest that this type of analysis may be used in developing a tool that may help anticipating a vintage/high quality year, based on already available seasonal climate outlooks. Santo F.E., de Lima M.I.P., Ramos A.M., Trigo R.M., Trends in seasonal surface air temperature in mainland Portugal, since 1941, International Journal Climatolology, 34: 1814-1837, doi: 10.1002/joc.3803 (2014) de Lima M.I.P., Santo F.E., Ramos A.M. , Trigo, R.M., Trends and correlations in annual extreme precipitation indices for mainland Portugal, 1941-2007, Theoretical and Applied Climatology, DOI:10.1007/s00704-013-1079-6 (2014) Acknowledgements: This work was partially supported by national funds through FCT (Fundação para a Ciência e a Tecnologia, Portugal) under project QSECA (PTDC/AAGGLO/4155/2012).

  13. Antiperiodic XXZ chains with arbitrary spins: Complete eigenstate construction by functional equations in separation of variables

    CERN Document Server

    Niccoli, G

    2014-01-01

    Generic inhomogeneous integrable XXZ chains with arbitrary spins are studied by means of the quantum separation of variables (SOV) method. Within this framework, a complete description of the spectrum (eigenvalues and eigenstates) of the antiperiodic transfer matrix is derived in terms of discrete systems of equations involving the inhomogeneity parameters of the model. We show here that one can reformulate this discrete SOV characterization of the spectrum in terms of functional T-Q equations of Baxter's type, hence proving the completeness of the solutions to the associated systems of Bethe-type equations. More precisely, we consider here two such reformulations. The first one is given in terms of Q-solutions, in the form of trigonometric polynomials of a given degree $N_s$, of a one-parameter family of T-Q functional equations with an extra inhomogeneous term. The second one is given in terms of Q-solutions, again in the form of trigonometric polynomials of degree $N_s$ but with double period, of Baxter's ...

  14. Antiperiodic XXZ Chains with Arbitrary Spins: Complete Eigenstate Construction by Functional Equations in Separation of Variables

    Science.gov (United States)

    Niccoli, Giuliano; Terras, Véronique

    2015-07-01

    Generic inhomogeneous integrable XXZ chains with arbitrary spins are studied by means of the quantum separation of variables (SOV) method. Within this framework, a complete description of the spectrum (eigenvalues and eigenstates) of the antiperiodic transfer matrix is derived in terms of discrete systems of equations involving the inhomogeneity parameters of the model. We show here that one can reformulate this discrete SOV characterization of the spectrum in terms of functional T - Q equations of Baxter's type, hence proving the completeness of the solutions to the associated systems of Bethe-type equations. More precisely, we consider here two such reformulations. The first one is given in terms of Q-solutions, in the form of trigonometric polynomials of a given degree , of a one-parameter family of T - Q functional equations with an extra inhomogeneous term. The second one is given in terms of Q-solutions, again in the form of trigonometric polynomials of degree but with double period, of Baxter's usual (i.e., without extra term) T - Q functional equation. In both cases, we prove the precise equivalence of the discrete SOV characterization of the transfer matrix spectrum with the characterization following from the consideration of the particular class of Q-solutions of the functional T - Q equation: to each transfer matrix eigenvalue corresponds exactly one such Q-solution and vice versa, and this Q-solution can be used to construct the corresponding eigenstate.

  15. Expression of secreted human single-chain fragment variable antibody against human amyloid beta peptide in Pichia pastoris

    Institute of Scientific and Technical Information of China (English)

    Jiong Cai; Fang Li; Shizhen Wang

    2008-01-01

    BACKGROUND: Studies have shown that monoclonal or polyclonal antibody injections ofamyloid β peptide arc effective in removing amyloid β peptide overload in the brain.OBJECTIVE: Based on successful screening of a human single-chain fragment variable antibody specific to amyloid β peptide, this paper aimed to express recombinant human single-chain variable antibody against amyloid β peptide.DESIGN, TIME AND SETTING: A single sample experiment was performed at the Department of Nuclear Medicine, Peking Union Medical College Hospital, Chinese Academy of Medical Sciences and Peking Union Hospital (Beijing, China) from January to July 2006.MATERIALS: Human single-chain fragment variable antibody gene against amyloid β peptide was screened from a human phage-display antibody library.METHODS: Human single-chain fragment variable antibody gene was mutated to eliminate a BamHI restriction site and cloned into a Teasy plasmid for pT-seFvAβ construction, which was identified by PCR amplification and endonuclease digestion. Plasmid pT-scFvA β was cut by EcoRl and Notl endonucleases, and the antibody gene was cloned into pPIC9K plasmid to construct pPIC9K-scFvA β expression vector, which was confirmed by gene sequencing. Linearized pPICgK-scFvA β was used to transform a Pichia pastoris GS115 cell line, and the recombinant was induced by 0.5 % methanol to express human single-chain fragment variable antibody specific to amyloid β peptide.MAIN OUTCOME MEASURES: Protein electrophoresis was used to identify PCR products, gene sequencing was uscd to verify the pPIC9K-scFvA sequence, and SDS-PAGE was used to detect recombinant expression of human single-chain fragment variable antibody specific to amyloid β peptide in Pichia pastoris.RESULTS: Gene sequencing confirmed pPICgK-scFvA β orientation. Rccomhinants were obtained by lineadzed pPIC9K-scFvA β transformation. After induction with 0.5% methanol, the recombinant yeast cells secreted proteins of 33-ku size

  16. POTENTIAL IMPACTS OF CLIMATIC VARIABILITY ON INDIAN HIMALAYAN REGION

    Directory of Open Access Journals (Sweden)

    Kavita Tariyal

    2014-12-01

    Full Text Available The Himalayan region represents enormous variability of climates, hydrological and ecological systems, plus a diversity of cultures and communities. It is an essentiality to the ecological security of the Indian landmass, through providing forest cover, feeding recurrent rivers that are the source of potable water, irrigation, and hydropower, conserving biodiversity, providing a rich foundation for high value agriculture, and spectacular landscapes for sustainable tourism. Increasing concentration of greenhouse gases in the troposphere and the consequential global warming is posing a great environmental threat to water and food security at universal level. Change in climate may affect exposures to air pollutants by affecting weather, anthropogenic emissions, and by changing the distribution and types of airborne allergens. This potential variability in climate will have a serious impact on several ecosystem services, such as cleaning water and removing carbon from the atmosphere. Various services of ecosystems viz. land and water resources, agriculture, biodiversity will experience a wide range of stresses together with pests and pathogens, invasive species, atmospheric pollution, acute events, wildfires and floods. Direct stresses posed due to climate change may get intensified through high temperatures, reduced water availability, and altered frequency of extreme events and severe storms. Climate change will potentially make a threat on the availability of, and access to, water resources. The Himalayan ecosystem is vulnerable to the impacts and consequences of a changes on account of natural causes, b climate change resulting from human-induced emissions and c developmental paradigms of the modern society. Adaptation factors in the element of ‘sustainability’ into development initiatives and provides for additional measures and resources to safeguard environmental gains against climate impacts.

  17. On the vapor-liquid equilibrium of attractive chain fluids with variable degree of molecular flexibility.

    Science.gov (United States)

    van Westen, Thijs; Vlugt, Thijs J H; Gross, Joachim

    2015-06-14

    We study the isotropic (vapor and liquid) phase behavior of attractive chain fluids. Special emphasis is placed on the role of molecular flexibility, which is studied by means of a rod-coil model. Two new equations of state (EoSs) are developed for square-well- (SW) and Lennard-Jones (LJ) chain fluids. The EoSs are developed by applying the perturbation theory of Barker and Henderson (BH) to a reference fluid of hard chain molecules. The novelty of the approach is based on (1) the use of a recently developed hard-chain reference EoS that explicitly incorporates the effects of molecular flexibility, (2) the use of recent molecular simulation data for the radial distribution function of hard-chain fluids, and (3) a newly developed effective segment size, which effectively accounts for the soft repulsion between segments of LJ chains. It is shown that the effective segment size needs to be temperature-, density-, and chain-length dependent. To obtain a simplified analytical EoS, the perturbation terms are fitted by polynomials in density (SW and LJ), chain length (SW and LJ), and temperature (only for LJ). It is shown that the equations of state result in an accurate description of molecular simulation data for vapor-liquid equilibria (VLE) and isotherms of fully flexible SW- and LJ chain fluids and their mixtures. To evaluate the performance of the equations of state in describing the effects of molecular flexibility on VLE, we present new Monte Carlo simulation results for the VLE of rigid linear- and partially flexible SW- and LJ chain fluids. For SW chains, the developed EoS is in a good agreement with simulation results. For increased rigidity of the chains, both theory and simulations predict an increase of the VL density difference and a slight increase of the VL critical temperature. For LJ chains, the EoS proves incapable of reproducing part of these trends. PMID:26071717

  18. Design and construction of a new human naïve single-chain fragment variable antibody library, IORISS1.

    Science.gov (United States)

    Pasello, Michela; Zamboni, Silvia; Mallano, Alessandra; Flego, Michela; Picci, Piero; Cianfriglia, Maurizio; Scotlandi, Katia

    2016-04-20

    Human monoclonal antibodies are a powerful tool with increasingly successful exploitations and the single chain fragment variable format can be considered the building block for the implementation of more complex and effective antibody-based constructs. Phage display is one of the best and most efficient methods to isolate human antibodies selected from an efficient and variable phage display library. We report a method for the construction of a human naïve single-chain variable fragment library, termed IORISS1. Many different sets of oligonucleotide primers as well as optimized electroporation and ligation reactions were used to generate this library of 1.2×10(9) individual clones. The key difference is the diversity of variable gene templates, which was derived from only 15 non-immunized human donors. The method described here, was used to make a new human naïve single-chain fragment variable phage display library that represents a valuable source of diverse antibodies that can be used as research reagents or as a starting point for the development of therapeutics. Using biopanning, we determined the ability of IORISS1 to yield antibodies. The results we obtained suggest that, by using an optimized protocol, an efficient phage antibody library can be generated. PMID:26945728

  19. Random antiferromagnetic quantum spin chains: Exact results from scaling of rare regions

    OpenAIRE

    Igloi, F.; Juhasz, R.; Rieger, H.

    1999-01-01

    We study XY and dimerized XX spin-1/2 chains with random exchange couplings by analytical and numerical methods and scaling considerations. We extend previous investigations to dynamical properties, to surface quantities and operator profiles, and give a detailed analysis of the Griffiths phase. We present a phenomenological scaling theory of average quantities based on the scaling properties of rare regions, in which the distribution of the couplings follows a surviving random walk character...

  20. Reducing the impact of demand process variability within a multi-echelon supply chain

    OpenAIRE

    Campuzano Bolarín, Francisco; Ros Mcdonnell, Lorenzo Brian; Martín García, Juan

    2008-01-01

    Forrester analyzed Supply Chain and the different levels existing in it, as well as the participant companies and the role played by each of them inside the chain as a global group, and observed that small variations in end item demand caused oscillations that are amplified throughout the chain. This phenomenon, called the Bullwhip effect, has detrimental consequences on inventory levels and on all kind of inventory costs that may affect the added value of the activities throughout the logist...

  1. Inventory cost consequences of variability demand process within a multi-echelon supply chain

    OpenAIRE

    Campuzano Bolarín, Francisco; Lisec, Andrej; Lario Esteban, Francisco Cruz

    2012-01-01

    The bullwhip effect (Lee et al, 1997a) is a known supply chain phenomenon where small variations in end item demand create oscillations that amplify throughout the chain. Different price elasticity of demand influence different changes of demand when prices of items are changing on the time horizon. The variance of the orders at the end user placed on suppliers or on manufacturer increases with the orders flow upstream in the logistics chain. This creates harmful consequences in i...

  2. Reducing the impact of demand process variability within a multi-echelon supply chain. Poster

    OpenAIRE

    Campuzano Bolarín, Francisco; Ros Mcdonnell, Lorenzo Brian; Martín García, Juan

    2008-01-01

    Forrester analyzed Supply Chain and the different levels existing in it, as well as the participant companies and the role played by each of them inside the chain as a global group, and observed that small variations in end item demand caused oscillations that are amplified throughout the chain. This phenomenon, called the Bullwhip effect, has detrimental consequences on inventory levels and on all kind of inventory costs that may affect the added value of the activities throughout the logist...

  3. Altered development and function of the placental regions in preeclampsia and its association with long-chain polyunsaturated fatty acids.

    Science.gov (United States)

    Rani, Alka; Wadhwani, Nisha; Chavan-Gautam, Preeti; Joshi, Sadhana

    2016-09-01

    The placenta is an essential organ formed during pregnancy that mainly transfers nutrients from the mother to the fetus. Nutrients taken up by the placenta are required for its own growth and development and to optimize fetal growth. Hence, placental function is an important determinant of pregnancy outcome. Among various nutrients, fatty acids, especially long-chain polyunsaturated fatty acids (LCPUFAs), including omega 3 and omega 6 fatty acids, are essential for placental development from the time of implantation. Studies have associated these LCPUFAs with placental development through their roles in regulating oxidative stress, angiogenesis, and inflammation, which may in turn influence their transfer to the fetus. The placenta has a heterogeneous morphology with variable regional vasculature, oxidative stress, and LCPUFA levels in healthy pregnancies depending upon the location within the placenta. However, these regional structural and functional parameters are found to be disturbed in pathological conditions, such as preeclampsia (PE), thereby affecting pregnancy outcome. Hence, the alterations in LCPUFA metabolism and transport in different regions of the PE placenta as compared with normal placenta could potentially be contributing to the pathological features of PE. The regional variations in development and function of the placenta and its possible association with placental LCPUFA metabolism and transport in normal and PE pregnancies are discussed in this review. WIREs Dev Biol 2016, 5:582-597. doi: 10.1002/wdev.238 For further resources related to this article, please visit the WIREs website. PMID:27239793

  4. Epigenetic Regulation of Individual Modules of the immunoglobulin heavy chain locus 3' Regulatory Region.

    Science.gov (United States)

    Birshtein, Barbara K

    2014-01-01

    The Igh locus undergoes an amazing array of DNA rearrangements and modifications during B cell development. During early stages, the variable region gene is constructed from constituent variable (V), diversity (D), and joining (J) segments (VDJ joining). B cells that successfully express an antibody can be activated, leading to somatic hypermutation (SHM) focused on the variable region, and class switch recombination (CSR), which substitutes downstream constant region genes for the originally used Cμ constant region gene. Many investigators, ourselves included, have sought to understand how these processes specifically target the Igh locus and avoid other loci and potential deleterious consequences of malignant transformation. Our laboratory has concentrated on a complex regulatory region (RR) that is located downstream of Cα, the most 3' of the Igh constant region genes. The ~40 kb 3' RR, which is predicted to serve as a downstream major regulator of the Igh locus, contains two distinct segments: an ~28 kb region comprising four enhancers, and an adjacent ~12 kb region containing multiple CTCF and Pax5 binding sites. Analysis of targeted mutations in mice by a number of investigators has concluded that the entire 3' RR enhancer region is essential for SHM and CSR (but not for VDJ joining) and for high levels of expression of multiple isotypes. The CTCF/Pax5 binding region is a candidate for influencing VDJ joining early in B cell development and serving as a potential insulator of the Igh locus. Components of the 3' RR are subject to a variety of epigenetic changes during B cell development, i.e., DNAse I hypersensitivity, histone modifications, and DNA methylation, in association with transcription factor binding. I propose that these changes provide a foundation by which regulatory elements in modules of the 3' RR function by interacting with each other and with target sequences of the Igh locus. PMID:24795714

  5. Structural re-alignment in an immunologic surface region of ricin A chain

    Energy Technology Data Exchange (ETDEWEB)

    Zemla, A T; Zhou, C E

    2007-07-24

    We compared structure alignments generated by several protein structure comparison programs to determine whether existing methods would satisfactorily align residues at a highly conserved position within an immunogenic loop in ribosome inactivating proteins (RIPs). Using default settings, structure alignments generated by several programs (CE, DaliLite, FATCAT, LGA, MAMMOTH, MATRAS, SHEBA, SSM) failed to align the respective conserved residues, although LGA reported correct residue-residue (R-R) correspondences when the beta-carbon (Cb) position was used as the point of reference in the alignment calculations. Further tests using variable points of reference indicated that points distal from the beta carbon along a vector connecting the alpha and beta carbons yielded rigid structural alignments in which residues known to be highly conserved in RIPs were reported as corresponding residues in structural comparisons between ricin A chain, abrin-A, and other RIPs. Results suggest that approaches to structure alignment employing alternate point representations corresponding to side chain position may yield structure alignments that are more consistent with observed conservation of functional surface residues than do standard alignment programs, which apply uniform criteria for alignment (i.e., alpha carbon (Ca) as point of reference) along the entirety of the peptide chain. We present the results of tests that suggest the utility of allowing user-specified points of reference in generating alternate structural alignments, and we present a web server for automatically generating such alignments.

  6. Generation of a Highly Reactive Chicken-Derived Single-Chain Variable Fragment against Fusarium verticillioides by Phage Display

    OpenAIRE

    Zu-Quan Hu; Jin-Long Liu; He-Ping Li; Shu Xing; Sheng Xue; Jing-Bo Zhang; Jian-Hua Wang; Greta Nölke; Yu-Cai Liao

    2012-01-01

    Fusarium verticillioides is the primary causal agent of Fusarium ear and kernel rot in maize, producing fumonisin mycotoxins that are toxic to humans and domestic animals. Rapid detection and monitoring of fumonisin-producing fungi are pivotally important for the prevention of mycotoxins from entering into food/feed products. Chicken-derived single-chain variable fragments (scFvs) against cell wall-bound proteins from F. verticillioides

  7. Effect of Unequal Lot Sizes, Variable Setup Cost, and Carbon Emission Cost in a Supply Chain Model

    OpenAIRE

    Biswajit Sarkar; Sharmila Saren; Debjani Sinha; Sun Hur

    2015-01-01

    Due to heavy transportation for single-setup multidelivery (SSMD) policy in supply chain management, this model assumes carbon emission cost to obtain a realistic behavior for world environment. The transportation for buyer and vendor is considered along with setup cost reduction by using an investment function. It is assumed that the shipment lot size of each delivery is unequal and variable. The buyer inspects all received products and returns defective items to vendor for reworking process...

  8. Sequence and organization of the diversity, joining, and constant region genes of the human T-cell δ-chain locus

    International Nuclear Information System (INIS)

    In this paper the authors describe the genomic organization and sequence of the human T-cell receptor δ-chain diversity, joining, and constant genes. There is one δ-chain constant region gene (Cδ) located ∼85 kilobases (kb) upstream of the α-chain constant region. The δ-chain constant region consists of four exons, whose organization is very similar to that of the Cα exons, suggesting that Cα and Cδ may have arisen from a gene duplication event. The first exon encodes most of the extracellular constant domain, the second encodes a hinge-like region, and the third encodes the entire transmembrane segment and intracytoplasmic portion, whereas the last exon contains exclusively 3' untranslated sequences. Three joining segments, Jδ1, Jδ2, and Jδ 3, are found ∼12, ∼5.7, and ∼3.4 kb upstream of the first exon of Cδ. Two functional diversity gene segments, Dδ1 and Dδ2, which can be productively translated in all three reading frames, are found 1 and 9.6 kb upstream of Jδ1. The presence of two Dδ with such potential for diversity may offset the limited repertoire of the Jδ and Vδ genes. The spacer distribution in the recombinational signals flanking Dδ and Jδ segments allows recombination with Vα gene segments; however, examination of δ-chain messages does not indicate that this is the case, suggesting that the δ chain uses unique variable gene segments and raising the question as to the reasons for this phenomenon

  9. Surface antigen expression and correlation with variable heavy-chain gene mutation status in chronic lymphocytic leukemia.

    Science.gov (United States)

    Vilpo, Juhani; Tobin, Gerard; Hulkkonen, Janne; Hurme, Mikko; Thunberg, Ulf; Sundström, Christer; Vilpo, Leena; Rosenquist, Richard

    2003-01-01

    Recent studies have demonstrated that B-cell chronic lymphocytic leukemia (CLL) consists of two clinical entities with either somatically hypermutated (M-CLL) or unmutated (UM-CLL) immunoglobulin variable heavy-chain (VH) regions. In view of the fact that the cellular biology of these two subsets of disease is currently unexplored, we performed an extensive analysis of the surface antigen expression and correlated this with the VH gene mutation status in a cohort of 32 CLL patients. Using polymerase chain reaction amplification and nucleotide sequencing, the VH genes were shown to be mutated in 10 cases (31%) and unmutated in 22 (69%). The expression of 27 surface membrane antigens in peripheral blood leukemic cells was analyzed by flow cytometry, measuring both the percentage of positive cells as well as the geometric mean fluorescence intensity (GMF). Most of the surface membrane antigens (CD5, CD11c, CD19, CD20, CD21, CD22, CD23, CD25, CD40, CD45, VD79b, CD80, CD95, CD122, CD124, CD126, CD130, CD154, IgM, and IgD) showed a similar expression pattern in both UM-CLL and M-CLL patients. The similarity of M-CLL and UM-CLL, as demonstrated here for the first time with many protein markers, indicates a considerably homogeneous phenotype in both subsets. Furthermore, CD27 was strongly expressed in all cases, which may suggest a memory cell phenotype for both M-CLL and UM-CLL. More positive cells in the UM-CLL group were observed regarding CD38, but CD38 was not a good predictor of VH gene mutation status. Seventy percent of the M-CLL cases, but only 36% of UM-CLL cases, were Ig-lambda+. The most striking differential expression, however, was observed in the two slicing variants of the common leukocyte antigen CD45, namely CD45RO and CD45RA. CD45RO expression was significantly associated with M-CLL, whereas the GMF intensity of CD45RA tended to be associated with UM-CLL. The role of these CD45 splicing variants in the pathogenesis of CLL deserves further investigation

  10. Potential, spatial distribution and economic performance of regional biomass chains: The North of the Netherlands as example

    NARCIS (Netherlands)

    Hilst, van der F.; Dornburg, V.; Sanders, J.P.M.; Elbersen, B.S.; Graves, A.; Turkenburg, W.C.; Elbersen, H.W.; Dam, van J.M.C.; Faaij, A.

    2010-01-01

    This work assesses the viability of regional biomass chains by comparing the economic performance of potential bioenergy crops with the performance of current agricultural land uses. The biomass chains assessed are ethanol production from Miscanthus and from sugar beet in the North of the Netherland

  11. Screening, expression, and characterization of an anti-human oxidized low-density lipoprotein single-chain variable fragment.

    Science.gov (United States)

    Kumano-Kuramochi, Miyuki; Fujimura, Takashi; Komba, Shiro; Maeda-Yamamoto, Mari; Machida, Sachiko

    2016-09-01

    Increased levels of oxidized low-density lipoprotein (OxLDL) in the blood circulation are correlated with atherosclerosis. Monoclonal antibody-based detection systems have been reported for OxLDL. We identified novel single-chain variable fragments (scFvs) having affinity for human OxLDL and related ligands. We constructed an scFv library from nonimmunized human spleen mRNA. Two types (γ+κ and μ+λ) of scFv phage libraries were enriched by biopanning, and five scFv clones with affinity for OxLDL were identified. The γκ5 scFv, which showed the highest affinity for OxLDL, was cloned into pET-22b(+) and expressed in Escherichia coli BL21(DE3). γκ5, expressed as an inclusion body in BL21(DE3), was refolded and purified. The specificity and sensitivity of γκ5 were analyzed using enzyme-linked immunosorbent assays (ELISAs). The γκ5 scFv showed affinity for OxLDL and acetylated LDL. The sensitivity of γκ5 to low concentrations (1-2 μg/mL) of OxLDL was higher than that to AcLDL and LDL. Finally, we developed a sandwich ELISA using γκ5 and CTLD14 (a lectin-like OxLDL receptor-1 ligand recognition region), which allowed specific detection of OxLDL at a level below 0.1 μg/mL. Our results indicated that the γκ5 scFv was a promising molecule for the detection of modified LDL at very low concentrations. PMID:27038672

  12. A single-chain variable fragment intrabody prevents intracellular polymerization of Z α1-antitrypsin while allowing its antiproteinase activity.

    Science.gov (United States)

    Ordóñez, Adriana; Pérez, Juan; Tan, Lu; Dickens, Jennifer A; Motamedi-Shad, Neda; Irving, James A; Haq, Imran; Ekeowa, Ugo; Marciniak, Stefan J; Miranda, Elena; Lomas, David A

    2015-06-01

    Mutant Z α1-antitrypsin (E342K) accumulates as polymers within the endoplasmic reticulum (ER) of hepatocytes predisposing to liver disease, whereas low levels of circulating Z α1-antitrypsin lead to emphysema by loss of inhibition of neutrophil elastase. The ideal therapy should prevent polymer formation while preserving inhibitory activity. Here we used mAb technology to identify interactors with Z α1-antitrypsin that comply with both requirements. We report the generation of an mAb (4B12) that blocked α1-antitrypsin polymerization in vitro at a 1:1 molar ratio, causing a small increase of the stoichiometry of inhibition for neutrophil elastase. A single-chain variable fragment (scFv) intrabody was generated based on the sequence of mAb4B12. The expression of scFv4B12 within the ER (scFv4B12KDEL) and along the secretory pathway (scFv4B12) reduced the intracellular polymerization of Z α1-antitrypsin by 60%. The scFv4B12 intrabody also increased the secretion of Z α1-antitrypsin that retained inhibitory activity against neutrophil elastase. MAb4B12 recognized a discontinuous epitope probably located in the region of helices A/C/G/H/I and seems to act by altering protein dynamics rather than binding preferentially to the native state. This novel approach could reveal new target sites for small-molecule intervention that may block the transition to aberrant polymers without compromising the inhibitory activity of Z α1-antitrypsin. PMID:25757566

  13. Organization and structure of the chain in the Integrated Projects of Food Chain in Basilicata region: the effects on the new rural dynamics

    OpenAIRE

    Conto, Francesco; La Sala, Piermichele; Papapietro, Paolo

    2010-01-01

    The introduction of the Integrated Projects of Food Chain requires the development of models capable of interpreting the dynamics of vertical and horizontal coordination between agents and the definition of the issues that most affect the ability of professionals to provide value added to goods and products to acquire in exchange a competitive advantage. With reference to the Basilicata region, the production structure of the region and the recent development of the Integrated Projects of Foo...

  14. A green supply chain network design model for enhancing competitiveness and sustainability of companies in high north arctic regions

    Directory of Open Access Journals (Sweden)

    Hao Yu, Wei Deng Solvang, Chen Chen

    2014-01-01

    Full Text Available To survive in today’s competitive and ever-changing marketplace, companies need not only to engage in their products and/or services, but also to focus on the management of the whole supply chain. Effectively managing and balancing the profitability and interconnection of each player in the supply chain will improve the overall supply chain surplus as well as individual profit. However, it is extremely difficult to simultaneously optimize several objectives in design and planning of a supply chain, i.e., cost-minimization, risk-minimization, responsiveness-maximization, etc., which are somehow conflict with one another. Furthermore, the natural and infrastructural challenges in high north arctic regions make it become much more difficult and complicated to design and develop cost-efficient, highly responsive, environmentally friendly, and sustainable supply chain network. In order to provide companies in high north arctic regions with decision support tool for the design and planning of theirs supply chain networks, a green supply chain network design (GrSCND model is formulated in this study based on multi-objective mixed integer programming (MIP. The optimal trade-off among several conflicting objectives is the focus of this GrSCND model aiming to enhance both competitive competence and sustainability of companies and supply chains operated in high north regions. In addition, a numerical experiment is also given to present a deep insight of the GrSCND model.

  15. Biodegradation of Variable-Chain-Length Alkanes at Low Temperatures by a Psychrotrophic Rhodococcus sp.

    OpenAIRE

    Whyte, Lyle G.; Hawari, Jalal; Zhou, Edward; Bourbonnière, Luc; Inniss, William E.; Greer, Charles W

    1998-01-01

    The psychrotroph Rhodococcus sp. strain Q15 was examined for its ability to degrade individual n-alkanes and diesel fuel at low temperatures, and its alkane catabolic pathway was investigated by biochemical and genetic techniques. At 0 and 5°C, Q15 mineralized the short-chain alkanes dodecane and hexadecane to a greater extent than that observed for the long-chain alkanes octacosane and dotriacontane. Q15 utilized a broad range of aliphatics (C10 to C21 alkanes, branched alkanes, and a substi...

  16. A Four-Type Decision-Variable MINLP Model for a Supply Chain Network Design

    Directory of Open Access Journals (Sweden)

    M. M. Monteiro

    2010-01-01

    Full Text Available We propose a mixed integer nonlinear programming model for the design of a one-period planning horizon supply chain with integrated and flexible decisions on location of plants and of warehouses, on levels of production and of inventory, and on transportation models, considering stochastic demand and the ABC classification for finished goods, which is an NP-hard industrial engineering optimization problem. Furthermore, computational implementation of the proposed model is presented through the direct application of the outer approximation algorithm on some randomly generated supply chain data.

  17. Automotive Lithium-ion Cell Manufacturing: Regional Cost Structures and Supply Chain Considerations

    Energy Technology Data Exchange (ETDEWEB)

    Chung, Donald [Clean Energy Manufacturing Analysis Center, Godlen, CO (United States); Elgqvist, Emma [Clean Energy Manufacturing Analysis Center, Godlen, CO (United States); Santhanagopalan, Shriram [Clean Energy Manufacturing Analysis Center, Godlen, CO (United States)

    2016-04-08

    Manufacturing capacity for lithium-ion batteries (LIBs)--which power many consumer electronics and are increasingly used to power electric vehicles--is heavily concentrated in east Asia. Currently, China, Japan, and Korea collectively host 88% of all LIB cell and 79% of automotive LIB cell manufacturing capacity. Mature supply chains and strong cumulative production experience suggest that most LIB cell production will remain concentrated in Asia. However, other regions--including North America--could be competitive in the growing automotive LIB cell market under certain conditions. To illuminate the factors that drive regional competitiveness in automotive LIB cell production, this study models cell manufacturing cost and minimum sustainable price, and examines development of LIB supply chains and current LIB market conditions. Modeled costs are for large format, 20-Ah stacked pouch cells with lithium-nickel-manganese-cobalt-oxide (NMC) cathodes and graphite anodes suitable for automotive application. Production volume is assumed to be at commercial scale, 600 MWh per year.

  18. Regional variability among nonlinear chlorophyll-phosphorus relationships in lakes

    Science.gov (United States)

    Filstrup, Christopher T.; Wagner, Tyler; Soranno, Patricia A.; Stanley, Emily H.; Stow, Craig A.; Webster, Katherine E.; Downing, John A.

    2014-01-01

    The relationship between chlorophyll a (Chl a) and total phosphorus (TP) is a fundamental relationship in lakes that reflects multiple aspects of ecosystem function and is also used in the regulation and management of inland waters. The exact form of this relationship has substantial implications on its meaning and its use. We assembled a spatially extensive data set to examine whether nonlinear models are a better fit for Chl a—TP relationships than traditional log-linear models, whether there were regional differences in the form of the relationships, and, if so, which regional factors were related to these differences. We analyzed a data set from 2105 temperate lakes across 35 ecoregions by fitting and comparing two different nonlinear models and one log-linear model. The two nonlinear models fit the data better than the log-linear model. In addition, the parameters for the best-fitting model varied among regions: the maximum and lower Chl aasymptotes were positively and negatively related to percent regional pasture land use, respectively, and the rate at which chlorophyll increased with TP was negatively related to percent regional wetland cover. Lakes in regions with more pasture fields had higher maximum chlorophyll concentrations at high TP concentrations but lower minimum chlorophyll concentrations at low TP concentrations. Lakes in regions with less wetland cover showed a steeper Chl a—TP relationship than wetland-rich regions. Interpretation of Chl a—TP relationships depends on regional differences, and theory and management based on a monolithic relationship may be inaccurate.

  19. Sub-regional ecosystem variability in the Canary Current upwrelling

    OpenAIRE

    Aristegui, J.; Barton, E D; Alvarez-Salgado, X. A.; Santos, A.M.P.; Figueiras, F. G.; Kifani, S.; Hernandez-Leon, S.; Mason, E.; Machu, Eric; Demarcq, Hervé

    2009-01-01

    The Canary Current upwelling ecosystem (CanC) constitutes one of the four main eastern boundary upwelling ecosystems (EBUEs) of the world, thus hosting high productivity and fisheries. Recent observations indicate that the CanC region as a whole has been experiencing a progressive warming and a decrease in productivity over the last decades. This overall trend is however not directly reflected in the fisheries of the region. Here we update recent results and previous reviews on the CanC, cove...

  20. Averaging over fast variables in the fluid limit for Markov chains: application to the supermarket model with memory

    CERN Document Server

    Luczak, M J

    2010-01-01

    We set out a general procedure which allows the approximation of certain Markov chains by the solutions of differential equations. The chains considered have some components which oscillate rapidly and randomly, while others are close to deterministic. The limiting dynamics are obtained by averaging the drift of the latter with respect to a local equilibrium distribution of the former. Some general estimates are proved under a uniform mixing condition on the fast variable which give explicit error probabilities for the fluid approximation. Mitzenmacher, Prabhakar and Shah \\cite{MPS} introduced a variant with memory of the `join the shortest queue' or `supermarket' model, and obtained a limit picture for the case of a stable system in which the number of queues and the total arrival rate are large. In this limit, the empirical distribution of queue sizes satisfies a differential equation, while the memory of the system oscillates rapidly and randomly. We illustrate our general fluid limit estimate in giving a ...

  1. INVERSION SYMMETRY, ARCHITECTURE AND DISPERSITY, AND THEIR EFFECTS ON THERMODYNAMICS IN BULK AND CONFINED REGIONS: FROM RANDOMLY BRANCHED POLYMERS TO LINEAR CHAINS, STARS AND DENDRIMERS

    Directory of Open Access Journals (Sweden)

    P.D.Gujrati

    2002-01-01

    Full Text Available Theoretical evidence is presented in this review that architectural aspects can play an important role, not only in the bulk but also in confined geometries by using our recursive lattice theory, which is equally applicable to fixed architectures (regularly branched polymers, stars, dendrimers, brushes, linear chains, etc. and variable architectures, i.e. randomly branched structures. Linear chains possess an inversion symmetry (IS of a magnetic system (see text, whose presence or absence determines the bulk phase diagram. Fixed architectures possess the IS and yield a standard bulk phase diagram in which there exists a theta point at which two critical lines C and C' meet and the second virial coefficient A2 vanishes. The critical line C appears only for infinitely large polymers, and an order parameter is identified for this criticality. The critical line C' exists for polymers of all sizes and represents phase separation criticality. Variable architectures, which do not possess the IS, give rise to a topologically different phase diagram with no theta point in general. In confined regions next to surfaces, it is not the IS but branching and monodispersity, which becomes important in the surface regions. We show that branching plays no important role for polydisperse systems, but become important for monodisperse systems. Stars and linear chains behave differently near a surface.

  2. Seasonal TEC Variability in West Africa Equatorial Anomaly Region

    OpenAIRE

    ZOUNDI, Christian; Ouattara, Fréderic; FLEURY, Rolland; Amory-Mazaudier, Christine; Lassudrie-Duchesne, Patrick

    2012-01-01

    This paper presented the seasonal variability of TEC/ GPS data recorded at Ouagadougou a West Africa GPS station located near the magnetic equator. Seasonal data TEC time variations are compared to those of TEC derived from IGS GPS network maps. The present study showed that TEC map model predicts well data TEC during equinoctial months and fairly well during solstice months. The best prediction is obtained during spring and the worst during winter. The analysis of seasonal TEC profiles highl...

  3. Reduction of tropical land region precipitation variability via transpiration

    Science.gov (United States)

    Lee, Jung-Eun; Lintner, Benjamin R.; Neelin, J. David; Jiang, Xianan; Gentine, Pierre; Boyce, C. Kevin; Fisher, Joshua B.; Perron, J. Taylor; Kubar, Terence L.; Lee, Jeonghoon; Worden, John

    2012-10-01

    Tropical rainforests are known to exhibit low intraseasonal precipitation variability compared with oceanic areas with similar mean precipitation in observations and models. In the present study, the potential role of transpiration for this difference in precipitation variability is investigated using the National Center for Atmospheric Research (NCAR) atmospheric general circulation model. Comparing model results with and without transpiration shows that in the absence of transpiration, mean precipitation decreases as may be expected. However the incidence of both higher daily total column water and more intense precipitation increases without transpiration; consequently the variability of precipitation increases substantially. These results can be understood in terms of the complex interplay of local near-surface and remote moist dynamical processes with both local positive (boundary-layer drying) and large-scale negative (increased large-scale convergence) feedbacks when transpiration is disabled in the model. It is also shown that surface turbulent fluxes over tropical rainforests are highly correlated with incoming solar energy but only weakly correlated with wind speed, possibly decoupling land precipitation from large-scale disturbances like the Madden-Julian Oscillation.

  4. Indian monsoon variability in relation to Regional Pressure Index

    Indian Academy of Sciences (India)

    S S Dugam; S B Kakade

    2003-12-01

    In this paper Regional Pressure Index (RPI) over the Indian region (20°N-40°N and 70°E-85°E) has been constructed for 101 years (1899-1999) on a monthly scale. The relationship of these indices was carried out with the Indian Summer Monsoon Rainfall (June-September) (ISMR) over the various homogeneous regions, for all the time scales. From the analysis it has been seen that RPI in the month of May is significantly associated with ISMR over various regions on all the scales. The relationship is statistically significant at 1% level. The study reveals that RPI in the month of May and January will be a new precursor for the long range forecasting of ISMR on the smaller spatial scale. On the decadal and climatological scale, winter and spring time RPI show a significant inverse relationship with the rainfall over the regions Peninsular India (PI) and North West India (NWI), while the association is direct with Central North East India (CNEI) and North East India (NEI). The relationship is significant at 0.1 and 1% level respectively.

  5. ADM-CLE approach for detecting slow variables in continuous time Markov chains and dynamic data

    CERN Document Server

    Cucuringu, Mihai

    2015-01-01

    A method for detecting intrinsic slow variables in high-dimensional stochastic chemical reaction networks is developed and analyzed. It combines anisotropic diffusion maps (ADM) with approximations based on the chemical Langevin equation (CLE). The resulting approach, called ADM-CLE, has the potential of being more efficient than the ADM method for a large class of chemical reaction systems, because it replaces the computationally most expensive step of ADM (running local short bursts of simulations) by using an approximation based on the CLE. The ADM-CLE approach can be used to estimate the stationary distribution of the detected slow variable, without any a-priori knowledge of it. If the conditional distribution of the fast variables can be obtained analytically, then the resulting ADM-CLE approach does not make any use of Monte Carlo simulations to estimate the distributions of both slow and fast variables.

  6. Dairy Supply Chain Risk Management in Bangladesh: Field studies of Factors and Variables

    Directory of Open Access Journals (Sweden)

    Tasnuba Nasir

    2014-01-01

    Full Text Available Supply chain risk management (SCRM has gained wide attention among the academia and the business community in the present competitive business world. This paper aims to investigate the main risk factors associated with the dairy industry along with focuses on possible mitigation strategy to mitigate those risks. Qualitative field study has been undertaken in this research. The results of the interviews identify the different risk issues along with the possible mitigation strategies, embedded at storage, processing and distribution level in dairy industry of Bangladesh. The practical implication will contribute significantly to the dairy sector in terms of mitigating risks.

  7. SINGLE CHAIN VARIABLE FRAGMENTS OF ANTIBODIES AGAINST DIPHTHERIA TOXIN B-SUBUNIT ISOLATED FROM PHAGE DISPLAY HUMAN ANTIBODY LIBRARY

    Directory of Open Access Journals (Sweden)

    Oliinyk O. S.

    2014-02-01

    Full Text Available Diphtheria toxin is an exoantigen of Corynebacterium diphtheriae that inhibits protein synthesis and kills sensitive cells. The aim of this study was to obtain human recombinant single-chain variable fragment (scFv antibodies against receptor-binding B subunit of diphtheria toxin. 12 specific clones were selected after three rounds of a phage display naїve (unimmunized human antibody library against recombinant B-subunit. scFv DNA inserts from these 12 clones were digested with MvaI, and 6 unique restriction patterns were found. Single-chain antibodies were expressed in Escherichia coli XL1-blue. The recombinant proteins were characterized by immunoblotting of bacterial extracts and detection with an anti-E-tag antibody. The toxin B-subunit-binding function of the single-chain antibody was shown by ELISA. The affinity constants for different clones were found to be from 106 to 108 М–1. Due to the fact, that these antibody fragments recognized epitopes in the receptor-binding Bsubunit of diphtheria toxin, further studies are interesting to evaluate their toxin neutralization properties and potential for therapeutic applications. Obtained scFv-antibodies can also be used for detection and investigation of biological properties of diphtheria toxin.

  8. Short arm region of laminin-5 gamma2 chain: structure, mechanism of processing and binding to heparin and proteins

    DEFF Research Database (Denmark)

    Sasaki, T; Göhring, W; Mann, K; Brakebusch, C; Yamada, Y; Fässler, R; Timpl, R

    2001-01-01

    Laminin-5 is a typical component of several epithelial tissues and contains a unique gamma2 chain which can be proteolytically processed by BMP-1. This occurs in the N-terminal half of the gamma2 chain (606 residues), which consists of two rod-like tandem arrays of LE modules, LE1-3 and LE4-6, that...... processed laminin-5 showed only a strong binding to fibulin-2. Immunological studies showed a similar partial processing in cell culture and tissues and the persistence of the released fragment in tissues. This indicated that both N-terminal regions of the gamma2 chain may have a function in vivo....

  9. Multiannual runoff variability in the upper Danube region

    International Nuclear Information System (INIS)

    The development of mankind has depended on availability of water resources. Already the first agricultural civilizations noticed the temporal variability of water resources and oscillation of the multi-annual dry and wet periods. The presented thesis summarizes results of more than fifteen years research activities of the author in the field of long-term runoff prediction. Statistical analysis of the runoff oscillations depends on availability of long time series of data. Systematic measurements of discharge in modern era started relatively late. The longest time series are available in Europe, but they do not exceed 200 years. Such long series are exceptional and in most parts of the world only much shorter series exist. Since studies dealing with the natural runoff oscillation and NAO phenomenon recently absent in Slovakia, there is the one aim of the thesis to fill in the gap in the long-term runoff fluctuation analysis and long-term discharge prediction methods development. The thesis focuses on the natural runoff cyclicity identification. In stochastic models, the climate changes scenarios caused by atmosphere warming are not involved however the runoff tele-connection around the Earth is studied. Scientific objectives of the thesis: 1. To reconstruct the Danube daily discharge series at Bratislava (1876-1890) based upon the Bratislava gauge daily water level observations; 2. to analyze variability and long term trends of the selected discharge Danube series characteristics for its Bratislava gauge; 3. to propose and develop the combined periodogram method for more exact spectral density identification in discharge time series; to analyze trends and periodicity in discharge long term series; to identify occurrence of the wet and dry periods over the world, to identify the influence of the NAO/AO/ENSO/QBO phenomena and the Sun activity on the runoff variability. 4. to present some long term stochastic prediction methods; to use two of them, the classical

  10. OLIVE RESIDUES TO ENERGY CHAINS IN THE APULIA REGION PART I: BIOMASS POTENTIALS AND COSTS

    Directory of Open Access Journals (Sweden)

    Antonio Pantaleo

    2009-03-01

    Full Text Available The main objective of the proposed research is to estimate the energy potentials of the olive trees pruning residues and olive husk residues in the Apulia region (Southern Italy and to compare the possible bioenergy conversion routes for heat and power generation. 46 006_Pantaleo(537_37 27-07-2009 11:20 Pagina 46 The part I of the research proposes a preliminary review of the olive oil chain residues in the Apulia region and an assessment of technical potentials and biomass supply costs. The investigation is carried out through a review of existing literature, structured interviews with operators, elaboration of available statistical data, assessment of the typology and current use of the by-products, analysis of olive trees pruning techniques and olive milling processes. The results show a high potential of pruning residues (about 177 kt/year at 15% moisture content and crude olive husk (about 915 kt/year at 50% average moisture content. The supply costs are, in most cases, compatible with the energy conversion routes, and in particular they result in the range of 45-55 €/t (35% moisture content for rotobales and chips from PR.

  11. Climate Change and Climate Variability in the Latin American Region

    Science.gov (United States)

    Magrin, G. O.; Gay Garcia, C.; Cruz Choque, D.; Gimenez-Sal, J. C.; Moreno, A. R.; Nagy, G. J.; Nobre, C.; Villamizar, A.

    2007-05-01

    Over the past three decades LA was subjected to several climate-related impacts due to increased El Niño occurrences. Two extremely intense episodes of El Niño and other increased climate extremes happened during this period contributing greatly to augment the vulnerability of human systems to natural disasters. In addition to weather and climate, the main drivers of the increased vulnerability are demographic pressure, unregulated urban growth, poverty and rural migration, low investment in infrastructure and services, and problems in inter-sector coordination. As well, increases in temperature and increases/decreases in precipitation observed during the last part of 20th century have yet led to intensification of glaciers melting, increases in floods/droughts and forest fires frequency, increases in morbidity and mortality, increases in plant diseases incidence; lost of biodiversity, reduction in dairy cattle production, and problems with hydropower generation, highly affecting LA human system. For the end of the 21st century, the projected mean warming for LA ranges from 1 to 7.5ºC and the frequency of weather and climate extremes could increase. Additionally, deforestation is projected to continue leading to a reduction of 25 percent in Amazonia forest in 2020 and 40 percent in 2050. Soybeans planted area in South America could increase by 55 percent by 2020 enhancing aridity/desertification in many of the already water- stressed regions. By 2050 LA population is likely to be 50 percent larger than in 2000, and migration from the country sides to the cities will continue. In the near future, these predicted changes are very likely to severely affect a number of ecosystems and sectors distribution; b) Disappearing most tropical glaciers; c) Reducing water availability and hydropower generation; d) Increasing desertification and aridity; e) Severely affecting people, resources and economic activities in coastal areas; f) Increasing crop's pests and diseases

  12. Winter climate variability and classification in the Bulgarian Mountainous Regions

    International Nuclear Information System (INIS)

    The problems of snowiness and thermal conditions of winters are of high interest of investigations because of the more frequent droughts, occurred in the region. In the present study an attempt to reveal tendencies existing during the last 70 years of 20 th century in the course winter precipitation and,temperature as well as in some of the snow cover parameters. On the base of mean winter air temperature winters in the Bulgarian mountains were analyzed and classified. The main results of the study show that winter precipitation has decrease tendencies more significant in the highest parts of the mountains. On the other hand winter air temperature increases. It shows a relatively well-established maximum at the end of the studied period. In the Bulgarian mountains normal winters are about 35-40% of all winters. (Author)

  13. Phylogeny of immunoglobulin heavy chain isotypes: structure of the constant region of Ambystoma mexicanum upsilon chain deduced from cDNA sequence.

    Science.gov (United States)

    Fellah, J S; Kerfourn, F; Wiles, M V; Schwager, J; Charlemagne, J

    1993-01-01

    An RNA polymerase chain reaction strategy was used to amplify and clone a cDNA segment encoding for the complete constant part of the axolotl IgY heavy (C upsilon) chain. C upsilon is 433 amino acids long and organized into four domains (C upsilon 1-C upsilon 4); each has the typical internal disulfide bond and invariant tryptophane residues. Axolotl C upsilon is most closely related to Xenopus C upsilon (40% identical amino acid residues) and C upsilon 1 shares 46.4% amino acid residues among these species. The presence of additional cysteines in C upsilon 1 and C upsilon 2 domains is consistent with an additional intradomain S-S bond similar to that suggested for Xenopus C upsilon and C chi, and for the avian C upsilon and the human C epsilon. C upsilon 4 ends with the Gly-Lys dipeptide characteristic of secreted mammalian C gamma 3, human C epsilon 4, and avian and anuran C upsilon 4, and contains the consensus [G/GT(AA)] nucleotide splice signal sequence for joining C upsilon 4 to the transmembrane region. These results are consistent with the hypothesis of an ancestral structural relationship between amphibian, avian upsilon chains, and mammalian epsilon chains. However, these molecules have different biological properties: axolotl IgY is secretory Ig, anuran and avian IgY behave like mammalian IgG, and mammalian IgE is implicated in anaphylactic reactions. PMID:8344718

  14. Some Aspects of the Physical Variability of the Caribbean Sea Relevant to Regional Climate Variability

    Science.gov (United States)

    Mooers, C. N.

    2001-12-01

    The Caribbean Sea is the least studied portion of the Intra-Americas Sea (IAS), which is the combined Caribbean Sea, Gulf of Mexico, Straits of Florida, and the adjacent western North Atlantic. The upstream elements of the Gulf Stream System are the dominant features of the upper ocean circulation in the Caribbean Sea. The Trade Winds superimpose a coastal upwelling regime along the northern coast of South America and a coastal downwelling regime along the southern coasts of Cuba and Hispaniola. The inflow from the Atlantic through several Antillean passages is derived from tropical and subtropical sources and is relatively weak, shallow, and variable; the outflow to the Gulf of Mexico through the Yucatan Channel is relatively strong, deep, and variable. The variability includes mesoscale eddies and meanders as well as the seasonal cycle and year-to-year variability; it also includes lengthy plumes from the Orinoco and other rivers and lengthy filaments from coastal upwelling centers. Some of the mesoscale variability originates in the Eastern Caribbean; other components originate in the Western Caribbean, especially in the cyclonic Panama-Colombia Gyre. The upper ocean of the Caribbean Sea is not only under the influence of the Trade Winds and their seasonal and longer term variability but also two other, not mutually exclusive, sources of variability: the seasonal heating and precipitation cycles on one hand, and synoptic scale and mesoscale phenomena on the other hand. For example, there are wet and dry seasons, and the Eastern Caribbean is typically dry and the Western Caribbean typically wet, with a heavy rainfall zone off the coast of Central America. And the patterns of atmospheric deep convection and subsidence apparently account for the summertime intensification of an extensive "warm pool" concentrated in the Northwestern Caribbean, which is exported to the Gulf of Mexico. As another example, the weekly Tropical Easterly Waves (TEWs) are the predominant

  15. Form factors and complete spectrum of XXX antiperiodic higher spin chains by quantum separation of variables

    International Nuclear Information System (INIS)

    The antiperiodic transfer matrices associated to higher spin representations of the rational 6-vertex Yang-Baxter algebra are analyzed by generalizing the approach introduced recently in the framework of Sklyanin's quantum separation of variables (SOV) for cyclic representations, spin-1/2 highest weight representations, and also for spin-1/2 representations of the 6-vertex reflection algebra. Such SOV approach allow us to derive exactly results which represent complicate tasks for more traditional methods based on Bethe ansatz and Baxter Q-operator. In particular, we both prove the completeness of the SOV characterization of the transfer matrix spectrum and its simplicity. Then, the derived characterization of local operators by Sklyanin's quantum separate variables and the expression of the scalar products of separate states by determinant formulae allow us to compute the form factors of the local spin operators by one determinant formulae similar to those of the scalar products.

  16. Form factors and complete spectrum of XXX antiperiodic higher spin chains by quantum separation of variables

    Science.gov (United States)

    Niccoli, G.

    2013-05-01

    The antiperiodic transfer matrices associated to higher spin representations of the rational 6-vertex Yang-Baxter algebra are analyzed by generalizing the approach introduced recently in the framework of Sklyanin's quantum separation of variables (SOV) for cyclic representations, spin-1/2 highest weight representations, and also for spin-1/2 representations of the 6-vertex reflection algebra. Such SOV approach allow us to derive exactly results which represent complicate tasks for more traditional methods based on Bethe ansatz and Baxter Q-operator. In particular, we both prove the completeness of the SOV characterization of the transfer matrix spectrum and its simplicity. Then, the derived characterization of local operators by Sklyanin's quantum separate variables and the expression of the scalar products of separate states by determinant formulae allow us to compute the form factors of the local spin operators by one determinant formulae similar to those of the scalar products.

  17. Stochastic Monte-Carlo Markov Chain Inversions on Models Regionalized Using Receiver Functions

    Science.gov (United States)

    Larmat, C. S.; Maceira, M.; Kato, Y.; Bodin, T.; Calo, M.; Romanowicz, B. A.; Chai, C.; Ammon, C. J.

    2014-12-01

    There is currently a strong interest in stochastic approaches to seismic modeling - versus deterministic methods such as gradient methods - due to the ability of these methods to better deal with highly non-linear problems. Another advantage of stochastic methods is that they allow the estimation of the a posteriori probability distribution of the derived parameters, meaning the envisioned Bayesian inversion of Tarantola allowing the quantification of the solution error. The cost to pay of stochastic methods is that they require testing thousands of variations of each unknown parameter and their associated weights to ensure reliable probabilistic inferences. Even with the best High-Performance Computing resources available, 3D stochastic full waveform modeling at the regional scale still remains out-of-reach. We are exploring regionalization as one way to reduce the dimension of the parameter space, allowing the identification of areas in the models that can be treated as one block in a subsequent stochastic inversion. Regionalization is classically performed through the identification of tectonic or structural elements. Lekic & Romanowicz (2011) proposed a new approach with a cluster analysis of the tomographic velocity models instead. Here we present the results of a clustering analysis on the P-wave receiver-functions used in the subsequent inversion. Different clustering algorithms and quality of clustering are tested for different datasets of North America and China. Preliminary results with the kmean clustering algorithm show that an interpolated receiver function wavefield (Chai et al., GRL, in review) improve the agreement with the geological and tectonic regions of North America compared to the traditional approach of stacked receiver functions. After regionalization, 1D profile for each region is stochastically inferred using a parallelized code based on Monte-Carlo Markov Chains (MCMC), and modeling surfacewave-dispersion and receiver

  18. q-power function overq-commuting variables and deformed XXX and XXZ chains

    International Nuclear Information System (INIS)

    We find certain functional identities for the Gauss q-power function of a sum of q-commuting variables. Then we use these identities to obtain two-parameter twists of the quantum affine algebra Uq(sl-circumflex2) and of the Yangian Y(sl2). We determine the corresponding deformed trigonometric and rational quantum R matrices, which then are used in the computation of deformed XXX and XXZ Hamiltonians

  19. q-Power function over q-commuting variables and deformed XXX, XXZ chains

    International Nuclear Information System (INIS)

    Certain functional identifies for the Gauss q-power function of a sum of q-commuting variables are found. Then these identifies are used to obtain two-parameter twists of the quantum affine algebra Uq(sl2) and of the Yangian Y(sl2). The corresponding deformed trigonometric and rational quantum R matrices, which then are used in the computation of deformed XXX and XXZ Hamiltonians

  20. Is Regional Root Reinforcement Controlled by Soil Moisture Variability?

    Science.gov (United States)

    Hales, T.; Ford, C. R.

    2011-12-01

    of "bound water" (water present in the cell wall), which in turn affected the strength of the cellulose fibrils that provide tensile strength. This phenomenon, which is the reason any wet wood is weaker than dry wood, results in a 50% difference in root tensile strength within the range of soil moisture measured in the field. We used a one-dimensional finite difference model to explore the effects of soil moisture on root cohesion. Our model shows that changes in the distribution of root biomass represent the primary control on root cohesion (representing up to 50% of intra-specific variability in root cohesion). Local changes in soil moisture result in ~20% change in the overall root cohesion. Our work suggest a feed-forward process in precipitation (and thus soil moisture), root strength changes, and debris flow hazard.

  1. Multiannual runoff variability in the upper Danube region

    International Nuclear Information System (INIS)

    The main results and new knowledge of the presented Thesis can be summarized as follows: - The daily mean discharge time series of the river Danube at Bratislava has been supplemented with data from years 1876-1890. So it has been extended into the full-uninterrupted daily data series for the length of 130 years. Such series of the daily mean discharges is suitable for statistical analyses of the hydrological characteristics changes, and also for identification of the multi-annual (up to 30- years) cycles. - Using the combined periodogram method and the series filtration, in the discharge time series, the variegation cycles of dry and wet time periods were searched. For such objective, the time series were used, of more than 100 rivers of the world. From the longer cycles in the series the approximately 28-30 and 20-22 yrs. cycles of the dry and wet periods occurrence were identified. However, the cycle lengths is not exactly 28 and 21 years, but in the long term average, they come close to these values. From the shorter cycles, those with 7.8-, 6.5-, 5.2-; 4.14-, 3.65, and 2.4- years were identified. - These periods were documented for the discharge series of the analyzed rivers in various physiographic latitudes of the world. It is then possible to consider this piece of knowledge as generally valid for the whole Earth. These periods are connected with the Solar activity and with the thermohaline circulation (ocean conveyor belt). Their parts are also the El Nino, AO, NAO, and QBO phenomena. - Through the cross-correlations (two variables), time shift of the dry and wet periods was identified depending upon the geographical longitude and latitude of the river basins location. From these results it follows, that the dry and wet periods do not occur at the same time on various locations. This time shift depends upon the basins location, and it follows upon the shift in the precipitations occurrence. - The trend analysis did not indicate any significant trends in

  2. Identification of local conformational similarity in structurally variable regions of homologous proteins using protein blocks.

    Science.gov (United States)

    Agarwal, Garima; Mahajan, Swapnil; Srinivasan, Narayanaswamy; de Brevern, Alexandre G

    2011-01-01

    Structure comparison tools can be used to align related protein structures to identify structurally conserved and variable regions and to infer functional and evolutionary relationships. While the conserved regions often superimpose well, the variable regions appear non superimposable. Differences in homologous protein structures are thought to be due to evolutionary plasticity to accommodate diverged sequences during evolution. One of the kinds of differences between 3-D structures of homologous proteins is rigid body displacement. A glaring example is not well superimposed equivalent regions of homologous proteins corresponding to α-helical conformation with different spatial orientations. In a rigid body superimposition, these regions would appear variable although they may contain local similarity. Also, due to high spatial deviation in the variable region, one-to-one correspondence at the residue level cannot be determined accurately. Another kind of difference is conformational variability and the most common example is topologically equivalent loops of two homologues but with different conformations. In the current study, we present a refined view of the "structurally variable" regions which may contain local similarity obscured in global alignment of homologous protein structures. As structural alphabet is able to describe local structures of proteins precisely through Protein Blocks approach, conformational similarity has been identified in a substantial number of 'variable' regions in a large data set of protein structural alignments; optimal residue-residue equivalences could be achieved on the basis of Protein Blocks which led to improved local alignments. Also, through an example, we have demonstrated how the additional information on local backbone structures through protein blocks can aid in comparative modeling of a loop region. In addition, understanding on sequence-structure relationships can be enhanced through our approach. This has been

  3. Improved fluoroquinolone detection in ELISA through engineering of a broad-specific single-chain variable fragment binding simultaneously to 20 fluoroquinolones.

    Science.gov (United States)

    Wen, Kai; Nölke, Greta; Schillberg, Stefan; Wang, Zhanhui; Zhang, Suxia; Wu, Congming; Jiang, Haiyang; Meng, Hui; Shen, Jianzhong

    2012-07-01

    Fluoroquinolones (FQs) are a group of synthetic, broad-spectrum antibacterial agents. Due to its extensive use in animal industry and aquaculture, residues of these antibiotics and the emergence of bacteria resistant to FQs have become a major public health issue. To prepare a generic antibody capable of recognizing nearly all FQs, a single-chain variable fragment (scFv) was generated from the murine hybridoma cells C49H1 producing a FQ-specific monoclonal antibody. This scFv was characterized by indirect competitive enzyme-linked immunosorbent assay (ciELISA), and it showed identical binding properties to parental monoclonal antibody: it was capable of recognizing 17 of 20 targeted FQs below maximum residue limits, except for sarafloxacin (SAR), difloxacin (DIF), and trovafloxacin (TRO) which are highly concerned members in the FQs family. In order to broaden the specificity of this scFv to SAR and its analogues (DIF and TRO), protein homology modeling and antibody-ligands docking analysis were employed to identify the potential key amino acid residues involved in hapten antibody. A mutagenesis phage display library was generated by site directed mutagenesis randomizing five aminoacid residues in the third heavy-chain complementarity determining region. After one round of panning against biotinylated norfloxacin (NOR) and four rounds of panning against biotinylated SAR, scFv variants we screened showed up to 10-fold improved IC(50) against SAR, DIF, and TRO in ciELISA while the specificity against other FQs was fully retained. PMID:22549819

  4. Regional variability of environmental effects of energy crop rotations

    Science.gov (United States)

    Prescher, Anne-Katrin; Peter, Christiane; Specka, Xenia; Willms, Matthias; Glemnitz, Michael

    2014-05-01

    The use of energy crops for bioenergy production is increasingly promoted by different frameworks and policies (ECCP, UNFCCC). Energy cropping decreases greenhouse gas emissions by replacing the use of fossil fuel. However, despite this, growing in monocultures energy crop rotations has low environmental benefit. It is broadly accepted consensus that sustainable energy cropping is only realizable by crop rotations which include several energy crop species. Four crop rotations consisting of species mixtures of C3, C4 and leguminous plants and their crop positions were tested to identify the environmental effect of energy cropping systems. The experimental design included four replicates per crop rotation each covering four cultivation years. The study took place at five sites across Germany covering a considerable range of soil types (loamy sand to silt loam), temperatures (7.5 ° C - 10.0 ° C) and precipitation (559 mm - 807 mm) which allow a regional comparison of crop rotation performance. Four indicators were used to characterize the environmental conditions: (1) greenhouse gas (GHG) emissions from the management actions; (2) change in humus carbon (Chum); (3) groundwater recharge (RGW) and (4) nitrogen dynamics. The indicators were derived by balance, by an empirical model and by a dynamic model, respectively, all based and calibrated on measured values. The results show that the crop rotation impact on environmental indicators varied between plant species mixtures and the crop positions, between sites and climate. Crop rotations with 100 % energy crops (including C4 plants) had negative influence on Chum, GHG emissions per area and RGW in comparison to the rotation of 50 % energy crops and 50 % cash crops, which were mainly due to the remaining straw on the field. However, the biogas yield of the latter rotation was smaller, thus GHG emissions per product were higher, pointing out the importance to distinguish between GHG emissions per product and per area

  5. Production of a soluble single-chain variable fragment antibody against okadaic acid and exploration of its specific binding.

    Science.gov (United States)

    He, Kuo; Zhang, Xiuyuan; Wang, Lixia; Du, Xinjun; Wei, Dong

    2016-06-15

    Okadaic acid is a lipophilic marine algal toxin commonly responsible for diarrhetic shellfish poisoning (DSP). Outbreaks of DSP have been increasing and are of worldwide public health concern; therefore, there is a growing demand for more rapid, reliable, and economical analytical methods for the detection of this toxin. In this study, anti-okadaic acid single-chain variable fragment (scFv) genes were prepared by cloning heavy and light chain genes from hybridoma cells, followed by fusion of the chains via a linker peptide. An scFv-pLIP6/GN recombinant plasmid was constructed and transformed into Escherichia coli for expression, and the target scFv was identified with IC-CLEIA (chemiluminescent enzyme immunoassay). The IC15 was 0.012 ± 0.02 μg/L, and the IC50 was 0.25 ± 0.03 μg/L. The three-dimensional structure of the scFv was simulated with computer modeling, and okadaic acid was docked to the scFv model to obtain a putative structure of the binding complex. Two predicted critical amino acids, Ser32 and Thr187, were then mutated to verify this theoretical model. Both mutants exhibited significant loss of binding activity. These results help us to understand this specific scFv-antigen binding mechanism and provide guidance for affinity maturation of the antibody in vitro. The high-affinity scFv developed here also has potential for okadaic acid toxin detection. PMID:26772159

  6. An assay for the detection of grapevine leafroll-associated virus 3 using a single-chain fragment variable antibody.

    Science.gov (United States)

    Cogotzi, Laura; Giampetruzzi, Annalisa; Nölke, Greta; Orecchia, Martin; Elicio, Vito; Castellano, Maria Antonietta; Martelli, Giovanni P; Fischer, Rainer; Schillberg, Stefan; Saldarelli, Pasquale

    2009-01-01

    Grapevine leafroll-associated virus 3 (GLRaV-3) is a major pathogen of grapevine. A previously described single-chain fragment variable (scFv) antibody (scFvLR3), directed against the coat protein (CP) of GLRaV-3, was expressed in Escherichia coli and used to develop a diagnostic ELISA kit. The antibody was fused to the light chain constant domain of human immunoglobulin to create the bivalent reagent C(L)-LR3, which was purified from the periplasmic fraction, giving a yield of ~5 mg/l. The sensitivity of the reagent against recombinant GLRaV-3 CP was 0.1 ng. The sensitivity, specificity and durability of the reagent was similar to a commercial kit. The C(L)-LR3 showed a weak cross-reaction in immune electron microscopy assays to GLRaV-1 and -7, but not with the phylogenetically more distant GLRaV-2. A fully recombinant kit was developed with the inclusion of a recombinant GLRaV-3 CP expressed in bacteria, thus avoiding problems associated with virus propagation and purification. This system represents a rapid, simple, sensitive and standardized diagnostic protocol for GLRaV-3 detection. PMID:19082687

  7. Capturing subregional variability in regional-scale climate change vulnerability assessments of natural resources.

    Science.gov (United States)

    Buotte, Polly C; Peterson, David L; McKelvey, Kevin S; Hicke, Jeffrey A

    2016-03-15

    Natural resource vulnerability to climate change can depend on the climatology and ecological conditions at a particular site. Here we present a conceptual framework for incorporating spatial variability in natural resource vulnerability to climate change in a regional-scale assessment. The framework was implemented in the first regional-scale vulnerability assessment conducted by the US Forest Service. During this assessment, five subregional workshops were held to capture variability in vulnerability and to develop adaptation tactics. At each workshop, participants answered a questionnaire to: 1) identify species, resources, or other information missing from the regional assessment, and 2) describe subregional vulnerability to climate change. Workshop participants divided into six resource groups; here we focus on wildlife resources. Participants identified information missing from the regional assessment and multiple instances of subregional variability in climate change vulnerability. We provide recommendations for improving the process of capturing subregional variability in a regional vulnerability assessment. We propose a revised conceptual framework structured around pathways of climate influence, each with separate rankings for exposure, sensitivity, and adaptive capacity. These revisions allow for a quantitative ranking of species, pathways, exposure, sensitivity, and adaptive capacity across subregions. Rankings can be used to direct the development and implementation of future regional research and monitoring programs. The revised conceptual framework is equally applicable as a stand-alone model for assessing climate change vulnerability and as a nested model within a regional assessment for capturing subregional variability in vulnerability. PMID:26796918

  8. Immunoglobulin heavy chain variable region gene utilization by B cell hybridomas derived from rheumatoid synovial tissue.

    Science.gov (United States)

    Brown, C M; Longhurst, C; Haynes, G; Plater-Zyberk, C; Malcolm, A; Maini, R N

    1992-08-01

    Rheumatoid arthritis (RA) is a chronic inflammatory disease that primarily affects synovial joints. Activated B lymphocytes and plasma cells are present in the synovial tissue and are thought to contribute to the immunopathology of the rheumatoid joint. To investigate rheumatoid synovial B lymphocytes, we have generated B cell hybridomas from synovial tissue of an RA patient. Here we describe the immunoglobulin VH gene repertoire of eight IgM- and 10 IgG-secreting synovial-derived hybridomas. The VH4 gene family is highly represented (38.5%) in this panel of hybridomas compared with the frequency of VH4 gene expression in circulating B lymphocytes reported previously (19-22%) and with the VH4 gene frequency we observed in a panel of hybridomas derived in the same manner from the spleen and tonsil of normal individuals (19%). The increased frequency of VH4 gene expression was not due to the expansion of a single B cell clone in vivo as none of these hybridomas was clonally related. Two synovial-derived hybridomas secreted autoantibodies; one (VH3+) secreted an IgM-rheumatoid factor (RF) and the other (VH4+) secreted IgM with polyreactive binding to cytoskeletal proteins and cardiolipin. The antibodies secreted by the remaining synovial-derived hybridomas were not reactive with the autoantigens tested. The VH gene usage in a proportion (5/17) of synovial-derived hybridomas that expressed CD5 antigen provided preliminary evidence that CD5+ B cells in RA synovium have a similar increase of VH4 gene expression reported for CD5+ B cells from normal individuals and patients with chronic lymphocytic leukaemia. PMID:1379132

  9. The Role of Low-Level Jets in Regional Climate Variability and Change

    Science.gov (United States)

    Weaver, S. J.

    2015-12-01

    Low Level Jets are ubiquitous features of the global climate system. These "rivers of air" in the lower atmosphere act as a scale transfer mechanism, bridging the larger scale climate variability and change to regionally focused impacts. During the boreal spring and summer, the North American low-level jet (NALLJ) transports copious amounts of momentum, heat, and moisture into central and eastern United States, with significant impacts on regional hydroclimate variability (drought and pluvial), extreme events (tornadic activity), ecology (jellyfish and bird migration), atmospheric constituent transport (ozone), and energy development (wind power). Given the interdisciplinary importance of the NALLJ, its mean state and variability on seasonal to multidecadal timescales will be discussed in a simple framework to stimulate cross-disciplinary thought and discussion with regard to warm season regional climate variability and change.

  10. Linking the uncertainty of low frequency variability in tropical forcing in regional climate change

    Energy Technology Data Exchange (ETDEWEB)

    Forest, Chris E. [The Pennsylvania State University; Barsugli, Joseph J. [Cooperative Institute for Research in Environmental Sciences (CIRES) at the University of Colorado at Boulder and NOAA Earth Systems Research Laboratory; Li, Wei [The Pennsylvania State University

    2015-02-20

    The project utilizes multiple atmospheric general circulation models (AGCMs) to examine the regional climate sensitivity to tropical sea surface temperature forcing through a series of ensemble experiments. The overall goal for this work is to use the global teleconnection operator (GTO) as a metric to assess the impact of model structural differences on the uncertainties in regional climate variability.

  11. Capturing field-scale variability in crop performance across a regional-scale climosequence

    Science.gov (United States)

    Brooks, E. S.; Poggio, M.; Anderson, T. R.; Gasch, C.; Yourek, M. A.; Ward, N. K.; Magney, T. S.; Brown, D. J.; Huggins, D. R.

    2014-12-01

    With the increasing availability of variable rate technology for applying fertilizers and other agrichemicals in dryland agricultural production systems there is a growing need to better capture and understand the processes driving field scale variability in crop yield and soil water. This need for a better understanding of field scale variability has led to the recent designation of the R. J. Cook Agronomy Farm (CAF) (Pullman, WA, USA) as a United States Department of Agriculture Long-Term Agro-Ecosystem Research (LTAR) site. Field scale variability at the CAF is closely monitored using extensive environmental sensor networks and intensive hand sampling. As investigating land-soil-water dynamics at CAF is essential for improving precision agriculture, transferring this knowledge across the regional-scale climosequence is challenging. In this study we describe the hydropedologic functioning of the CAF in relation to five extensively instrumented field sites located within 50 km in the same climatic region. The formation of restrictive argillic soil horizons in the wetter, cooler eastern edge of the region results in the development of extensive perched water tables, surface saturation, and surface runoff, whereas excess water is not an issue in the warmer, drier, western edge of the region. Similarly, crop and tillage management varies across the region as well. We discuss the implications of these regional differences on field scale management decisions and demonstrate how we are using proximal soil sensing and remote sensing imagery to better understand and capture field scale variability at a particular field site.

  12. Modelling the regional variability of the probability of high trihalomethane occurrence in municipal drinking water.

    Science.gov (United States)

    Cool, Geneviève; Lebel, Alexandre; Sadiq, Rehan; Rodriguez, Manuel J

    2015-12-01

    The regional variability of the probability of occurrence of high total trihalomethane (TTHM) levels was assessed using multilevel logistic regression models that incorporate environmental and infrastructure characteristics. The models were structured in a three-level hierarchical configuration: samples (first level), drinking water utilities (DWUs, second level) and natural regions, an ecological hierarchical division from the Quebec ecological framework of reference (third level). They considered six independent variables: precipitation, temperature, source type, seasons, treatment type and pH. The average probability of TTHM concentrations exceeding the targeted threshold was 18.1%. The probability was influenced by seasons, treatment type, precipitations and temperature. The variance at all levels was significant, showing that the probability of TTHM concentrations exceeding the threshold is most likely to be similar if located within the same DWU and within the same natural region. However, most of the variance initially attributed to natural regions was explained by treatment types and clarified by spatial aggregation on treatment types. Nevertheless, even after controlling for treatment type, there was still significant regional variability of the probability of TTHM concentrations exceeding the threshold. Regional variability was particularly important for DWUs using chlorination alone since they lack the appropriate treatment required to reduce the amount of natural organic matter (NOM) in source water prior to disinfection. Results presented herein could be of interest to authorities in identifying regions with specific needs regarding drinking water quality and for epidemiological studies identifying geographical variations in population exposure to disinfection by-products (DBPs). PMID:26563233

  13. Development of a single-chain variable fragment-alkaline phosphatase fusion protein and a sensitive direct competitive chemiluminescent enzyme immunoassay for detection of ractopamine in pork

    Energy Technology Data Exchange (ETDEWEB)

    Dong Jiexian; Li Zhenfeng; Lei Hongtao; Sun Yuanming [Guangdong Provincial Key Laboratory of Food Quality and Safety, South China Agricultural University, Guangzhou 510642 (China); Ducancel, Frederic [CEA, iBiTec-S, Service de Pharmacologie et d' Immnoanalyse (SPI), CEA Saclay, F-91191 Gif sur Yvette (France); Xu Zhenlin [Guangdong Provincial Key Laboratory of Food Quality and Safety, South China Agricultural University, Guangzhou 510642 (China); Boulain, Jean-Claude [CEA, iBiTec-S, Service de Pharmacologie et d' Immnoanalyse (SPI), CEA Saclay, F-91191 Gif sur Yvette (France); Yang Jinyi; Shen Yudong [Guangdong Provincial Key Laboratory of Food Quality and Safety, South China Agricultural University, Guangzhou 510642 (China); Wang Hong, E-mail: gzwhongd@63.com [Guangdong Provincial Key Laboratory of Food Quality and Safety, South China Agricultural University, Guangzhou 510642 (China)

    2012-07-29

    Graphical abstract: Detection model of dc-CLEIA based on anti-RAC scFv-AP fusion protein. Highlights: Black-Right-Pointing-Pointer The scFv-AP fusion protein against ractopamine (RAC) was produced. Black-Right-Pointing-Pointer A dc-CLEIA for RAC was developed based on the purified scFv-AP fusion protein. Black-Right-Pointing-Pointer The sensitivity of dc-CLEIA was 10 times as sensitive as dc-ELISA for RAC. Black-Right-Pointing-Pointer Recovery tests from pork samples were studied. Black-Right-Pointing-Pointer Good accuracy was obtained. - Abstract: A rapid, sensitive chemiluminescent enzyme immunoassay (CLEIA) for ractopamine (RAC) based on a single-chain variable fragment (scFv)-alkaline phosphatase (AP) fusion protein was developed. The scFv gene was prepared by cloning the heavy- and light-chain variable region genes (V{sub H} and V{sub L}) from hybridoma cell line AC2, which secretes antibodies against RAC, and assembling V{sub H} and V{sub L} genes with a linker by means of splicing overlap extension polymerase chain reaction. The resulting scFv gene was inserted into the expression vector pLIP6/GN containing AP to produce the fusion protein in Escherichia coli strain BL21. The purified scFv-AP fusion protein was used to develop a direct competitive CLEIA (dcCLEIA) protocol for detection of RAC. The average concentration required for 50% inhibition of binding and the limit of detection of the assay were 0.25 {+-} 0.03 and 0.02 {+-} 0.004 ng mL{sup -1}, respectively, and the linear response range extended from 0.05 to 1.45 ng mL{sup -1}. The assay was 10 times as sensitive as the corresponding enzyme-linked immunosorbent assay based on the same fusion protein. Cross-reactivity studies showed that the fusion protein did not cross react with RAC analogs. DcCLEIA was used to analyze RAC spiked pork samples, and the validation was confirmed by high-performance liquid chromatography-tandem mass spectrometry (HPLC-MS). The results showed a good correlation between

  14. Development of a single-chain variable fragment-alkaline phosphatase fusion protein and a sensitive direct competitive chemiluminescent enzyme immunoassay for detection of ractopamine in pork

    International Nuclear Information System (INIS)

    Graphical abstract: Detection model of dc-CLEIA based on anti-RAC scFv-AP fusion protein. Highlights: ► The scFv-AP fusion protein against ractopamine (RAC) was produced. ► A dc-CLEIA for RAC was developed based on the purified scFv-AP fusion protein. ► The sensitivity of dc-CLEIA was 10 times as sensitive as dc-ELISA for RAC. ► Recovery tests from pork samples were studied. ► Good accuracy was obtained. - Abstract: A rapid, sensitive chemiluminescent enzyme immunoassay (CLEIA) for ractopamine (RAC) based on a single-chain variable fragment (scFv)-alkaline phosphatase (AP) fusion protein was developed. The scFv gene was prepared by cloning the heavy- and light-chain variable region genes (VH and VL) from hybridoma cell line AC2, which secretes antibodies against RAC, and assembling VH and VL genes with a linker by means of splicing overlap extension polymerase chain reaction. The resulting scFv gene was inserted into the expression vector pLIP6/GN containing AP to produce the fusion protein in Escherichia coli strain BL21. The purified scFv-AP fusion protein was used to develop a direct competitive CLEIA (dcCLEIA) protocol for detection of RAC. The average concentration required for 50% inhibition of binding and the limit of detection of the assay were 0.25 ± 0.03 and 0.02 ± 0.004 ng mL−1, respectively, and the linear response range extended from 0.05 to 1.45 ng mL−1. The assay was 10 times as sensitive as the corresponding enzyme-linked immunosorbent assay based on the same fusion protein. Cross-reactivity studies showed that the fusion protein did not cross react with RAC analogs. DcCLEIA was used to analyze RAC spiked pork samples, and the validation was confirmed by high-performance liquid chromatography–tandem mass spectrometry (HPLC–MS). The results showed a good correlation between the data of dc-CLEIA and HPLC–MS (R2 > 0.99), indicating that the assay was an efficient analytical method for monitoring food safety.

  15. Rainfall variability, climate change and regionalization in the African monsoon region

    International Nuclear Information System (INIS)

    This summary recalls some results at the end of the AMMA international experiment (2003-2010) in terms of variability of the African monsoon at the intra-seasonal to multi-decadal scales and of climate prospective. The results confirmed the weight of surface temperatures and marine tele-connections for inter-annual and decadal fluctuations and stressed the importance of atmospheric variability. They also described the dominant modes of intra-seasonal variability as their interactions with the surface. Several hypotheses involving memory effects related to soil water and vegetation, particularly in boreal spring and autumn have also been made. Prospective analysis from model output suggests rainfall surplus around 2050 over the Eastern-central Sahel and relative deficit to the West. Phase 2 of AMMA (2010-2020) will focus more on aspects that have a high social impact in direct collaboration with meteorological services predictability, prediction scores, operational indicators, evaluation of the part of anthropogenic forcing in the current and future variations. (authors)

  16. 服务供应链及其区域经济影响研究%Research on Service Supply Chain and Its Impacts on Regional Economics.

    Institute of Scientific and Technical Information of China (English)

    王雅萍

    2007-01-01

    It shows in the tendency of the global economic development in recent years that Services Science would no doubt become the next hot topic in economic study. And service supply chain is a new study aspect in supply chain management of services science. This article begins with study on the definition and characters of service supply chain, compares this with traditional supply chain, establishes the structure of its form and puts it into our regional economics to examine its impacts.

  17. The biogas value chains in the Swedish region of Skåne

    OpenAIRE

    Ericsson, Karin; Nikoleris, Alexandra; Nilsson, Lars J

    2013-01-01

    Biogas systems are complex in the sense that they cut across several sectors, mainly agriculture, waste management and energy. Cooperation between actors in these sectors must work for biogas projects to be realised and successful. The aim of this report is to describe the biogas systems in Skåne from a value chain perspective, including important development pathways. The different segments in the value chain are mapped with regard to actors, actors in supporting activities, technologies ...

  18. A complete hydro-climate model chain to investigate the influence of sea surface temperature on recent hydroclimatic variability in subtropical South America (Laguna Mar Chiquita, Argentina)

    Science.gov (United States)

    Troin, Magali; Vrac, Mathieu; Khodri, Myriam; Caya, Daniel; Vallet-Coulomb, Christine; Piovano, Eduardo; Sylvestre, Florence

    2016-03-01

    During the 1970s, Laguna Mar Chiquita (Argentina) experienced a dramatic hydroclimatic anomaly, with a substantial rise in its level. Precipitations are the dominant driving factor in lake level fluctuations. The present study investigates the potential role of remote forcing through global sea surface temperature (SST) fields in modulating recent hydroclimatic variability in Southeastern South America and especially over the Laguna Mar Chiquita region. Daily precipitation and temperature are extracted from a multi-member LMDz atmospheric general circulation model (AGCM) ensemble of simulations forced by HadISST1 observed time-varying global SST and sea-ice boundary conditions from 1950 to 2005. The various members of the ensemble are only different in their atmospheric initial conditions. Statistical downscaling (SD) is used to adjust precipitation and temperature from LMDz ensemble mean at the station scale over the basin. A coupled basin-lake hydrological model ( cpHM) is then using the LMDz-downscaled (LMDz-SD) climate variables as input to simulate the lake behavior. The results indicate that the long-term lake level trend is fairly well depicted by the LMDz-SD- cpHM simulations. The 1970s level rise and high-level conditions are generally well captured in timing and in magnitude when SST-forced AGCM-SD variables are used to drive the cpHM. As the LMDz simulations are forced solely with the observed sea surface conditions, the global SST seems to have an influence on the lake level variations of Laguna Mar Chiquita. As well, this study shows that the AGCM-SD- cpHM model chain is a useful approach for evaluating long-term lake level fluctuations in response to the projected climate changes.

  19. Compositional Variations of Primary Basalts in the Poison Lake Chain, Lassen Region of Northern California

    Science.gov (United States)

    Lewis, G. T.; Teasdale, R.; Wenner, J. M.

    2015-12-01

    Multiple compositional mantle domains are represented by primitive basalts of the Poison Lake chain (PLC), located east of the Lassen Volcanic Center in the southern Cascades and on the western margin of the Basin and Range. Four of the nine compositional groups of PLC basalts include primary basalt samples that represent distinct mantle compositions from which other samples are likely derived. Primitive basalts from two of the groups, the old railroad grade (bg; 102.1 +/- 11.4 ka) and the basalts of Poison Butte (bp; 105.0 +/- 6.0 ka), spatially and chronologically overlap. Both groups are primitive basalts that have phenocrysts of olivine, plagioclase and clinopyroxene. However, bg has larger, more euhedral olivine while bp has fewer, smaller, anhedral and embayed olivine phenocrysts. Compositionally, bg has higher whole-rock MgO (9.2-12.2 %) and Ni (189-238 ppm) and lower Zr (57-89 ppm) than bp (MgO = 5.3-7.8 %; Ni = 35-89 ppm; Zr = 98-153 ppm), suggesting bp has undergone more fractionation than bg. MELTS and REE models predict that the most primitive unit of bg (bg3) could have fractionated to produce the other three bg units. Similarly, MELTS and REE models suggest that four of the six units of bp can be derived by fractional crystallization from bg3. However, those models require that bg3 would need to fractionate between 40-50% in order to generate the bp compositions. Unreasonably high % fractionation suggests that the relationship between bg and bp groups is more complex than simple fractionation allows, but their similar Cr spinel compositions (bg Cr# =32.9-50.9 and bp Cr# = 44.0-56.3) suggest bg and bp are likely derived from a common mantle source. Additional petrogenetic modeling and isotope analyses will help clarify the relationship between PLC primitive basalt groups. The combination of small scale mantle heterogeneities along with detailed examination of magma processing are only recognized in the PLC with high density sampling, which may be

  20. Plasticity in the contribution of T cell receptor variable region residues to binding of peptide-HLA-A2 complexes

    Science.gov (United States)

    Smith, Sheena N.; Sommermeyer, Daniel; Piepenbrink, Kurt H.; Blevins, Sydney J.; Bernhard, Helga; Uckert, Wolfgang; Baker, Brian M.; Kranz, David M.

    2013-01-01

    One hypothesis to account for MHC-restriction by T cell receptors (TCRs) holds that there are several evolutionary-conserved residues in TCR variable regions that contact MHC. While this ‘germline-codon’ hypothesis is supported by various lines of evidence, it has been difficult to test. The difficulty stems in part from the fact that TCRs exhibit low affinities for pep/MHC, thus limiting the range of binding energies that can be assigned to these key interactions using mutational analyses. To measure the magnitude of binding energies involved, here we used high-affinity TCRs engineered by mutagenesis of CDR3. The TCRs included a high-affinity, MART-1/HLA-A2-specific single-chain TCR and two other high-affinity TCRs that all contain the same Vα (HLA-A2), with different peptides and Vβ regions. Mutational analysis of residues in CDR1 and CDR2 of the three Vα2 regions showed the importance of the key ‘germline codon” residue Y51. However, two other proposed key residues showed significant differences among the TCRs in their relative contributions to binding. Using single-position, yeast-display libraries in two of the key residues, MART-1/HLA-A2 selections also revealed strong preferences for wild-type ‘germline codon’ residues, but several alternative residues could also accommodate binding and hence, MHC-restriction. Thus, although a single residue (Y51) could account for a proportion of the energy associated with positive selection (i.e. MHC-restriction), there is significant plasticity in requirements for particular side-chains in CDR1 and CDR2 and in their relative binding contributions among different TCRs. PMID:23954306

  1. Modeling Urban Expansion in Bangkok Metropolitan Region Using Demographic–Economic Data through Cellular Automata-Markov Chain and Multi-Layer Perceptron-Markov Chain Models

    Directory of Open Access Journals (Sweden)

    Chudech Losiri

    2016-07-01

    Full Text Available Urban expansion is considered as one of the most important problems in several developing countries. Bangkok Metropolitan Region (BMR is the urbanized and agglomerated area of Bangkok Metropolis (BM and its vicinity, which confronts the expansion problem from the center of the city. Landsat images of 1988, 1993, 1998, 2003, 2008, and 2011 were used to detect the land use and land cover (LULC changes. The demographic and economic data together with corresponding maps were used to determine the driving factors for land conversions. This study applied Cellular Automata-Markov Chain (CA-MC and Multi-Layer Perceptron-Markov Chain (MLP-MC to model LULC and urban expansions. The performance of the CA-MC and MLP-MC yielded more than 90% overall accuracy to predict the LULC, especially the MLP-MC method. Further, the annual population and economic growth rates were considered to produce the land demand for the LULC in 2014 and 2035 using the statistical extrapolation and system dynamics (SD. It was evident that the simulated map in 2014 resulting from the SD yielded the highest accuracy. Therefore, this study applied the SD method to generate the land demand for simulating LULC in 2035. The outcome showed that urban occupied the land around a half of the BMR.

  2. Regional Variability of the Effects of Land Use Systems on Soil Properties

    Institute of Scientific and Technical Information of China (English)

    2007-01-01

    In order to explore the regional variability of the effects of land use systems on soil properties, Shouyang County in Shanxi Province and Danling County in Sichuan Province of China were selected as the study areas. Field soil samples of the four land use systems (natural forest, forest plantation, shrubland, and cropland) were collected, respectively, from the two areas. The general statistical tools were used to analyze soil data. The results showed that the influence of land use systems on soil properties was significant. In general, soils in slightly human-disturbed land use systems presented a higher fertility level than those in strongly human-disturbed land use systems in both areas. Furthermore, the impacts of the same land use systems on soil properties showed a distinct regional variability, and even in the same land use system,different farming systems and site management measures (such as irrigation, fertilization, and pesticides) could also lead to the regional heterogeneity in soil properties. The regional variability of land use effects on soil properties reveals the regional variability of the effects of human activities on environmental changes, and could explain the complex relationship between humans and the natural environment in certain ways.

  3. Characterization of a high-affinity human antibody with a disulfide bridge in the third complementarity-determining region of the heavy chain.

    Science.gov (United States)

    Almagro, Juan Carlos; Raghunathan, Gopalan; Beil, Eric; Janecki, Dariusz J; Chen, Qiang; Dinh, Thai; LaCombe, Ann; Connor, Judy; Ware, Mark; Kim, Paul H; Swanson, Ronald V; Fransson, Johan

    2012-03-01

    Disulfide bridges are common in the antigen-binding site from sharks (new antigen receptor) and camels (single variable heavy-chain domain, VHH), in which they confer both structural diversity and domain stability. In human antibodies, cysteine residues in the third complementarity-determining region of the heavy chain (CDR-H3) are rare but naturally encoded in the IGHD germline genes. Here, by panning a phage display library designed based on human germline genes and synthetic CDR-H3 regions against a human cytokine, we identified an antibody (M3) containing two cysteine residues in the CDR-H3. It binds the cytokine with high affinity (0.4 nM), recognizes a unique epitope on the antigen, and has a distinct neutralization profile as compared with all other antibodies selected from the library. The two cysteine residues form a disulfide bridge as determined by mass spectrometric peptide mapping. Replacing the cysteines with alanines did not change the solubility and stability of the monoclonal antibody, but binding to the antigen was significantly impaired. Three-dimensional modeling and dynamic simulations were employed to explore how the disulfide bridge influences the conformation of CDR-H3 and binding to the antigen. On the basis of these results, we envision that designing human combinatorial antibody libraries to contain intra-CDR or inter-CDR disulfide bridges could lead to identification of human antibodies with unique binding profiles. PMID:22407976

  4. Participation in global horticulture value chains:Implications for poverty alleviation in the Sub-Saharan Africa (SSA) region

    OpenAIRE

    Afari-Owusu, Elizabeth

    2014-01-01

    There are approximately one billion people predominantly in Asia and sub-Saharan Africa (SSA) who live in extreme poverty because they are adversely linked to the process of globalization and not optimally integrated in global value chains. In the SSA region, agriculture is the main occupation where most of the rural population are employed and earn incomes. The horticulture sector a subset of agriculture is one of the value creating sectors where opportunities exist for the rural population ...

  5. Supply chains for innovation activity in regional industrial systems in Poland – some evidence from empirical research

    OpenAIRE

    Arkadiusz Swiadek

    2015-01-01

    Space and relations with suppliers and customers are significant determinants of innovativeness in industry not only in Poland, but also in much more developed countries. In industrial systems at their early phases of development, high tech solutions are usually owned by a relatively small number of enterprises, usually foreign ones. It affects the slow and limited diffusion of knowledge in regions without connection to an international chains of knowledge flow. In a such cases enclaves of in...

  6. A chimera of green fluorescent protein with single chain variable fragment antibody against ginsenosides for fluorescence-linked immunosorbent assay.

    Science.gov (United States)

    Sakamoto, Seiichi; Tanizaki, Yusuke; Pongkitwitoon, Benyakan; Tanaka, Hiroyuki; Morimoto, Satoshi

    2011-05-01

    A chimera of green fluorescent protein extracted from Aequorea coerulescens (AcGFP), a mutant that has been codon optimized for mammalian expression, with single-chain variable fragment (scFv) antibody against ginsenoside Re (GRe-scFv), named fluobody, has been successfully expressed in Escherichia coli (E. coli) to develop simple, speedy, and sensitive fluorescence-linked immunosorbent assay (FLISA). Two chimera proteins were constructed to contain GRe-scFv at the C-terminus of AcGFP (C-fluobody) and at the N-terminus of AcGFP (N-fluobody). These fluobodies were then purified by ion metal affinity chromatography and refolded by stepwise dialysis. The characterization of both fluobodies revealed that C-fluobody was found to be appropriate probe for FLISA as compare with N-fluobody. Furthermore, improvement of limit of detection (LOD) was observed in FLISA using C-fluobody (10 ng/mL) due to its strong fluorescence intensity of AcGFP compared with conventional enzyme-linked immunosorbent assay (ELISA) using parental monoclonal antibody against ginsenoside Re (G-Re), MAb-4G10 (100 ng/mL). Since some steps required in ELISA can be avoided in this present FLISA, speedy and sensitive immunoassay also could be performed using fluobody instead of monoclonal antibody and scFv. PMID:21277981

  7. Infinite Systems of Interacting Chains with Memory of Variable Length—A Stochastic Model for Biological Neural Nets

    Science.gov (United States)

    Galves, A.; Löcherbach, E.

    2013-06-01

    We consider a new class of non Markovian processes with a countable number of interacting components. At each time unit, each component can take two values, indicating if it has a spike or not at this precise moment. The system evolves as follows. For each component, the probability of having a spike at the next time unit depends on the entire time evolution of the system after the last spike time of the component. This class of systems extends in a non trivial way both the interacting particle systems, which are Markovian (Spitzer in Adv. Math. 5:246-290, 1970) and the stochastic chains with memory of variable length which have finite state space (Rissanen in IEEE Trans. Inf. Theory 29(5):656-664, 1983). These features make it suitable to describe the time evolution of biological neural systems. We construct a stationary version of the process by using a probabilistic tool which is a Kalikow-type decomposition either in random environment or in space-time. This construction implies uniqueness of the stationary process. Finally we consider the case where the interactions between components are given by a critical directed Erdös-Rényi-type random graph with a large but finite number of components. In this framework we obtain an explicit upper-bound for the correlation between successive inter-spike intervals which is compatible with previous empirical findings.

  8. Negative effects of a disulfide bond mismatch in anti-rabies G protein single-chain antibody variable fragment FV57.

    Science.gov (United States)

    Duan, Ye; Gu, Tiejun; Zhang, Xizhen; Jiang, Chunlai; Yuan, Ruosen; Li, Zhuang; Wang, Dandan; Chen, Xiaoxu; Wu, Chunlai; Chen, Yan; Wu, Yongge; Kong, Wei

    2014-06-01

    Rabies virus (RV) causes a fatal infectious disease requiring efficient post-exposure prophylaxis (PEP), which includes a rabies vaccine and rabies immunoglobulin (RIG). The single-chain antibody variable fragment (scFv), a small engineered antibody fragment derived from an antibody variable heavy chain and light chain, has the potential to replace the current application of RIG. In previous studies, we constructed and evaluated an anti-rabies virus G protein scFv (FV57) based on the monoclonal antibody CR57. Of the five cysteines in FV57, four are linked in intra-chain disulfide bonds (Cys-VH28/Cys-VH98 and Cys-VL16/Cys-VL84), and one is free (Cys-VL85). However, the thiol in Cys-VL85 neighboring Cys-VL84 in the CDR3 of the light chain is likely to mismatch with the thiol in Cys-VL16 during the renaturing process. In order to study effects of the mismatched disulfide bond, Cys-VL85 and Cys-VL84 of FV57 were mutated to serine to construct mutants FV57(VL85S) and FV57(VL84S). Furthermore, the disulfide bonds in the light chain of FV57, FV57(VL85S) and FV57(VL84S) were deleted by mutating Cys-VL16 to serine. All mutants were prepared and evaluated along with the original FV57. The results indicated that the mismatched disulfide bond of FV57 linking the light chain FR1 and CDR3 would confer deleterious negative effects on its activity against RV, likely due to spatial hindrance in the light chain CDR3. Moreover, avoidance of the disulfide bond mismatch provided an additional 30% protective efficacy against RV infection in the mouse RV challenge model. Thus, modifications of FV57 to eliminate the disulfide bond mismatch may provide a candidate therapeutic agent for effective PEP against rabies. PMID:24598312

  9. Interannual variability of rainfall over the Sahel based on multiple regional climate models simulations

    Science.gov (United States)

    Diallo, Ismaila; Sylla, Mouhamadou B.; Camara, Moctar; Gaye, Amadou T.

    2013-07-01

    We analyse the interannual variability of the averaged summer monsoon rainfall over the Sahel from multiple regional climate models driven by the ERA-interim reanalysis and seek to provide effective information for future modelling work. We find that the majority of the models are able to reproduce the rainfall variability with correlation coefficient exceeding 0.5 compared with observations. This is due to a good representation of the dynamics of the main monsoon features of the West African climate such as the monsoon flux, African Easterly Jet (AEJ) and Tropical Easterly Jet (TEJ). Among the models, only HIRHAM fails to reproduce the rainfall variability exhibiting hence a correlation coefficient of -0.2. This deficiency originates from the fact that HIRHAM does not properly capture the variability of monsoon flow and the relationship between rainfall and the AEJ dynamic. We conclude that a good performance of a regional climate model in simulating the monsoon dynamical features variability is of primary importance for a better representation of the interannual variability of rainfall over the Sahel.

  10. Regional Climate and Variability of the Summertime Continental United States in Reanalyses

    Science.gov (United States)

    Bosilovich, M G.; Robertson, F. R.; Roberts, B.

    2013-01-01

    Understanding climate variability at regional scales is an important for research and societal needs. Atmospheric retrospective-analyses (or reanalyses) integrate multitudes of observing systems with numerical models to produce continuous data that include variables not easily observed, if at all. The breadth of variables as well as observational influence included in reanalyses make them ideal for investigating climate variability. In this paper, we assess NASA s Modern Era Retrospective-analysis for Research and Application (MERRA) regional variability in North America, specifically the United States, in conjunction with current satellite data reanalyses. Emphasis is placed on summertime precipitation because 1) it is a difficult parameter to capture in the most difficult season, 2) significant observational resources exist to benchmark comparisons, and 3) accurate assessment of precipitation variability is crucial to a multitude of sectors and applications. Likewise, we have also begun to evaluate surface air temperature. While precipitation biases are identified, year to year variability of the precipitation variations, in many cases, are quite reasonable. However, some spurious long term trends and sudden shifts in the time series are also identified. In surface air temperature, analysis of station observations provides ERA Interim a clear overall advantage. However, in a number of regions, all the reanalyses are quite comparable in variability and trend. In other regions, significant precipitation biases may occur, which has implications for the ancillary process data in a reanalysis, such as surface fluxes. We also characterize the reanalyses ability to capture variability related to ENSO. In general, the summertime variations of precipitation in the reanalyses are more highly correlated (positively) to ENSO (using ENSO34) than are the observations. The Northwestern US shows the largest positive correlations to ENSO34, and reanalyses agree with that, and

  11. Characterization of a single-chain variable fragment recognizing a linear epitope of aβ: a biotechnical tool for studies on Alzheimer's disease?

    Directory of Open Access Journals (Sweden)

    Silke Dornieden

    Full Text Available Alzheimer's disease (AD is a progressive neurodegenerative disorder with devastating effects. Currently, therapeutic options are limited to symptomatic treatment. For more than a decade, research focused on immunotherapy for the causal treatment of AD. However, clinical trials with active immunization using Aβ encountered severe complications, for example meningoencephalitis. Consequently, attention focused on passive immunization using antibodies. As an alternative to large immunoglobulins (IgGs, Aβ binding single-chain variable fragments (scFvs were used for diagnostic and therapeutic research approaches. scFvs can be expressed in E. coli and may provide improved pharmacokinetic properties like increased blood-brain barrier permeability or reduced side-effects in vivo. In this study, we constructed an scFv from an Aβ binding IgG, designated IC16, which binds the N-terminal region of Aβ (Aβ(1-8. scFv-IC16 was expressed in E. coli, purified and characterized with respect to its interaction with different Aβ species and its influence on Aβ fibril formation. We were able to show that scFv-IC16 strongly influenced the aggregation behavior of Aβ and could be applied as an Aβ detection probe for plaque staining in the brains of transgenic AD model mice. The results indicate potential for therapy and diagnosis of AD.

  12. Regional myocardial extraction of a radioiodinated branched chain fatty acid during right ventricular pressure overload due to acute pulmonary hypertension

    International Nuclear Information System (INIS)

    To determine whether branched chain fatty acid extraction is reduced during right ventricular (RV) dysfunction due to acute pulmonary artery hypertension, studies were done in 6 anesthetized dogs. Regional branched chain fatty acid extraction was measured by comparing the myocardial uptake of I-125 labeled 15-[p-(iodophenyl)]-3-methylpentadecanoic acid (I-PDA) to myocardial blood flow. Acute pulmonary hypertension was induced by incremental intravenous injection of 100 micron diameter glass beads into six pentobarbital anesthetized, mechanically ventilated dogs. Myocardial blood flow was measured by radiolabeled microspheres both under baseline conditions and during pulmonary hypertension. Mean RV pressure rose from 12 +- 2 (mean +- SEM) to 30 +-3mmHg resulting in a 225 +- 16% increase in RV stroke work. RV ejection fraction, as assessed by gated blood pool scans fell from 39 +- 2 to 18 +- 2%. Left ventricular (LV) pressures, stroke work and ejection fraction were unchanged. Myocardial blood flow increased 132 + 59% in the RV free wall and 67 +- 22% in the RV septum. LV blood flow was unchanged. Despite increased RV work and myocardial blood flow, no differences were noted in the branched chain fatty acid extraction ratios among LV or RV free walls or septum. The authors conclude that early RV dysfunction associated with pulmonary artery hypertension is not due to inadequate myocardial blood flow or branched chain fatty acid extraction

  13. YSOVAR: Mid-infrared variability in the star-forming region Lynds 1688

    International Nuclear Information System (INIS)

    The emission from young stellar objects (YSOs) in the mid-infrared (mid-IR) is dominated by the inner rim of their circumstellar disks. We present IR data from the Young Stellar Object VARiability (YSOVAR) survey of ∼800 objects in the direction of the Lynds 1688 (L1688) star-forming region over four visibility windows spanning 1.6 yr using the Spitzer Space Telescope in its warm mission phase. Among all light curves, 57 sources are cluster members identified based on their spectral energy distribution and X-ray emission. Almost all cluster members show significant variability. The amplitude of the variability is larger in more embedded YSOs. Ten out of 57 cluster members have periodic variations in the light curves with periods typically between three and seven days, but even for those sources, significant variability in addition to the periodic signal can be seen. No period is stable over 1.6 yr. Nonperiodic light curves often still show a preferred timescale of variability that is longer for more embedded sources. About half of all sources exhibit redder colors in a fainter state. This is compatible with time-variable absorption toward the YSO. The other half becomes bluer when fainter. These colors can only be explained with significant changes in the structure of the inner disk. No relation between mid-IR variability and stellar effective temperature or X-ray spectrum is found.

  14. Solution structure and backbone dynamics of an antigen-free heavy chain variable domain (VHH) from Llama.

    Science.gov (United States)

    Renisio, Jean-Guillaume; Pérez, Janice; Czisch, Michael; Guenneugues, Marc; Bornet, Olivier; Frenken, Leon; Cambillau, Christian; Darbon, Hervé

    2002-06-01

    Camelids, (dromedaries, camels, and llamas) produce heavy-chains antibodies, with their antigen recognition sites composed of a single VH-like domain, referred to as VHH. The solution structure of one of these VHHs domains (VHH-H14), raised against the alpha subunit of the human chorionic gonadotropin hormone (hCG), has been determined by (15)N heteronuclear three-dimensional NMR spectroscopy. The framework is well resolved within the set of 20 best-calculated NMR structures and is close to that of classical VH domains from vertebrate antibodies, consisting of two antiparallel beta-sheets organized in a beta-barrel. Loops display a lower precision, especially the Complementarity Determining Regions (CDRs), involved in antigen recognition. Comparison of the three-dimensional VHH-H14 solution structure with its previously solved crystal structure (Spinelli et al., Nature Struct. Biol. 1996;3:752-757) reveals a high similarity to the framework, whereas significant conformational differences occur on CDRs, leading to the assumption that the antigen recognition site is a more mobile part. In order to deepen our insights into the dynamics of VHH-H14 in solution, (15)N relaxation was measured with longitudinal R1 and transverse R2 self-relaxation rates, and (15)N steady-state heteronuclear nuclear Overhauser enhancements (NOE), making it possible to probe picosecond-to-millisecond internal motions. Determination of dynamic parameters (S(2), tau(e), and Rex) through the Lipari-Szabo Model-free approach enables the identification of several regions with enhanced dynamics. Especially, the mobility measurements from NMR confirm that the antigen recognition site is the most mobile part of the VHH-H14 domain on picosecond-to-nanosecond fast time scales. Several residues belonging to the three CDRs are submitted to chemical exchange processes occurring on slow microsecond-to-millisecond time scales, suggesting that the formation of the VHH/antigen complex should be accompanied

  15. Epigenetic regulation of individual modules of the immunoglobulin heavy chain locus 3’ regulatory region (3’ RR

    Directory of Open Access Journals (Sweden)

    Barbara K Birshtein

    2014-04-01

    Full Text Available The Igh locus undergoes an amazing array of DNA rearrangements and modifications during B cell development. During early stages, the variable region gene is constructed from constituent variable (V, diversity (D and joining (J segments (VDJ joining. B cells that successfully express an antibody can be activated, leading to somatic hypermutation (SHM focused on the variable region, and class switch recombination (CSR, which substitutes downstream constant region genes for the originally used Cμ constant region gene. Many investigators, ourselves included, have sought to understand how these processes specifically target the Igh locus and avoid other loci and potential deleterious consequences of malignant transformation. Our laboratory has concentrated on a complex regulatory region (RR that is located downstream of Cα, the most 3’ of the Igh constant region genes. The ~40 kb 3’ RR, which is predicted to serve as a downstream major regulator of the Igh locus, contains two distinct segments: an ~28 kb region of four enhancers and an adjacent ~12 kb region containing multiple CTCF and Pax5 binding sites. Analysis of targeted mutations in mice by a number of investigators has concluded that the entire 3’ RR enhancer region is essential for SHM and CSR (but not for VDJ joining and for high levels of expression of multiple isotypes. The CTCF/Pax5 binding region is a candidate for influencing VDJ joining early in B cell development and serving as a potential insulator of the Igh locus. Components of the 3’ RR are subject to a variety of epigenetic changes during B cell development, i.e., DNAse I hypersensitivity, histone modifications and DNA methylation, in association with transcription factor binding. We propose that these changes provide a foundation by which regulatory elements in modules of the 3’ RR function by interacting with each other and with target sequences of the Igh locus.

  16. Quantification of β region IgA paraproteins - should we include immunochemical "heavy/light chain" measurements? Counterpoint.

    Science.gov (United States)

    Paolini, Lucia

    2016-06-01

    Serum protein electrophoresis (SPE), serum immunofixation (s-IFE), free light chain measurement (FLC) and nephelometric measurements of total immunoglobulin in serum (IgTot) are some of the laboratory tests required for the management of plasma cell proliferative disorders. The monoclonal protein is usually visible on SPE as a spike (M-spike) in the γ region and the derived densitogram is used to quantify it relative to serum total protein concentration. IgA M-protein, however, often migrates in the β region on SPE and its quantification can be masked by other serum proteins that migrate in this region. The immunoassay Hevylite™ (heavy/light chain, HLC) seems to solve this problem: it quantifies the involved/uninvolved isotype, calculating the ratio IgAκ/IgAλ, considered indicative of clonal proliferation. However, this test seems redundant in the case of artifacts on SPE such as obvious hemolysis or lipemia, or if the IgA M-spike is clearly visible in the β region. In conclusion whereas the IgA HLC assay does not represent an alternative to SPE and s-IFE in the diagnostic patient workup, it may prove to be an alternative to SPE, s-IFE and total IgA quantification in risk stratification and evaluation of response to therapy in patients affected by MM and other monoclonal plasma proliferative disorders. PMID:26812795

  17. Development of single chain variable fragment (scFv) antibodies against surface proteins of 'Ca. Liberibacter asiaticus'.

    Science.gov (United States)

    Yuan, Qing; Jordan, Ramon; Brlansky, Ronald H; Minenkova, Olga; Hartung, John

    2016-03-01

    'Candidatus Liberibacter asiaticus' is the causal agent of citrus huanglongbing, the most serious disease of citrus worldwide. We have developed and applied immunization and affinity screening methods to develop a primary library of recombinant single chain variable fragment (scFv) antibodies in an M13 vector, pKM19. The antibody population is enriched for antibodies that bind antigens of 'Ca. Liberibacter asiaticus'. The primary library has more than 10(7) unique antibodies and the genes that encode them. We have screened this library for antibodies that bind to specifically-chosen proteins that are present on the surface of 'Ca. Liberibacter asiaticus'. These proteins were used as targets for affinity-based selection of scFvs that bind to the major outer membrane protein, OmpA; the polysaccharide capsule protein KpsF; a protein component of the type IV pilus (CapF); and, two flagellar proteins FlhA and FlgI. These scFvs have been used in ELISA and dot blot assays against purified protein antigens and 'Ca. Liberibacter asiaticus' infected plant extracts. We have also recloned many of these scFvs into a plasmid expression vector designed for the production of scFvs. Screening of these scFvs was more efficient when phage-bound, rather than soluble scFvs, were used. We have demonstrated a technology to produce antibodies at will and against any protein target encoded by 'Ca. Liberibacter asiaticus'. Applications could include advanced diagnostic methods for huanglongbing and the development of immune labeling reagents for in planta applications. PMID:26744234

  18. Production and characterization of a biotinylated single-chain variable fragment antibody for detection of parathion-methyl.

    Science.gov (United States)

    Wang, Huimin; Zhao, Fengchun; Han, Xiao; Yang, Zhengyou

    2016-10-01

    In this article, we reported the development of a biotinylated single-chain variable fragment (scFv) antibody based indirect competitive enzyme-linked immunosorbent assay (IC-ELISA) for parathion-methyl (PM) detection. Firstly, a phage display library was generated using a pre-immunized BALB/C mouse against a specific hapten of PM. After four rounds of panning, the scFv gene fragments were transferred into a secreted expression vector. Then, the scFv antibodies were secreted expressed and screened by IC-ELISA against PM. The selected scFv antibody was fused with a biotin acceptor domain (BAD) and inserted into pET-28a(+) vector for high-level expression in Escherichia coli BL2 (DE3). After optimizing expression conditions, the scFv-BAD antibody was expressed as a soluble protein and biotinylated in vitro by the E. coli biotin ligase (BirA). Subsequently, the biotinylated scFv-BAD antibody was purified with a high yield of 59.2 ± 3.7 mg/L of culture, and was characterized by SDS-PAGE and western blotting. Finally, based on the biotinylated scFv-BAD, a sensitive IC-ELISA for detection of PM was developed, and the 50% inhibition value (IC50) of PM was determined as 14.5 ng/mL, with a limit of detection (LOD, IC10) of 0.9 ng/mL. Cross-reactivity (CR) studies revealed that the scFv antibody showed desirable specificity for PM. PMID:27181246

  19. A conjugate of an anti-midkine single-chain variable fragment to doxorubicin inhibits tumor growth

    International Nuclear Information System (INIS)

    Doxorubicin (DOX) was conjugated to a single-chain variable fragment (scFv) against human midkine (MK), and the conjugate (scFv-DOX) was used to target the chemotherapeutic agent to a mouse solid tumor model in which the tumor cells expressed high levels of human MK. The His-tagged recombinant scFv was expressed in bacteria, purified by metal affinity chromatography, and then conjugated to DOX using oxidative dextran (Dex) as a linker. The molecular formula of this immunoconjugate was scFv(Dex)1.3(DOX)20. In vitro apoptosis assays showed that the scFv-DOX conjugate was more cytotoxic against MK-transfected human adenocarcinoma cells (BGC823-MK) than untransfected cells (55.3 ± 2.4 vs 22.4 ± 3.8%) for three independent experiments. Nude mice bearing BGC823-MK solid tumors received scFv-DOX or equivalent doses of scFv + DOX for 2 weeks and tumor growth was more effectively inhibited by the scFv-DOX conjugate than by scFv + DOX (51.83% inhibition vs 40.81%). Histological analysis of the tumor tissues revealed that the highest levels of DOX accumulated in tumors from mice treated with scFv-DOX and this resulted in more extensive tumor cell death than in animals treated with the equivalent dose of scFv + DOX. These results show that the scFv-DOX conjugate effectively inhibited tumor growth in vivo and suggest that antigen-specific scFv may be competent drug-carriers

  20. Regional variability of farmer decision making and irrigation water use: insights from a data-scarce region of North India

    Science.gov (United States)

    O'Keeffe, Jimmy; Buytaert, Wouter; Brozović, Nick; Mijic, Ana

    2014-05-01

    Over the last fifty years, changes in agriculture brought about by the Green Revolution have transformed India from a famine-prone, drought-susceptible country into the worlds' third largest grain producer and one of the most intensively irrigated parts of the globe. Regionally, cheap energy, subsidised seeds and fertilisers, and in some areas Government purchase guarantees for grain promote the intensification of farming. While this allows farmers to survive, it also aggravates the drain agriculture is having on resources, particularly energy and water. Analysis at a regional scale, however, masks the considerable spatial variability that exists on a more localised level and must be taken into consideration to understand correctly aggregate system response to policy, hydrologic, and climatic change. In this study we present and analyse the results from over 100 farmer interviews conducted in the data-scarce districts of Jalaun and Sitapur on the Gangetic Plains of Uttar Pradesh during the post monsoon period of 2013. Variables such as the volumes and timing of irrigation water applied, sources of water, methods of abstraction and irrigation, and costs incurred are mapped, using qualitative data analysis and GIS. Large differences between the districts emerge, for instance in the region of Jalaun where cheaper canal water is available in addition to groundwater. This has enabled farmers to afford more water efficient technologies such as sprinklers, a practice not found in Sitapur which depends almost exclusively on more expensive diesel pumps. Results are used to delineate the spatial variability in water use practices, along with farmer behaviour and decision making. The primary data are compared with socio-economic information taken from regionally produced statistical abstracts. The combined data are used to identify the main drivers that influence farmer decision-making, which is in turn leading to groundwater overdraught in many parts of North India. Finally

  1. Simulation of Anomalous Regional Climate Events with a Variable Resolution Stretched Grid GCM

    Science.gov (United States)

    Fox-Rabinovitz, Michael S.

    1999-01-01

    The stretched-grid approach provides an efficient down-scaling and consistent interactions between global and regional scales due to using one variable-resolution model for integrations. It is a workable alternative to the widely used nested-grid approach introduced over a decade ago as a pioneering step in regional climate modeling. A variable-resolution General Circulation Model (GCM) employing a stretched grid, with enhanced resolution over the US as the area of interest, is used for simulating two anomalous regional climate events, the US summer drought of 1988 and flood of 1993. The special mode of integration using a stretched-grid GCM and data assimilation system is developed that allows for imitating the nested-grid framework. The mode is useful for inter-comparison purposes and for underlining the differences between these two approaches. The 1988 and 1993 integrations are performed for the two month period starting from mid May. Regional resolutions used in most of the experiments is 60 km. The major goal and the result of the study is obtaining the efficient down-scaling over the area of interest. The monthly mean prognostic regional fields for the stretched-grid integrations are remarkably close to those of the verifying analyses. Simulated precipitation patterns are successfully verified against gauge precipitation observations. The impact of finer 40 km regional resolution is investigated for the 1993 integration and an example of recovering subregional precipitation is presented. The obtained results show that the global variable-resolution stretched-grid approach is a viable candidate for regional and subregional climate studies and applications.

  2. Climatic variability of river outflow in the Pantanal region and the influence of sea surface temperature

    Science.gov (United States)

    Silva, Carlos Batista; Silva, Maria Elisa Siqueira; Ambrizzi, Tércio

    2016-03-01

    This paper investigates possible linear relationships between climate, hydrology, and oceanic surface variability in the Pantanal region (in South America's central area), over interannual and interdecadal time ranges. In order to verify the mentioned relations, lagged correlation analysis and linear adjustment between river discharge at the Pantanal region and sea surface temperature were used. Composite analysis for atmospheric fields, air humidity flux divergence, and atmospheric circulation at low and high levels, for the period between 1970 and 2003, was analyzed. Results suggest that the river discharge in the Pantanal region is linearly associated with interdecadal and interannual oscillations in the Pacific and Atlantic oceans, making them good predictors to continental hydrological variables. Considering oceanic areas, 51 % of the annual discharge in the Pantanal region can be linearly explained by mean sea surface temperature (SST) in the Subtropical North Pacific, Tropical North Pacific, Extratropical South Pacific, and Extratropical North Atlantic over the period. Considering a forecast approach in seasonal scale, 66 % of the monthly discharge variance in Pantanal, 3 months ahead of SST, is explained by the oceanic variables, providing accuracy around 65 %. Annual discharge values in the Pantanal region are strongly related to the Pacific Decadal Oscillation (PDO) variability (with 52 % of linear correlation), making it possible to consider an interdecadal variability and a consequent subdivision of the whole period in three parts: 1st (1970-1977), 2nd (1978-1996), and 3rd (1997-2003) subperiods. The three subperiods coincide with distinct PDO phases: negative, positive, and negative, respectively. Convergence of humidity flux at low levels and the circulation pattern at high levels help to explain the drier and wetter subperiods. During the wetter 2nd subperiod, the air humidity convergence at low levels is much more evident than during the other two

  3. Hydrological Impacts of Land Use Change and Climate Variability in the Headwater Region of the Heihe River Basin, Northwest China

    Science.gov (United States)

    Zhang, Ling; Nan, Zhuotong; Xu, Yi; Li, Shuo

    2016-01-01

    Land use change and climate variability are two key factors impacting watershed hydrology, which is strongly related to the availability of water resources and the sustainability of local ecosystems. This study assessed separate and combined hydrological impacts of land use change and climate variability in the headwater region of a typical arid inland river basin, known as the Heihe River Basin, northwest China, in the recent past (1995–2014) and near future (2015–2024), by combining two land use models (i.e., Markov chain model and Dyna-CLUE) with a hydrological model (i.e., SWAT). The potential impacts in the near future were explored using projected land use patterns and hypothetical climate scenarios established on the basis of analyzing long-term climatic observations. Land use changes in the recent past are dominated by the expansion of grassland and a decrease in farmland; meanwhile the climate develops with a wetting and warming trend. Land use changes in this period induce slight reductions in surface runoff, groundwater discharge and streamflow whereas climate changes produce pronounced increases in them. The joint hydrological impacts are similar to those solely induced by climate changes. Spatially, both the effects of land use change and climate variability vary with the sub-basin. The influences of land use changes are more identifiable in some sub-basins, compared with the basin-wide impacts. In the near future, climate changes tend to affect the hydrological regimes much more prominently than land use changes, leading to significant increases in all hydrological components. Nevertheless, the role of land use change should not be overlooked, especially if the climate becomes drier in the future, as in this case it may magnify the hydrological responses. PMID:27348224

  4. Coupled decadal variability of the North Atlantic Oscillation, regional rainfall and karst spring discharges in the Campania region (southern Italy

    Directory of Open Access Journals (Sweden)

    P. De Vita

    2012-05-01

    Full Text Available Thus far, studies on climate change have focused mainly on the variability of the atmospheric and surface components of the hydrologic cycle, investigating the impact of this variability on the environment, especially with respect to the risks of desertification, droughts and floods. Conversely, the impacts of climate change on the recharge of aquifers and on the variability of groundwater flow have been less investigated, especially in Mediterranean karst areas whose water supply systems depend heavily upon groundwater exploitation.

    In this paper, long-term climatic variability and its influence on groundwater recharge were analysed by examining decadal patterns of precipitation, air temperature and spring discharges in the Campania region (southern Italy, coupled with the North Atlantic Oscillation (NAO.

    The time series of precipitation and air temperature were gathered over 90 yr, from 1921 to 2010, using 18 rain gauges and 9 air temperature stations with the most continuous functioning. The time series of the winter NAO index and of the discharges of 3 karst springs, selected from those feeding the major aqueducts systems, were collected for the same period.

    Regional normalised indexes of the precipitation, air temperature and karst spring discharges were calculated, and different methods were applied to analyse the related time series, including long-term trend analysis using smoothing numerical techniques, cross-correlation and Fourier analysis.

    The investigation of the normalised indexes highlighted the existence of long-term complex periodicities, from 2 to more than 30 yr, with differences in average values of up to approximately ±30% for precipitation and karst spring discharges, which were both strongly correlated with the winter NAO index.

    Although the effects of the North Atlantic Oscillation (NAO had already been demonstrated in the long-term precipitation and streamflow patterns of

  5. Coupled decadal variability of the North Atlantic Oscillation, regional rainfall and karst spring discharges in the Campania region (southern Italy)

    Science.gov (United States)

    De Vita, P.; Allocca, V.; Manna, F.; Fabbrocino, S.

    2012-05-01

    Thus far, studies on climate change have focused mainly on the variability of the atmospheric and surface components of the hydrologic cycle, investigating the impact of this variability on the environment, especially with respect to the risks of desertification, droughts and floods. Conversely, the impacts of climate change on the recharge of aquifers and on the variability of groundwater flow have been less investigated, especially in Mediterranean karst areas whose water supply systems depend heavily upon groundwater exploitation. In this paper, long-term climatic variability and its influence on groundwater recharge were analysed by examining decadal patterns of precipitation, air temperature and spring discharges in the Campania region (southern Italy), coupled with the North Atlantic Oscillation (NAO). The time series of precipitation and air temperature were gathered over 90 yr, from 1921 to 2010, using 18 rain gauges and 9 air temperature stations with the most continuous functioning. The time series of the winter NAO index and of the discharges of 3 karst springs, selected from those feeding the major aqueducts systems, were collected for the same period. Regional normalised indexes of the precipitation, air temperature and karst spring discharges were calculated, and different methods were applied to analyse the related time series, including long-term trend analysis using smoothing numerical techniques, cross-correlation and Fourier analysis. The investigation of the normalised indexes highlighted the existence of long-term complex periodicities, from 2 to more than 30 yr, with differences in average values of up to approximately ±30% for precipitation and karst spring discharges, which were both strongly correlated with the winter NAO index. Although the effects of the North Atlantic Oscillation (NAO) had already been demonstrated in the long-term precipitation and streamflow patterns of different European countries and Mediterranean areas, the results

  6. Evidence for a quadruplex structure in the polymorphic hs1.2 enhancer of the immunoglobulin heavy chain 3' regulatory regions and its conservation in mammals.

    Science.gov (United States)

    Sette, Marco; D'Addabbo, Pietro; Kelly, Geoffrey; Cicconi, Alessandro; Micheli, Emanuela; Cacchione, Stefano; Poma, Anna; Gargioli, Cesare; Giambra, Vincenzo; Frezza, Domenico

    2016-11-01

    Regulatory regions in the genome can act through a variety of mechanisms that range from the occurrence of histone modifications to the presence of protein-binding loci for self-annealing sequences. The final result is often the induction of a conformational change of the DNA double helix, which alters the accessibility of a region to transcription factors and consequently gene expression. A ∼300 kb regulatory region on chromosome 14 at the 3' end (3'RR) of immunoglobulin (Ig) heavy-chain genes shows very peculiar features, conserved in mammals, including enhancers and transcription factor binding sites. In primates, the 3'RR is present in two copies, both having a central enhancer named hs1.2. We previously demonstrated the association between different hs1.2 alleles and Ig plasma levels in immunopathology. Here, we present the analysis of a putative G-quadruplex structure (tetraplex) consensus site embedded in a variable number tandem repeat (one to four copies) of hs1.2 that is a distinctive element among the enhancer alleles, and an investigation of its three-dimensional structure using bioinformatics and spectroscopic approaches. We suggest that both the role of the enhancer and the alternative effect of the hs1.2 alleles may be achieved through their peculiar three-dimensional-conformational rearrangement. © 2016 Wiley Periodicals, Inc. Biopolymers 105: 768-778, 2016. PMID:27287611

  7. Some aspects of regional flow of variable-density groundwater in crystalline basement rock of Sweden

    International Nuclear Information System (INIS)

    The distribution of saltwaters in the Baltic shield in Sweden is consistent with ongoing but incomplete Holocene flushing and depends on the geometry and connectivity of conductive structures at both regional and local scales, and on the surface topography. Numerical simulation of regional variable-density fluid flow during Holocene land-rise and coastal regression shows that the existence of any old saltwater, whether derived from submarine recharge in regions below Sweden's highest post-glacial coastline or geochemical processes, is an indication either of slow fluid movements through the bedrock over long times, or of long travel distances through fracture systems before arriving at measurement points. During the land-rise period, regional flow is not affected by the variable density of fluids in the upper few kilometers of the shield and the topography of the water table is the only driving force. The spatial distribution of meteoric flushing water and pre-Holocene waters may be complex, with the possibility of relatively fresh water in fracture zones below salty units even at depths of a few kilometers. The domination of the topographic driving force implies that deep saltwater is not necessarily stagnant, and significant saltwater flows may be expected to occur in well-connected horizons even at depth. Local topography variation and fracture zone location combine to create a complex flow field in which local topographic driving forces extend to considerable depth in some areas, whereas regional topographic forces predominate in others. Thus, a pattern may be difficult to discern in measurements of the regional saltwater distribution, although it is clear that the coastal region is the major zone of discharge for deeper pre-Holocene fluids. During the land-rise period, regional flow equilibrates with changing climatic conditions and coastal positions, while the distribution of flushing water and older waters lags and will perpetually change between successive

  8. Contribution of Amino Acid Region 334−335 from Factor Va Heavy Chain to the Catalytic Efficiency of Prothrombinase†

    OpenAIRE

    Barhoover, Melissa A.; Orban, Tivadar; Beck, Daniel O.; Bukys, Michael A.; Kalafatis, Michael

    2008-01-01

    We have demonstrated that amino acids E323, Y324, E330, and V331 from the factor Va heavy chain are required for the interaction of the cofactor with factor Xa and optimum rates of prothrombin cleavage. We have also shown that amino acid region 332−336 contains residues that are important for cofactor function. Using overlapping peptides, we identified amino acids D334 and Y335 as contributors to cofactor activity. We constructed recombinant factor V molecules with the mutations D334 → K and ...

  9. 500 years of regional forest growth variability and links to climatic extreme events in Europe

    OpenAIRE

    Babst, Flurin; Carrer, Marco; Poulter, Benjamin; Urbinati, Carlo; Neuwirth, Burkhard; Frank, David

    2012-01-01

    Climatic extreme events strongly affect forest growth and thus significantly influence the inter-annual terrestrial carbon balance. As we are facing an increase in frequency and intensity of climate extremes, extensive empirical archives are required to assess continental scale impacts of temperature and precipitation anomalies. Here we divide a tree-ring network of approximately 1000 sites into fifteen groups of similar high-frequency growth variability to reconstruct regional positive and n...

  10. A regional landslide warning system based on spatially variable rainfall thresholds

    OpenAIRE

    Segoni S.; Rossi G; Rosi A.; Catani F.

    2010-01-01

    Rainfall is widely recognized as one of the major causes for landsliding. When studying the conditions of triggering of mass movements at regional scale, a process-based approach is seldom possible because of the complexity in the spatial organization of the involved independent variables (e.g. soil properties). Therefore, empirical methods based on the definition of triggering thresholds are usually employed for the definition of warning systems or for landslide hazard assessments. Such thre...

  11. Coupled decadal variability of the North Atlantic Oscillation, regional rainfall and spring discharges in the Campania region (Southern Italy

    Directory of Open Access Journals (Sweden)

    P. De Vita

    2011-12-01

    Full Text Available Climate change is one of the issues most debated by the scientific community with a special focus to the combined effects of anthropogenic modifications of the atmosphere and the natural climatic cycles. Various scenarios have been formulated in order to forecast the global atmospheric circulation and consequently the variability of the global distribution of air temperature and rainfall. The effects of climate change have been analysed with respect to the risks of desertification, droughts and floods, remaining mainly limited to the atmospheric and surface components of the hydrologic cycle. Consequently the impact of the climate change on the recharge of regional aquifers and on the groundwater circulation is still a challenging topic especially in those areas whose aqueduct systems depend basically on springs or wells, such as the Campania region (Southern Italy.

    In order to analyse the long-term climatic variability and its influence on groundwater circulation, we analysed decadal patterns of precipitation, air temperature and spring discharges in the Campania region (Southern Italy, coupled with the North Atlantic Oscillation (NAO.

    The time series of precipitation and air temperature were gathered over 90 yr, in the period from 1921 to 2010, choosing 18 rain gauges and 9 air temperature stations among those with the most continuous functioning as well as arranged in a homogeneous spatial distribution. Moreover, for the same period, we gathered the time series of the winter NAO index (December to March mean and of the discharges of the Sanità spring, belonging to an extended carbonate aquifer (Cervialto Mount located in the central-eastern area of the Campania region, as well as of two other shorter time series of spring discharges. The hydrogeological features of this aquifer, its relevance due to the feeding of an important regional aqueduct system, as well as the unique availability of a long-lasting time series of

  12. Characterization of CagA variable region of Helicobacter pylori isolates from Chinese patients

    Institute of Scientific and Technical Information of China (English)

    Yong-Liang Zhu; Shu Zheng; Qin Du; Ke-Da Qian; Ping-Chu Fang

    2005-01-01

    AIM: To characterize the CagA variable region of Helicobacter pylori isolates from Chinese patients.METHODS: DNA fragments in CagA variable region were amplified and sequenced respectively from genomic DNA of 19 isolates from patients with gastric cancer and 20isolates from patients with chronic gastritis. The tendency of phosphorylation in tyrosine(s) of CagA proteins was evaluated subsequently by phosphorylation assay in vivo and in vitro respectively.RESULTS: About 97.44% (38/39) H pylori isolates possessed CagA gene. CagA+ strains contained 2-4tandem five-amino-acid motifs EPIYA but only one EPIYA had repeated sequence in CagA variable region in different isolates. There was no significant difference between the number of EPIYA motifs in H pylori from patients with different diseases. However, only tyrosine site in EPIYA within repeated sequence could be phosphorylated by AGS cells in vivo although all tyrosine sites in EPIYA could be phosphorylated in vitro.CONCLUSION: CagA in Chinese has no functional difference in perturbing cellular signal pathway among different H pylori isolates.

  13. Generation and replication of continuous-variable quadripartite cluster and Greenberger-Horne-Zeilinger states in four chains of superconducting transmission line resonators

    Science.gov (United States)

    Li, Zhen; Ma, Sheng-li; Yang, Zhi-peng; Fang, Ai-ping; Li, Pen-bo; Gao, Shao-yan; Li, Fu-li

    2016-04-01

    We consider a system consisting of four independent chains of coupled single-mode superconducting transmission line resonators and a gap-tunable qubit. When the first four resonators of the chains are coupled to the qubit properly driven by multicolor fields, we show that the resonators can be prepared in continuous-variable quadripartite cluster states via the decay of the qubit to its ground state. Moreover, the resulting cluster states can be replicated in the other resonators in column via the nearest-neighbor swapping interaction of the resonators. This means that one can generate a set of cluster states, each of which involves the four resonators from the different chains. By a similar protocol, we show that the generation and replication of continuous-variable quadripartite Greenberger-Horne-Zeilinger states in the chains of the resonators can be achieved. The numerical simulation shows that the present scheme is realizable in current accessible on-chip quantum circuit experiments. The present result may have a potential application for the realization of a large-scale one-way quantum computation.

  14. Contribution of Amino Acid Region 659−663 of Factor Va Heavy Chain to the Activity of Factor Xa within Prothrombinase†,‡

    OpenAIRE

    Hirbawi, Jamila; John L. Vaughn; Bukys, Michael A.; Vos, Hans L.; Kalafatis, Michael

    2010-01-01

    Factor Va, the cofactor of prothrombinase, is composed of heavy and light chains associated noncovalently in the presence of divalent metal ions. The COOH-terminal region of the heavy chain contains acidic amino acid clusters that are important for cofactor activity. In this work, we have investigated the role of amino acid region 659−663, which contains five consecutive acidic amino acid residues, by site-directed mutagenesis. We have generated factor V molecules in which all residues were m...

  15. Variability of the tandem repeat region of the Escherichia coli tolA gene.

    Science.gov (United States)

    Zhou, Kai; Vanoirbeek, Kristof; Aertsen, Abram; Michiels, Chris W

    2012-06-01

    An intragenic tandem repeat (TR) region has been previously reported in the tolA gene of Escherichia coli. In silico analysis of 123 E. coli tolA sequences from Genbank and PCR analysis of the tolA TR region from 111 additional E. coli strains revealed that this TR region is highly variable. Nine different TR sizes with 8 up to 16 repeat units were found in in silico analysis and 6 of these were also found by PCR analysis. The 13-unit TR emerged as the predominant type using both approaches (47.2% and 86.5%, respectively). Remarkably, TRs in pathogenic strains appeared to be more variable than those in non-pathogens. To demonstrate the occurrence of TR variation in a clonal population, a selection system for TR deletion events was constructed by inserting the 13-unit TR region of MG1655 in frame into a plasmid-borne chloramphenicol acetyltransferase (cat) gene. The resulting cat gene no longer conferred chloramphenicol resistance unless the insert size was reduced by TR contraction. Using this system, Cm-resistant revertants with a TR contraction were recovered at a frequency of 1.1 × 10(-7), and contraction was shown to be recA-dependent and enhanced in a DNA repair-deficient mutS background. PMID:22659144

  16. The terroir of vineyards - climatic variability in an Austrian wine-growing region

    Science.gov (United States)

    Gerersdorfer, T.

    2010-09-01

    The description of a terroir is a concept in viticulture that relates the sensory attributes of wine to the environmental conditions in which the grapes grow. Many factors are involved including climate, soil, cultivar, human practices and all these factors interact manifold. The study area of Carnuntum is a small wine-growing region in the eastern part of Austria. It is rich of Roman remains which play a major role in tourism and the marketing strategies of the wines as well. An interdisciplinary study on the environmental characteristics particularly with regard to growing conditions of grapes was started in this region. The study is concerned with the description of the physiogeographic properties of the region and with the investigation of the dominating viticultural functions. Grape-vines depend on climatic conditions to a high extent. Compared to other influencing factors like soil, climate plays a significant role. In the framework of this interdisciplinary project climatic variability within the Carnuntum wine-growing region is investigated. On the one hand microclimatic variations are influenced by soil type and by canopy management. On the other hand the variability is a result of the topoclimate (altitude, aspect and slope) and therefore relief is a major terroir factor. Results of microclimatic measurements and variations are presented with focus on the interpretation of the relationship between relief, structure of the vineyards and the climatic conditions within the course of a full year period.

  17. US regional tornado outbreaks and their links to spring ENSO phases and North Atlantic SST variability

    Science.gov (United States)

    Lee, Sang-Ki; Wittenberg, Andrew T.; Enfield, David B.; Weaver, Scott J.; Wang, Chunzai; Atlas, Robert

    2016-04-01

    Recent violent and widespread tornado outbreaks in the US, such as occurred in the spring of 2011, have caused devastating societal impact with significant loss of life and property. At present, our capacity to predict US tornado and other severe weather risk does not extend beyond seven days. In an effort to advance our capability for developing a skillful long-range outlook for US tornado outbreaks, here we investigate the spring probability patterns of US regional tornado outbreaks during 1950–2014. We show that the four dominant springtime El Niño-Southern Oscillation (ENSO) phases (persistent versus early-terminating El Niño and resurgent versus transitioning La Niña) and the North Atlantic sea surface temperature tripole variability are linked to distinct and significant US regional patterns of outbreak probability. These changes in the probability of outbreaks are shown to be largely consistent with remotely forced regional changes in the large-scale atmospheric processes conducive to tornado outbreaks. An implication of these findings is that the springtime ENSO phases and the North Atlantic SST tripole variability may provide seasonal predictability of US regional tornado outbreaks.

  18. Critical regions with central charge c=1/2,7/10,4/5 in the spin-1 quantum chain

    International Nuclear Information System (INIS)

    The phase diagramm of the Blume-Emery-Griffiths spin-1-quantum chain is calculated by finite-size scaling with respect to all four parameters. We locate the three-dimensional critical manifold and determine a two-dimensional tricritical surface where the spectra exhibit conformal invariance corresponding to the central charges c=7/10 and 4/5. Choosing one parameter to be zero, we can treat the model analytically and from this the spectrum on a large part of the Ising-like critical region can be understood: there the spectrum consists of conformal c=1/2-levels on which a massive spectrum is superimposed. Calculating three-point functions we study which perturbations by primary fields lead from c=4/5 or c=7/10-critical points to Ising-type regions. (orig.)

  19. Generation and transfer of internal variability in a regional climate model

    Directory of Open Access Journals (Sweden)

    Thorsten Simon

    2013-12-01

    Full Text Available There is a strong need for tools allowing the comparison between the performance of a regional climate model (RCM and the corresponding model providing lateral boundary conditions (LBC for the RCM, which is a global general circulation model (GCM in most cases. A method is presented to investigate the temporal scales on which a RCM is able to generate internal variability on its own and on which variability is copied from the driving model. This is implemented by a cross-spectral analysis between the RCM output and a bi-linearly interpolated version of the driving model, leading to an estimate of the coherence spectrum. Applying the aforementioned technique to surface temperature and temperature and specific humidity at 850 hPa from the RCM COSMO-CLM East Asia with a horizontal resolution of 50 km and its driving model ECHAM5, it was found that features in the spatial distribution of coherence are related to atmospheric dynamics in East Asia, e.g. monsoons and inter-tropical convergence zone (ITCZ. A further application to a double-nesting approach, where COSMO-CLM East Asia is the driving model for two domains – namely the Haihe catchment and the Poyang catchment – each with a horizontal resolution of 7 km, shows that the frequencies on which internal variability is generated by the driven model are much higher compared to the first nesting step. Concluding RCMs can produce a considerable variability on the respective temporal scales. This implies that a dynamical downscaling with a re-analysis as LBC is conceptually different to a regional re-analysis, i.e. data assimilation on the regional scale.

  20. Generation of a Highly Reactive Chicken-Derived Single-Chain Variable Fragment against Fusarium verticillioides by Phage Display

    Directory of Open Access Journals (Sweden)

    Zu-Quan Hu

    2012-06-01

    Full Text Available Fusarium verticillioides is the primary causal agent of Fusarium ear and kernel rot in maize, producing fumonisin mycotoxins that are toxic to humans and domestic animals. Rapid detection and monitoring of fumonisin-producing fungi are pivotally important for the prevention of mycotoxins from entering into food/feed products. Chicken-derived single-chain variable fragments (scFvs against cell wall-bound proteins from F. verticillioides were isolated from an immunocompetent phage display library. Comparative phage enzyme-linked immunosorbant assays (ELISAs and sequencing analyses identified four different scFv antibodies with high sensitivity. Soluble antibody ELISAs identified two highly sensitive scFv antibodies, FvCA3 and FvCA4, with the latter being slightly more sensitive. Three-dimensional modeling revealed that the FvCA4 may hold a better overall structure with CDRH3, CDRL1 and CDRL3 centered in the core region of antibody surface compared with that of other scFvs. Immunofluorescence labeling revealed that the binding of FvCA4 antibody was localized to the cell walls of conidiospores and hyphae of F. verticillioides, confirming the specificity of this antibody for a surface target. This scFv antibody was able to detect the fungal mycelium as low as 10−2 μg/mL and contaminating mycelium at a quantity of 10−2 mg/g maize. This is the first report that scFv antibodies derived from phage display have a wide application for rapid and accurate detection and monitoring of fumonisin-producing pathogens in agricultural samples.

  1. Temporal Structures of the North Atlantic Oscillation and Its Impact on the Regional Climate Variability

    Institute of Scientific and Technical Information of China (English)

    2006-01-01

    In this study, the temporal structure of the variation of North Atlantic Oscillation (NAO) and its impact on regional climate variability are analyzed using various datasets. The results show that blocking formations in the Atlantic region are sensitive to the phase of the NAO. Sixty-seven percent more winter blocking days are observed during the negative phase compared to the positive phase of the NAO. The average length of blocking during the negative phase is about 11 days, which is nearly twice as long as the 6-day length observed during the positive phase of the NAO. The NAO-related differences in blocking frequency and persistence are associated with changes in the distribution of the surface air temperature anomaly, which, to a large extent, is determined by the phase of the NAO. The distribution of regional cloud amount is also sensitive to the phase of the NAO. For the negative phase, the cloud amounts are significant, positive anomalies in the convective zone in the Tropics and much less cloudiness in the mid latitudes. But for the positive phase of the NAO, the cloud amount is much higher in the mid-latitude storm track region. In the whole Atlantic region, the cloud amount shows a decrease with the increase of surface air temperature. These results suggest that there may be a negative feedback between the cloud amount and the surface air temperature in the Atlantic region.

  2. Regional and landscape-scale variability of Landsat-observed vegetation dynamics in northwest Siberian tundra

    International Nuclear Information System (INIS)

    Widespread increases in Arctic tundra productivity have been documented for decades using coarse-scale satellite observations, but finer-scale observations indicate that changes have been very uneven, with a high degree of landscape- and regional-scale heterogeneity. Here we analyze time-series of the Normalized Difference Vegetation Index (NDVI) observed by Landsat (1984–2012), to assess landscape- and regional-scale variability of tundra vegetation dynamics in the northwest Siberian Low Arctic, a little-studied region with varied soils, landscape histories, and permafrost attributes. We also estimate spatio-temporal rates of land-cover change associated with expansion of tall alder (Alnus) shrublands, by integrating Landsat time-series with very-high-resolution imagery dating to the mid-1960s. We compiled Landsat time-series for eleven widely-distributed landscapes, and performed linear regression of NDVI values on a per-pixel basis. We found positive net NDVI trends (‘greening’) in nine of eleven landscapes. Net greening occurred in alder shrublands in all landscapes, and strong greening tended to correspond to shrublands that developed since the 1960s. Much of the spatial variability of greening within landscapes was linked to landscape physiography and permafrost attributes, while between-landscape variability largely corresponded to differences in surficial geology. We conclude that continued increases in tundra productivity in the region are likely in upland tundra landscapes with fine-textured, cryoturbated soils; these areas currently tend to support discontinuous vegetation cover, but are highly susceptible to rapid increases in vegetation cover, as well as land-cover changes associated with the development of tall shrublands. (paper)

  3. Impacts of seasonal and regional variability in biogenic VOC emissions on surface ozone in the Pearl River Delta region, China

    Energy Technology Data Exchange (ETDEWEB)

    Situ, S.; Guenther, Alex B.; Wang, X. J.; Jiang, X.; Turnipseed, A.; Wu, Z.; Bai, J.; Wang, X.

    2013-12-05

    In this study, the BVOC emissions in November 2010 over the Pearl River Delta (PRD) region in southern China have been estimated by the latest version of a Biogenic Volatile Organic Compound (BVOC) emission model (MEGAN v2.1). The evaluation of MEGAN performance at a representative forest site within this region indicates MEGAN can estimate BVOC emissions reasonably well in this region except overestimating isoprene emission in autumn for reasons that are discussed in this manuscript. Along with the output from MEGAN, the Weather Research and Forecasting model with chemistry (WRF-Chem) is used to estimate the impacts of BVOC emissions on surface ozone in the PRD region. The results show BVOC emissions increase the daytime ozone peak by *3 ppb on average, and the max hourly impacts of BVOC emissions on the daytime ozone peak is 24.8 ppb. Surface ozone mixing ratios in the central area of Guangzhou- Foshan and the western Jiangmen are most sensitive to BVOC emissions BVOCs from outside and central PRD influence the central area of Guangzhou-Foshan and the western Jiangmen significantly while BVOCs from rural PRD mainly influence the western Jiangmen. The impacts of BVOC emissions on surface ozone differ in different PRD cities, and the impact varies in different seasons. Foshan and Jiangmen being most affected in autumn, result in 6.0 ppb and 5.5 ppb increases in surface ozone concentrations, while Guangzhou and Huizhou become more affected in summer. Three additional experiments concerning the sensitivity of surface ozone to MEGAN input variables show that surface ozone is more sensitive to landcover change, followed by emission factors and meteorology.

  4. Impacts of seasonal and regional variability in biogenic VOC emissions on surface ozone in the Pearl River Delta region, China

    Directory of Open Access Journals (Sweden)

    S. Situ

    2013-03-01

    Full Text Available In this study, the BVOC emissions in November 2010 over the Pearl River Delta (PRD region in southern China have been estimated by the latest version of a Biogenic Volatile Organic Compound (BVOC emission model (MEGAN v2.1. The evaluation of MEGAN performance at a representative forest site within this region indicates MEGAN can estimate BVOC emissions reasonably well in this region except overestimating isoprene emission in autumn for reasons that are discussed in this manuscript. Along with the output from MEGAN, the Weather Research and Forecasting model with chemistry (WRF-Chem is used to estimate the impacts of BVOC emissions on surface ozone in the PRD region. The results show BVOC emissions increase the daytime ozone peak by ~3 ppb on average, and the max hourly impacts of BVOC emissions on the daytime ozone peak is 24.8 ppb. Surface ozone mixing ratios in the central area of Guangzhou-Foshan and the western Jiangmen are most sensitive to BVOC emissions BVOCs from outside and central PRD influence the central area of Guangzhou-Foshan and the western Jiangmen significantly while BVOCs from rural PRD mainly influence the western Jiangmen. The impacts of BVOC emissions on surface ozone differ in different PRD cities, and the impact varies in different seasons. Foshan and Jiangmen being most affected in autumn, result in 6.0 ppb and 5.5 ppb increases in surface ozone concentrations, while Guangzhou and Huizhou become more affected in summer. Three additional experiments concerning the sensitivity of surface ozone to MEGAN input variables show that surface ozone is more sensitive to landcover change, followed by emission factors and meteorology.

  5. YSOVAR: Mid-infrared Variability Among YSOs in the Star Formation Region GGD 12-15

    CERN Document Server

    Wolk, Scott J; Poppenhaeger, Katja; Cody, A M; Rebull, L M; Forbrich, J; Gutermuth, R A; Hillenbrand, L A; Plavchan, P; Stauffer, J R; Covey, K R; Song, Inseok

    2015-01-01

    We present an IR-monitoring survey with the $Spitzer$ Space Telescope of the star forming region GGD 12-15. Over 1000 objects were monitored including about 350 objects within the central 5 arcminutes which is found to be especially dense in cluster members. The monitoring took place over 38 days and is part of the Young Stellar Object VARiability (YSOVAR) project. The region was also the subject of a contemporaneous 67ks $Chandra$ observation. The field includes 119 previously identified pre-main sequence star candidates. X-rays are detected from 164 objects, 90 of which are identified with cluster members. Overall, we find that about half the objects in the central 5 arcminutes are young stellar objects based on a combination of their spectral energy distribution, IR variability and X-ray emission. Most of the stars with IR excess relative to a photosphere show large amplitude (>0.1 mag) mid-IR variability. There are 39 periodic sources, all but one of these is found to be a cluster member. Almost half of t...

  6. Demolition waste generation for development of a regional management chain model.

    Science.gov (United States)

    Bernardo, Miguel; Gomes, Marta Castilho; de Brito, Jorge

    2016-03-01

    Even though construction and demolition waste (CDW) is the bulkiest waste stream, its estimation and composition in specific regions still faces major difficulties. Therefore new methods are required especially when it comes to make predictions limited to small areas, such as counties. This paper proposes one such method, which makes use of data collected from real demolition works and statistical information on the geographical area under study. Based on a correlation analysis between the demolition waste estimates and indicators such as population density, buildings ageing index, buildings density and land occupation type, relationships are established that can be used to determine demolition waste outputs in a given area. The derived models are presented and explained. This methodology is independent from the specific region with which it is exemplified (the Lisbon Metropolitan Area) and can therefore be applied to any region of the world, from the country to the county level. Generation of demolition waste data at the county level is the basis of the design of a systemic model for CDW management in a region. Future developments proposed include a mixed-integer linear programming formulation of such recycling network. PMID:26838607

  7. The National Biofuels Strategy - Importance of sustainable feedstock production systems in regional-based supply chains

    Science.gov (United States)

    Region-based production systems are needed to produce the feedstocks that will be turned into the biofuels required to meet Federal mandated targets. Executive and Legislative actions have put into motion significant government responses designed to advance the development and production of domestic...

  8. Forecasting Food Supply Chain Developments in Lagging Rural Regions: Evidence from the UK

    Science.gov (United States)

    Ilbery, Brian; Maye, Damian; Kneafsey, Moya; Jenkins, Tim; Walkley, Catherine

    2004-01-01

    Endemic problems in EU "lagging rural regions" (LRRs) are well documented and various support mechanisms have long been in place to help overcome structural difficulties. Nevertheless, new rural development architectures are now being sought and some scholars have posited that LRRs may benefit from the "quality (re)turn" in food and a relative…

  9. Polymerase chain reaction amplification of a GC rich region by adding 1,2 propanediol

    Directory of Open Access Journals (Sweden)

    Zeinab Mousavian

    2014-01-01

    Full Text Available Background : Apolipoprotein E (ApoE is one of the most important carriers of lipids in mammalians. The gene for this lipoprotein (ApoE is located on chromosome 19 which is related with the pathogenesis of some nervous system disease. ApoE gene is identified as a high guanine-cytosine (GC content fragment. Detection and amplification of these templates are extensively laborious and baffling. The aim of this study was to find a practical and feasible method for the amplification of the number of GC rich genes such as ApoE. Materials and Methods: We experimented with simple polymerase chain reaction (PCR, nested PCR and PCR with 1-2 propanediol, dimethylsulfoxide (DMSO, and ethyleneglicol as additive substances to enhance the amplification ApoE gene and used the 40 samples of the human whole blood were collected in test tubes with a pre-treatment of ethylene diaminetetraacetic acid. Results: According to our observations, presence of 1-2 propanediol, DMSO, and ethyleneglicol as additive substances resulted to enhanced amplification of ApoE gene. Addition of 1-2 propanediol showed the best results, caused optimization and revealed more specific and sharp bands. Conclusion: According to our findings 1-2 propanediol are the best organic reagent for improving the amplification of ApoE gene. Optimization procedure for each GC rich sequence is recommended to be performed separately in order to identify which of the additive agent is more efficient and applicable for a particular target.

  10. Polymerase chain reaction based epidemiological investigation of canine parvoviral disease in dogs at Bareilly region

    Directory of Open Access Journals (Sweden)

    Jobin Thomas

    2014-11-01

    Full Text Available Aim: The aim of this study was to screen the suspected samples by polymerase chain reaction (PCR and epidemiological analysis of positive cases of canine parvovirus type2. Materials and Methods: Fecal samples were collected from dogs suspected for canine parvovirus type 2 (CPV-2 and viral DNA was extracted. Primers were designed, and PCR was done with all extracted DNA samples. Age, sex and breed wise distribution of positive cases were analyzed. Results: Out of a total 44 collected fecal samples, 23 were found to be positive for CPV-2 by developed PCR. The disease was found to be more common in Labrador male pups of 3-6 months of age. The percentage of positive cases in vaccinated dogs was found to be around 17.4%. Conclusion: Almost half (52.3% of total collected samples were found to be positive by PCR. However, number of field samples are needed to further validate this test and additionally sequence analysis needs to be done to ensure the prevalent field strain of CPV-2.

  11. Development of compartment models with Markov-chain processes for radionuclide transport in repository region

    International Nuclear Information System (INIS)

    This paper presents a new radionuclide transport model for performance assessment and design of a geologic repository for high-level radioactive waste. The model uses compartmentalization of a model space and a Markov-chain process to describe the transport. The model space is divided into an array of compartments, among which a transition probability matrix describes radionuclide transport. While similar to the finite-difference method, it has several advantages such as flexibility to include various types of transport processes and reactions due to probabilistic interpretation, and higher-order accuracy resulting from direct formulation in a discrete-time frame. We demonstrated application of this model with a hypothetical repository in porous rock formation. First we calculated a three-dimensional steady-state heterogeneous groundwater flow field numerically by the finite-element method. The transition probability matrix was constructed based on the flow field and hydraulic dispersion coefficient. The present approach has been found to be effective in modeling radionuclide transport at a repository scale while taking into account the effects of change in hydraulic properties on the repository performance. Numerical exploration results indicate that engineered barrier configuration and material degradation have substantial effects on radionuclide release from the repository.

  12. Regional potential radiological consequences and their variability of failtRe events in a reprocessing plant

    International Nuclear Information System (INIS)

    A computer program system has been developed for best estimate assessments of radiological consequences of accidental atmospheric releases of radionuclides. Computerized data bases as realistic as possible have been established and used describing weather sequences, land topography and usage, human population density, yield of agricultural products, etc. Input from the complex atmospheric transport program MUSEMEI and from the food chain program ECOSYS is combined with the main program BAMBUS to calculate site specific probability distributions for individual and regional collective exposures as functions of the time of year of the release, spatial location, exposure pathway, etc. In this paper, the principles of the program system are described and examples are given for its application to a selected hypothetical failure event in a reprocessing plant

  13. YSOVAR: Mid-IR variability in the star forming region Lynds 1688

    CERN Document Server

    Günther, H M; Covey, K R; Hillenbrand, L A; Plavchan, P; Poppenhaeger, K; Rebull, L M; Stauffer, J R; Wolk, S J; Allen, L; Bayo, A; Gutermuth, R A; Hora, J L; Meng, H Y A; Morales-Calderon, M; Parks, J R; Song, Inseok

    2014-01-01

    The emission from young stellar objects (YSOs) in the mid-IR is dominated by the inner rim of their circumstellar disks. We present an IR-monitoring survey of about 800 objects in the direction of the Lynds 1688 (L1688) star forming region over four visibility windows spanning 1.6 years using the \\emph{Spitzer} space telescope in its warm mission phase. Among all lightcurves, 57 sources are cluster members identified based on their spectral-energy distribution and X-ray emission. Almost all cluster members show significant variability. The amplitude of the variability is larger in more embedded YSOs. Ten out of 57 cluster members have periodic variations in the lightcurves with periods typically between three and seven days, but even for those sources, significant variability in addition to the periodic signal can be seen. No period is stable over 1.6 years. Non-periodic lightcurves often still show a preferred timescale of variability which is longer for more embedded sources. About half of all sources exhib...

  14. 500 years of regional forest growth variability and links to climatic extreme events in Europe

    International Nuclear Information System (INIS)

    Climatic extreme events strongly affect forest growth and thus significantly influence the inter-annual terrestrial carbon balance. As we are facing an increase in frequency and intensity of climate extremes, extensive empirical archives are required to assess continental scale impacts of temperature and precipitation anomalies. Here we divide a tree-ring network of approximately 1000 sites into fifteen groups of similar high-frequency growth variability to reconstruct regional positive and negative extreme events in different parts of Europe between 1500 and 2008. Synchronized growth maxima or minima within and among regions indicate eighteen years in the pre-instrumental period and two events in the 20th century (1948, 1976) with extensive radial growth fluctuations. Comparisons with instrumental data showed that the European tree-ring network mirrors the spatial extent of temperature and precipitation extremes, but the interpretation of pre-instrumental events is challenged by lagged responses to off-growing season climate extremes. We were able to attribute growth minima in subsequent years to unfavourable August–October conditions and to mild climate during winter months associated with respiratory carbon losses. Our results emphasize the importance of carry-over effects and species-specific growth characteristics for forest productivity. Furthermore, they promote the use of regional tree-ring chronologies in research related to climate variability and terrestrial carbon sink dynamics. (letter)

  15. Analysis of meteorological variables in the Australasian region using ground- and space-based GPS techniques

    Science.gov (United States)

    Kuleshov, Yuriy; Choy, Suelynn; Fu, Erjiang Frank; Chane-Ming, Fabrice; Liou, Yuei-An; Pavelyev, Alexander G.

    2016-07-01

    Results of analysis of meteorological variables (temperature and moisture) in the Australasian region using the global positioning system (GPS) radio occultation (RO) and GPS ground-based observations verified with in situ radiosonde (RS) data are presented. The potential of using ground-based GPS observations for retrieving column integrated precipitable water vapour (PWV) over the Australian continent has been demonstrated using the Australian ground-based GPS reference stations network. Using data from the 15 ground-based GPS stations, the state of the atmosphere over Victoria during a significant weather event, the March 2010 Melbourne storm, has been investigated, and it has been shown that the GPS observations has potential for monitoring the movement of a weather front that has sharp moisture contrast. Temperature and moisture variability in the atmosphere over various climatic regions (the Indian and the Pacific Oceans, the Antarctic and Australia) has been examined using satellite-based GPS RO and in situ RS observations. Investigating recent atmospheric temperature trends over Antarctica, the time series of the collocated GPS RO and RS data were examined, and strong cooling in the lower stratosphere and warming through the troposphere over Antarctica has been identified, in agreement with outputs of climate models. With further expansion of the Global Navigation Satellite Systems (GNSS) system, it is expected that GNSS satellite- and ground-based measurements would be able to provide an order of magnitude larger amount of data which in turn could significantly advance weather forecasting services, climate monitoring and analysis in the Australasian region.

  16. Effects of regional infrastructure and offered services in the supply chains performance: Case Ciudad Juarez

    Directory of Open Access Journals (Sweden)

    Liliana Avelar-Sosa

    2014-01-01

    Full Text Available Este trabajo presenta un análisis de los efectos que tienen la infraestructura regional y los servicios en el desempeño de la cadena de suministro en empresas manufactureras de Ciudad Juárez, Chihuahua, México. Para colectar la información se aplicaron cuestionarios a 120 empresas, y para obtener un modelo de ecuaciones estructurales explicativo de los efectos se utilizó la metodología de mínimos cuadrados parciales usando WarpPLS 3.0. Los resultados obtenidos muestran que cuando existe buen nivel en la infraestructura regional se tienen impactos positivos sobre los servicios logísticos; y éstos a su vez impactan en los costos. Asimismo, la infraestructura regional tiene impactos positivos sobre el tiempo de entrega de los productos. Con relación al nivel de infraestructura (transporte, telecomunicaciones, internet y de servicios (aéreos, terrestres, financieros, legales en Ciudad Juárez, los encuestados lo consideran bueno por lo que las entregas de producto han sido completas y a tiempo en los últimos 3 años.

  17. Synthesised genes of VH and VL of single-chain antibody of human cardiac myosin heavy chain

    International Nuclear Information System (INIS)

    Objective: To synthesize genes of the heavy chain variable region (VH) and light chain variable region (VL) of single-chain antibody of human cardiac myosin heavy chain for the development of myocardial imaging agents: single-chain antibody of human cardiac myosin heavy chain. Methods: To extracted total RNA of the anti-HCMHC McAb hybridoma using TRIZOL reagent, synthesize the first-strand cDNA, using this first-strand cDNA as template, with specific primers, DNA polymerase and four single nucleotides, amplify the genes of the heavy chain variable region (VH) and light chain variable region (VL) by PCR. To identify products of each step and study relationship between RNA stability and storage temperature and optimize cycle selection temperature with MgCl2 concentration. Results: The purity of the first-strand cDNA reached 95%, PCR products by agarose gel electrophoresis showed a single band with a bright swimming, molecular weight of VH and VL genes were 340bp and 320bp, which was consistent with literature reports. Conclusion: Synthesized genes of VH and VL, laid the foundation for the development of myocardial imaging agents: single-chain antibody of human cardiac myosin heavy chain. (authors)

  18. Spatial and Temporal Variability of Remotely Sensed Ocean Color Parameters in Coral Reef Regions

    Science.gov (United States)

    Otis, Daniel Brooks

    The variability of water-column absorption due to colored dissolved organic matter (CDOM) and phytoplankton in coral reef regions is the focus of this study. Hydrographic and CDOM absorption measurements made on the Bahamas Banks and in Exuma Sound during the spring of 1999 and 2000 showed that values of salinity and CDOM absorption at 440nm were higher on the banks (37.18 psu, 0.06 m. -1), compared to Exuma Sound (37.04 psu, 0.03 m. -1). Spatial patternsof CDOM absorption in Exuma Sound revealed that plumes of CDOM-rich water flow into Exuma Sound from the surrounding banks. To examine absorption variability in reef regions throughout the world, a thirteen-year time series of satellite-derived estimates of water-column absorption due to CDOM and phytoplankton were created from Sea-viewing Wide Field-of-view Sensor (SeaWiFS) and Moderate Resolution Imaging Spectroradiometer (MODIS) data. Time series data extracted adjacent to coral reef regions showed that variability in absorption depends on oceanographic conditions such as circulation patterns and winds as well as proximity to sources of light-absorbing materials that enter the water column, such as from terrestrial runoff. Waters near reef regions are generally clear, exhibiting a lower "baseline" level of CDOM absorption of approximately 0.01 m. -1 at 443nm. The main differences between regions lie in the periodsduring the year when increased levels of absorption are observed, which can be triggered by inputs of terrestrially-derived material, as in the Great Barrier Reef lagoon, or wind-driven upwelling as in the Andaman Sea and eastern Pacific Ocean near Panama. The lowest CDOM absorption levels found were approximately 0.003 m. -1 at 443nm near the islands of Palau and Yap, which are removed fromsources of colored materials. The highest absorption levels near reefs were associated with wind-driven upwelling during the northeast monsoon on the Andaman coast of Thailand where values of CDOM absorption at 443nm

  19. Ocean Current Energy Conversion System in Wallacea Region Using Variable Speed Control Approach

    Directory of Open Access Journals (Sweden)

    Aditya Sukma Nugraha

    2012-03-01

    Full Text Available Ocean Current Energy Conversion System (OCECS is a promising green energy resource in this globe. The Thermohaline circulation data indicates that the Wallacea region has the potential of ocean current energy resources. This paper is aimed to propose research and development of OCECSs to be implemented in the Wallacea region. Firstly, four types of green energy conversion systems extracted from ocean are reviewed. Their advantages and disadvantages are discussed. Secondly, the potential of OCECS in the Wallacea region is described. Third, many types of turbines used for OCECS are reviewed and the turbine type for OCECS is selected to be implemented in the Wallacea region. Fourth, control strategy is proposed.From the work reported in this paper it is concluded that it is appropriate to implement OCECSs using axial flow water turbines in the Wallacea region, and that to maximize energy conversion variable speed control approach is selected together with control of mechanism to move the turbine vertically as well as to rotate the turbine in yaw direction. 

  20. Observations of regional and local variability in the optical properties of maritime clouds

    Energy Technology Data Exchange (ETDEWEB)

    White, A.B. [Univ. of Colorado at Boulder/National Oceanic and Atmospheric Administration, Boulder, CO (United States); Fairall, C.W. [Environmental Technology Lab., Boulder, CO (United States)

    1996-04-01

    White and Fairall (1995) calculated the optical properties of the marine boundary layer (MBL) clouds observed during the Atlantic Stratocumulus Transition Experiment (ASTEX) and compared their results with the results obtained by Fairall et al. for the MBL clouds observed during the First International Satellite Climatology Program (ISSCP) Regional Experiment (FIRE). They found a factor of two difference in the optical depth versus liquid water relationship that applies to the clouds observed in each case. In the present study, we present evidence to support this difference. We also investigate the local variability exhibited in the ASTEX optical properties using measurements of the boundary layer aerosol concentration.

  1. Discovery of variable infrared polarization in the star-forming region W33

    International Nuclear Information System (INIS)

    The discovery of variable NIR polarization in the star-forming region W33C IRS 3 and IRS 1 is reported. The polarization for both of these sources varies on time scales of a few years. For IRS 3, the K polarization ranges from a low of about 1 percent in the late 1970s to about 20 percent in 1985. Between 1985 and 1989, the K polarization of IRS 1 dropped from about 19 percent to about 3 percent. The observed polarization properties and variations of both IRS 1 and IRS 3 can be explained by a clumpy disk in IRS 3. 14 refs

  2. Simulation of soil moisture for typical plain region using the Variable Infiltration Capacity model

    OpenAIRE

    Wu, Z.; Mao, Y.; Lu, G.; Zhang, J.(High Energy Physics Division, Argonne National Laboratory, Argonne, IL, USA)

    2015-01-01

    Droughts have a severe impact on the development of the social economy in developed plain areas. Soil moisture is a good index, it can reasonably reflect changes in drought. In this study, Jiangsu province in the Yangtze River Plain was selected as the research region, and the VIC (Variable Infiltration Capacity) large-scale hydrological model was selected to simulate the daily soil moisture with a resolution of 0.125 × 0.125 degree from 1956 to 2009. The simulated soil moisture was verified ...

  3. High variability of indoor radon concentrations in uraniferous bedrock areas in the Balkan region

    International Nuclear Information System (INIS)

    In this work the strong influence of geological factors on the variability of indoor radon is found in two of three geologically very different regions of South-Eastern Europe. A method to estimate the annual mean concentration when one seasonal measurement is missing is proposed. Large differences of radon concentrations in different rooms of the same house and significant difference in radon concentrations in one season comparing it to the others are noted in certain cases. Geological factors that can lead to such behavior are discussed

  4. The nature of GPS differential receiver bias variability: An examination in the polar cap region

    Science.gov (United States)

    Themens, David R.; Jayachandran, P. T.; Langley, Richard B.

    2015-09-01

    While modern GPS receiver differential code bias estimation techniques have become highly refined, they still demonstrate unphysical behavior, namely, notable solar cycle variability. This study investigates the nature of these seasonal and solar cycle bias variabilities in the polar cap region using single-station bias estimation methods. It is shown that the minimization of standard deviation bias estimation technique is linearly dependent on the user's choice of shell height, where the sensitivity of this dependence varies significantly from 1 total electron content unit (1 TECU = 1016 el m-2) per 4000 km in solar minimum winter to in excess of 1 TECU per 90 km during solar maximum summer. Using an ionosonde, we find appreciable shell height variability resulting in bias variabilities of up to 2 TECU. Comparing northward face Resolute Incoherent Scatter Radar (RISR-N) measurements to a collocated GPS station, we find that RISR-derived GPS receiver biases vary seasonally but not with solar cycle. RMS differences between bias estimation methods and observation between 2009 and 2013 were found to range from 2.7 TECU to 3.4 TECU, depending on method. To account for the erroneous solar cycle variability of standard bias estimation approaches, we linearly fit these biases to sunspot number, removing the trend. RMS errors after sunspot detrending these biases are reduced to 1.91 TECU. Also, these ISR-derived and sunspot-detrended biases are fit to ambient temperature, where a significant correlation is found. By using these temperature-fitted biases we further reduce RMS errors to 1.66 TECU. These results can be taken as further evidence of temperature-dependent dispersion in the GPS cabling and antenna hardware.

  5. Aerosol composition and variability in the Baltimore-Washington, DC region

    Science.gov (United States)

    Beyersdorf, A. J.; Ziemba, L. D.; Chen, G.; Corr, C. A.; Crawford, J. H.; Diskin, G. S.; Moore, R. H.; Thornhill, K. L.; Winstead, E. L.; Anderson, B. E.

    2015-08-01

    In order to utilize satellite-based aerosol measurements for the determination of air quality, the relationship between aerosol optical properties (wavelength-dependent, column-integrated extinction measured by satellites) and mass measurements of aerosol loading (PM2.5 used for air quality monitoring) must be understood. This connection varies with many factors including those specific to the aerosol type, such as composition, size and hygroscopicity, and to the surrounding atmosphere, such as temperature, relative humidity (RH) and altitude, all of which can vary spatially and temporally. During the DISCOVER-AQ (Deriving Information on Surface conditions from Column and Vertically Resolved Observations Relevant to Air Quality) project, extensive in-situ atmospheric profiling in the Baltimore, MD-Washington, DC region was performed during fourteen flights in July 2011. Identical flight plans and profile locations throughout the project provide meaningful statistics for determining the variability in and correlations between aerosol loading, composition, optical properties and meteorological conditions. Measured water-soluble aerosol mass was composed primarily of ammonium sulfate (campaign average of 32 %) and organics (57 %). A distinct difference in composition was observed with high-loading days having a proportionally larger percentage of ammonium sulfate (up to 49 %) due to transport from the Ohio River Valley. This composition shift caused a change in the aerosol water-uptake potential (hygroscopicity) such that higher relative contributions of ammonium sulfate increased the bulk aerosol hygroscopicity. These days also tended to have higher relative humidity causing an increase in the water content of the aerosol. Conversely, low aerosol loading days had lower ammonium sulfate and higher black carbon contributions causing lower single scattering albedos (SSAs). The average black carbon concentrations were 240 ng m-3 in the lowest 1 km decreasing to 35 ng m-3

  6. Aerosol composition and variability in the Baltimore–Washington, DC region

    Directory of Open Access Journals (Sweden)

    A. J. Beyersdorf

    2015-08-01

    Full Text Available In order to utilize satellite-based aerosol measurements for the determination of air quality, the relationship between aerosol optical properties (wavelength-dependent, column-integrated extinction measured by satellites and mass measurements of aerosol loading (PM2.5 used for air quality monitoring must be understood. This connection varies with many factors including those specific to the aerosol type, such as composition, size and hygroscopicity, and to the surrounding atmosphere, such as temperature, relative humidity (RH and altitude, all of which can vary spatially and temporally. During the DISCOVER-AQ (Deriving Information on Surface conditions from Column and Vertically Resolved Observations Relevant to Air Quality project, extensive in-situ atmospheric profiling in the Baltimore, MD–Washington, DC region was performed during fourteen flights in July 2011. Identical flight plans and profile locations throughout the project provide meaningful statistics for determining the variability in and correlations between aerosol loading, composition, optical properties and meteorological conditions. Measured water-soluble aerosol mass was composed primarily of ammonium sulfate (campaign average of 32 % and organics (57 %. A distinct difference in composition was observed with high-loading days having a proportionally larger percentage of ammonium sulfate (up to 49 % due to transport from the Ohio River Valley. This composition shift caused a change in the aerosol water-uptake potential (hygroscopicity such that higher relative contributions of ammonium sulfate increased the bulk aerosol hygroscopicity. These days also tended to have higher relative humidity causing an increase in the water content of the aerosol. Conversely, low aerosol loading days had lower ammonium sulfate and higher black carbon contributions causing lower single scattering albedos (SSAs. The average black carbon concentrations were 240 ng m−3 in the lowest 1 km

  7. Regional precipitation variability in East Asia related to climate and environmental factors during 1979-2012

    Science.gov (United States)

    Deng, Yinyin; Gao, Tao; Gao, Huiwang; Yao, Xiaohong; Xie, Lian

    2014-07-01

    This paper studies the inter-annual precipitation variations in different regions of East Asia from oceans to interior areas in China during 1979 - 2012. The results computed by Empirical Orthogonal Functions (EOF) demonstrate that the annual precipitation changes are mainly related to the El Niño-Southern Oscillation, East Asian summer monsoon and aerosols. We also found that the increased Sea surface temperature (SST) could explain the precipitation changes over the Northwest Pacific in the dry season (Oct. - May) and the East China Sea and the South China Sea in the rainy season (Jun. - Sep.). The precipitation changes over the ocean unexplained by SST were likely due to the water vapor transport dominated by dynamic factors. With the increased SST, the moisture transported from oceans to interior land was likely redistributed and caused the complicated regional variability of precipitation. Moreover, the impacts of aerosols on cloud and precipitation varied with different pollution levels and different seasons.

  8. 3He/4He isotopic ratio characterization of the Polynesian region. The society and upper cook-austral chains

    International Nuclear Information System (INIS)

    In this paper it is reported the result of a systematic survey of the helium isotopic composition for basaltic rocks from the Polynesian region. The database covering the Society chain lists 79 entries deriving from experiments carried out at SIO (Scripps Institution of Oceanography, University of California San Diego, CA, USA) following the procedure of crushing on-line with an 8 minute single step; data for the Cook-Austral islands are taken from the literature. The 3He/4He value distribution shows an intrinsic dispersion s between 1.1 and 1.4 times RA (RA=3He/4He in Air=1.39 x 10-6) and appears sensibly uniform over the area explored, clearly independent form the variation of age (0 to 20 My) along the dorsal of the island chains. The difference appearing between the mean value obtained for the Society (R/RA=6.3 plus or minus 1) and the Cook-Austral (R/RA=7.3 plus or minus 1.4) is not appreciable within the natural dispersion. The values obtained are substantially lower than the Pacific MORB (R/RA∼8.7 RA). No evident correlation appears in the general picture between the helium data and the other radiogenic isotopes interpreted as tracers for possible heterogeneity in the mantle

  9. The hydro-meteorological chain in Piemonte region, North Western Italy - analysis of the HYDROPTIMET test cases

    Directory of Open Access Journals (Sweden)

    D. Rabuffetti

    2005-01-01

    Full Text Available The HYDROPTIMET Project, Interreg IIIB EU program, is developed in the framework of the prediction and prevention of natural hazards related to severe hydro-meteorological events and aims to the optimisation of Hydro-Meteorological warning systems by the experimentation of new tools (such as numerical models to be used operationally for risk assessment. The objects of the research are the mesoscale weather phenomena and the response of watersheds with size ranging from 102 to 103 km2. Non-hydrostatic meteorological models are used to catch such phenomena at a regional level focusing on the Quantitative Precipitation Forecast (QPF. Furthermore hydrological Quantitative Discharge Forecast (QDF are performed by the simulation of run-off generation and flood propagation in the main rivers of the territory. In this way observed data and QPF are used, in a real-time configuration, for one-way forcing of the hydrological model that works operationally connected to the Piemonte Region Alert System. The main hydro-meteorological events that affected Piemonte Region in the last years are analysed, these are the HYDROPTIMET selected test cases of 14–18 November 2002 and 23–26 November 2002. The results obtained in terms of QPF and QDF offer a basis to evaluate the sensitivity of the whole hydro-meteorological chain to the uncertainties in the numerical simulations. Different configurations of non-hydrostatic meteorological models are also evaluated.

  10. Evaluation of the hydro-meteorological chain in Piemonte Region, north western Italy - analysis of two HYDROPTIMET test cases

    Directory of Open Access Journals (Sweden)

    D. Rabuffetti

    2005-01-01

    Full Text Available The HYDROPTIMET Project, Interreg IIIB EU program, is developed in the framework of the prediction and prevention of natural hazards related to severe hydro-meteorological events and aims to the optimisation of Hydro-Meteorological warning systems by the experimentation of new tools (such as numerical models to be used operationally for risk assessment. The object of the research are the Mesoscale weather phenomena and the response of watersheds with size ranging from 102 to 103 km2. Non-hydrostatic meteorological models are used to catch such phenomena at a regional level focusing on the Quantitative Precipitation Forecast (QPF. Furthermore hydrological Quantitative Discharge Forecast (QDF are performed by the simulation of run-off generation and flood propagation in the main rivers of the interested territory. In this way observed data and QPF are used, in a real-time configuration, for one-way forcing of the hydrological model that works operationally connected to the Piemonte Region Alert System. The main hydro-meteorological events that interested Piemonte Region in the last years are studied, these are the HYDROPTIMET selected test cases of 14-18 November 2002 and 23-26 November 2002. The results obtained in terms of QPF and QDF offer a sound basis to evaluate the sensitivity of the whole hydro-meteorological chain to the uncertainties in the numerical simulations. Different configurations of non-hydrostatic meteorological models are also analysed.

  11. Analyses of rainfall using probability distribution and Markov chain models for crop planning in Daspalla region in Odisha, India

    Science.gov (United States)

    Mandal, K. G.; Padhi, J.; Kumar, A.; Ghosh, S.; Panda, D. K.; Mohanty, R. K.; Raychaudhuri, M.

    2015-08-01

    Rainfed agriculture plays and will continue to play a dominant role in providing food and livelihoods for an increasing world population. Rainfall analyses are helpful for proper crop planning under changing environment in any region. Therefore, in this paper, an attempt has been made to analyse 16 years of rainfall (1995-2010) at the Daspalla region in Odisha, eastern India for prediction using six probability distribution functions, forecasting the probable date of onset and withdrawal of monsoon, occurrence of dry spells by using Markov chain model and finally crop planning for the region. For prediction of monsoon and post-monsoon rainfall, log Pearson type III and Gumbel distribution were the best-fit probability distribution functions. The earliest and most delayed week of the onset of rainy season was the 20th standard meteorological week (SMW) (14th-20th May) and 25th SMW (18th-24th June), respectively. Similarly, the earliest and most delayed week of withdrawal of rainfall was the 39th SMW (24th-30th September) and 47th SMW (19th-25th November), respectively. The longest and shortest length of rainy season was 26 and 17 weeks, respectively. The chances of occurrence of dry spells are high from the 1st-22nd SMW and again the 42nd SMW to the end of the year. The probability of weeks (23rd-40th SMW) remaining wet varies between 62 and 100 % for the region. Results obtained through this analysis would be utilised for agricultural planning and mitigation of dry spells at the Daspalla region in Odisha, India.

  12. Climate Variability, Andean Livelihood Strategies, Development and Adaptation in the Andean Region

    Science.gov (United States)

    Valdivia, C.; Quiroz, R.; Zorogastua, P.; Baigorrea, G.

    2002-05-01

    Development programs in the Andes have failed to recognize climate variability as an element that is crucial to the adoption of new alternatives. Dairy, potatoes, improved sheep, forages are all part of the history of development in this region. A combination of climate variability, changes in the economy, the political environment, and land tenure reform shape rural livelihoods and welfare. Diversification, linking to markets, and networking are some elements that contribute to the resilience of families in the Andes. Strategies change, are flexible, and may incorporate non-agricultural activities. While some farmers are able to improve their welfare through the life cycle, others become poorer. Climate variability increases the vulnerability of some groups; in other cases, because of diversification and assets, households build economic portfolios that are more resilient to the elements. The many projects provide insights into how in the long run households improve their environment, hinting at mechanisms to adapt to climate change. In order to understand changing composition of portfolios in future scenarios of spatial heterogeneous areas such as mountains (Andes), estimates of models predicting climate change at a global scale are not useful because their resolution. Therefore, downscaling tools are useful. Spatial heterogeneity is assessed through agroecozoning. Both production and the impact on some environmental indicators are simulated through process-based models, for the Ilave-Huenque watershed in Peru that help in discussing scenarios of adaptation.

  13. An X-ray variable absorber within the Broad Line Region in Fairall 51

    CERN Document Server

    Svoboda, Jiri; Guainazzi, Matteo; Longinotti, Anna Lia; Piconcelli, Enrico; Wilms, Joern

    2015-01-01

    Fairall 51 is a polar-scattered Seyfert 1 galaxy, a type of active galaxies believed to represent a bridge between unobscured type-1 and obscured type-2 objects. Fairall 51 has shown complex and variable X-ray absorption but only little is known about its origin. In our research, we observed Fairall 51 with the X-ray satellite Suzaku in order to constrain a characteristic time-scale of its variability. We performed timing and spectral analysis of four observations separated by 1.5, 2 and 5.5 day intervals. We found that the 0.5-50 keV broadband X-ray spectra are dominated by a primary power-law emission (with the photon index ~ 2). This emission is affected by at least three absorbers with different ionisations (log(xi) ~ 1-4). The spectrum is further shaped by a reprocessed emission, possibly coming from two regions -- the accretion disc and a more distant scattering region. The accretion disc emission is smeared by the relativistic effects, from which we measured the spin of the black hole as a ~ 0.8 (+-0.2...

  14. Remote influences on freshwater flux variability in the Atlantic warm pool region

    Science.gov (United States)

    Zhang, Liping; Wang, Chunzai

    2012-10-01

    The understanding of freshwater flux variability is both scientifically and socially important. Local freshwater flux response to a large Atlantic warm pool (AWP) is excessive freshwater or negative Evaporation minus Precipitation (EmP) anomalies, whereas the response is deficient to a small AWP. However, the EmP anomalies in the AWP region are also influenced by the SST anomalies in the tropical eastern Pacific and in the tropical South Atlantic. These remote influences operate through the inter-basin mode represented by the SST gradient between the tropical North Atlantic and eastern Pacific and the Atlantic meridional mode (AMM) defined as the SST gradient between the tropical North and South Atlantic. When either of these two modes is in the negative phase, the EmP and sea surface salinity anomalies in the AWP region can be positive although the AWP is large. This indicates that the remote influences of the inter-basin mode and/or the AMM can overwhelm the local effect and induce an opposite freshwater response. Additionally, although ENSO and the AMM sometimes coincide with AWP variability, an El Niño in the preceding winter or a positive AMM in the spring does not necessarily follow a large AWP in the summer.

  15. Late Holocene climate variability in the southwestern Mediterranean region: an integrated marine and terrestrial geochemical approach

    Directory of Open Access Journals (Sweden)

    C. Martín-Puertas

    2010-12-01

    Full Text Available A combination of marine (Alboran Sea cores, ODP 976 and TTR 300 G and terrestrial (Zoñar Lake, Andalucia, Spain geochemical proxies provides a high-resolution reconstruction of climate variability and human influence in the southwestern Mediterranean region for the last 4000 years at inter-centennial resolution. Proxies respond to changes in precipitation rather than temperature alone. Our combined terrestrial and marine archive documents a succession of dry and wet periods coherent with the North Atlantic climate signal. A dry period occurred prior to 2.7 cal ka BP – synchronously to the global aridity crisis of the third-millennium BC – and during the Medieval Climate Anomaly (1.4–0.7 cal ka BP. Wetter conditions prevailed from 2.7 to 1.4 cal ka BP. Hydrological signatures during the Little Ice Age are highly variable but consistent with more humidity than the Medieval Climate Anomaly. Additionally, Pb anomalies in sediments at the end of the Bronze Age suggest anthropogenic pollution earlier than the Roman Empire development in the Iberian Peninsula. The Late Holocene climate evolution of the in the study area confirms the see-saw pattern between the eastern and western Mediterranean regions and the higher influence of the North Atlantic dynamics in the western Mediterranean.

  16. Impacts of Present and Future Climate Variability on Agriculture and Forestry in the Temperate Regions. Europe

    International Nuclear Information System (INIS)

    Agriculture and forestry will be particularly sensitive to changes in mean climate and climate variability in the northern and southern regions of Europe. Agriculture may be positively affected by climate change in the northern areas through the introduction of new crop species and varieties, higher crop production and expansion of suitable areas for crop cultivation. The disadvantages may be determined by an increase in need for plant protection, risk of nutrient leaching and accelerated breakdown of soil organic matter. In the southern areas the benefits of the projected climate change will be limited, while the disadvantages will be predominant. The increased water use efficiency caused by increasing CO2 will compensate for some of the negative effects of increasing water limitation and extreme weather events, but lower harvestable yields, higher yield variability and reduction in suitable areas of traditional crops are expected for these areas. Forestry in the Mediterranean region may be mainly affected by increases in drought and forest fires. In northern Europe, the increased precipitation is expected to be large enough to compensate for the increased evapotranspiration. On the other hand, however, increased precipitation, cloudiness and rain days and the reduced duration of snow cover and soil frost may negatively affect forest work and timber logging determining lower profitability of forest production and a decrease in recreational possibilities. Adaptation management strategies should be introduced, as effective tools, to reduce the negative impacts of climate change on agricultural and forestry sectors

  17. Assessment of Impacts of Climate Variability on Crop Yield over the Terai Region of Nepal

    Science.gov (United States)

    Subedi, S.; Acharya, A.

    2015-12-01

    Agricultural sector in Nepal which alone contributes about 42 % of the total GDP have a huge influence on national economy. This sector is very much susceptible to climate change. This study is emphasized on Terai region (situated at an altitude of 60m to 300m) of Nepal which investigates the impacts of climate variability on various stages of cropping (paddy) periods such as transplant, maturity and harvest. The climate variables namely temperature and rainfall are used to explore the relationship between climate and paddy yields based on 30 years of historical observed data. Observed monthly rainfall and temperature data are collected from the department of hydrology and meteorology, and paddy yield data are collected from the Ministry of Agricultural Development. A correlation analysis will be carried out between the backward difference filtered climate parameters and the backward difference filtered rice yield. This study will also analyze average monthly and annual rainfall, and, min, max and mean temperature during the period of 1981-2010 based on 15 synoptic stations of Nepal. This study will visualize rainfall and temperature distribution over Nepal, and also evaluate the effect of change in rainfall and temperature in the paddy yield. While evaluating the impacts of climate on crop yield, this study will not consider the impact of irrigation in crop yield. The major results, climate distribution and its local/regional impacts on agriculture, could be utilized by planners, decision makers, and climate and agricultural scientists as a basis in formulating/implementing future plans, policies and projects.

  18. Immunoglobulin variable region hypermutation is associated with a DNA repair deficit

    International Nuclear Information System (INIS)

    The molecular mechanism of Ig variable region hypermutation is unknown, but has been hypothesized to involve an error-prone DNA repair process. In this study, the authors used a novel PCR-based assay to compare repair of UV-induced DNA damage in mantle zone versus germinal center B lymphocytes. They observed that DNA repair activity within rearranged VDJ loci was sluggish in germinal center B lymphocytes compared to repair activity monitored in mantle zone B lymphocytes. In contrast, DNA repair times within the germline VH5 gene family, the variable region JH endash CH intron, and the N-ras gene was rapid and similar in both germinal center and mantle zone B cells. These results reflect a DNA repair deficit which, as expected for hypermutation, is selective for rearranged Ig VDG in germinal center cells. To directly measure the fidelity of DNA repair, the repaired PCR-amplified gene segments were analyzed for sequence changes by restriction enzyme digestion. In experiments thus far, repair of germline VH5 was error-free in both germinal center and mantle zone B cells. However, while rearranged VH5 segments were also error-free in mantle zone cells, they were highly mutated in germinal center cells. These findings provide direct biochemical evidence for the role of a sequence- and stage-specific error-prone DNA repair pathway in Ig V gene hypermutation

  19. Improving plot- and regional-scale crop models for simulating impacts of climate variability and extremes

    Science.gov (United States)

    Tao, F.; Rötter, R.

    2013-12-01

    Many studies on global climate report that climate variability is increasing with more frequent and intense extreme events1. There are quite large uncertainties from both the plot- and regional-scale models in simulating impacts of climate variability and extremes on crop development, growth and productivity2,3. One key to reducing the uncertainties is better exploitation of experimental data to eliminate crop model deficiencies and develop better algorithms that more adequately capture the impacts of extreme events, such as high temperature and drought, on crop performance4,5. In the present study, in a first step, the inter-annual variability in wheat yield and climate from 1971 to 2012 in Finland was investigated. Using statistical approaches the impacts of climate variability and extremes on wheat growth and productivity were quantified. In a second step, a plot-scale model, WOFOST6, and a regional-scale crop model, MCWLA7, were calibrated and validated, and applied to simulate wheat growth and yield variability from 1971-2012. Next, the estimated impacts of high temperature stress, cold damage, and drought stress on crop growth and productivity based on the statistical approaches, and on crop simulation models WOFOST and MCWLA were compared. Then, the impact mechanisms of climate extremes on crop growth and productivity in the WOFOST model and MCWLA model were identified, and subsequently, the various algorithm and impact functions were fitted against the long-term crop trial data. Finally, the impact mechanisms, algorithms and functions in WOFOST model and MCWLA model were improved to better simulate the impacts of climate variability and extremes, particularly high temperature stress, cold damage and drought stress for location-specific and large area climate impact assessments. Our studies provide a good example of how to improve, in parallel, the plot- and regional-scale models for simulating impacts of climate variability and extremes, as needed for

  20. Typing and surface charges of the variable loop regions of PorB from Neisseria meningitidis.

    Science.gov (United States)

    Stefanelli, Paola; Neri, Arianna; Tanabe, Mikio; Fazio, Cecilia; Massari, Paola

    2016-06-01

    PorB is a pan-Neisserial major outer membrane protein with a trimeric β-barrel structure. Each monomer presents eight periplasmic turns and eight surface exposed loop regions with sequence variability. PorB induces activation of host cell responses via a TLR2-dependent mechanism likely mediated by electrostatic interactions between TLR2 and PorB surface exposed loops. Variability in the loop amino acid sequence is known to influence cell responses to PorB in vitro, particularly for the residues in L5 and L7. In this work, the sequence of the porB gene and the electrostatic surface charges of PorB from 35 invasive meningococcal isolates belonging to the main clonal complexes identified in Italy and from five carriage genomes available on the website http://pubmlst.org/neisseria/ were examined. Analysis of the porB encoding regions from the invasive meningococci has identified four new alleles and a potential association between porB alleles, serogroup, and clonal complexes. Through computer-based modeling and analysis of the electrostatic surface charges of PorB from these strains, loop charge segregation between PorB from invasive serogroups B and C was observed. Specifically, loops 1, 4, and 7 were negatively charged and L2 and L8 were mostly neutral in serogroup B isolates, while an overall homogeneous positive surface charge was present in PorB from invasive serogroup C strains. A higher PorB sequence variability was observed among carriage genomes, and a general prevalence of negative loop surface charges. The surface charge differences in PorB from serogroups B and C invasive and carriage strains may, in part, influence the outcomes of Neisseriae interactions with host cells. © 2016 IUBMB Life, 68(6):488-495, 2016. PMID:27156582

  1. An analysis of the variables that provide a supply chain with sustainable competitiveness An analysis of the variables that provide a supply chain with sustainable competitiveness Análisis de las variables que proporcionan una competitividad sostenible de la cadena de suministro

    Directory of Open Access Journals (Sweden)

    José A.D. Machuca

    2012-04-01

    Full Text Available Purpose: An agile, adaptable and aligned (Triple A supply chain (SC would seem to be key to obtaining sustainable competitive advantages. Little previous research has been done into the topic, however, and there are even discrepancies on the conceptual level. For this reason this study aims to propose a reference framework to determine the dimensions and factors that define agility, adaptability and alignment in the SC and to facilitate both the evaluation of its state by managers and researchers with respect to these variables and also the development of empirical research that determines its impact on performance.Design/methodology: A systematic literature review was carried out of specialist Operations Management, Logistics, Management and Supply Chain Management journals using the ProQuest (Abi/Inform Global database. The articles retrieved were examined and those that were relevant for this study were selected. Using these, a qualitative analysis was done that led to the proposed goal being achieved. Findings: This study sets out the definitions, dimensions and factors of the three variables and groups them together for the first time, thus providing a solid conceptual frame. Although the number of articles that analyse one or other of the variables is growing, it is still low. Agility is the variable on which most research has been done, while adaptability is the least analysed.Research limitations/implications: A theoretical reference framework is proposed for the Triple A in the SC based on earlier studies which do not discuss the joint effect of three variables, as a result of which there is no tested theoretical base. The model will be analysed empirically in future research.Originality/value: The lack of papers on agility, adaptability and alignment in the supply chain and the lack of a consensus regarding the dimensions and factors to define them reveal a need for studies such as this. Normal 0 21 false false false Microsoft

  2. Deciphering the importance of the palindromic architecture of the immunoglobulin heavy-chain 3' regulatory region.

    Science.gov (United States)

    Saintamand, Alexis; Vincent-Fabert, Christelle; Garot, Armand; Rouaud, Pauline; Oruc, Zeliha; Magnone, Virginie; Cogné, Michel; Denizot, Yves

    2016-01-01

    The IgH 3' regulatory region (3'RR) controls class switch recombination (CSR) and somatic hypermutation (SHM) in B cells. The mouse 3'RR contains four enhancer elements with hs1,2 flanked by inverted repeated sequences and the centre of a 25-kb palindrome bounded by two hs3 enhancer inverted copies (hs3a and hs3b). hs4 lies downstream of the palindrome. In mammals, evolution maintained this unique palindromic arrangement, suggesting that it is functionally significant. Here we report that deconstructing the palindromic IgH 3'RR strongly affects its function even when enhancers are preserved. CSR and IgH transcription appear to be poorly dependent on the 3'RR architecture and it is more or less preserved, provided 3'RR enhancers are present. By contrast, a 'palindromic effect' significantly lowers VH germline transcription, AID recruitment and SHM. In conclusion, this work indicates that the IgH 3'RR does not simply pile up enhancer units but also optimally exposes them into a functional architecture of crucial importance. PMID:26883548

  3. Characterization of the regional variability of flood regimes within the Omo-Gibe River Basin, Ethiopia

    Science.gov (United States)

    Yared, Adanech; Demissie, Solomon S.; Sivapalan, Murugesu; Viglione, Alberto; MacAlister, Charlotte

    2014-05-01

    Hydrological variability and seasonality is one of the Ethiopia's primary water resource management challenges. Variability is most obviously manifest in endemic, devastating droughts and floods. While the level of flooding is quite often extremely high and destroys human beings and property, in many cases flooding is of vital importance because the community benefits from flood recession agriculture. This is the case of the lower Omo plain whose agriculture is based on the regularity of the inundations due to flooding of the Omo Gibe River. The big flood in 2006, which caused death for more than 300 people and 2000 cattle, poses a dilemma. Flooding must be controlled and regulated in a way that the damages are reduced as much as possible but the flooding-related benefits are not lost. To this aim, characterization and understanding of hydrological variability of the Omo Gibe River basin is fundamental. The goal of this work is to extract the maximal amount of information on the hydrological variability and specially on the flooding regime from the few data available in the region. Because most of the basin is ungauged, hydrological information is reconstructed using the data from 9 gauged catchments. A daily water balance model has been developed, calibrated and validated for 9 gauged catchments and, subsequently, the parameters have been correlated to catchment characteristics in order to establish a functional relationship that allows to apply the model to ungauged catchments. Daily streamflow has been predicted for 15 ungauged catchments, which are assumed to comprehensively represent the hydrological variability of the Omo-Gibe River Basin. Even though both northern and southern catchments are affected by a strong seasonality of precipitation, with most of the rain falling in less than 3 months, most of the northern catchments are humid, while in the southern part of the Omo-Gibe River basin, the catchments are either humid, dry sub humid, semiarid or arid. As

  4. Synthetic peptides corresponding to third hypervariable region of human monoclonal IgM rheumatoid factor heavy chains define an immunodominant idiotype

    OpenAIRE

    1985-01-01

    Synthetic peptides corresponding to eight individual heavy chain complementarity-determining regions (CDR) of three human monoclonal IgM anti-IgG (rheumatoid factor [RF]) paraproteins elicited rabbit antibodies with markedly different properties. All antisera recognized the immunizing peptide, and several reacted with the isolated IgM heavy chain on immunoblots. However, only the antisera against peptides representing the third CDR bound consistently and specifically to the intact IgM-RF mole...

  5. X-ray variability and the inner region in active galactic nuclei

    International Nuclear Information System (INIS)

    We present theoretical models of X-ray variability attributable to orbital signatures from an accretion disk including emission region size, quasi-periodic oscillations (QPOs), and its quality factor Q, and the emergence of a break frequency in the power spectral density shape. We find a fractional variability amplitude of Fvar∝M∙−0.4. We conduct a time series analysis on X-ray light curves (0.3-10 keV) of a sample of active galactic nuclei (AGNs). A statistically significant bend frequency is inferred in 9 of 58 light curves (16%) from 3 AGNs for which the break timescale is consistent with the reported BH spin but not with the reported BH mass. Upper limits of 2.85 × 107 M ☉ in NGC 4051, 8.02 × 107 M ☉ in MRK 766, and 4.68 × 107 M ☉ in MCG-6-30-15 are inferred for maximally spinning BHs. For REJ 1034+396 where a QPO at 3733 s was reported, we obtain an emission region size of (6-6.5) M and a BH spin of a ≲ 0.08. The relativistic inner region of a thin disk, dominated by radiation pressure and electron scattering, is likely to host the orbital features as the simulated Q ranges from 6.3 × 10–2 to 4.25 × 106, containing the observed Q. The derived value of Q ∼ 32 for REJ 1034+396 therefore suggests that the AGN hosts a thin disk.

  6. X-ray variability and the inner region in active galactic nuclei

    Energy Technology Data Exchange (ETDEWEB)

    Mohan, P.; Mangalam, A., E-mail: prashanth@iiap.res.in, E-mail: mangalam@iiap.res.in [Indian Institute of Astrophysics, Sarjapur Road, Koramangala, Bangalore 560034 (India)

    2014-08-20

    We present theoretical models of X-ray variability attributable to orbital signatures from an accretion disk including emission region size, quasi-periodic oscillations (QPOs), and its quality factor Q, and the emergence of a break frequency in the power spectral density shape. We find a fractional variability amplitude of F{sub var}∝M{sub ∙}{sup −0.4}. We conduct a time series analysis on X-ray light curves (0.3-10 keV) of a sample of active galactic nuclei (AGNs). A statistically significant bend frequency is inferred in 9 of 58 light curves (16%) from 3 AGNs for which the break timescale is consistent with the reported BH spin but not with the reported BH mass. Upper limits of 2.85 × 10{sup 7} M {sub ☉} in NGC 4051, 8.02 × 10{sup 7} M {sub ☉} in MRK 766, and 4.68 × 10{sup 7} M {sub ☉} in MCG-6-30-15 are inferred for maximally spinning BHs. For REJ 1034+396 where a QPO at 3733 s was reported, we obtain an emission region size of (6-6.5) M and a BH spin of a ≲ 0.08. The relativistic inner region of a thin disk, dominated by radiation pressure and electron scattering, is likely to host the orbital features as the simulated Q ranges from 6.3 × 10{sup –2} to 4.25 × 10{sup 6}, containing the observed Q. The derived value of Q ∼ 32 for REJ 1034+396 therefore suggests that the AGN hosts a thin disk.

  7. Climate Variability is Influencing Agricultural Expansion and Output in a Key Agricultural Region of Brazil

    Science.gov (United States)

    Spera, S. A.; Cohn, A.; VanWey, L.; Mustard, J. F.

    2013-12-01

    Over the last decade, the Brazilian state of Mato Grosso has both expanded and intensified its agricultural production to become the country's leading producer of soy, corn, and cotton. Yet this increase in agricultural production may be threatened due to changes in the region's climate stemming from deforestation caused by the agricultural expansion itself. The sensitivity of Mato Grosso's agriculture to climate variability has important implications for both climate change mitigation and climate adaptation. The vast bulk of research on the drivers of land use change in the region has examined economic and institutional drivers. Leveraging a novel remote sensing-derived dataset classifying shifts between single (cultivating one commercial crop per growing season) and double cropping (cultivating two commercial crops per growing season), we investigated the influence of climate variability on land use change during the period 2000 to 2011. Over the past decade, over half of Mato Grosso's farm area transitioned from single cropping to double cropping. We used regression analysis (controlling for space and time fixed effects) to show monthly rainfall, monthly temperature, agricultural commodity prices, and agricultural revenue to be the main drivers of adoption of double cropping and reversion to single cropping in the region. The influence of climate varies as much as five orders of magnitude across these outcomes, with both temperature and precipitation exhibiting the largest climatic influence on the transition from single to double cropping. Temperature consistently proves to be more important, explaining three times more of the variance than precipitation for each outcome. Months at the beginning of a given first crop season, the end of that first crop season, and middle of the subsequent second crop season are particularly important for planting decisions in the subsequent growing year. Fitting our land transition models using remote-sensing derived

  8. DNA between variable and joining gene segments of immunoglobulin kappa light chain is frequently retained in cells that rearrange the kappa locus.

    OpenAIRE

    Van Ness, B G; Coleclough, C; Perry, R P; Weigert, M

    1982-01-01

    A systematic analysis of the fate of the DNA between kappa chain variable (V kappa) and joining (J kappa) genes in cells that have rearranged kappa loci was carried out. The DNA from a variety of kappa-producing plasmacytomas, lambda-producing hybridomas, and kappa-expressing lymphocytes was digested, fractionated by size, and analyzed with two probes containing sequences 5' of J kappa. In 13 of 28 plasmacytomas examined the rearrangement of V kappa and J kappa appears to be accompanied by lo...

  9. The Global Monsoon across Time Scales: is there coherent variability of regional monsoons?

    Science.gov (United States)

    Wang, P. X.; Wang, B.; Cheng, H.; Fasullo, J.; Guo, Z. T.; Kiefer, T.; Liu, Z. Y.

    2014-05-01

    Monsoon has earned increasing attention from the climate community since the last century, yet only recently regional monsoons have been recognized as a global system. It remains a debated issue, however, as to what extent and at which time scales the global monsoon can be viewed as a major mode of climate variability. For this purpose a PAGES Working Group (WG) was set up to investigate the concept of the global monsoon and its future research directions. The WG's synthesis is presented here. On the basis of observation and proxy data, the WG found that the regional monsoons can vary coherently, although not perfectly, at various time scales, ranging from interannual, interdecadal, centennial and millennial, up to orbital and tectonics time scales, conforming the global monsoon concept across time scales. Within the global monsoon system each subsystem has its own features depending on its geographic and topographic conditions. Discrimination of global and regional components in the monsoon system is a key to reveal the driving factors of monsoon variations, hence the global monsoon concept helps to enhance our understanding and to improve future projection of the regional monsoons. This paper starts with a historical review of the global monsoon concept in both modern and paleo-climatology, and an assessment of monsoon proxies used in regional and global scales. The main body of the paper is devoted to a summary of observation data at various time scales, providing evidence for the coherent global monsoon system. The paper concludes with a projection of future monsoon shifts into a warming world. The synthesis will be followed by a companying paper to discuss driving mechanisms and outstanding issues in the global monsoon studies.

  10. Causal Chains Arising from Climate Change in Mountain Regions: the Core Program of the Mountain Research Initiative

    Science.gov (United States)

    Greenwood, G. B.

    2014-12-01

    Mountains are a widespread terrestrial feature, covering from 12 to 24 percent of the world's terrestrial surface, depending of the definition. Topographic relief is central to the definition of mountains, to the benefits and costs accruing to society and to the cascade of changes expected from climate change. Mountains capture and store water, particularly important in arid regions and in all areas for energy production. In temperate and boreal regions, mountains have a great range in population densities, from empty to urban, while tropical mountains are often densely settled and farmed. Mountain regions contain a wide range of habitats, important for biodiversity, and for primary, secondary and tertiary sectors of the economy. Climate change interacts with this relief and consequent diversity. Elevation itself may accentuate warming (elevationi dependent warming) in some mountain regions. Even average warming starts complex chains of causality that reverberate through the diverse social ecological mountain systems affecting both the highlands and adjacent lowlands. A single feature of climate change such as higher snow lines affect the climate through albedo, the water cycle through changes in timing of release , water quality through the weathering of newly exposed material, geomorphology through enhanced erosion, plant communities through changes in climatic water balance, and animal and human communities through changes in habitat conditions and resource availabilities. Understanding these causal changes presents a particular interdisciplinary challenge to researchers, from assessing the existence and magnitude of elevation dependent warming and monitoring the full suite of changes within the social ecological system to climate change, to understanding how social ecological systems respond through individual and institutional behavior with repercussions on the long-term sustainability of these systems.

  11. Intraseasonal variability of organized convective systems in the Central Andes: Relationship to Regional Dynamical Features

    Science.gov (United States)

    Mohr, K. I.; Slayback, D. A.; Nicholls, S.; Yager, K.

    2013-12-01

    The Andes extend from the west coast of Colombia (10N) to the southern tip of Chile (53S). In southern Peru and Bolivia, the Central Andes is split into separate eastern and western cordilleras, with a high plateau (≥ 3000 m), the Altiplano, between them. Because 90% of the Earth's tropical mountain glaciers are located in the Central Andes, our study focuses on this region, defining its zonal extent as 7S-21S and the meridional extent as the terrain 1000 m and greater. Although intense convection occurs during the wet season in the Altiplano, it is not included in the lists of regions with frequent or the most intense convection. The scarcity of in-situ observations with sufficient density and temporal resolution to resolve individual storms or even mesoscale-organized cloud systems and documented biases in microwave-based rainfall products in poorly gauged mountainous regions have impeded the development of an extensive literature on convection and convective systems in this region. With the tropical glaciers receding at unprecedented rates, leaving seasonal precipitation as an increasingly important input to the water balance in alpine valley ecosystems and streams, understanding the nature and characteristics of the seasonal precipitation becomes increasingly important for the rural economies in this region. Previous work in analyzing precipitation in the Central Andes has emphasized interannual variability with respect to ENSO, this is the first study to focus on shorter scale variability with respect to organized convection. The present study took advantage of the University of Utah's Precipitation Features database compiled from 14 years of TRMM observations (1998-2012), supplemented by field observations of rainfall and streamflow, historical gauge data, and long-term WRF-simulations, to analyze the intraseasonal variability of precipitating systems and their relationship regional dynamical features such as the Bolivian High. Through time series and

  12. A Study of Precipitation Climatology and Its Variability over Europe Using an Advanced Regional Model (WRF)

    KAUST Repository

    Dasari, Hari Prasad

    2015-03-06

    In recent years long-term precipitation trends on a regional scale have been given emphasis due to the impacts of global warming on regional hydrology. In this study, regional precipitation trends are simulated over the Europe continent for a 60-year period in 1950-2010 using an advanced regional model, WRF, to study extreme precipitation events over Europe. The model runs continuously for each year during the period at a horizontal resolution of 25 km with initial/ boundary conditions derived from the National Center for Environmental Prediction (NCEP) 2.5 degree reanalysis data sets. The E-OBS 0.25 degree rainfall observation analysis is used for model validation. Results indicate that the model could reproduce the spatial annual rainfall pattern over Europe with low amounts (250 - 750 mm) in Iberian Peninsula, moderate to large amounts (750 - 1500 mm) in central, eastern and northeastern parts of Europe and extremely heavy falls (1500 - 2000 mm) in hilly areas of Alps with a slight overestimation in Alps and underestimation in other parts of Europe. The regional model integrations showed increasing errors (mean absolute errors) and decreasing correlations with increasing time scale (daily to seasonal). Rainfall is simulated relatively better in Iberian Peninsula, northwest and central parts of Europe. A large spatial variability with the highest number of wet days over eastern, central Europe and Alps (~200 days/year) and less number of wet days over Iberian Peninsula (≤150 days/year) is also found in agreement with observations. The model could simulate the spatial rainfall climate variability reasonably well with low rainfall days (1 - 10 mm/days) in almost all zones, heavy rainfall events in western, northern, southeastern hilly and coastal zones and extremely heavy rainfall events in northern coastal zones. An increasing trend of heavy rainfall in central, southern and southeastern parts, a decreasing trend in Iberian Peninsula and a steady trend in other

  13. Temporal and Spatial Variability in the Ocean Color Data of the Long Island Sound Region

    Science.gov (United States)

    Bararwandika, R. N.

    2012-12-01

    Time series in-situ hyper- and multi- spectral water leaving radiance data obtained from the Long Island Sound Coastal Observatory (LISCO) has been extensively utilized for the monitoring and validation of the current satellite Ocean Color missions, to improve the retrieval algorithms in the processing of normalized water leaving radiance, and to identify the uncertainties in the in-situ above water measurements. In this study, the LISCO's data together with the imagery data obtained from the Ocean Color satellite sensors, Moderate Resolution Imaging Spectroradiometer (MODIS) and Visible Infrared Imaging Radiometer Suite (VIIRS) was employed to analyze the spatial and temporal variability in the Ocean Color data, particularly chlorophyll_a concentration which is an indicator of the phytoplankton biomass of the Long Island Sound region. Chlorophyll concentration of the LISCO location and the whole Long Island Sound is estimated from in-situ and satellite retrieved remote sensing reflectance values using the OC3 algorithm. Spatial distributions of chlorophyll concentration data in the Long Island Sound region are examined. Time series analyses are also conducted for both LISCO location and the whole Long Island Sound in order to evaluate the seasonal trends in the chlorophyll concentration data of the region.

  14. Spatial and temporal variability of rainfall in the Tocantins-Araguaia hydrographic region

    Directory of Open Access Journals (Sweden)

    Glauber Epifanio Loureiro

    2015-01-01

    Full Text Available Current paper examines the space-time dynamics of yearly rainfall of the Tocantins-Araguaia Hydrographic Region (TAHR, foregrounded on rainfall volume from isohyet maps and interpolated by Kriging geo-statistical method.  Rainfall space dynamics was undertaken by the analysis of descriptive statistics, Index of Meteorological Irregularity (IMI and Variation Coefficient. Temporal dynamics was analyzed through the distribution of total annual volume precipitation for each TAHR sub-basin by the Standardized Anomaly Index, trend and magnitude test provided by Mann-Kendall and Sen Tests. Results correlated with meteorological anomalies of the Atlantic (Dipole and Pacific (ENOS Oceans show a highly heterogeneous rainfall behavior with temporal variability. Or rather, a decrease of rainfall extensiveness during years of intense meteorological anomaly with a rainfall increase south of the High Tocantins and Araguaia sub-basins and a decrease of rainfall in the Lower Tocantins sub-basin, with El Niño features. Although the Mann-Kendall test does not show statistically a significant trend for rainfall in the TAHR region, Sen’s estimator reveals a decrease in rainfall in the High Tocantins (-1.24 km³ year-1 and Araguaia (-1.13 km³ year-1 sub-basins and a rainfall increase in the Lower Tocantins sub-basin (0.53 km³ year-1 and in the TAHR region (-1.5 km³ year-1.

  15. Potential, spatial distribution and economic performance of regional biomass chains. The North of the Netherlands as example

    Energy Technology Data Exchange (ETDEWEB)

    Van der Hilst, F.; Dornburg, V.; Turkenburg, W.C.; Van Dam, J.M.C.; Faaij, A.P.C. [Copernicus Institute for Sustainable Development and Innovation, Utrecht University, Utrecht (Netherlands); Sanders, J.P.M. [Valorisation of Plant Production Chains, Wageningen University and Research Centre WUR, Wageningen (Netherlands); Elbersen, B. [Alterra, Wageningen University and Research Centre WUR, Wageningen (Netherlands); Graves, A. [Natural Resource Management Institute, Cranfield University, Cranfield (United Kingdom); Elbersen, H.W. [Agrotechnology and Food Sciences Group, Wageningen University and Research Centre WUR, Wageningen (Netherlands)

    2010-09-15

    This work assesses the viability of regional biomass chains by comparing the economic performance of potential bioenergy crops with the performance of current agricultural land uses. The biomass chains assessed are ethanol production from Miscanthus and from sugar beet in the North of the Netherlands. The competitiveness of bioenergy crops is assessed by comparing the Net Present Value (NPV) of perennial crops, current rotations, and rotation schemes which include additional years of sugar beet. The current land use and soil suitability for present and bioenergy crops are mapped using a geographical information system (GIS) and the spatial distribution of economic profitability is used to indicate where land use change is most likely to occur. Bioethanol production costs are then compared with petrol costs. The productions costs comprise costs associated with cultivation, harvest, transport and conversion to ethanol. The NPVs and cost of feedstock production are calculated for seven soil suitability classes. The results show that bioenergy crops are not competitive with current cropping systems on soils classed as 'suitable'. On less suitable soils, the return on intensively managed crops is low and perennial crops achieve better NPVs than common rotations. Our results showed that minimum feedstock production costs are 5.4 euro/GJ for Miscanthus and 9.7 euro/GJ for sugar beet depending on soil suitability. Ethanol from Miscanthus (24 euro/GJ) is a better option than ethanol from sugar beet (27 euro/GJ) in terms of costs. The cost of bioethanol production from domestically cultivated crops is not competitive with petrol (12.34 euro/GJ) production under current circumstances. We propose that the method demonstrated in this study, provides a generic approach for identifying viable locations for bioenergy crop production based on soil properties and current land use.

  16. Characterizing isotopic variability of primary production and consumers in Great Plains ecosystems during protracted regional drought

    Science.gov (United States)

    Haveles, A. W.; Fox-Dobbs, K.; Talmadge, K. A.; Fetrow, A.; Fox, D. L.

    2012-12-01

    Over the last few years (2010-2012), the Great Plains of the central USA experienced protracted drought conditions, including historically severe drought during Summer, 2011. Drought severity in the region generally decreases with increasing latitude, but episodic drought is a fundamental trait of grassland ecosystems. Documenting above ground energy and nutrient flow with current drought is critical to understanding responses of grassland ecosystems in the region to predicted increased episodicity of rainfall and recurrence of drought due to anthropogenic climate change. Characterization of biogeochemical variability of modern ecosystems at the microhabitat, local landscape, and regional scales is also necessary to interpret biogeochemical records of ancient grasslands based on paleosols and fossil mammals. Here, we characterize three grassland ecosystems that span the drought gradient in the Great Plains (sites in the Texas panhandle, southwest Kansas, and northwest Nebraska). We measured δ13C and δ15N values of plants and consumers to characterize the biogeochemical variability within each ecosystem. Vegetation at each site is a mix of trees, shrubs, herbs, and cool- and warm-growing season grasses (C3 and C4, respectively). Thus, consumers have access to isotopically distinct sources of forage that vary in abundance with microhabitat (e.g., open grassland, shrub thicket, riparian woodland). Observations indicate herbivorous arthropod (grasshoppers and crickets) abundance follows drought severity, with high abundance of many species in Texas, and low abundance of few species in Nebraska. Small mammal (rodents) abundance follows the inverse pattern with 0.8%, 3.2% and 17.2% capture success in Texas, Kansas and Nebraska, respectively. The inverse abundance patterns of consumer groups may result from greater sensitivity of small mammal consumers with high metabolic needs to lower local net primary productivity and forage quality under drought conditions. As a

  17. Phenotypic variability and heritability of the cephalic region of Caiman latirostris.

    Science.gov (United States)

    Imhoff, Carolina; Giri, Federico; Siroski, Pablo; Amavet, Patricia

    2016-03-01

    The study of the cephalic shape of crocodilian is relevant in the fields of ecology, systematics, evolution, and conservation. Therefore, the integration of geometric analysis within quantitative genetics allows the evaluation of the inheritable shape components. In this study, the dorsal cephalic region of 210 Caiman latirostris hatchlings was analyzed from seven populations in Santa Fe, Argentina, to detect intra-, and inter-population phenotypic variability, and to determine the heritability of biological shape and size, using newly available geometric morphometric tools. The principal component analysis showed two configurations of cephalic shape that could be related to sexual dimorphism. In the canonical variate analysis, Procrustes distances between groups indicated that there are differences in shape among populations. Furthermore, the method of partial least squares indicated a covariation between cephalic shape and environmental variables. Regarding to CS of the skull we found significant differences among populations, moreover the partial least squares was also significant. Estimates of the heritability of shape and size were high, indicating that the components of these features are susceptible to the selection. PMID:26682625

  18. Variability in ribosomal DNA genic and spacer regions in Verticillium dahliae isolates from different hosts

    Directory of Open Access Journals (Sweden)

    Otero Laura

    2004-01-01

    Full Text Available Using PCR-based assays with specific primers for amplification of the ribosomal DNA intergenic spacer region (IGS and a portion of the mitochondrial DNA small subunit ribosomal RNA gene (mtDNA SSU rRNA, the genetic variability among Verticillium dahliae isolates from olive (Olea europaea and other host species from Argentina and Brazil was estimated. The derived UPGMA-generated phenograms based upon the restriction fingerprinting data of rDNA IGS products revealed genetic differences, correlating with the host of origin. Isolates infecting olive genetically distinct from those from cocoa (Theobroma cacao and sunflower (Helianthus annuus. Digestion of mitochondrial DNA SSU rRNA PCR products revealed less variability, distinguishing only one isolate from sunflower. Ribosomal DNA ITS restriction patterns were identical for all isolates of V. dahliae, irrespective of host of origin. These preliminary results may have relevance for Verticillium wilt control practices, possibly reflecting a different evolutionary origin, or reproductive isolation of the pathogen in olive, distinct from populations of other hosts.

  19. Seasonal variability as a source of uncertainty in the West Siberian regional CH4 flux upscaling

    International Nuclear Information System (INIS)

    This study compares seasonal and spatial variations in methane fluxes as sources of uncertainty in regional CH4 flux upscaling from the wetlands of West Siberia. The study examined variability in summertime CH4 emissions from boreal peatlands, with a focus on two subtaiga fen sites in the southern part of West Siberia (Novosibirskaya oblast). We measured CH4 flux, water table depth, air and peat temperature, pH and electric conductivity of peat water during three field campaigns in summer 2011 (9–12 July, 26–28 July and 20–21 August). Fluxes were measured with static chambers at sites chosen to represent two of the most widespread types of wetlands for this climatic zone: soligenous poor fens and topogenous fens. In both sites the water table level acts as the primary control on fluxes. For the poor fen site with good drainage, water table controls CH4 fluxes on the seasonal scale but not on a local spatial scale; for the fen site with weak drainage and microtopographic relief, the water table controls fluxes on the local spatial scale, but does not drive seasonal variations in the flux magnitude. This difference in hydrology shows the necessity of including detailed wetland type classification schemes into large-scale modeling efforts. From these three measurement periods, we estimated the relative seasonal variation in CH4 emissions as 8% for the fen site and 26% for the poor fen site. These results were compared to estimates of other sources of uncertainty (such as interannual variation and spatial heterogeneity) to show that quantifying seasonal variability is less critical than these other variations for an improved estimate of regional CH4 fluxes. This research demonstrates and ranks the challenges in upscaling measured wetland CH4 fluxes across West Siberia and can guide future field campaigns. (paper)

  20. Contribution of Amino Acid Region 334−335 from Factor Va Heavy Chain to the Catalytic Efficiency of Prothrombinase†

    Science.gov (United States)

    2008-01-01

    We have demonstrated that amino acids E323, Y324, E330, and V331 from the factor Va heavy chain are required for the interaction of the cofactor with factor Xa and optimum rates of prothrombin cleavage. We have also shown that amino acid region 332−336 contains residues that are important for cofactor function. Using overlapping peptides, we identified amino acids D334 and Y335 as contributors to cofactor activity. We constructed recombinant factor V molecules with the mutations D334 → K and Y335 → F (factor VKF) and D334 → A and Y335 → A (factor VAA). Kinetic studies showed that while factor VaKF and factor VaAA had a KD for factor Xa similar to the KD observed for wild-type factor Va (factor VaWT), the clotting activities of the mutant molecules were impaired and the kcat of prothrombinase assembled with factor VaKF and factor VaAA was reduced. The second-order rate constant of prothrombinase assembled with factor VaKF or factor VaAA for prothrombin activation was ∼10-fold lower than the second-order rate constant for the same reaction catalyzed by prothrombinase assembled with factor VaWT. We also created quadruple mutants combining mutations in the amino acid region 334–335 with mutations at the previously identified amino acids that are important for factor Xa binding (i.e., E323Y324 and E330V331). Prothrombinase assembled with the quadruple mutant molecules displayed a second-order rate constant up to 400-fold lower than the values obtained with prothrombinase assembled with factor VaWT. The data demonstrate that amino acid region 334–335 is required for the rearrangement of enzyme and substrate necessary for efficient catalysis of prothrombin by prothrombinase. PMID:18537263

  1. ANALYSIS AND PLANNING OF REGIONAL DEVELOPMENT - CONTEXTUAL VARIABLES TO DEVELOP A MODEL FOR MONITORING FINANCIAL INDICATORS AT REGIONAL LEVEL

    OpenAIRE

    CRIS TINA GRADEA

    2013-01-01

    Application of quantitative techniques in regional analysis can provide an understanding of both the change in time of regional economic performance and the interdependencies between economic sectors, including the use of projections to test the potential future development of the region. Qualitative techniques allow also the explanation of the reason for regional development patterns occurring in a region and the improvement of analysts' ability to reflect on the results and economic opportu...

  2. Simulation Of Anthropogenic Climate Change Over The Mediterranean Region Using A Global Variable Resolution Model

    Science.gov (United States)

    Gibelin, A. L.; Déqué, M.

    Regional anthropogenic climate change over the Mediterranean region has been sim- ulated by the global spectral AGCM ARPEGE-Climat developed by Météo-France- CNRM. The variable resolution version of the model is used with a maximum horizontal reso- lution of 0.5 over the Mediterranean Sea. Two 30-year time-slice experiments, corre- sponding to 1960-1989 and 2070-2099, have been performed. Simulations are driven by IPCC-B2 scenario radiative forcing. Sea surface temperatures are prescribed from monthly observations for the present climate simulation, and from a blend of observa- tions and coupled simulations for the scenario. Present climate simulation has been compared with observations to validate the model. Then the impact on simulated temperature, precipitation and soil moisture to an in- crease of greenhouse gases concentrations has been analysed. The robustness of the response has been verified by comparing the forced model response to that of a cou- pled lower resolution simulation.

  3. Local-scale variability in regional air quality modelling: Implications on temporal distribution of emissions

    Science.gov (United States)

    Bergemann, Christoph; Meyer-Arnek, Julian

    2010-05-01

    In the field of air quality modeling, the comparison of model results with ground-based measurements is essential for validation purposes. The usefulness of these measurements for regional air quality modeling is however limited by the extremely local nature of station measurements. This is especially true for short-lived species like NO2, which is of high importance for public health. Nevertheless station observations are the only continuously available source of data on ground level air quality besides model results. Uncertainties in air quality models mainly arise from the lack of precise knowledge of the spatial and temporal distribution of pollutants. Most emission inventories provide aggregated values for long periods of time and yield no information on the temporal (diurnal) distribution of emissions. By applying ground-based measurements, our study yields optimized diurnal variations of anthropogenic emissions for different urban regions of Germany. In the course of the study the variability of air pollution on the urban scale (the model's subgrid scale) is also addressed. The study applies the newly established POLYPHEMUS/DLR model at a moderate resolution. In the framework of the GMES project "PROMOTE", this model system operationally analyzes and forecasts air quality in Bavaria, Germany. The model employs the latest version of the EMEP emission register in combination with high-resolution emission data provided by Bavarian authorities.

  4. Climate variability as reflected in a regional atmospheric CO2 record

    International Nuclear Information System (INIS)

    This paper analyses a 15-year long atmospheric CO2 mixing ratio record measured at a mid-continental, low-elevation station (Hegyhatsal, Hungary) to reveal the effect of regional climate variability. While the long-term trend and the temporal fluctuation of the growth rate of CO2 mixing ratio follow the global tendencies to a large extent, the shorter-term variations show special features. We present the distorted seasonal cycle caused by the seasonality in the atmospheric vertical mixing and the tendentious change in its shape, which can be attributed to the gradual warming and to the resulted prolongation of the growing season. The decreasing summer diurnal amplitude and the decreasing seasonal amplitude in the mixing ratio, furthermore the higher than average summer CO2 mixing ratio growth rate in the first period of the measurements (1994-2003) with generally rising temperature and decreasing precipitation are explained as the consequence of the reduced activity of the biosphere in the influence area of the station and that of the reduced biomass under environmental conditions getting increasingly unfavourable. The explanation is supported by the co-located tall tower surface-atmosphere CO2 exchange measurements and by the crop yield statistics of the dominantly agricultural region around the station.

  5. Assessing Regional Scale Variability in Extreme Value Statistics Under Altered Climate Scenarios

    Energy Technology Data Exchange (ETDEWEB)

    Brunsell, Nathaniel [University of Kansas; Mechem, David [University of Kansas; Ma, Chunsheng [Wichita State University

    2015-02-20

    Recent studies have suggested that low-frequency modes of climate variability can significantly influence regional climate. The climatology associated with extreme events has been shown to be particularly sensitive. This has profound implications for droughts, heat waves, and food production. We propose to examine regional climate simulations conducted over the continental United States by applying a recently developed technique which combines wavelet multi–resolution analysis with information theory metrics. This research is motivated by two fundamental questions concerning the spatial and temporal structure of extreme events. These questions are 1) what temporal scales of the extreme value distributions are most sensitive to alteration by low-frequency climate forcings and 2) what is the nature of the spatial structure of variation in these timescales? The primary objective is to assess to what extent information theory metrics can be useful in characterizing the nature of extreme weather phenomena. Specifically, we hypothesize that (1) changes in the nature of extreme events will impact the temporal probability density functions and that information theory metrics will be sensitive these changes and (2) via a wavelet multi–resolution analysis, we will be able to characterize the relative contribution of different timescales on the stochastic nature of extreme events. In order to address these hypotheses, we propose a unique combination of an established regional climate modeling approach and advanced statistical techniques to assess the effects of low-frequency modes on climate extremes over North America. The behavior of climate extremes in RCM simulations for the 20th century will be compared with statistics calculated from the United States Historical Climatology Network (USHCN) and simulations from the North American Regional Climate Change Assessment Program (NARCCAP). This effort will serve to establish the baseline behavior of climate extremes, the

  6. Quality assurance of temporal variability of natural decay chain and neutron induced background for low-level NORM analysis

    International Nuclear Information System (INIS)

    Twenty-one high purity germanium (HPGe) background spectra were collected over 2 years at Los Alamos National Laboratory. A quality assurance methodology was developed to monitor spectral background levels from thermal and fast neutron flux levels and naturally occurring radioactive material decay series radionuclides. 238U decay products above 222Rn demonstrated minimal temporal variability beyond that expected from counting statistics. 238U and 232Th progeny below Rn gas displayed at most twice the expected variability. Further, an analysis of the 139 keV 74Ge(n, γ) and 691 keV 72Ge(n, n') spectral features demonstrated temporal stability for both thermal and fast neutron fluxes. (author)

  7. Variability of trace gas concentrations over Asian region: satellite observations vs model

    Science.gov (United States)

    Sheel, Varun; Richter, Andreas; Srivastava, Shuchita; Lal, Shyam

    2012-07-01

    Nitrogen dioxide (NO_2) and Carbon Monoxide (CO) play a key role in the chemistry of the tropospheric ozone and are emitted mainly by anthropogenic processes. These emissions have been increasing over Asia over the past few years due to rapid economic growth and yet there are very few systematic ground based observations of these species over this region. We have analysed ten years of data from space borne instruments: Global Ozone Monitoring Experiment (GOME), SCanning Imaging Absorption spectroMeter for Atmospheric CHartographY (SCIAMACHY) and Measurements of Pollution in the Troposphere (MOPITT), which have been measuring the tropospheric abundance of these trace gases. We have examined trends over the period 1996-2008 in NO_2 and CO over a few Indian regions where high economic growth in the present decade is likely to see increased emissions for these species. However, even the highest growth rate of these species seen in the present study, is less when compared with similar polluted regions of China, where a much more rapid increase has been observed. In order to understand the trends and variability in atmospheric trace gas concentrations, one must take into account changes in emissions and transport. Only by assessing the relevance of each of these factors will it be possible to predict future changes with reasonable confidence. To this effect we have used a global chemical transport model, MOZART, to simulate concentrations of NO_2 and CO using the POET (European) and REAS (Asian) emission inventories. These are compared with satellite measurements to study seasonal variations and the discrepancies are discussed. The combined uncertainties of the emission inventory and retrieval of the satellite data could be contributing factors to the discrepancies. It may be thus worthwhile to develop emission inventories for India at a higher resolution to include local level activity data.

  8. Regional groundwater flow in the Atikokan research area : spatially variable density and viscosity

    International Nuclear Information System (INIS)

    In modelling the regional groundwater flow at the Atikokan Research Area (ARA), it was anticipated that fluid viscosity might vary significantly as a function of total dissolved solids (TDS) because pore fluids range from fresh through brackish and saline waters to brines. An empirical fluid viscosity-solute concentration equation adopted from Robinson and Stokes was modified and used to estimate viscosity from field-observed TDS. A molecular weight of 53.65 g and a temperature dependent Di coefficient of 0.1223 were estimated from groundwater chemistry data and used in the viscosity calculations. The calculated viscosities fell in the expected range in comparison with experimental values derived for sodium chloride solutions. Results of initial groundwater flow simulations in the ARA using the MOTIF finite-element code were found to be inconsistent with expectations. Employing hypothetical 'unit basin' models and accounting for concentration in the viscosity equation yielded results that are consistent with expected buoyancy effects. The influence of solute concentration must be considered in calculating both fluid density and viscosity for accurate simulation of variable density flow in an environment like the ARA. Simulations of groundwater flow for the ARA suggest that both flow directions and magnitudes should be simultaneously considered during model calibration. Simulations were also performed to assess the effects of varying the vertical boundary conditions, and to test the hypothesis that deep flow in the ARA may be regionally continuous and isolated from shallow -local systems. Hydrostatic-pressure boundary conditions. based on a fluid density distribution, were specified to allow horizontal inflow and outflow at the vertical boundaries which modified the flow pattern only in their proximities, and no continuous regional flow system was produced. Groundwater flow in the ARA may be analyzed with no-flow vertical boundary conditions. (author). 28 refs., 7

  9. ANALYSIS AND PLANNING OF REGIONAL DEVELOPMENT - CONTEXTUAL VARIABLES TO DEVELOP A MODEL FOR MONITORING FINANCIAL INDICATORS AT REGIONAL LEVEL.

    Directory of Open Access Journals (Sweden)

    CRIS TINA GRADEA

    2013-12-01

    Full Text Available Application of quantitative techniques in regional analysis can provide an understanding of both the change in time of regional economic performance and the interdependencies between economic sectors, including the use of projections to test the potential future development of the region. Qualitative techniques allow also the explanation of the reason for regional development patterns occurring in a region and the improvement of analysts' ability to reflect on the results and economic opportunities for a future based on collective experience, wisdom and judgment of the actors in region economies.

  10. Genetic variability in the regulatory region of presenilin 1 associated with risk for Alzheimer's disease and variable expression

    OpenAIRE

    Theuns, Jessie; Del-Favero, Jurgen; Dermaut, Bart; Duijn, Cock; Serneels, Sally; Corsmit, E.; Cruts, Marc; Backhovens, Hubert; Broeck, Marleen; Van Broeckhoven, Christine

    2000-01-01

    textabstractMutations in the presenilin 1 ( PSEN1 ) gene have been implicated in 18-50% of autosomal dominant cases with early-onset Alzheimer's disease (EOAD). Also, PSEN1 has been suggested as a potential risk gene in late-onset AD cases. We recently showed genetic association in a population-based study of EOAD, pointing to the 5' regulatory region of PSEN1. In this study we systematically screened 3.5 kb of the PSEN1 upstream region and found four novel polymorphisms. Genetic analysis con...

  11. A green supply chain network design model for enhancing competitiveness and sustainability of companies in high north arctic regions

    OpenAIRE

    Hao Yu, Wei Deng Solvang, Chen Chen

    2014-01-01

    To survive in today’s competitive and ever-changing marketplace, companies need not only to engage in their products and/or services, but also to focus on the management of the whole supply chain. Effectively managing and balancing the profitability and interconnection of each player in the supply chain will improve the overall supply chain surplus as well as individual profit. However, it is extremely difficult to simultaneously optimize several objectives in design and planning of a supply ...

  12. Variability of Active Galactic Nuclei from the Optical to X-ray Regions

    OpenAIRE

    Gaskell, C. Martin; Klimek, Elizabeth S.

    2009-01-01

    Some progress in understanding AGN variability is reviewed. Reprocessing of X-ray radiation to produce significant amounts of longer-wavelength continua seems to be ruled out. In some objects where there has been correlated X-ray and optical variability, the amplitude of the optical variability has exceeded the amplitude of X-ray variability. We suggest that accelerated particles striking material could be linking X-ray and optical variability (as in activity in the solar chromosphere). Beami...

  13. Orders Of Healthier Children's Items Remain High More Than Two Years After Menu Changes At A Regional Restaurant Chain.

    Science.gov (United States)

    Anzman-Frasca, Stephanie; Mueller, Megan P; Lynskey, Vanessa M; Harelick, Linda; Economos, Christina D

    2015-11-01

    In a previous study we showed that customers ordered healthier food following the April 2012 implementation of a healthier children's menu at Silver Diner, a regional restaurant chain. In this study we used newly available data to assess orders of children's menu items both one and two years after our last assessment. Previous assessments took place in September 2011-March 2012 and in September 2012-March 2013, before and after implementation of the new menu, respectively. Orders were abstracted from the restaurant's central database. We found that the overarching changes from the previous study were sustained during the two follow-up periods, with some small fluctuations (for example, the prevalence of healthy side dish orders changed from 38 percent of children's meals ordered to 74 percent, then 76 percent, and then 75 percent in the successive study periods). Ordering patterns at follow-up remained healthier than before the menu change and in some cases continued to improve. Similar interventions have the potential to promote sustainable healthier ordering patterns and inform policy. PMID:26526246

  14. Mutation in the B chain coding region is associated with impaired proinsulin conversion in a family with hyperproinsulinemia

    International Nuclear Information System (INIS)

    A family has recently been described in which hyperproinsulinemia is inherited in an autosomal dominant pattern, suggesting a structural abnormality in the proinsulin molecule as the basis for this disorder. However, unlike two previous kindreds with a similar syndrome, the serum proinsulin-like material in this family did not appear to be an intermediate conversion product but instead behaved like normal human proinsulin by several criteria. To further characterize this disorder the authors isolated and sequenced the insulin gene of the propositus. Leukocyte DNA was cloned in λgt-WES and recombinants containing the two insulin alleles, λMD41 and λMD51, were isolated by plaque hybridization. DNA sequencing of λMD51 showed that it contained the normal coding sequence for human preproinsulin. Sequence analysis of λMD41, however, revealed a single nucleotide substitution in the codon for residue 10 of proinsulin (CAC → GAC) that predicts the exchange of aspartic acid for histidine in the insulin B chain region. This mutation was also found in an insulin allele cloned from a second affected family member (propositus's father). These results strongly implicate this mutation as the cause of the hyperproinsulinemia in this family. Inhibition of the conversion of proinsulin to insulin may be related to altered folding and/or self-association properties of the [Asp10]proinsulin

  15. Mutation in the B chain coding region is associated with impaired proinsulin conversion in a family with hyperproinsulinemia

    Energy Technology Data Exchange (ETDEWEB)

    Chan, S.J.; Seino, S.; Gruppuso, P.A.; Schwartz, R.; Steiner, D.F.

    1987-04-01

    A family has recently been described in which hyperproinsulinemia is inherited in an autosomal dominant pattern, suggesting a structural abnormality in the proinsulin molecule as the basis for this disorder. However, unlike two previous kindreds with a similar syndrome, the serum proinsulin-like material in this family did not appear to be an intermediate conversion product but instead behaved like normal human proinsulin by several criteria. To further characterize this disorder the authors isolated and sequenced the insulin gene of the propositus. Leukocyte DNA was cloned in lambdagt-WES and recombinants containing the two insulin alleles, lambdaMD41 and lambdaMD51, were isolated by plaque hybridization. DNA sequencing of lambdaMD51 showed that it contained the normal coding sequence for human preproinsulin. Sequence analysis of lambdaMD41, however, revealed a single nucleotide substitution in the codon for residue 10 of proinsulin (CAC ..-->.. GAC) that predicts the exchange of aspartic acid for histidine in the insulin B chain region. This mutation was also found in an insulin allele cloned from a second affected family member (propositus's father). These results strongly implicate this mutation as the cause of the hyperproinsulinemia in this family. Inhibition of the conversion of proinsulin to insulin may be related to altered folding and/or self-association properties of the (Asp/sup 10/)proinsulin.

  16. Spatial and temporal variability in Moderate Resolution Imaging Spectroradiometer-derived surface albedo over global arid regions

    Science.gov (United States)

    Tsvetsinskaya, Elena A.; Schaaf, Crystal B.; Gao, Feng; Strahler, Alan H.; Dickinson, Robert E.

    2006-10-01

    We derive spectral and broadband surface albedo for global arid regions from data collected by the Moderate Resolution Imaging Spectroradiometer (MODIS) aboard the Terra spacecraft, at 1 km spatial resolution for 2001. MODIS data show considerable spatial variability both across various arid regions of the globe (from the bright deserts of northern Africa and the Arabian peninsula to substantially less reflective American and Asian deserts) and within regions (variability related to soil and rock types). For example, over arid northern Africa and the Arabian peninsula, albedo in the visible broadband varies by a factor of over 2, from the brightest sand sheets to the darkest luvisols. Few, if any, global and regional land-atmosphere models capture this observed spatial variability in surface albedo over arid regions. We suggest a scheme that relates soil groups (based on the United Nations Food and Agriculture Organization (FAO) soil classification) to MODIS-derived surface albedo statistics. This approach allows for an efficient representation in climate and weather forecasting models of the observed spatial and temporal variability in surface albedo over global deserts. Observed variability in albedo was reduced to a small (1-13, depending on the region) number of soil-related classes (end-members) that could be used in climate models. We also addressed the temporal evolution of albedo during 2001 over global deserts. Regions/soils of stable albedo with very low temporal variability were identified. For other regions/soils, temporal signals in albedo were related to ephemeral inundation with water or variations in sample size.

  17. Sequence comparisons of the variable VP2 region of eight infectious bursal disease virus isolates.

    Science.gov (United States)

    Dormitorio, T V; Giambrone, J J; Duck, L W

    1997-01-01

    The VP2 gene is part of the genomic segment A of infectious bursal disease virus (IBDV). It has been identified as the major host-protective antigen of IBDV and is known to contain conformationally dependent protective epitopes. A 643-base pair segment covering the hypervariable region of this gene from three recent serologic variant IBDV isolates from the southeastern United States, two variants from the Delmarva Peninsula, and three serologic standard viruses were amplified and sequenced using the reverse transcription polymerase chain reaction and cycle sequencing techniques. This was done to determine the molecular similarity among isolates that differ antigenically and pathologically. Sequence analysis suggested that the Arkansas (Ark) and Mississippi (Miss) isolates evolved closely and separately from the Delmarva variants (GLS and DELE), in contrast to the other southeastern variant Georgia (Ga), which is more closely related (98.32%) to Delaware E (DELE). All variants, except for Miss, underwent a shift in amino acid number 222 from proline to threonine. The sequence of Univax BD virus, a commercially available intermediate vaccine, was markedly different, evolving from a separate lineage than the others. Restriction enzyme sites could differentiate most isolates. Except for Miss, variants do not have EcoRII site at the larger hydrophilic domain. All variants lost their HaeIII, StuI, and StyI cutting sites with a change in base number 856. The TaqI site is in DELE, whereas the SpeI site is absent in the standard vaccine viruses. The SWASASGS heptapeptide is conserved in all virulent viruses, including APHIS, but not in the attenuated (Univax BD and Bursa Vac 3) and published (D78 and PBG98) vaccines. PMID:9087318

  18. [Study on three-dimension spatial variability of regional soil salinity based on spectral indices].

    Science.gov (United States)

    Liu, Guang-Ming; Wu, Ya-Kun; Yang, Jin-Song; Yu, Shi-Peng

    2013-10-01

    In order to illustrate the three-dimension spatial variability of soil salinity in central China flood area of the Yellow river, integrated soil sampling data and remote sensing data, spectral indices and inverse distance weighting (IDW) method were applied to the estimation and simulation of three-dimension spatial distribution of soil salinity. The study was carried out in typical central China flood area of the Yellow river in Fengqiu County, Henan Province, China. The electrical conductivity of the saturation extract (EC1: 5) of 505 soil samples collected at 101 points was measured. The results indicated that the coefficient of variation of soil salinity at each soil layer is from 0.218 to 0.324 and exhibited the moderate spatial variability. The average of soil electrical conductivity is from 0.121 to 0.154 ds x m(-1). The 2 820 three-dimension spatial scattered data for soil electrical conductivity were taken at soil salinity mapping interpreted by spectral indices and soil electrical conductivity. Three-dimension IDW interpolation showed that a large area of high soil salinity mainly located in the region of Tianran canal and the along of the Yellow river. The shape of the soil salinity profile was downward flowed, revealing soil salinity increasing with depth in whole soil profile and soil salinity accumulated in the subsoil. The accuracy of the predictions was tested using 20 soil sampled points. The root mean square error (RMSE) of calibration for three-dimension distribution of soil salinity showed that the IDW method based on spectral indices was ideal. The research results can provide theoretical foundations to the management and utilization of salt-affected land in China flood area, especially in the Yellow river zone. PMID:24409731

  19. Regions of variable DNA methylation in human placenta associated with newborn neurobehavior.

    Science.gov (United States)

    Paquette, Alison G; Houseman, E Andres; Green, Benjamin B; Lesseur, Corina; Armstrong, David A; Lester, Barry; Marsit, Carmen J

    2016-08-01

    The placenta regulates the in utero environment and functionally impacts fetal development. Candidate gene studies identified variation in placental DNA methylation is associated with newborn neurologic and behavioral outcomes including movement quality, lethargic behavior, attention, and arousal. We sought to identify novel regions of variable DNA methylation associated with newborn attention, lethargy, quality of movement, and arousal by performing an epigenome-wide association study in 335 infants from a US birth cohort. Methylation status was quantified using the Illumina HumanMethylation450 BeadChip array and associations to newborn outcomes assessed by the NICU Network Neurobehavioral Scales (NNNS) were identified while incorporating established bioinformatics algorithms to control for confounding by cell type composition. Methylation of CpGs within FHIT (cg15970800) and ANKRD11 (cg16710656) demonstrated genome-wide significance (P < 1.8 × 10(-7)) in specific associations with infant attention. CpGs whose differential methylation was associated with all 4 neurobehavioral outcomes were common to 50 genes involved in biological processes relating to cellular adhesion and nervous system development. Comprehensive methylation profiling identified relationships between methylation of FHIT and ANKRD11, which have been previously linked to neurodevelopment and behavioral outcomes in genetic association studies. Subtle changes in DNA methylation of these genes within the placenta may impact normal variation of a newborn's ability to alter and track visual and auditory stimuli. Gene ontology analysis suggested that those genes with variable methylation related to these outcomes are over-represented in biological pathways involved in brain development and placental physiology, supportive of our hypothesis for a key role of the placenta in neurobehavioral outcomes. PMID:27366929

  20. The Effect of Regional Climate Variability on Outbreak of Bartonellosis Epidemics in Peru

    Science.gov (United States)

    Zhou, Jia-Yu; Lau, K.-M.; Laughlin, Larry W.; Masuoka, Penny M.; Andre, Richard G.; Chamberlin, Judith; Lawyer, Phillip; Lau, William K. M. (Technical Monitor)

    2001-01-01

    Bartonellosis is a vector-borne, highly fatal, emerging infectious disease, which has been known in the Peruvian Andes since the early 1600s and has continued to be a problem in many mountain valleys in Peru and other Andean South American countries. The causative bacterium, Bartonella bacilliformis (Bb), is believed to be transmitted to humans by bites of the sand fly Lutzomyia verrucarum. According to available medical records, the transmission of infection often occurs in river valleys of the Andes Mountains at an altitude between 800 and 3500 meters above sea level. It shows a seasonal pattern, which usually begins to rise in December, peaks in February and March, and is at its lowest from July until November. The epidemics of bartonellosis also vary interannually, occurring every four to eight years, and appear to be associated with the El Nino cycle. In response to the National Oceanic and Atmospheric Administration (NOAA) announcement on climate variability and human health, which was constructed to stimulate integrated multidisciplinary research in the area of climate variability and health interactions, we have conducted a study to investigate the relationship between the El Nino induced regional climate variation and the outbreak of bartonellosis epidemics in Peru. Two test sites, Caraz and Cusco, were selected for this study. According to reports, Caraz has a long-standing history of endemic transmission and Cusco, which is located about five degrees poleward of Caraz, had no recorded epidemics until the most recent 1997/1998 El Nino event. The goal of this study is to clarify the relative importance of climatic risk factors for each area that could be predicted in advance, thus allowing implementation of cost-effective control measures, which would reduce disease morbidity and mortality.

  1. Adaptation of rainfed agriculture to climatic variability in the Mixteca Alta Region of Oaxaca, Mexico

    Science.gov (United States)

    Rogé, P.; Friedman, A. R.; Astier, M.; Altieri, M.

    2015-12-01

    The traditional management systems of the Mixteca Alta Region of Oaxaca, Mexico offer historical lessons about resilience to climatic variability. We interviewed small farmers to inquire about the dynamics of abandonment and persistence of a traditional management systems. We interpret farmers' narratives from a perspective of general agroecological resilience. In addition, we facilitated workshops in small farmers described their adaptation to past climate challenges and identified 14 indicators that they subsequently used to evaluate the condition of their agroecosystems. The most recent years presented increasingly extreme climatic and socioeconomic hardships: increased temperatures, delayed rainy seasons, reduced capacity of soils to retain soil moisture, changing cultural norms, and reduced rural labor. Farmers reported that their cropping systems were changing for multiple reasons: more drought, later rainfall onset, decreased rural labor, and introduced labor-saving technologies. Examination of climate data found that farmers' climate narratives were largely consistent with the observational record. There have been increases in temperature and rainfall intensity, and an increase in rainfall seasonality that may be perceived as later rainfall onset. Farmers ranked landscape-scale indicators as more marginal than farmer management or soil quality indicators. From this analysis, farmers proposed strategies to improve the ability of their agroecosystems to cope with climatic variability. Notably, they recognized that social organizing and education are required for landscape-level indicators to be improved. Transformative change is required to develop novel cropping systems and complementary activities to agriculture that will allow for farming to be sustained in the face of these challenges. Climate change adaptation by small farmers involves much more than just a set of farming practices, but also community action to tackle collective problems.

  2. Effect of a long chain n-3 PUFA-enriched diet on production and reproduction variables in Holstein dairy cows.

    Science.gov (United States)

    Elis, Sebastien; Freret, Sandrine; Desmarchais, Alice; Maillard, Virginie; Cognié, Juliette; Briant, Eric; Touzé, Jean-Luc; Dupont, Mickael; Faverdin, Philippe; Chajès, Véronique; Uzbekova, Svetlana; Monget, Philippe; Dupont, Joëlle

    2016-01-01

    The objective of this study was to determine the effect of a rumen-protected fish oil supplement on the production and reproduction variables in postpartum dairy cows. Holstein cows (n=46) were given a basal total mixed diet plus one PUFA supplement: n-3 (n-3; protected fish oil; 1% dry matter intake (DMI); n=23) or control (n-6; toasted soybeans; 1.8% DMI; n=23), in a switchback design over two consecutive lactations. Supplements were added to the diet between calving and 2 months after calving to assess the effect on growth and maturation of ovarian follicles from which ovulation occurred around the day of insemination. Body weight (BW), milk yield (MY) and composition, dry matter intake (DMI), energy balance (EB), subcutaneous fat thickness, plasma fatty acid composition, plasma nonesterified fatty acids (NEFA), glucose and urea concentrations, follicular activity, embryo mortalities and fertility (conception rate after first AI, AI1) were assessed. BW, MY, DMI, plasma NEFA, glucose and urea were unaffected by the diet. There was a trend of an increased number of large follicles (diameter≥10mm) with the n-3 dietary supplementation (P=0.06) and a decrease in infertility or early embryo mortality rate 21 days after AI, 13.5% in the n-3 compared with 38.8% in the n-6 group (P=0.09), with no effect on the conception rate at 35d or 90d after AI1. These data suggest that the effect seen on ovarian variables is not associated with an effect on production and metabolic variables and is specific to n-3 PUFA supplementation. Further studies are necessary to determine whether DHA or EPA enhances fertility in lactating dairy cattle. PMID:26651949

  3. The most common mutation causing medium-chain acyl-CoA dehydrogenase deficiency is strongly associated with a particular haplotype in the region of the gene

    DEFF Research Database (Denmark)

    Kølvraa, S; Gregersen, N; Blakemore, A I; Schneidermann, A K; Winter, V; Andresen, B S; Curtis, D; Engel, P C; Pricille, D; Rhead, W

    1991-01-01

    RFLP haplotypes in the region containing the medium-chain acyl-CoA dehydrogenase (MCAD) gene on chromosome 1 have been determined in patients with MCAD deficiency. The RFLPs were detected after digestion of patient DNA with the enzymes BanII. PstI and TaqI and with an MCAD cDNA-clone as a probe. Of...

  4. Follicular lymphoma with a novel t(14;18) breakpoint involving the immunoglobulin heavy chain switch mu region indicates an origin from germinal center B cells

    NARCIS (Netherlands)

    Fenton, JAL; Vaandrager, JW; Aarts, WM; Bende, RJ; Heering, K; van Dijk, M; Morgan, G; van Noesel, CJM; Schuuring, E; Kluin, PM

    2002-01-01

    With the use of DNA-fiber fluorescent in situ hybridization, a BCL2 protein positive follicular lymphoma with a novel BCL2 breakpoint involving the immunoglobulin heavy chain (IGH) switch mu (S-mu) region instead of the J(H) or D-H gene segments was identified. Sequence analysis showed that the geno

  5. Cost and time models for the evaluation of intermodal chains by using short sea shipping in the North Sea Region: the Rosyth-Zeebrugge route

    DEFF Research Database (Denmark)

    Lopez, Alba Martínez; Kronbak, Jacob; Jiang, Liping

    2015-01-01

    This paper is framed in the context of the EU Interreg IVB North Sea Region project Food Port. In line with this project, this paper aims to define mathematically cost and time models able to provide realistic information about the performances of road haulage and of intermodal chains using short...

  6. Role of the Acidic Hirudin-like COOH-Terminal Amino Acid Region of Factor Va Heavy Chain in the Enhanced Function of Prothrombinase† ‡

    OpenAIRE

    Hirbawi, Jamila; Bukys, Michael A.; Barhoover, Melissa A.; Evrim ERDOGAN; Kalafatis, Michael

    2008-01-01

    Prothrombinase activates prothrombin through initial cleavage at Arg320 followed by cleavage at Arg271. This pathway is characterized by the generation of an enzymatically active, transient intermediate, meizothrombin, that has increased chromogenic substrate activity but poor clotting activity. The heavy chain of factor Va contains an acidic region at the COOH terminus (residues 680−709). We have shown that a pentapeptide from this region (DYDYQ) inhibits prothrombin activation by prothrombi...

  7. Decadal gully development in Northern Ethiopia: Understanding networks, volumes and regional variability from remote sensing data

    Science.gov (United States)

    Frankl, Amaury; Poesen, Jean; Scholiers, Nelles; Jacob, Miro; Haile, Mitiku; Deckers, Jozef; Nyssen, Jan

    2013-04-01

    Understanding historical and present-day gully development is essential when addressing the causes and consequences of land degradation. For Northern Ethiopia, several reports exist on the severity of gully erosion, yet few studies quantified gully development. In this paper, gully network and volume development were quantified over the period 1963-2010 for an area of 123 km², representative for the regional variability in environmental characteristics. Gully networks were mapped from small-scale aerial photographs and high-resolution satellite images. As only gully length could be accurately defined from the aerial photographs and satellite images, quantifying gully volume development required to establish relations between gully network volume (V) and length (L) (or catchment area, A). Field observations indicated that the lithology and the presence/or absence of check dams or low-active channels were the most important controls of gully cross-sectional shape and size. From the network and volume development over the period 1963-2010, the occurrence of one cut-and-fill cycle is apparent. From a largely low-dynamic gully system in the 1960s, network expansion and increased erosion rates in the 1980s and 1990s caused the drainage density and volume to peak in 1994. The total gully density (Dtotal) was then 2.52 km km-2, coinciding with soil losses of 17.6 ton ha-1 y-1 over the period 1963/1965-1994. By 2010, improved land management and the region-wide implementation of soil and water conservation measures caused 25% the gully network to stabilize, resulting in a recent net infilling of the gully channels. The study validates previous findings that land degradation by gullying was severe in Northern Ethiopia in the second half of the 20th century, but also shows that when proper land management is applied, gullies can be transformed into a linear oasis, which increases the resistance of gullies to further erosion.

  8. Simulating multi-decadal variability of Caspian Sea level changes using regional climate model outputs

    Energy Technology Data Exchange (ETDEWEB)

    Elguindi, N.; Giorgi, F. [Abdus Salam International Center for Theoretical Physics, Physics of Weather and Climate Section, P.O. Box 586, Trieste (Italy)

    2006-02-01

    The Caspian Sea is the largest enclosed body of water on earth, covering approximately 4 x 10{sup 5} km{sup 2} and sharing its coast with five countries (Iran, Azerbaijan, Kazakhstan, Russia and Turkmenistan). Because it has no outlet to the ocean the Caspian Sea level (CSL) has undergone rapid shifts in response to climatic forcings, and these have been devastating for the surrounding countries. In this paper we present the initial results of a modeling effort aimed at building a regional climate model for the Caspian Sea basin suitable to study the response of the CSL to interdecadal climate variability and anthropogenic climate change. Simulations are performed using the International Centre for Theoretical Physics (ICTP) regional climate model RegCM at a 50 km grid spacing for the period 1948-1990. During this period an abrupt shift occurred in the sea level after 1977, when the CSL rose about two meters until the early 1990s. Using a simple equation of hydrologic balance for the Caspian Sea basin to predict the CSL, we show that the model is able to reproduce the observed CSL changes at interannual to multidecadal scales. The correlation coefficient between the simulated and observed annual CSL changes is 0.91 and the model is able to reproduce the abrupt shift in CSL which occurred after 1977. Analysis of the climatologies before and after 1977 indicate that the CSL rise was mostly due to an increase in precipitation over the northern basin and a decrease in evaporation over the sea, primarily during the warm season. We plan to apply our model to the investigation of the response of the CSL to anthropogenic climate forcings. (orig.)

  9. Variability on the Hypoxic Conditions in the Northwestern Region of the Baja California Peninsula

    Science.gov (United States)

    Bustos-Serrano, H.

    2015-12-01

    The NW region of the Baja California peninsula in México is dominated by the California Current System (CCS). Dissolved oxygen (DO) is a key variable in water bodies because it is considered as a health in biological processes. Hypoxic conditions (DO 60 to 120 μmol kg-1) occur naturally in large areas of the ocean. In the Eastern Pacific, the DO can be altered by eutrophication, derived from anthropogenic activity, especially in shallow and enclosed seas. Fluctuations in the conditions of hypoxia zones may have significant ecological and economic impact. It is of interest in assessing whether hypoxic conditions in the vicinity of Bahia de Todos Santos (BTS) and Coronado Islands in México are altered by anthropogenic activity (Figs. 1 and 2 respectively). For the present study, we worked with data collected from oceanographic expeditions during the period October 2010 to June 2015. The DO was determined using a CTD (SBE Model 25) and by sea water collection with hydrographic bottles using a modification of the Winkler method. The signs of hypoxia are evident in the area near BTS and in the vicinity of Coronado´s Islands, mainly on locations between the Todos Santos Islands and the peninsula of Punta Banda, which shows that the hypoxic zone begins to occur in shallow water between 50-200 m depth. This particular area corresponds to the point where the Mexican Navy determined as a site for dredging materials from the ports of Ensenada and El Sauzal, it is possible that the anthropogenic activity alters the natural conditions of hypoxia in the area to enlarge. In June 2012 for the first time in that region we obtained sediment samples below 700 m depth, which are mixed terrigenous clastic and oceanic sediments.

  10. Dissolved Organic Matter in Headwater Streams: Compositional Variability across Climatic Regions of North America

    Science.gov (United States)

    Jaffé, R.; Yamashita, Y.; Maie, N.; Cooper, W. T.; Dittmar, T.; Dodds, W. K.; Jones, J. B.; Myoshi, T.; Ortiz-Zayas, J. R.; Podgorski, D. C.; Watanabe, A.

    2012-10-01

    Dissolved organic matter (DOM) represents the largest organic matter pool in freshwater systems, but much of it remains molecularly uncharacterized. Although freshwater systems cover only a small area of the earth's surface, inland waters are an important component of the global carbon cycle. The traditional idea that rivers are simply conduits for refractory carbon delivery to coastal areas is inconsistent with carbon flux estimates, and streams have been shown to serve as reactors for DOM cycling. The overall quality of DOM, and its associated reactivity, can be related to its chemical composition and molecular structure. However, the variability of DOM composition in freshwater ecosystems, particularly in headwater streams, is poorly characterized. Detailed molecular studies of DOM from small streams across climatic regions, which could provide critical information regarding carbon dynamics on a more global scale, have not been performed. To address these issues, this study applies a multi-method analytical approach in an attempt to assess molecular characteristics of DOM and ultrafiltered DOM (UDOM) in headwater streams from different climatic regions in North America. In general terms the chemical and molecular characteristics of UDOM from six different biomes were determined in unsurpassed detail to feature some clear general similarities but also specific differences. While the degree of similarity is remarkable, and suggests similar source strengths, such as soil-derived organic matter and/or similar diagenetic degradation processes for DOM from vastly different environments, each sample was clearly unique in its overall composition, featuring some distinct molecular patterns for at least one or more of the analytical determinations. Molecular and compositional differences of DOM from headwater streams should result from variations in DOM sources and localized environmental conditions, and consequently feature different photo- and bio-reactivity and

  11. A Variable-resolution Surface Wave Dispersion Study of Eurasia, North Africa, and Surrounding Regions

    Energy Technology Data Exchange (ETDEWEB)

    Pasyanos, M E

    2005-03-21

    This paper presents the results of a large-scale study of surface wave dispersion performed across Eurasia and North Africa. Improvements were made to previous surface wave work by enlarging the study region, increasing path density, improving spatial resolution, and expanding the period range. This study expands the coverage area northwards and eastwards relative to a previous dispersion analysis, which covered only North Africa and the Middle East. We have significantly increased the number of seismograms examined and group velocity measurements made. We have now made good quality dispersion measurements for about 30,000 Rayleigh wave and 20,000 Love wave paths, and have incorporated measurements from several other researchers into the study. A conjugate gradient method was employed for the group velocity tomography, which improved the inversion from the previous study by adopting a variable smoothness. This technique allows us to go to higher resolution where the data allow without producing artifacts. The current results include both Love and Rayleigh wave inversions across the region for periods from 7 to 100 seconds at 1{sup o} resolution. Short period group velocities are sensitive to slow velocities associated with large sedimentary features such as the Caspian Sea, West Siberian Platform, Mediterranean Sea, Bay of Bengal, Tarim Basin, and Persian Gulf. Intermediate periods are sensitive to differences in crustal thickness, such as those between oceanic and continental crust or along orogenic zones and continental plateaus. At longer periods, fast velocities are consistently found beneath cratons while slow upper mantle velocities occur along rift systems, subduction zones, and collision zones such as the Tethys Belt. We have compared the group velocities at various periods with features such as sediment thickness, topographic height, crustal thickness, proximity to plate boundaries, lithospheric age and lithospheric thickness, and find significant

  12. Generation and characterization of a human single-chain fragment variable (scFv antibody against cytosine deaminase from Yeast

    Directory of Open Access Journals (Sweden)

    Tombesi Marina

    2008-09-01

    Full Text Available Abstract Background The ability of cytosine deaminase (CD to convert the antifungal agent 5-fluorocytosine (5-FC into one of the most potent and largely used anticancer compound such as 5-fluorouracil (5-FU raised considerable interest in this enzyme to model gene or antibody – directed enzyme-prodrug therapy (GDEPT/ADEPT aiming to improve the therapeutic ratio (benefit versus toxic side-effects of cancer chemotherapy. The selection and characterization of a human monoclonal antibody in single chain fragment (scFv format represents a powerful reagent to allow in in vitro and in vivo detection of CD expression in GDEPT/ADEPT studies. Results An enzymatic active recombinant CD from yeast (yCD was expressed in E. coli system and used as antigen for biopanning approach of the large semi-synthetic ETH-2 antibody phage library. Several scFvs were isolated and specificity towards yCD was confirmed by Western blot and ELISA. Further, biochemical and functional investigations demonstrated that the binding of specific scFv with yCD did not interfere with the activity of the enzyme in converting 5-FC into 5-FU. Conclusion The construction of libraries of recombinant antibody fragments that are displayed on the surface of filamentous phage, and the selection of phage antibodies against target antigens, have become an important biotechnological tool in generating new monoclonal antibodies for research and clinical applications. The scFvH5 generated by this method is the first human antibody which is able to detect yCD in routinary laboratory techniques without interfering with its enzymatic function.

  13. The long-term X-ray variability properties of AGN in the Lockman Hole region

    OpenAIRE

    Papadakis, I. E.; Chatzopoulos, E.; Athanasiadis, D.; A. Markowitz(University of California, San Diego, United States); Georgantopoulos, I.

    2008-01-01

    We present the results from a detailed X-ray variability analysis of 66 AGN in the Lockman Hole, which have optical spectroscopic identifications. We compare, quantitatively, their variability properties with the properties of local AGN, and we study the "variability-luminosity" relation as a function of redshift, and the "variability-redshift" relation in two luminosity bins. We use archival data from the last 10 XMM observations of the Lockman Hole field to extract light curves in the rest ...

  14. Evolution of vertebrate IgM: complete amino acid sequence of the constant region of Ambystoma mexicanum mu chain deduced from cDNA sequence.

    Science.gov (United States)

    Fellah, J S; Wiles, M V; Charlemagne, J; Schwager, J

    1992-10-01

    cDNA clones coding for the constant region of the Mexican axolotl (Ambystoma mexicanum) mu heavy immunoglobulin chain were selected from total spleen RNA, using a cDNA polymerase chain reaction technique. The specific 5'-end primer was an oligonucleotide homologous to the JH segment of Xenopus laevis mu chain. One of the clones, JHA/3, corresponded to the complete constant region of the axolotl mu chain, consisting of a 1362-nucleotide sequence coding for a polypeptide of 454 amino acids followed in 3' direction by a 179-nucleotide untranslated region and a polyA+ tail. The axolotl C mu is divided into four typical domains (C mu 1-C mu 4) and can be aligned with the Xenopus C mu with an overall identity of 56% at the nucleotide level. Percent identities were particularly high between C mu 1 (59%) and C mu 4 (71%). The C-terminal 20-amino acid segment which constitutes the secretory part of the mu chain is strongly homologous to the equivalent sequences of chondrichthyans and of other tetrapods, including a conserved N-linked oligosaccharide, the penultimate cysteine and the C-terminal lysine. The four C mu domains of 13 vertebrate species ranging from chondrichthyans to mammals were aligned and compared at the amino acid level. The significant number of mu-specific residues which are conserved into each of the four C mu domains argues for a continuous line of evolution of the vertebrate mu chain. This notion was confirmed by the ability to reconstitute a consistent vertebrate evolution tree based on the phylogenic parsimony analysis of the C mu 4 sequences. PMID:1382992

  15. Development of a biotinylated broad-specificity single-chain variable fragment antibody and a sensitive immunoassay for detection of organophosphorus pesticides.

    Science.gov (United States)

    Zhao, Fengchun; Tian, Yuan; Wang, Huimin; Liu, Jiye; Han, Xiao; Yang, Zhengyou

    2016-09-01

    Organophosphorus pesticides (OPs) are the most widely used pesticides in agriculture, and OP residues have been broadly reported in food and environmental samples. The aim of this study is to develop a recombinant antibody-based broad-specificity immunoassay for OPs. A phage display library was prepared from a mouse pre-immunized with a generic immunogen of OPs, and a single-chain variable fragment (scFv) antibody was selected. The selected scFv antibody was fused with biotin acceptor domain (BAD) and overexpressed as an inclusion body in Escherichia coli BL21 (DE3). Then, the protein was refolded by stepwise urea gradient dialysis and biotinylated in vitro by E. coli biotin ligase (BirA). Subsequently, the scFv-BAD protein was purified from the biotinylated system with high yield (66.7 mg L(-1)) and confirmed by SDS-PAGE and Western blot. Based on the biotinylated scFv-BAD, a sensitive and broad-specificity competitive indirect enzyme-linked immunosorbent assay (ciELISA) for detection of OPs was developed. The cross-reactivity (CR) studies demonstrated that the ciELISA described here exhibited the broadest detection spectrum for OPs up to now, and 30 OPs could be determined with 50 % inhibition value (IC50) values ranging from 19.4 to 515.2 ng mL(-1). Moreover, the developed ciELISA was used for the recovery study of the spiked samples and showed satisfactory recoveries. Graphical Abstract Schematic diagram of the development of biotinylated broad-specificity single-chain variable fragment antibody-based immunoassay for organophosphorus pesticides. PMID:27411546

  16. Modulation of extremes in the Atlantic region by modes of climate variability/change: A mechanistic coupled regional model study

    Energy Technology Data Exchange (ETDEWEB)

    Saravanan, Ramalingam

    2015-01-09

    During the course of this project, we have accomplished the following: 1) Explored the parameter space of component models to minimize regional model bias 2) Assessed the impact of air-sea interaction on hurricanes, focusing in particular on the role of the oceanic barrier layer 3) Contributed to the activities of the U.S. CLIVAR Hurricane Working Group 4) Assessed the impact of lateral and lower boundary conditions on extreme flooding events in the U.S. Midwest in regional model simulations 5) Analyzed the concurrent impact of El Niño-Southern Oscillation and Atlantic Meridional Mode on Atlantic Hurricane activity using observations and regional model simulations

  17. Complete sequence of a cDNA clone specifying sandbar shark immunoglobulin light chain: gene organization and implications for the evolution of light chains.

    OpenAIRE

    Hohman, V S; Schluter, S F; Marchalonis, J J

    1992-01-01

    A full-length cDNA clone specifying sandbar shark (Carcharhinus plumbeus) immunoglobulin light chain has been isolated and sequenced. By alignment with human lambda chains, the leader, framework, complementarity-determining, joining, and constant regions are clearly identified in the shark light chain. Approximately 40-50% identity is shared between the human and shark sequences in the variable and constant regions. We have performed sequence comparisons of the individual segments and constru...

  18. Approaches to supply chain logistics integration in the textile/clothing sector: an exploratory study in the Region of Campania

    OpenAIRE

    De Martino, Marcella; Marasco, Alessandra

    2007-01-01

    Given its potential to reduce lead times and total costs of operations, increase delivery speed, responsiveness and flexibility, and ultimately customer satisfaction, supply chain logistics integration can help to improve the competitiveness of the Italian textile and clothing (T/C) firms. However, little research works on supply chain management in general, and few studies on logistics integration in particular have focused their attention on this sector. This paper analyses the approaches t...

  19. Farm Advisory Services for the Agro-Food Supply Chain as a Foster of Innovation: The Case of Veneto Region

    OpenAIRE

    Ascione, Elisa; Cristiano, Simona; Tarangioli, Serena

    2011-01-01

    The aim of this study is to analyze the potentiality of the extension services in agriculture, to mainstream innovation in terms of sectoral competitiveness, when integrated into the agro-food supply chain. In doing this, the case of Venetian agriculture will give empirical evidence to the assumptions of this study, serving the identification of key factors, related to the use of extension services integrated into the so-called Integrated Supply Chain Projects (ISCPs), which are emerging as i...

  20. Modeling South America regional smoke plume: aerosol optical depth variability and shortwave surface forcing

    Directory of Open Access Journals (Sweden)

    N. E. Rosário

    2012-07-01

    Full Text Available Intra-seasonal variability of smoke aerosol optical depth (AOD and downwelling solar irradiance at the surface during the 2002 biomass burning season in South America was modeled using the Coupled Chemistry-Aerosol-Tracer Transport model to the Brazilian developments on the Regional Atmospheric Modeling System (CCATT-BRAMS. Measurements of AOD from the AErosol RObotic NETwork (AERONET and solar irradiance at the surface from the Solar Radiation Network (SolRad-NET were used to evaluate model results. In general, the major features associated with AOD evolution over the southern part of the Amazon Basin and cerrado ecosystem are captured by the model. The main discrepancies were found for high aerosol loading events. In the northeastern portion of the Amazon Basin the model systematically underestimated AOD. This is likely due to the cloudy nature of the region, preventing accurate detection of the fire spots used in the emission model. Moreover, measured AOD were very often close to background conditions and emissions other than smoke were not considered in the simulation. Therefore, under the background scenario, one would expect the model to underestimate AOD. The issue of high aerosol loading events in the southern part of the Amazon and cerrado is also discussed in the context of emission shortcomings. The Cuiabá cerrado site was the only one where the highest quality AERONET data were unavailable. Thus, lower quality data were used. Root-mean-square-error (RMSE between the model and observations decreased from 0.48 to 0.17 when extreme AOD events (AOD550 nm ≥ 1.0 and Cuiabá were excluded from analysis. Downward surface solar irradiance comparisons also followed similar trends when extremes AOD were excluded. This highlights the need to improve the modelling of the regional smoke plume in order to enhance the accuracy of the radiative energy budget. Aerosol optical model based on the mean intensive properties of smoke from the

  1. Modeling the South American regional smoke plume: aerosol optical depth variability and surface shortwave flux perturbation

    Directory of Open Access Journals (Sweden)

    N. E. Rosário

    2013-03-01

    Full Text Available Intra-seasonal variability of smoke aerosol optical depth (AOD and downwelling solar irradiance at the surface during the 2002 biomass burning season in South America was modeled using the Coupled Chemistry-Aerosol-Tracers Transport model with the Brazilian developments on the Regional Atmospheric Modeling System (CCATT-BRAMS. Measurements of total and fine mode fraction (FMF AOD from the AErosol RObotic NETwork (AERONET and solar irradiance at the surface from the Solar Radiation Network (SolRad-NET were used to evaluate model results. In general, the major features associated with AOD evolution over the southern part of the Amazon basin and cerrado ecosystem are captured by the model. The main discrepancies were found for high aerosol loading events. In the northeastern portion of the Amazon basin the model systematically underestimated total AOD, as expected, since smoke contribution is not dominant as it is in the southern portion and emissions other than smoke were not considered in the simulation. Better agreement was obtained comparing the model results with observed FMF AOD, which pointed out the relevance of coarse mode aerosol emission in that region. Likewise, major discrepancies over cerrado during high AOD events were found to be associated with coarse mode aerosol omission in our model. The issue of high aerosol loading events in the southern part of the Amazon was related to difficulties in predicting the smoke AOD field, which was discussed in the context of emissions shortcomings. The Cuiabá cerrado site was the only one where the highest quality AERONET data were unavailable for both total and FMF AOD. Thus, lower quality data were used. Root-mean-square error (RMSE between the model and observed FMF AOD decreased from 0.34 to 0.19 when extreme AOD events (FMF AOD550 nm ≥ 1.0 and Cuiabá were excluded from the analysis. Downward surface solar irradiance comparisons also followed similar trends when extreme AOD were excluded

  2. The Large-Scale Oscillations Influence Over the Interdecadal Climate Variability in Mexico's Central Region

    Science.gov (United States)

    Jofre, R.; Brito-Castillo, L.; Tereshchenko, I.; Atmospheric Sciences Climatology Climate Variability

    2013-05-01

    Climate in the highlands of Mexico displays high variability due to its complex terrain and elevation. The knowledge to elucidate the principal forcings of these variations can be useful for forecasting annual and seasonal temperature and precipitation over this area. Due to its complexity a small area in the highlands was delimited with defined physical boundaries, encompassing several states of Mexico. The study area was defined as Mexico's Central Region (MCR), which is located between 19.5 ° - 22.5 ° N and 98.5 ° - 104 ° W. Most of this area overlies the plateau of Anahuac, whose physical boundaries extend to the north from the "Sierras Transversales" (composed by the "Sierra de Zacatecas", the "Sierra de la "Breña" and the "Sierra de San Luis") to the "Eje Neovolcánico" to the south; east and west boundaries are confined by the "Sierra Madre Oriental" and the "Sierra Madre Occidental", respectively. Daily data of maximum and minimum temperature and precipitation series from a total of 112 weather stations were obtained from CLICOM and ERICIII databases. Several climatic indices with average periods of phase oscillations greater than five years, such as the Pacific Decadal Oscillation (PDOI), the Atlantic Multidecadal Oscillation (AMOI), The Arctic Oscillation (AOI), the North Atlantic Oscillation (NAOI), and Aleutian Low Pressure (ALPI) on a monthly basis for all series, except the ALPI series which is on annual rate, were also used in this study. Indices data were obtained from the web site http://www.cicimar.ipn.mx/oacis/Indices_Climaticos.php/. The common period of all series was 1961-2000. We applied Principal Component Analysis to precipitation and temperature series to identify the principal modes of variation of the series. The first mode explained more than 68% of the variance in the original series and corresponds to annual variations. Contour maps were useful to elucidate that temperature variations are highly correlated with the terrain

  3. Diurnal Cycle Variability of Rainfall Over the Indian Region: Perspectives From the TRMM Satellite

    Science.gov (United States)

    Sahany, S.; Venugopal, V.; Nanjundiah, R. S.

    2008-12-01

    Using the TRMM 3-hourly, 0.25x0.25 degree 3B42 rainfall product for nine years (1999-2007), we characterise the summer season (JJAS) diurnal cycle of rainfall over the Indian land and its neighbouring oceans (10S to 35N, 60E to 100E). Most previous studies have provided an analysis of a single or few years of satellite- or station-based rainfall data (e.g., Basu, 2007; Yang and Smith, 2006; Nesbitt and Zipser, 2003) and, to our knowledge, this is one of the first studies that aims to exhaustively characterise the diurnal scale statistical characteristics of rainfall over the Indian and surrounding regions. Using harmonic analysis, we extract, at each grid point, every year, the signal corresponding to time periods smaller than 1 day, i.e., the signal that relates to diurnal and sub-diurnal variability. Subsequently, the time of rainfall peak for this filtered signal, referred to as the "peak hour," is estimated, with care taken to eliminate spurious peaks arising out of Gibbs oscillations. Our analysis suggests that the mode of the peak hour (of the diurnal-scale rainfall) over a significant part of Indian land is at 12 UTC (i.e. 5:30PM local time), a finding similar to that reported in previous studies (e.g., Liu and Zipser, 2008; Krishnamurti and Kishtawal, 2000). The Himalayan foothills were found to have a mode of peak hour at 21 UTC (i.e. 2:30AM local time), whereas over the Burmese mountains the rainfall peaks at 9 to 12 UTC (i.e. 3:30 PM to 6:30 PM local time). In addition, over the Bay of Bengal, there is a stratified spatial structure of mode of the peak hour of diurnal rainfall at 6, 9 and 12 UTC from North central to South Bay. This finding, not reported before, could be seen to be consistent with southward propagation of the diurnal rainfall pattern (e.g., Hoyos and Webster, 2007; Zuidema, 2003). We also find that the Arabian sea (to the east of 65E and north of the Equator, along a region where it rains for more than 50% of the time) shows a peak hour

  4. Characterizing seawater oxygen isotopic variability in a regional ocean modeling framework: Implications for coral proxy records

    Science.gov (United States)

    Stevenson, S.; Powell, B. S.; Merrifield, M. A.; Cobb, K. M.; Nusbaumer, J.; Noone, D.

    2015-11-01

    Reconstructions of the El Niño-Southern Oscillation (ENSO) are often created using the oxygen isotopic ratio in tropical coral skeletons (δ18O). However, coral δ18O can be difficult to interpret quantitatively, as it reflects changes in both temperature and the δ18O value of seawater. Small-scale (10-100 km) processes affecting local temperature and seawater δ18O are also poorly quantified and contribute an unknown amount to intercoral δ18O offsets. A new version of the Regional Ocean Modeling System capable of directly simulating seawater δ18O (isoROMS) is therefore presented to address these issues. The model is used to simulate δ18O variations over the 1979-2009 period throughout the Pacific at coarse (O(50 km)) resolution, in addition to 10 km downscaling experiments covering the central equatorial Pacific Line Islands, a preferred site for paleo-ENSO reconstruction from corals. A major impact of downscaling at the Line Islands is the ability to resolve fronts associated with tropical instability waves (TIWs), which generate large excursions in both temperature and seawater δ18O at Palmyra Atoll (5.9°N, 162.1°W). TIW-related sea surface temperature gradients are smaller at neighboring Christmas Island (1.9°N, 157.5°W), but the interaction of mesoscale features with the steep island topography nonetheless generates cross-island temperature differences of up to 1°C. These nonlinear processes alter the slope of the salinity:seawater δ18O relationship at Palmyra and Christmas, as well as affect the relation between coral δ18O and indices of ENSO variability. Consideration of the full physical oceanographic context of reef environments is therefore crucial for improving δ18O-based ENSO reconstructions.

  5. The influence of external forcing on subdecadal variability of regional surface temperature in CMIP5 simulations of the last millennium

    Science.gov (United States)

    Le, Thanh; Sjolte, Jesper; Muscheler, Raimund

    2016-02-01

    We use Granger causality to investigate the influences of external forcings on subdecadal variability of regional near-surface air temperature (SAT) in past millennium simulations (period 850-1850 A.D.) of the Coupled Model Intercomparison Project Phase 5 (CMIP5) models. Our results strengthen the conclusion for robust influence of volcanic forcing on SAT during preindustrial times of the last millennium. The SAT response to solar variations is detected in tropical and subtropical regions. In other regions, this response is weak. The impact of greenhouse gases (GHGs) radiative forcing to regional SAT is weak and uncertain. This is most probably due to the low amplitude of the variations in GHGs and hence weak GHGs forcing during the preindustrial millennium. The low agreement between models in simulating the impacts of solar variations on SAT in several regions suggests the different dynamical responses in these models, possibly associated with inaccurate parameterization of the processes related to solar forcing. Our analysis suggests that internal climate variability played a more significant role than external forcings in short-term SAT variability in the regions of the North Atlantic, the North Pacific, the Arctic, the Antarctic Peninsula, and its surrounding oceans. The possibility of long-term impacts of external forcings on SAT and the uncertainties that might be contained due to effects of internal climate modes other than El Niño-Southern Oscillation underscore the necessity for a more detailed understanding of the dynamical response of SAT to external forcings.

  6. Evaluation on the Risks of Agricultural Industrial Chain Based on FAHP——A Case of Regions Inhabited by Ethnic Groups in Wuling Mountain

    Institute of Scientific and Technical Information of China (English)

    2011-01-01

    Through recognizing the risking factors of industrial chain and selecting appropriate evaluation method, the index system on evaluating risking factors including market risk, natural risk, contact risk and efficiency risk in industrial chain is constructed,26 weighting indicators under the four layers are set up. Taking regions inhabited by ethnic groups in Wuling Mountain as an example, the risking factors of agricultural industrial chain in the area are analyzed by adopting the FAHP. The influencing degree of each risking factor on credit risks is analyzed. The results assume that with the market risk, contract risk, natural risk and efficiency risk. The natural risks become the principal risks of agricultural industrial chain and it should be paid much attention to. The low credit risk is a major factor that causes the contract between enterprise and rural households. The flood, pests, diseases and disasters also should be paid high attention to that is regarded as risking factors. The risking factors that come from the efficiency risk layer, for example, the unequal profit distribution among enterprises has little effect on enterprises in industrial chain. The research results provide evidence for stipulating risk prevention measures.

  7. Contribution of Amino Acid Region 659−663 of Factor Va Heavy Chain to the Activity of Factor Xa within Prothrombinase†,‡

    Science.gov (United States)

    2010-01-01

    Factor Va, the cofactor of prothrombinase, is composed of heavy and light chains associated noncovalently in the presence of divalent metal ions. The COOH-terminal region of the heavy chain contains acidic amino acid clusters that are important for cofactor activity. In this work, we have investigated the role of amino acid region 659−663, which contains five consecutive acidic amino acid residues, by site-directed mutagenesis. We have generated factor V molecules in which all residues were mutated to either lysine (factor V5K) or alanine (factor V5A). We have also constructed a mutant molecule with this region deleted (factor VΔ659−663). The recombinant molecules along with wild-type factor V (factor VWT) were transiently expressed in mammalian cells, purified, and assessed for cofactor activity. Two-stage clotting assays revealed that the mutant molecules had reduced clotting activities compared to that of factor VaWT. Kinetic analyses of prothrombinase assembled with the mutant molecules demonstrated diminished kcat values, while the affinity of all mutant molecules for factor Xa was similar to that for factor VaWT. Gel electrophoresis analyses of plasma-derived and recombinant mutant prothrombin activation demonstrated delayed cleavage of prothrombin at both Arg320 and Arg271 by prothrombinase assembled with the mutant molecules, resulting in meizothrombin lingering throughout the activation process. These results were confirmed after analysis of the cleavage of FPR-meizothrombin. Our findings provide new insights into the structural contribution of the acidic COOH-terminal region of factor Va heavy chain to factor Xa activity within prothrombinase and demonstrate that amino acid region 659−663 from the heavy chain of the cofactor contributes to the regulation of the rate of cleavage of prothrombin by prothrombinase. PMID:20722419

  8. Analyses of Disrupted Supply Chains by the Great East Japan Earthquake and Reconstruction of the Disaster-affected Region by the Cluster of the Automotive Industry: Utilizing the regional CGE model (Japanese)

    OpenAIRE

    Tokunaga, Suminori; Okiyama, Mitsuru; Akune, Yuko

    2013-01-01

    The purpose of this paper is first to analyze a negative supply shock due to "disrupted supply chains" caused by the earthquake and, secondly, to examine which of the policies to reconstruct the disaster-affected region is the most advisable way to proceed with the accumulation of the automotive industry. Using the two-regional computable general equilibrium (CGE) model, we initially found that had the alternative production at other plants been very easy, even if the production volume of mot...

  9. Relationship between Eurasian large-scale patterns and regional climate variability over the Black and Baltic Seas

    Energy Technology Data Exchange (ETDEWEB)

    Stankunavicius, G.; Pupienis, D. [Vilnius Univ. (Lithuania). Dept. of Hydrology and Climatology; Basharin, D. [National Academy of Science of Ukraine, Sevastopol (Ukraine). Sevastopol Marine Hydrophysical Inst.

    2012-11-01

    Using a NCEP/NCAR Reanalysis dataset and the empirical orthogonal function (EOF) analysis approach we studied interannual to decadal variabilities of the sea-level air pressure (SLP) and the surface air temperature (SAT) fields over Eurasia during the 2nd part of the 20th century. Our results agree with those of the previous studies, which conclude that Eurasian trends are the result of storm-path changes driven by the interdecadal behaviour of the NAO-like meridional dipole pattern in the Atlantic. On interannual and decadal time scales, significant synchronous correlations between correspondent modes of SAT and SLP EOF patterns were found. This fact suggests that there is a strong and stable Eurasian interrelationship between SAT and SLP large-scale fields which affects the local climate of two sub-regions: the Black and Baltic Seas. The climate variability in these sub-regions was studied in terms of Eurasian large-scale surface-temperature and air-pressure patterns responses. We concluded that the sub-regional climate variability substantially differs over the Black and Baltic Seas, and depends on different Eurasian large-scale patterns. We showed that the Baltic Sea region is influenced by the patterns arising primary from NAO-like meridional dipole, as well as Scandinavian patterns, while the Black Sea's SAT/SLP variability is influenced mainly by the second mode EOF (eastern Atlantic) and large scale tropospheric wave structures. (orig.)

  10. Identification and genetic effect of a variable duplication in the promoter region of the cattle ADIPOQ gene

    Science.gov (United States)

    The ADIPOQ gene of cattle, is located in the vicinity of the quantitative trait locus (QTL) wich effects marbling, the rib eye muscle area and fat thickness on BTA1. In our study, a novel variable duplication (NW_003103812.1:g.9232067_9232133 dup) in the bovine ADIPOQ promoter region was identified ...

  11. Variability of Active Galactic Nuclei from the Optical to X-ray Regions

    CERN Document Server

    Gaskell, C Martin; 10.1080/1055679031000153851

    2009-01-01

    Some progress in understanding AGN variability is reviewed. Reprocessing of X-ray radiation to produce significant amounts of longer-wavelength continua seems to be ruled out. In some objects where there has been correlated X-ray and optical variability, the amplitude of the optical variability has exceeded the amplitude of X-ray variability. We suggest that accelerated particles striking material could be linking X-ray and optical variability (as in activity in the solar chromosphere). Beaming effects could be significant in all types of AGN. The diversity in optical/X-ray relationships at different times in the same object, and between different objects, might be explained by changes in geometry and directions of motion relative to our line of sight. Linear shot-noise models of the variability are ruled out; instead there must be large-scale organization of variability. Variability occurs on light-crossing timescales rather than viscous timescales and this probably rules out the standard Shakura-Sunyaev acc...

  12. Continental and Marine Environmental changes in Europe induced by Global Climate variability and Regional Palaeography Changes

    International Nuclear Information System (INIS)

    dinoflagellate cyst records from DSDP Site 380 (7 - 4 Ma) were completed from 4 Ma to Present in order to evidence the impact of glacial-interglacial cycles over the regional vegetation and to reconstruct the climate variability for the last 7 Ma; d. I was the first to demonstrate the solar cycles forcing (Hale and Gleissberg cycles) on the regional vegetation (through the 'Thermophilus trees / Artemisia' ratio) since the Last Glacial Maximum were evidenced in cored sediments from the Black and Marmara seas (unpublished data), that is a unique outcome. Using the bio-metric approach on the dinoflagellate cysts in association with statistical analyses, I demonstrated that fluctuations in salinity are partially responsible for modifying size, shape and ornamentation of the cysts, providing the first reliable paleo-ecological and paleo-bio-geographic reconstructions of the brackish Paratethyan basins (Popescu et al., palynology, in press). Simultaneously, I performed experimental cultures on a living-dinoflagellate species (Scrippsiella trifida): suggested relationships between cyst morphological variations and stress under controlled salinity are confirmed by the preliminary results, while reproduction rate seems also modified (unpublished data). Hence, my palynological and biological expertise offers an exclusive tool for establishing a continuous high resolution chronology, paleo-climatic, paleo-bio-geographic and paleo-environmental reconstructions. This is particularly important for the basins impacted by important environmental changes, such as the Mediterranean and Black seas, the sediments of the latter being precisely dated for the first time by this approach. (author)

  13. Analysis of inter-variable relations in regional climate model output

    Science.gov (United States)

    Wilcke, Renate; Chandler, Richard

    2015-04-01

    The topic of physical consistency and inter-variable relations of climate model output, in particular when applying statistical downscaling and bias correction to single variables, is widely discussed in the climate impact modelling and climate impact communities. Many situations require the consideration of several climate variables simultaneously, as a result of which it is also necessary to check that the inter-variable dependence structure is simulated realistically by the RCMs. Given that it is common practice to bias-adjust RCM outputs so as to improve their properties with respect to the distribution of variables taken individually, it is also of interest to determine whether inter-variable relationships are affected by empirical bias adjustment procedures such as quantile mapping, that are applied separately to each variable. A pragmatic reason to look at this is, if bias-adjusted outputs are to be used in impacts studies, it is necessary to check that the inter-variable relationships are realistic. A more fundamental reason is, that RCMs are physically based and, before bias correction, their outputs should therefore ideally be physically consistent. However, an empirical bias adjustment procedure has the potential to break the physical consistency, thereby removing one of the strongest justifications for using RCMs in the first place. Based on these considerations, the study aims to answer two questions. The first is to assess the inter-variable relationships in a suite of RCM outputs in more detail than has previously been attempted, by examining conditional probability densities instead of correlations. The second is to quantify the extent to which these conditional densities are distorted by an empirical bias adjustment procedure. The results can be used both to evaluate the ability of current RCMs (bias-adjusted or not) to provide useful information for climate change impact assessments; and also to determine the viability of quantile mapping as a

  14. Estimation and Preparation of the Hypervariable Regions I/II Templates for Mitochondrial DNA Typing From Human Bones and Teeth Remains Using Singleplex Quantitative Polymerase Chain Reaction.

    Science.gov (United States)

    Le, Thien Ngoc; Van Phan, Hieu; Dang, Anh Tuan Mai; Nguyen, Vy Thuy

    2016-09-01

    A method was designed for estimating and sequencing of mitochondrial DNA (mtDNA) that effectively and more quickly provides a complete mtDNA profile. In this context, we have developed this novel strategy for typing mtDNA from 10 bones and teeth remains (3 months to 44 years). The quantification of mtDNA was achieved by singleplex real-time polymerase chain reaction of the hypervariable region I fragment (445 bp) and hypervariable region II fragment (617 bp). Combined with the melting curve analysis, we have determined as little as 10 pg of mtDNA template that is suitable for sequence analysis. Furthermore, quantitative polymerase chain reaction products were directly used for following step of mtDNA typing by Sanger sequencing. This method allows the profile to be completely provided for faster human identification. PMID:27356010

  15. A regional landslide warning system based on spatially variable rainfall thresholds

    Science.gov (United States)

    Segoni, Samuele; Rossi, Guglielmo; Rosi, Ascanio; Catani, Filippo

    2010-05-01

    Rainfall is widely recognized as one of the major causes for landsliding. When studying the conditions of triggering of mass movements at regional scale, a process-based approach is seldom possible because of the complexity in the spatial organization of the involved independent variables (e.g. soil properties). Therefore, empirical methods based on the definition of triggering thresholds are usually employed for the definition of warning systems or for landslide hazard assessments. Such thresholds are defined by observing the characteristics of past rainfall events that have resulted in landslides and selecting the lower bound envelope curve in intensity-duration plots depicting such events. These curves, generally represented by power-law type functions linking, e.g., intensity and duration of the critical rainfall, define the lowest level above which landslides should be expected. In the present work, concerning the territory of Tuscany (ab. 23,000 km2), a similar approach is adopted and described which presents some improvements with respect to traditional methods. First of all, the strong variability of environmental, meteorological and geological factors within the study area, together with evidences from available data on triggering conditions, imply that a single general threshold would be affected by a too large degree of overestimation of hazard and suggest the adoption of locally defined thresholds. The studied area was then partitioned in 25 Alert Zones and each of them has been analyzed separately to provide distinct rainfall thresholds. Secondly, to handle the amount of available data (the analysis regards the period 2000-2007 and involves 408 rainfall events, which were registered by a network of 332 rain-gauges and that caused 2132 landslides), a software has been developed for automatically analyzing rainfall patterns and defining such thresholds. In particular, the automated analysis performs the following tasks: i) Defining, for every rain

  16. Structural repertoire of immunoglobulin λ light chains

    KAUST Repository

    Chailyan, Anna

    2011-03-01

    The immunoglobulin λ isotype is present in nearly all vertebrates and plays an important role in the human immune system. Despite its importance, few systematic studies have been performed to analyze the structural conformation of its variable regions, contrary to what is the case for κ and heavy chains. We show here that an analysis of the structures of λ chains allows the definition of a discrete set of recurring conformations (canonical structures) of their hypervariable loops and, most importantly, the identification of sequence constraints that can be used to predict their structure. We also show that the structural repertoire of λ chains is different and more varied than that of the κ chains, consistently with the current view of the involvement of the two major light-chain families in complementary strategies of the immune system to ensure a fine tuning between diversity and stability in antigen recognition. © 2011 Wiley-Liss, Inc.

  17. Variability of tropical cyclone in high frequent occurrence regions over the western North Pacific

    Science.gov (United States)

    Yang, Yuxing; Huang, Fei; Wang, Faming

    2014-06-01

    In this study, three high frequent occurrence regions of tropical cyclones (TCs), i.e., the northern South China Sea (the region S), the south Philippine Sea (the region P) and the region east of Taiwan Island (the region E), are defined with frequency of TC's occurrence at each grid for a 45-year period (1965-2009), where the frequency of occurrence (FO) of TCs is triple the mean value of the whole western North Pacific. Over the region S, there are decreasing trends in the FO of TCs, the number of TCs' tracks going though this region and the number of TCs' genesis in this region. Over the region P, the FO and tracks demonstrate decadal variation with periods of 10-12 year, while over the region E, a significant 4-5 years' oscillation appears in both FO and tracks. It is demonstrated that the differences of TCs' variation in these three different regions are mainly caused by the variation of the Western Pacific Subtropical High (WPSH) at different time scales. The westward shift of WPSH is responsible for the northwesterly anomaly over the region S which inhibits westward TC movement into the region S. On the decadal timescale, the WPSH stretches northwestward because of the anomalous anticyclone over the northwestern part of the region P, and steers more TCs reaching the region P in the greater FO years of the region P. The retreating of the WPSH on the interannual time scale is the main reason for the FO's oscillation over the region E.

  18. PRODUCTION OF PHAGE-DISPLAYED ANTI-IDIOTYPIC ANTIBODY SINGLE CHAIN VARIABLE FRAGMENTS TO MG7 MONOCLONAL ANTIBODY DIRECTED AGAINST GASTRIC CARCINOMA

    Institute of Scientific and Technical Information of China (English)

    何凤田; 聂勇战; 陈宝军; 乔太东; 韩者艺; 樊代明

    2002-01-01

    Objective. To generate phage-displayed anti-idiotypic antibody single chain variable fragments (anti -Id ScFv) to MG7 monoclonal antibody (McAb) directed against gastric carcinoma so as to lay a foundation for developing anti-Id ScFv vaccine of the cancer.Methods. Balb/c mice were immunized i. p. with MG7 McAb conjugated with keyhole limpet hemocyanin (KLH), and mRNA was isolated from the spleens of the immunized mice. Heavy and light chain (VH and VL)genes of antibody were amplified separately and assembled into ScFv genes with a linker DNA by PCR. The ScFv genes were ligated into the phagemid vector pCANTAB5E and the ligated sample was transformed into competent E. coli TG1. The transformants were infected with M13KO7 helper phage to yield recombinant phages displaying ScFv on the tips of M13 phage. After 4 rounds of panning with MG7, the MG7-positive clones were selected by ELISA from the enriched phages. Thetypesoftheanti-IdScFvdisplayedontheselectedphagecloneswerepreliminarily identified by competition ELISA.Results. The VH, VL and ScFv DNAs were about 340 bp, 320 bp and 750 bp respectively. Twenty-four MG7-positive clones were selected from 60 enriched phage clones, among which 5 displayed β or γtype anti-Id ScFv.Conclsion. The anti-Id ScFv to MG7 McAb can be successfully selected by recombinant phage antibody technique, which paves a way for the study of prevention and cure of gastric carcinoma by using anti-Id ScFv.

  19. The Analysis of Variability of Morphological Features of Water Snake (Natrix tessellata of the Volgograd Region

    Directory of Open Access Journals (Sweden)

    Prilipko Sergey Konstantinovich

    2014-04-01

    Full Text Available The article deals with the variability of indicators of water snake pholidosis in populations of Volga Akhtubinsk and Don flood-plains. The article shows that the number of plates on snake’s body is quite steady. The limits of variability of these features in the studied populations are slightly wider, than the species limits mentioned in literature. The author makes distinctions in the nature of variability of bilateral structures. The number of the first row temporal plates is stable, while the combination of the supralabial, postorbital and preorbital is more varied. The combination of the second row temporal and lower-labial plates is mostly varied; they are characterized by the highest level of polymerization. The indicators of pholidosis are distinguished by variability degree: the lowerand supralabial plates variability is minimal (to 10 %, the preorbital and 2nd row temporal plates variability is maximal (from 24 to 36 %. The different elements of pholidosis reveal varying degrees of fluctuating asymmetry: high rates of asymmetry are specific for the second row temporal plates, minimal rates are specific for the supralabial ones. The article reveals the interpopulation distinctions in pholidosis features. In the population of the Don flood-plain the range of bilateral structures variability is wider; in the population of the Volga and Akhtubinsk flood-plains the coefficient of asymmetry is higher. It testifies to the bigger destabilization of the process of water snake ontogenesis in the Volga Akhtubinsk flood-plains.

  20. Analysis of the rDNA internal transcribed spacer region of the Fusarium species by polymerase chain reaction-restriction fragment length polymorphism

    OpenAIRE

    Zarrin, Majid; GANJ, FARZANEH; FARAMARZI, SAMA

    2016-01-01

    The Fusarium species are a widely spread phytopathogen identified in an extensive variety of hosts. The Fusarium genus is one of the most heterogeneous fungi and is difficult to classify. Polymerase chain reaction-restriction fragment length polymorphism (PCR-RFLP) analysis is a useful method in detection of DNA polymorphism in objective sequences. The aim of the present study was to identify the phylogenetic associations and usefulness of the internal transcribed spacer (ITS) region as a gen...

  1. Interpretation of the variability of levels of regional background aerosols in the Western Mediterranean

    International Nuclear Information System (INIS)

    Results on interpretation of the variability of regional background PM levels in the Western Mediterranean basin (WMB) are presented. Mean PM levels recorded at Montseny, MSY (North-Eastern Spain) in the 2002-2007 period reached 17, 13 and 11 μg/m3 of PM10, PM2.5 and PM1, respectively. The daily evolution of PM levels is regulated by the breeze circulation (mountain and sea breezes). PM levels are lower at the rural sites at night owing to the nocturnal drainage flows and to the lowering of the mixing layer height below the MSY high. These nocturnal low levels allowed us to estimate the continental background PM levels. At midday, the atmospheric pollutants accumulated in the pre-coastal depression are transported upwards by the breeze, increasing PM levels. Maximum PM10 levels were recorded in summer, and February-March and November, and minimum values in the rest of the year coinciding with the highest frequency of Atlantic advection. PM peak episodes attributed to Saharan dust outbreaks were recorded in summer and February-March. In addition, anticyclonic situations (February-March and November) may impact in elevated rural areas by increasing hourly levels of PM1 up to 75 μg/m3. This scenario induces the stagnation of pollutants in the pre-coastal depression. Solar radiation activates mountain winds, transporting polluted air masses from the valleys to elevated areas resulting in an increase of fine PM levels in areas outside the boundary layer. A significant decrease in PM annual means (40% and 34% for the entire monitoring period, 7 μgPM10/m3 and 5 μgPM2.5/m3) was recorded at MSY between 2002 and 2007. There appears to be no single cause behind these trends. This could partially be ascribed to the varying frequency and intensity of Saharan dust episodes, but also to large-scale meteorological processes or cycles, and/or to local or meso-scale processes such as nearby anthropogenic emission sources

  2. Variability of morphological characteristics of bream Abramis brama in water basins of upper Volga region

    OpenAIRE

    I. A. Stolbunov

    2005-01-01

    Data on variability of morphological readings of bream in the Rybinsk reservoir, and also in the system of reservoirs and water-currents (lake Galichskoe – river Kostroma – river Sot’ – the Kostroma expansion – Gorki reservoir) were generalized.

  3. Revealing basin and regional scale snow accumulation magnitude and variability on glaciers throughout Alaska

    Science.gov (United States)

    McGrath, D.; Oneel, S.; Sass, L. C., III; Gusmeroli, A.; Arendt, A. A.; Wolken, G. J.; Kienholz, C.; McNeil, C.

    2014-12-01

    Mass loss from Alaskan glaciers (-50 ± 17 Gt/a, 2003-2009) constitutes one of the largest contributions to global sea level rise outside of the Greenland and Antarctic ice sheets. The largest process-related uncertainties in this calculation arise from the difficulty in accurately measuring accumulation on glaciers and from the large variability of accumulation over a range of spatio-temporal scales. Further, the physical processes governing snow distribution in complex terrain elude model parameterization. Using ground-penetrating radar, constrained with probe and pit observations, we quantify the magnitude and variability of snow accumulation at six prominent glaciers throughout Alaska at the end of 2013 winter. We find that total SWE magnitude and variability are strongly controlled by the large-scale climate system (i.e. distance from the coastal moisture source along prevailing storm track). On average, total SWE decreases by 0.33 m per 100 km from the coast, while the SWE elevation gradient decreases by 0.06 m / 100 m per 100 km from the coast. SWE variability over small spatial scales (<200 m) is similar at most sites, although two glaciers exhibit notably low and high variability, likely related to their respective climatic provenance. On individual glaciers, strong elevation gradients, increasing from 0.07 m SWE / 100 m at the interior Gulkana Glacier to 0.30 m SWE / 100 m at the coastal Scott Glacier, exert the primary control on accumulation. Results from multi-variable linear regression models (based on topographic variables) find wind exposure/shelter is the most frequent secondary control on accumulation variability. Finally, we find strong agreement (<10% difference) between the radar derived and stake derived total SWE estimates at two glaciers in the USGS Benchmark Glacier Program.

  4. Identification of human rotavirus serotype by hybridization to polymerase chain reaction-generated probes derived from a hyperdivergent region of the gene encoding outer capsid protein VP7

    Energy Technology Data Exchange (ETDEWEB)

    Flores, J.; Sears, J.; Schael, I.P.; White, L.; Garcia, D.; Lanata, C.; Kapikian, A.Z. (National Institutes of Health, Bethesda, MD (USA))

    1990-08-01

    We have synthesized {sup 32}P-labeled hybridization probes from a hyperdivergent region (nucleotides 51 to 392) of the rotavirus gene encoding the VP7 glycoprotein by using the polymerase chain reaction method. Both RNA (after an initial reverse transcription step) and cloned cDNA from human rotavirus serotypes 1 through 4 could be used as templates to amplify this region. High-stringency hybridization of each of the four probes to rotavirus RNAs dotted on nylon membranes allowed the specific detection of corresponding sequences and thus permitted identification of the serotype of the strains dotted. The procedure was useful when applied to rotaviruses isolated from field studies.

  5. Key environmental challenges for food groups and regions representing the variation within the EU, Ch.3 Salmon Aquaculture Supply Chain

    DEFF Research Database (Denmark)

    G., Ólafsdóttir; Andrade, Grace Patricia Viera; Nielsen, Thorkild;

    2013-01-01

    The report is aimed to give a thorough review of different environmental impacts that the food and drink sector are producing along the whole chain, from fork to farm and to assess which of them are the key environmental challenges for Europe. A representative range of product groups have been...

  6. EMCCD photometry reveals two new variable stars in the crowded central region of the globular cluster NGC 6981

    CERN Document Server

    Skottfelt, Jesper; Jaimes, R Figuera; Jørgensen, U G; Kains, N; Harpsoe, K B W; Liebig, C; Penny, M T; Alsubai, K A; Andersen, J M; Bozza, V; Browne, P; Novati, S Calchi; Damerdji, Y; Diehl, C; Dominik, M; Elyiv, A; Giannini, E; Hessman, F; Hinse, T C; Hundertmark, M; Juncher, D; Kerins, E; Korhonen, H; Mancini, L; Martin, R; Rabus, M; Rahvar, S; Southworth, G Scarpetta J; Snodgrass, C; Street, R A; Surdej, J; Tregloan-Reed, J; Vilela, C; Williams, A

    2013-01-01

    Two previously unknown variable stars in the crowded central region of the globular cluster NGC 6981 are presented. The observations were made using the Electron Multiplying CCD (EMCCD) camera at the Danish 1.54m Telescope at La Silla, Chile.The two variables were not previously detected by conventional CCD imaging because of their proximity to a bright star. This discovery demonstrates that EMCCDs are a powerful tool for performing high-precision time-series photometry in crowded fields and near bright stars, especially when combined with difference image analysis (DIA).

  7. Santa Ana Winds of Southern California: Their Climatology and Variability Spanning 6.5 Decades from Regional Dynamical Modelling

    Science.gov (United States)

    Guzman-Morales, J.; Gershunov, A.

    2015-12-01

    Santa Ana Winds (SAWs) are an integral feature of the regional climate of Southern California/Northern Baja California region. In spite of their tremendous episodic impacts on the health, economy and mood of the region, climate-scale behavior of SAW is poorly understood. In the present work, we identify SAWs in mesoscale dynamical downscaling of a global reanalysis product and construct an hourly SAW catalogue spanning 65 years. We describe the long-term SAW climatology at relevant time-space resolutions, i.e, we developed local and regional SAW indices and analyse their variability on hourly, daily, annual, and multi-decadal timescales. Local and regional SAW indices are validated with available anemometer observations. Characteristic behaviors are revealed, e.g. the SAW intensity-duration relationship. At interdecadal time scales, we find that seasonal SAW activity is sensitive to prominent large-scale low-frequency modes of climate variability rooted in the tropical and north Pacific ocean-atmosphere system that are also known to affect the hydroclimate of this region. Lastly, we do not find any long-term trend in SAW frequency and intensity as previously reported. Instead, we identify a significant long-term trend in SAW behavior whereby contribution of extreme SAW events to total seasonal SAW activity has been increasing at the expense of moderate events. These findings motivate further investigation on SAW evolution in future climate and its impact on wildfires.

  8. Diverse Responses of Remotely Sensed Grassland Phenology to Interannual Climate Variability over Frozen Ground Regions in Mongolia

    Directory of Open Access Journals (Sweden)

    Zhigang Sun

    2014-12-01

    Full Text Available Frozen ground may regulate the phenological shifts of dry and cold grasslands at the southern edge of the Eurasian cryosphere. In this study, an investigation based on the MODIS Collection 5 phenology product and climatic data collected from 2001 to 2009 reveals the diverse responses of grassland phenology to interannual climate variability over various frozen ground regions in Mongolia. Compared with middle and southern typical steppe and desert steppe, the spring (start of season; SOS and autumn (end of season; EOS phenological events of northern forest steppe with lower air temperature tend to be earlier and later, respectively. Both the SOS and EOS are less sensitive to climate variability in permafrost regions than in other regions, whereas the SOS of typical steppe is more sensitive to both air temperature and precipitation over sporadic permafrost and seasonal frozen ground regions. Over various frozen ground regions in Mongolia; the SOS is mainly dominated by the prior autumn precipitation, and frozen ground plays a vital role in storing the precipitation of the previous autumn for the subsequent grass green-up. The EOS is mainly dominated by autumn air temperature. These findings could help to improve phenological models of grasslands in extremely dry and cold regions.

  9. The Key Oceanic Regions Responsible for the Interannual Variability of the Western North Pacific Subtropical High and Associated Mechanisms

    Institute of Scientific and Technical Information of China (English)

    2015-01-01

    The western North Pacifi c subtropical high (WNPSH) is an important circulation system that impacts the East Asian summer climate. The interannual variability of the WNPSH is modulated by tropical air-sea interaction. In order to make it clear which oceanic regions are crucial to the interannual variability of the WNPSH, the research progresses in this regard in the past decade are reviewed. Based on the review, it is recognized that fi ve oceanic regions are responsible for the interannual variability of the WNPSH in summer, including the equatorial central–eastern Pacifi c Ocean, tropical Indian Ocean, subtropical western North Pacifi c, the vicinity of the maritime continent, and the tropical Atlantic Ocean. The mechanisms how the sea surface temperature anomalies (SSTAs) in these regions aff ect the WNPSH are elaborated. The formation mechanisms for the SSTAs in these fi ve regions are discussed. Strengths and weaknesses of the climate models in simulating and predicting the WNPSH are also documented. Finally, key scientifi c problems deserving further studies are proposed.

  10. Predicting Climate Variability over the Indian Region Using Data Mining Strategies

    OpenAIRE

    Mallenahalli, Naresh Kumar

    2015-01-01

    In this paper an approach based on expectation maximization (EM) clustering to find the climate regions and a support vector machine to build a predictive model for each of these regions is proposed. To minimize the biases in the estimations a ten cross fold validation is adopted both for obtaining clusters and building the predictive models. The EM clustering could identify all the zones as per the Koppen classification over Indian region. The proposed strategy when employed for predicting t...

  11. Internal and Forced Low-Frequency Surface Temperature Variability at Global and Regional Scales

    Science.gov (United States)

    Mann, M. E.; Steinman, B. A.; Miller, S. K.

    2014-12-01

    There is evidence for internal models of decadal and multidecadal surface temperature variability that possess relatively narrowband spectral signatures. Among these are the so-called Atlantic Multidecadal Oscillation ("AMO") and Pacific Decadal Oscillation ("PDO"). Separating these internal variability components from long-term forced temperature changes, however, is a non-trivial task. We apply a semi-empirical approach that combines climate observations and model-simulations to estimate Atlantic- and Pacific-based internal multidecadal variability (termed 'AMO' and 'PMO', respectively). Using analyses of coupled global climate model simulations, we show that our approach correctly identifies the internal variability components, while several alternative approaches overestimate and misidentify these components and their contribution to hemispheric mean temperatures. Using our method, the AMO and PMO are found to project in nearly equal proportion onto internal multidecadal variability in Northern Hemisphere mean temperature (termed 'NMO'). A recent NMO cooling trend which contributes to the slowdown or "false pause" in warming of the past decade is seen to reflect a competition between a modest positive peak in the AMO and a substantially negative-trending PMO.

  12. Regional Genetic Structure and Environmental Variables Influence our Conservation Approach for Feather Heads (Ptilotus macrocephalus).

    Science.gov (United States)

    Ahrens, Collin W; James, Elizabeth A

    2016-05-01

    Continued alterations to the Australian environment compromise the long-term viability of many plant species. We investigate the population genetics of Ptilotus macrocephalus, a perennial herb that occurs in 2 nationally endangered communities on the Victorian Volcanic Plain Bioregion (VVP), Australia, to answer key questions regarding regional differentiation and to guide conservation strategies. We evaluate genetic structure and diversity within and among 17 P. macrocephalus populations from 3 regions of southeastern Australia using 17 microsatellite markers developed de novo. Genetic structure was present in P. macrocephalus between the 3 regions but not at the population level. Environmental factors, namely temperature and precipitation, significantly explained differentiation between the North region and the other 2 regions indicating isolation by environment. Within regions, genetic structure currently shows a high level of gene flow and genetic variation. Our results suggest that within-region gene flow does not reflect current habitat fragmentation in southeastern Australia whereas temperature and precipitation are likely to be responsible for the differentiation detected among regions. Climate change may severely impact P. macrocephalus on the VVP and test its evolutionary resilience. We suggest taking a proactive conservation approach to improve long-term viability by sourcing material for restoration to assist gene flow to the VVP region to promote an increased adaptive capacity. PMID:26865733

  13. Single Chain Variable Fragments Produced in Escherichia coli against Heat-Labile and Heat-Stable Toxins from Enterotoxigenic E. coli.

    Directory of Open Access Journals (Sweden)

    Christiane Y Ozaki

    Full Text Available Diarrhea is a prevalent pathological condition frequently associated to the colonization of the small intestine by enterotoxigenic Escherichia coli (ETEC strains, known to be endemic in developing countries. These strains can produce two enterotoxins associated with the manifestation of clinical symptoms that can be used to detect these pathogens. Although several detection tests have been developed, minimally equipped laboratories are still in need of simple and cost-effective methods. With the aim to contribute to the development of such diagnostic approaches, we describe here two mouse hybridoma-derived single chain fragment variable (scFv that were produced in E. coli against enterotoxins of ETEC strains.Recombinant scFv were developed against ETEC heat-labile toxin (LT and heat-stable toxin (ST, from previously isolated hybridoma clones. This work reports their design, construction, molecular and functional characterization against LT and ST toxins. Both antibody fragments were able to recognize the cell-interacting toxins by immunofluorescence, the purified toxins by ELISA and also LT-, ST- and LT/ST-producing ETEC strains.The developed recombinant scFvs against LT and ST constitute promising starting point for simple and cost-effective ETEC diagnosis.

  14. VAM2D--Variably saturated analysis model in two dimensions: Version 5.0 with hysteresis and chained decay transport: Documentation and user's guide

    International Nuclear Information System (INIS)

    This report documents a two-dimensional finite element model, VAM2D, developed to simulate water flow and solute transport in variably saturated porous media. Both flow and transport simulation can be handled concurrently or sequentially. The formulation of the governing equations and the numerical procedures used in the code are presented. The flow equation is approximated using the Galerkin finite element method. Nonlinear soil moisture characteristics and atmospheric boundary conditions (e.g., infiltration and evaporation), are treated using Picard and Newton-Raphson iterations. Hysteresis effects and anisotropy in unsaturated hydraulic conductivity can be taken into account if needed. The contaminant transport simulation can account for advection, hydrodynamic dispersion, linear equilibrium sorption, and first-order degradation. Transport of a single component or a multi-component decay chain can be handled. The transport equation is approximated using an upstream weighted residual method. Several test problems are presented to verify the code and demonstrate its utility. These problems range from simple one-dimensional to complex two-dimensional and axisymmetric problems. This document has been produced as a user's manual. It contains detailed information on the code structure along with instructions for input data preparation and sample input and printed output for selected test problems. Also included are instructions for job set up and restarting procedures. 46 refs., 53 figs., 24 tabs

  15. Expression of anti-tumor necrosis factor alpha (TNFα) single-chain variable fragment (scFv) in Spirodela punctata plants transformed with Agrobacterium tumefaciens.

    Science.gov (United States)

    Balaji, Parthasarathy; Satheeshkumar, P K; Venkataraman, Krishnan; Vijayalakshmi, M A

    2016-05-01

    Therapeutic antibodies against tumor necrosis factor alpha (TNFα) have been considered effective for some of the autoimmune diseases such as rheumatoid arthritis, Crohn's diseases, and so on. But associated limitations of the current therapeutics in terms of cost, availability, and immunogenicity have necessitated the need for alternative candidates. Single-chain variable fragment (scFv) can negate the limitations tagged with the anti-TNFα therapeutics to a greater extent. In the present study, Spirodela punctata plants were transformed with anti-TNFα through in planta transformation using Agrobacterium tumefaciens strain, EHA105. Instead of cefotaxime, garlic extract (1 mg/mL) was used to remove the agrobacterial cells after cocultivation. To the best of our knowledge, this report shows for the first time the application of plant extracts in transgenic plant development. 95% of the plants survived screening under hygromycin. ScFv cDNA integration in the plant genomic DNA was confirmed at the molecular level by PCR. The transgenic protein expression was followed up to 10 months. Expression of scFv was confirmed by immunodot blot. Protein expression levels of up to 6.3% of total soluble protein were observed. β-Glucuronidase and green fluorescent protein expressions were also detected in the antibiotic resistant plants. The paper shows the generation of transgenic Spirodela punctuata plants through in planta transformation. PMID:25786575

  16. Modeling of Surface Tension and Viscosity for Non-electrolyte Systems by Means of the Equation of State for Square-well Chain Fluids with Variable Interaction Range

    Institute of Scientific and Technical Information of China (English)

    LI Jinlong; HE Changchun; MA Jun; PENG Changjun; LIU Honglai; HU Ying

    2011-01-01

    The equation of state(EOS)for square-well chain fluid with variable range(SWCF-VR) developed in our previous work based on statistical mechanical theory for chemical association is employed for the correlations of surface tension and viscosity of common fluids and ionic liquids(ILs).A model of surface tension for multi-component mixtures is presented by combining the SWCF-VR EOS and the scaled particle theory and used to produce the surface tension of binary and ternary mixtures.The predicted surface tensions are in excellent agreement with the experimental data with an overall average absolute relative deviation(AAD)of 0.36%.A method for the calculation of dynamic viscosity of common fluids and ILs at high pressure is presented by combining Eyring’s rate theory of viscosity and the SWCF-VR EOS.The calculated viscosities are in good agreement with the experimental data with the overall AAD of 1.44% for 14 fluids in 84 cases.The salient feature is that the molecular parameters used in these models are self-consistent and can be applied to calculate different thermodynamic properties such as pVT,vapor-liquid equilibrium,caloric properties,surface tension,and viscosity.

  17. Production and characterization of a single-chain variable fragment linked alkaline phosphatase fusion protein for detection of O,O-diethyl organophosphorus pesticides in a one-step enzyme-linked immunosorbent assay

    Science.gov (United States)

    A single-chain variable fragment (scFv) and alkaline phosphatase (AP) fusion protein for detection of O, O-diethyl organophosphorus pesticides (OPs) was produced and characterized. The scFv gene was prepared by cloning VL and VH genes from a hybridoma cell secreting monoclonal antibody with broad-s...

  18. Variability of Adh, Gpdh and Sod loci in natural drosophila populations in radioactive regions in Belarus

    International Nuclear Information System (INIS)

    Genetic structure of natural drosophila populations in various regions of Belarus was analyzed by the allele frequency of Adh, Gpdh and Sod loci. Higher heterozygosity values as high S-allele frequency of superoxide dismutase were observed in populations in high radiation regions

  19. Predicting Climate Variability over the Indian Region Using Data Mining Strategies

    CERN Document Server

    Mallenahalli, Naresh Kumar

    2015-01-01

    In this paper an approach based on expectation maximization (EM) clustering to find the climate regions and a support vector machine to build a predictive model for each of these regions is proposed. To minimize the biases in the estimations a ten cross fold validation is adopted both for obtaining clusters and building the predictive models. The EM clustering could identify all the zones as per the Koppen classification over Indian region. The proposed strategy when employed for predicting temperature has resulted in an RMSE of $1.19$ in the Montane climate region and $0.89$ in the Humid Sub Tropical region as compared to $2.9$ and $0.95$ respectively predicted using k-means and linear regression method.

  20. Description, evaluation and clinical decision making according to various fetal heart rate patterns. Inter-observer and regional variability

    DEFF Research Database (Denmark)

    Lidegaard, O; Bøttcher, L M; Weber, Tom

    1992-01-01

    At 10 Danish obstetrical departments, 116 residents (42 senior and 74 junior) participated in a study to assess inter-observer and regional variability in the description and evaluation of and clinical decision regarding 11 fetal heart rate patterns. The 11 traces included normal as well as...... changes as indicative of less serious fetal stress than did their junior colleagues, explaining why junior residents 30% more frequently than their older colleagues found an indication for Cesarean section. Relatively low regional inter-observer agreement scores were primarily due to low agreement between...

  1. Multispecies Fisheries in the Lower Amazon River and Its Relationship with the Regional and Global Climate Variability.

    Science.gov (United States)

    Pinaya, Walter Hugo Diaz; Lobon-Cervia, Francisco Javier; Pita, Pablo; Buss de Souza, Ronald; Freire, Juan; Isaac, Victoria Judith

    2016-01-01

    This paper aims to describe the spatial-temporal variability in catch of the main fishery resources of the Amazon River and floodplain lakes of the Lower Amazon, as well as relating the Catch per Unit of Effort with anomalies of some of the Amazon River, atmosphere and Atlantic Ocean system variables, determining the influence of the environment on the Amazonian fishery resources. Finfish landings data from the towns and villages of the Lower Amazon for the fisheries of three sites (Óbidos, Santarém and Monte Alegre), were obtained for the period between January 1993 and December 2004. Analysis of variance, detrended correspondence analysis, redundancy analysis and multiple regression techniques were used for the statistical analysis of the distinct time series. Fisheries production in the Lower Amazon presents differences between the Amazon River and the floodplain lakes. Production in the Amazon River is approximately half of the one of the floodplain lakes. This variability occurs both along the Lower Amazon River region (longitudinal gradient) and laterally (latitudinal gradient) for every fishing ground studied here. The distinct environmental variables alone or in association act differently on the fishery stocks and the success of catches in each fishery group studied here. Important variables are the flooding events; the soil the sea surface temperatures; the humidity; the wind and the occurence of El Niño-Southern Oscillation events. Fishery productivity presents a large difference in quantity and distribution patterns between the river and floodplain lakes. This variability occurs in the region of the Lower Amazon as well as laterally for each fishery group studied, being dependent on the ecological characteristics and life strategies of each fish group considered here. PMID:27314951

  2. Multispecies Fisheries in the Lower Amazon River and Its Relationship with the Regional and Global Climate Variability.

    Directory of Open Access Journals (Sweden)

    Walter Hugo Diaz Pinaya

    Full Text Available This paper aims to describe the spatial-temporal variability in catch of the main fishery resources of the Amazon River and floodplain lakes of the Lower Amazon, as well as relating the Catch per Unit of Effort with anomalies of some of the Amazon River, atmosphere and Atlantic Ocean system variables, determining the influence of the environment on the Amazonian fishery resources. Finfish landings data from the towns and villages of the Lower Amazon for the fisheries of three sites (Óbidos, Santarém and Monte Alegre, were obtained for the period between January 1993 and December 2004. Analysis of variance, detrended correspondence analysis, redundancy analysis and multiple regression techniques were used for the statistical analysis of the distinct time series. Fisheries production in the Lower Amazon presents differences between the Amazon River and the floodplain lakes. Production in the Amazon River is approximately half of the one of the floodplain lakes. This variability occurs both along the Lower Amazon River region (longitudinal gradient and laterally (latitudinal gradient for every fishing ground studied here. The distinct environmental variables alone or in association act differently on the fishery stocks and the success of catches in each fishery group studied here. Important variables are the flooding events; the soil the sea surface temperatures; the humidity; the wind and the occurence of El Niño-Southern Oscillation events. Fishery productivity presents a large difference in quantity and distribution patterns between the river and floodplain lakes. This variability occurs in the region of the Lower Amazon as well as laterally for each fishery group studied, being dependent on the ecological characteristics and life strategies of each fish group considered here.

  3. Construction of exact simultaneous confidence bands In multiple linear regression with predictor variables constrained In an ellipsoidal region

    OpenAIRE

    Liu, W.; Lin, S.

    2008-01-01

    A simultaneous confidence band provides useful information on the plausible range of the unknown regression model. Construction of a simultaneous confidence band has a history going back to Working and Hotelling (1929) and is often a hard problem when the region over which a confidence band is required is restricted and the number of predictor variables is more than one. This article considers the construction of exact one-sided and two-sided simultaneous confidence bands of hyperbolic shape ...

  4. Extreme values of snow-related variables in Mediterranean regions: trends and long-term forecasting in Sierra Nevada (Spain)

    Science.gov (United States)

    Pérez-Palazón, M. J.; Pimentel, R.; Herrero, J.; Aguilar, C.; Perales, J. M.; Polo, M. J.

    2015-06-01

    Mountain areas in Mediterranean regions constitute key monitoring points for climate variability and its impacts, but long time datasets are not always available due to the difficult access to high areas, relevant for capturing temperature and precipitation regimes, and the predominance of cloudy remote sensing images during the snow season. Sierra Nevada National Park (South Spain), with altitudes higher than 3500 m a.s.l., is part of the Global Change in Mountain Regions network. Snow occurrence just 40 km from the seaside determines a wide range of biodiversity, a snowmelt fluvial regime, and the associated ecosystem services. This work presents the local trend analysis of weather variables at this area together with additional snow-related variables. For this, long term point and distributed observations from weather stations and remote sensing sources were studied and used as input and calibration datasets of a physically based snow model to derive long term series of mean and maximum daily fraction of snow covered area, annual number of days with snow, annual number of days with precipitation, mean and maximum mean daily snow water equivalent, and snowmelt and evaporation volumes. The joint analysis of weather and snow variables showed a decrease trend in the persistence and extent of the snow cover area. The precipitation regime, rather than the temperature trend, seems to be the most relevant driver on the snow regime forcing in Mediterranean areas. This poses a constraint for rigorous scenario analysis in these regions, since the precipitation pattern is poorly approximated by climatic models in these regions.

  5. Validation of EURO-CORDEX regional climate models in reproducing the variability of precipitation extremes in Romania

    Science.gov (United States)

    Dumitrescu, Alexandru; Busuioc, Aristita

    2016-04-01

    EURO-CORDEX is the European branch of the international CORDEX initiative that aims to provide improved regional climate change projections for Europe. The main objective of this paper is to document the performance of the individual models in reproducing the variability of precipitation extremes in Romania. Here three EURO-CORDEX regional climate models (RCMs) ensemble (scenario RCP4.5) are analysed and inter-compared: DMI-HIRHAM5, KNMI-RACMO2.2 and MPI-REMO. Compared to previous studies, when the RCM validation regarding the Romanian climate has mainly been made on mean state and at station scale, a more quantitative approach of precipitation extremes is proposed. In this respect, to have a more reliable comparison with observation, a high resolution daily precipitation gridded data set was used as observational reference (CLIMHYDEX project). The comparison between the RCM outputs and observed grid point values has been made by calculating three extremes precipitation indices, recommended by the Expert Team on Climate Change Detection Indices (ETCCDI), for the 1976-2005 period: R10MM, annual count of days when precipitation ≥10mm; RX5DAY, annual maximum 5-day precipitation and R95P%, precipitation fraction of annual total precipitation due to daily precipitation > 95th percentile. The RCMs capability to reproduce the mean state for these variables, as well as the main modes of their spatial variability (given by the first three EOF patterns), are analysed. The investigation confirms the ability of RCMs to simulate the main features of the precipitation extreme variability over Romania, but some deficiencies in reproducing of their regional characteristics were found (for example, overestimation of the mea state, especially over the extra Carpathian regions). This work has been realised within the research project "Changes in climate extremes and associated impact in hydrological events in Romania" (CLIMHYDEX), code PN II-ID-2011-2-0073, financed by the Romanian

  6. Variability of morphological characteristics of bream Abramis brama in water basins of upper Volga region

    Directory of Open Access Journals (Sweden)

    I. A. Stolbunov

    2005-09-01

    Full Text Available Data on variability of morphological readings of bream in the Rybinsk reservoir, and also in the system of reservoirs and water-currents (lake Galichskoe – river Kostroma – river Sot’ – the Kostroma expansion – Gorki reservoir were generalized.

  7. REGIONAL SOIL WATER RETENTION IN THE CONTIGUOUS US: SOURCES OF VARIABILITY AND VOLCANIC SOIL EFFECTS

    Science.gov (United States)

    Water retention of mineral soil is often well predicted using algorithms (pedotransfer functions) with basic soil properties but the spatial variability of these properties has not been well characterized. A further source of uncertainty is that water retention by volcanic soils...

  8. Spatial and temporal variability of stable isotope composition of precipitations over the Western Mediterranean region. Involvement on regional aquifers recharge

    International Nuclear Information System (INIS)

    Environmental isotopes (18O, 2H) have been measured at ten stations located in the Mediterranean seaside countries (2 in Spain, 1 in Tunisia, 1 in Corsica and 6 in the southern part of France) since March 1997. The U.A.P.V. (Universite d'Avignon et des Pays de Vaucluse) network, organised and managed by the department of hydrogeology of Avignon, allows to study modifications of the isotopic content of precipitations induced by meteorological phenomena for three different time scales. A monthly monitoring underlines the influence of the geographic and climatic situation Barcelona's values are scattered whereas Genoa's and Gibraltar's ones are grouped. This spatial distribution could be related to refill modalities of regional aquifers. A daily survey highlights the impact of the origins and the trajectories of air masses on the volume and the compounds of rain waters: enriched and high volume Mediterranean rainfalls, depleted and low volume Atlantic ones. At last, sequential samplings of high volume precipitations show the typical evolution of the intensity and the isotopic content during a disturbance: isotopic decrease at the beginning of the rainfall, more marked during the cold front passage, followed by an enrichment at the end of the event. (author)

  9. Role of the Acidic Hirudin-like COOH-Terminal Amino Acid Region of Factor Va Heavy Chain in the Enhanced Function of Prothrombinase†‡

    Science.gov (United States)

    2008-01-01

    Prothrombinase activates prothrombin through initial cleavage at Arg320 followed by cleavage at Arg271. This pathway is characterized by the generation of an enzymatically active, transient intermediate, meizothrombin, that has increased chromogenic substrate activity but poor clotting activity. The heavy chain of factor Va contains an acidic region at the COOH terminus (residues 680−709). We have shown that a pentapeptide from this region (DYDYQ) inhibits prothrombin activation by prothrombinase by inhibiting meizothrombin generation. To ascertain the function of these regions, we have created a mutant recombinant factor V molecule that is missing the last 30 amino acids from the heavy chain (factor VΔ680−709) and a mutant molecule with the 695DYDY698 → AAAA substitutions (factor V4A). The clotting activities of both recombinant mutant factor Va molecules were impaired compared to the clotting activity of wild-type factor Va (factor VaWt). Using an assay employing purified reagents, we found that prothrombinase assembled with factor VaΔ680−709 displayed an ∼39% increase in kcat, while prothrombinase assembled with factor Va4A exhibited an ∼20% increase in kcat for the activation of prothrombin as compared to prothrombinase assembled with factor VaWt. Gel electrophoresis analyzing prothrombin activation by prothrombinase assembled with the mutant molecules revealed a delay in prothrombin activation with persistence of meizothrombin. Our data demonstrate that the COOH-terminal region of factor Va heavy chain is indeed crucial for coordinated prothrombin activation by prothrombinase because it regulates meizothrombin cleavage at Arg271 and suggest that this portion of factor Va is partially responsible for the enhanced procoagulant function of prothrombinase. PMID:18590276

  10. Exploring the crowded central region of 10 Galactic globular clusters using EMCCDs. Variable star searches and new discoveries

    CERN Document Server

    Jaimes, R Figuera; Skottfelt, J; Kains, N; Jørgensen, U G; Horne, K; Dominik, M; Alsubai, K A; Bozza, V; Novati, S Calchi; Ciceri, S; D'Ago, G; Galianni, P; Gu, S -H; Harpsøe, K B W; Haugbølle, T; Hinse, T C; Hundertmark, M; Juncher, D; Korhonen, H; Liebig, C; Mancini, L; Popovas, A; Rabus, M; Rahvar, S; Scarpetta, G; Schmidt, R W; Snodgrass, C; Southworth, J; Starkey, D; Street, R A; Surdej, J; Wang, X -B; Wertz, O

    2015-01-01

    Obtain time-series photometry of the very crowded central regions of Galactic globular clusters with better angular resolution than previously achieved with conventional CCDs on ground-based telescopes to complete, or improve, the census of the variable star population in those stellar systems. Images were taken using the Danish 1.54-m Telescope at the ESO observatory at La Silla in Chile. The telescope was equipped with an electron-multiplying CCD and the short-exposure-time images obtained (10 images per second) were stacked using the shift-and-add technique to produce the normal-exposure-time images (minutes). Photometry was performed via difference image analysis. Automatic detection of variable stars in the field was attempted. The light curves of 12541 stars in the cores of 10 globular clusters were statistically analysed in order to automatically extract the variable stars. We obtained light curves for 31 previously known variable stars (3 L, 2 SR, 20 RR Lyrae, 1 SX Phe, 3 cataclysmic variables, 1 EW a...

  11. Relationship of regional PM2.5 variations in east Asia and climate variability in the North Pacific

    Science.gov (United States)

    So, J.; Yeh, S. W.; Kim, M.; Park, R.

    2014-12-01

    Recent studies have suggested that the Short Lived Climate Pollutants (SLCPs) such as Sulfate aerosols, Black carbon, Seasalt play a role to influence the weather and climate variability by changing radiative forcings. Therefore, it is useful to examine the relationship between atmospheric variability and SLCPs. Particularly, the concentration of Particle Matter 2.5 (PM2.5) is significant in east Asia, which is mostly due to a rapid industrialization. It is known that both the atmospheric circulation and cloud variability is closely associated with the variations of PM2.5 in east Asia are associated with major atmospheric variables for 1986-2010 using the GEOS-Chem model and the observational datasets. The composite analysis reveals that the high and low concentration year of PM2.5 in east Asia is differently associated with the spatial pattern of atmospheric anomalies over the North Pacific. In addition, the changes in the PM2.5 concentration in east Asia may lead the changes in the amount of high and low cloud in the downstream region of the North Pacific. This indicates that the PM2.5 variations in east Asia may significantly influence the weather and climate variability in the North Pacific by modulating the cloud amount and atmospheric circulation, which is largely consistent with some previous studies.

  12. Drought Variability and Land Degradation in Semiarid Regions: Assessment Using Remote Sensing Data and Drought Indices (1982–2011

    Directory of Open Access Journals (Sweden)

    Sergio M. Vicente-Serrano

    2015-04-01

    Full Text Available We analyzed potential land degradation processes in semiarid regions worldwide using long time series of remote sensing images and the Normalized Difference Vegetation Index (NDVI for the period 1981 to 2011. The objectives of the study were to identify semiarid regions showing a marked decrease in potential vegetation activity, indicative of the occurrence of land degradation processes, and to assess the possible influence of the observed drought trends quantified using the Standardized Precipitation Evapotranspiration Index (SPEI. We found that the NDVI values recorded during the period of maximum vegetation activity (NDVImax predominantly showed a positive evolution in the majority of the semiarid regions assessed, but NDVImax was highly correlated with drought variability, and the trends of drought events influenced trends in NDVImax at the global scale. The semiarid regions that showed most increase in NDVImax (the Sahel, northern Australia, South Africa were characterized by a clear positive trend in the SPEI values, indicative of conditions of greater humidity and lesser drought conditions. While changes in drought severity may be an important driver of NDVI trends and land degradation processes in semiarid regions worldwide, drought did not apparently explain some of the observed changes in NDVImax. This reflects the complexity of vegetation activity processes in the world’s semiarid regions, and the difficulty of defining a universal response to drought in these regions, where a number of factors (natural and anthropogenic may also affect on land degradation.

  13. Drought Variability and Land Degradation in Semiarid Regions: Assessment Using Remote Sensing Data and Drought Indices (1982–2011)

    KAUST Repository

    Vicente-Serrano, Sergio

    2015-04-14

    We analyzed potential land degradation processes in semiarid regions worldwide using long time series of remote sensing images and the Normalized Difference Vegetation Index (NDVI) for the period 1981 to 2011. The objectives of the study were to identify semiarid regions showing a marked decrease in potential vegetation activity, indicative of the occurrence of land degradation processes, and to assess the possible influence of the observed drought trends quantified using the Standardized Precipitation Evapotranspiration Index (SPEI). We found that the NDVI values recorded during the period of maximum vegetation activity (NDVImax) predominantly showed a positive evolution in the majority of the semiarid regions assessed, but NDVImax was highly correlated with drought variability, and the trends of drought events influenced trends in NDVImax at the global scale. The semiarid regions that showed most increase in NDVImax (the Sahel, northern Australia, South Africa) were characterized by a clear positive trend in the SPEI values, indicative of conditions of greater humidity and lesser drought conditions. While changes in drought severity may be an important driver of NDVI trends and land degradation processes in semiarid regions worldwide, drought did not apparently explain some of the observed changes in NDVImax. This reflects the complexity of vegetation activity processes in the world’s semiarid regions, and the difficulty of defining a universal response to drought in these regions, where a number of factors (natural and anthropogenic) may also affect on land degradation.

  14. Construction and characterization of a non-immune Llama variable heavy chain phage display antibody library%羊驼非免疫重链单域抗体库的构建和鉴定

    Institute of Scientific and Technical Information of China (English)

    吴标; 王树军; 夏立亮; 季萍; 葛海良; 赵国屏; 王颖

    2011-01-01

    本研究旨在通过构建羊驼非免疫重链单域抗体库,完成抗体库多样性的鉴定,为进一步筛选抗原特异性重链抗体奠定基础.我们从未经免疫的羊驼外周血中分离外周血单个核细胞(PBMC),抽提RNA后,用RT-PCR方法特异性扩增羊驼重链抗体可变区(VHH)片段;并采用两步连接方法将重链抗体可变区片段与噬菌粒载体pCANTAB5E连接获得重组子,多次电转感受态大肠杆菌TG1后获得VHH抗体基因库;并采用稀释计数法测定抗体库库容量,随机挑取克隆测序验证抗体库多样性.结果显示,我们所构建的羊驼非免疫重链单域抗体库的库容量为1.5×109,随机克隆测序验证多样性良好,独立克隆所占比例为80%,并显示出和人源抗体较高的同源性.上述结果表明,我们已经成功构建获得大容量的羊驼非免疫重链单域抗体库,为进一步筛选抗原特异性重链抗体奠定基础.%To construct a non-immune Llama variable domain of heavy chain antibody(VHH) phage display antibody library (VHH antibody library). Llama peripheral blood mononuclear lymphocytes were isolated from whole blood by Ficoll-hypaque density gradient centrifugation. Total RNA was extracted from PBMCs and reverse-transcripted into cDNA by using specific primers. VHH were amplified by nested PCR. PCR products of VHH fragments were then purified and ligated with phagemid vector pCANTAB5E by a modified two-step ligation method. Recombinant pCANTAB5E-VHH vectors were electroporated into competent TGI E.coli cells to obtain the primary VHH antibody library. The library capacity was titrated through limited dilution. Recombination efficacy and diversity of VHH antibody library was determined by sequencing analysis. Alignment a-nalysis was performed to compare the homology between Llama VHH domain and human/mouse variable regions of heavy chains. By using a modified strategy, we have constructed a non-immune Llama VHH antibody library with 1. 5

  15. Regional Variability and Uncertainty of Electric Vehicle Life Cycle CO₂ Emissions across the United States.

    Science.gov (United States)

    Tamayao, Mili-Ann M; Michalek, Jeremy J; Hendrickson, Chris; Azevedo, Inês M L

    2015-07-21

    We characterize regionally specific life cycle CO2 emissions per mile traveled for plug-in hybrid electric vehicles (PHEVs) and battery electric vehicles (BEVs) across the United States under alternative assumptions for regional electricity emission factors, regional boundaries, and charging schemes. We find that estimates based on marginal vs average grid emission factors differ by as much as 50% (using National Electricity Reliability Commission (NERC) regional boundaries). Use of state boundaries versus NERC region boundaries results in estimates that differ by as much as 120% for the same location (using average emission factors). We argue that consumption-based marginal emission factors are conceptually appropriate for evaluating the emissions implications of policies that increase electric vehicle sales or use in a region. We also examine generation-based marginal emission factors to assess robustness. Using these two estimates of NERC region marginal emission factors, we find the following: (1) delayed charging (i.e., starting at midnight) leads to higher emissions in most cases due largely to increased coal in the marginal generation mix at night; (2) the Chevrolet Volt has higher expected life cycle emissions than the Toyota Prius hybrid electric vehicle (the most efficient U.S. gasoline vehicle) across the U.S. in nearly all scenarios; (3) the Nissan Leaf BEV has lower life cycle emissions than the Prius in the western U.S. and in Texas, but the Prius has lower emissions in the northern Midwest regardless of assumed charging scheme and marginal emissions estimation method; (4) in other regions the lowest emitting vehicle depends on charge timing and emission factor estimation assumptions. PMID:26125323

  16. A New Model Incorporating Leadership and Institutional Factors as Mediating Variables in Regional Endogenous Growth

    OpenAIRE

    Stimson, Robert J; Stough, Roger R.

    2004-01-01

    Theories and approaches to endogenous growth and regional development tend to neglect or at best underplay the role of leadership and the way institutional factors are considered is usually simplistic. This paper builds on work the authors have been developing over the last year or so to develop a model framework of regional economic development that explicitly incorporates leadership and institutional factors along with the consideration of resource endowments and market fit and of entrepren...

  17. Correcting air pollution time series for meteorological variability. With an application to regional PM10 concentrations

    OpenAIRE

    Visser H; Noordijk H; CIM; LLO

    2003-01-01

    It is well-known that a large part of the year-to-year variation in annual distribution of daily concentrations of air pollutants is due to fluctuations in the frequency and severity of meteorological conditions. This variability makes it difficult to estimate the effectiveness of emission control strategies. In this report we have demonstrated how a series of binary decision rules, known as Classification And Regression Trees (CART), can be used to calculate pollution concentrations that are...

  18. Intraspecific Variability of Rotylenchulus reniformis from Cotton-growing Regions in the United States

    OpenAIRE

    Agudelo, Paula; Robbins, Robert T.; Stewart, James McD.; Szalanski, Allen L.

    2005-01-01

    Reniform nematode (Rotylenchulus reniformis) is a major pest of cotton in the southeastern United States. The objective of this study was to examine the variation of reniform nematode populations from cotton-growing locations in the United States where it is prevalent. Multivariate analysis of variance and discriminant analysis were used to determine the variability of morphology in males and immature females. Reproduction indices of populations were measured on selected soybean and cotton ge...

  19. Load Mitigation and Optimal Power Capture for Variable Speed Wind Turbine in Region 2

    OpenAIRE

    Saravanakumar Rajendran; Debashisha Jena

    2015-01-01

    This paper proposes the two nonlinear controllers for variable speed wind turbine (VSWT) operating at below rated wind speed. The objective of the controller is to maximize the energy capture from the wind with reduced oscillation on the drive train. The conventional controllers such as aerodynamic torque feedforward (ATF) and indirect speed control (ISC) are adapted initially, which introduce more power loss, and the dynamic aspects of WT are not considered. In order to overcome the above dr...

  20. Making the best of climatic variability: options for upgrading rainfed farming in water scarce regions.

    Science.gov (United States)

    Rockström, J

    2004-01-01

    Coping with climatic variability for livelihood security is part of everyday life for rural communities in semi-arid and dry sub-humid savannas. Water scarcity caused by rainfall fluctuations is common, causing meteorological droughts and dry spells. However, this paper indicates, based on experiences in sub-Saharan Africa and India, that the social impact on rural societies of climatically induced droughts is exaggerated. Instead, water scarcity causing food deficits is more often caused by management induced droughts and dry spells. A conceptual framework to distinguish between manageable and unmanageable droughts is presented. It is suggested that climatic droughts require focus on social resilience building instead of land and water resource management. Focus is then set on the manageable part of climatic variability, namely the almost annual occurrence of dry spells, short 2-4 week periods of no rainfall, affecting farmer yields. On-farm experiences in savannas of sub-Saharan Africa of water harvesting systems for dry spell mitigation are presented. It is shown that bridging dry spells combined with soil fertility management can double and even triple on-farm yield levels. Combined with innovative systems to ensure maximum plant water availability and water uptake capacity, through adoption of soil fertility improvement and conservation tillage systems, there is a clear opportunity to upgrade rainfed farming systems in vulnerable savanna environments, through appropriate local management of climatic variability. PMID:15195432

  1. Finding stability regions for preserving efficiency classification of variable returns to scale technology in data envelopment analysis

    Science.gov (United States)

    Zamani, P.; Borzouei, M.

    2016-06-01

    This paper addresses issue of sensitivity of efficiency classification of variable returns to scale (VRS) technology for enhancing the credibility of data envelopment analysis (DEA) results in practical applications when an additional decision making unit (DMU) needs to be added to the set being considered. It also develops a structured approach to assisting practitioners in making an appropriate selection of variation range for inputs and outputs of additional DMU so that this DMU be efficient and the efficiency classification of VRS technology remains unchanged. This stability region is simply specified by the concept of defining hyperplanes of production possibility set of VRS technology and the corresponding halfspaces. Furthermore, this study determines a stability region for the additional DMU within which, in addition to efficiency classification, the efficiency score of a specific inefficient DMU is preserved and also using a simulation method, a region in which some specific efficient DMUs become inefficient is provided.

  2. The antitumor efficacy of a novel adenovirus-mediated anti-p21Ras single chain fragment variable antibody on human cancers in vitro and in vivo.

    Science.gov (United States)

    Yang, Ju-Lun; Pan, Xin-Yan; Zhao, Wen-Xing; Hu, Qi-Chan; Ding, Feng; Feng, Qiang; Li, Gui-Yun; Luo, Ying

    2016-03-01

    Activated ras genes are found in a large number of human tumors, and therefore are one of important targets for cancer therapy. This study investigated the antitumor effects of a novel single chain fragment variable antibody (scFv) against ras protein, p21Ras. The anti-p21Ras scFv gene was constructed by phage display library from hybridoma KGHR1, and then subcloned into replication-defective adenovirus vector to obtain recombinant adenovirus KGHV100. Human tumor cell lines with high expression of p21Ras SW480, MDA-MB‑231, OVCAR-3, BEL-7402, as well as tumor cell line with low expression of p21Ras, SKOV3, were employed to investigate antitumor effects in vitro and in vivo. Fluorescence microscopy demonstrated that KGHV100 was able to express intracellularly anti-p21Ras scFv antibody in cultured tumor cells and in transplantation tumor cells. MTT, Transwell, colony formation, and flow cytometry analysis showed that KGHV100 led to significant growth arrest in tumor cells with high p21Ras expression, and induced G0/G1 cell cycle arrest in the studied tumor cell lines. In vivo, KGHV100 significantly inhibited tumor growth following intratumoral injection, and the survival rates of the mice were higher than the control group. These results indicate that the adenovirus-mediated intracellular expression of the novel anti-p21Ras scFv exerted strong antitumoral effects, and may be a potential method for therapy of cancers with p21Ras overexpression. PMID:26780944

  3. Anti-CD20 single chain variable antibody fragment–apolipoprotein A-I chimera containing nanodisks promote targeted bioactive agent delivery to CD20-positive lymphomas

    Science.gov (United States)

    Crosby, Natasha M.; Ghosh, Mistuni; Su, Betty; Beckstead, Jennifer A.; Kamei, Ayako; Simonsen, Jens B.; Luo, Bing; Gordon, Leo I.; Forte, Trudy M.; Ryan, Robert O.

    2015-01-01

    A fusion protein comprising an α-CD20 single chain variable fragment (scFv) antibody, a spacer peptide, and human apolipoprotein (apo) A-I was constructed and expressed in Escherichia coli. The lipid interaction properties intrinsic to apoA-I as well as the antigen recognition properties of the scFv were retained by the chimera. scFv•apoA-I was formulated into nanoscale reconstituted high-density lipoprotein particles (termed nanodisks; ND) and incubated with cultured cells. α-CD20 scFv•apoA-I ND bound to CD20-positive non-Hodgkins lymphoma (NHL) cells (Ramos and Granta) but not to CD20-negative T lymphocytes (i.e., Jurkat). Binding to NHL cells was partially inhibited by pre-incubation with rituximab, a monoclonal antibody directed against CD20. Confocal fluorescence microscopy analysis of Granta cells following incubation with α-CD20 scFv•apoA-I ND formulated with the intrinsically fluorescent hydrophobic polyphenol, curcumin, revealed α-CD20 scFv•apoA-I localizes to the cell surface, while curcumin off-loads and gains entry to the cell. Compared to control incubations, viability of cultured NHL cells was decreased upon incubation with α-CD20 scFv•apoA-I ND harboring curcumin. Thus, formulation of curcumin ND with α-CD20 scFv•apoA-I as the scaffold component confers cell targeting and enhanced bioactive agent delivery, providing a strategy to minimize toxicity associated with chemotherapeutic agents. PMID:25994015

  4. Anti-CD20 single chain variable antibody fragment-apolipoprotein A-I chimera containing nanodisks promote targeted bioactive agent delivery to CD20-positive lymphomas.

    Science.gov (United States)

    Crosby, Natasha M; Ghosh, Mistuni; Su, Betty; Beckstead, Jennifer A; Kamei, Ayako; Simonsen, Jens B; Luo, Bing; Gordon, Leo I; Forte, Trudy M; Ryan, Robert O

    2015-08-01

    A fusion protein comprising an α-CD20 single chain variable fragment (scFv) antibody, a spacer peptide, and human apolipoprotein (apo) A-I was constructed and expressed in Escherichia coli. The lipid interaction properties intrinsic to apoA-I as well as the antigen recognition properties of the scFv were retained by the chimera. scFv•apoA-I was formulated into nanoscale reconstituted high-density lipoprotein particles (termed nanodisks; ND) and incubated with cultured cells. α-CD20 scFv•apoA-I ND bound to CD20-positive non-Hodgkins lymphoma (NHL) cells (Ramos and Granta) but not to CD20-negative T lymphocytes (i.e., Jurkat). Binding to NHL cells was partially inhibited by pre-incubation with rituximab, a monoclonal antibody directed against CD20. Confocal fluorescence microscopy analysis of Granta cells following incubation with α-CD20 scFv•apoA-I ND formulated with the intrinsically fluorescent hydrophobic polyphenol, curcumin, revealed α-CD20 scFv•apoA-I localizes to the cell surface, while curcumin off-loads and gains entry to the cell. Compared to control incubations, viability of cultured NHL cells was decreased upon incubation with α-CD20 scFv•apoA-I ND harboring curcumin. Thus, formulation of curcumin ND with α-CD20 scFv•apoA-I as the scaffold component confers cell targeting and enhanced bioactive agent delivery, providing a strategy to minimize toxicity associated with chemotherapeutic agents. PMID:25994015

  5. Structure effects in the region of superheavy elements via the $\\alpha$-decay chain of $^{293}$118

    CERN Document Server

    Gupta, Raj K; Kumar, Rajesh; Balasubramaniam, M; Scheid, W; 10.1088/0954-3899/28/11/310

    2011-01-01

    The $\\alpha$-decay chain of $^{293}$118, first proposed in the Berkeley cold fusion experiment $^{208}$Pb($^{86}$Kr,1n) and now retracted, is calculated by using the preformed cluster model (PCM) of one of us (RKG). Also, the possible branchings of $\\alpha$-particles to heavier cluster decays of all the parents in this chain are calculated for the first time. The calculated Q-values, penetrabilities and preformation factors for $\\alpha$-decays suggest that the $^{285}$114 nucleus with Z=114, N=171 is a magic nucleus, either due to the magicity of Z=114, or of N=172 or of both. The N=172 is proposed to be a magic number in certain relativistic mean-field calculations, but with Z=120. The calculated cluster decays point to new interesting possibilities of $^{14}$C decay of the $^{281}$112 parent, giving rise to a (reasonably) deformed Z=106, N=161, $^{267}$106 daughter (N=162 being now established as the deformed magic shell) or to a doubly magic $^{48}$Ca cluster emitted from any of the parent nucleus in the $...

  6. Immunoglobulin Heavy Chain Variable Region and Major Histocompatibility Region Genes Are Linked to Induced Graves' Disease in Females From Two Very Large Families of Recombinant Inbred Mice

    OpenAIRE

    McLachlan, Sandra M.; Aliesky, Holly; Banuelos, Bianca; Magana, Jessica; Williams, Robert W.; Rapoport, Basil

    2014-01-01

    Graves' hyperthyroidism is caused by antibodies to the TSH receptor (TSHR) that mimic thyroid stimulation by TSH. Stimulating TSHR antibodies and hyperthyroidism can be induced by immunizing mice with adenovirus expressing the human TSHR A-subunit. Prior analysis of induced Graves' disease in small families of recombinant inbred (RI) female mice demonstrated strong genetic control but did not resolve trait loci for TSHR antibodies or elevated serum T4. We investigated the genetic basis for in...

  7. Exploring the crowded central region of ten Galactic globular clusters using EMCCDs. Variable star searches and new discoveries

    Science.gov (United States)

    Figuera Jaimes, R.; Bramich, D. M.; Skottfelt, J.; Kains, N.; Jørgensen, U. G.; Horne, K.; Dominik, M.; Alsubai, K. A.; Bozza, V.; Calchi Novati, S.; Ciceri, S.; D'Ago, G.; Galianni, P.; Gu, S.-H.; Harpsøe, K. B. W.; Haugbølle, T.; Hinse, T. C.; Hundertmark, M.; Juncher, D.; Korhonen, H.; Mancini, L.; Popovas, A.; Rabus, M.; Rahvar, S.; Scarpetta, G.; Schmidt, R. W.; Snodgrass, C.; Southworth, J.; Starkey, D.; Street, R. A.; Surdej, J.; Wang, X.-B.; Wertz, O.

    2016-04-01

    Aims: We aim to obtain time-series photometry of the very crowded central regions of Galactic globular clusters; to obtain better angular resolution thanhas been previously achieved with conventional CCDs on ground-based telescopes; and to complete, or improve, the census of the variable star population in those stellar systems. Methods: Images were taken using the Danish 1.54-m Telescope at the ESO observatory at La Silla in Chile. The telescope was equipped with an electron-multiplying CCD, and the short-exposure-time images obtained (ten images per second) were stacked using the shift-and-add technique to produce the normal-exposure-time images (minutes). Photometry was performed via difference image analysis. Automatic detection of variable stars in the field was attempted. Results: The light curves of 12 541 stars in the cores of ten globular clusters were statistically analysed to automatically extract the variable stars. We obtained light curves for 31 previously known variable stars (3 long-period irregular, 2 semi-regular, 20 RR Lyrae, 1 SX Phoenicis, 3 cataclysmic variables, 1 W Ursae Majoris-type and 1 unclassified) and we discovered 30 new variables (16 long-period irregular, 7 semi-regular, 4 RR Lyrae, 1 SX Phoenicis and 2 unclassified). Fluxes and photometric measurements for these stars are available in electronic form through the Strasbourg astronomical Data Center. Based on data collected by the MiNDSTEp team with the Danish 1.54m telescope at ESO's La Silla observatory in Chile.Full Table 1 is only available at CDS via anonymous ftp to http://cdsarc.u-strasbg.fr (ftp://130.79.128.5) or via http://cdsarc.u-strasbg.fr/viz-bin/qcat?J/A+A/588/A128

  8. Impact of climate variability and anthropogenic activity on streamflow in the Three Rivers Headwater Region, Tibetan Plateau, China

    Science.gov (United States)

    Jiang, Chong; Li, Daiqing; Gao, Yanni; Liu, Wenfeng; Zhang, Linbo

    2016-05-01

    Under the impacts of climate variability and human activities, there is violent fluctuation for streamflow in the large basins in China. Therefore, it is crucial to separate the impacts of climate variability and human activities on streamflow fluctuation for better water resources planning and management. In this study, the Three Rivers Headwater Region (TRHR) was chosen as the study area. Long-term hydrological data for the TRHR were collected in order to investigate the changes in annual runoff during the period of 1956-2012. The nonparametric Mann-Kendall test, moving t test, Pettitt test, Mann-Kendall-Sneyers test, and the cumulative anomaly curve were used to identify trends and change points in the hydro-meteorological variables. Change point in runoff was identified in the three basins, which respectively occurred around the years 1989 and 1993, dividing the long-term runoff series into a natural period and a human-induced period. Then, the hydrologic sensitivity analysis method was employed to evaluate the effects of climate variability and human activities on mean annual runoff for the human-induced period based on precipitation and potential evapotranspiration. In the human-induced period, climate variability was the main factor that increased (reduced) runoff in LRB and YARB (YRB) with contribution of more than 90 %, while the increasing (decreasing) percentage due to human activities only accounted for less than 10 %, showing that runoff in the TRHR is more sensitive to climate variability than human activities. The intra-annual distribution of runoff shifted gradually from a double peak pattern to a single peak pattern, which was mainly influenced by atmospheric circulation in the summer and autumn. The inter-annual variation in runoff was jointly controlled by the East Asian monsoon, the westerly, and Tibetan Plateau monsoons.

  9. Study of the influence of solar variability on a regional (Indian) climate: 1901-2007

    CERN Document Server

    Aslam, O P M

    2014-01-01

    We use Indian temperature data of more than 100 years to study the influence of solar activity on climate. We study the Sun-climate relationship by averaging solar and climate data at various time scales; decadal, solar activity and solar magnetic cycles. We also consider the minimum and maximum values of sunspot number (SSN) during each solar cycle. This parameter SSN is correlated better with Indian temperature when these data are averaged over solar magnetic polarity epochs (SSN maximum to maximum). Our results indicate that the solar variability may still be contributing to ongoing climate change and suggest for more investigations.

  10. A new insight into the innermost jet regions: probing extreme jet variability with LOFT

    Directory of Open Access Journals (Sweden)

    Donnarumma I.

    2013-12-01

    Full Text Available Blazars are highly variable sources over timescales that can be as low as minutes. This is the case of the High Energy Peaked BL Lac (HBL objects showing strong variability in X-rays, which highly correlates with that of the TeV emission. The degree of this correlation is still debated, particularly when the flaring activity is followed down to very short time scales. This correlation could challenge the synchrotron-self-Compton scenario in which one relativistic electron population dominates the entire radiative output. We argue that the LOFT Large Area Detector (10 m2, LAD, thanks to its unprecedented timing capability, will allow us to detect the X-ray counterpart (2-50 keV of the very fast variability observed at TeV energies, sheding light on the nature of X-TeV connection. We will discuss the test case of PKS 2155-304, showing as it would be possible to look for any X-ray variability occurring at very short timescales, never explored so far. This will put strong constraints on the size and the location of any additional electron population in the multi-zone scenario. Under this perspective, LOFT and the CTA observatories, planned to operate in the same time frame, will allow us to investigate in depth the connection between X-ray and TeV emissions. We also discuss the potentialities of LOFT in measuring the change in spectral curvature of the synchrotron spectra in HBLs which will make possible to directly study the mechanism of acceleration of highly energetic electrons. LOFT timing capability will be also promising in the study of Flat Spectrum Radio Quasars (FSRQs with flux ≥ 1 mCrab. Constraints to the location of the high energy emission will be provided by: a temporal investigation on second timescale; b spectral trend investigation on minute timescales. This represents a further link with CTA because of the rapid (unexpected TeV emission recently detected in some FSRQs.

  11. The variability of radiative balance elements and air temperature over the Asian region of Russia

    OpenAIRE

    Kharyutkina, E. V.; I. I. Ippolitov; S. V. Loginov

    2012-01-01

    The variability of spatial-temporal distribution of temperature and heat balance elements is investigated for the Asian territory of Russia (45–80° N, 60–180° E) using JRA-25, NCEP/DOE AMIP-II reanalysis data and observational data for the period of global warming 1979–2008. It is shown that temperature trend over the territory is 1.4 °C for the period under study according to reanalysis data. Since the beginning of 90s of 20th century the increase of back earth-atmosphere shor...

  12. The variability of radiative balance elements and air temperature over the Asian region of Russia

    OpenAIRE

    Kharyutkina, E. V.; I. I. Ippolitov; S. V. Loginov

    2012-01-01

    The variability of spatial-temporal distribution of temperature and heat balance elements is investigated for the Asian territory of Russia (45–80° N, 60–180° E) using JRA-25, NCEP/DOE AMIP-II reanalysis data and observational data for the period of global warming 1979–2008. It is shown that temperature trend over the territory is 1.4 °C for the period under study according to reanalysis data. Since the beginning of 90s of 20th century the increase of back earth-atmosphere shortwave radiation...

  13. 116S-23S rRNA Gene Intergenic Spacer Region Variability Helps Resolve Closely Related Sphingomonads

    Directory of Open Access Journals (Sweden)

    Sima eTokajian

    2016-02-01

    Full Text Available Sphingomonads comprise a physiologically versatile group many of which appear to be adapted to oligotrophic environments, but several also had features in their genomes indicative of host associations. In this study, the extent variability of the 16S-23S rDNA intergenic spacer (ITS sequences of 14 ATCC reference sphingomonad strains and 23 isolates recovered from drinking water was investigated through PCR amplification and sequencing. Sequencing analysis of the 16S-23S rRNA gene ITS region revealed that the ITS sizes for all studied isolates varied between 415 to 849 bp, while their G+C content was 42.2 mol% to 57.9 mol%. Five distinct ITS types were identified: ITSnone (without tRNA genes, ITSAla(TGC, ITSAla (TGC+Ile (GAT, ITSIle (GAT+Ala (TGC and ITS Ile (GAT+Pseudo. All of the identified tRNAAla (TGC molecules consisted of 73 bases, and all of the tRNAIle (GAT molecules consisted of 74 bases. We also detected striking variability in the size of the ITS region among the various examined isolates. Highest variability was detected within the ITS-2.

  14. Variable-density ground-water flow and paleohydrology in the Waste Isolation Pilot Plant (WIPP) region, southeastern New Mexico

    International Nuclear Information System (INIS)

    Variable-density groundwater flow was studied near the Waste Isolation Pilot Plant in southeastern New Mexico. An analysis of the relative magnitude of pressure-related and density-related flow-driving forces indicates that density-related gravity effects are not significant at the plant and to the west but are significant in areas to the north, northeast, and south. A regional-scale model of variable-density groundwater flow in the Culebra Dolomite member of the Rustler Formation indicates that the flow velocities are relatively rapid west of the site and extremely slow east and northeast of the site. In the transition zone between those two extremes, which includes the plant, velocities are highly variable. Sensitivity simulations indicates that the central and western parts of the region, including the plant, are fairly well isolated from the eastern and northeastern boundaries. Vertical-flux simulations indicate that as much as 25% of total inflow to the Culebra could be entering as vertical flow, with most of this flow occurring west of the plant. A simple cross-sectional model was developed to examine the flow system as it drains through time following recharge during a past glacial pluvial. This model indicates that the system as a whole drains very slowly and that it apparently could have sustained flow from purely transient drainage following recharge of the system during the Pleistocene

  15. Climate change and water storage variability over an arid endorheic region

    Science.gov (United States)

    Yang, Tao; Wang, Chao; Chen, Yaning; Chen, Xi; Yu, Zhongbo

    2015-10-01

    Terrestrial Water Storage (TWS) plays an important role in regional climate and water resources management, especially in arid regions under global change context. However, serious lack of in-situ measurements in remote alpine mountains is hindering our current understanding of regional TWS change in the Tarim River Basin (TRB), a large and typical arid endorheic area in Northwest China of Central Asia. To solve the problem, four different hydrology products from the Gravity Recovery and Climate Experiment (GRACE) satellite, model simulations from Global Land Data Assimilation System (GLDAS) in conjunction with in-situ measurements, are utilized to investigate patterns and underlying causes of TWS and its component changes. An excess of precipitation over evapotranspiration (ET) plus runoff contributes to an increase of TWS. The phase of Total Soil Moisture (TSM) lags that of Snow Water Equivalent (SWE), indicating a recharge from snowmelt to TSM. Increasing TWS together with decreasing SWE resulted in an increase of subsurface water. Our results are of great value to amend basin-wide water management and conservation strategies for the similar arid regions considering climate change.

  16. Quantitative remote sensing for monitoring forest canopy structural variables in the Three Gorges region of China

    NARCIS (Netherlands)

    Zeng, Y.

    2008-01-01

    Bridging various scales ranging from local to regional and global, remote sensing has facilitated extraordinary advances in modeling and mapping ecosystems and their functioning. Since forests are one of the most important natural resources on the terrestrial Earth surface, accurate and up-to-date i

  17. Regional variability in occurrence and distribution of polymetallic nodules in the central Indian Basin

    Digital Repository Service at National Institute of Oceanography (India)

    Valsangkar, A; Rebello, J.M.S.

    Regional scale morphological studies on different-sized polymetallic nodules from the Central Indian Basin show that only 2–5 cm sized nodules have highest occurrence per station (92–94% along latitudes; 88–94% along longitudes). A nodule size shows...

  18. Multi-Site and Multi-Variables Statistical Downscaling Technique in the Monsoon Dominated Region of Pakistan

    Science.gov (United States)

    Khan, Firdos; Pilz, Jürgen

    2016-04-01

    South Asia is under the severe impacts of changing climate and global warming. The last two decades showed that climate change or global warming is happening and the first decade of 21st century is considered as the warmest decade over Pakistan ever in history where temperature reached 53 0C in 2010. Consequently, the spatio-temporal distribution and intensity of precipitation is badly effected and causes floods, cyclones and hurricanes in the region which further have impacts on agriculture, water, health etc. To cope with the situation, it is important to conduct impact assessment studies and take adaptation and mitigation remedies. For impact assessment studies, we need climate variables at higher resolution. Downscaling techniques are used to produce climate variables at higher resolution; these techniques are broadly divided into two types, statistical downscaling and dynamical downscaling. The target location of this study is the monsoon dominated region of Pakistan. One reason for choosing this area is because the contribution of monsoon rains in this area is more than 80 % of the total rainfall. This study evaluates a statistical downscaling technique which can be then used for downscaling climatic variables. Two statistical techniques i.e. quantile regression and copula modeling are combined in order to produce realistic results for climate variables in the area under-study. To reduce the dimension of input data and deal with multicollinearity problems, empirical orthogonal functions will be used. Advantages of this new method are: (1) it is more robust to outliers as compared to ordinary least squares estimates and other estimation methods based on central tendency and dispersion measures; (2) it preserves the dependence among variables and among sites and (3) it can be used to combine different types of distributions. This is important in our case because we are dealing with climatic variables having different distributions over different meteorological

  19. An antibody with a variable-region coiled-coil "knob" domain.

    Science.gov (United States)

    Zhang, Yong; Goswami, Devrishi; Wang, Danling; Wang, Tsung-Shing Andrew; Sen, Shiladitya; Magliery, Thomas J; Griffin, Patrick R; Wang, Feng; Schultz, Peter G

    2014-01-01

    The X-ray crystal structure of a bovine antibody (BLV1H12) revealed a unique structure in its ultralong heavy chain complementarity determining region 3 (CDR3H) that folds into a solvent-exposed β-strand "stalk" fused to a disulfide crosslinked "knob" domain. We have substituted an antiparallel heterodimeric coiled-coil motif for the β-strand stalk in this antibody. The resulting antibody (Ab-coil) expresses in mammalian cells and has a stability similar to that of the parent bovine antibody. MS analysis of H-D exchange supports the coiled-coil structure of the substituted peptides. Substitution of the knob-domain of Ab-coil with bovine granulocyte colony-stimulating factor (bGCSF) results in a stably expressed chimeric antibody, which proliferates mouse NFS-60 cells with a potency comparable to that of bGCSF. This work demonstrates the utility of this novel coiled-coil CDR3 motif as a means for generating stable, potent antibody fusion proteins with useful pharmacological properties. PMID:24254636

  20. Genetic Variability and Microdistribution of Triatoma infestans Genotypes and Trypanosoma cruzi Clones in Arequipa Region (Peru

    Directory of Open Access Journals (Sweden)

    Brenière Simone F

    1997-01-01

    Full Text Available The genetic variability of Triatoma infestans and Trypanosoma cruzi populations was studied by isoenzyme analysis in two distinct areas of Arequipa province (Peru; one, Santa Rita de Siguas, being an endemic area for Chagas' disease, the second, Arequipa, recently infected. Analysis of T. infestans genetic variability indicates, (i temporal stability of genotypes found in Santa Rita de Siguas, (ii high genetic differences between Arequipa and Santa Rita de Siguas populations suggesting minor contact between them, (iii multiple origin of the T. infestans population in Arequipa, and (iv poor dispersal capacity of T. infestans: the panmictic unit could be reduce to a house. Parasite isoenzyme analysis was performed in 29 Peruvian stocks of T. cruzi, mainly isolated from bugs taken in a single locality, Santa Rita de Siguas. The results show, (i a high genetic polymorphism, (ii nine different multilocus genotypes were detected and clustered in two different clades, (iii most of the parasite isolates pertained to one of the clade and were genetically similar to those analyzed 12 years before. This sample allowed the study of the mating system of T. cruzi in strict sympatic conditions and gave more strength to the hypothesis of the clonal structure of T. cruzi populations

  1. Stellar variability in low-extinction regions towards the Galactic Bulge

    CERN Document Server

    Dominici, T P; Medina-Tanco, G A; Teixeira, R G; Benevides-Soares, P

    1999-01-01

    Intensive monitoring of low-extinction windows towards the galactic bulge has provided in the last years valuable information for studies about the dynamics, kinematics and formation history of this part of the galaxy, mainly by characterizing the bulge stellar populations (Paczy\\'nski, 1996). Since 1997, we have been conducting an intensive photometric-astrometric survey of the galactic bulge, with the monitoring of about 120000 stars in 12 windows uniformly distributed in galactic latitude and longitude (Blanco & Terndrup, 1989 e Blanco, 1988) never before submitted to this kind of survey. For this purpose, we have used the IAG/USP CCD Meridian Circle of the Abrahão de Moraes Observatory. The main objective of this work is the identification and classification of variable objects. In this work we present the set up and development of the necessary tools for a project like this and the posterior analysis of our data. We briefly describe the construction of a program to organize and detect variables amon...

  2. Volumetric Analysis of Regional Variability in the Cerebellum of Children with Dyslexia

    OpenAIRE

    Fernandez, Vindia G.; Stuebing, Karla; Juranek, Jenifer; Fletcher, Jack M.

    2013-01-01

    Cerebellar deficits and subsequent impairment in procedural learning may contribute to both motor difficulties and reading impairment in dyslexia. We used quantitative magnetic resonance imaging to investigate the role of regional variation in cerebellar anatomy in children with single-word decoding impairments (N=23), children with impairment in fluency alone (N=8), and typically developing children (N=16). Children with decoding impairments (dyslexia) demonstrated no statistically significa...

  3. Inference of haplotypic phase and missing genotypes in polyploid organisms and variable copy number genomic regions

    Directory of Open Access Journals (Sweden)

    Balding David J

    2008-12-01

    Full Text Available Abstract Background The power of haplotype-based methods for association studies, identification of regions under selection, and ancestral inference, is well-established for diploid organisms. For polyploids, however, the difficulty of determining phase has limited such approaches. Polyploidy is common in plants and is also observed in animals. Partial polyploidy is sometimes observed in humans (e.g. trisomy 21; Down's syndrome, and it arises more frequently in some human tissues. Local changes in ploidy, known as copy number variations (CNV, arise throughout the genome. Here we present a method, implemented in the software polyHap, for the inference of haplotype phase and missing observations from polyploid genotypes. PolyHap allows each individual to have a different ploidy, but ploidy cannot vary over the genomic region analysed. It employs a hidden Markov model (HMM and a sampling algorithm to infer haplotypes jointly in multiple individuals and to obtain a measure of uncertainty in its inferences. Results In the simulation study, we combine real haplotype data to create artificial diploid, triploid, and tetraploid genotypes, and use these to demonstrate that polyHap performs well, in terms of both switch error rate in recovering phase and imputation error rate for missing genotypes. To our knowledge, there is no comparable software for phasing a large, densely genotyped region of chromosome from triploids and tetraploids, while for diploids we found polyHap to be more accurate than fastPhase. We also compare the results of polyHap to SATlotyper on an experimentally haplotyped tetraploid dataset of 12 SNPs, and show that polyHap is more accurate. Conclusion With the availability of large SNP data in polyploids and CNV regions, we believe that polyHap, our proposed method for inferring haplotypic phase from genotype data, will be useful in enabling researchers analysing such data to exploit the power of haplotype-based analyses.

  4. Research on Regional Spatial Variability of Soil Moisture Based on GIS

    OpenAIRE

    Fan, Yongcun; Zhang, Changli; Fang, Junlong; Tian, Lei

    2010-01-01

    International audience As one of soil dynamics properties, soil moisture content is an important factor of soil fertility which counts for much to crop growth situation and scientific irrigation management. A design plan of regional spatial variation of soil moisture measurement was introduced. Its main job includes the use of differential GPS technology for each sampling points in farmland, collecting data of high-precision geo-spatial information and soil moisture in farmland resorting o...

  5. Sex differences in synaptic plasticity in stress-responsive brain regions following chronic variable stress

    OpenAIRE

    Carvalho-Netto, Eduardo F.; Myers, Brent; Jones, Kenneth; Solomon, Matia B.; Herman, James P.

    2011-01-01

    Increased stress responsiveness is implicated in the etiology of mood and anxiety disorders, including depression and post-traumatic stress disorder. Additionally, stress-related affective disorders have a higher incidence in women than men. Chronic stress in rodents produces numerous neuromorphological changes in a variety of limbic brain regions. Here, we examined the sex-dependent differences in presynaptic innervation of the paraventricular nucleus of the hypothalamus (PVN), prefrontal co...

  6. Observations and Modelling of Microphysical Variability, Aggregation & Sedimentation in Tropical Storm Cirrus Outflow Regions

    OpenAIRE

    M. W. Gallagher; P. J. Connolly; Crawford, I.; Heymsfield, A.; Bower, K. N.; T. W. Choularton; Allen, G.; Flynn, M. J.; G. Vaughan; Hacker, J

    2012-01-01

    Aircraft measurements of the microphysics of a tropical convective anvil (at temperatures ~−60 °C) forming above the Hector storm, over the Tiwi Islands, Northern Australia, have been conducted with a view to determining ice crystal aggregation efficiencies from in situ measurements. The observed microphysics have been compared to an explicit bin-microphysical model of the anvil region, which includes crystal growth by vapour diffusion and aggregation and the process o...

  7. Spatial and temporal variability of rainfall in the Tocantins-Araguaia hydrographic region

    OpenAIRE

    Glauber Epifanio Loureiro; Lindemberg Lima Fernandes; Júnior Hiroyuki Ishihara

    2015-01-01

    Current paper examines the space-time dynamics of yearly rainfall of the Tocantins-Araguaia Hydrographic Region (TAHR), foregrounded on rainfall volume from isohyet maps and interpolated by Kriging geo-statistical method.  Rainfall space dynamics was undertaken by the analysis of descriptive statistics, Index of Meteorological Irregularity (IMI) and Variation Coefficient. Temporal dynamics was analyzed through the distribution of total annual volume precipitation for each TAHR sub-basin by th...

  8. Regional precipitation variability in East Asia related to climate and environmental factors during 1979-2012

    OpenAIRE

    Deng, Yinyin; Gao, Tao; Gao, Huiwang; Yao, Xiaohong; Xie, Lian

    2014-01-01

    This paper studies the inter-annual precipitation variations in different regions of East Asia from oceans to interior areas in China during 1979 – 2012. The results computed by Empirical Orthogonal Functions (EOF) demonstrate that the annual precipitation changes are mainly related to the El Niño-Southern Oscillation, East Asian summer monsoon and aerosols. We also found that the increased Sea surface temperature (SST) could explain the precipitation changes over the Northwest Pacific in the...

  9. Studies of regional-scale climate variability and change: Hidden Markov models and coupled ocean-atmosphere modes

    Energy Technology Data Exchange (ETDEWEB)

    M. Ghil (UCLA), PI; S. Kravtsov (UWM); A. W. Robertson (IRI); P. Smyth (UCI)

    2008-10-14

    In this project we developed further a twin approach to the study of regional-scale climate variability and change. The two approaches involved probabilistic network (PN) models (sometimes called dynamic Bayesian networks) and intermediate-complexity coupled ocean-atmosphere models (ICMs). We thus made progress in identifying the predictable modes of climate variability and investigating their impacts on the regional scale. In previous work sponsored by DOE’s Climate Change Prediction Program (CCPP), we had developed a family of PNs (similar to Hidden Markov Models) to simulate historical records of daily rainfall, and used them to downscale seasonal predictions of general circulation models (GCMs). Using an idealized atmospheric model, we had established a novel mechanism through which ocean-induced sea-surface temperature (SST) anomalies might influence large-scale atmospheric circulation patterns on interannual and longer time scales; similar patterns were found in a hybrid coupled ocean–atmosphere–sea-ice model. In this continuation project, we built on these ICM results and PN model development to address prediction of rainfall and temperature statistics at the local scale, associated with global climate variability and change, and to investigate the impact of the latter on coupled ocean–atmosphere modes. Our main project results consist of extensive further development of the hidden Markov models for rainfall simulation and downscaling together with the development of associated software; new intermediate coupled models; a new methodology of inverse modeling for linking ICMs with observations and GCM simulations, called empirical mode reduction (EMR); and observational studies of decadal and multi-decadal natural climate variability, informed by ICM simulations. A particularly timely by-product of this work is an extensive study of clustering of cyclone tracks in the extratropical Atlantic and the western

  10. Variability in 14C contents of soil organic matter at the plot and regional scale across climatic and geologic gradients

    Science.gov (United States)

    van der Voort, Tessa Sophia; Hagedorn, Frank; McIntyre, Cameron; Zell, Claudia; Walthert, Lorenz; Schleppi, Patrick; Feng, Xiaojuan; Eglinton, Timothy Ian

    2016-06-01

    Soil organic matter (SOM) forms the largest terrestrial pool of carbon outside of sedimentary rocks. Radiocarbon is a powerful tool for assessing soil organic matter dynamics. However, due to the nature of the measurement, extensive 14C studies of soil systems remain relatively rare. In particular, information on the extent of spatial and temporal variability in 14C contents of soils is limited, yet this information is crucial for establishing the range of baseline properties and for detecting potential modifications to the SOM pool. This study describes a comprehensive approach to explore heterogeneity in bulk SOM 14C in Swiss forest soils that encompass diverse landscapes and climates. We examine spatial variability in soil organic carbon (SOC) 14C, SOC content and C : N ratios over both regional climatic and geologic gradients, on the watershed- and plot-scale and within soil profiles. Results reveal (1) a relatively uniform radiocarbon signal across climatic and geologic gradients in Swiss forest topsoils (0-5 cm, Δ14C = 130 ± 28.6, n = 12 sites), (2) similar radiocarbon trends with soil depth despite dissimilar environmental conditions, and (3) micro-topography dependent, plot-scale variability that is similar in magnitude to regional-scale variability (e.g., Gleysol, 0-5 cm, Δ14C 126 ± 35.2, n = 8 adjacent plots of 10 × 10 m). Statistical analyses have additionally shown that Δ14C signature in the topsoil is not significantly correlated to climatic parameters (precipitation, elevation, primary production) except mean annual temperature at 0-5 cm. These observations have important consequences for SOM carbon stability modelling assumptions, as well as for the understanding of controls on past and current soil carbon dynamics.

  11. Competitiveness of Small Farms and Innovative Food Supply Chains: The Role of Food Hubs in Creating Sustainable Regional and Local Food Systems

    Directory of Open Access Journals (Sweden)

    Giaime Berti

    2016-07-01

    Full Text Available Over the last decades, the economic, social and environmental sustainability of the conventional agri-food system has and continues to be contested within both academic and public institutions. For small farms, the unsustainability of the food system is even more serious; farms’ declining share of profit and the cost-price squeeze of commodity production has increased barriers to market access with the inevitable effect of agricultural abandonment. One way forward to respond to the existing conventional agri-food systems and to create a competitive or survival strategy for small family farms is the re-construction of regional and local agri-food systems, aligning with Kramer and Porter’s concept of shared value strategy. Through a critical literature review, this paper presents “regional and local food hubs” as innovative organizational arrangements capable of bridging structural holes in the agri-food markets between small producers and the consumers—individuals and families as well as big buyers. Food hubs respond to a supply chain (or supply network organizational strategy aiming at re-territorialising the agri-food systems through the construction of what in the economic literature are defined as values-based food supply chains.

  12. Phenology Analysis of Forest Vegetation to Environmental Variables during - and Post-Monsoon Seasons in Western Himalayan Region of India

    Science.gov (United States)

    Khare, S.; Latifi, H.; Ghosh, K.

    2016-06-01

    To assess the phenological changes in Moist Deciduous Forest (MDF) of western Himalayan region of India, we carried out NDVI time series analysis from 2013 to 2015 using Landsat 8 OLI data. We used the vegetation index differencing method to calculate the change in NDVI (NDVIchange) during pre and post monsoon seasons and these changes were used to assess the phenological behaviour of MDF by taking the effect of a set of environmental variables into account. To understand the effect of environmental variables on change in phenology, we designed a linear regression analysis with sample-based NDVIchange values as the response variable and elevation aspect, and Land Surface Temperature (LST) as explanatory variables. The Landsat-8 derived phenology transition stages were validated by calculating the phenology variation from Nov 2008 to April 2009 using Landsat-7 which has the same spatial resolution as Landsat-8. The Landsat-7 derived NDVI trajectories were plotted in accordance with MODIS derived phenology stages (from Nov 2008 to April 2009) of MDF. Results indicate that the Landsat -8 derived NDVI trajectories describing the phenology variation of MDF during spring, monsoon autumn and winter seasons agreed closely with Landsat-7 and MODIS derived phenology transition from Nov 2008 to April 2009. Furthermore, statistical analysis showed statistically significant correlations (p < 0.05) amongst the environmental variables and the NDVIchange between full greenness and maximum frequency stage of Onset of Greenness (OG) activity.. The major change in NDVI was observed in medium (600 to 650 m) and maximum (650 to 750 m) elevation areas. The change in LST showed also to be highly influential. The results of this study can be used for large scale monitoring of difficult-to-reach mountainous forests, with additional implications in biodiversity assessment. By means of a sufficient amount of available cloud-free imagery, detailed phenological trends across mountainous

  13. Lithofacies variability in the Lower Khvalynian sediments of the North Caspian Sea region.

    Science.gov (United States)

    Makshaev, Radik; Svitoch, Aleksandr

    2016-04-01

    The Early Khvalynian period (~15 500-12 500 cal years B.P.) is characterized by continuous dynamic changes in North Caspian Sea region environment, which has been confirmed by numerous data obtained during the lithofacies analysis of its key sections. Lithofacies complex of the North Caspian Sea region contains four subfacies - clayey, laminated, sandy-clayey and aleurite-clayey. Clayey facie is characterized by absolutely clayey structure with massive nonlamellated or subfissile dark-brown clays and rarely contains thin aleurite layers. This subfacie is one of the most widespread in the North Caspian Sea region. Clayey facies are typical for the most of the key sections in the Middle Volga (Bykovo, Torgun, Rovnoe, Novoprivolnoe, Chapaevka), Lower Volga (Svetly Yar) and on the left side of the Volga River valley (Verkhny Baskunchak, Krivaya Loshchina, Bolshoy Liman). Deep paleodepressions of the Lower Volga and the left side of the Volga River valley are also characterized by the maximum of the average clays thickness, which can reach up to 10 m. Sandy-clayey subfacie is characterized by stratified structure with horizontal and lenticular lamination of clays with sandy-aleuritic interlayers. The average thickness of sand layers is 2-5 cm. At most of the key sections thickness of clay layers is up to twice larger than the sands layers and only on depressions' periphery can be exceeded by some terrigenous interlayers. Sandy-aleuritic parts of clays have different mineral structure. Light suite is dominated by quartz and feldspar with some debris of heavy minerals, glauconite and calcite. Fraction of the heavy minerals contains titano ferrite, epidote, granite, zircon, amphibole, rutile, disthene, tourmaline, sillimanite. Layered subfacie is the most abundant among the chocolate clays and is widespread in the Lower Volga River region and the Ural River valley, but sporadic in Kalmykia and the Volga Delta. Sandy-clayey and aleurit-clayey subfacies have rare

  14. Human food chain contamination. Dairy products in 28 regions of the E.E.C. in 1977

    International Nuclear Information System (INIS)

    Global and individual levels of contamination by cesium 137 and strontium 90 resulting from consumption of dairy products in 28 regions of the European Economical Community are evaluated. We begin with economical considerations: production, industry, distribution and consumption. Regional exchanges, using 1977 statistical data, are then established for the following products: crude milk, skim milk, consumption milk, fresh products, butter, cheese and powder. Finally, various contamination results are presented, associated with the observed concentrations of cesium 137 and strontium 90 in milk in the E.E.C. during 1977, and in the hypothesis of highly contaminated regions. Some results are expressed as concentrations in the various dairy products after transformations and exchanges, others are expressed as individual ingested activities. A sensitivity analysis is used to assess the exchange effect

  15. Seasonal variability of planktonic copepods (Copepoda: Crustacea in a tropical estuarine region in Brazil

    Directory of Open Access Journals (Sweden)

    Cristina de Oliveira Dias

    2009-12-01

    Full Text Available The Caravelas River estuary and adjacent coastal region were studied during the rainy and dry seasons of 2003-2004 to assess the copepod community structure. Abiotic and biotic parameters were measured, and the total density, frequency and percentage of copepod taxa were determined for each sampling period. Copepod densities showed significant differences between sampling periods, with higher densities in the rainy seasons (Mean: 90,941.80 ind.m-3; S.D.: 26,364.79. The sampling stations located to the north and south, in the coastal region adjacent to the Caravelas River estuary presented the lowest copepod density values. The copepod assemblage was composed mainly of estuarine and estuarine/coastal copepods. The seasonal variations in temperature and salinity influenced the abundance of species during the rainy and dry seasons, with the following dominant species alternating: Paracalanus quasimodo Bowman, 1971 in the rainy season of 2003, Parvocalanus crassirostris Dahl, 1894 in the dry season of 2003 and Acartia lilljeborgii Giesbrecht, 1892 in the rainy and dry seasons of 2004. Non-parametric multidimensional scaling indicated differences in copepod assemblages between sampling periods, but not between sampling stations.

  16. Variability or conservation of hepatitis C virus hypervariable region 1? Implications for immune responses

    Indian Academy of Sciences (India)

    Mario U Mondelli; Antonella Cerino; Annalisa Meola; Alfredo Nicosia

    2003-04-01

    The hypervariable region 1 (HVR1) of the E2 protein of hepatitis C virus (HCV) is highly heterogeneous in its primary sequence and is responsible for significant inter- and intra-individual variation of the infecting virus, which may represent an important pathogenetic mechanism leading to immune escape and persistent infection. A binding site for neutralizing antibodies (Ab) has also been allegedly identified in this region. Prospective studies of serological responses to synthetic oligopeptides derived from naturally-occurring HVR1 sequences showed promiscuous recognition of HVR1 variants in most patients via binding to C-terminal amino acid residues with conserved physicochemical properties. Monoclonal antibodies generated by immunization of mice with peptides derived from natural HVR1 sequences were shown to recognize several HVR1 variants in line with evidence gathered from studies using human sera. In addition, selected mAbs were able to bind HVR1 in the context of a complete soluble form of the E2 glycoprotein, indicating recognition of correctly folded sequences, and were shown to specifically capture circulating and recombinant HCV particles, suggesting that HVR1 is expressed on intact virus particles and therefore potentially able to interact with cellular receptor(s). These findings suggest that it is possible to induce a broadly reactive clonal immune response to multiple HCV variants and that this mechanism could be used in principle to induce protective immunity for a large repertoire of HCV variants.

  17. Facilitators and Inhibitors of Supply Chain Innovation-prospects for Supply Chain Managment in the Irish Grocery Sector

    OpenAIRE

    Keegan, Joan; O'Callaghan, Edmund; Wilcox, Mary

    2001-01-01

    Supply chain management is one of the most significant strategic challenges currently facing the Irish grocery sector. The UK grocery market with its emphasis on composite deliveries via regional distribution centres is extremely sophisticated; the Irish grocery sector, however, is in the embryonic stage of implementing central distribution. The potential to develop innovative supply chain systems is mediated by both national logistic-related variables and company characteristics. In additio...

  18. Genetic variability of broodstocks of Tambaqui (Teleostei – Characidae from the northeast region of Brazil

    Directory of Open Access Journals (Sweden)

    Nelson Mauricio Lopera-Barrero

    2015-12-01

    Full Text Available The objective of this experiment was to evaluate the genetic diversity within three Tambaqui broodstocks (Colossoma macropomum. Eight primers were used to analyze 67 individuals collected from three fish farming in the municipalities: Porto Real do Colégio – Alagoas (PRC, Araujo 1 – Sergipe (AR1 and Araujo 2 – Sergipe (AR2, in Brazil. Differences in the frequencies of 88 fragments and four exclusive fragments in PRC were found. High polymorphism values (from 54.38% to 64.38% and Shannon´s index (from 0.33 to 0.37 were observed. The AMOVA showed that high variation is within each broodstock. The identity and the genetic distance among the groups ranged from 0.845 to 0.975 and from 0.025 to 0.156 respectively, and the shortest distance was found in the groups PRC x AR1 and PRC x AR2. The genetic differentiation ranged from lower to higher (Fst = 0.03 and 0.178 as well as the migratory number per generation (Nm = 5.07 to 12.8. In general, the broodstocks had high intra-population variability, and high differentiation and genetic distance within themselves.

  19. Rice Root Architectural Plasticity Traits and Genetic Regions for Adaptability to Variable Cultivation and Stress Conditions.

    Science.gov (United States)

    Sandhu, Nitika; Raman, K Anitha; Torres, Rolando O; Audebert, Alain; Dardou, Audrey; Kumar, Arvind; Henry, Amelia

    2016-08-01

    Future rice (Oryza sativa) crops will likely experience a range of growth conditions, and root architectural plasticity will be an important characteristic to confer adaptability across variable environments. In this study, the relationship between root architectural plasticity and adaptability (i.e. yield stability) was evaluated in two traditional × improved rice populations (Aus 276 × MTU1010 and Kali Aus × MTU1010). Forty contrasting genotypes were grown in direct-seeded upland and transplanted lowland conditions with drought and drought + rewatered stress treatments in lysimeter and field studies and a low-phosphorus stress treatment in a Rhizoscope study. Relationships among root architectural plasticity for root dry weight, root length density, and percentage lateral roots with yield stability were identified. Selected genotypes that showed high yield stability also showed a high degree of root plasticity in response to both drought and low phosphorus. The two populations varied in the soil depth effect on root architectural plasticity traits, none of which resulted in reduced grain yield. Root architectural plasticity traits were related to 13 (Aus 276 population) and 21 (Kali Aus population) genetic loci, which were contributed by both the traditional donor parents and MTU1010. Three genomic loci were identified as hot spots with multiple root architectural plasticity traits in both populations, and one locus for both root architectural plasticity and grain yield was detected. These results suggest an important role of root architectural plasticity across future rice crop conditions and provide a starting point for marker-assisted selection for plasticity. PMID:27342311

  20. Intra-seasonal and Inter-annual variability of Bowen Ratio over rain-shadow region of North peninsular India

    Science.gov (United States)

    Morwal, S. B.; Narkhedkar, S. G.; Padmakumari, B.; Maheskumar, R. S.; Deshpande, C. G.; Kulkarni, J. R.

    2016-02-01

    Intra-seasonal and inter-annual variability of Bowen Ratio (BR) have been studied over the rain-shadow region of north peninsular India during summer monsoon season. Daily grid point data of latent heat flux (LHF), sensible heat flux (SHF) from NCEP/NCAR Reanalysis for the period 1970-2014 have been used to compute daily area-mean BR. Daily grid point rainfall data at a resolution of 0.25° × 0.25° from APHRODITE's Water Resources for the available period 1970-2007 have been used to study the association between rainfall and BR. The study revealed that BR rapidly decreases from 4.1 to 0.29 in the month of June and then remains nearly constant at the same value (≤0.1) in the rest of the season. High values of BR in the first half of June are indicative of intense thermals and convective clouds with higher bases. Low values of BR from July to September period are indicative of weak thermals and convective clouds with lower bases. Intra-seasonal and inter-annual variability of BR is found to be inversely related to precipitation over the region. BR analysis indicates that the land surface characteristics of the study region during July-September are similar to that over oceanic regions as far as intensity of thermals and associated cloud microphysical properties are concerned. Similar variation of BR is found in El Nino and La Nina years. During June, an increasing trend is observed in SHF and BR and decreasing trend in LHF from 1976 to 2014. Increasing trend in the SHF is statistically significant.

  1. Chemiluminescence competitive indirect enzyme immunoassay for 20 fluoroquinolone residues in fish and shrimp based on a single-chain variable fragment.

    Science.gov (United States)

    Tao, Xiaoqi; Chen, Min; Jiang, Haiyang; Shen, Jianzhong; Wang, Zhanhui; Wang, Xia; Wu, Xiaoping; Wen, Kai

    2013-09-01

    A chemiluminescent competitive indirect enzyme-linked immunosorbent assay, based on a mutant single-chain variable fragment (scFv), was developed to detect a broad range of fluoroquinolones (FQs) in fish and shrimp matrices. In this study, the best scFvC4A9H1_mut2 was adopted, which showed 10-fold improved affinity to sarafloxacin (SAR), difloxacin (DIF), and trovafloxacin (TRO), while the affinity to other FQs was fully inherited from wild-type scFvC4A9H1. In the optimized generic test, scFvC4A9H1_mut2 in combination with norfloxacin-ovalbumin conjugate and horseradish peroxidase-labeled anti-c-myc 9E10 antibody showed 50 % binding inhibition (IC50) at 0.12 μg kg(-1) for norfloxacin in buffer. Screening for the class of FQ antibiotics is accomplished using a simple, rapid extraction carried out with ethanol/acetic acid (99:1, v/v). This common extraction was able to detect 20 FQ residues such as s ciprofloxacin (CIP), danofloxacin, DIF, enoxacin, enrofloxacin (ENR), fleroxacin, amifloxacin, flumequine, levofloxacin, lomefloxacin hydrochloride, marbofloxacin, norfloxacin (NOR), ofloxacin, orbifloxacin, pazufloxacin, pefloxacin-d5 (PEF), prulifloxacin, SAR, sparfloxacin, and TRO in fish and shrimp. The limit of detection (LOD) for NOR was 0.2 μg kg(-1) and the LODs for CIP and ENR were all <0.2 μg kg(-1). Values of LODs inferred from the cross-reactivity data will range from approximately 0.23 μg kg(-1) for PEF to 2.1 μg kg(-1) for TRO. Field fish and shrimp samples were analyzed and compared to the results obtained from liquid chromatography tandem mass spectrometric method. All five instances (from 0.25 to 15.6 μg kg(-1)) in which FQs were present at concentrations near or above the assay LOD were identified as positive by the newly developed assay, demonstrating the usefulness of this assay as a screening tool. PMID:23842902

  2. Analysis and forecast of agricultural products exchanges between various regions with a view to evaluating food chain contamination

    International Nuclear Information System (INIS)

    The purpose of this study was to determine and forecast the effects of the contamination of agricultural products on a population distributed into regions, resulting for instance from nuclear plant releases. The concentration of radionuclides in food depends on the initial contamination of the considered product, the technical transformations undergone by the produce and exchanges between regions. Soft wheat products were taken as an example on account of the quality and amount of available data. Contamination from 129I was especially considered. Knowing the concentration level in the initial produce, a model was developed that gives the level in the product at its various stages of transformation, exchanges between regions being taken into account. To forecast concentration levels up to five years, past exchanges should be 'projected' into the future; to that purpose various methods ('R.A.S.' gravitational, linear programming model) were used and critized. The determination of the radionuclide concentration in finished products (bread, rusk, biscuits, ...) then makes it possible to calculate collective and individual doses to the inhabitants of each region, taking account of dietary habits and demographic distribution. All the calculations were carried out by means of conversational programs allowing to assess doses delivered under several assumptions on the initial produce contamination

  3. Continental and sea surface temperature variability in southeast Africa (Zambezi River region) since MIS 3

    Science.gov (United States)

    Castañeda, I. S.; Tjallingii, R.; Wang, Y. V.; Mets, A.; van der Lubbe, J.; Brummer, G.; Sinninghe Damste, J. S.; Schneider, R. R.; Schouten, S.

    2010-12-01

    At present, few paleoclimate records exist from the region of southeast Africa. The continental climate history of southeast Africa is of much interest since this region falls under the influence of both the Intertropical Convergence Zone (ITCZ) and Congo Air Boundary (CAB) and likely experienced considerably different hydrological conditions when glacial conditions prevailed. Likewise, the paleoceanographic history of the Mozambique Channel of the coast of southeast Africa is of much interest since mesoscale eddies (Agulhas rings) formed in this region transport and release warm and saline Indian Ocean waters into the South Atlantic influencing the buoyancy of Atlantic thermocline waters, deep-water formation, and Atlantic Meridional Overturning Circulation. Sea surface temperatures (SST) of the southern Indian Ocean are additionally important for modulating precipitation in southeast Africa. Here, we utilize multiple organic (TEX86, BIT Index, MBT, CBT) and inorganic (XRF core scanning) geochemical proxies on a sediment core collected from near the Zambezi River (core 64PE304-80; -18.24 °S, 37.87 °E) to examine continental conditions within the Zambezi River catchment as well as the SST history of the Mozambique Channel. Throughout the ~38 kyr record of 64PE304-80, variations in the BIT Index, a proxy for marine vs. soil organic matter input, closely track changes in the log (Ca/Ti) ratio, a proxy for marine vs. lithogenic input. These records indicate increased lithogenic/soil OM contributions in the Late Pleistocene portion of the record whereas the Holocene is characterized by increased marine contributions. This pattern likely reflects closer proximity of the Zambezi river mouth and transport of terrestrial material to the coring site during the last glacial sea-level lowstand. A particularly interesting feature of these records is pronounced millennial-scale fluctuations occurring within Marine Isotope Stages (MIS) 2 and 3, which posses a similar structure

  4. Protein loops, solitons and side-chain visualization with applications to the left-handed helix region

    CERN Document Server

    Lundgren, Martin; Sha, Fan

    2012-01-01

    Folded proteins have a modular assembly. They are constructed from regular secondary structures like alpha-helices and beta-strands that are joined together by loops. Here we develop a visualization technique that is adapted to describe this modular structure. In complement to the widely employed Ramachandran plot that is based on toroidal geometry, our approach utilizes the geometry of a two-sphere. Unlike the more conventional approaches that only describea given peptide unit, ours is capable of describing the entire backbone environment including the neighboring peptide units. It maps the positions of each atom to the surface of the two-sphere exactly how these atoms are seen by an observer who is located at the position of the central C-alpha atom. At each level of side-chain atoms we observe a strong correlation between the positioning of the atom and the underlying local secondary structure with very little if any variation between the different amino acids. As a concrete example we analyze the left-han...

  5. Time variability of atmospheric and marine parameters over the Adriatic region

    Energy Technology Data Exchange (ETDEWEB)

    Raicich, F.; Crisciani, F. [CNR, Centro Nazionale delle Ricerche, Trieste (Italy). Istituto Sperimentale Talassografico

    1999-04-01

    The time evolution of atmospheric and marine parameters over the Adriatic region is studied for the period 1946-1996 on different time-scales. On the inter annual and interdecadal time-scales evidence is found of the inverted barometer effect on sea level and the strong connection between air and sea temperatures. By contrast, opposite relationship are found on longer (secular) time-scales, which might be explained as different results of global climatic fluctuations on the atmospheric and marine parameters involved. On the inter annual time-scale a correlation is found between sea-level pressure gradient along the basin and the water inflow/outflow through the Otranto Channel, in terms of sea level and sea temperature.

  6. Structure and kinematics of the broad-line regions in active galaxies from IUE variability data

    International Nuclear Information System (INIS)

    IUE archival data are used here to investigate the structure and kinematics of the broad-line regions (BLRs) in nine AGN. It is found that the centroid of the line-continuum cross-correlation functions (CCFs) can be determined with reasonable reliability. The errors in BLR size estimates from CCFs for irregularly sampled light curves are fairly well understood. BLRs are found to have small luminosity-weighted radii, and lines of high ionization tend to be emitted closer to the central source than lines of low ionization, especially for low-luminosity objects. The motion of the gas is gravity-dominated with both pure inflow and pure outflow of high-velocity gas being excluded at a high confidence level for certain geometries. 66 refs

  7. Demographic variability indicators of somatically healthy men from different administrative and territorial regions of Ukraine

    Directory of Open Access Journals (Sweden)

    Mishalov Volodymyr

    2016-06-01

    Full Text Available Our work has revealed a rather low level of similarity in regard to the finger dermatoglyphics of somatically healthy men, 19-35 years old, between Ukraine’s north and west, north and south, center and west, center and south, as well as the palmar dermatoglyphics between central regions and the east, center and west, center and south. The obtained finger/palmar dermatoglyphics did not differentiate administrative-territorial local groups of men between the north and the center, south and west (quantitative characteristics; or palmar – between the north and west, north and east, south and west, south and east, north and center. The differences between the administrative and territorial division of dermatoglyphic signs are a reflection of the historical and cultural differences induced by migration, as well as the intensive process of mixing, in addition to the isolation of particular groups.

  8. Climate variability and change in high elevation regions: Past, present & future

    Science.gov (United States)

    Diaz, Henry F.; Grosjean, Martin; Graumlich, Lisa J.

    2003-01-01

    This special issue of Climatic Change contains a series of research and review articles, arising from papers that were presented and discussed at a workshop held in Davos, Switzerland on 25–28 June 2001. The workshop was titled ‘Climate Change at High Elevation Sites: Emerging Impacts’, and was convened to reprise an earlier conference on the same subject that was held in Wengen, Switzerland in 1995 (Diaz et al., 1997). The Davos meeting had as its main goals, a discussion of the following key issues: (1) reviewing recent climatic trends in high elevation regions of the world, (2) assessing the reliability of various biological indicators as indicators of climatic change, and (3) assessing whether physical impacts of climatic change in high elevation areas are becoming evident, and to discuss a range of monitoring strategies needed to observe and to understand the nature of any changes.

  9. Observations of Saharan dust in the Caribbean and Implications for Regional Climate Variability

    Science.gov (United States)

    Remer, L.; Einaudi, Franco

    2001-01-01

    Massive quantities of dust aerosol, originating at source locations in the Saharan desert are frequently transported westward across the Atlantic. Saharan dust has been frequently identified at ground-based stations in South America, on Barbados, in Florida and in Texas. Recently, in July of 2000, the Puerto Rican Dust Experiment (PRiDE), consisting of researchers from the U.S. Navy, NASA, the University of Miami and the University of Puerto Rico joined together to study this important phenomenon. Numerical forecast models tracked each dust event as the dust left the African continent and transversed the Atlantic. Ground-based, ship-based, airborne and satellite sensors were used to characterize the physical and radiative properties of the dust aerosol. The dust plays an important role in terms of radiative forcing of regional climate. Satellite sensors such as NASA's EOS-MODIS aboard the Terra satellite will provide important continuing information on the dust aerosol and its climatic effects.

  10. Rearrangement of sapA homologs with conserved and variable regions in Campylobacter fetus.

    Science.gov (United States)

    Tummuru, M K; Blaser, M J

    1993-08-01

    The Campylobacter fetus surface-layer (S-layer) proteins mediate both complement resistance and antigenic variation in mammalian hosts. Wild-type strain 23D possesses the sapA gene, which encodes a 97-kDa S-layer protein, and several sapA homologs are present in both wild-type and mutant strains. Here we report that a cloned silent gene (sapA1) in C. fetus can express a functional full-length S-layer protein in Escherichia coli. Analysis of sapA and sapA1 and partial analysis of sapA2 indicate that a block of approximately 600 bp beginning upstream and continuing into the open reading frames is completely conserved, and then the sequences diverge completely, but immediately downstream of each gene is another conserved 50-bp sequence. Conservation of sapA1 among strains, the presence of a putative Chi (RecBCD recognition) site upstream of sapA, sapA1, and sapA2, and the sequence identities of the sapA genes suggest a system for homologous recombination. Comparison of the wild-type strain (23D) with a phenotypic variant (23D-11) indicates that variation is associated with removal of the divergent region of sapA from the expression locus and exchange with a corresponding region from a sapA homolog. We propose that site-specific reciprocal recombination between sapA homologs leads to expression of divergent S-layer proteins as one of the mechanisms that C. fetus uses for antigenic variation. PMID:8346244

  11. Ecosystem relevance of variable jellyfish biomass in the Irish Sea between years, regions and water types

    Science.gov (United States)

    Bastian, Thomas; Lilley, Martin K. S.; Beggs, Steven E.; Hays, Graeme C.; Doyle, Thomas K.

    2014-08-01

    Monitoring the abundance and distribution of taxa is essential to assess their contribution to ecosystem processes. For marine taxa that are difficult to study or have long been perceived of little ecological importance, quantitative information is often lacking. This is the case for jellyfish (medusae and other gelatinous plankton). In the present work, 4 years of scyphomedusae by-catch data from the 2007-2010 Irish Sea juvenile gadoid fish survey were analysed with three main objectives: (1) to provide quantitative and spatially-explicit species-specific biomass data, for a region known to have an increasing trend in jellyfish abundance; (2) to investigate whether year-to-year changes in catch-biomass are due to changes in the numbers or in the size of medusa (assessed as the mean mass per individual), and (3) to determine whether inter-annual variation patterns are consistent between species and water masses. Scyphomedusae were present in 97% of samples (N = 306). Their overall annual median catch-biomass ranged from 0.19 to 0.92 g m-3 (or 8.6 to 42.4 g m-2). Aurelia aurita and Cyanea spp. (Cyanea lamarckii and Cyanea capillata) made up 77.7% and 21.5% of the total catch-biomass respectively, but species contributions varied greatly between sub-regions and years. No consistent pattern was detected between the distribution and inter-annual variations of the two genera, and contrasting inter-annual patterns emerged when considering abundance either as biomass or as density. Significantly, A. aurita medusae were heavier in stratified than in mixed waters, which we hypothesize may be linked to differences in timing and yield of primary and secondary productions between water masses. These results show the vulnerability of time-series from bycatch datasets to phenological changes and highlight the importance of taking species- and population-specific distribution patterns into account when integrating jellyfish into ecosystem models.

  12. GCM Hindcasts for SST Forced Climate Variability over Agriculturally Intensive Regions

    Science.gov (United States)

    Druyan, Leonard M.; Shah, Kathryn P.; Chandler, Mark A.; Rind, David

    1998-01-01

    The ability to forecast seasonal climate is of great practical interest. One of the most obvious benefits would be agriculture, for which various preparations (planting, machinery, irrigation, manpower) would be enabled. The expectation of being able to make such forecasts far enough in advance (on the order of 9 months) hinges on components of the system with the longest persistence or predictability. The mixed results of El Nino forecasts has raised the hope that tropical Pacific sea surface temperatures (SST) fall into this category. For agriculturally-relevant forecasts to be made, and utilized, requires several conditions. The SST in the regions that affect agricultural areas must be forecast successfully, many months in advance. The climate response to such sea surface temperatures must then be ascertained, either through the use of historical empirical studies or models (e.g., GCMS). For practical applications, the agricultural production must be strongly influenced by climate, and farmers on either the local level or through commercial concerns must be able to adjust to using such forecasts. In a continuing series of papers, we will explore each of these components. This article concerns the question of utilizing SST to forecast the climate in several regions of agricultural production. We optimize the possibility of doing so successfully by using observed SST in a hindcast mode (i.e., a perfect forecast), and we also use the globally observed values (rather than just those from the tropical Pacific, for which predictability has been shown). This then is the ideal situation; in subsequent papers we will explore degrading the results by using only tropical Pacific SSTs, and then using only

  13. An analytical equation of state for describing isotropic-nematic phase equilibria of Lennard-Jones chain fluids with variable degree of molecular flexibility.

    Science.gov (United States)

    van Westen, Thijs; Oyarzún, Bernardo; Vlugt, Thijs J H; Gross, Joachim

    2015-06-28

    We develop an equation of state (EoS) for describing isotropic-nematic (IN) phase equilibria of Lennard-Jones (LJ) chain fluids. The EoS is developed by applying a second order Barker-Henderson perturbation theory to a reference fluid of hard chain molecules. The chain molecules consist of tangentially bonded spherical segments and are allowed to be fully flexible, partially flexible (rod-coil), or rigid linear. The hard-chain reference contribution to the EoS is obtained from a Vega-Lago rescaled Onsager theory. For the description of the (attractive) dispersion interactions between molecules, we adopt a segment-segment approach. We show that the perturbation contribution for describing these interactions can be divided into an "isotropic" part, which depends only implicitly on orientational ordering of molecules (through density), and an "anisotropic" part, for which an explicit dependence on orientational ordering is included (through an expansion in the nematic order parameter). The perturbation theory is used to study the effect of chain length, molecular flexibility, and attractive interactions on IN phase equilibria of pure LJ chain fluids. Theoretical results for the IN phase equilibrium of rigid linear LJ 10-mers are compared to results obtained from Monte Carlo simulations in the isobaric-isothermal (NPT) ensemble, and an expanded formulation of the Gibbs-ensemble. Our results show that the anisotropic contribution to the dispersion attractions is irrelevant for LJ chain fluids. Using the isotropic (density-dependent) contribution only (i.e., using a zeroth order expansion of the attractive Helmholtz energy contribution in the nematic order parameter), excellent agreement between theory and simulations is observed. These results suggest that an EoS contribution for describing the attractive part of the dispersion interactions in real LCs can be obtained from conventional theoretical approaches designed for isotropic fluids, such as a Perturbed-Chain

  14. Protection against syphilis correlates with specificity of antibodies to the variable regions of Treponema pallidum repeat protein K.

    Science.gov (United States)

    Morgan, Cecilia A; Lukehart, Sheila A; Van Voorhis, Wesley C

    2003-10-01

    Syphilis has been recognized as a disease since the late 1400s, yet there is no practical vaccine available. One impediment to the development of a vaccine is the lack of understanding of multiple reinfections in humans despite the development of robust immune responses during the first episode. It has been shown that the Treponema pallidum repeat protein K (TprK) differs in seven discrete variable (V) regions in isolates and that the antibody response during infection is directed to these V regions. Immunization with TprK confers significant protection against infection with the homologous strain. We hypothesize that the antigenic diversity of TprK is involved in immune evasion, which contributes to the lack of heterologous protection. Here, using the rabbit model, we show a correlation between limited heterologous protection and tprK diversity in the challenge inoculum. We demonstrate that antibody responses to the V regions of one TprK molecule show limited cross-reactivity with heterologous TprK V regions. PMID:14500480

  15. Genetic variability and population structure of Plasmodium falciparum parasite populations from different malaria ecological regions of Kenya.

    Science.gov (United States)

    Ingasia, Luicer A; Cheruiyot, Jelagat; Okoth, Sheila Akinyi; Andagalu, Ben; Kamau, Edwin

    2016-04-01

    Transmission intensity, movement of human and vector hosts, biogeographical features, and malaria control measures are some of the important factors that determine Plasmodium falciparum parasite genetic variability and population structure. Kenya has different malaria ecologies which might require different disease intervention methods. Refined parasite population genetic studies are critical for informing malaria control and elimination strategies. This study describes the genetic diversity and population structure of P. falciparum parasites from the different malaria ecological zones in Kenya. Twelve multi-locus microsatellite (MS) loci previously described were genotyped in 225 P. falciparum isolates collected between 2012 and 2013 from five sites; three in lowland endemic regions (Kisumu, Kombewa, and Malindi) and two in highland, epidemic regions (Kisii and Kericho). Parasites from the lowland endemic and highland epidemic regions of western Kenya had high genetic diversity compared to coastal lowland endemic region of Kenya [Malindi]. The Kenyan parasites had a mean genetic differentiation index (FST) of 0.072 (p=0.011). The multi-locus genetic analysis of the 12 MS revealed all the parasites had unique haplotypes. Significant linkage disequilibrium (LD) was observed in all the five parasite populations. Kisumu had the most significant index of association values (0.16; partemether-lumefantrine is important in refining the spread of drug resistant strains and malaria transmission for more effective control and eventual elimination of malaria in Kenya. PMID:26472129

  16. NO2 climatology in the northern subtropical region: diurnal, seasonal and interannual variability

    Directory of Open Access Journals (Sweden)

    M. Navarro

    2007-10-01

    Full Text Available Daily NO2 vertical column density (VCD has been routinely measured by zenith sky spectroscopy at the subtropical station of Izaña (28° N, 16° W since 1993 in the framework of the Network for the Detection of Atmospheric Composition Change (NDACC. Based on 14 years of data the first low latitudes NO2 VCD climatology has been established and the main characteristics from short scales of one day to inter-annual variability are presented. Instrumental descriptions and different source of errors are described in detail. The observed diurnal cycle follows that expected by gas-phase NOx chemistry, as can be shown by the good agreement with a vertically integrated chemical box model, and is modulated by solar radiation. The seasonal evolution departs from the phase of the hours of daylight, showing the signature of upper stratospheric temperature changes. From the data record no significant long-term trends in NO2 VCD can be inferred. Comparison of the ground-based data sets with nadir looking satellite spectrometers shows excellent agreement for SCIAMACHY with differences between both datasets of 1.1%. GOME displays unrealistic features with largest discrepancies during summer. The ground-based data are compared with long-term output of the SLIMCAT 3-D chemical transport model (CTM. The basic model, forced by ECMWF (ERA-40 analyses, captures the observed NO2 annual cycle but significantly underestimates the spring/summer maximum. In a model run which uses assimilation of satellite CH4 profiles to constrain the model long-lived tracers the agreement is significantly improved. This improvement in modelled column NO2 is due to better modelled NOy profiles and points to transport errors in the ECMWF ERA-40 reanalyses.

  17. Regional Heat Sources and the Active and Break Phases of Boreal Summer Intraseasonal Variability

    Energy Technology Data Exchange (ETDEWEB)

    Annamalai, H; Sperber, K R

    2003-12-15

    The boreal summer intraseasonal variability (BSISV) associated with the 30-50 day mode is represented by the co-existence of three components, poleward propagation of convection over the Indian and tropical west Pacific longitudes and eastward propagation along the equator. The hypothesis that the three components influence each other has been investigated using observed OLR, NCEP-NCAR reanalysis, and solutions from an idealized linear model. The null hypothesis is that the three components are mutually independent. Cyclostationary EOF (CsEOF) analysis is applied on filtered OLR to extract the life-cycle of the BSISV. The dominant mode of CsEOF is significantly tied to observed rainfall over the Indian subcontinent. The components of the heating patterns from CsEOF analysis serve as prescribed forcings for the linear model. This allows us to ascertain which heat sources and sinks are instrumental in driving the large-scale monsoon circulation during the BSISV life-cycle. We identify three new findings: (1) the circulation anomalies that develop as a Rossby wave response to suppressed convection over the equatorial Indian Ocean associated with the previous break phase of the BSISV precondition the ocean-atmosphere system in the western Indian Ocean and trigger the next active phase of the BSISV, (2) the development of convection over the tropical west Pacific forces descent anomalies to the west. This, in conjunction with the weakened cross-equatorial flow due to suppressed convective anomalies over the equatorial Indian Ocean reduce the tropospheric moisture over the Arabian Sea, and promote westerly wind anomalies that do not recurve over India. As a result the low-level cyclonic vorticity shifts from India to southeast Asia and break conditions are initiated over India, and (3) the circulation anomalies forced by equatorial Indian Ocean convective anomalies significantly influence the active/break phases over the tropical west Pacific. Our model solutions support

  18. NO2 climatology in the northern subtropical region: diurnal, seasonal and interannual variability

    Directory of Open Access Journals (Sweden)

    S. Rodríguez

    2008-03-01

    Full Text Available Daily NO2 vertical column density (VCD has been routinely measured by zenith sky spectroscopy at the subtropical station of Izaña (28° N, 16° W since 1993 in the framework of the Network for the Detection of Atmospheric Composition Change (NDACC. Based on 14 years of data the first low latitude NO2 VCD climatology has been established and the main characteristics from short timescales of one day to interannual variability are presented. Instrumental descriptions and different sources of errors are described in detail. The observed diurnal cycle follows that expected by gas-phase NOx chemistry, as can be shown by the good agreement with a vertically integrated chemical box model, and is modulated by solar radiation. The seasonal evolution departs from the phase of the hours of daylight, indicating the signature of upper stratospheric temperature changes. From the data record (1993–2006 no significant long-term trends in NO2 VCD can be inferred. Comparison of the ground-based data sets with nadir-viewing satellite spectrometers shows excellent agreement for SCIAMACHY with differences between both datasets of 1.1%. GOME displays unrealistic features with the largest discrepancies during summer. The ground-based data are compared with long-term output of the SLIMCAT 3-D chemical transport model (CTM. The basic model, forced by ECMWF (ERA-40 analyses, captures the observed NO2 annual cycle but significantly underestimates the spring/summer maximum (by 12% at sunset and up to 25% at sunrise. In a model run which uses assimilation of satellite CH4 profiles to constrain the model long-lived tracers the agreement is significantly improved. This improvement in modelled column NO2 is due to better modelled NOy profiles and points to transport errors in the ECMWF ERA-40 reanalyses.

  19. High-resolution spatial databases of monthly climate variables (1961-2010) over a complex terrain region in southwestern China

    Science.gov (United States)

    Wu, Wei; Xu, An-Ding; Liu, Hong-Bin

    2015-01-01

    Climate data in gridded format are critical for understanding climate change and its impact on eco-environment. The aim of the current study is to develop spatial databases for three climate variables (maximum, minimum temperatures, and relative humidity) over a large region with complex topography in southwestern China. Five widely used approaches including inverse distance weighting, ordinary kriging, universal kriging, co-kriging, and thin-plate smoothing spline were tested. Root mean square error (RMSE), mean absolute error (MAE), and mean absolute percentage error (MAPE) showed that thin-plate smoothing spline with latitude, longitude, and elevation outperformed other models. Average RMSE, MAE, and MAPE of the best models were 1.16 °C, 0.74 °C, and 7.38 % for maximum temperature; 0.826 °C, 0.58 °C, and 6.41 % for minimum temperature; and 3.44, 2.28, and 3.21 % for relative humidity, respectively. Spatial datasets of annual and monthly climate variables with 1-km resolution covering the period 1961-2010 were then obtained using the best performance methods. Comparative study showed that the current outcomes were in well agreement with public datasets. Based on the gridded datasets, changes in temperature variables were investigated across the study area. Future study might be needed to capture the uncertainty induced by environmental conditions through remote sensing and knowledge-based methods.

  20. Inter-annual rainfall variability in the eastern Antilles and coupling with the regional and intra-seasonal circulation

    Science.gov (United States)

    Jury, Mark R.

    2015-08-01

    Climate variability in the eastern Antilles island chain is analyzed via principal component analysis of high-resolution monthly rainfall in the period 1981-2013. The second mode reflecting higher rainfall in July-October season between Martinique and Grenada is the focus of this study. Higher rainfall corresponds with a weakened trade wind and boundary current along the southern edge of the Caribbean. This quells the coastal upwelling off Venezuela and builds the freshwater plume east of Trinidad. There is corresponding upper easterly wind flow that intensifies passing tropical waves. During a storm event over the Antilles on 4-5 October 2010, there was inflow from east of Guyana where low salinity and high sea temperatures enable surplus latent heat fluxes. A N-S convective rain band forms ˜500 km east of the cyclonic vortex. Many features at the weather timescale reflect the seasonal correlation and composite difference maps and El Nino Southern Oscillation (ENSO) modulation of oceanic inter-basin transfers.

  1. Water maser variability over 20 years in a large sample of star-forming regions: the complete database

    CERN Document Server

    Felli, M; Cesaroni, R; Codella, C; Comoretto, G; Di Franco, S; Massi, F; Moscadelli, L; Nesti, R; Olmi, L; Palagi, F; Panella, D; Valdettaro, R

    2007-01-01

    Context. Water vapor emission at 22 GHz from masers associated with star-forming regions is highly variable. Aims. We present a database of up to 20 years of monitoring of a sample of 43 masers within star-forming regions. The sample covers a large range of luminosities of the associated IRAS source and is representative of the entire population of H2O masers of this type. The database forms a good starting point for any further study of H2O maser variability. Methods. The observations were obtained with the Medicina 32-m radiotelescope, at a rate of 4-5 observations per year. Results. To provide a database that can be easily accessed through the web, we give for each source: plots of the calibrated spectra, the velocity-time-flux density plot, the light curve of the integrated flux, the lower and upper envelopes of the maser emission, the mean spectrum, and the rate of the maser occurrence as a function of velocity. Figures for just one source are given in the text for representative purposes. Figures for al...

  2. Creative use of pilot points to address site and regional scale heterogeneity in a variable-density model

    Science.gov (United States)

    Dausman, Alyssa M.; Doherty, John; Langevin, Christian D.

    2010-01-01

    Pilot points for parameter estimation were creatively used to address heterogeneity at both the well field and regional scales in a variable-density groundwater flow and solute transport model designed to test multiple hypotheses for upward migration of fresh effluent injected into a highly transmissive saline carbonate aquifer. Two sets of pilot points were used within in multiple model layers, with one set of inner pilot points (totaling 158) having high spatial density to represent hydraulic conductivity at the site, while a second set of outer points (totaling 36) of lower spatial density was used to represent hydraulic conductivity further from the site. Use of a lower spatial density outside the site allowed (1) the total number of pilot points to be reduced while maintaining flexibility to accommodate heterogeneity at different scales, and (2) development of a model with greater areal extent in order to simulate proper boundary conditions that have a limited effect on the area of interest. The parameters associated with the inner pilot points were log transformed hydraulic conductivity multipliers of the conductivity field obtained by interpolation from outer pilot points. The use of this dual inner-outer scale parameterization (with inner parameters constituting multipliers for outer parameters) allowed smooth transition of hydraulic conductivity from the site scale, where greater spatial variability of hydraulic properties exists, to the regional scale where less spatial variability was necessary for model calibration. While the model is highly parameterized to accommodate potential aquifer heterogeneity, the total number of pilot points is kept at a minimum to enable reasonable calibration run times.

  3. A ˜50 ka record of monsoonal variability in the Darjeeling foothill region, eastern Himalayas

    Science.gov (United States)

    Ghosh, Ruby; Bera, Subir; Sarkar, Anindya; Paruya, Dipak Kumar; Yao, Yi-Feng; Li, Cheng-Sen

    2015-04-01

    Pollen, phytoliths and δ 13C signatures of soil organic matter from two fluvial sedimentary sequences of the Darjeeling foothill region, eastern Himalayas are used to portray palaeoclimatic oscillations and their impact on regional plant communities over the last ˜50 ka. Quantitative palaeoclimate estimation using coexistence approach on pollen data and other proxies indicate significant oscillations in precipitation during the late part of MIS 3 (46.4-25.9 ka), early and middle part of MIS 2 (25.9-15.6 ka), and 5.4 to 3.5 ka. Middle to late MIS 3 (ca 46.4-31 ka.) was characterized by a comparatively low monsoonal activity and slightly higher temperature than that during ca 31 ka onwards. Simultaneous expansion of deciduous trees and chloridoid grasses also imply a drier and warmer phase. Between 31 and 22.3 ka (late MIS 3 to mid-MIS 2), higher precipitation and a slightly cooler temperature led to an increase in evergreen elements over deciduous taxa and wet-loving panicoid grasses over dry-loving chloridoid grasses than earlier. After ca 22.3 ka, shrinking of forest cover, expansion of C4 chloridoid grasses, Asteraceae and Cheno-ams in the vegetation with lowering of temperature and precipitation characterized the onset of the LGM which continued till 18.3 ka. End of the LGM is manifested by a restoration in the forest cover and in the temperature and precipitation regime. Later, during 5.4 to 4.3 ka, a strong monsoonal activity supported a dense moist evergreen forest cover that subsequently declined during 4.3 to 3.5 ka. A further increase in deciduous elements and non-arboreals might be a consequence of reduced precipitation and higher temperature during this phase. A comparison between monsoonal rainfall, MAT and palaeoatmospheric CO2 with floral dynamics since last ˜50 ka indicates that these fluctuations in plant succession were mainly driven by monsoonal variations.

  4. IDENTIFICATION OF THOSE VARIABLES THAT HAVE A SIGNIFICANT INFLUENCE ON THE EXPECTED NUMBER OF DAYS OF STAYING IN THE CENTRE DEVELOPMENT REGION OF ROMANIA

    Directory of Open Access Journals (Sweden)

    Erika KULCSÁR

    2010-06-01

    Full Text Available I started from the assumption that there are more variables that have a significant influence on the expected number of days of staying in the Centre Development Region. To identify those variables this paper includes the analysis of variance with two variables that are not interacting, in this case the dependent variable is the question "How many days did you plan to stay in Centre Development Region?" and the independent variables are: "What is the purpose of your stay?" "What is the highest level of education?". Given that there are cases when interactions occur between variables, I also analyzed the interaction effects between the two independent variables. The paper also includes an ANOVA analysis with three variables between which interactions relationships occur. After identifying the dependency relations between the variables I found that the inclusion of the third variable, namely the "Marital status" of respondents, adds value to the model. Following the results obtained by ANOVA analysis, I identified those socio-demographic characteristics that, in my opinion, companies that operate on tourist market in the Center Development Region should consider when fundamenting marketing strategies in tourism.

  5. The Size of the Emitting Region in the Magnetic Eclipsing Cataclysmic Variable Stars

    CERN Document Server

    Andrych, Kateryna D

    2015-01-01

    We discuss a method for determination of the size of the emitting region close to the compact star in a binary system with eclipses by a secondary, which fills its Roche lobe. The often used approach is to model the Roche lobe by a sphere with the "effective radius" corresponding to the volume of the Roche lobe. This approach leads to a 4-6% overestimate of the radius, if taking into account the angular dimensions of the Roche lobe seen form the compact star. Andronov (1992) had shown that the projection of the Roche lobe onto the celestial sphere is close to an ellipse and had tabulated these dimensions as a function of the mass ratio. Also he published the coefficients of the approximation similar to that of the Eggleton (1983) for the "sphere corresponding to the same volume". We compare results obtained for the "circle+circle", "ellipse+circle" and "ellipse+point" approximations of the projections of the red dwarf and a white dwarf, respectively. Results are applied to the recently discovered eclipsing po...

  6. Robustness Analysis of Regional Water Supply Portfolios using Synthetic Inflow Scenarios with Variable Drought Frequency

    Science.gov (United States)

    Herman, J. D.; Zeff, H. B.; Lamontagne, J. R.; Reed, P. M.; Characklis, G. W.

    2015-12-01

    Robustness analyses of water supply systems have moved toward exploratory simulation to discover scenarios in which existing or planned policies may fail to meet stakeholder objectives. Such assessments rely heavily on the choice of plausible future scenarios, which, in the case of drought management, requires sampling or generating a broad ensemble of reservoir inflows which do not necessarily reflect the historical record. Here we adapt a widely used synthetic streamflow generation method to adjust the frequency of low-flow periods, which can be related to impactful historical events from the perspective of decision makers. Specifically, the modified generation procedure allows the user to specify parameters n, p such that events with observed weekly non-exceedance frequency p appear in the synthetic scenario with approximate frequency np (i.e., the pth percentile flow occurs n times more frequently). Additionally, the generator preserves the historical autocorrelation of streamflow and its seasonality, as well as approximate multi-site correlation. Using model simulations from recent work in multi-objective urban drought portfolio planning in North Carolina, a region whose water supply faces both climate and population pressures, we illustrate the decision-relevant consequences caused by raising the frequency of low flows associated with the 2007-2008 drought. This method explores system performance under extreme events of increasing frequency prior to reconciling these findings with climate model projections, and thus can be used to support bottom-up robustness methods in water systems planning.

  7. Biological and Molecular Variability of Alfalfa mosaic virus Affecting Alfalfa Crop in Riyadh Region.

    Science.gov (United States)

    Al-Saleh, Mohammed A; Amer, Mahmoud A

    2013-12-01

    In 2011-2012, sixty nine samples were collected from alfalfa plants showing viral infection symptoms in Riyadh region. Mechanical inoculation with sap prepared from two collected samples out of twenty five possitive for Alfalfa mosaic virus (AMV) by ELISA were produced systemic mosaic on Vigna unguiculata and Nicotiana tabacum, local lesion on Chenopodium amaranticolor and C. quinoa. Vicia faba indicator plants that induce mosaic and mottle with AMV-Sagir isolate and no infection with AMV-Wadi aldawasser isolate. Approximately 700-bp was formed by RT-PCR using AMV coat protein specific primer. Samples from infected alfalfa gave positive results, while healthy plant gave negative result using dot blot hybridization assay. The nucleotide sequences of the Saudi isolates were compared with corresponding viral nucleotide sequences reported in GenBank. The obtained results showed that the AMV from Australia, Brazil, Puglia and China had the highest similarity with AMV-Sajer isolate. While, the AMV from Spain and New Zealaland had the lowest similarity with AMV-Sajer and Wadi aldawasser isolates. The data obtained in this study has been deposited in the GenBank under the accession numbers KC434083 and KC434084 for AMV-Sajer and AMV- Wadialdawasser respectively. This is the first report regarding the gnetic make up of AMV in Saudi Arabia. PMID:25288969

  8. Biological and Molecular Variability of Alfalfa mosaic virus Affecting Alfalfa Crop in Riyadh Region

    Directory of Open Access Journals (Sweden)

    Mohammed A. AL-Saleh

    2013-12-01

    Full Text Available In 2011–2012, sixty nine samples were collected from alfalfa plants showing viral infection symptoms in Riyadh region. Mechanical inoculation with sap prepared from two collected samples out of twenty five possitive for Alfalfa mosaic virus (AMV by ELISA were produced systemic mosaic on Vigna unguiculata and Nicotiana tabacum, local lesion on Chenopodium amaranticolor and C. quinoa. Vicia faba indicator plants that induce mosaic and mottle with AMV-Sagir isolate and no infection with AMV-Wadi aldawasser isolate. Approximately 700-bp was formed by RT-PCR using AMV coat protein specific primer. Samples from infected alfalfa gave positive results, while healthy plant gave negative result using dot blot hybridization assay. The nucleotide sequences of the Saudi isolates were compared with corresponding viral nucleotide sequences reported in GenBank. The obtained results showed that the AMV from Australia, Brazil, Puglia and China had the highest similarity with AMV-Sajer isolate. While, the AMV from Spain and New Zealaland had the lowest similarity with AMV-Sajer and Wadi aldawasser isolates. The data obtained in this study has been deposited in the GenBank under the accession numbers KC434083 and KC434084 for AMV-Sajer and AMV- Wadialdawasser respectively. This is the first report regarding the gnetic make up of AMV in Saudi Arabia.

  9. Spatial and temporal variability of annual greenhouse gas fluxes from constructed wetland in an arid region

    Science.gov (United States)

    Ramos, J.; Chapman, E. J.; Childers, D. L.

    2013-12-01

    Wetlands support ecological functions that result in valuable services to society, including the purification of water through processes such as denitrification, plant uptake, and soil retention. Wetlands are also sources of greenhouse gases (GHG), such as nitrous oxide (N2O), methane (CH4), and carbon dioxide (CO2). Many free-water surface constructed treatment wetland systems (CW) in North America have been developed to remove nutrients from secondarily-treated water, but little is known about the contributions of CWS on greenhouse gas emissions, especially in arid regions. Since 2011, the 42-ha cell-1 of the Tres Rios CW in Phoenix, AZ has removed approximately 30-40% of excess nitrogen (NO3- and NH4+) from the surface water entering the CW; with most of the nitrogen uptake occurring within the 21-ha vegetated-marsh area of the CW. To increase our knowledge of ecosystem dynamics of CW in arid regions, we investigated the GHG fluxes of N2O, CH4, and CO2 from a whole-system perspective and from a vegetated-marsh to open-water gradient within the CW. Since the spring of 2012, we have been utilizing the floating chamber technique to collect and measure gas samples from two transects in the vegetated-marsh area of the CW (nearest to inflow and nearest to outflow) and along three gradient subsites within the transects (shoreline, midmarsh, and open-water). From March 2012 to March 2013, we found seasonal significant differences in CO2 and CH4 fluxes (p<0.001), but not in N2O fluxes. CO2 fluxes were higher in the spring months compared to summer and winter months however, CH4 fluxes were higher in late spring and summer compared to the fall, winter, and early spring months. We found two significant spatial patterns in GHG fluxes in the CW, between the inflow and outflow transects and along the transect gradient subsites. Between the transects, we found significantly larger CO2 and N2O fluxes at the inflow compared to the outflow (p<0.001) but not CH4, possibly as a

  10. Variability of Aquatic Chemistry in Central Guizhou Karst Region,China

    Institute of Scientific and Technical Information of China (English)

    白占国; 万国江

    1998-01-01

    It is necessary to understand the aquatic chemical characterstics of natural surface fresh water for water quality assessment.The chemical data from different kinds of water in the central Guizhou karst area showd that spring water from carbonate rock cracks(crack-water)is of neutrality or meta-alkalinity and [C] Ca II type.The amounts of all ions and the concentrations of HCO3- and Ca2+ were higher in the autumn than in the spring,The crack-water was influenced by the infiltration of surface water in the process of erosion and /or trans-portation with decreasing HCO3 and increasing pH,SO42-,Cl-,K+ and Na+ during running in a certain distance on the land surface .In particular,the chemical compositions of the waters at Tianxingqiao(upper-stream),Shuiliandong(mid-waterfall)and Luoshuitan(down-pool)near the Huangguoshu Waterfall were much different from those of the crack-water.The concentration of SO42-,Na+,Fe3+ and NO3- varied closely with seasons.The CaCO3 deposited violently with CO2 release in the spring ,In Lake Hongfeng the HCO3-/SO42- equivalent ratios were only 2.1-2.4 ,but Ca2+/Mg2+ up to 2.4-4.2.The Cl- concentration increased by a factor of 1 and Na+ by order of magnitude relative to the spring water.These indicated the increase in artificial pollutant discharge in the Lake Hongfeng watershed.In addition,Proewater in the soils covering carbonate rocks belongs to strongly mineralized water,The obvious differences in water quality were controlled by carbonate deposition,sulphate mineralization and nitrogen fixation as well as ammonification.It is indicated thaty the chemical compositions in the waters from the karst region were unstable and changeable.

  11. Variable approaches to genetic counseling for microarray regions of homozygosity associated with parental relatedness.

    Science.gov (United States)

    Grote, Lauren; Myers, Melanie; Lovell, Anne; Saal, Howard; Sund, Kristen Lipscomb

    2014-01-01

    SNP microarrays are capable of detecting regions of homozygosity (ROH) which can suggest parental relatedness. This study was designed to describe pre- and post-test counseling practices of genetics professionals regarding ROH, explore perceived comfort and ethical concerns in the follow-up of such results, demonstrate awareness of laws surrounding duty to report consanguinity and incest, and allow respondents to share their personal experiences with results suggesting a parental relationship. A 35 question survey was administered to 240 genetic counselors and geneticists who had ordered or counseled for SNP microarray. The results are presented using descriptive statistics. There was variation in both pre- and post-test counseling practices of genetics professionals. Twenty-five percent of respondents reported pre-test counseling that ROH can indicate parental relatedness. The most commonly reported ethical concern was disclosure of findings suggesting parental relatedness to parents of the patient; only 48.4% reported disclosing parental relatedness when indicated. Fifty-seven percent felt comfortable receiving results suggesting parental consanguinity while 17% felt comfortable receiving results suggesting parental incest. Twenty percent of respondents were extremely/moderately familiar with the laws about duty to report incest. Personal experiences in post-test counseling included both parental acknowledgement and denial of relatedness. This study highlights the differences in genetics professionals' pre- and post-test counseling practices, comfort, and experiences surrounding parental relatedness suggested by SNP microarray results. It identifies a need for professional organizations to offer guidance to genetics professionals about how to respond to and counsel for molecular results suggesting parental consanguinity or incest. PMID:24243712

  12. OptMAVEn--a new framework for the de novo design of antibody variable region models targeting specific antigen epitopes.

    Directory of Open Access Journals (Sweden)

    Tong Li

    Full Text Available Antibody-based therapeutics provides novel and efficacious treatments for a number of diseases. Traditional experimental approaches for designing therapeutic antibodies rely on raising antibodies against a target antigen in an immunized animal or directed evolution of antibodies with low affinity for the desired antigen. However, these methods remain time consuming, cannot target a specific epitope and do not lead to broad design principles informing other studies. Computational design methods can overcome some of these limitations by using biophysics models to rationally select antibody parts that maximize affinity for a target antigen epitope. This has been addressed to some extend by OptCDR for the design of complementary determining regions. Here, we extend this earlier contribution by addressing the de novo design of a model of the entire antibody variable region against a given antigen epitope while safeguarding for immunogenicity (Optimal Method for Antibody Variable region Engineering, OptMAVEn. OptMAVEn simulates in silico the in vivo steps of antibody generation and evolution, and is capable of capturing the critical structural features responsible for affinity maturation of antibodies. In addition, a humanization procedure was developed and incorporated into OptMAVEn to minimize the potential immunogenicity of the designed antibody models. As case studies, OptMAVEn was applied to design models of neutralizing antibodies targeting influenza hemagglutinin and HIV gp120. For both HA and gp120, novel computational antibody models with numerous interactions with their target epitopes were generated. The observed rates of mutations and types of amino acid changes during in silico affinity maturation are consistent with what has been observed during in vivo affinity maturation. The results demonstrate that OptMAVEn can efficiently generate diverse computational antibody models with both optimized binding affinity to antigens and reduced

  13. Tree-Ring Proxies of Hydroclimate Variability in the Great Lakes Region during Cold Excursions Back to 15ka

    Science.gov (United States)

    Panyushkina, I. P.; Leavitt, S. W.

    2014-12-01

    A decade-long investigation of subfossil wood buried in glacio-fluvial, fluvial and lacustrine deposits from the U.S. Great Lakes region has resulted in a Great Lakes tree-ring network (GLTRN) comprising 47 sites dated from ca. 15 ka to 3ka. The GLTRN provides high-resolution proxies for exploration of local and regional responses to hydroclimate change at inter-annual scales during the transition from the Late Pleistocene to the Holocene. Classification of radiometric ages of GLTRN wood with relative cumulative-probability function delineates intervals and importance of hydrological changes in time and space. The overwhelming majority of wood burial events correlate with generally cold climate excursions. Forest-stand deterioration and tree mortality events at the studied sites are demonstrated to result from flooding, via river aggradation (identifying occurrence of extreme hydrologic events), rise of water table, or lake inundation. To better evaluate the special patterns of hydrological change back to 15ka, we developed four floating d13C chronologies from spruce tree rings. The length of these tree-ring proxy series that capture high-frequency moisture variability of the Great Lakes area ranges from 120 to 250 years. Our data indicate progressive wet intervals during the cold excursions precisely dated with 14C tree-ring wiggles at 13.7ka, 12.1ka, and 11.3ka that fall in the Bølling-Allerød and Pre-Boreal Interstadials, and Younger Dryas Stadial. The inter-annual and decadal variability of tree-ring moisture proxies are similar across the studied locations and time intervals. Such coherence of respective proxies may result from both local ecological stability of spruce communities or regional response to a common source of moisture at the studied time intervals and locations. This study demonstrates a potential of GLTRN proxies for modeling hydroclimatic changes at the North American continent back 15 ka.

  14. A multi-year study of lower tropospheric aerosol variability and systematic relationships from four North American regions

    Science.gov (United States)

    Sherman, J. P.; Sheridan, P. J.; Ogren, J. A.; Andrews, E.; Hageman, D.; Schmeisser, L.; Jefferson, A.; Sharma, S.

    2015-11-01

    Hourly averaged aerosol optical properties (AOPs) measured over the years 2010-2013 at four continental North American NOAA Earth System Research Laboratory (NOAA/ESRL) cooperative aerosol network sites - Southern Great Plains near Lamont, OK (SGP), Bondville, IL (BND), Appalachian State University in Boone, NC (APP), and Egbert, Ontario, Canada (EGB) are analyzed. Aerosol optical properties measured over 1996-2009 at BND and 1997-2009 at SGP are also presented. The aerosol sources and types in the four regions differ enough so as to collectively represent rural, anthropogenically perturbed air conditions over much of eastern continental North America. Temporal AOP variability on monthly, weekly, and diurnal timescales is presented for each site. Differences in annually averaged AOPs and those for individual months at the four sites are used to examine regional AOP variability. Temporal and regional variability are placed in the context of reported aerosol chemistry at the sites, meteorological measurements (wind direction, temperature), and reported regional mixing layer heights. Basic trend analysis is conducted for selected AOPs at the long-term sites (BND and SGP). Systematic relationships among AOPs are also presented. Seasonal variability in PM1 (sub-1 μm particulate matter) scattering and absorption coefficients at 550 nm (σsp and σap, respectively) and most of the other PM1 AOPs is much larger than day of week and diurnal variability at all sites. All sites demonstrate summer σsp and σap peaks. Scattering coefficient decreases by a factor of 2-4 in September-October and coincides with minimum single-scattering albedo (ω0) and maximum hemispheric backscatter fraction (b). The co-variation of ω0 and b lead to insignificant annual cycles in top-of-atmosphere direct radiative forcing efficiency (DRFE) at APP and SGP. Much larger annual DRFE cycle amplitudes are observed at EGB (~ 40 %) and BND (~ 25 %), with least negative DRFE in September-October at

  15. Single-chain protein mimetics of the N-terminal heptad-repeat region of gp41 with potential as anti-HIV-1 drugs.

    Science.gov (United States)

    Crespillo, Sara; Cámara-Artigas, Ana; Casares, Salvador; Morel, Bertrand; Cobos, Eva S; Mateo, Pedro L; Mouz, Nicolas; Martin, Christophe E; Roger, Marie G; El Habib, Raphaelle; Su, Bin; Moog, Christiane; Conejero-Lara, Francisco

    2014-12-23

    During HIV-1 fusion to the host cell membrane, the N-terminal heptad repeat (NHR) and the C-terminal heptad repeat (CHR) of the envelope subunit gp41 become transiently exposed and accessible to fusion inhibitors or Abs. In this process, the NHR region adopts a trimeric coiled-coil conformation that can be a target for therapeutic intervention. Here, we present an approach to rationally design single-chain protein constructs that mimic the NHR coiled-coil surface. The proteins were built by connecting with short loops two parallel NHR helices and an antiparallel one with the inverse sequence followed by engineering of stabilizing interactions. The constructs were expressed in Escherichia coli, purified with high yield, and folded as highly stable helical coiled coils. The crystal structure of one of the constructs confirmed the predicted fold and its ability to accurately mimic an exposed gp41 NHR surface. These single-chain proteins bound to synthetic CHR peptides with very high affinity, and furthermore, they showed broad inhibitory activity of HIV-1 fusion on various pseudoviruses and primary isolates. PMID:25489108

  16. Single-chain protein mimetics of the N-terminal heptad-repeat region of gp41 with potential as anti–HIV-1 drugs

    Science.gov (United States)

    Crespillo, Sara; Cámara-Artigas, Ana; Casares, Salvador; Morel, Bertrand; Cobos, Eva S.; Mateo, Pedro L.; Mouz, Nicolas; Martin, Christophe E.; Roger, Marie G.; El Habib, Raphaelle; Su, Bin; Moog, Christiane; Conejero-Lara, Francisco

    2014-01-01

    During HIV-1 fusion to the host cell membrane, the N-terminal heptad repeat (NHR) and the C-terminal heptad repeat (CHR) of the envelope subunit gp41 become transiently exposed and accessible to fusion inhibitors or Abs. In this process, the NHR region adopts a trimeric coiled-coil conformation that can be a target for therapeutic intervention. Here, we present an approach to rationally design single-chain protein constructs that mimic the NHR coiled-coil surface. The proteins were built by connecting with short loops two parallel NHR helices and an antiparallel one with the inverse sequence followed by engineering of stabilizing interactions. The constructs were expressed in Escherichia coli, purified with high yield, and folded as highly stable helical coiled coils. The crystal structure of one of the constructs confirmed the predicted fold and its ability to accurately mimic an exposed gp41 NHR surface. These single-chain proteins bound to synthetic CHR peptides with very high affinity, and furthermore, they showed broad inhibitory activity of HIV-1 fusion on various pseudoviruses and primary isolates. PMID:25489108

  17. The transfer of seasonal isotopic variability between precipitation and drip water at eight caves in the monsoon regions of China

    Science.gov (United States)

    Duan, Wuhui; Ruan, Jiaoyang; Luo, Weijun; Li, Tingyong; Tian, Lijun; Zeng, Guangneng; Zhang, Dezhong; Bai, Yijun; Li, Jilong; Tao, Tao; Zhang, Pingzhong; Baker, Andy; Tan, Ming

    2016-06-01

    This study presents new stable isotope data for precipitation (δ18Op) and drip water (δ18Od) from eight cave sites in the monsoon regions of China (MRC), with monthly to bi-monthly sampling intervals from May-2011 to April-2014, to investigate the regional-scale climate forcing on δ18Op and how the isotopic signals are transmitted to various drip sites. The monthly δ18Op values show negative correlation with surface air temperature at all the cave sites except Shihua Cave, which is opposite to that expected from the temperature effect. In addition, although the monthly δ18Op values are negatively correlated with precipitation at all the cave sites, only three sites are significant at the 95% level. These indicate that, due to the various vapor sources, a large portion of variability in δ18Op in the MRC cannot be explained simply by either temperature or precipitation alone. All the thirty-four drip sites are classified into three types based on the δ18Od variability. About 82% of them are static drips with little discernable variation in δ18Od through the whole study period, but the drip rates of these drips are not necessary constant. Their discharge modes are site-specific and the oxygen isotopic composition of the stalagmites growing from them may record the average of multi-year climatic signals, which are modulated by the seasonality of recharge and potential effects of evaporation, and in some cases infiltration from large rainfall events. About 12% of the thirty-four drip sites are seasonal drips, although the amplitude of δ18Od is narrower than that of δ18Op, the monthly response of δ18Od to coeval precipitation is not completely damped, and some of them follow the seasonal trend of δ18Op very well. These drips may be mainly recharged by present-day precipitation, mixing with some stored water. Thus, the stalagmites growing under them may record portions of the seasonal climatic signals embedded in δ18Op. About 6% of the thirty-four drip sites

  18. Evolution, Regulation, and Function of N-terminal Variable Region of Troponin T: Modulation of Muscle Contractility and Beyond.

    Science.gov (United States)

    Jin, Jian-Ping

    2016-01-01

    Troponin T (TnT) is the tropomyosin-binding and thin filament-anchoring subunit of the troponin complex in skeletal and cardiac muscles. At the center of the sarcomeric thin filament regulatory system of striated muscles, TnT plays an essential role in transducing Ca(2+) signals in the regulation of contraction. Having emerged predating the history of vertebrates, TnT has gone through more than 500 million years of evolution that resulted in three muscle-type-specific isoforms and numerous alternative RNA splicing variants. The N-terminal region of TnT is a hypervariable structure responsible for the differences among the TnT isoforms and splice forms. This focused review summarizes our current knowledge of the molecular evolution of the N-terminal variable region and its role in the structure and function of TnT. In addition to the physiologic and pathophysiologic significances in modifying the contractility of skeletal and cardiac muscles during development and in adaptation to stress and disease conditions, the hyperplasticity of the N-terminal region of TnT demonstrates an informative example for the evolution of protein three-dimensional structure and provides insights into the molecular evolution and functional potential of proteins. PMID:26811285

  19. Spectrophotometric variability of the magnetic CP star 56 Arietis in spectral region from 1950 to 3200 A

    CERN Document Server

    Sokolov, Nikolay A

    2010-01-01

    The spectrophotometric variability of the magnetic CP star 56 Arietis (56 Ari) in the ultraviolet spectral region from 1950 to 3200 A is investigated. This study is based on the archival International Ultraviolet Explorer data obtained at different phases of the rotational cycle. The brightness of 56 Ari is not constant in the investigated wavelengths over the whole rotational period. The monochromatic light curves continuously change their shape with wavelength. This indicates that we do not observe a truly 'null wavelength region' where the monochromatic light curve has a zero amplitude. Probably, an uneven surface distribution of silicon and iron mainly influences the flux redistribution from the far-UV to near-UV spectral regions, although additional sources of opacity may be involved. The redistribution of the flux at phase 0.25 is connected with the nonuniform distribution of silicon on the stellar surface of 56 Ari. On the other hand, the redistribution of the flux at phase 0.65 is quite complex, becau...

  20. Regional variability in particulate organic matter remineralization depths: an optimization and sensitivity study using a fast Earth system model

    Science.gov (United States)

    Wilson, Jamie; Barker, Stephen; Ridgwell, Andy

    2015-04-01

    Nutrient distributions and atmospheric CO2 concentrations are sensitive to changes in the global average depth of particulate organic matter (POM) remineralization in models. Model optimization studies have used this sensitivity to find global mean remineralization depths that result in the statistically best fit to tracer observations such as phosphate (PO4). However, recent global syntheses of sediment trap data have started to suggest the existence of significant spatial variability in the depth of POM remineralization. A number of hypothetical mechanisms have been proposed to explain this variability invoking a wide range of feedbacks on atmospheric CO2. Progress has been hindered by the relatively low sampling density of sediment trap data. In response to this, we explore whether there is an optimal set of regionally variable remineralization depths in an Earth system model that best fits observed PO4 fields and how robust these solutions are. We develop a new computationally fast phosphorous-only version of the Earth system model GENIE using a transport matrix to represent steady-state circulation. The ocean is divided into 15 biogeochemical biomes within which the remineralization depth is an independent parameter. Latin hypercube sampling is used to produce an ensemble of runs that efficiently sample across the range of potential combinations of remineralization depths, producing probability distributions for each region. Despite sensitivity to the global remineralization depth, we find that PO4 is actually relatively insensitive to regional changes in remineralization. An optimal combination of remineralization depths in the Atlantic is found that predicts deeper remineralization in the low latitudes and shallower at high latitudes, matching sediment trap observations. Shallow remineralization is also predicted in the North Pacific. However, remineralization depths in the Southern Ocean, South and Equatorial Pacific, and Indian Ocean cannot be successfully

  1. THE BIVARIATE ANALYSIS BETWEEN THE VARIABLES THAT DEFINE THE INVESTIGATED TOURIST POPULATION IN THE CENTER DEVELOPMENT REGION AND THE OTHER IMPORTANT TOURIST VARIABLES

    OpenAIRE

    Assist. Ph.D Kulcsár Erika

    2010-01-01

    In the marketing research the instances when we need to examine the relationship between two variables are frequent. Knowing the relationship between the two variables involves the use of tests that can be parametric and nonparametric. This paper includes the non-parametric tests used in the bivariate analysis. The used tests are: chi square test, the Mann-Whitney test, the Kolmogorov-Smirnov test. Besides these tests, this paper also includes measuring the association between nominal variabl...

  2. Characterization of Biomphalaria orbignyi, Biomphalaria peregrina and Biomphalaria oligoza by polymerase chain reaction and restriction enzyme digestion of the internal transcribed spacer region of the RNA ribosomal gene

    Directory of Open Access Journals (Sweden)

    Spatz Linus

    2000-01-01

    Full Text Available The correct identification of Biomphalaria oligoza, B. orbignyi and B. peregrina species is difficult due to the morphological similarities among them. B. peregrina is widely distributed in South America and is considered a potential intermediate host of Schistosoma mansoni. We have reported the use of the polymerase chain reaction and restriction fragment length polymorphism analysis of the internal transcribed spacer region of the ribosomal DNA for the molecular identification of these snails. The snails were obtained from different localities of Argentina, Brazil and Uruguay. The restriction patterns obtained with MvaI enzyme presented the best profile to identify the three species. The profiles obtained with all enzymes were used to estimate genetic similarities among B. oligoza, B. peregrina and B. orbignyi. This is also the first report of B. orbignyi in Uruguay.

  3. Deletions of Immunoglobulin heavy chain and T cell receptor gene regions are uniquely associated with lymphoid blast transformation of chronic myeloid leukemia

    Directory of Open Access Journals (Sweden)

    Valgañon Mikel

    2010-01-01

    Full Text Available Abstract Background Chronic myelogenous leukemia (CML results from the neoplastic transformation of a haematopoietic stem cell. The hallmark genetic abnormality of CML is a chimeric BCR/ABL1 fusion gene resulting from the Philadelphia chromosome rearrangement t(9;22(q34;q11. Clinical and laboratory studies indicate that the BCR/ABL1 fusion protein is essential for initiation, maintenance and progression of CML, yet the event(s driving the transformation from chronic phase to blast phase are poorly understood. Results Here we report multiple genome aberrations in a collection of 78 CML and 14 control samples by oligonucleotide array comparative genomic hybridization. We found a unique signature of genome deletions within the immunoglobulin heavy chain (IGH and T cell receptor regions (TCR, frequently accompanied by concomitant loss of sequences within the short arm regions of chromosomes 7 and 9, including IKZF1, HOXA7, CDKN2A/2B, MLLT3, IFNA/B, RNF38, PAX5, JMJD2C and PDCD1LG2 genes. Conclusions None of these genome losses were detected in any of the CML samples with myeloid transformation, chronic phase or controls, indicating that their presence is obligatory for the development of a malignant clone with a lymphoid phenotype. Notably, the coincidental deletions at IGH and TCR regions appear to precede the loss of IKZF1 and/or p16 genes in CML indicating a possible involvement of RAG in these deletions.

  4. Field application of a combined pig and poultry market chain and risk pathway analysis within the Pacific Islands region as a tool for targeted disease surveillance and biosecurity.

    Science.gov (United States)

    Brioudes, Aurélie; Gummow, Bruce

    2016-07-01

    Limited resources are one of the major constraints in effective disease monitoring and control in developing countries. This paper examines the pig and poultry market chains of four targeted Pacific Island countries and territories (PICTs): Fiji, Papua New Guinea, Solomon Islands and Vanuatu and combines them with a risk pathway analysis to identify the highest risk areas (risk hotspots) and risky practices and behaviours (risk factors) of animal disease introduction and/or spread, using highly pathogenic avian influenza (HPAI) and foot-and-mouth disease (FMD) as model diseases because of their importance in the region. The results show that combining a market chain analysis with risk pathways is a practical way of communicating risk to animal health officials and improving biosecurity. It provides a participatory approach that helps officials to better understand the trading regulations in place in their country and to better evaluate their role as part of the control system. Common risk patterns were found to play a role in all four PICTs. Legal trade pathways rely essentially on preventive measures put in place in the exporting countries while no or only limited control measures are undertaken by the importing countries. Legal importations of animals and animal products are done mainly by commercial farms which then supply local smallholders. Targeting surveillance on these potential hotspots would limit the risk of introduction and spread of animal diseases within the pig and poultry industry and better rationalize use of skilled manpower. Swill feeding is identified as a common practice in the region that represents a recognized risk factor for dissemination of pathogens to susceptible species. Illegal introduction of animals and animal products is suspected, but appears restricted to small holder farms in remote areas, limiting the risk of spread of transboundary animal diseases along the market chain. Introduction of undeclared goods hidden within a legal

  5. Predicting superdeformed rotational band-head spin in A ∼ 190 mass region using variable moment of inertia model

    Indian Academy of Sciences (India)

    V S Uma; Alpana Goel; Archana Yadav; A K Jain

    2016-01-01

    The band-head spin (0) of superdeformed (SD) rotational bands in ∼ 190 mass region is predicted using the variable moment of inertia (VMI) model for 66 SD rotational bands. The superdeformed rotational bands exhibited considerably good rotational property and rigid behaviour. The transition energies were dependent on the prescribed band-head spins. The ratio of transition energies over spin /2 (RTEOS) vs. angular momentum ( ) have confirmed the rigid behaviour, provided the band-head spin value is assigned correctly. There is a good agreement between the calculated and the observed transition energies. This method gives a very comprehensive interpretation for spin assignment of SD rotational bands which could help in designing future experiments for SD bands.

  6. Idiotypes as immunogens: facing the challenge of inducing strong therapeutic immune responses against the variable region of immunoglobulins.

    Directory of Open Access Journals (Sweden)

    Alejandro eLopez-Requena

    2012-11-01

    Full Text Available Idiotype (Id-based immunotherapy has been exploited as cancer treatment option. Conceived as therapy for malignancies bearing idiotypic antigens, it has been also extended to solid tumours because of the capacity of anti-idiotypic antibodies to mimick Id-unrelated antigens. In both these two settings, efforts are being made to overcome the poor immune responsiveness often experienced when using self immunoglobulins as immunogens. Despite bearing a unique gene combination, and thus particular epitopes, it is normally difficult to stimulate the immune response against antibody variable regions. Different strategies are currently used to strengthen Id immunogenicity, such as concomitant use of immune-stimulating molecules, design of Id-containing immunogenic recombinant proteins, specific targeting of relevant immune cells and genetic immunization. This review focuses on the role of anti-Id vaccination in cancer management and on the current developments used to foster anti-idiotypic B- and T-cell responses.

  7. Description, evaluation and clinical decision making according to various fetal heart rate patterns. Inter-observer and regional variability

    DEFF Research Database (Denmark)

    Lidegaard, O; Bøttcher, L M; Weber, Tom

    1992-01-01

    departments, especially between departments far apart. It is concluded that we still need a scientific clarification of which specific heart rate changes are the best predictors of fetal stress. Artificial intelligence programs for interpreting fetal cardiotocograms and ECG signals constitute one promising......At 10 Danish obstetrical departments, 116 residents (42 senior and 74 junior) participated in a study to assess inter-observer and regional variability in the description and evaluation of and clinical decision regarding 11 fetal heart rate patterns. The 11 traces included normal as well as...... pathological patterns, and normal as well as clinically asphyxiated babies. Five antepartum and six intrapartum patterns were included. A total of 1,276 descriptions and evaluations were obtained. The degree of agreement in description of fetal heart rate changes was high regarding the baseline and the...

  8. Low-frequency lower E-region wind and reflection height measurements as sensor for climate variability

    Directory of Open Access Journals (Sweden)

    C. Jacobi

    2008-07-01

    Full Text Available Measurements of reflection heights of low-frequency (LF radio waves at oblique incidence and estimates of mesosphere/lower thermosphere (MLT region horizontal winds applying the D1 spaced receiver method on LF field strength registrations are analyzed with respect to possible long-term trends and interdecadal variability in the time interval from ~1980 to date. While no clear signal of mesospheric height trend is registered during the last two decades, significant trends of MLT horizontal winds are found. These trends are non-linear, in particular a change of trends around 1990 is found, which is probably connected with changes in tropospheric and stratospheric conditions at that time.

  9. Spatial and temporal soil water variability in the plowing horizon of agriculturally used soils in two regions of Southwest Germany

    Science.gov (United States)

    Poltoradnev, Maxim; Ingwersen, Joachim; Streck, Thilo

    2015-04-01

    Soil water dynamics plays an important role in soil-plant-atmosphere interactions. There is a lack of long-term continuous measurements of topsoil water content at the regional scale. The objective of the present study was to quantify and elucidate the seasonal dynamics of spatial soil water content variability in the plowing horizon (Ap) of agricultural soils at the regional scale. The study was conducted in the central part of the Kraichgau and the Mid Swabian Alb in Southwest Germany. In each region a soil water network embracing 21 stations was set up. All stations were installed on cropped agricultural sites and distributed across three spatial domains: an inner domain 3 km × 3 km (5 stations), a middle 9 km × 9 km (8 stations), and an outer domain 27 km × 27 km (8 stations). Each station consists of a TDT sensor (SI.99 Aquaflex Soil Moisture Sensor, Streat Instruments Ltd, New Zealand), which senses both soil water content and soil temperature, a rain gauge, and a remote transfer unit (RTU, datalogger + GSM modem), which stores and transfers data via GPRS modem to the central data server (Adcon Telemetry GmbH, Austria) located at the University of Hohenheim. The TDT sensors were installed at 0.15 m depth. A sensor consists of a three meter long and three centimeter wide flat transmission line. The relationship between the standard deviation (σθ) of the soil water content (SWC) and mean spatial soil water content () formed combinations of concave and convex hyperbolas. However, it strongly depended on SWC state and season. Generally, σθ was found to be changing along a convex trend during dry out and rewetting phases with a maximum in the intermediate SWC range. At the rain event scale, σθ() was either ascending or converging with decreasing . A concave shape was observed when approached to dry state. The majority of σθ() hysteresis loops were observed in intermediate and intermediate/wet state of SWC. All hysteretic loops were clockwise oriented

  10. [Spatial variability of surface soil moisture content in depression area of karst region under moist and arid conditions].

    Science.gov (United States)

    Zhang, Jiguang; Chen, Hongsong; Su, Yirong; Wu, Jinshui; Zhang, Wei

    2006-12-01

    By the methods of geostatistics, this paper studied the spatial structure and distribution pattern of surface soil (0 - 5 and 5 - 10 cm) moisture content in the depression area of karst region in northwest Guangxi under moist and arid conditions in the forepart of dry season. The results showed that in test area, surface soil moisture content had obvious spatial heterogeneity and anisotropy, presenting a significantly different plaque distribution pattern. Under moist condition, surface soil moisture content had a medium or stronger spatial relativity, with a range of about 33.15 and 15.75 m, respectively, and an obvious trend effect in 0 - 5 cm soil layer. Under arid condition, the spatial relativity was strong, and the spatial scale of resembling plaque had somewhat decrease, with the smallest range being 8.22 m. The moisture content under arid condition had a higher spatial variability, and thus, the sampling strategy should be based on the mean soil moisture content. The significant difference in the spatial variability and distribution pattern of surface soil moisture in test area was mainly due to the effects of physiognomy, soil mean moisture (precipitation), and topography. PMID:17330464

  11. Crystallization and preliminary crystallographic studies of the single-chain variable fragment of antibody chA21 in complex with an N-terminal fragment of ErbB2

    International Nuclear Information System (INIS)

    An antibody–antigen complex consisting of a single-chain variable fragment of the potential therapeutic antibody chA21 and an N-terminal fragment (residues 1–192) of the human ErbB2 extracellular domain was expressed, purified and crystallized. X-ray diffraction data were collected to 2.45 Å resolution. ErbB2 is a transmembrane tyrosine kinase, the overexpression of which causes abnormality and disorder in cell signalling and leads to cell transformation. Previously, an anti-ErbB2 single-chain chimeric antibody chA21 that specifically inhibits the growth of ErbB2-overexpressing cancer cells in vitro and in vivo was developed. Here, an antibody–antigen complex consisting of the single-chain variable fragment (scFv) of chA21 and an N-terminal fragment (residues 1–192, named EP I) of the ErbB2 extracellular domain was crystallized using the sitting-drop vapour-diffusion method. An X-ray diffraction data set was collected to 2.45 Å resolution from a single flash-cooled crystal; the crystal belonged to space group P212121

  12. Interannual variability of regional evapotranspiration under precipitation extremes: A case study of the Youngsan River basin in Korea

    Science.gov (United States)

    Song, Youngkeun; Ryu, Youngryel; Jeon, Soohyun

    2014-11-01

    Understanding basin-scale evapotranspiration (ET) is an important issue for the management of regional water resources, especially with the recent trend of intensified precipitation (P). This study assessed the spatial and temporal variations of regional ET in response to P extremes, for various types of land-cover across the Youngsan River basin in Korea. The spatial distribution of monthly P and ET from 2001 to 2009 were estimated using rainfall records from 40 weather stations located across the basin and a satellite-derived, process-based ET model Breathing Earth System Simulator (BESS) (Ryu et al., 2011), respectively. The study periods were focused on the recent years with abnormally large, small and normal P, which were identified from anomalies in the z-sores of long-term (1973-2011) rainfall records. The variation of regional ET was assessed in terms of: (1) the controlling factors, using the statistics of related meteorological and geographical data, (2) a water-energy balance, using Budyko's framework, and (3) the water balance of four selected watersheds in the region, using the partitioning of annual P into ET and riverflow discharge (Q). The total annual ET of this region decreased in abnormally large-P year and increased in small-P year, because the ET in July to August (which accounts for more than 36% of annual ET) was limited by the available energy rather than available water due to the summer monsoon. In terms of land cover types, forests showed larger interannual variability in ET than paddy fields or cropland, with the differences in ET between large and small-P years being 108 and 82 mm yr-1, respectively. The sensitivity of annual ET to P extremes was significantly related to the leaf area index (LAI), rather than soil properties, topography, or specific land-cover type (p < 0.05, generalized linear model). However, the interannual variations of ET were not large (15-18%) compared to those of annual P (51-62%) and Q (108-232%) during 2002

  13. Regional Variability of the 20th century sea level rise from Ocean-Atmosphere Coupled Climate Models

    Science.gov (United States)

    Chevrier, Robin; Meyssignac, Benoit; Bourgeois, Elsa; Marzeion, Ben; Cazenave, Anny

    2014-05-01

    Regional Variability of the 20th century sea level rise from Ocean-Atmosphere Coupled Climate Models. R.Chevrier, B. Meyssignac, E. Bourgeois, B. Marzeion and A.Cazenave Over the 20th century, tide gauge records indicate a rise in global mean sea level of 1.7 mm.y-1 (Church and White 2011). This rise is essentially due to the warming of the ocean (which made the ocean water expand and sea level rise by ˜0.6 mm.yr-1) and the melt of mountain glaciers (which added more water to the ocean and made sea level rise by ˜,0.6 mm.yr-1 Gregory et al. 2013). Land water changes and Greenland surface mass balance changes also played a role but of lesser importance ( ˜0.1 mm.yr-1 for the land water storage and ˜0.2 mm.yr-1 for the Greenland mass balance since 1900, Gregory et al. 2013). Each of these different contributors to the 20th century global mean sea level rise had also an impact on the regional sea level changes. This regional signal, which must be added to the global sea level rise to compute the total sea level signal, is essential when we want to assess the impacts of the 20th century sea level rise on coastal areas and low lying islands. In this study we aim to estimate this 20th century regional sea level changes. We use historical runs of the CMIP5 (Coupled Model Intercomparison Project Phase 5) coupled climate models, which cover the period 1850-2006, to estimate the different contributors to the regional sea level changes since 1900. The ocean warming contribution is directly computed from the Temperature and Salinity outputs of the CMIP5 models while the mountain glaciers and the Greenland contributions are computed from offline models using the surface temperature output of CMIP5 models. Concerning the landwater storage contribution, it is actually mainly of anthropogenic origin over the 20th century (Ngoduc et al. 2005, Meyssignac et Cazenave 2012) so it is not modeled in CMIP5 models. Consequently, we use here estimates of the landwater storage

  14. MSU/FSG Study of the Impact of WFP Local and Regional Food Aid Procurement on Markets, Households, and Food Value Chains

    OpenAIRE

    Tschirley, David; Myers, Robert; Zavale, Helder

    2014-01-01

    This study examines the impact of the World Food Program’s (WFP) Local and Regional Procurement of food aid (LRP) on households and markets. It focuses on four countries and commodities where WFP LRP has had a meaningful share of the market: maize in Uganda and Mozambique, beans in Ethiopia, and High Energy Protein Supplements (HEPS) in Ethiopia and Malawi. The study investigates three specific impacts of LRP: (1) its effect on the level and variability of local market prices, (2) the impacts...

  15. Spatial variability of the response to climate change in regional groundwater systems -- examples from simulations in the Deschutes Basin, Oregon

    Science.gov (United States)

    Waibel, Michael S.; Gannett, Marshall W.; Chang, Heejun; Hulbe, Christina L.

    2013-01-01

    We examine the spatial variability of the response of aquifer systems to climate change in and adjacent to the Cascade Range volcanic arc in the Deschutes Basin, Oregon using downscaled global climate model projections to drive surface hydrologic process and groundwater flow models. Projected warming over the 21st century is anticipated to shift the phase of precipitation toward more rain and less snow in mountainous areas in the Pacific Northwest, resulting in smaller winter snowpack and in a shift in the timing of runoff to earlier in the year. This will be accompanied by spatially variable changes in the timing of groundwater recharge. Analysis of historic climate and hydrologic data and modeling studies show that groundwater plays a key role in determining the response of stream systems to climate change. The spatial variability in the response of groundwater systems to climate change, particularly with regard to flow-system scale, however, has generally not been addressed in the literature. Here we simulate the hydrologic response to projected future climate to show that the response of groundwater systems can vary depending on the location and spatial scale of the flow systems and their aquifer characteristics. Mean annual recharge averaged over the basin does not change significantly between the 1980s and 2080s climate periods given the ensemble of global climate models and emission scenarios evaluated. There are, however, changes in the seasonality of groundwater recharge within the basin. Simulation results show that short-flow-path groundwater systems, such as those providing baseflow to many headwater streams, will likely have substantial changes in the timing of discharge in response changes in seasonality of recharge. Regional-scale aquifer systems with flow paths on the order of many tens of kilometers, in contrast, are much less affected by changes in seasonality of recharge. Flow systems at all spatial scales, however, are likely to reflect

  16. Engineering a disulfide bond in the lid hinge region of Rhizopus chinensis lipase: increased thermostability and altered acyl chain length specificity.

    Directory of Open Access Journals (Sweden)

    Xiao-Wei Yu

    Full Text Available The key to enzyme function is the maintenance of an appropriate balance between molecular stability and structural flexibility. The lid domain which is very important for "interfacial activation" is the most flexible part in the lipase structure. In this work, rational design was applied to explore the relationship between lid rigidity and lipase activity by introducing a disulfide bond in the hinge region of the lid, in the hope of improving the thermostability of R. chinensis lipase through stabilization of the lid domain without interfering with its catalytic performance. A disulfide bridge between F95C and F214C was introduced into the lipase from R. chinensis in the hinge region of the lid according to the prediction of the "Disulfide by Design" algorithm. The disulfide variant showed substantially improved thermostability with an eleven-fold increase in the t(1/2 value at 60°C and a 7°C increase of T(m compared with the parent enzyme, probably contributed by the stabilization of the geometric structure of the lid region. The additional disulfide bond did not interfere with the catalytic rate (k(cat and the catalytic efficiency towards the short-chain fatty acid substrate, however, the catalytic efficiency of the disulfide variant towards pNPP decreased by 1.5-fold probably due to the block of the hydrophobic substrate channel by the disulfide bond. Furthermore, in the synthesis of fatty acid methyl esters, the maximum conversion rate by RCLCYS reached 95% which was 9% higher than that by RCL. This is the first report on improving the thermostability of the lipase from R. chinensis by introduction of a disulfide bond in the lid hinge region without compromising the catalytic rate.

  17. Seasonal changes of spatial variation of some groundwater quality variables in a large irrigated coastal Mediterranean region of Turkey.

    Science.gov (United States)

    Kurunc, Ahmet; Ersahin, Sabit; Sonmez, Namik K; Kaman, Harun; Uz, Ilker; Uz, Buket Y; Aslan, Gulcin E

    2016-06-01

    Soil and groundwater degradations have taken considerable attention, recently. We studied spatial and temporal variations of groundwater table depth and contours, and groundwater pH, electrical conductivity (EC), and nitrate (NO3) content in a large irrigated area in Western Mediterranean region of Turkey. These variables were monitored during 2009 and 2010 in previously constructed 220 monitoring wells. We analyzed the data by geostatistical techniques and GIS. Spatial variation of groundwater table depth (GTD) and groundwater table contours (GTC) remained similar across the four sampling campaigns. The values for groundwater NO3 content, EC, and pH values ranged from 0.01 to 454.1gL(-1), 0.06 to 46.0dSm(-1) and 6.53-9.91, respectively. Greatest geostatistical range (16,964m) occurred for GTC and minimum (960m) for groundwater EC. Groundwater NO3 concentrations varied both spatially and temporally. Temporal changes in spatial pattern of NO3 indicated that land use and farming practices influenced spatial and temporal variation of groundwater NO3. Several hot spots occurred for groundwater NO3 content and EC. These localities should be monitored more frequently and land management practices should be adjusted to avoid soil and groundwater degradation. The results may have important implications for areas with similar soil, land use, and climate conditions across the Mediterranean region. PMID:26950619

  18. Global and Regional Variability and Change in Terrestrial Ecosystems Net Primary Production and NDVI: A Model-Data Comparison

    Energy Technology Data Exchange (ETDEWEB)

    Rafique, Rashid; Zhao, Fang; de Jong, Rogier; Zeng, Ning; Asrar, Ghassem R.

    2016-02-25

    The net primary productivity (NPP) is commonly used for understanding the dynamics of terrestrial ecosystems and their role in carbon cycle. We used a combination of the most recent NDVI and model–based NPP estimates (from five models of the TRENDY project) for the period 1982-2012, to study the role of terrestrial ecosystems in carbon cycle under the prevailing climate conditions. We found that 80% and 67% of the global land area showed positive NPP and NDVI values, respectively, for this period. The global NPP was estimated to be about 63 Pg C y-1, with an increase of 0.214 Pg C y-1 y-1. Similarly, the global mean NDVI was estimated to be 0.33, with an increasing trend of 0.00041 y-1. The spatial patterns of NPP and NDVI demonstrated substantial variability, especially at the regional level, for most part of the globe. However, on temporal scale, both global NPP and NDVI showed a corresponding pattern of increase (decrease) for the duration of this study except for few years (e.g. 1990 and 1995-98). Generally, the Northern Hemisphere showed stronger NDVI and NPP increasing trends over time compared to the Southern Hemisphere; however, NDVI showed larger trends in Temperate regions while NPP showed larger trends in Boreal regions. Among the five models, the maximum and minimum NPP were produced by JULES (72.4 Pg C y-1) and LPJ (53.72 Pg C y-1) models, respectively. At latitudinal level, the NDVI and NPP ranges were ~0.035 y-1 to ~-0.016 y-1 and ~0.10 Pg C y-1 y-1 to ~-0.047 Pg C y-1 y-1, respectively. Overall, the results of this study suggest that the modeled NPP generally correspond to the NDVI trends in the temporal dimension. The significant variability in spatial patterns of NPP and NDVI trends points to a need for research to understand the causes of these discrepancies between molded and observed ecosystem dynamics, and the carbon cycle.

  19. Variability of atmospheric greenhouse gases as a biogeochemical processing signal at regional scale in a karstic ecosystem

    Science.gov (United States)

    Borràs, Sílvia; Vazquez, Eusebi; Morguí, Josep-Anton; Àgueda, Alba; Batet, Oscar; Cañas, Lídia; Curcoll, Roger; Grossi, Claudia; Nofuentes, Manel; Occhipinti, Paola; Rodó, Xavier

    2015-04-01

    The South-eastern area of the Iberian Peninsula is an area where climatic conditions reach extreme climatic conditions during the year, and is also heavily affected by the ENSO and NAO. The Natural Park of Cazorla, Segura de la Sierra and Las Villas is located in this region, and it is the largest protected natural area in Spain (209920 Ha). This area is characterized by important climatic and hydrologic contrasts: although the mean annual precipitation is 770 nm, the karstic soils are the main cause for water scarcity during the summer months, while on the other hand it is in this area where the two main rivers of Southern Spain, the Segura and the Guadalquivir, are born. The protected area comprises many forested landscapes, karstic areas and reservoirs like Tranco de Beas. The temperatures during summer are high, with over 40°C heatwaves occurring each year. But during the winter months, the land surface can be covered by snow for periods of time up until 30 days. The ENSO and NAO influences cause also an important inter annual climatic variability in this area. Under the ENSO, autumnal periods are more humid while the following spring is drier. In this area vegetal Mediterranean communities are dominant. But there are also a high number of endemic species and derelict species typical of temperate climate. Therefore it is a protected area with high specific diversity. Additionally, there is an important agricultural activity in the fringe areas of the Natural Park, mainly for olive production, while inside the Park this activity is focused on mountain wheat production. Therefore the diverse vegetal communities and landscapes can easily be under extreme climatic pressures, affecting in turn the biogeochemical processes at the regional scale. The constant, high-frequency monitoring of greenhouse gases (GHG) (CO2 and CH4) integrates the biogeochemical signal of changes in this area related to the carbon cycle at the regional scale, capturing the high diversity of

  20. Functional interpretation of representative soil spatial-temporal variability at the Central region of European territory of Russia

    Science.gov (United States)

    Vasenev, I.

    2012-04-01

    The essential spatial and temporal variability is mutual feature for most natural and man-changed soils at the Central region of European territory of Russia. The original spatial heterogeneity of forest and forest-steppe soils has been further complicated by a specific land-use history and different-direction soil successions due to environmental changes and human impacts. For demand-driven land-use planning and decision making the quantitative analysis, modeling and functional-ecological interpretation of representative soil cover patterns spatial variability is an important and challenging task that receives increasing attention from scientific society, private companies, governmental and environmental bodies. On basis of long-term different-scale soil mapping, key plot investigation, land quality and land-use evaluation, soil forming and degradation processes modeling, functional-ecological typology of the zonal set of elementary soil cover patterns (ESCP) has been done in representative natural and man transformed ecosystems of the forest, forest-steppe and steppe zones at the Central region of European territory of Russia (ETR). The validation and ranging of the limiting factors of functional quality and ecological state have been made for dominating and most dynamical components of ESCP regional-typological forms - with application of local GIS, traditional regression kriging and correlation tree models. Development, zonal-regional differentiation and verification of the basic set of criteria and algorithms for logically formalized distinguishing of the most "stable" & "hot" areas in soil cover patterns make it possible for quantitative assessment of dominating in them elementary landscape, soil-forming and degradation processes. The received data essentially expand known ranges of the soil forming processes (SFP) rate «in situ». In case of mature forests mutual for them the windthrow impacts and lateral processes make SFPs more active and complex both in

  1. Refining regional SOC estimates: Accounting for erosion induced within field variability of the vertical distribution of SOC.

    Science.gov (United States)

    Meersmans, Jeroen; Quine, Tim

    2013-04-01

    Recently, soil organic carbon (SOC) is considered as a dynamic soil property largely influencing soil quality and global C-cycling. Consequently, accurate mapping of SOC at the regional or national scale becomes an important issue in order to help policymakers in developing an appropriate soil and climate change management strategy. So far, in these studies, only factors determining the spatial and temporal distribution of SOC at the landscape scale, such as soil type, land use (change), climate and agro-management, were considered. Despite the fact that a few recent studies incorporated as well the distribution of SOC with depth, resulting in an improved representation of the 3D distribution of SOC, most studies only considers topsoil and/or are characterized by simple sampling by site at rather coarse resolution. Consequently, they omit quantification of stable subsoil carbon buried in depositional areas and does not allow to clearly identify significant differences of SOC and erosion at the within field scale. Hence, the variability of SOC at smaller scales in complex terrain driven by lateral soil transport processes (such as soil erosion), is still rather understudied and is not (well) presented in existing regional SOC estimates. Nevertheless, incorporating this smaller level of spatial detail will most probably have a major influence on SOC mapping and regional SOC stock dynamics' calculations. Consequently, there exists an urgent need in conducting an appropriate soil sampling strategy considering deeper layers and enabling us to detect significant patterns at detailed spatial levels. In this study we aim to unravel the variation of SOC depth distributions along typical hillslope transects under cropland (Devon, UK) and link these to soil redistribution rates and variations in C input, i.e. below and above ground biomass productivity. The radionuclide isotope Caesium-137 (137Cs) was used as proxy for erosion. Furthermore, a soil sampling strategy was

  2. Rapid diagnosis and genotyping of Leishmania isolates from cutaneous and visceral leishmaniasis by microcapillary cultivation and polymerase chain reaction-restriction fragment length polymorphism of miniexon region.

    Science.gov (United States)

    Serin, Mehmet S; Daglioglu, Kenan; Bagirova, Melahat; Allahverdiyev, Adil; Uzun, Soner; Vural, Zeynep; Kayar, Begum; Tezcan, Seda; Yetkin, Mesut; Aslan, Gonul; Emekdas, Gurol; Koksal, Fatih

    2005-11-01

    We have performed a combination of microcapillary cultivation method and restriction fragment length polymorphism (RFLP) analysis of amplified products by 1 single PCR of miniexon region of Leishmania for molecular diagnosis and genotyping of different Leishmania species isolated from cutaneous leishmaniasis (CL) and visceral leishmaniasis. We have analyzed 10 microcapillary cultivated isolates from cutaneous cases and 5 microcapillary cultivated isolates from visceral cases (totally 15) by polymerase chain reaction-RFLP (PCR-RFLP). Of 10 isolates, 3 (30%) were genotyped as Leishmania infantum and 7 (70%) of 10 isolates were genotyped as Leishmania tropica from the microcapillary cultivated isolates of cutaneous cases. On the other hand, all 5 isolates (100%) were genotyped as L. infantum from microcapillary cultivated visceral cases. Our most interesting finding is the presence of 3 L. infantum isolates in CL cases without kala-azar history. Therefore, we suggest that further investigations must be done about this subject. On the other hand, we suggest the combination of microcapillary culture method and PCR-RFLP of miniexon region of leishmaniae can be used in routine laboratory experimentation because of their simple, cheap, and rapid benefits (within a week), whereas other different approaches offer a multitude of valid taxonomic characters for species identification. PMID:16249065

  3. Different regions of the immunoglobulin heavy-chain locus are involved in chromosomal translocations in distinct pathogenic forms of Burkitt lymphoma

    Energy Technology Data Exchange (ETDEWEB)

    Neri, A.; Barriga, F.; Knowles, D.M.; Magrath, I.T.; Dalla-Favera, R.

    1988-04-01

    The authors show that endemic (eBL), sporadic (sBL), and acquired immunodeficiency syndrome-associated (AIDS-BL) forms of Burkitt lymphoma (BL) carrying t(8; 14) chromosomal translocations display different breakpoints within the immunoglobulin heavy-chain locus (IGH) on chromosome 14. In sBL (7 out of 11) and AIDS-BL (5 out of 6), the breakpoints occurred within or near the IGH ..mu.. switch (S/sub mu/) region on chromosome 14 and within the c-myc locus (MYC) on chromosome 8. In most eBL (13 out of 16) the breakpoints were mapped within or 5' to the IGH joining J/sub H/ region on chromosome 14 and outside the MYC locus on chromosome 8. Cloning and sequencing of the (8; 14) chromosomal junctions from two eBL cell lines and one eBL biopsy sample show that the recombination do not involve IGH-specific recombination signals on chromosome 14 or homologous sequences on chromosome 8, suggesting that these events are not likely to be mediated by the same mechanisms or enzymes as in IGH rearrangements. In general, these data have implications for the timing of occurrence of chromosomal translocations during B-cell differentiation in different BL types.

  4. Spatial variability of organochlorine pesticides (DDTs and HCHs) in surface soils from the alluvial region of Beijing, China

    Institute of Scientific and Technical Information of China (English)

    ZHANG Hong-yan; GAO Ru-tai; HUANG Yuan-fang; JIA Xiao-hong; JIANG Shu-ren

    2007-01-01

    The spatial variability in the concentrations of 1,2,3,4,5,6-hexachlorocyclohexane (HCH) and 1,1,1-trichloro-2,2-bis-(p-chlorophenyl) ethane (DDT) in surface soils was studied on the basis of the analysis of 131 soil samples collected from the surface layer (0-20 cm depth) of the alluvial region of Beijing, China. The concentrations of total HCHs (including α-, β-, γ-, and δ-isomers) and total DDTs (i ncluding p,p'-DDT, p,p'-DDD, p,p'-DDE, and o,p'-DDT) in the surface soils tested were in the range from nondetectable to 31.72 μg/kg dry soil, with a mean value of 0.91, and from nondetectable to 5910.83 μg/kg dry soil, with a mean value of 32.13,respectively. It was observed that concentrations of HCHs in all soil samples and concentrations of DDTs in 112 soil samples were much lower than the first grade (50 μg/kg) permitted in "Environment quality standard for soils in China (GB15618-1995)". This suggests that the pollution due to organochlorine pesticides was generally not significant in the farmland soils in the Beijing alluvial region. In this study, the spatial distribution and trend of HCHs and DDTs were analyzed using Geostatistical Analyst and GS+(513).Spatial distribution indicated how these pesticides had been applied in the past. Trend analysis showed that the concentrations of HCHs,DDTs, and their related metabolites followed an obvious distribution trend in the surface soils from the alluvial region of Beijing.

  5. Combined Effect of El Nino Southern Oscillation and Atlantic Multidecadal Oscillation on Lake Chad Level Variability Region

    Science.gov (United States)

    Okonkwo, Churchill; Demoz, Belay; Sakai, Ricardo; Ichoku, Charles; Anarado, Chigozie; Adegoke, Jimmy; Amadou, Angelina; Abdullahi, Sanusu Imran

    2015-01-01

    In this study, the combined effect of the Atlantic Multidecadal Oscillation (AMO) and El Niño Southern Oscillation (ENSO) on the Lake Chad (LC) level variability is explored. Our results show that the lake level at the Bol monitoring station has a statistically significant correlation with precipitation (R2 = 0.6, at the 99.5% confidence level). The period between the late 1960s and early 1970s marked a turning point in the response of the regional rainfall to climatic drivers, thereby severely affecting the LC level. Our results also suggest that the negative impact of the cold phase of AMO on Sahel precipitation masks and supersedes the positive effect of La Niña in the early the 1970s. The drop in the size of LC level from 282.5 m in the early 1960s to about 278.1 m in 1983/1984 was the largest to occur within the period of study (1900-2010) and coincides with the combined cold phase of AMO and strong El Niño phase of ENSO. Further analyses show that the current warm phase of AMO and increasing La Niña episodes appear to be playing a major role in the increased precipitation in the Sahel region. The LC level is responding to this increase in precipitation by a gradual recovery, though it is still below the levels of the 1960s. This understanding of the AMO-ENSO-rainfall-LC level association will help in forecasting the impacts of similar combined episodes in the future. These findings also have implications for long-term water resources management in the LC region.

  6. Accounting for inter-annual and seasonal variability in regionalization of hydrologic response in the Great Lakes basin

    Science.gov (United States)

    Kult, J. M.; Fry, L. M.; Gronewold, A. D.

    2012-12-01

    Methods for predicting streamflow in areas with limited or nonexistent measures of hydrologic response typically invoke the concept of regionalization, whereby knowledge pertaining to gauged catchments is transferred to ungauged catchments. In this study, we identify watershed physical characteristics acting as primary drivers of hydrologic response throughout the US portion of the Great Lakes basin. Relationships between watershed physical characteristics and hydrologic response are generated from 166 catchments spanning a variety of climate, soil, land cover, and land form regimes through regression tree analysis, leading to a grouping of watersheds exhibiting similar hydrologic response characteristics. These groupings are then used to predict response in ungauged watersheds in an uncertainty framework. Results from this method are assessed alongside one historical regionalization approach which, while simple, has served as a cornerstone of Great Lakes regional hydrologic research for several decades. Our approach expands upon previous research by considering multiple temporal characterizations of hydrologic response. Due to the substantial inter-annual and seasonal variability in hydrologic response observed over the Great Lakes basin, results from the regression tree analysis differ considerably depending on the level of temporal aggregation used to define the response. Specifically, higher levels of temporal aggregation for the response metric (for example, indices derived from long-term means of climate and streamflow observations) lead to improved watershed groupings with lower within-group variance. However, this perceived improvement in model skill occurs at the cost of understated uncertainty when applying the regression to time series simulations or as a basis for model calibration. In such cases, our results indicate that predictions based on long-term characterizations of hydrologic response can produce misleading conclusions when applied at shorter

  7. Modeling actual evapotranspiration with routine meteorological variables in the data-scarce region of the Tibetan Plateau: Comparisons and implications

    Science.gov (United States)

    Ma, Ning; Zhang, Yinsheng; Xu, Chong-Yu; Szilagyi, Jozsef

    2015-08-01

    Quantitative estimation of actual evapotranspiration (ETa) by in situ measurements and mathematical modeling is a fundamental task for physical understanding of ETa as well as the feedback mechanisms between land and the ambient atmosphere. However, the ETa information in the Tibetan Plateau (TP) has been greatly impeded by the extremely sparse ground observation network in the region. Approaches for estimating ETa solely from routine meteorological variables are therefore important for investigating spatiotemporal variations of ETa in the data-scarce region of the TP. Motivated by this need, the complementary relationship (CR) and Penman-Monteith approaches were evaluated against in situ measurements of ETa on a daily basis in an alpine steppe region of the TP. The former includes the Nonlinear Complementary Relationship (Nonlinear-CR) as well as the Complementary Relationship Areal Evapotranspiration (CRAE) models, while the latter involves the Katerji-Perrier and the Todorovic models. Results indicate that the Nonlinear-CR, CRAE, and Katerji-Perrier models are all capable of efficiently simulating daily ETa, provided their parameter values were appropriately calibrated. The Katerji-Perrier model performed best since its site-specific parameters take the soil water status into account. The Nonlinear-CR model also performed well with the advantage of not requiring the user to choose between a symmetric and asymmetric CR. The CRAE model, even with a relatively low Nash-Sutcliffe efficiency (NSE) value, is also an acceptable approach in this data-scarce region as it does not need information of wind speed and ground surface conditions. In contrast, application of the Todorovic model was found to be inappropriate in the dry regions of the TP due to its significant overestimation of ETa as it neglects the effect of water stress on the bulk surface resistance. Sensitivity analysis of the parameter values demonstrated the relative importance of each parameter in the

  8. Crater chains on Mercury

    Science.gov (United States)

    Shevchenko, V.; Skobeleva, T.

    After discovery of disruption comet Shoemaker-Levy 9 into fragment train before it's collision with Jupiter there was proposed that linear crater chains on the large satellites of Jupiter and on the Moon are impact scars of past tidally disrupted comets.It's known that radar images have revealed the possible presence of water ice deposits in polar regions of Mercury. Impacts by a few large comets seem to provide the best explanation for both the amount and cleanliness of the ice deposits on Mercury because they have a larger volatile content that others external sources, for example, asteroid. A number of crater chains on the surface of Mercury are most likely the impact tracks of "fragment trains" of comets tidally disrupted by Sun or by Mercury and are not secondary craters. Mariner 10 image set (the three Mariner 10 flybys in 1974-1975) was used to recognize the crater chains these did not associate with secondary crater ejecta from observed impact structures. As example, it can be shown such crater chain located near crater Imhotep and crater Ibsen (The Kuiper Quadrangle of Mercury). Resolution of the Mariner 10 image is about 0.54 km/pixel. The crater chain is about 50 km long. It was found a similar crater chain inside large crater Sophocles (The Tolstoj Quadrangle of Mercury). The image resolution is about 1.46 km/pixel. The chain about 50 km long is located in northen part of the crater. Image resolution limits possibility to examine the form of craters strongly. It seems the craters in chains have roughly flat floor and smooth form. Most chain craters are approximately circular. It was examined many images from the Mariner 10 set and there were identified a total 15 crater chains and were unable to link any of these directly to any specific large crater associated with ejecta deposits. Chain craters are remarkably aligned. All distinguished crater chains are superposed on preexisting formations. A total of 127 craters were identified in the 15 recognized

  9. Spatial variability of initial 230Th/ 232Th in modern Porites from the inshore region of the Great Barrier Reef

    Science.gov (United States)

    Clark, Tara R.; Zhao, Jian-xin; Feng, Yue-xing; Done, Terry J.; Jupiter, Stacy; Lough, Janice; Pandolfi, John M.

    2012-02-01

    The main limiting factor in obtaining precise and accurate uranium-series (U-series) ages of corals that lived during the last few hundred years is the ability to constrain and correct for initial thorium-230 ( 230Th 0), which is proportionally much higher in younger samples. This is becoming particularly important in palaeoecological research where accurate chronologies, based on the 230Th chronometer, are required to pinpoint changes in coral community structure and the timing of mortality events in recent time (e.g. since European settlement of northern Australia in the 1850s). In this study, thermal ionisation mass spectrometry (TIMS) U-series dating of 43 samples of known ages collected from living Porites spp. from the far northern, central and southern inshore regions of the Great Barrier Reef (GBR) was performed to spatially constrain initial 230Th/ 232Th ( 230Th/ 232Th 0) variability. In these living Porites corals, the majority of 230Th/ 232Th 0 values fell within error of the conservative bulk Earth 230Th/ 232Th atomic value of 4.3 ± 4.3 × 10 -6 (2 σ) generally assumed for 230Th 0 corrections where the primary source is terrestrially derived. However, the results of this study demonstrate that the accuracy of 230Th ages can be further improved by using locally determined 230Th/ 232Th 0 values for correction, supporting the conclusion made by Shen et al. (2008) for the Western Pacific. Despite samples being taken from regions adjacent to contrasting levels of land modification, no significant differences were found in 230Th/ 232Th 0 between regions exposed to varying levels of sediment during river runoff events. Overall, 39 of the total 43 230Th/ 232Th 0 atomic values measured in samples from inshore reefs across the entire region show a normal distribution ranging from 3.5 ± 1.1 to 8.1 ± 1.1 × 10 -6, with a weighted mean of 5.76 ± 0.34 × 10 -6 (2 σ, MSWD = 8.1). Considering the scatter of the data, the weighted mean value with a more

  10. Variabilidade local e regional da evapotranspiração estimada pelo algoritmo SEBAL Local and regional variability of evapotranspiration estimated by SEBAL algorithm

    Directory of Open Access Journals (Sweden)

    Luis C. J. Moreira

    2010-12-01

    balance. The hourly evapotranspiration values obtained were greater than 0.60 mm h-1 in irrigated or dense native vegetation areas, from 0.35 to 0.60 mm h-1 in sparse vegetation areas and almost null in degradated areas. The analysis of hourly evapotranspiration means by Tukey test at 5% probability level showed not only a significant variability locally but also at a regional scale in the state of Ceará.

  11. Bilinear forms and soliton solutions for a fourth-order variable-coefficient nonlinear Schrödinger equation in an inhomogeneous Heisenberg ferromagnetic spin chain or an alpha helical protein

    Science.gov (United States)

    Yang, Jin-Wei; Gao, Yi-Tian; Wang, Qi-Min; Su, Chuan-Qi; Feng, Yu-Jie; Yu, Xin

    2016-01-01

    In this paper, a fourth-order variable-coefficient nonlinear Schrödinger equation is studied, which might describe a one-dimensional continuum anisotropic Heisenberg ferromagnetic spin chain with the octuple-dipole interaction or an alpha helical protein with higher-order excitations and interactions under continuum approximation. With the aid of auxiliary function, we derive the bilinear forms and corresponding constraints on the variable coefficients. Via the symbolic computation, we obtain the Lax pair, infinitely many conservation laws, one-, two- and three-soliton solutions. We discuss the influence of the variable coefficients on the solitons. With different choices of the variable coefficients, we obtain the parabolic, cubic, and periodic solitons, respectively. We analyse the head-on and overtaking interactions between/among the two and three solitons. Interactions between a bound state and a single soliton are displayed with different choices of variable coefficients. We also derive the quasi-periodic formulae for the three cases of the bound states.

  12. The Variable Regions of Lactobacillus rhamnosus Genomes Reveal the Dynamic Evolution of Metabolic and Host-Adaptation Repertoires.

    Science.gov (United States)

    Ceapa, Corina; Davids, Mark; Ritari, Jarmo; Lambert, Jolanda; Wels, Michiel; Douillard, François P; Smokvina, Tamara; de Vos, Willem M; Knol, Jan; Kleerebezem, Michiel

    2016-01-01

    Lactobacillus rhamnosus is a diverse Gram-positive species with strains isolated from different ecological niches. Here, we report the genome sequence analysis of 40 diverse strains of L. rhamnosus and their genomic comparison, with a focus on the variable genome. Genomic comparison of 40 L. rhamnosus strains discriminated the conserved genes (core genome) and regions of plasticity involving frequent rearrangements and horizontal transfer (variome). The L. rhamnosus core genome encompasses 2,164 genes, out of 4,711 genes in total (the pan-genome). The accessory genome is dominated by genes encoding carbohydrate transport and metabolism, extracellular polysaccharides (EPS) biosynthesis, bacteriocin production, pili production, the cas system, and the associated clustered regularly interspaced short palindromic repeat (CRISPR) loci, and more than 100 transporter functions and mobile genetic elements like phages, plasmid genes, and transposons. A clade distribution based on amino acid differences between core (shared) proteins matched with the clade distribution obtained from the presence-absence of variable genes. The phylogenetic and variome tree overlap indicated that frequent events of gene acquisition and loss dominated the evolutionary segregation of the strains within this species, which is paralleled by evolutionary diversification of core gene functions. The CRISPR-Cas system could have contributed to this evolutionary segregation. Lactobacillus rhamnosus strains contain the genetic and metabolic machinery with strain-specific gene functions required to adapt to a large range of environments. A remarkable congruency of the evolutionary relatedness of the strains' core and variome functions, possibly favoring interspecies genetic exchanges, underlines the importance of gene-acquisition and loss within the L. rhamnosus strain diversification. PMID:27358423

  13. Seasonal variability of the oxygen minimum zone off Peru in a high-resolution regional coupled model

    Science.gov (United States)

    Vergara, Oscar; Dewitte, Boris; Montes, Ivonne; Garçon, Veronique; Ramos, Marcel; Paulmier, Aurélien; Pizarro, Oscar

    2016-08-01

    In addition to being one of the most productive upwelling systems, the oceanic region off Peru is embedded in one of the most extensive oxygen minimum zones (OMZs) of the world ocean. The dynamics of the OMZ off Peru remain uncertain, partly due to the scarcity of data and to the ubiquitous role of mesoscale activity on the circulation and biogeochemistry. Here we use a high-resolution coupled physical/biogeochemical model simulation to investigate the seasonal variability of the OMZ off Peru. The focus is on characterizing the seasonal cycle in dissolved O2 (DO) eddy flux at the OMZ boundaries, including the coastal domain, viewed here as the eastern boundary of the OMZ, considering that the mean DO eddy flux in these zones has a significant contribution to the total DO flux. The results indicate that the seasonal variations of the OMZ can be interpreted as resulting from the seasonal modulation of the mesoscale activity. Along the coast, despite the increased seasonal low DO water upwelling, the DO peaks homogeneously over the water column and within the Peru Undercurrent (PUC) in austral winter, which results from mixing associated with the increase in both the intraseasonal wind variability and baroclinic instability of the PUC. The coastal ocean acts therefore as a source of DO in austral winter for the OMZ core, through eddy-induced offshore transport that is also shown to peak in austral winter. In the open ocean, the OMZ can be divided vertically into two zones: an upper zone above 400 m, where the mean DO eddy flux is larger on average than the mean seasonal DO flux and varies seasonally, and a lower part, where the mean seasonal DO flux exhibits vertical-zonal propagating features that share similar characteristics than those of the energy flux associated with the annual extratropical Rossby waves. At the OMZ meridional boundaries where the mean DO eddy flux is large, the DO eddy flux has also a marked seasonal cycle that peaks in austral winter (spring

  14. Observations of day-to-day variability in precursor signatures to equatorial F-region plasma depletions

    Directory of Open Access Journals (Sweden)

    P. R. Fagundes

    Full Text Available In December 1995, a campaign was carried out to study the day-to-day variability in precursor signatures to large-scale ionospheric F-region plasma irregularities, using optical diagnostic techniques, near the magnetic equator in the Brazilian sector. Three instruments were operated simultaneously: (a an all-sky (180° field of view imaging system for observing the OI 630 nm nightglow emission at Alcântara (2.5°S, 44.4°W; (b a digisonde (256-Lowell at São Luis (2.6°S, 44.2°W; and (c a multi-channel tilting filter-type zenith photometer for observing the OI 630 nm and mesospheric nightglow emissions at Fortaleza (3.9°S, 38.4°W. During the period December 14-18, 1995 (summer in the southern hemisphere, a good sequence of the OI 630 nm imaging observations on five consecutive nights were obtained, which are presented and discussed in this study. The observing period was geomagnetically quiet to moderate 
    (Kp = 0+ to 5+; Dst = 18 nT to -37 nT. On four nights, out of the five observation nights, the OI 630 nm imaging pictures showed formations of transequatorial north-south aligned intensity depletions, which are the optical signatures of large-scale ionospheric F-region plasma bubbles. However, considerable day-to-day variability in the onset and development of the plasma depleted bands was observed. On one of the nights it appears that the rapid uplifting of the F-layer in the post-sunset period, in conjunction with gravity wave activity at mesospheric heights, resulted in generation of very strong plasma bubble irregularities. One of the nights showed an unusual formation of north-south depleted band in the western sector of the imaging system field of view, but the structure did not show any eastward movement, which is a normal characteristic of plasma bubbles. This type of irregularity structure, which probably can be observed only by wide-angle imaging system, needs more investigations for a better understanding of

  15. Potential impacts of a future Grand Solar Minimum on decadal regional climate change and interannual hemispherical climate variability

    Science.gov (United States)

    Spiegl, Tobias; Langematz, Ulrike

    2016-04-01

    The political, technical and socio-economic developments of the next decades will determine the magnitude of 21st century climate change, since they are inextricably linked to future anthropogenic greenhouse gas emissions. To assess the range of uncertainty that is related to these developments, it is common to assume different emission scenarios for 21st climate projections. While the uncertainties associated with the anthropogenic greenhouse gas forcing have been studied intensely, the contribution of natural climate drivers (particularly solar variability) to recent and future climate change are subject of intense debate. The past 1,000 years featured at least 5 excursions (lasting 60-100 years) of exceptionally low solar activity, induced by a weak magnetic field of the Sun, so called Grand Solar Minima. While the global temperature response to such a decrease in solar activity is assumed to be rather small, nonlinear mechanisms in the climate system might amplify the regional temperature signal. This hypothesis is supported by the last Grand Solar Minimum (the Maunder Minimum, 1645-1715) which coincides with the Little Ice Age, an epoch which is characterized by severe cold and hardship over Europe, North America and Asia. The long-lasting minimum of Solar Cycle 23 as well as the overall weak maximum of Cycle 24 reveal the possibility for a return to Grand Solar Minimum conditions within the next decades. The quantification of the implications of such a projected decrease in solar forcing is of ultimate importance, given the on-going public discussion of the role of carbon dioxide emissions for global warming, and the possible role a cooling due to decreasing solar activity could be ascribed to. Since there is still no clear consensus about the actual strength of the Maunder Minimum, we used 3 acknowledged solar reconstruction datasets that show significant differences in both, total solar irradiance (TSI) and spectral irradiance (SSI) to simulate a future

  16. Variability of 500-mb geopotential heights in a general circulation model and the projection of regional greenhouse effect climate change

    International Nuclear Information System (INIS)

    Many researchers have utilized general circulation models (GCMs) in establishing climate change scenarios for specific regions or locations, despite the mismatch of spatial scales involved. A major underlying assumption involved in utilizing model output in this manner is that the GCM contains mid-tropospheric dynamics that are internally consistent with those of the real climate system. The main purpose of this study is examine the forms and processes of mid-tropospheric variability in the Goddard Institute for Space Studies (GISS) GCM, with the hope of shedding light on this model-analog strategy. The response of mean 500 mb and surface air temperature fields in the GISS GCM to a doubling of CO2 indicates a substantial relationship between the two. Unfortunately, the GISS GCM demonstrates systematic flaws in its simulation of mid-tropospheric dynamics. These are revealed in an examination of high-frequency and low-frequency 500-mb teleconnections in the model. The shapes and amplitudes of known teleconnection patterns are not well simulated. This is likely due to the weak stationary wave structure found in the control run of the model. More importantly, several model teleconnections appear to coincide geographically with the patterns of mean climate change. This may indicate a direct relationship between the modeled mid-tropospheric dynamics and the spatial patterns of mean climate change. This finding has two important implications. First, it is necessary to further study the influence of GCM mid-tropospheric dynamics on the spatial distribution of climate changes being modeled. Second, and more fundamentally, spatially specific climate system feedbacks may be substantially affected by variations in teleconnection strength and frequency, potentially impacting the global climate far beyond the regional scale

  17. 3-D VARIABLE PARAMETER NUMERICAL MODEL FOR EVALUATION OF THE PLANNED EXPLOITABLE GROUNDWATER RESOURCE IN REGIONAL UNCONSOLIDATED SEDIMENTS

    Institute of Scientific and Technical Information of China (English)

    LUO Zu-jiang; WANG Yan

    2012-01-01

    In order to correctly evaluate the exploitable groundwater resource in regional complex,thick Quaternary unconsolidated sediments,the whole Quaternary unconsolidated sediments are considered as a unified hydrogeological unit and a 3-D unsteady groundwater flow numerical model is adopted.Meanwhile,with the consideration of the dynamic changes of the porosity,the hydraulic conductivity and the specific storage with the groundwater level dropping during the exploitation process,an improved composite element seepage matrix adjustment method is applied to solve the unsteady flow problem of free surface.In order to evaluate the exploitable groundwater resource in Cangzhou,Hebei Province,the hydrogeological conceptual model of Cangzhou is generalized to establish,a 3-D variable parameter numerical model of Cangzhou.Based on the prediction of the present groundwater exploitation,and by adjusting the groundwater exploitation layout,the exploitable groundwater resource is predicted.The model enjoys features like good convergence,good stability and high precision.

  18. Determination of Variability Between Grain Yield and Yield Components of Durum Wheat Varieties (Triticum durum Desf. in Thrace Region

    Directory of Open Access Journals (Sweden)

    T. Kahraman

    2008-05-01

    Full Text Available Variability of grain yield and some yield components of 17 durum wheat varieties with native and exotic originated was investigated. This research was performed under rainfed conditions in three different environments (Tekirdağ, Lüleburgaz and Edirne during two growing years (2001-2002 and 2002-2003. Significant differences among cultivars, locations and production years were determined. The highest variations among characters were found in grain weight/spike, grains/spike, spike length and grain yield. In the first experimental year, there was a high positive significant correlation between grain yield and grain weight/spike, test weight and 1000 grain weight. In the second experimental year, grain yield showed positive and significant correlations with 1000 grain weight, test weight and stem length. The biggest differences among investigated cultivar of durum wheat were found in stem length, grains/spike and 1000 grain weight. Grain yield of examined cultivars depended mainly on 1000 grain weight, test weight, grain weight/spike and agroecological conditions during the growing period. However, location, production year and genotypes were the most important determinant of potential yield of cultivars. Ç 1252, Fuatbey 2000, Epidur, Kızıltan95, Aydın 93 and Altın 97 were found more suitable cultivars that the others for durum wheat production in Thrace Region.

  19. Agricultural production and groundwater depletion under climate variability in India - Results from a regional scale crop modeling approach

    Science.gov (United States)

    Siegfried, T. U.; Sobolowski, S.; Fishman, R.; Vasquez, V.; Raj, P.; Narula, K. K.; Modi, V.; Lall, U.

    2009-12-01

    In India, recent declines in national food security may point to systemic deficiencies of agricultural production. Over the past decade and in the face of declining public investments in irrigation projects, the growth of production has increasingly become reliant on the allocation of large volumes of groundwater in an unsustainable manner. As a result, shallow as well as deep fossil groundwater resources are increasingly depleted and the buffer that mitigates negative impacts on production in case of Monsoonal dry-spells / drought conditions is lost. In the face of future climate and food supply uncertainty, it is vital that the connections between climate variability, unsustainable irrigation practices and their impacts on regional scale agricultural production be quantified and better understood. In our analysis, we focus on rice production in the Telengana region in Andhra Pradesh, which is characterized by a semi-arid tropical climate that is driven by the bimodal seasonality of the south-western monsoon. Traditionally, agricultural production of rice was constrained by precipitation variations during the wet season (Kharif). However, the advent of inexpensive pump technology in the 1970's, coupled with governmentally subsidized electricity has allowed year-round rice production. Thus, the Monsoon rains must not only drive wet season production but must also sufficiently recharge groundwater in order to support dry season production. Observed Production time series are characterized by non-stationarity and heteroscedasticity. Using a subset of eight districts, a non-linear Gaussian Process regression model is developed and yearly crop production is modeled at the district level over 48 years. We show that interannual climate variations, in the form of the monsoon rains, play a significant role in determining the area of land set aside for dry season planting and thus affect total yearly production. The results suggest that a non-linear Bayesian regression

  20. Towards integrating the influence of erosion on within field variability of C input, stock and stability in regional SOC estimates

    Science.gov (United States)

    Meersmans, J.; Quine, T. A.

    2013-12-01

    Improved management of the SOC pool has become an important issue for policymakers in order to maintain soil quality and reduce climate change. Hence, there exists an increased interest in accurate mapping of SOC at the regional scale. Most of these studies are limited to topsoil, consider only factors present at the landscape scale (e.g. climate, land use, soil type) and are at rather coarse resolution. Consequently, the variability of SOC at smaller scales in complex terrain driven by soil erosion, such as stable subsoil carbon buried in depositional areas, is still rather understudied and is not (well) presented in these estimates. Nevertheless, incorporating this smaller level of spatial detail will most probably have a major influence on regional SOC stock dynamics' calculations and mapping. In the present study we aim to unravel the variation in quantity and quality of SOC depth distributions along typical hillslope transects under cropland (Devon, UK) and relate these to soil redistribution rates and variations in C input, i.e. below and above ground biomass productivity. The radionuclide isotope Caesium-137 (137Cs) was used as proxy for erosion. The results show contrasting vertical patterns in SOC stock and stability depending on the rate and type of erosion. For example, sites characterized by deposition due to water erosion (i.e. foot slope) have much higher SOC values near the surface, but show a fast decline with depth, while sites characterized by deposition due to tillage erosion (i.e. most concave position) have moderated SOC surface values that stay constant until a depth of 50 cm, but with increasing stability with depth. The above ground biomass productivity is most linked to water erosion, since we found lowest above ground biomass at the steepest slope position and the highest above ground biomass at the foot slopes. Furthermore, root biomass in the most concave section is significantly higher as compared to any other topo-position. The present

  1. Building Agro-Energy Supply Chains in the Basilicata Region: Technical and Economic Evaluation of Interchangeability between Fossil and Renewable Energy Sources

    Directory of Open Access Journals (Sweden)

    Mauro Viccaro

    2013-10-01

    Full Text Available In this study, we present a model for the implementation of agro-energy chains based on the actual availability of forest biomass and the real demand for energy (heat in the area of the Basilicata region, Italy. The demand for energy has been estimated by drawing on the database of the Ministry of Economic Development or by calculating the Annual Energy Requirement (AER index, while for the estimate of the available forest biomass, reference was made to the public forest lands managed according to forestry management plans. The collected data were cross-checked with a view to detecting the technical and economic feasibility of district heating systems. The technical evaluation has mainly focused on the energetic and plant aspects, while the economic assessment was directed to defining the cost effectiveness criteria [Net Present Value (NPV, Internal Rate of Return (IRR, Payback Period] that can measure the profitability of the investment. In the economic evaluation we also included the national public incentives, designed to encourage the production of energy from renewable sources in compliance with the international agreements signed by Italy for the reduction of greenhouse gases (GHGs.

  2. Polymerase chain reaction and bacteriological comparative analysis of raw milk samples and buffalo mozzarella produced and marketed in Caserta in the Campania region of Italy

    Directory of Open Access Journals (Sweden)

    Elisabetta Di Giannatale

    2009-09-01

    Full Text Available To help identify an epidemiological link between the consumption of buffalo mozzarella prepared with raw milk (not heat-treated and cases of human brucellosis, 80 samples of raw buffalo milk and 315 samples of mozzarella were tested for the presence of Brucella spp. Samples originated from Caserta, the province with the highest number of Brucella-positive buffalo herds in Campania, the region in which 96.02% of all cases of human brucellosis reported in 2000-2005 were recorded. To take into account possible seasonal variations, between February 2006 and March 2007, samples were purchased directly from 72 dairy outlets that were representative of the province. Samples were tested for Brucella spp. using the polymerase chain reaction (PCR and bacterial isolation. Samples tested negative for Brucella using both methods. Spiked samples were then prepared and tested by PCR and bacterial isolation and the sensitivity, specificity, repeatability, reproducibility and limit of detection were determined. The PCR limit of detection was below 1 colony-forming unit (cfu/g. The repeatability and reproducibility of the method were 100% (p = 0.95, the sensitivity was 96.7% (p = 0.95 and the specificity was 100% (p = 0.95.

  3. Comparazione fra polymerase chain reaction e isolamento batteriologico in campioni di latte crudo e mozzarella di bufala prodotta in provincia di Caserta, regione Campania (Italia

    Directory of Open Access Journals (Sweden)

    Elisabetta Di Giannatale

    2009-09-01

    Full Text Available Per contribuire all’individuazione di un possibile nesso epidemiologico tra consumo di mozzarella di bufala preparata con latte crudo (non trattato al calore e casi di brucellosi umana, sono stati analizzati, per ricerca di Brucella spp., 80 campioni di latte bufalino crudo e 315 campioni di mozzarella. Gli alimenti esaminati sono stati prelevati in caseifici della provincia di Caserta dove è presente la più alta concentrazione di allevamenti bufalini sierologicamente positivi alla brucellosi in Campania, regione che, nel periodo 2000-2005, ha registrato il 96,02% dei casi di brucellosi umana notificati in Italia. Al fine de valutare possibili variazioni stagionali, i campioni sono stati acquistati in 72 rivendite associate a caseifici nel periodo febbraio 2006-marzo 2007. La ricerca di Brucella spp. è stata effettuata utilizzando polymerase chain reaction (PCR ed eseguendo contemporaneamente l’isolamento microbiologico. I campioni esaminati sono risultati negativi alla ricerca di Brucella con entrambi i metodi utilizzati. Sono stati, inoltre, definiti i parametri di sensibilità, specificità, ripetibilità, riproducibilità e il limite di rilevazione del metodo molecolare, esaminando campioni artificialmente contaminati, sia con metodo PCR sia con isolamento microbiologico classico. Il limite di rilevazione è risultato inferiore a 1 UFC/g, ripetibiltà e riproducibilità sono stati pari a 100% (p=0,95, sensibilità a 96,7% (p=0,95 e specificità a 100% (p=0,95.

  4. Application of semi-nested polymerase chain reaction targeting internal transcribed spacer region for rapid detection of panfungal genome directly from ocular specimens

    Directory of Open Access Journals (Sweden)

    Bagyalakshmi R

    2007-01-01

    Full Text Available Background: The incidence of fungal endophthalmitis has dramatically increased in recent years and rapid detection of fungi using nucleic acid-based amplification techniques is helpful in management. Aim: To evaluate semi-nested polymerase chain reaction (PCR targeting internal transcribed spacer (ITS region for detection of panfungal genome in ocular specimens. Statistical analysis used: Z test for two proportion. Materials and Methods: Standardization of PCR targeting ITS primers was carried out by determining analytical sensitivity and specificity. The sensitivity and specificity of PCR was determined by serial tenfold dilutions of C. albicans (ATCC 24433 DNA and DNA extracts of laboratory isolates of Aspergillus fumigatus , Fusarium lichenicola (4, other fungal and closely related bacterial strains and also human DNA. Semi-nested PCR was applied onto a total of 168 ocular specimens with clinically suspected fungal etiology during 2003-2005. Results and Conclusions: PCR was specific and sensitive to detect 1fg of fungal DNA with ITS primers. PCR detected fungal genome in 90 (53.57% in comparison with the conventional technique, positive in 34 (20.23% by smear examination and in 42 (25% by culture. The increase in clinical sensitivity by 28.57% using PCR was found to be statistically significant { P < 0.001 using Z test for two proportion}. The accuracy of the test was found to be 70.85%. PCR proved to be a rapid diagnostic technique for detection of panfungal genome directly from clinical specimens

  5. 上海区域蔬菜供应链安全溯源问题现状调查分析%Investigation of Safety Traceability Problems of Shanghai Regional Vegetable Supply Chain

    Institute of Scientific and Technical Information of China (English)

    路以兴

    2014-01-01

    通过对上海区域蔬菜供应链及蔬菜供应链安全溯源问题现状调查,从供应链的角度分析了影响蔬菜安全的因素,提出了上海区域完善蔬菜供应链安全溯源系统的建议。%This paper investigates the status quo of regional vegetable supply chain, then identify the factors that affect vagetable safety in the perspective of supply chain; also this paper investigates the safety traceability problems of shanghai regional veg-etable supply chain, gives advice to improve the vegetable safety traceability system.

  6. Decadal trend of precipitation and temperature patterns and impacts on snow-related variables in a semiarid region, Sierra Nevada, Spain.

    Science.gov (United States)

    José Pérez-Palazón, María; Pimentel, Rafael; Herrero, Javier; José Polo, María

    2016-04-01

    In the current context of global change, mountainous areas constitute singular locations in which these changes can be traced. Early detection of significant shifts of snow state variables in semiarid regions can help assess climate variability impacts and future snow dynamics in northern latitudes. The Sierra Nevada mountain range, in southern Spain, is a representative example of snow areas in Mediterranean-climate regions and both monitoring and modelling efforts have been performed to assess this variability and its significant scales. This work presents a decadal trend analysis throughout the 50-yr period 1960-2010 performed on some snow-related variables over Sierra Nevada, in Spain, which is included in the global climate change observatories network around the world. The study area comprises 4583 km2 distributed throughout the five head basins influenced by these mountains, with altitude values ranging from 140 to 3479 m.a.s.l., just 40 km from the Mediterranean coastline. Meteorological variables obtained from 44 weather stations from the National Meteorological Agency were studied and further used as input to the distributed hydrological model WiMMed (Polo et al., 2010), operational at the study area, to obtain selected snow variables. Decadal trends were obtained, together with their statistical significance, over the following variables, averaged over the whole study area: (1) annual precipitation; (2) annual snowfall; annual (3) mean, (4) maximum and (5) minimum daily temperature; annual (6) mean and (7) maximum daily fraction of snow covered areas; (8) annual number of days with snow cover; (9) mean and (10) maximum daily snow water equivalent; (11) annual number of extreme precipitation events; and (12) mean intensity of the annual extreme precipitation events. These variables were also studied over each of the five regions associated to each basin in the range. Globally decreasing decadal trends were obtained for all the meteorological variables

  7. Heavy chain only antibodies

    DEFF Research Database (Denmark)

    Moghimi, Seyed Moein; Rahbarizadeh, Fatemeh; Ahmadvand, Davoud;

    2013-01-01

    Unlike conventional antibodies, heavy chain only antibodies derived from camel contain a single variable domain (VHH) and two constant domains (CH2 and CH3). Cloned and isolated VHHs possess unique properties that enable them to excel conventional therapeutic antibodies and their smaller antigen...

  8. Boosting immune response with the invariant chain segments via association with non-peptide binding region of major histocompatibility complex class II molecules

    Directory of Open Access Journals (Sweden)

    Chen Fangfang

    2012-09-01

    Full Text Available Abstract Background Based on binding of invariant chain (Ii to major histocompatibility complex (MHC class II molecules to form complexes, Ii-segment hybrids, Ii-key structure linking an epitope, or Ii class II-associated invariant chain peptide (CLIP replaced with an epitope were used to increase immune response. It is currently unknown whether the Ii-segment cytosolic and transmembrane domains bind to the MHC non-peptide binding region (PBR and consequently influence immune response. To investigate the potential role of Ii-segments in the immune response via MHC II/peptide complexes, a few hybrids containing Ii-segments and a multiepitope (F306 from Newcastle disease virus fusion protein (F were constructed, and their binding effects on MHC II molecules and specific antibody production were compared using confocal microscopy, immunoprecipitation, western blotting and animal experiments. Results One of the Ii-segment/F306 hybrids, containing ND (Asn–Asp outside the F306 in the Ii-key structure (Ii-key/F306/ND, neither co-localized with MHC II molecules on plasma membrane nor bound to MHC II molecules to form complexes. However, stimulation of mice with the structure produced 4-fold higher antibody titers compared with F306 alone. The two other Ii-segment/F306 hybrids, in which the transmembrane and cytosolic domains of Ii were linked to this structure (Cyt/TM/Ii-key/F306/ND, partially co-localized on plasma membrane with MHC class II molecules and weakly bound MHC II molecules to form complexes. They induced mice to produce approximately 9-fold higher antibody titers compared with F306 alone. Furthermore, an Ii/F306 hybrid (F306 substituting CLIP co-localized well with MHC II molecules on the membrane to form complexes, although it increased antibody titer about 3-fold relative to F306 alone. Conclusions These results suggest that Ii-segments improve specific immune response by binding to the non-PBR on MHC class II molecules and enabling

  9. Effect of drinking water temperature on physiological variables of crossbred dairy cattle at high altitude temperate region of Himalayas

    Directory of Open Access Journals (Sweden)

    D. M. Golher

    2015-10-01

    Full Text Available Aim: The objective of study was to investigate the effects of drinking water on certain physiological parameters such as heart rate (HR, respiration rate (RR, rectal temperature (RT and, ruminal motility (RM. Materials and Methods: The experiment was carried out on 18 farm bred lactating crossbred cows. The animals selected for the study were divided into three groups of six animals each on the basis of milk yield and parity and were allotted to three treatment group of six each such as ambient drinking water temperature at 10.25±0.28°C (ambient water, T1, drinking water temperature at 15-20°C (T2 and drinking water temperature at 35-40°C (T3. All the managemental practices were kept similar during experiment except drinking water temperatures physiological variables such as HR, RR, RT, and RM of the individual cow was measured and recorded twice in a day at 800 h and again at 1400 h two consecutive days in a week 15 min after providing drinking water. Result: HR and RR at morning and at evening recorded were within the normal physiological level for all the treatment groups. However, RT at morning was comparable in all the treatments whereas at evening it was significantly (p<0.01 higher for cows consuming in T2 and in T3 than cows consumed (T1. The RM during morning among the treatments were non-significant as compared to the rumen motility at evening was significantly higher for (T1 and (T2 than for cows in (T3. Conclusion: It can be concluded that offering warm drinking water at 35-40°C to crossbred lactating dairy cow is beneficial during winter at high altitude temperate region.

  10. The SRCR/SID region of DMBT1 defines a complex multi-allele system representing the major basis for its variability in cancer

    DEFF Research Database (Denmark)

    Mollenhauer, Jan; Müller, Hanna; Kollender, Gaby; Lyer, Stefan; Diedrichs, Laura; Helmke, Burkhard; Holmskov, Uffe; Ligtenberg, Toon; Herbertz, Stephan; Krebs, Inge; Madsen, Jens; Bikker, Floris; Schmitt, Liane; Wiemann, Stefan; Scheurlen, Wolfram; Otto, Herwart F; von Deimling, Andreas; Poustka, Annemarie

    2002-01-01

    . We define seven distinct DMBT1 alleles based on variable numbers of tandem repeats (VNTRs). At least 11 tumors exclusively harbored these VNTRs. The data suggest that the SRCR/SID region defines a complex multi-allele system that has escaped previous analyses and that represents the major basis for...

  11. Characterization of infectious laryngotracheitis virus isolates from the US by polymerase chain reaction and restriction fragment length polymorphism of multiple genome regions.

    Science.gov (United States)

    Oldoni, Ivomar; García, Maricarmen

    2007-04-01

    Infectious laryngotracheitis (ILT) is an acute viral respiratory disease, primarily of chickens. Economic losses attributable to ILT affect many poultry-producing areas throughout the United States (US) and the world. Despite efforts to control the disease by vaccination, prolonged epidemics of ILT remain a threat to the poultry industry. Earlier epidemiological and molecular evidence indicated that outbreaks in the US are caused by vaccine-related strains. In this study, polymerase chain reaction and restriction fragment polymorphism (PCR-RFLP) of four genome regions was utilized to characterize 25 isolates from commercial poultry and backyard flocks from the US. Combinations of PCR-RFLP patterns classified the ILT virus isolates into nine groups. Backyard flock isolates were categorized in three separate groups. The ILT virus US Department of Agriculture (USDA) reference strain and the tissue culture origin (TCO) vaccine strain were categorized into two separate groups. Twenty-two isolates from commercial poultry were categorized into four groups: one group, of six isolates, showed patterns identical to the chicken embryo origin (CEO) vaccines; a second group, of nine isolates, differed in only one pattern from the CEO vaccines; a third group, of two isolates, differed in only one pattern from the TCO vaccine; a fourth group, of five isolates, differed in six and nine patterns from the CEO and TCO vaccines, respectively. Results obtained from this study clearly demonstrated that most of the commercial poultry isolates (17 of 22 isolates) were closely related to the vaccine strains. However, isolates different to the vaccine strains were also identified in commercial poultry. PMID:17479379

  12. Diurnal variability of water vapour in the Baltic Sea region according to NCEP-CFSR and BaltAn65+ reanalyses

    Directory of Open Access Journals (Sweden)

    Erko Jakobson

    2014-03-01

    Full Text Available Diurnal variations in water vapour in the Baltic Sea region are examined using BaltAn65+ and NCEP-CFSR reanalyses of summer (JJA data for the period 1979-2005. A systematic difference between precipitable water (PW diurnal variability above the land and the water is revealed. Above the land, PW diurnal variability has minimal values at 00 and 06 UTC, as in previous studies, whereas above the water, the minima are at 12 and 18 UTC. Diurnal variability in the vertical humidity profile is controlled by turbulent mixing and the diurnal behaviour of sea breezes. The impacts and proportions of diurnal variability of humidity are evaluated at different vertical levels.

  13. In situ study of the impact of inter- and intra-reader variability on region of interest (ROI) analysis in preclinical molecular imaging.

    Science.gov (United States)

    Habte, Frezghi; Budhiraja, Shradha; Keren, Shay; Doyle, Timothy C; Levin, Craig S; Paik, David S

    2013-01-01

    We estimated reader-dependent variability of region of interest (ROI) analysis and evaluated its impact on preclinical quantitative molecular imaging. To estimate reader variability, we used five independent image datasets acquired each using microPET and multispectral fluorescence imaging (MSFI). We also selected ten experienced researchers who utilize molecular imaging in the same environment that they typically perform their own studies. Nine investigators blinded to the data type completed the ROI analysis by drawing ROIs manually that delineate the tumor regions to the best of their knowledge and repeated the measurements three times, non-consecutively. Extracted mean intensities of voxels within each ROI are used to compute the coefficient of variation (CV) and characterize the inter- and intra-reader variability. The impact of variability was assessed through random samples iterated from normal distributions for control and experimental groups on hypothesis testing and computing statistical power by varying subject size, measured difference between groups and CV. The results indicate that inter-reader variability was 22.5% for microPET and 72.2% for MSFI. Additionally, mean intra-reader variability was 10.1% for microPET and 26.4% for MSFI. Repeated statistical testing showed that a total variability of CV < 50% may be needed to detect differences < 50% between experimental and control groups when six subjects (n = 6) or more are used and statistical power is adequate (80%). Surprisingly high variability has been observed mainly due to differences in the ROI placement and geometry drawn between readers, which may adversely affect statistical power and erroneously lead to negative study outcomes. PMID:23526701

  14. Implication of the South China Sea Throughflow for the Interannual Variability of the Regional Upper-Ocean Heat Content

    Institute of Scientific and Technical Information of China (English)

    LIU Qinyan; Ruixin HUANG; WANG Dongxiao

    2012-01-01

    In this study the interannual variability of the upper-ocean heat content in the South China Sea (SCS) was revisited using simple ocean data assimilation (SODA) combined with objective analyzed data sets that included the horizontal and vertical structures.The results confirmed that the upper-ocean heat content in the SCS is lower than normal during the mature phase of E1 Ni(n)o events,and two super E1 Ni(n)o events,1982/1983 and 1997/1998 were also included.The variability of the heat content was consistent with the variability of the dynamic height anomalies.The SCS throughflow (SCSTF) plays an important role in regulating the interannual variability of the heat content,especially during the mature phase of E1 Ni(n)oevents.

  15. Supply Chain Coordination in Hospitals

    Science.gov (United States)

    Rego, Nazaré; de Sousa, Jorge Pinho

    This paper presents an innovative approach to support the definition of strategies for the design of alternative configurations of hospital supply chains. This approach was developed around a hybrid Tabu Search / Variable Neighbourhood Search metaheuristic, that uses several neighbourhood structures. The flexibility of the procedure allows its application to supply chains with different topologies and atypical cost characteristics. A preliminary computational experience shows the approach potential in solving large scale supply chain configuration problems. The future incorporation of this approach in a broader Decision Support System (DSS) will provide a tool that can significantly contribute to an increase of healthcare supply chains efficiency and encourage the establishment of collaborative partnerships between their members.

  16. Evaluation of the SAFRAN-ISBA-RAPID hydrometeorological chain on a mountainous catchment in a semi-arid region. Case of the Rheraya (Marrakech, Morocco)

    Science.gov (United States)

    Szczypta, Camille; Gascoin, Simon; Habets, Florence; Saaidi, Amina; Berjamy, Brahim; Marchane, Ahmed; Boulet, Gilles; Hanich, Lahoucine; Jarlan, Lionel

    2015-04-01

    The water content of snow pack is an important resource for many watershed in semi-arid areas where downstream plains are dominated by irrigated agriculture. As part of the ANR Amethyst, this work is to develop, adapt and evaluate a hydro-meteorological forecasting chain for quantifying streamflows at the outlet of a mountainous watershed (Rheraya wadi, Marrakech region, Morocco), a pilot basin instrumented since 2003 as part of SudMed project. Two sets of atmospheric forcing were used: (1) The first was generated by spatializing meteorological data observed on 6 stations (Asni, Aremdt, Tachedert, Oukaimeden, Imskerbour and Neltner) using the semi-physical module Micromet (Liston and Elder, 2006) on the hydrological period September 2003 - August 2012; (2) the second is provided by the SAFRAN re-analysis, implemented by the Metoffice of Morocco (Casablanca, Morocco), during the period August 2004 - July 2008. These two sets were then used as inputs for the ISBA surface model, within the modeling platform SURFEX. Finally, runoff and drainage simulations derived from ISBA were forced into the hydrological model RAPID to predict streamflows. The flows predictions and the snow covered area (SCA) were compared respectively to the observations available for the 2003-2009 period and to the daily MODIS products of SCA. Despite time unsystematic lags and low biases on flow values, the initial results are encouraging due to topographical and hydro-complexity of the studied area. Despite a slight tendency to underestimate the SCA for the "Micromet" run and to over-estimate for the "Safran" run, SCA is well reproduced with a determination coefficient of r²=0.76 and r²=0.79, respectively. Given the complex topography of the basin, a sensitivity analysis to the size of the grid point (from 8 km to 250 m) was conducted. If the different simulated series of SCA are close from a resolution to another, streamflows simulations are, by contrast, highly sensitive to the resolution

  17. Two new 1D chains of Ni2Na2 heterometallic double half-cubane building units: Synthesis, structures and variable temperature magnetic study

    Indian Academy of Sciences (India)

    Kartik Chandra Mondal; Bappaditya Gole; You Song; Stuart R Batten; David R Turner; Partha Sarathi Mukherjee

    2011-11-01

    An equimolar mixture of Ni(NO3)2·6H2O and pyridine-2-aldehyde with two equivalents of NaN3 in methanol in the presence of NaOMe resulted in the formation of light green precipitate which upon crystallization from dimethylformamide (DMF) yielded light green single crystals [{Ni2Na2(pic)4(N3)2(H2O)2(MeOH)}· MeOH·3H2O] (1) and [{Ni2Na2(pic)4(N3)2(H2O)4}$\\cdot$2DMF$\\cdot$H2O] (2) (pic = pyridine-2-carboxylate) at room temperature and high temperature (100°C), respectively. Variable temperature magnetic studies revealed the existence of overall ferromagnetic behaviour with ≈ +10 cm-1 and ≈ −2 to −7 cm-1 for 1 and 2, respectively. Negative values as well as variation of upon slight distortion of structure by varying reaction temperature were observed. The X-band Electron Paramagnetic Resonance (EPR) spectra of both 2 and 3 were recorded below 50 K. The structural distortion was also implicated from the EPR spectra. Density Functional Theory (DFT) calculations on both complexes were performed in two different ways to corroborate the magnetic results. Considering only Ni$^{\\text{II}}_{2}$ dimeric unit, results were = +20.65 cm-1 and = −3.16 cm-1 for 1, and =+24.56 cm-1 and =−4.67 cm-1 for 2. However, considering Ni$^{\\text{II}}_{2}$Na$^{I}_{2}$ cubane as magnetic core the results were =+16.35 cm-1 (1), +19.54 cm-1 (2); =−3.05 cm-1 (1), −4.25 cm-1 (2).

  18. Expression of single-chain variable fragments fused with the Fc-region of rabbit IgG in Leishmania tarentolae

    OpenAIRE

    Jørgensen, Mathias Lindh; Friis, Niels Anton; Just, Jesper; Madsen, Peder; Petersen, Steen Vang; Kristensen, Peter

    2014-01-01

    Background In recent years the generation of antibodies by recombinant methods, such as phage display technology, has increased the speed by which antibodies can be obtained. However, in some cases when recombinant antibodies have to be validated, expression in E. coli can be problematic. This primarily occurs when codon usage or protein folding of specific antibody fragments is incompatible with the E. coli translation and folding machinery, for instance when recombinant antibody formats tha...

  19. Spatial Variability of Soil Saturated Hydraulic Conductivity in a Small Watershed of Loess Hilly Region,China

    Institute of Scientific and Technical Information of China (English)

    2008-01-01

    Saturated hydraulic conductivity (Ks) is an important soil hydraulic parameter for charactering the rate of water flow across the soils and is mainly related to its high spatial variability. In a small watershed with the area of 0.27 km2 in the Loess Plateau, Ks of 197 soil samples under different vegetations and landforms were measured. Ks had a moderate variability for total samples. The forestland had high Ks with low coefficient of variation (CV), but the grassland in the watershed bottom had low Ks wit...

  20. Use of sequence variation in three highly variable regions of the mitochondrial DNA for the discrimination of allogeneic platelets

    NARCIS (Netherlands)

    Warner, JB; Bruin, EJ; Hannig, H; Hellenkamp, F; Horning, A; Mittmann, K; van der Steege, G; de Leij, LFMH; Garritsen, HSP

    2006-01-01

    BACKGROUND: Human mitochondrial DNA (mtDNA) polymorphisms can be used to detect allogeneic transfused platelets. To increase the number of informative polymorphisms we investigated three hypervariable regions (HVR1, HVR2, and HVR3) within the displacement loop (D-loop) region of the mtDNA. STUDY DES

  1. Effects of an increase of regional PM2.5 concentration in East Asia on the climate variability in the North Paicific for 1985-2010

    Science.gov (United States)

    lee, jong-won; yeh, sang-wook

    2016-04-01

    It is well known that atmospheric variables can be influenced to change by aerosol concentration. In spite of a wealth of studies, however, it is still remain unclear how the regional anthropogenic aerosol in East Asia affects the climate variability in the North Pacific. In this study, we examined the effect of anthropogenic aerosol forcing in East Asia (GEOS-Chem) on the climate variability in the North Pacific based on a global chemical transport model and three idealized experiments using an atmosphere model. GEOS-Chem is forced by the assimilated meteorology from the Modern-Era Retrospective Analysis for Research and Applications of the National Aeronautics and Space Administration for 1985-2010. Regarding three experiments, the first set used the historical SST for 1985-2010 with the time-varying emissions in East Asia. The second set used the historical SST without the emissions and the third set included the climatological SST with the time-varying emissions in East Asia. By comparing GEOS-Chem run with atmosphere model runs, we analyze the role of regional aerosol forcing in East Asia on the climate variability in the North Pacific.

  2. The Insertion of Fluorescent Proteins in a Variable Region of Respiratory Syncytial Virus L Polymerase Results in Fluorescent and Functional Enzymes But with Reduced Activities

    OpenAIRE

    Fix, Jenna; Galloux, Marie; Blondot, Marie-Lise; Eléouët, Jean-François

    2011-01-01

    The respiratory syncytial virus (RSV) Large protein L is the catalytic subunit of the RNA-dependent RNA polymerase complex. Currently, no structural information is available for RSV L. Sequence alignments of L protein from human and bovine strains of RSV revealed the existence of two variable regions, VR1 and VR2. Following comparison with morbillivirus and rhabdovirus L genes, VR2, which is located between domains V and VI, was chosen as an insertion site for sequences encoding the epitope t...

  3. Assessing the spatial variability of coefficients of landslide predictors in different regions of Romania using logistic regression

    OpenAIRE

    M. C. Mărgărint; Grozavu, A.; C. V. Patriche

    2013-01-01

    In landslide susceptibility assessment, an important issue is the correct identification of significant contributing factors, which leads to the improvement of predictions regarding this type of geomorphologic processes. In the scientific literature, different weightings are assigned to these factors, but contain large variations. This study aims to identify the spatial variability and range of variation for the coefficients of landslide predictors in different geographical ...

  4. Particle backscattering variability in the coastal waters of Bay of Bengal: A case study along off Kakinada and Yanam Regions

    Digital Repository Service at National Institute of Oceanography (India)

    Latha, P.T.; Nagamani, P.V.; Rao, B.S.; Amarendra, P.; Rao, K.H.; Choudhury, S.B.; Dash, S.K.; Sarma, V.V.S.S.

    sensor. In this letter, an attempt was made to: 1) describe the variability of particle bbp of estuarine coastal system using in situ measurements; 2) model the bbp from Quasi Analytical Algorithm (QAA) and verify its accuracy...

  5. Production and Evaluation of Immunoreactivity of Poly Lysine-Tagged Single Chain Fragment Variable (ScFv) Lym-1 Antibody for Direct Conjugation to Fluorescence Dye

    International Nuclear Information System (INIS)

    Small size of recombinant scFv antibody has many advantages such as rapid blood clearances and improved targeting antibodies to tumor region. On the other hand owing to small size, number of amino group is insufficient in conjugation with chelator and fluorescence labeling. This study is to introduce poly lysine tag to the C-terminal end of scFv lym-1 sequence for fluorescence chelator conjugation. Poly lysine scFv lym-1 gene, cloned into pET-22b (+) vector, was expressed in E. coli BL21 (DE3) strain. Antibody purification was performed with Ni-NTA column and then size exclusion column chromatography. Expression and purification levels of poly lysine tagged scFv lym-1 antibody were confirmed by western blot analysis. I-124, I-125, I-131 and Tc-99m were used for radiolabeling of purified poly lysine scFv lym-1. Flow cytometry analysis of FITC conjugated poly lysine scFv lym-1 was performed for confirmation of immunoreactivity of human Burkitt's lymphoma cells. Poly lysine scFv lym-1 antibody was purified through two steps and identified as molecular weight of 48 KDa. Radiolabeling yields of I-124, I-125, I-131 and Tc-99m into poly lysine scFv lym-1 were >99%, >99%, >95% and >99%, respectively. Flow cytometry analysis of poly lysine scFv and scFv lym-1 was showed similar immunoreactivity to human Burkitt's lymphoma cells. Poly lysine tag was useful for the sufficient number of amino groups to scFv lym-1 antibody for chelator conjugation with minimizing loss of immunoreactivity

  6. Production and Evaluation of Immunoreactivity of Poly Lysine-Tagged Single Chain Fragment Variable (ScFv) Lym-1 Antibody for Direct Conjugation to Fluorescence Dye

    Energy Technology Data Exchange (ETDEWEB)

    Jung, Jae Ho; Choi, Tae Hyun; Woo, Kwang Sun; Chung, Wee Sup; Kang, Joo Hyun; Jeong, Su Young; Choi, Chang Woon; Lim, Sang Moo; Cheon, Gi Jeong [Korea Institute of Radiological and Medical Sciences, Seoul (Korea, Republic of)

    2009-10-15

    Small size of recombinant scFv antibody has many advantages such as rapid blood clearances and improved targeting antibodies to tumor region. On the other hand owing to small size, number of amino group is insufficient in conjugation with chelator and fluorescence labeling. This study is to introduce poly lysine tag to the C-terminal end of scFv lym-1 sequence for fluorescence chelator conjugation. Poly lysine scFv lym-1 gene, cloned into pET-22b (+) vector, was expressed in E. coli BL21 (DE3) strain. Antibody purification was performed with Ni-NTA column and then size exclusion column chromatography. Expression and purification levels of poly lysine tagged scFv lym-1 antibody were confirmed by western blot analysis. I-124, I-125, I-131 and Tc-99m were used for radiolabeling of purified poly lysine scFv lym-1. Flow cytometry analysis of FITC conjugated poly lysine scFv lym-1 was performed for confirmation of immunoreactivity of human Burkitt's lymphoma cells. Poly lysine scFv lym-1 antibody was purified through two steps and identified as molecular weight of 48 KDa. Radiolabeling yields of I-124, I-125, I-131 and Tc-99m into poly lysine scFv lym-1 were >99%, >99%, >95% and >99%, respectively. Flow cytometry analysis of poly lysine scFv and scFv lym-1 was showed similar immunoreactivity to human Burkitt's lymphoma cells. Poly lysine tag was useful for the sufficient number of amino groups to scFv lym-1 antibody for chelator conjugation with minimizing loss of immunoreactivity

  7. Determinants of Regional Variability in Litter Production of Forests in the Southern Yucatan: Environmental Gradients or Human Legacy?

    Science.gov (United States)

    Lawrence, D.; Lawrence, D.; Foster, D. R.

    2001-05-01

    The Southern Yucatan is the deforestation frontier for the largest block of dry tropical forest north of Brazil. Our goal was to assess how human disturbance alters patterns of productivity driven by natural gradients of precipitation and soil fertility. We sampled litter production and soils in three regions (rainfall 890-1420 mm yr-1). We studied 8-10 stands 2-25 yrs old plus 2-3 mature forest stands per region (36 in total). Litter was collected monthly from four 1-m2 traps within a 500-m2 area, and summed for 1999. Soil chemical and physical properties varied little across the region, but organic matter increased (10.9-13.3% soils 0-15 cm deep) with annual precipitation. Annual litter production was analyzed as a function of region, forest age, number of previous cycles of shifting cultivation, and total number of years in corn production. Region had no significant effect on production, though there was a trend toward higher production in the wettest region. Litterfall increased with age, and production in old secondary forests was not significantly different from that in mature forests. Land-use intensity was negatively correlated with litter production, which declined as a function of both number of cycles and total number of years in corn. In stepwise regression models, age and number of years in corn were the only significant predictors of litter production. Human history, rather than environmental gradients, seems to determine regional variation in productivity in the Yucatan.

  8. Multi-site study of diffusion metric variability: effects of site, vendor, field strength, and echo time on regions-of-interest and histogram-bin analyses

    Science.gov (United States)

    Helmer, K. G.; Chou, M.-C.; Preciado, R. I.; Gimi, B.; Rollins, N. K.; Song, A.; Turner, J.; Mori, S.

    2016-03-01

    It is now common for magnetic-resonance-imaging (MRI) based multi-site trials to include diffusion-weighted imaging (DWI) as part of the protocol. It is also common for these sites to possess MR scanners of different manufacturers, different software and hardware, and different software licenses. These differences mean that scanners may not be able to acquire data with the same number of gradient amplitude values and number of available gradient directions. Variability can also occur in achievable b-values and minimum echo times. The challenge of a multi-site study then, is to create a common protocol by understanding