WorldWideScience

Sample records for breakpoints demarcating sites

  1. [Ceftaroline breakpoints].

    Science.gov (United States)

    Canut, Andrés; Martínez-Martínez, Luis

    2014-03-01

    Ceftaroline is a new cephalosporin for parenteral use. Notable among its microbiological properties is its ability to inhibit penicillin-binding protein 2a of methicillin-resistant Staphylococcus aureus and its good in vitro activity against several microorganisms of clinical interest. The European Committee of Antimicrobial Susceptibility Testing (EUCAST) has defined both epidemiological breakpoints (defining wild-type populations that lack known acquired mechanisms of resistance) and clinical breakpoints for this compound. The Clinical and Laboratory Standards Institute (CLSI) has also defined clinical breakpoints. Based on the microbiological activity of ceftaroline, clinical categories have been defined for enterobacteria, S. aureus, Haemophilus influenzae, Streptococcus pneumoniae, and beta-hemolytic Streptococcus. EUCAST has also established breakpoints based on pharmacokinetic-pharmacodynamic criteria.

  2. Jumping translocation in acute monocytic leukemia (M5b) with alternative breakpoint sites in the long arm of donor chromosome 3.

    Science.gov (United States)

    McGrattan, Peter; Logan, Amy; Humphreys, Mervyn; Bowers, Margaret

    2010-09-01

    An 86-year-old man presented with acute hepatic failure, worsening thrombocytopenia, and anemia having been diagnosed and managed expectantly with cytogenetically normal RAEB-1. After 20 months a diagnosis of disease transformation to acute monocytic leukemia (M5b) was made. Conventional G-banded analysis of unstimulated bone marrow cultures demonstrated a jumping translocation (JT) involving proximal and distal breakpoints on donor chromosome 3 at bands 3q1?2 and 3q21, respectively. Recipient chromosomes included the long-arm telomeric regions of chromosomes 5, 10, 14, 16, and 19. A low-level trisomy 8 clone was also found in association with both proximal and distal JT clones. Conventional G-banded analysis of unstimulated peripheral blood cultures detected the proximal 3q1?2 JT clone involving recipient chromosome 10 several weeks after transformation to acute monocytic leukemia. Interestingly, JTs involving recipient chromosomes 5, 14, 16, and 19 were not detected in this peripheral blood sample. Palliative care was administered until his demise 2.2 months after disease transformation. There have been fewer than 70 cases of acquired JTs reported in the literature, including one myeloproliferative neoplasm and five acute myeloid leukemias involving a single breakpoint site on donor chromosome 3. Our case is unique as it is the first acquired case to demonstrate a JT involving alternative pericentromeric breakpoint sites on a single donor chromosome consisting of a proximal breakpoint at 3q1?2 and a more distal breakpoint at 3q21.

  3. Over half of breakpoints in gene pairs involved in cancer-specific recurrent translocations are mapped to human chromosomal fragile sites

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    Pierce Levi CT

    2009-01-01

    Full Text Available Abstract Background Gene rearrangements such as chromosomal translocations have been shown to contribute to cancer development. Human chromosomal fragile sites are regions of the genome especially prone to breakage, and have been implicated in various chromosome abnormalities found in cancer. However, there has been no comprehensive and quantitative examination of the location of fragile sites in relation to all chromosomal aberrations. Results Using up-to-date databases containing all cancer-specific recurrent translocations, we have examined 444 unique pairs of genes involved in these translocations to determine the correlation of translocation breakpoints and fragile sites in the gene pairs. We found that over half (52% of translocation breakpoints in at least one gene of these gene pairs are mapped to fragile sites. Among these, we examined the DNA sequences within and flanking three randomly selected pairs of translocation-prone genes, and found that they exhibit characteristic features of fragile DNA, with frequent AT-rich flexibility islands and the potential of forming highly stable secondary structures. Conclusion Our study is the first to examine gene pairs involved in all recurrent chromosomal translocations observed in tumor cells, and to correlate the location of more than half of breakpoints to positions of known fragile sites. These results provide strong evidence to support a causative role for fragile sites in the generation of cancer-specific chromosomal rearrangements.

  4. Demarcation of secondary hyperalgesia zones

    DEFF Research Database (Denmark)

    Ringsted, Thomas K; Enghuus, Casper; Petersen, Morten A;

    2015-01-01

    of analgesic drug effects in humans. However, since the methods applied in demarcating the secondary hyperalgesia zone seem inconsistent across studies, we examined the effect of a standardized approach upon the measurement of SHA following a first degree burn injury (BI). NEW METHOD: The study was a two...... presented. CONCLUSIONS: This is the first study to demonstrate that demarcation of secondary hyperalgesia zones depends on the developed pressure of the punctate stimulator used....

  5. Breakpoint sites disclose the role of the V(D)J recombination machinery in the formation of T-cell receptor (TCR) and non-TCR associated aberrations in T-cell acute lymphoblastic leukemia.

    Science.gov (United States)

    Larmonie, Nicole S D; Dik, Willem A; Meijerink, Jules P P; Homminga, Irene; van Dongen, Jacques J M; Langerak, Anton W

    2013-08-01

    Aberrant recombination between T-cell receptor genes and oncogenes gives rise to chromosomal translocations that are genetic hallmarks in several subsets of human T-cell acute lymphoblastic leukemias. The V(D)J recombination machinery has been shown to play a role in the formation of these T-cell receptor translocations. Other, non-T-cell receptor chromosomal aberrations, such as SIL-TAL1 deletions, have likewise been recognized as V(D)J recombination associated aberrations. Despite the postulated role of V(D)J recombination, the extent of the V(D)J recombination machinery involvement in the formation of T-cell receptor and non-T-cell receptor aberrations in T-cell acute lymphoblastic leukemia is still poorly understood. We performed a comprehensive in silico and ex vivo evaluation of 117 breakpoint sites from 22 different T-cell receptor translocation partners as well as 118 breakpoint sites from non-T-cell receptor chromosomal aberrations. Based on this extensive set of breakpoint data, we provide a comprehensive overview of T-cell receptor and oncogene involvement in T-ALL. Moreover, we assessed the role of the V(D)J recombination machinery in the formation of chromosomal aberrations, and propose an up-dated mechanistic classification on how the V(D)J recombination machinery contributes to the formation of T-cell receptor and non-T-cell receptor aberrations in human T-cell acute lymphoblastic leukemia.

  6. Aluminum break-point contacts

    NARCIS (Netherlands)

    Heinemann, Martina; Groot, R.A. de

    1997-01-01

    Ab initio molecular dynamics is used to study the contribution of a single Al atom to an aluminum breakpoint contact during the final stages of breaking and the initial stages of the formation of such a contact. A hysteresis effect is found in excellent agreement with experiment and the form of the

  7. 社交网站关系断点形成因素研究%Research on the Formation Factor of Relationship Breakpoint on Social Network Sites

    Institute of Scientific and Technical Information of China (English)

    王力; 连兆龙; 蔡明田

    2015-01-01

    随着互联网和社交网络的发展,人们通过社交网站更方便地调整朋友圈界限,选择接受或拒绝加入好友,虽然在一念之间,但实际受到多种因素的影响。本文基于计划行为理论以问卷方式进行实证研究,探讨关系品质认知、知觉风险与人际界限认知等因素对社交网站中交友行为的影响。实证结果认为关系品质认知、知觉风险、人际界限认知均对交友意图有显著的影响,但构面内的相互承诺、社会风险、领域性和私密性却不显著,此点可为社交平台网络商借鉴。%With the development of the internet,people are more convenient to adjust their boundary of friendship through social net-work sites.To accept or to reject might be just an easy click,but the factors behind the choice are considerable.This paper explores the factors that affect the real social activities by theory of planned behavior (TPB)such as interpersonal boundaries,perceived risk and relationship quality.The empirical result indicates the dimensions in TPB have a significant effect on intention to make friends.Howev-er,within the dimensions of mutual commitment,social risk,field and privacy are not significant.It represents that the providers may ponder the difference between practice and online.

  8. Tandem repeats and G-rich sequences are enriched at human CNV breakpoints.

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    Promita Bose

    Full Text Available Chromosome breakage in germline and somatic genomes gives rise to copy number variation (CNV responsible for genomic disorders and tumorigenesis. DNA sequence is known to play an important role in breakage at chromosome fragile sites; however, the sequences susceptible to double-strand breaks (DSBs underlying CNV formation are largely unknown. Here we analyze 140 germline CNV breakpoints from 116 individuals to identify DNA sequences enriched at breakpoint loci compared to 2800 simulated control regions. We find that, overall, CNV breakpoints are enriched in tandem repeats and sequences predicted to form G-quadruplexes. G-rich repeats are overrepresented at terminal deletion breakpoints, which may be important for the addition of a new telomere. Interstitial deletions and duplication breakpoints are enriched in Alu repeats that in some cases mediate non-allelic homologous recombination (NAHR between the two sides of the rearrangement. CNV breakpoints are enriched in certain classes of repeats that may play a role in DNA secondary structure, DSB susceptibility and/or DNA replication errors.

  9. Effects of new penicillin susceptibility breakpoints for Streptococcus pneumoniae--United States, 2006-2007.

    Science.gov (United States)

    2008-12-19

    Streptococcus pneumoniae (pneumococcus) is a common cause of pneumonia and meningitis in the United States. Antimicrobial resistance, which can result in pneumococcal infection treatment failure, is identified by measuring the minimum inhibitory concentration (MIC) of an antimicrobial that will inhibit pneumococcal growth. Breakpoints are MICs that define infections as susceptible (treatable), intermediate (possibly treatable with higher doses), and resistant (not treatable) to certain antimicrobials. In January 2008, after a reevaluation that included more recent clinical studies, the Clinical and Laboratory Standards Institute (CLSI) published new S. pneumoniae breakpoints for penicillin (the preferred antimicrobial for susceptible S. pneumoniae infections). To assess the potential effects of the new breakpoints on susceptibility categorization, CDC applied them to MICs of invasive pneumococcal disease (IPD) isolates collected by the Active Bacterial Core surveillance (ABCs) system at sites in 10 states during 2006-2007. This report summarizes the results of that analysis, which found that the percentage of IPD nonmeningitis S. pneumoniae isolates categorized as susceptible, intermediate, and resistant to penicillin changed from 74.7%, 15.0%, and 10.3% under the former breakpoints to 93.2%, 5.6%, and 1.2%, respectively, under the new breakpoints. Microbiology laboratories should be aware of the new breakpoints to interpret pneumococcal susceptibility accurately, and clinicians should be aware of the breakpoints to prescribe antimicrobials appropriately for pneumococcal infections. State and local health departments also should be aware of the new breakpoints because they might result in a decrease in the number of reported cases of penicillin-resistant pneumococcus.

  10. Breath-holding and its breakpoint.

    Science.gov (United States)

    Parkes, M J

    2006-01-01

    This article reviews the basic properties of breath-holding in humans and the possible causes of the breath at breakpoint. The simplest objective measure of breath-holding is its duration, but even this is highly variable. Breath-holding is a voluntary act, but normal subjects appear unable to breath-hold to unconsciousness. A powerful involuntary mechanism normally overrides voluntary breath-holding and causes the breath that defines the breakpoint. The occurrence of the breakpoint breath does not appear to be caused solely by a mechanism involving lung or chest shrinkage, partial pressures of blood gases or the carotid arterial chemoreceptors. This is despite the well-known properties of breath-hold duration being prolonged by large lung inflations, hyperoxia and hypocapnia and being shortened by the converse manoeuvres and by increased metabolic rate. Breath-holding has, however, two much less well-known but important properties. First, the central respiratory rhythm appears to continue throughout breath-holding. Humans cannot therefore stop their central respiratory rhythm voluntarily. Instead, they merely suppress expression of their central respiratory rhythm and voluntarily 'hold' the chest at a chosen volume, possibly assisted by some tonic diaphragm activity. Second, breath-hold duration is prolonged by bilateral paralysis of the phrenic or vagus nerves. Possibly the contribution to the breakpoint from stimulation of diaphragm muscle chemoreceptors is greater than has previously been considered. At present there is no simple explanation for the breakpoint that encompasses all these properties.

  11. Preferential Breakpoints in the Recovery of Broken Dicentric Chromosomes in Drosophila melanogaster.

    Science.gov (United States)

    Hill, Hunter; Golic, Kent G

    2015-10-01

    We designed a system to determine whether dicentric chromosomes in Drosophila melanogaster break at random or at preferred sites. Sister chromatid exchange in a Ring-X chromosome produced dicentric chromosomes with two bridging arms connecting segregating centromeres as cells divide. This double bridge can break in mitosis. A genetic screen recovered chromosomes that were linearized by breakage in the male germline. Because the screen required viability of males with this X chromosome, the breakpoints in each arm of the double bridge must be closely matched to produce a nearly euploid chromosome. We expected that most linear chromosomes would be broken in heterochromatin because there are no vital genes in heterochromatin, and breakpoint distribution would be relatively unconstrained. Surprisingly, approximately half the breakpoints are found in euchromatin, and the breakpoints are clustered in just a few regions of the chromosome that closely match regions identified as intercalary heterochromatin. The results support the Laird hypothesis that intercalary heterochromatin can explain fragile sites in mitotic chromosomes, including fragile X. Opened rings also were recovered after male larvae were exposed to X-rays. This method was much less efficient and produced chromosomes with a strikingly different array of breakpoints, with almost all located in heterochromatin. A series of circularly permuted linear X chromosomes was generated that may be useful for investigating aspects of chromosome behavior, such as crossover distribution and interference in meiosis, or questions of nuclear organization and function.

  12. Major chromosomal breakpoint intervals in breast cancer tumors co-localize with differentially methylated regions.

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    Man-Hung Eric eTang

    2012-12-01

    Full Text Available Solid tumors exhibit chromosomal rearrangements resulting in gain or loss of multiple loci (copy number variation and translocations that occasionally result in the creation of novel chimeric genes. In the case of breast cancer, although most individual tumors each have unique CNV landscape the breakpoints, as measured over large datasets, appear to be non-randomly distributed in the genome. Breakpoints show a significant regional concentration at genomic loci spanning perhaps several megabases. The proximal cause of these breakpoint concentrations is a subject of speculation but is, as yet, largely unknown. To shed light on this issue, we have performed a bio-statistical analysis on our previously published data for a set of 119 breast tumors and normal controls, where each sample has both high resolution CNV and methylation data. The method examined the distribution of closeness of breakpoint regions with differentially methylated regions, coupled with additional genomic parameters, such as repeat elements and designated fragile sites in the reference genome. Through this analysis, we have identified a set of 91 regional loci called breakpoint enriched differentially methylated regions (BEDMRs characterized by altered DNA methylation in cancer compared to normal cells that are associated with frequent breakpoint concentrations within a distance of 1Mb. BEDMR loci are further associated with local hypomethylation (66% concentrations of the Alu SINE repeats within 3Mb and tend to occur near a number of cancer related genes such as the protocadherins, AKT1, DUB3, GAB2. BEDMRs seem to deregulate members of the histone gene family and chromatin remodeling factors e.g JMJD1B which might affect the chromatin structure and disrupt coordinate signaling and repair. From this analysis we propose that preference for chromosomal breakpoints is related to genome structure coupled with alterations in DNA methylation and hence chromatin structure associated

  13. Multiple Break-Points Detection in Array CGH Data via the Cross-Entropy Method.

    Science.gov (United States)

    Priyadarshana, W J R M; Sofronov, Georgy

    2015-01-01

    Array comparative genome hybridization (aCGH) is a widely used methodology to detect copy number variations of a genome in high resolution. Knowing the number of break-points and their corresponding locations in genomic sequences serves different biological needs. Primarily, it helps to identify disease-causing genes that have functional importance in characterizing genome wide diseases. For human autosomes the normal copy number is two, whereas at the sites of oncogenes it increases (gain of DNA) and at the tumour suppressor genes it decreases (loss of DNA). The majority of the current detection methods are deterministic in their set-up and use dynamic programming or different smoothing techniques to obtain the estimates of copy number variations. These approaches limit the search space of the problem due to different assumptions considered in the methods and do not represent the true nature of the uncertainty associated with the unknown break-points in genomic sequences. We propose the Cross-Entropy method, which is a model-based stochastic optimization technique as an exact search method, to estimate both the number and locations of the break-points in aCGH data. We model the continuous scale log-ratio data obtained by the aCGH technique as a multiple break-point problem. The proposed methodology is compared with well established publicly available methods using both artificially generated data and real data. Results show that the proposed procedure is an effective way of estimating number and especially the locations of break-points with high level of precision. Availability: The methods described in this article are implemented in the new R package breakpoint and it is available from the Comprehensive R Archive Network at http://CRAN.R-project.org/package=breakpoint.

  14. Demarcation of Seabuckthorn Plantations in Three Northern Areas of China

    Institute of Scientific and Technical Information of China (English)

    2005-01-01

    Seabuckthorn (Hippophae rhamnoides) planting areas in the three northern areas (north, northeast and northwest) of China are divided into five planting zones: the semi-humid forest prairie climate zone for ecological and economic types of seabuckthorn plantations in the southern part of the Loess Plateau; the semi-arid steppe climate zone for similar types of plantations in the central part of the Loess Plateau; the arid desert steppe climate zone for ecological type of seabuckthorn plantations in the northern part of the Loess Plateau; the semi-arid and semi-humid steppe climate zone again for ecological and economic types of plantations in northern Hebei and western Liaoning and the cold humid steppe climate zone for economic types of plantations in the northern part of northeast China. The aim of this demarcation is to avoid a random introduction of seabuckthorn. In each of the five zones,objectives should be set and suitable seabuckthorn species, subspecies and varieties should be planted according to site conditions,seed sources and methods of tree breeding. The cultivation centers, bases, stations, or units should be established and successful models of seedling and planting methods should be encouraged. The principle of matching trees with suitable site conditions and adjusting measures to local conditions should be practiced. From a strategic viewpoint of solving ecological and economic problems of seabuckthorn development in the three northern areas, every seabuckthorn center must have its own germplasm nursery, standard plantation for popularizing, excellent seed and seedling nurseries and sufficient afforestation areas for demonstration and propaganda purposes. These measures would improve the ecological environment and promote economic and social development in the three northern areas of China.

  15. Identifying the important HIV-1 recombination breakpoints.

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    John Archer

    Full Text Available Recombinant HIV-1 genomes contribute significantly to the diversity of variants within the HIV/AIDS pandemic. It is assumed that some of these mosaic genomes may have novel properties that have led to their prevalence, particularly in the case of the circulating recombinant forms (CRFs. In regions of the HIV-1 genome where recombination has a tendency to convey a selective advantage to the virus, we predict that the distribution of breakpoints--the identifiable boundaries that delimit the mosaic structure--will deviate from the underlying null distribution. To test this hypothesis, we generate a probabilistic model of HIV-1 copy-choice recombination and compare the predicted breakpoint distribution to the distribution from the HIV/AIDS pandemic. Across much of the HIV-1 genome, we find that the observed frequencies of inter-subtype recombination are predicted accurately by our model. This observation strongly indicates that in these regions a probabilistic model, dependent on local sequence identity, is sufficient to explain breakpoint locations. In regions where there is a significant over- (either side of the env gene or under- (short regions within gag, pol, and most of env representation of breakpoints, we infer natural selection to be influencing the recombination pattern. The paucity of recombination breakpoints within most of the envelope gene indicates that recombinants generated in this region are less likely to be successful. The breakpoints at a higher frequency than predicted by our model are approximately at either side of env, indicating increased selection for these recombinants as a consequence of this region, or at least part of it, having a tendency to be recombined as an entire unit. Our findings thus provide the first clear indication of the existence of a specific portion of the genome that deviates from a probabilistic null model for recombination. This suggests that, despite the wide diversity of recombinant forms seen in

  16. Identifying the Important HIV-1 Recombination Breakpoints

    Science.gov (United States)

    Fan, Jun; Simon-Loriere, Etienne; Arts, Eric J.; Negroni, Matteo; Robertson, David L.

    2008-01-01

    Recombinant HIV-1 genomes contribute significantly to the diversity of variants within the HIV/AIDS pandemic. It is assumed that some of these mosaic genomes may have novel properties that have led to their prevalence, particularly in the case of the circulating recombinant forms (CRFs). In regions of the HIV-1 genome where recombination has a tendency to convey a selective advantage to the virus, we predict that the distribution of breakpoints—the identifiable boundaries that delimit the mosaic structure—will deviate from the underlying null distribution. To test this hypothesis, we generate a probabilistic model of HIV-1 copy-choice recombination and compare the predicted breakpoint distribution to the distribution from the HIV/AIDS pandemic. Across much of the HIV-1 genome, we find that the observed frequencies of inter-subtype recombination are predicted accurately by our model. This observation strongly indicates that in these regions a probabilistic model, dependent on local sequence identity, is sufficient to explain breakpoint locations. In regions where there is a significant over- (either side of the env gene) or under- (short regions within gag, pol, and most of env) representation of breakpoints, we infer natural selection to be influencing the recombination pattern. The paucity of recombination breakpoints within most of the envelope gene indicates that recombinants generated in this region are less likely to be successful. The breakpoints at a higher frequency than predicted by our model are approximately at either side of env, indicating increased selection for these recombinants as a consequence of this region, or at least part of it, having a tendency to be recombined as an entire unit. Our findings thus provide the first clear indication of the existence of a specific portion of the genome that deviates from a probabilistic null model for recombination. This suggests that, despite the wide diversity of recombinant forms seen in the viral

  17. Cloning, sequencing, and analysis of inv8 chromosome breakpoints associated with recombinant 8 syndrome.

    Science.gov (United States)

    Graw, S L; Sample, T; Bleskan, J; Sujansky, E; Patterson, D

    2000-03-01

    Rec8 syndrome (also known as "recombinant 8 syndrome" and "San Luis Valley syndrome") is a chromosomal disorder found in individuals of Hispanic descent with ancestry from the San Luis Valley of southern Colorado and northern New Mexico. Affected individuals typically have mental retardation, congenital heart defects, seizures, a characteristic facial appearance, and other manifestations. The recombinant chromosome is rec(8)dup(8q)inv(8)(p23.1q22.1), and is derived from a parental pericentric inversion, inv(8)(p23.1q22.1). Here we report on the cloning, sequencing, and characterization of the 8p23.1 and 8q22 breakpoints from the inversion 8 chromosome associated with Rec8 syndrome. Analysis of the breakpoint regions indicates that they are highly repetitive. Of 6 kb surrounding the 8p23.1 breakpoint, 75% consists of repetitive gene family members-including Alu, LINE, and LTR elements-and the inversion took place in a small single-copy region flanked by repetitive elements. Analysis of 3.7 kb surrounding the 8q22 breakpoint region reveals that it is 99% repetitive and contains multiple LTR elements, and that the 8q inversion site is within one of the LTR elements.

  18. IGH switch breakpoints in Burkitt lymphoma: exclusive involvement of noncanonical class switch recombination.

    Science.gov (United States)

    Guikema, Jeroen E J; de Boer, Conny; Haralambieva, Eugenia; Smit, Laura A; van Noesel, Carel J M; Schuuring, Ed; Kluin, Philip M

    2006-09-01

    Most chromosomal t(8;14) translocations in sporadic Burkitt lymphomas (BL) are mediated by immunoglobulin class switch recombination (CSR), yet all tumors express IgM, suggesting an incomplete or exclusively monoallelic CSR event. We studied the exact configuration of both the nontranslocated IGH allele and the MYC/IGH breakpoint by applying a combination of low- and high-resolution methods (interphase FISH, DNA fiber FISH, long-distance PCR, and Southern blotting) on 16 BL. IGH class switch events involving the nontranslocated IGH allele were not observed. Thirteen cases had MYC/IGH breakpoints in or nearby IGH switch (S) sites, including five at Smu, three at Sgamma and five at Salpha. All eight translocations with a breakpoint at Sgamma or Salpha were perfectly reciprocal, without deletion of Cmu-Cdelta or other CH elements. Internal Smu deletions claimed to be a marker for CSR activity and implicated in stabilization of IgM expression were found in BL but did not correlate with downstream translocation events. This study shows that switch breakpoints in sporadic BL are exclusively resolved by a noncanonical recombination mechanism involving only one switch region.

  19. A 350-kb cosmid contig in 3p14.2 that crosses the t(3;8) hereditary renal cell carcinoma translocation breakpoint and 17 aphidicolin-induced FRA3B breakpoints

    Energy Technology Data Exchange (ETDEWEB)

    Paradee, W. [Wayne State Univ. School of Medicine, Detroit, MI (United States); Wilke, C.M.; Hoge, A. [Univ. of Michigan Medical School, Ann Arbor, MI (United States)] [and others

    1996-07-11

    The constitutive fragile site at human chromosomal band 3p14.2, FRA3B, has been described as the most active common fragile site in the human genome. Previous work demonstrated that a 1330-kb YAC clone, YC850A6, spans both the t(3;8) translocation and FRA3B and also encompasses FRA3B-associated breakpoints was used to construct a multi-hit cosmid library. Screening of this library resulted in a 350-kb cosmid contig that extends distally from the t(3;8) translocation breakpoint. Seventeen aphidicolin-induced 3p14.2 breakpoints derived from hamster-human hybrids were mapped within this cosmid contig. These breakpoints were found to localize as two distinct clusters, separated by 200 kb, which lie on either side of a region of frequent breakage within FRA3B as defined by FISH analysis using cosmids from the contigs. The distribution of these breakpoints, together with the region of frequent chromosomal breakage mapped by FISH analysis, further confirms the position of FRA3B comprises several hundred kilobases of DNA sequence within 3p14.2. The 350-kb contig and the cosmid library constructed from YAC YC850A6 will be essential for further characterization of the region surrounding FRA3B and in experiments to determine the molecular basis of the fragility of FRA3B.

  20. Significance of density and demarcation of calcifications in calcifying tendinitis

    Energy Technology Data Exchange (ETDEWEB)

    Uhthoff, H.K.; Sarkar, K.; Hammond, I.

    1982-04-01

    Calcification of tendons can be either degenerative and progressive in nature or reactive and selfhealing. Radiologic examinations permit to distinguish between both kinds. The reactive calcification, known also as calcifying tendinitis, passes through two main phases, the formative and the resorptive phase. Since treatment is different for each phase, their roentgenologic distinction is important. Dense, well demarcated and homogenous calcifications indicate the presence of a formative phase whereas less dense, ill defined and fluffy deposits point toward an ongoing resorption.

  1. Precise detection of rearrangement breakpoints in mammalian chromosomes

    Directory of Open Access Journals (Sweden)

    Gautier Christian

    2008-06-01

    Full Text Available Abstract Background Genomes undergo large structural changes that alter their organisation. The chromosomal regions affected by these rearrangements are called breakpoints, while those which have not been rearranged are called synteny blocks. We developed a method to precisely delimit rearrangement breakpoints on a genome by comparison with the genome of a related species. Contrary to current methods which search for synteny blocks and simply return what remains in the genome as breakpoints, we propose to go further and to investigate the breakpoints themselves in order to refine them. Results Given some reliable and non overlapping synteny blocks, the core of the method consists in refining the regions that are not contained in them. By aligning each breakpoint sequence against its specific orthologous sequences in the other species, we can look for weak similarities inside the breakpoint, thus extending the synteny blocks and narrowing the breakpoints. The identification of the narrowed breakpoints relies on a segmentation algorithm and is statistically assessed. Since this method requires as input synteny blocks with some properties which, though they appear natural, are not verified by current methods for detecting such blocks, we further give a formal definition and provide an algorithm to compute them. The whole method is applied to delimit breakpoints on the human genome when compared to the mouse and dog genomes. Among the 355 human-mouse and 240 human-dog breakpoints, 168 and 146 respectively span less than 50 Kb. We compared the resulting breakpoints with some publicly available ones and show that we achieve a better resolution. Furthermore, we suggest that breakpoints are rarely reduced to a point, and instead consist in often large regions that can be distinguished from the sequences around in terms of segmental duplications, similarity with related species, and transposable elements. Conclusion Our method leads to smaller

  2. Kalman Filter Track Fits and Track Breakpoint Analysis

    CERN Document Server

    Astier, Pierre; Cousins, R D; Letessier-Selvon, A A; Popov, B A; Vinogradova, T G; Astier, Pierre; Cardini, Alessandro; Cousins, Robert D.; Letessier-Selvon, Antoine; Popov, Boris A.; Vinogradova, Tatiana

    2000-01-01

    We give an overview of track fitting using the Kalman filter method in the NOMAD detector at CERN, and emphasize how the wealth of by-product information can be used to analyze track breakpoints (discontinuities in track parameters caused by scattering, decay, etc.). After reviewing how this information has been previously exploited by others, we describe extensions which add power to breakpoint detection and characterization. We show how complete fits to the entire track, with breakpoint parameters added, can be easily obtained from the information from unbroken fits. Tests inspired by the Fisher F-test can then be used to judge breakpoints. Signed quantities (such as change in momentum at the breakpoint) can supplement unsigned quantities such as the various chisquares. We illustrate the method with electrons from real data, and with Monte Carlo simulations of pion decays.

  3. RACE RELATIONSHIPS: COLLEGIALITY AND DEMARCATION IN PHYSICAL ANTHROPOLOGY.

    Science.gov (United States)

    Sachs Collopy, Peter

    2015-01-01

    In 1962, anthropologist Carleton Coon argued in The Origin of Races that some human races had evolved further than others. Among his most vocal critics were geneticist Theodosius Dobzhansky and anthropologist Ashley Montagu, each of whom had known Coon for decades. I use this episode, and the long relationships between scientists that preceded it, to argue that scientific research on race was intertwined not only with political projects to conserve or reform race relations, but also with the relationships scientists shared as colleagues. Demarcation between science and pseudoscience, between legitimate research and scientific racism, involved emotional as well as intellectual labor.

  4. Characterization of the breakpoints of a polymorphic inversion complex detects strict and broad breakpoint reuse at the molecular level.

    Science.gov (United States)

    Puerma, Eva; Orengo, Dorcas J; Salguero, David; Papaceit, Montserrat; Segarra, Carmen; Aguadé, Montserrat

    2014-09-01

    Inversions are an integral part of structural variation within species, and they play a leading role in genome reorganization across species. Work at both the cytological and genome sequence levels has revealed heterogeneity in the distribution of inversion breakpoints, with some regions being recurrently used. Breakpoint reuse at the molecular level has mostly been assessed for fixed inversions through genome sequence comparison, and therefore rather broadly. Here, we have identified and sequenced the breakpoints of two polymorphic inversions-E1 and E2 that share a breakpoint-in the extant Est and E1 + 2 chromosomal arrangements of Drosophila subobscura. The breakpoints are two medium-sized repeated motifs that mediated the inversions by two different mechanisms: E1 via staggered breaks and subsequent repair and E2 via repeat-mediated ectopic recombination. The fine delimitation of the shared breakpoint revealed its strict reuse at the molecular level regardless of which was the intermediate arrangement. The occurrence of other rearrangements in the most proximal and distal extended breakpoint regions reveals the broad reuse of these regions. This differential degree of fragility might be related to their sharing the presence outside the inverted region of snoRNA-encoding genes.

  5. Multiple genetic loci within 11p15 defined by Beckwith-Wiedemann syndrome rearrangement breakpoints and subchromosomal transferable fragments.

    Science.gov (United States)

    Hoovers, J M; Kalikin, L M; Johnson, L A; Alders, M; Redeker, B; Law, D J; Bliek, J; Steenman, M; Benedict, M; Wiegant, J

    1995-01-01

    Beckwith-Wiedemann syndrome (BWS) involves fetal overgrowth and predisposition to a wide variety of embryonal tumors of childhood. We have previously found that BWS is genetically linked to 11p15 and that this same band shows loss of heterozygosity in the types of tumors to which children with BWS are susceptible. However, 11p15 contains > 20 megabases, and therefore, the BWS and tumor suppressor genes could be distinct. To determine the precise physical relationship between these loci, we isolated yeast artificial chromosomes, and cosmid libraries from them, within the region of loss of heterozygosity in embryonal tumors. Five germ-line balanced chromosomal rearrangement breakpoint sites from BWS patients, as well as a balanced chromosomal translocation breakpoint from a rhabdoid tumor, were isolated within a 295- to 320-kb cluster defined by a complete cosmid contig crossing these breakpoints. This breakpoint cluster terminated approximately 100 kb centromeric to the imprinted gene IGF2 and 100 kb telomeric to p57KIP2, an inhibitor of cyclin-dependent kinases, and was located within subchromosomal transferable fragments that suppressed the growth of embryonal tumor cells in genetic complementation experiments. We have identified 11 transcribed sequences in this BWS/tumor suppressor coincident region, one of which corresponded to p57KIP2. However, three additional BWS breakpoints were > 4 megabases centromeric to the other five breakpoints and were excluded from the tumor suppressor region defined by subchromosomal transferable fragments. Thus, multiple genetic loci define BWS and tumor suppression on 11p15. Images Fig. 1 Fig. 3 PMID:8618920

  6. The demarcation of permanent preservation areas along rivers

    Directory of Open Access Journals (Sweden)

    João de Deus Medeiros

    2013-06-01

    Full Text Available Through the analysis of the new Brazilian Forest Code (Law 4,771/65 legislative reform, this paper shows the evolution of legal protection to the riparian system (marginal strips, defined as vegetation strings along rivers and other water bodies, which vary according to the water body width. The demarcation of permanent preservation areas along rivers is a complex process which has led to doubts and conflicts. Riparian systems are spaces aimed at the agricultural expansion and, thus, they’re under pressure. The analysis showed that the limitation posed by the new rule agrees with the principle of reasonableness. The new Brazilian Forest Code review, which is currently included in the National Congress agenda, will be able to positively contribute to achieve the possible and desired balance between respect to the natural environment and expansion of land uses.

  7. Pigmentary demarcation lines on the face in Saudi women

    Directory of Open Access Journals (Sweden)

    Al-Samary Abdullah

    2010-01-01

    Full Text Available Background: Pigmentary demarcation lines (PDL are physiological abrupt transition lines between hyperpigmented skin and lighter areas. Recent evidence suggests that they involve the face. Aims: To survey facial PDL in Saudi females referred to general dermatology clinics for various complaints and determine any associated risks. Methods: Screening for facial lines was done in general dermatology clinics over a year. Whenever a patient was found to have facial PDL, a detailed questionnaire and examination were undertaken. Results: Out of 1033 patients screened, 144 patients (14% were found to have at least one of the facial PDLs. The median age of onset was 16 years. The most common line was F with 76 patients (53%. Family history was positive in 51 patients (35%. Conclusion: Facial PDL is a common and chronic pigmentary problem in Saudi women. It should be recognized and differentiated from other similar diseases like melasma. A significant proportion of patients have a milder presentation.

  8. Comparison of antimicrobial pharmacokinetic/pharmacodynamic breakpoints with EUCAST and CLSI clinical breakpoints for Gram-positive bacteria.

    Science.gov (United States)

    Asín, Eduardo; Isla, Arantxazu; Canut, Andrés; Rodríguez Gascón, Alicia

    2012-10-01

    This study compared the susceptibility breakpoints based on pharmacokinetic/pharmacodynamic (PK/PD) models and Monte Carlo simulation with those defined by the Clinical and Laboratory Standards Institute (CLSI) and the European Committee on Antimicrobial Susceptibility Testing (EUCAST) for antibiotics used for the treatment of infections caused by Gram-positive bacteria. A secondary objective was to evaluate the probability of achieving the PK/PD target associated with the success of antimicrobial therapy. A 10,000-subject Monte Carlo simulation was executed to evaluate 13 antimicrobials (47 intravenous dosing regimens). Susceptibility data were extracted from the British Society for Antimicrobial Chemotherapy database for bacteraemia isolates. The probability of target attainment and the cumulative fraction of response (CFR) were calculated. No antibiotic was predicted to be effective (CFR≥90%) against all microorganisms. The PK/PD susceptibility breakpoints were also estimated and were compared with CLSI and EUCAST breakpoints. The percentages of strains affected by breakpoint discrepancies were calculated. In the case of β-lactams, breakpoint discrepancies affected <15% of strains. However, higher differences were detected for low doses of vancomycin, daptomycin and linezolid, with PK/PD breakpoints being lower than those defined by the CLSI and EUCAST. If this occurs, an isolate will be considered susceptible based on CLSI and EUCAST breakpoints although the PK/PD analysis predicts failure, which may explain treatment failures reported in the literature. This study reinforces the idea of considering not only the antimicrobial activity but also the dosing regimen to increase the probability of clinical success of an antimicrobial treatment.

  9. DNA Probe Pooling for Rapid Delineation of Chromosomal Breakpoints

    Energy Technology Data Exchange (ETDEWEB)

    Lu, Chun-Mei; Kwan, Johnson; Baumgartner, Adolf; Weier, Jingly F.; Wang, Mei; Escudero, Tomas; Munne' , Santiago; Zitzelsberger, Horst F.; Weier, Heinz-Ulrich

    2009-01-30

    Structural chromosome aberrations are hallmarks of many human genetic diseases. The precise mapping of translocation breakpoints in tumors is important for identification of genes with altered levels of expression, prediction of tumor progression, therapy response, or length of disease-free survival as well as the preparation of probes for detection of tumor cells in peripheral blood. Similarly, in vitro fertilization (IVF) and preimplantation genetic diagnosis (PGD) for carriers of balanced, reciprocal translocations benefit from accurate breakpoint maps in the preparation of patient-specific DNA probes followed by a selection of normal or balanced oocytes or embryos. We expedited the process of breakpoint mapping and preparation of case-specific probes by utilizing physically mapped bacterial artificial chromosome (BAC) clones. Historically, breakpoint mapping is based on the definition of the smallest interval between proximal and distal probes. Thus, many of the DNA probes prepared for multi-clone and multi-color mapping experiments do not generate additional information. Our pooling protocol described here with examples from thyroid cancer research and PGD accelerates the delineation of translocation breakpoints without sacrificing resolution. The turnaround time from clone selection to mapping results using tumor or IVF patient samples can be as short as three to four days.

  10. On the Complexity of Rearrangement Problems under the Breakpoint Distance

    CERN Document Server

    Kovac, Jakub

    2011-01-01

    Tannier et al. introduced a generalization of breakpoint distance for multichromosomal genomes. They showed that the median problem under the breakpoint distance is solvable in polynomial time in the multichromosomal circular and mixed models. This is intriguing, since in all other rearrangement models (DCJ, reversal, unichromosomal or multilinear breakpoint models), the problem is NP-hard. The complexity of the small or even the large phylogeny problem under the breakpoint distance remained an open problem. We improve the algorithm for the median problem and show that it is equivalent to the problem of finding maximum cardinality non-bipartite matching (under linear reduction). On the other hand, we prove that the more general small phylogeny problem is NP-hard. Surprisingly, we show that it is already NP-hard (or even APX-hard) for 4 species (a quartet phylogeny). In other words, while finding an ancestor for 3 species is easy, already finding two ancestors for 4 species is hard. We also show that, in the u...

  11. Breakpoints for carbapenemase-producing Enterobacteriaceae: is the problem solved?

    Science.gov (United States)

    Cantón, Rafael; Canut, Andrés; Morosini, María Isabel; Oliver, Antonio

    2014-12-01

    The imipenem and meropenem breakpoints for Enterobacteriaceae established by the Clinical and Laboratory Standards Institute (CLSI) are somewhat lower than those established by the European Committee on Antimicrobial Susceptibility Testing (EUCAST), but are identical for ertapenem and doripenem. The differences are primarily due to the various pharmacokinetic/pharmacodynamic (PK/PD) approaches used to define these breakpoints. Both approaches use the Monte Carlo simulation with a probability of target attainment (PTA) for reaching the PD target of free drug concentration above the minimum inhibitory concentration (MIC) at least 40% of the time (~40%fT >MIC). EUCAST uses PTA mean values with confidence intervals (CIs) of 95% and 99%, whereas the CI used by CLSI is 90%. In addition, CLSI uses an "inflated variance" that takes into account the variability of PK parameters in various types of patients, particularly those who are critically ill. By employing this approach, the susceptible CLSI breakpoint captures a higher number of carbapenemase-producing Enterobacteriaceae (CPE) than EUCAST. EUCAST, however, has recently defined cut-off values for screening CPE. Both committees recommend reporting carbapenem susceptibility results "as tested," demonstrating carbapenemase production only for epidemiological purposes and infection control. New clinical data could potentially modify this recommendation because carbapenemase production also influences specific treatment guidance concerning carbapenems in combination with other antimicrobials in infections due to CPE. This advice should not be followed when imipenem or meropenem MICs are >8mg/L, which is coincident with the EUCAST resistant breakpoints for these carbapenems.

  12. Fast detection of deletion breakpoints using quantitative PCR

    Directory of Open Access Journals (Sweden)

    Gulshara Abildinova

    2016-01-01

    Full Text Available Abstract The routine detection of large and medium copy number variants (CNVs is well established. Hemizygotic deletions or duplications in the large Duchenne muscular dystrophy DMD gene responsible for Duchenne and Becker muscular dystrophies are routinely identified using multiple ligation probe amplification and array-based comparative genomic hybridization. These methods only map deleted or duplicated exons, without providing the exact location of breakpoints. Commonly used methods for the detection of CNV breakpoints include long-range PCR and primer walking, their success being limited by the deletion size, GC content and presence of DNA repeats. Here, we present a strategy for detecting the breakpoints of medium and large CNVs regardless of their size. The hemizygous deletion of exons 45-50 in the DMD gene and the large autosomal heterozygous PARK2 deletion were used to demonstrate the workflow that relies on real-time quantitative PCR to narrow down the deletion region and Sanger sequencing for breakpoint confirmation. The strategy is fast, reliable and cost-efficient, making it amenable to widespread use in genetic laboratories.

  13. Molecular cloning and analysis of breakpoints on ring chromosome 17 in a patient with autism.

    Science.gov (United States)

    Vazna, Alzbeta; Havlovicova, Marketa; Sedlacek, Zdenek

    2008-01-15

    The breakpoint junction on a ring chromosome 17 in a girl with autism, mental retardation, mild dysmorphism and neurofibromatosis was identified and analysed at the nucleotide level. The extent of the deleted segments was about 1.9 Mb on 17p and about 1.0 Mb on 17q. The structure of the junction between the 17p and 17q arms, especially the lack of significant homology between the juxtaposed genomic regions and the presence of short microhomology at the junction site, indicated non-homologous end joining as the most likely mechanism leading to the rearrangement. In addition to the 17p-17q junction itself, a de novo 1 kb deletion in a distance of 400 bp from the junction was identified, which arose most likely as a part of the rearrangement. The defect directly inactivated 3 genes, and the deleted terminal chromosome segments harboured 27 and 14 protein-coding genes from 17p and 17q, respectively. Several of the genes affected by the rearrangement are candidates for the symptoms observed in the patient. Additional rearrangements similar to the 1 kb deletion observed in our patient may remain undetected but can participate in the phenotype of patients with chromosomal aberrations. They can also be the reason for repeated failures to clone breakpoint junctions in other patients described in the literature.

  14. Sequence determinants of breakpoint location during HIV-1 intersubtype recombination.

    Science.gov (United States)

    Baird, Heather A; Galetto, Román; Gao, Yong; Simon-Loriere, Etienne; Abreha, Measho; Archer, John; Fan, Jun; Robertson, David L; Arts, Eric J; Negroni, Matteo

    2006-01-01

    Retroviral recombination results from strand switching, during reverse transcription, between the two copies of genomic RNA present in the virus. We analysed recombination in part of the envelope gene, between HIV-1 subtype A and D strains. After a single infection cycle, breakpoints clustered in regions corresponding to the constant portions of Env. With some exceptions, a similar distribution was observed after multiple infection cycles, and among recombinant sequences in the HIV Sequence Database. We compared the experimental data with computer simulations made using a program that only allows recombination to occur whenever an identical base is present in the aligned parental RNAs. Experimental recombination was more frequent than expected on the basis of simulated recombination when, in a region spanning 40 nt from the 5' border of a breakpoint, no more than two discordant bases between the parental RNAs were present. When these requirements were not fulfilled, breakpoints were distributed randomly along the RNA, closer to the distribution predicted by computer simulation. A significant preference for recombination was also observed for regions containing homopolymeric stretches. These results define, for the first time, local sequence determinants for recombination between divergent HIV-1 isolates.

  15. Sequence determinants of breakpoint location during HIV-1 intersubtype recombination

    Science.gov (United States)

    Baird, Heather A.; Galetto, Román; Gao, Yong; Simon-Loriere, Etienne; Abreha, Measho; Archer, John; Fan, Jun; Robertson, David L.; Arts, Eric J.; Negroni, Matteo

    2006-01-01

    Retroviral recombination results from strand switching, during reverse transcription, between the two copies of genomic RNA present in the virus. We analysed recombination in part of the envelope gene, between HIV-1 subtype A and D strains. After a single infection cycle, breakpoints clustered in regions corresponding to the constant portions of Env. With some exceptions, a similar distribution was observed after multiple infection cycles, and among recombinant sequences in the HIV Sequence Database. We compared the experimental data with computer simulations made using a program that only allows recombination to occur whenever an identical base is present in the aligned parental RNAs. Experimental recombination was more frequent than expected on the basis of simulated recombination when, in a region spanning 40 nt from the 5′ border of a breakpoint, no more than two discordant bases between the parental RNAs were present. When these requirements were not fulfilled, breakpoints were distributed randomly along the RNA, closer to the distribution predicted by computer simulation. A significant preference for recombination was also observed for regions containing homopolymeric stretches. These results define, for the first time, local sequence determinants for recombination between divergent HIV-1 isolates. PMID:17003055

  16. Chromosomal breakpoints characterization of two supernumerary ring chromosomes 20.

    Science.gov (United States)

    Guediche, N; Brisset, S; Benichou, J-J; Guérin, N; Mabboux, P; Maurin, M-L; Bas, C; Laroudie, M; Picone, O; Goldszmidt, D; Prévot, S; Labrune, P; Tachdjian, G

    2010-02-01

    The occurrence of an additional ring chromosome 20 is a rare chromosome abnormality, and no common phenotype has been yet described. We report on two new patients presenting with a supernumerary ring chromosome 20 both prenatally diagnosed. The first presented with intrauterine growth retardation and some craniofacial dysmorphism, and the second case had a normal phenotype except for obesity. Conventional cytogenetic studies showed for each patient a small supernumerary marker chromosome (SMC). Using fluorescence in situ hybridization, these SMCs corresponded to ring chromosomes 20 including a part of short and long arms of chromosome 20. Detailed molecular cytogenetic characterization showed different breakpoints (20p11.23 and 20q11.23 for Patient 1 and 20p11.21 and 20q11.21 for Patient 2) and sizes of the two ring chromosomes 20 (13.6 Mb for case 1 and 4.8 Mb for case 2). Review of the 13 case reports of an extra r(20) ascertained postnatally (8 cases) and prenatally (5 cases) showed varying degrees of phenotypic abnormalities. We document a detailed molecular cytogenetic chromosomal breakpoints characterization of two cases of supernumerary ring chromosomes 20. These results emphasize the need to characterize precisely chromosomal breakpoints of supernumerary ring chromosomes 20 in order to establish genotype-phenotype correlation. This report may be helpful for prediction of natural history and outcome, particularly in prenatal diagnosis.

  17. A simple strategy for breakpoint fragment determination in chronic myeloid leukemia.

    Science.gov (United States)

    Kamel, A M; Shaker, H M; GadAllah, F H; Hamza, M R; Mansour, O; El Hattab, O H; Moussa, H S

    2000-10-15

    Molecular characterization is considered a part of the routine work-up of chronic myeloid leukemia (CML) cases. Southern blot analysis using the universal BCR (UBCR) probe on BglII-digested DNA samples is the most commonly used technique, while employing the human 3' bcr probe (PR-1) is usually considered a complementary tool. In this study, we tried to develop a simple and economic strategy for molecular characterization of CML using the 3' probe as it has been shown to be the one capable of locating the breakpoint site. Seventy-eight cases of CML were studied. Molecular analysis was performed using the Southern blot technique. DNA was digested with Bam HI, BglII, EcoRI, and XbaI. Hybridization was performed using the human 3' bcr (PR-1) probe. BamHI and BglII could differentiate fragment 1 (F1) showing rearrangement (R) with Bam HI and germline configuration (G) with BglII; F2/3 showing R with both, and F4 showing R with BamHI and G with BglII. F2/3 cases were further divided by HindIII enzyme into F2 showing (G) and F3 showing (R). Fragment 0 showed G with both, but R with EcoRI and/or XbaI, while 3' deletion gave G with all four enzymes. Our results showed a relative incidence of 6.4% for F0, 20.5% for F1, 32.1% for F2, 19.2% for F3, 15.4% for F4, and 6.4% for 3' deletion. Sixty cases were evaluated clinically and hematologically and were followed up for disease evolution and survival. They included 32 cases in early chronic phase, 24 in late chronic phase, two in acceleration, and two in blastic crisis. No significant correlation was encountered between the breakpoint site and any of the clinical and hematological data except those patients with 3' deletion who showed a very short survival. The study emphasizes Southern blotting as the method of choice for molecular characterization of CML and offers a simple and economic strategy for diagnosis and determination of breakpoint fragment.

  18. Investigation of the breakpoint region in stacks with a finite number of intrinsic Josephson junctions

    DEFF Research Database (Denmark)

    Shukrinov, Yu M.; Mahfouzi, F.; Pedersen, Niels Falsig

    2007-01-01

    We study the breakpoint region on the outermost branch of current-voltage characteristics of the stacks with di_erent number of intrinsic Josephson junctions. E_ect of the boundary conditions on the breakpoint region is demonstrated. At periodic boundary conditions the breakpoint region is absent...... and the saturated value depend on the coupling between junctions. We explain the results by the parametric resonance at the breakpoint and excitation of the longitudinal plasma wave by the Josephson oscillations. A way for the diagnostics of the junctions in the stack is proposed....

  19. Revised ciprofloxacin breakpoints for Salmonella Typhi: its implications in India.

    Science.gov (United States)

    Balaji, V; Sharma, A; Ranjan, P; Kapil, A

    2014-01-01

    The rise of multidrug resistant strains of Salmonella Typhi in the last decade of the previous century led to the use of fluoroquinolones as the drug of choice. However, over the past few years fluoroquinolone resistance has been increasingly reported. In accordance with the revised Clinical and Laboratory Standards Institute (CLSI) breakpoints, only 3% of the isolates were susceptible to ciprofloxacin in comparison to 95% as per the earlier guidelines when 488 isolates collected between 2010 and 2012 were re-interpreted. Interestingly, re-emergence of strains susceptible to chloramphenicol, ampicillin and cotrimoxazole is being seen. Amidst the changing susceptibility profile, azithromycin remains a promising alternative.

  20. Antimicrobial breakpoint estimation accounting for variability in pharmacokinetics

    Directory of Open Access Journals (Sweden)

    Nekka Fahima

    2009-06-01

    Full Text Available Abstract Background Pharmacokinetic and pharmacodynamic (PK/PD indices are increasingly being used in the microbiological field to assess the efficacy of a dosing regimen. In contrast to methods using MIC, PK/PD-based methods reflect in vivo conditions and are more predictive of efficacy. Unfortunately, they entail the use of one PK-derived value such as AUC or Cmax and may thus lead to biased efficiency information when the variability is large. The aim of the present work was to evaluate the efficacy of a treatment by adjusting classical breakpoint estimation methods to the situation of variable PK profiles. Methods and results We propose a logical generalisation of the usual AUC methods by introducing the concept of "efficiency" for a PK profile, which involves the efficacy function as a weight. We formulated these methods for both classes of concentration- and time-dependent antibiotics. Using drug models and in silico approaches, we provide a theoretical basis for characterizing the efficiency of a PK profile under in vivo conditions. We also used the particular case of variable drug intake to assess the effect of the variable PK profiles generated and to analyse the implications for breakpoint estimation. Conclusion Compared to traditional methods, our weighted AUC approach gives a more powerful PK/PD link and reveals, through examples, interesting issues about the uniqueness of therapeutic outcome indices and antibiotic resistance problems.

  1. Genetic mapping and genomic selection using recombination breakpoint data.

    Science.gov (United States)

    Xu, Shizhong

    2013-11-01

    The correct models for quantitative trait locus mapping are the ones that simultaneously include all significant genetic effects. Such models are difficult to handle for high marker density. Improving statistical methods for high-dimensional data appears to have reached a plateau. Alternative approaches must be explored to break the bottleneck of genomic data analysis. The fact that all markers are located in a few chromosomes of the genome leads to linkage disequilibrium among markers. This suggests that dimension reduction can also be achieved through data manipulation. High-density markers are used to infer recombination breakpoints, which then facilitate construction of bins. The bins are treated as new synthetic markers. The number of bins is always a manageable number, on the order of a few thousand. Using the bin data of a recombinant inbred line population of rice, we demonstrated genetic mapping, using all bins in a simultaneous manner. To facilitate genomic selection, we developed a method to create user-defined (artificial) bins, in which breakpoints are allowed within bins. Using eight traits of rice, we showed that artificial bin data analysis often improves the predictability compared with natural bin data analysis. Of the eight traits, three showed high predictability, two had intermediate predictability, and two had low predictability. A binary trait with a known gene had predictability near perfect. Genetic mapping using bin data points to a new direction of genomic data analysis.

  2. Evaluation of the Diagnostic Ability of Optical Enhancement System in Early Gastric Cancer Demarcation

    Science.gov (United States)

    Nagao, Misato; Ogawa, Ryo; Sasaki, Sho; Nakamura, Munetaka; Nishimura, Junichi; Goto, Atsushi; Hashimoto, Shinichi; Okamoto, Takeshi; Suenaga, Masato

    2016-01-01

    This study aimed to evaluate the utility of optical enhancement (OE) in early gastric cancer demarcation. Twenty lesions of early gastric cancer were examined by PENTAX endoscopy system with OE-1 and OE-2 functions. The areas of tumor demarcation identified by 12 evaluators (6 novice and 6 experienced) were compared to the corresponding correct areas determined by postoperative histopathology findings. The misdiagnosed scores that were the sums of false-positive and false-negative areas were compared. Color of one hundred pixels from the inside of the cancerous area and the outside of the cancerous area was expressed as three-dimensional RGB component vectors. The mean vectors and covariance matrixes were calculated and the Mahalanobis distance, indicative of color differences between two areas, was tested. Comparisons of the misdiagnosed score revealed that OE-1 was preferred over WL-1 for gastric cancer demarcation for all 12 evaluators (p = 0.008) and in novice evaluators (p = 0.026). OE-2 was not significantly different from WL-2 in all cases. OE-1 images gave significantly larger Mahalanobis distances, indicative of color differences, than WL-1 images (p = 0.002). It was demonstrated that the OE Mode 1 has a significant advantage over the white light mode in demarcation of early gastric cancer.

  3. Are we not experimenting then? : The rhetorical demarcation of psychology and common sense

    NARCIS (Netherlands)

    Derksen, M.

    1997-01-01

    Scientific disciplines need both autonomy and alliances with other cultural groups. In order to achieve these twin goals, scientists have to engage in boundary rhetoric and popularize the demarcation of their discipline. In the case of psychology in particular such rhetoric involves a paradoxical ro

  4. ESTIMATING THE AGE OF DEMARCATION OF JUVENILE AND MATURE WOOD IN Luehea divaricata Mart.

    Directory of Open Access Journals (Sweden)

    Darci Alberto Gatto

    2009-09-01

    Full Text Available This study aimed at determining the age of demarcation of juvenile and mature wood of Luehea divaricata Mart., using anatomical characteristics. Three adult trees, in good trunk, with diameter at DBH larger than 30 cm, from Encosta Superior do Nordeste do Estado do Rio Grande do Sul, were selected. Discs with thickness of 2 cm at 0.1 m of height from the base of the trunk were used. From each disc a radial ribbon 2 cm wide including the pith was removed. The initial wood of each growth ring was separated for maceration (method of Jeffrey. There were measured length and diameter of thirty fibers from each growth ring. Demarcation of the two types of wood was defined by the radial variation (pith-bark of the anatomical characteristics (length, diameter, width of the lumen and wall thickness of fibers, using simple linear regression. Results indicate that fiber length is the best characteristic, while fiber diameter, lumen width and wall thickness were considered inadequate for demarcation. The age of demarcation of juvenile and mature wood of Luehea divaricata was defined as 21 years-old, approximately.

  5. European gene mapping project (EUROGEM) : Breakpoint panels for human chromosomes based on the CEPH reference families

    NARCIS (Netherlands)

    Attwood, J; Bryant, SP; Bains, R; Povey, R; Povey, S; Rebello, M; Kapsetaki, M; Moschonas, NK; Grzeschik, KH; Otto, M; Dixon, M; Sudworth, HE; Kooy, RF; Wright, A; Teague, P; Terrenato, L; Vergnaud, G; Monfouilloux, S; Weissenbach, J; Alibert, O; Dib, C; Faure, S; Bakker, E; Pearson, NM; Vossen, RHAM; Gal, A; MuellerMyhsok, B; Cann, HM; Spurr, NK

    1996-01-01

    Meiotic breakpoint panels for human chromosomes 2, 3, 4, 5, 6, 7, 8, 9, 10, 13, 14, 15, 17; 18, 20 and X were constructed from genotypes from the CEPH reference families. Each recombinant chromosome included has a breakpoint well-supported with reference to defined quantitative criteria. The panels

  6. Structure of the breakpoint region on current-voltage characteristics of intrinsic Josephson junctions

    Science.gov (United States)

    Shukrinov, Yu. M.; Mahfouzi, F.; Suzuki, M.

    2008-10-01

    A fine structure of the breakpoint region in the current-voltage characteristics of the coupled intrinsic Josephson junctions in the layered superconductors is found. We establish a correspondence between the features in the current-voltage characteristics and the character of the charge oscillations in superconducting layers in the stack and explain the origin of the breakpoint region structure.

  7. Recurrence of Chromosome Rearrangements and Reuse of DNA Breakpoints in the Evolution of the Triticeae Genomes

    Directory of Open Access Journals (Sweden)

    Wanlong Li

    2016-12-01

    Full Text Available Chromosomal rearrangements (CRs play important roles in karyotype diversity and speciation. While many CR breakpoints have been characterized at the sequence level in yeast, insects, and primates, little is known about the structure of evolutionary CR breakpoints in plant genomes, which are much more dynamic in genome size and sequence organization. Here, we report identification of breakpoints of a translocation between chromosome arms 4L and 5L of Triticeae, which is fixed in several species, including diploid wheat and rye, by comparative mapping and analysis of the draft genome and chromosome survey sequences of the Triticeae species. The wheat translocation joined the ends of breakpoints downstream of a WD40 gene on 4AL and a gene of the PMEI family on 5AL. A basic helix-loop-helix transcription factor gene in 5AL junction was significantly restructured. Rye and wheat share the same position for the 4L breakpoint, but the 5L breakpoint positions are not identical, although very close in these two species, indicating the recurrence of 4L/5L translocations in the Triticeae. Although barley does not carry the translocation, collinearity across the breakpoints was violated by putative inversions and/or transpositions. Alignment with model grass genomes indicated that the translocation breakpoints coincided with ancient inversion junctions in the Triticeae ancestor. Our results show that the 4L/5L translocation breakpoints represent two CR hotspots reused during Triticeae evolution, and support breakpoint reuse as a widespread mechanism in all eukaryotes. The mechanisms of the recurrent translocation and its role in Triticeae evolution are also discussed.

  8. "Bewitching" or confusing methaphysics? The demarcation between science and metaphysics according to Karl Popper

    Directory of Open Access Journals (Sweden)

    M. Elaine Botha

    1986-03-01

    Full Text Available The problems of both classical and modern theory of knowledge, according to Popper, reside in the problem of demarcation: a problem closely re­ lated to the problem of induction. The paper argues the view that Popper's view of metaphysics is ambiguous, requiring another criterion to distinguish between "good " and "bad " metaphysics. The sources of the problem are pinpointed, and Popper's distinction between three types of theory outlined. The article then explores the distinction between types of theories and the issues of falsification, testability and refutation, before going on to a consideration of the relationship between science and metaphysics, and w eighing up the issue of good ancid metaphysics. From this emerges clearly that the second "criterionot demarcation" is needed to make precisely this distinction; also in view of Popper's u n ­ clear, even ambiguous, view of metaphysics.

  9. Dependent component analysis based approach to robust demarcation of skin tumors

    Science.gov (United States)

    Kopriva, Ivica; Peršin, Antun; Puizina-Ivić, Neira; Mirić, Lina

    2009-02-01

    Method for robust demarcation of the basal cell carcinoma (BCC) is presented employing novel dependent component analysis (DCA)-based approach to unsupervised segmentation of the red-green-blue (RGB) fluorescent image of the BCC. It exploits spectral diversity between the BCC and the surrounding tissue. DCA represents an extension of the independent component analysis (ICA) and is necessary to account for statistical dependence induced by spectral similarity between the BCC and surrounding tissue. Robustness to intensity fluctuation is due to the scale invariance property of DCA algorithms. By comparative performance analysis with state-of-the-art image segmentation methods such as active contours (level set), K-means clustering, non-negative matrix factorization and ICA we experimentally demonstrate good performance of DCA-based BCC demarcation in demanding scenario where intensity of the fluorescent image has been varied almost two-orders of magnitude.

  10. Demarcation of Prime Farmland Protection Areas around a Metropolis Based on High-Resolution Satellite Imagery

    Science.gov (United States)

    Xia, Nan; Wang, Yajun; Xu, Hao; Sun, Yuefan; Yuan, Yi; Cheng, Liang; Jiang, Penghui; Li, Manchun

    2016-12-01

    Prime farmland (PF) is defined as high-quality farmland and a prime farmland protection area (PFPA, including related roads, waters and facilities) is a region designated for the special protection of PF. However, rapid urbanization in China has led to a tremendous farmland loss and to the degradation of farmland quality. Based on remote sensing and geographic information system technology, this study developed a semiautomatic procedure for designating PFPAs using high-resolution satellite imagery (HRSI), which involved object-based image analysis, farmland composite evaluation, and spatial analysis. It was found that the HRSIs can provide elaborate land-use information, and the PFPA demarcation showed strong correlation with the farmland area and patch distance. For the benefit of spatial planning and management, different demarcation rules should be applied for suburban and exurban areas around a metropolis. Finally, the overall accuracy of HRSI classification was about 80% for the study area, and high-quality farmlands from evaluation results were selected as PFs. About 95% of the PFs were demarcated within the PFPAs. The results of this study will be useful for PFPA planning and the methods outlined could help in the automatic designation of PFPAs from the perspective of the spatial science.

  11. Impact of CLSI Breakpoint Changes on Microbiology Laboratories and Antimicrobial Stewardship Programs.

    Science.gov (United States)

    Heil, Emily L; Johnson, J Kristie

    2016-04-01

    In 2010, the Clinical and Laboratory Standards Institute (CLSI) lowered the MIC breakpoints for many beta-lactam antibiotics to enhance detection of known resistance amongEnterobacteriaceae The decision to implement these new breakpoints, including the changes announced in both 2010 and 2014, can have a significant impact on both microbiology laboratories and antimicrobial stewardship programs. In this commentary, we discuss the changes and how implementation of these updated CLSI breakpoints requires partnership between antimicrobial stewardship programs and the microbiology laboratory, including data on the impact that the changes had on antibiotic usage at our own institution.

  12. Performance of Vitek 2 for antimicrobial susceptibility testing of Enterobacteriaceae with Vitek 2 (2009 FDA) and 2014 CLSI breakpoints.

    Science.gov (United States)

    Bobenchik, April M; Deak, Eszter; Hindler, Janet A; Charlton, Carmen L; Humphries, Romney M

    2015-03-01

    Vitek 2 (bioMérieux Inc., Durham, NC) is a widely used commercial antimicrobial susceptibility test system. We compared the MIC results obtained using the Vitek 2 AST-GN69 and AST-XN06 cards to those obtained by CLSI broth microdilution (BMD) for 255 isolates of Enterobacteriaceae, including 25 isolates of carbapenem-resistant Enterobacteriaceae. In total, 25 antimicrobial agents were examined. For 10 agents, the MIC data were evaluated using two sets of breakpoints: (i) the Vitek 2 breakpoints, which utilized the 2009 FDA breakpoints at the time of the study and are equivalent to the 2009 CLSI M100-S19 breakpoints, and (ii) the 2014 CLSI M100-S24 breakpoints. There was an overall 98.7% essential agreement (EA). The categorical agreement was 95.5% (CA) using the Vitek 2 breakpoints and 95.7% using the CLSI breakpoints. There was 1 very major error (VME) (0.05%) observed using the Vitek 2 breakpoints (cefazolin) and 8 VMEs (0.5%) using the CLSI breakpoints (2 each for aztreonam, cefepime, and ceftriaxone, and 1 for cefazolin and ceftazidime). Fifteen major errors (MEs) (0.4%) were noted using the Vitek 2 breakpoints and 8 (0.5%) using the CLSI breakpoints. Overall, the Vitek 2 performance was comparable to that of BMD for testing a limited number of Enterobacteriaceae commonly isolated by clinical laboratories. Ongoing studies are warranted to assess performance in isolates with emerging resistance.

  13. Investigation of the breakpoint region in stacks with a finite number of intrinsic Josephson junctions

    Science.gov (United States)

    Shukrinov, Yu. M.; Mahfouzi, F.; Pedersen, N. F.

    2007-03-01

    We study the breakpoint region on the outermost branch of the current-voltage characteristics of stacks with different numbers of intrinsic Josephson junctions. We show that at periodic boundary conditions the breakpoint region is absent for stacks with an even number of junctions. For stacks with an odd number of junctions and for stacks with nonperiodic boundary conditions the breakpoint current increases with the number of junctions and saturates at a value corresponding to the periodic boundary conditions. The region of saturation and the saturated value depend on the coupling between the junctions. We explain the results by the parametric resonance at the breakpoint and excitation of a longitudinal plasma wave by Josephson oscillations. A method for diagnostics of the junctions in the stack is proposed.

  14. Influence of Coupling between Junctions on Breakpoint Current in Intrinsic Josephson Junctions

    Science.gov (United States)

    Shukrinov, Yu. M.; Mahfouzi, F.

    2007-04-01

    We study theoretically the current-voltage characteristics of intrinsic Josephson junctions in high-Tc superconductors. An oscillation of the breakpoint current on the outermost branch as a function of coupling α and dissipation β parameters is found. We explain this oscillation as a result of the creation of longitudinal plasma waves at the breakpoint with different wave numbers. We demonstrate the commensurability effect and predict a group behavior of the current-voltage characteristics for the stacks with a different number of junctions. A method to determine the wave number of longitudinal plasma waves from α and β dependence of the breakpoint current is suggested. We model the α and β dependence of the breakpoint current and obtain good agreement with the results of the simulation.

  15. Distribution of Chromosome Breakpoints in Human Epithelial Cells Exposed to Low- and High-LET Radiation

    Science.gov (United States)

    Hada, Megumi; Zhang, Ye; Cucinotta, Francis A.; Feiveson, Alan; Wu, Honglu

    2010-01-01

    Low-and high-LET radiations produced distinct breakpoint distributions. The difference of the breakpoint distributions between low-and high-LET only appeared in break ends involved in interchromosome exchanges. The breakpoint distributions for break ends participating in intrachromosome exchanges were similar. Gene-rich regions do not necessarily have more chromosome breaks. High-LET appeared to produce long live (data not shown) or longer live breaks that can migrate a longer distance before rejoining with other breaks. Domains occupied by different segments of the chromosomes may be responsible for the breakpoint distribution. The dose responses for interchromosomal exchanges were linear in all four exposures. However, the dose response for intrachromosomal exchanges were none linear. Increasing dose of high dose rate exposure (Fe-ions or -rays) increase the fraction of cells with intrachromosome aberrations, whereas increasing dose of low dose rate exposure (neutrons or -rays) does not affect the fraction of cells with intrachromosome aberrations.

  16. A Case of Woolly Hair Nevus Associated with Pigmentary Demarcation Lines and Heterochromia Iridis: Coincidence or a New Association?

    Science.gov (United States)

    Kocak, Aslihan Yonca; Kocak, Oguzhan

    2015-01-01

    We report a case of woolly hair nevus with pigmentary demarcation lines and heterochromia iridis. Woolly hair nevus is a rare abnormality of the scalp hair characterized by the patch of hair, which is curlier and light colored than the rest of the scalp hair. Association of woolly hair nevus with some other ectodermal defects effecting skin and eyes has been reported before. Here, woolly hair nevus associated with demarcation lines and heterochromia iridis, to our knowledge, have not been previously reported.

  17. A Case of Woolly Hair Nevus Associated with Pigmentary Demarcation Lines and Heterochromia Iridis: Coincidence or a New Association?

    OpenAIRE

    Kocak, Aslihan Yonca; Kocak, Oguzhan

    2015-01-01

    We report a case of woolly hair nevus with pigmentary demarcation lines and heterochromia iridis. Woolly hair nevus is a rare abnormality of the scalp hair characterized by the patch of hair, which is curlier and light colored than the rest of the scalp hair. Association of woolly hair nevus with some other ectodermal defects effecting skin and eyes has been reported before. Here, woolly hair nevus associated with demarcation lines and heterochromia iridis, to our knowledge, have not been pre...

  18. Clinical characterization and identification of duplication breakpoints in a Japanese family with Xq28 duplication syndrome including MECP2.

    Science.gov (United States)

    Fukushi, Daisuke; Yamada, Kenichiro; Nomura, Noriko; Naiki, Misako; Kimura, Reiko; Yamada, Yasukazu; Kumagai, Toshiyuki; Yamaguchi, Kumiko; Miyake, Yoshishige; Wakamatsu, Nobuaki

    2014-04-01

    Xq28 duplication syndrome including MECP2 is a neurodevelopmental disorder characterized by axial hypotonia at infancy, severe intellectual disability, developmental delay, mild characteristic facial appearance, epilepsy, regression, and recurrent infections in males. We identified a Japanese family of Xq28 duplications, in which the patients presented with cerebellar ataxia, severe constipation, and small feet, in addition to the common clinical features. The 488-kb duplication spanned from L1CAM to EMD and contained 17 genes, two pseudo genes, and three microRNA-coding genes. FISH and nucleotide sequence analyses demonstrated that the duplication was tandem and in a forward orientation, and the duplication breakpoints were located in AluSc at the EMD side, with a 32-bp deletion, and LTR50 at the L1CAM side, with "tc" and "gc" microhomologies at the duplication breakpoints, respectively. The duplicated segment was completely segregated from the grandmother to the patients. These results suggest that the duplication was generated by fork-stalling and template-switching at the AluSc and LTR50 sites. This is the first report to determine the size and nucleotide sequences of the duplicated segments at Xq28 of three generations of a family and provides the genotype-phenotype correlation of the patients harboring the specific duplicated segment.

  19. Targeted next-generation sequencing at copy-number breakpoints for personalized analysis of rearranged ends in solid tumors.

    Directory of Open Access Journals (Sweden)

    Hyun-Kyoung Kim

    Full Text Available BACKGROUND: The concept of the utilization of rearranged ends for development of personalized biomarkers has attracted much attention owing to its clinical applicability. Although targeted next-generation sequencing (NGS for recurrent rearrangements has been successful in hematologic malignancies, its application to solid tumors is problematic due to the paucity of recurrent translocations. However, copy-number breakpoints (CNBs, which are abundant in solid tumors, can be utilized for identification of rearranged ends. METHOD: As a proof of concept, we performed targeted next-generation sequencing at copy-number breakpoints (TNGS-CNB in nine colon cancer cases including seven primary cancers and two cell lines, COLO205 and SW620. For deduction of CNBs, we developed a novel competitive single-nucleotide polymorphism (cSNP microarray method entailing CNB-region refinement by competitor DNA. RESULT: Using TNGS-CNB, 19 specific rearrangements out of 91 CNBs (20.9% were identified, and two polymerase chain reaction (PCR-amplifiable rearrangements were obtained in six cases (66.7%. And significantly, TNGS-CNB, with its high positive identification rate (82.6% of PCR-amplifiable rearrangements at candidate sites (19/23, just from filtering of aligned sequences, requires little effort for validation. CONCLUSION: Our results indicate that TNGS-CNB, with its utility for identification of rearrangements in solid tumors, can be successfully applied in the clinical laboratory for cancer-relapse and therapy-response monitoring.

  20. Influence of coupling between junctions on breakpoint current in intrinsic Josephson junctions

    OpenAIRE

    Shukrinov, Yu M.; Mahfouzi, F.

    2006-01-01

    We study theoretically the current-voltage characteristics of intrinsic Josephson junctions in high-$T_c$ superconductors. An oscillation of the breakpoint current on the outermost branch as a function of coupling $\\alpha$ and dissipation $\\beta$ parameters is found. We explain this oscillation as a result of the creation of longitudinal plasma waves at the breakpoint with different wave numbers. We demonstrate the commensurability effect and predict a group behavior of the current-voltage ch...

  1. Impact of CLSI Breakpoint Changes on Microbiology Laboratories and Antimicrobial Stewardship Programs

    OpenAIRE

    2016-01-01

    In 2010, the Clinical and Laboratory Standards Institute (CLSI) lowered the MIC breakpoints for many beta-lactam antibiotics to enhance detection of known resistance among Enterobacteriaceae. The decision to implement these new breakpoints, including the changes announced in both 2010 and 2014, can have a significant impact on both microbiology laboratories and antimicrobial stewardship programs. In this commentary, we discuss the changes and how implementation of these updated CLSI breakpoin...

  2. Identification of novel markers that demarcate the nucleolus during severe stress and chemotherapeutic treatment.

    Science.gov (United States)

    Su, Haitong; Kodiha, Mohamed; Lee, Sunghoon; Stochaj, Ursula

    2013-01-01

    The nucleolus, the ribosomal factory of the cell, has emerged as a key player that regulates many aspects of cell biology. Several thousand proteins associate at least transiently with nucleoli, thereby generating a highly dynamic compartment with a protein profile which is sensitive to changes in cell physiology and pharmacological agents. Powerful tools that reliably demarcate the nucleoli are a prerequisite to measure their composition and activities. Previously, we developed quantitative methods to measure fluorescently labeled molecules in nucleoli. While these tools identify nucleoli under control and mild stress conditions, the accurate detection of nucleolar boundaries under harsh experimental conditions is complicated by the lack of appropriate markers for the nucleolar compartment. Using fluorescence microscopy we have now identified new marker proteins to detect nucleoli upon (a) severe stress and (b) drug treatments that trigger a pronounced reorganization of nucleoli. Our results demonstrate that nucleolin is an ideal marker to delimit nucleoli when cells are exposed to heat or oxidative stress. Furthermore, we show for the first time that cellular apoptosis susceptibility protein (CAS) and human antigen R protein (HuR) are excluded from nucleoli and can be employed to delimit these compartments under severe conditions that redistribute major nucleolar proteins. As proof-of-principle, we used these markers to demarcate nucleoli in cells treated with pharmacological compounds that disrupt the nucleolar organization. Furthermore, to gain new insights into the biology of the nucleolus, we applied our protocols and quantified stress- and drug-induced changes in nucleolar organization and function. Finally, we show that CAS, HuR and nucleolin not only identify nucleoli in optical sections, but are also suitable to demarcate the nucleolar border following 3D reconstruction. Taken together, our studies present novel marker proteins that delimit nucleoli with

  3. Demarcation of potential seismic sources on integration of genetic algorithm and BP algorithm

    Institute of Scientific and Technical Information of China (English)

    周庆; 叶洪

    2002-01-01

    In this paper potential seismic sources in coastal region of South China are identified by integration of genetic algorithm (GA) and back propagation (BP algorithm). GA is used for finding the best parameter combination rapidly in an infinite solution space for artificial neural networks (ANN). The results show that the distribution of potential seismic sources with different upper magnitude demarcated by this classifier is mostly satisfied the intrinsic relationship between seismic environment and earthquake occurrence, with less effect from subjective judgment of human being.

  4. Utility of dermoscopy for demarcation of surgical margins in Mohs micrographic surgery*

    Science.gov (United States)

    Suzuki, Heliane Sanae; Serafini, Sérgio Zuñeda; Sato, Maurício Shigueru

    2014-01-01

    BACKGROUND Skin cancer is the most common malignancy and can be treated in various ways. One treatment modality is Mohs micrographic surgery. Due to the increasing incidence of skin cancer in the last decades, there is a need for improvement of the Mohs technique to optimize its effectiveness. OBJECTIVE The aim of this study was to evaluate the use of dermoscopy to guide demarcation of Mohs micrographic surgery margins and ascertain whether this method can reduce operative time and, therefore, reduce surgical morbidity and cost. METHODS AND MATERIALS The sample comprised 44 patients who underwent Mohs micrographic surgery, allocated into two groups: the control group and the intervention group. In the latter, surgical margins were guided by dermoscopy. RESULTS There were no statistically significant differences between the two groups by chi-square analysis (p = 0.399). CONCLUSION Although outcomes were similar in the two groups, demonstrating that dermoscopy does not help in the demarcation of surgical margins for Mohs micrographic surgery, the study provides a practical proposal for improvement of the Mohs technique. PMID:24626646

  5. Measured Sections of Upper Paleozoic to Early Tertiary Rocks, Demarcation Point Quadrangle, Alaska

    Science.gov (United States)

    Detterman, Robert L.

    1984-01-01

    Introduction Twelve sections of upper Paleozoic to early Tertiary rocks from the Demarcation Point quadrangle and the northern edge of the Table Mountain quadrangle are presented. These measured sections include the type sections for the Joe Creek Member of the Echooka Formation (Section 11), the Bathtub Graywacke and Kongakut Formation (Section 9), and the unnamed early Tertiary rocks (Section 1). The early Tertiary rocks correlate closely with the Moose Channel Formation in the MacKenzie Delta, Candada (Detterman and Spicer, 1981). The sections were measured with a Jacob's staff during the geologic investigations of the Demarcation Point quadrangle in 1969 to 1971. The geologic map is published in generalized form (Detterman, 1974, 1976; Detterman and others, 1975). The sections are at a scale of 1 in to 100 ft, except for section 1, which is at 1 in to 200 ft. The location map shows the year and station number for each station. Fossils collected from these rocks and marked by and asterisk (*) are included in Detterman and others, 1975 (p. 42-45). A double asterisk (**) indicates they are included in the list below. All other fossil indicators mean fossils are present, but not collected.

  6. Demarcation laser photocoagulation induced retinal necrosis and rupture resulting in large retinal tear formation.

    Science.gov (United States)

    Quezada, Carlos; Pieramici, Dante J; Matsui, Rodrigo; Rabena, Melvin; Graue, Federico

    2015-06-01

    Retinal tears after laser photocoagulation are a rare complication that occurs after intense laser. It is talked about among retina specialist occurring particularly at the end of a surgical case while applying endophotocoagulation; to the best our knowledge, there are no reports in the literature of a large retinal tear induced after attempted in-office demarcation laser photocoagulation (DLP) that simulated a giant retinal tear. DLP has been employed in the management of selected cases of macula sparring rhegmatogenous retinal detachment (RRD). Even though extension of the retinal detachment through the "laser barrier" is considered a failure of treatment, few complications have been described with the use of this less invasive retinal detachment repair technique. We describe a case of a high myopic woman who initially was treated with demarcation laser photocoagulation for an asymptomatic retinal detachment associated with a single horseshoe tear and a full thickness large retinal tear was created where the laser was placed. Intense laser photocoagulation resulted in abrupt laser induced retinal necrosis and rupture creating this large retinal break. Proper laser technique should reduce the risks associated with this procedure.

  7. The variant inv(2)(p11.2q13) is a genuinely recurrent rearrangement but displays some breakpoint heterogeneity

    DEFF Research Database (Denmark)

    Fickelscher, Ina; Liehr, Thomas; Watts, Kathryn;

    2007-01-01

    different breakpoint combinations by fluorescence in situ hybridization mapping of 40 cases of inv(2)(p11.2q13) of European origin. For the vast majority of inversions (35/40), the breakpoints fell within the same spanning BACs, which hybridized to both 2p11.2 and 2q13 on the normal and inverted homologues....... Sequence analysis revealed that these BACs contain a significant proportion of intrachromosomal SDs with sequence homology to the reciprocal breakpoint region. In contrast, BACs spanning the rare breakpoint combinations contain fewer SDs and with sequence homology only to the same chromosome arm. Using...

  8. A novel approach for determining cancer genomic breakpoints in the presence of normal DNA.

    Directory of Open Access Journals (Sweden)

    Yu-Tsueng Liu

    Full Text Available CDKN2A (encodes p16(INK4A and p14(ARF deletion, which results in both Rb and p53 inactivation, is the most common chromosomal anomaly in human cancers. To precisely map the deletion breakpoints is important to understanding the molecular mechanism of genomic rearrangement and may also be useful for clinical applications. However, current methods for determining the breakpoint are either of low resolution or require the isolation of relatively pure cancer cells, which can be difficult for clinical samples that are typically contaminated with various amounts of normal host cells. To overcome this hurdle, we have developed a novel approach, designated Primer Approximation Multiplex PCR (PAMP, for enriching breakpoint sequences followed by genomic tiling array hybridization to locate the breakpoints. In a series of proof-of-concept experiments, we were able to identify cancer-derived CDKN2A genomic breakpoints when more than 99.9% of wild type genome was present in a model system. This design can be scaled up with bioinformatics support and can be applied to validate other candidate cancer-associated loci that are revealed by other more systemic but lower throughput assays.

  9. Use of SNPs to determine the breakpoints of complex deficiencies, facilitating gene mapping in Caenorhabditis elegans

    Directory of Open Access Journals (Sweden)

    Hoffmann Melissa

    2005-05-01

    Full Text Available Abstract Background Genetic deletions or deficiencies have been used for gene mapping and discovery in various organisms, ranging from the nematode Caenorhabditis elegans all the way to humans. One problem with large deletions is the determination of the location of their breakpoints. This is exacerbated in the case of complex deficiencies that delete a region of the genome, while retaining some of the intervening sequence. Previous methods, using genetic complementation or cytology were hampered by low marker density and were consequently not very precise at positioning the breakpoints of complex deficiencies. The identification of increasing numbers of Single Nucleotide Polymorphisms (SNPs has resulted in the use of these as genetic markers, and consequently in their utilization for defining the breakpoints of deletions using molecular biology methods. Results Here, we show that SNPs can be used to help position the breakpoints of a complex deficiency in C. elegans. The technique uses a combination of genetic crosses and molecular biology to generate robust and highly reproducible results with strong internal controls when trying to determine the breakpoints of deficiencies. The combined use of this technique and standard genetic mapping allowed us to rapidly narrow down the region of interest in our attempts to clone a gene. Conclusion Unlike previous methods used to locate deficiency breakpoints, our technique has the advantage of not being limited by the amount of starting material. It also incorporates internal controls to eliminate false positives and negatives. The technique can also easily be adapted for use in other organisms in which both genetic deficiencies and SNPs are available, thereby aiding gene discovery in these other models.

  10. Distribution of Chromosome Breakpoints in Human Epithelial Cells Exposed to Low- and High-LET Radiations

    Science.gov (United States)

    Hada, Megumi; Cucinotta, Francis; Wu, Honglu

    2009-01-01

    The advantage of the multicolor banding in situ hybridization (mBAND) technique is not only its ability to identify simultaneously both inter- and intrachromosome exchanges, but also the ability to measure the breakpoint location along the length of the chromosome in a precision that is unmatched with other traditional banding techniques. Breakpoints on specific regions of a chromosome have been known to associate with specific cancers. The breakpoint distribution in cells after low- and high-LET radiation exposures will also provide the data for biophysical modeling of the chromatin structure, as well as the data for the modeling the formation of radiation-induced chromosome aberrations. In a series of experiments, we studied low- and high-LET radiation-induced chromosome aberrations using the mBAND technique with chromosome 3 painted in 23 different colored bands. Human epithelial cells (CH1 84B5F5/M10) were exposed in vitro to Cs- 137 rays at both low and high dose rates, secondary neutrons with a broad energy spectrum at a low dose rate and 600 MeV/u Fe ions at a high dose rate. The data of both inter- and intrachromosome aberrations involving the painted chromosome have been reported previously. Here we present data of the location of the chromosome breaks along the length of chromosome 3 in the cells after exposures to each of the four radiation scenarios. In comparison to the expected breakpoint distribution based on the length of the bands, the observed distribution appeared to be non-random for both the low- and high-LET radiations. In particular, hot spots towards both ends of the chromosome were found after low-LET irradiations of either low or high dose rates. For both high-LET radiation types (Fe ions and neutrons), the breakpoint distributions were similar, and were much smoother than that for low-LET radiation. The dependence of the breakpoint distribution on the radiation quality requires further investigations.

  11. Accuracy and efficiency of algorithms for the demarcation of bacterial ecotypes from DNA sequence data.

    Science.gov (United States)

    Francisco, Juan Carlos; Cohan, Frederick M; Krizanc, Danny

    2014-01-01

    Identification of closely related, ecologically distinct populations of bacteria would benefit microbiologists working in many fields including systematics, epidemiology and biotechnology. Several laboratories have recently developed algorithms aimed at demarcating such 'ecotypes'. We examine the ability of four of these algorithms to correctly identify ecotypes from sequence data. We tested the algorithms on synthetic sequences, with known history and habitat associations, generated under the stable ecotype model and on data from Bacillus strains isolated from Death Valley where previous work has confirmed the existence of multiple ecotypes. We found that one of the algorithms (ecotype simulation) performs significantly better than the others (AdaptML, GMYC, BAPS) in both instances. Unfortunately, it was also shown to be the least efficient of the four. While ecotype simulation is the most accurate, it is by a large margin the slowest of the algorithms tested. Attempts at improving its efficiency are underway.

  12. Demarcating Games and Play: Empathizing and systematizing as modes of being in the world

    DEFF Research Database (Denmark)

    Nielsen, Rune Kristian; Hammar, Emil

    is the ability to predict and respond to the behavior of non-agentive deterministic systems by analyzing input- operation-output relations and inferring the rules that govern such systems. This perspective is adapted to games from the empathizing-systematizing framework, which underlies the extreme male brain......This paper problematizes the assumption that the essence of ‘game’ and ‘play’ can somehow be distilled into a set of necessary and sufficient conditions for a phenomenon to be demarcated as ‘game’ and ‘play’. This is the notion that it is possible to come up with a definition of the necessary...... and sufficient conditions that make all games ‘games’, and the necessary and sufficient conditions that makes play ‘play’. This notion has been discussed in literature on game design as well as game analysis (e.g., Huizinga, 1955; Caillois, 1961; Meier, 2000; Koster, 2004; Salen & Zimmerman, 2004; Costikyan...

  13. Cosmology at the Crossroads of the Natural and Human Sciences: is demarcation possible?

    CERN Document Server

    Nesteruk, Alexei V

    2011-01-01

    The paper discusses the problem of demarcation between the dimensions of natural and the human sciences in contemporary cosmology. In spite of a common presumption that cosmology is a natural science, the specificity of its alleged subject matter, that is the universe as a whole, makes cosmology fundamentally different from other natural sciences. The reason is that in cosmology the subject of cosmological research and its "object" are in a certain sense inseparable. Any study of the universe involves two opposite perspectives which can be described as "a-cosmic" and "cosmic", egocentric and non-egocentric. Cosmology involves two languages, namely that of physical causality (pertaining to the natural sciences) and that of intentionality (pertaining to the human sciences). On the one hand the universe can be seen as a product of discursive reason, that is as an abstract "physical" entity unfolding in space and time. On the other hand the universe can be experienced through our participation in, or communion wi...

  14. Call for the international adoption of microbiological breakpoints for fluoroquinolones and Streptococcus pneumoniae.

    Science.gov (United States)

    Schurek, Kristen N; Adam, Heather J; Hoban, Daryl J; Zhanel, George G

    2006-09-01

    The use of current Clinical and Laboratory Standards Institute levofloxacin breakpoints for assessing fluoroquinolone resistance in Streptococcus pneumoniae is inadequate for detecting isolates possessing first-step parC mutations. Consequently, the risk for development of fluoroquinolone resistance is greatly underestimated. Adopting microbiological breakpoints for fluoroquinolones and S. pneumoniae, where parC mutations are rare in susceptible isolates, more accurately describes the emergence of resistance and may help to prevent a number of future fluoroquinolone treatment failures. Additionally, we propose that the use of a second fluoroquinolone marker, such as ciprofloxacin, offers the best prediction for detecting an isolate possessing a first-step parC mutation.

  15. Breakpoint region in the IV-characteristics of intrinsic Josephson junctions

    Science.gov (United States)

    Shukrinov, Yu M.; Mahfouzi, F.

    2008-02-01

    We study theoretically the IV-characteristics of intrinsic Josephson junctions in HTSC. We solve numerically a set of differential equations for N intrinsic Josephson junctions and investigate the nonlinear dynamics of the system. The charging effect is taken into account. We demonstrate that the breakpoint region in the current-voltage characteristics naturally follows from the solution of the system of the dynamical equations for the phase difference. In the breakpoint region the plasma mode is a stationary solution of the system and this fact might be used in some applications, particularly, in high frequency devices such as THz oscillators and mixers.

  16. Experimental manifestation of the breakpoint region in the current-voltage characteristics of intrinsic Josephson junctions

    OpenAIRE

    Irie, A.; Shukrinov, Yu M.; Oya, G.

    2008-01-01

    The experimental evidence of the breakpoint on the current-voltage characteristics (IVCs) of the stacks of intrinsic Josephson junctions (IJJs) is presented. The influence of the capacitive coupling on the IVCs of Bi$_2$Sr$_2$CaCu$_2$O$_y$ IJJs has been investigated. At 4.2 K, clear breakpoint region is observed on the branches in the IVCs. It is found that the hysteresis observed on the IVC is suppressed due to the coupling compared with that expected from the McCumber parameter. Measurement...

  17. Experimental manifestation of the breakpoint region in the current-voltage characteristics of intrinsic Josephson junctions

    Science.gov (United States)

    Irie, A.; Shukrinov, Yu. M.; Oya, G.

    2008-10-01

    The experimental evidence of the breakpoint on the current-voltage characteristics (IVCs) of the stacks of intrinsic Josephson junctions (IJJs) is presented. The influence of the capacitive coupling on the IVCs of Bi2Sr2CaCu2Oy IJJs has been investigated. At 4.2K, clear breakpoint region is observed on the branches in the IVCs. It is found that due to the coupling between junctions, the hysteresis observed on the IVC is small compared to that expected from the McCumber parameter. Measurements agree well with the results predicted by the capacitively coupled Josephson junction model including the diffusion current.

  18. Proximity Within Interphase Chromosome Contributes to the Breakpoint Distribution in Radiation-Induced Intrachromosomal Exchanges

    Science.gov (United States)

    Zhang, Ye; Uhlemeyer, Jimmy; Hada, Megumi; Asaithamby, A.; Chen, David J.; Wu, Honglu

    2015-01-01

    Previously, we reported that breaks involved in chromosome aberrations were clustered in several regions of chromosome3 in human mammary epithelial cells after exposures to either low-or high-LET radiation. In particular, breaks in certain regions of the chromosome tended to rejoin with each other to form an intrachromosome exchange event. This study tests the hypothesis that proximity within a single chromosome in interphase cell nuclei contributes to the distribution of radiation-induced chromosome breaks. Chromosome 3 in G1 human mammary epithelial cells was hybridized with the multicolor banding in situ hybridization (mBAND) probes that distinguish the chromosome in six differently colored regions, and the location of these regions was measured with a laser confocal microscope. Results of the study indicated that, on a multi-mega base pair scale of the DNA, the arrangement of chromatin was non-random. Both telomere regions tended to be located towards the exterior of the chromosome domain, whereas the centromere region towards the interior. In addition, the interior of the chromosome domain was preferentially occupied by the p-arm of the chromatin, which is consistent with our previous finding of intrachromosome exchanges involving breaks on the p-arm and in the centromere region of chromosome3. Other factors, such as the fragile sites in the 3p21 band and gene regulation, may also contribute to the breakpoint distribution in radiation-induced chromosome aberrations. Further investigations suggest that the 3D chromosome folding is cell type and culture condition dependent.

  19. Rationale for revised penicillin susceptibility breakpoints versus Streptococcus pneumoniae: coping with antimicrobial susceptibility in an era of resistance.

    Science.gov (United States)

    Weinstein, Melvin P; Klugman, Keith P; Jones, Ronald N

    2009-06-01

    In January 2008, the Clinical and Laboratory Standards Institute published revised susceptibility breakpoints for penicillin and Streptococcus pneumoniae, and shortly thereafter, the United States Food and Drug Administration similarly revised its breakpoints via changes in the package insert for penicillin. The revised susceptibility breakpoint is penicillin at a dosage of 12 million units-24 million units per day. The susceptibility breakpoint of penicillin at a dosage of > or =18 million units per day. Herein, we review the scientific basis for the revisions to the breakpoints, which were supported by microbiologic, pharmacokinetic and/or pharmacodynamic, and clinical data. Clinicians, once again, should feel comfortable prescribing penicillin for pneumococcal pneumonia and other pneumococcal infections outside the central nervous system.

  20. Interphase FISH detection of BCL2 rearrangement in follicular lymphoma using breakpoint-flanking probes

    NARCIS (Netherlands)

    Vaandrager, J W; Schuuring, E; Raap, T; Philippo, K; Kleiverda, K; Kluin, P

    2000-01-01

    Rearrangement of the BCL2 gene is an important parameter for the differential diagnosis of non-Hodgkin lymphomas. Although a relatively large proportion of breakpoints is clustered, many are missed by standard PCR. A FISH assay is therefore desired. Up to now, a lack of probes flanking the BCL2 gene

  1. Revisit of fluoroquinolone and azithromycin susceptibility breakpoints for Salmonella enterica serovar Typhi.

    Science.gov (United States)

    Das, Surojit; Ray, Ujjwayini; Dutta, Shanta

    2016-07-01

    In recent years, increase in occurrence of fluoroquinolone (FQ)-resistant S almonella Typhi isolates has caused considerable inconvenience in selecting appropriate antimicrobials for treatment of typhoid. The World Health Organization (WHO) recommends azithromycin for the empirical treatment option of uncomplicated typhoid. The CLSI updated the breakpoints of disc diffusion (DD) and MIC results of FQs and azithromycin for Salmonella Typhi in 2015, but DD breakpoints of ofloxacin and levofloxacin were not included. In this study, the inhibition zone diameters and MICs of nalidixic acid, ciprofloxacin, ofloxacin, levofloxacin and azithromycin were determined in Salmonella Typhi Kolkata isolates (n =146) over a 16-year period (1998 to 2013) and the data were compared with the available CLSI breakpoints. Very major error and major error (ME) of FQs were not observed in the study isolates, but the minor error of ciprofloxacin (15.8 %) and ME of azithromycin (3.5 %) exceeded the acceptable limit. A positive correlation between MICs of FQ and mutations in the quinolone-resistance-determining region (QRDR) showed the reliability of MIC results to determine FQ susceptibility of Salmonella Typhi (n =74). Isolates showing decreased ciprofloxacin susceptibility (MIC 0.125-0.5 µg  ml-1) were likely to have at least one mutation in the QRDR region. The results on DD breakpoints of ofloxacin (resistant, ≤15 mm; intermediate, 16-24 mm, and susceptible, ≥25 mm) and levofloxacin (resistant, ≤18 mm; intermediate, 19-27 mm, and susceptible, ≥28 mm) corroborated those of earlier studies. In view of the emerging FQ- and azithromycin-resistant Salmonella Typhi isolates, DD and MIC breakpoints of those antimicrobials should be revisited routinely.

  2. Data Mining Validation of Fluconazole Breakpoints Established by the European Committee on Antimicrobial Susceptibility Testing▿

    Science.gov (United States)

    Cuesta, Isabel; Bielza, Concha; Larrañaga, Pedro; Cuenca-Estrella, Manuel; Laguna, Fernando; Rodriguez-Pardo, Dolors; Almirante, Benito; Pahissa, Albert; Rodríguez-Tudela, Juan L.

    2009-01-01

    European Committee on Antimicrobial Susceptibility Testing (EUCAST) breakpoints classify Candida strains with a fluconazole MIC ≤ 2 mg/liter as susceptible, those with a fluconazole MIC of 4 mg/liter as representing intermediate susceptibility, and those with a fluconazole MIC > 4 mg/liter as resistant. Machine learning models are supported by complex statistical analyses assessing whether the results have statistical relevance. The aim of this work was to use supervised classification algorithms to analyze the clinical data used to produce EUCAST fluconazole breakpoints. Five supervised classifiers (J48, Correlation and Regression Trees [CART], OneR, Naïve Bayes, and Simple Logistic) were used to analyze two cohorts of patients with oropharyngeal candidosis and candidemia. The target variable was the outcome of the infections, and the predictor variables consisted of values for the MIC or the proportion between the dose administered and the MIC of the isolate (dose/MIC). Statistical power was assessed by determining values for sensitivity and specificity, the false-positive rate, the area under the receiver operating characteristic (ROC) curve, and the Matthews correlation coefficient (MCC). CART obtained the best statistical power for a MIC > 4 mg/liter for detecting failures (sensitivity, 87%; false-positive rate, 8%; area under the ROC curve, 0.89; MCC index, 0.80). For dose/MIC determinations, the target was >75, with a sensitivity of 91%, a false-positive rate of 10%, an area under the ROC curve of 0.90, and an MCC index of 0.80. Other classifiers gave similar breakpoints with lower statistical power. EUCAST fluconazole breakpoints have been validated by means of machine learning methods. These computer tools must be incorporated in the process for developing breakpoints to avoid researcher bias, thus enhancing the statistical power of the model. PMID:19433568

  3. Indiana secondary students' evolution learning experiences and demarcations of science from non-science

    Science.gov (United States)

    Donnelly, Lisa A.

    2007-12-01

    Previous research has documented students' conceptual difficulties learning evolution and how student learning may be related to students' views of evolution and science. This mixed methods study addressed how 74 high school biology students from six Indiana high schools viewed their evolution learning experiences, the demarcations of science from non-science, and evolution understanding and acceptance. Data collection entailed qualitative and quantitative methods including interviews, classroom observations, surveys, and assessments to address students' views of science and non-science, evolution learning experiences, and understanding and acceptance of evolution. Qualitative coding generated several demarcation and evolution learning experience codes that were subsequently used in quantitative comparisons of evolution understanding and acceptance. The majority of students viewed science as empirical, tentative but ultimately leading to certain truth, compatible with religion, the product of experimental work, and the product of human creativity. None of the students offered the consensus NOS view that scientific theories are substantiated explanations of phenomena while scientific laws state relationships or patterns between phenomena. About half the students indicated that scientific knowledge was subjectively and socio-culturally influenced. The majority of students also indicated that they had positive evolution learning experiences and thought evolution should be taught in secondary school. The quantitative comparisons revealed how students who viewed scientific knowledge as subjectively and socio-culturally influenced had higher understanding than their peers. Furthermore, students who maintained that science and religion were compatible did not differ with respect to understanding but had higher acceptance than their peers who viewed science and religion as conflicting. Furthermore, students who maintained that science must be consistent with their

  4. Demarcation of local neighborhoods to study relations between contextual factors and health

    Directory of Open Access Journals (Sweden)

    Chor Dora

    2010-06-01

    Full Text Available Abstract Background Several studies have highlighted the importance of collective social factors for population health. One of the major challenges is an adequate definition of the spatial units of analysis which present properties potentially related to the target outcomes. Political and administrative divisions of urban areas are the most commonly used definition, although they suffer limitations in their ability to fully express the neighborhoods as social and spatial units. Objective This study presents a proposal for defining the boundaries of local neighborhoods in Rio de Janeiro city. Local neighborhoods are constructed by means of aggregation of contiguous census tracts which are homogeneous regarding socioeconomic indicators. Methodology Local neighborhoods were created using the SKATER method (TerraView software. Criteria used for socioeconomic homogeneity were based on four census tract indicators (income, education, persons per household, and percentage of population in the 0-4-year age bracket considering a minimum population of 5,000 people living in each local neighborhood. The process took into account the geographic boundaries between administrative neighborhoods (a political-administrative division larger than a local neighborhood, but smaller than a borough and natural geographic barriers. Results The original 8,145 census tracts were collapsed into 794 local neighborhoods, distributed along 158 administrative neighborhoods. Local neighborhoods contained a mean of 10 census tracts, and there were an average of five local neighborhoods per administrative neighborhood. The local neighborhood units demarcated in this study are less socioeconomically heterogeneous than the administrative neighborhoods and provide a means for decreasing the well-known statistical variability of indicators based on census tracts. The local neighborhoods were able to distinguish between different areas within administrative neighborhoods

  5. Thermal decay analysis of fiber Bragg gratings at different temperature annealing rates using demarcation energy approximation

    Science.gov (United States)

    Gunawardena, Dinusha Serandi; Lai, Man-Hong; Lim, Kok-Sing; Ahmad, Harith

    2017-03-01

    In this study the thermal degradation of gratings inscribed in three types of fiber namely, PS 1250/1500, SM 1500 and zero water peak single mode fiber is demonstrated. A comparative investigation is carried out on the aging characteristics of the gratings at three different temperature ramping rates of 3 °C/min, 6 °C/min and 9 °C/min. During the thermal annealing treatment, a significant enhancement in the grating reflectivity is observed for PS 1250/1500 fiber from ∼1.2 eV until 1.4 eV which indicates a thermal induced reversible effect. Higher temperature ramping rates lead to a higher regeneration temperature. In addition, the investigation also reflects that regardless of the temperature ramping rate the thermal decay behavior of a specific fiber can be successfully characterized when represented in a demarcation energy domain. Moreover, this technique can be accommodated when predicting the thermal decay characteristics of a specific fiber.

  6. PDGFRα demarcates the cardiogenic clonogenic Sca1+ stem/progenitor cell in adult murine myocardium

    Science.gov (United States)

    Noseda, Michela; Harada, Mutsuo; McSweeney, Sara; Leja, Thomas; Belian, Elisa; Stuckey, Daniel J.; Abreu Paiva, Marta S.; Habib, Josef; Macaulay, Iain; de Smith, Adam J.; al-Beidh, Farah; Sampson, Robert; Lumbers, R. Thomas; Rao, Pulivarthi; Harding, Sian E.; Blakemore, Alexandra I. F.; Eirik Jacobsen, Sten; Barahona, Mauricio; Schneider, Michael D.

    2015-01-01

    Cardiac progenitor/stem cells in adult hearts represent an attractive therapeutic target for heart regeneration, though (inter)-relationships among reported cells remain obscure. Using single-cell qRT–PCR and clonal analyses, here we define four subpopulations of cardiac progenitor/stem cells in adult mouse myocardium all sharing stem cell antigen-1 (Sca1), based on side population (SP) phenotype, PECAM-1 (CD31) and platelet-derived growth factor receptor-α (PDGFRα) expression. SP status predicts clonogenicity and cardiogenic gene expression (Gata4/6, Hand2 and Tbx5/20), properties segregating more specifically to PDGFRα+ cells. Clonal progeny of single Sca1+ SP cells show cardiomyocyte, endothelial and smooth muscle lineage potential after cardiac grafting, augmenting cardiac function although durable engraftment is rare. PDGFRα− cells are characterized by Kdr/Flk1, Cdh5, CD31 and lack of clonogenicity. PDGFRα+/CD31− cells derive from cells formerly expressing Mesp1, Nkx2-5, Isl1, Gata5 and Wt1, distinct from PDGFRα−/CD31+ cells (Gata5 low; Flk1 and Tie2 high). Thus, PDGFRα demarcates the clonogenic cardiogenic Sca1+ stem/progenitor cell. PMID:25980517

  7. Demarcation of the ethics of care as a discipline: discussion article.

    Science.gov (United States)

    Klaver, Klaartje; van Elst, Eric; Baart, Andries J

    2014-11-01

    This article aims to initiate a discussion on the demarcation of the ethics of care. This discussion is necessary because the ethics of care evolves by making use of insights from varying disciplines. As this involves the risk of contamination of the care ethical discipline, the challenge for care ethical scholars is to ensure to retain a distinct care ethical perspective. This may be supported by an open and critical debate on the criteria and boundaries of the ethics of care. As a contribution, this article proposes a tentative outline of the care ethical discipline. What is characteristic of this outline is the emphasis on relational programming, situation-specific and context-bound judgments, a political-ethical perspective, and empirical groundedness. It is argued that the ethics of care is best developed further by means of an intradisciplinary approach. Two intradisciplinary examples show how within the frame of one discipline, other disciplines are absorbed, both with their body of knowledge and their research methodology.

  8. Comprehensive characterization of evolutionary conserved breakpoints in four New World Monkey karyotypes compared to Chlorocebus aethiops and Homo sapiens.

    Science.gov (United States)

    Fan, Xiaobo; Supiwong, Weerayuth; Weise, Anja; Mrasek, Kristin; Kosyakova, Nadezda; Tanomtong, Alongkoad; Pinthong, Krit; Trifonov, Vladimir A; Cioffi, Marcelo de Bello; Grothmann, Pierre; Liehr, Thomas; Oliveira, Edivaldo H C de

    2015-11-01

    Comparative cytogenetic analysis in New World Monkeys (NWMs) using human multicolor banding (MCB) probe sets were not previously done. Here we report on an MCB based FISH-banding study complemented with selected locus-specific and heterochromatin specific probes in four NWMs and one Old World Monkey (OWM) species, i.e. in Alouatta caraya (ACA), Callithrix jacchus (CJA), Cebus apella (CAP), Saimiri sciureus (SSC), and Chlorocebus aethiops (CAE), respectively. 107 individual evolutionary conserved breakpoints (ECBs) among those species were identified and compared with those of other species in previous reports. Especially for chromosomal regions being syntenic to human chromosomes 6, 8, 9, 10, 11, 12 and 16 previously cryptic rearrangements could be observed. 50.4% (54/107) NWM-ECBs were colocalized with those of OWMs, 62.6% (62/99) NWM-ECBs were related with those of Hylobates lar (HLA) and 66.3% (71/107) NWM-ECBs corresponded with those known from other mammalians. Furthermore, human fragile sites were aligned with the ECBs found in the five studied species and interestingly 66.3% ECBs colocalized with those fragile sites (FS). Overall, this study presents detailed chromosomal maps of one OWM and four NWM species. This data will be helpful to further investigation on chromosome evolution in NWM and hominoids in general and is prerequisite for correct interpretation of future sequencing based genomic studies in those species.

  9. Influence of sequence identity and unique breakpoints on the frequency of intersubtype HIV-1 recombination

    Directory of Open Access Journals (Sweden)

    Abreha Measho

    2006-12-01

    Full Text Available Abstract Background HIV-1 recombination between different subtypes has a major impact on the global epidemic. The generation of these intersubtype recombinants follows a defined set of events starting with dual infection of a host cell, heterodiploid virus production, strand transfers during reverse transcription, and then selection. In this study, recombination frequencies were measured in the C1-C4 regions of the envelope gene in the presence (using a multiple cycle infection system and absence (in vitro reverse transcription and single cycle infection systems of selection for replication-competent virus. Ugandan subtypes A and D HIV-1 env sequences (115-A, 120-A, 89-D, 122-D, 126-D were employed in all three assay systems. These subtypes co-circulate in East Africa and frequently recombine in this human population. Results Increased sequence identity between viruses or RNA templates resulted in increased recombination frequencies, with the exception of the 115-A virus or RNA template. Analyses of the recombination breakpoints and mechanistic studies revealed that the presence of a recombination hotspot in the C3/V4 env region, unique to 115-A as donor RNA, could account for the higher recombination frequencies with the 115-A virus/template. Single-cycle infections supported proportionally less recombination than the in vitro reverse transcription assay but both systems still had significantly higher recombination frequencies than observed in the multiple-cycle virus replication system. In the multiple cycle assay, increased replicative fitness of one HIV-1 over the other in a dual infection dramatically decreased recombination frequencies. Conclusion Sequence variation at specific sites between HIV-1 isolates can introduce unique recombination hotspots, which increase recombination frequencies and skew the general observation that decreased HIV-1 sequence identity reduces recombination rates. These findings also suggest that the majority of

  10. Influence of sequence identity and unique breakpoints on the frequency of intersubtype HIV-1 recombination

    Science.gov (United States)

    Baird, Heather A; Gao, Yong; Galetto, Román; Lalonde, Matthew; Anthony, Reshma M; Giacomoni, Véronique; Abreha, Measho; Destefano, Jeffrey J; Negroni, Matteo; Arts, Eric J

    2006-01-01

    Background HIV-1 recombination between different subtypes has a major impact on the global epidemic. The generation of these intersubtype recombinants follows a defined set of events starting with dual infection of a host cell, heterodiploid virus production, strand transfers during reverse transcription, and then selection. In this study, recombination frequencies were measured in the C1-C4 regions of the envelope gene in the presence (using a multiple cycle infection system) and absence (in vitro reverse transcription and single cycle infection systems) of selection for replication-competent virus. Ugandan subtypes A and D HIV-1 env sequences (115-A, 120-A, 89-D, 122-D, 126-D) were employed in all three assay systems. These subtypes co-circulate in East Africa and frequently recombine in this human population. Results Increased sequence identity between viruses or RNA templates resulted in increased recombination frequencies, with the exception of the 115-A virus or RNA template. Analyses of the recombination breakpoints and mechanistic studies revealed that the presence of a recombination hotspot in the C3/V4 env region, unique to 115-A as donor RNA, could account for the higher recombination frequencies with the 115-A virus/template. Single-cycle infections supported proportionally less recombination than the in vitro reverse transcription assay but both systems still had significantly higher recombination frequencies than observed in the multiple-cycle virus replication system. In the multiple cycle assay, increased replicative fitness of one HIV-1 over the other in a dual infection dramatically decreased recombination frequencies. Conclusion Sequence variation at specific sites between HIV-1 isolates can introduce unique recombination hotspots, which increase recombination frequencies and skew the general observation that decreased HIV-1 sequence identity reduces recombination rates. These findings also suggest that the majority of intra- or intersubtype A

  11. Carbocyanine dye usage in demarcating boundaries of the aged human red nucleus.

    Directory of Open Access Journals (Sweden)

    Satoru Onodera

    Full Text Available BACKGROUND: Though the adult human magnocellular Red nucleus (mNr is essentially vestigial and its boundaries with neighbouring structures have never been well demarcated, human studies in utero have shown a well developed semilunar mNr wrapping around the caudal parvicellular Red nucleus (pNr, similar to what is seen in quadrupeds. In the present study, we have sought to better delineate the morphological determinants of the adult human Red nucleus (ahRn. METHODS AND FINDINGS: Serial sections of ahRn show fine myelinated fibers arising from pNr and turning toward the central tegmental tract. DiI was deposited within a well restricted region of ahRn at the fasciculus retroflexus level and the extent of label determined. Nissl-stained serial sections allowed production of a 3-D mNr model, showing rudimentary, vestigial morphology compared with its well developed infant homologue. DiI within this vestigial mNr region at the level of the oculomotor nerve showed labeled giant/large mNr neurons, coarse fiber bundles at the ventral tegmental decussation and lateral lemniscal label. CONCLUSIONS: Large amounts of DiI and a long incubation time have proven useful in aged human brain as a marker of long axons and large cell bodies of projecting neurons such as the rubrospinal projection and for clarifying nuclear boundaries of closed nuclei (e.g., the large human pNr. Our 3D model of adult human mNr appeared shrunken in shape and axially rotated compared with the infant mNr, the rotation being a common feature among mammalian mNr.

  12. Tracking genome engineering outcome at individual DNA breakpoints.

    Science.gov (United States)

    Certo, Michael T; Ryu, Byoung Y; Annis, James E; Garibov, Mikhail; Jarjour, Jordan; Rawlings, David J; Scharenberg, Andrew M

    2011-07-10

    Site-specific genome engineering technologies are increasingly important tools in the postgenomic era, where biotechnological objectives often require organisms with precisely modified genomes. Rare-cutting endonucleases, through their capacity to create a targeted DNA strand break, are one of the most promising of these technologies. However, realizing the full potential of nuclease-induced genome engineering requires a detailed understanding of the variables that influence resolution of nuclease-induced DNA breaks. Here we present a genome engineering reporter system, designated 'traffic light', that supports rapid flow-cytometric analysis of repair pathway choice at individual DNA breaks, quantitative tracking of nuclease expression and donor template delivery, and high-throughput screens for factors that bias the engineering outcome. We applied the traffic light system to evaluate the efficiency and outcome of nuclease-induced genome engineering in human cell lines and identified strategies to facilitate isolation of cells in which a desired engineering outcome has occurred.

  13. Mutation analysis in Duchenne and Becker muscular dystrophy patients from Bulgaria shows a peculiar distribution of breakpoints by intron

    Energy Technology Data Exchange (ETDEWEB)

    Todorova, A.; Bronzova, J.; Kremensky, I. [Univ. Hospital of Obstetrics and Gynecology, Sofia (Bulgaria)] [and others

    1996-10-02

    For the first time in Bulgaria, a deletion/duplication screening was performed on a group of 84 unrelated Duchenne/Becker muscular dystrophy patients, and the breakpoint distribution in the dystrophin gene was analyzed. Intragenic deletions were detected in 67.8% of patients, and intragenic duplications in 2.4%. A peculiar distribution of deletion breakpoints was found. Only 13.2% of the deletion breakpoints fell in the {open_quotes}classical{close_quotes} hot spot in intron 44, whereas the majority (> 54%) were located within the segment encompassing introns 45-51, which includes intron 50, the richest in breakpoints (16%) in the Bulgarian sample. Comparison with data from Greece and Turkey points at the probable existence of a deletion hot spot within intron 50, which might be a characteristic of populations of the Balkan region. 17 refs., 2 figs.

  14. Investigating the role of X chromosome breakpoints in premature ovarian failure

    Directory of Open Access Journals (Sweden)

    Baronchelli Simona

    2012-07-01

    Full Text Available Abstract The importance of the genetic factor in the aetiology of premature ovarian failure (POF is emphasized by the high percentage of familial cases and X chromosome abnormalities account for 10% of chromosomal aberrations. In this study, we report the detailed analysis of 4 chromosomal abnormalities involving the X chromosome and associated with POF that were detected during a screening of 269 affected women. Conventional and molecular cytogenetics were valuable tools for locating the breakpoint regions and thus the following karyotypes were defined: 46,X,der(Xt(X;19(p21.1;q13.42mat, 46,X,t(X;2(q21.33;q14.3dn, 46,X,der(Xt(X;Y(q26.2;q11.223mat and 46,X,t(X;13(q13.3;q31dn. A bioinformatic analysis of the breakpoint regions identified putative candidate genes for ovarian failure near the breakpoint regions on the X chromosome or on autosomes that were involved in the translocation event. HS6ST1, HS6ST2 and MATER genes were identified and their functions and a literature review revealed an interesting connection to the POF phenotype. Moreover, the 19q13.32 locus is associated with the age of onset of the natural menopause. These results support the position effect of the breakpoint on flanking genes, and cytogenetic techniques, in combination with bioinformatic analysis, may help to improve what is known about this puzzling disorder and its diagnostic potential.

  15. Fast computation of a string duplication history under no-breakpoint-reuse

    Science.gov (United States)

    Brejová, Broňa; Kravec, Martin; Landau, Gad M.; Vinař, Tomáš

    2014-01-01

    In this paper, we provide an O(n log2 n log log n log* n) algorithm to compute a duplication history of a string under no-breakpoint-reuse condition. The motivation of this problem stems from computational biology, in particular, from analysis of complex gene clusters. The problem is also related to computing edit distance with block operations, but, in our scenario, the start of the history is not fixed, but chosen to minimize the distance measure. PMID:24751867

  16. Diversity of breakpoints of variant Philadelphia chromosomes in chronic myeloid leukemia in Brazilian patients

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    Maria de Lourdes Lopes Ferrari Chauffaille

    2015-02-01

    Full Text Available Background: Chronic myeloid leukemia is a myeloproliferative disorder characterized by the Philadelphia chromosome or t(9;22(q34.1;q11.2, resulting in the break-point cluster regionAbelson tyrosine kinase fusion gene, which encodes a constitutively active tyrosine kinase protein. The Philadelphia chromosome is detected by karyotyping in around 90% of chronic myeloid leukemia patients, but 5-10% may have variant types. Variant Philadelphia chromosomes are characterized by the involvement of another chromosome in addition to chromosome 9 or 22. It can be a simple type of variant when one other chromosome is involved, or complex, in which two or more chromosomes take part in the translocation. Few studies have reported the incidence of variant Philadelphia chromosomes or the breakpoints involved among Brazilian chronic myeloid leukemia patients. Objective: The aim of this report is to describe the diversity of the variant Philadelphia chromosomes found and highlight some interesting breakpoint candidates for further studies. Methods: the Cytogenetics Section Database was searched for all cases with diagnoses of chronic myeloid leukemia during a 12-year period and all the variant Philadelphia chromosomes were listed. Results: Fifty (5.17% cases out of 1071 Philadelphia-positive chronic myeloid leukemia were variants. The most frequently involved chromosome was 17, followed by chromosomes: 1, 20, 6, 11, 2, 10, 12 and 15. Conclusion: Among all the breakpoints seen in this survey, six had previously been described: 11p15, 14q32, 15q11.2, 16p13.1, 17p13 and 17q21. The fact that some regions get more fre- quently involved in such rare rearrangements calls attention to possible predisposition that should be further studied. Nevertheless, the pathological implication of these variants remains unclear.

  17. Susceptibility of Extended-Spectrum-β-Lactamase-Producing Enterobacteriaceae According to the New CLSI Breakpoints

    Science.gov (United States)

    Wang, Peng; Hu, Fupin; Xiong, Zizhong; Ye, Xinyu; Zhu, Demei; Wang, Yun F.; Wang, Minggui

    2011-01-01

    In 2010 the Clinical and Laboratory Standards Institute (CLSI) lowered the susceptibility breakpoints of some cephalosporins and aztreonam for Enterobacteriaceae and eliminated the need to perform screening for extended-spectrum β-lactamases (ESBLs) and confirmatory tests. The aim of this study was to determine how many ESBL-producing strains of three common species of Enterobacteriaceae test susceptible using the new breakpoints. As determined with the CLSI screening and confirmatory tests, 382 consecutive ESBL-producing strains were collected at Huashan Hospital between 2007 and 2008, including 158 strains of Escherichia coli, 164 of Klebsiella pneumoniae, and 60 of Proteus mirabilis. Susceptibility was determined by the CLSI agar dilution method. CTX-M-, TEM-, and SHV-specific genes were determined by PCR amplification and sequencing. blaCTX-M genes alone or in combination with blaSHV were present in 92.7% (354/382) of these ESBL-producing strains. Forty-two (25.6%) strains of K. pneumoniae harbored SHV-type ESBLs alone or in combination. No TEM ESBLs were found. Utilizing the new breakpoints, all 382 strains were resistant to cefazolin, cefotaxime, and ceftriaxone, while 85.0 to 96.7% of P. mirabilis strains tested susceptible to ceftazidime, cefepime, and aztreonam, 41.8 to 45.6% of E. coli strains appeared to be susceptible to ceftazidime and cefepime, and 20.1% of K. pneumoniae were susceptible to cefepime. In conclusion, all ESBL-producing strains of Enterobacteriaceae would be reported to be resistant to cefazolin, cefotaxime, and ceftriaxone by using the new CLSI breakpoints, but a substantial number of ESBL-containing P. mirabilis and E. coli strains would be reported to be susceptible to ceftazidime, cefepime, and aztreonam, which is likely due to the high prevalence of CTX-M type ESBLs. PMID:21752977

  18. A Dynamic Programming Algorithm For (1,2)-Exemplar Breakpoint Distance.

    Science.gov (United States)

    Wei, Zhexue; Zhu, Daming; Wang, Lusheng

    2015-07-01

    The exemplar breakpoint distance problem is motivated by finding conserved sets of genes between two genomes. It asks to find respective exemplars in two genomes to minimize the breakpoint distance between them. If one genome has no repeated gene (called trivial genome) and the other has genes repeating at most twice, it is referred to as the (1, 2)-exemplar breakpoint distance problem, EBD(1, 2) for short. Little has been done on algorithm design for this problem by now. In this article, we propose a parameter to describe the maximum physical span between two copies of a gene in a genome, and based on it, design a fixed-parameter algorithm for EBD(1, 2). Using a dynamic programming approach, our algorithm can take O(4(s)n(2)) time and O(4(s)n) space to solve an EBD(1, 2) instance that has two genomes of n genes where the second genome has each two copies of a gene spanning at most s copies of the genes. Our algorithm can also be used to compute the maximum adjacencies between two genomes. The algorithm has been implemented in C++. Simulations on randomly generated data have verified the effectiveness of our algorithm. The software package is available from the authors.

  19. Deletion breakpoint mapping on chromosome 9p21 in breast cancer cell line MCF-7

    Directory of Open Access Journals (Sweden)

    Hua-ping XIE

    2012-05-01

    Full Text Available Objective  To map the deletion breakpoint of chromosome 9p21 in breast cancer cell line MCF-7. Methods  The deletion of chromosome 9p21 was checked by Multiplex Ligation-dependent Probe Amplification (MLPA in MCF-7. Subsequently, the deletion breakpoint was amplified by long range PCR and the deletion region was narrowed by primer walking. Finally, the deletion position was confirmed by sequencing. Results  The deletion was found starting within the MTAP gene and ending within CDKN2A gene by MLPA. Based on long range PCR and primer walking, the deletion was confirmed to cover the region from chr9:21819532 to chr9:21989622 by sequencing, with a deletion size of 170kb, starting within the intron 4 of MTAP and ending within the intron 1 near exon 1β of CDKN2A. Conclusions  Long range PCR is an efficient way to detect deletion breakpoints. In MCF-7, the deletion has been confirmed to be 170kb, starting within the MTAP gene and ending within the CDKN2A gene. The significance of the deletion warrants further research.

  20. Sequence breakpoints in the aflatoxin biosynthesis gene cluster and flanking regions in nonaflatoxigenic Aspergillus flavus isolates.

    Science.gov (United States)

    Chang, Perng-Kuang; Horn, Bruce W; Dorner, Joe W

    2005-11-01

    Aspergillus flavus populations are genetically diverse. Isolates that produce either, neither, or both aflatoxins and cyclopiazonic acid (CPA) are present in the field. We investigated defects in the aflatoxin gene cluster in 38 nonaflatoxigenic A. flavus isolates collected from southern United States. PCR assays using aflatoxin-gene-specific primers grouped these isolates into eight (A-H) deletion patterns. Patterns C, E, G, and H, which contain 40 kb deletions, were examined for their sequence breakpoints. Pattern C has one breakpoint in the cypA 3' untranslated region (UTR) and another in the verA coding region. Pattern E has a breakpoint in the amdA coding region and another in the ver1 5'UTR. Pattern G contains a deletion identical to the one found in pattern C and has another deletion that extends from the cypA coding region to one end of the chromosome as suggested by the presence of telomeric sequence repeats, CCCTAATGTTGA. Pattern H has a deletion of the entire aflatoxin gene cluster from the hexA coding region in the sugar utilization gene cluster to the telomeric region. Thus, deletions in the aflatoxin gene cluster among A. flavus isolates are not rare, and the patterns appear to be diverse. Genetic drift may be a driving force that is responsible for the loss of the entire aflatoxin gene cluster in nonaflatoxigenic A. flavus isolates when aflatoxins have lost their adaptive value in nature.

  1. SoftSearch: integration of multiple sequence features to identify breakpoints of structural variations.

    Directory of Open Access Journals (Sweden)

    Steven N Hart

    Full Text Available BACKGROUND: Structural variation (SV represents a significant, yet poorly understood contribution to an individual's genetic makeup. Advanced next-generation sequencing technologies are widely used to discover such variations, but there is no single detection tool that is considered a community standard. In an attempt to fulfil this need, we developed an algorithm, SoftSearch, for discovering structural variant breakpoints in Illumina paired-end next-generation sequencing data. SoftSearch combines multiple strategies for detecting SV including split-read, discordant read-pair, and unmated pairs. Co-localized split-reads and discordant read pairs are used to refine the breakpoints. RESULTS: We developed and validated SoftSearch using real and synthetic datasets. SoftSearch's key features are 1 not requiring secondary (or exhaustive primary alignment, 2 portability into established sequencing workflows, and 3 is applicable to any DNA-sequencing experiment (e.g. whole genome, exome, custom capture, etc.. SoftSearch identifies breakpoints from a small number of soft-clipped bases from split reads and a few discordant read-pairs which on their own would not be sufficient to make an SV call. CONCLUSIONS: We show that SoftSearch can identify more true SVs by combining multiple sequence features. SoftSearch was able to call clinically relevant SVs in the BRCA2 gene not reported by other tools while offering significantly improved overall performance.

  2. Network as transconcept: elements for a conceptual demarcation in the field of public health.

    Science.gov (United States)

    Amaral, Carlos Eduardo Menezes; Bosi, Maria Lúcia Magalhães

    2016-08-22

    The main proposal to set up an articulated mode of operation of health services has been the concept of network, which has been appropriated in different ways in the field of public health, as it is used in other disciplinary fields or even taking it from common sense. Amid the diversity of uses and concepts, we recognize the need for rigorous conceptual demarcation about networks in the field of health. Such concern aims to preserve the strategic potential of this concept in the research and planning in the field, overcoming uncertainties and distortions still observed in its discourse-analytic circulation in public health. To this end, we will introduce the current uses of network in different disciplinary fields, emphasizing dialogues with the field of public health. With this, we intend to stimulate discussions about the development of empirical dimensions and analytical models that may allow us to understand the processes produced within and around health networks. RESUMO A principal proposta para configurar um modo articulado de funcionamento dos serviços de saúde tem sido o conceito de rede, que vem sendo apropriado de diferentes formas no campo da saúde coletiva, conforme seu emprego em outros campos disciplinares ou mesmo tomando-o do senso comum. Em meio à pluralidade de usos e concepções, reconhecemos a necessidade de rigorosa demarcação conceitual acerca de redes no campo da saúde. Tal preocupação visa a preservar o potencial estratégico desse conceito na investigação e planificação no campo, superando precariedades e distorções ainda observadas em sua circulação discursivo-analítica na saúde coletiva. Para tanto, apresentaremos os usos correntes de rede em diferentes campos disciplinares, destacando interlocuções com o campo da saúde coletiva. Com isso, pretendemos estimular o debate acerca do desenvolvimento de dimensões empíricas e modelos de análise que permitam compreender os processos produzidos no interior e ao redor

  3. Indigenous territorial rights as a human right; an analysis of the (auto) demarcation of indigenous territories process in Venezuela (1999-2014)

    OpenAIRE

    Linda Bustillos; Vladimir Aguilar; Carlos Grimaldo

    2016-01-01

    The 1999 Constitution of the Bolivarian Republic of Venezuela (CBRV) recognizes Indigenous Rights; among them, the territorial claims. In agreement with what is stated in the article 119 of the Magna Carta, the right to the territory of these populations is exercised through the public policy of demarcation, which is understood as the process in which its territorial space is disclaimed, made by the State in participation with the peoples and communities to be demarcated, subsequently to enti...

  4. Specific metaphase and interphase detection of the breakpoint region in 8q24 of burkitt lymphoma cells by triple-color fluorescence in situ hybridization

    OpenAIRE

    Ried, Thomas; Lengauer, Christoph; Cremer, Thomas; Wiegant, Joop; Raap, Anton K.; Van Der Ploeg, Mels; Groitl, Peter; Lipp, Martin

    1992-01-01

    Triple fluorescence in situ hybridization with a plasmid DNA library from sorted human chromosomes 8 in combination with bacteriophage clones flanking the breakpoint in 8q24 of the Burkitt lymphoma cell line Jl was used for the specific delineation of this breakpoint in individual tumor cells. With this approach, tumor-specific breakpoints in translocation chromosomes can be detected at all stages of the cell cycle with high specificity.

  5. Rapid mapping of chromosomal breakpoints: from blood to BAC in 20 days.

    Energy Technology Data Exchange (ETDEWEB)

    Lu, Chun-Mei; Kwan, Johnson; Weier, Jingly F.; Baumgartner, Aldof; Wang, Mei; Escudero, Tomas; Munne, Santiago; Weier, Heinz-Ulrich

    2009-02-25

    Structural chromosome aberrations and associated segmental or chromosomal aneusomies are major causes of reproductive failure in humans. Despite the fact that carriers of reciprocal balanced translocation often have no other clinical symptoms or disease, impaired chromosome homologue pairing in meiosis and karyokinesis errors lead to over-representation of translocations carriers in the infertile population and in recurrent pregnancy loss patients. At present, clinicians have no means to select healthy germ cells or balanced zygotes in vivo, but in vitro fertilization (IVF) followed by preimplantation genetic diagnosis (PGD) offers translocation carriers a chance to select balanced or normal embryos for transfer. Although a combination of telomeric and centromeric probes can differentiate embryos that are unbalanced from normal or unbalanced ones, a seemingly random position of breakpoints in these IVF-patients poses a serious obstacle to differentiating between normal and balanced embryos, which for most translocation couples, is desirable. Using a carrier with reciprocal translocation t(4;13) as an example, we describe our state-of-the-art approach to the preparation of patient-specific DNA probes that span or 'extent' the breakpoints. With the techniques and resources described here, most breakpoints can be accurately mapped in a matter of days using carrier lymphocytes, and a few extra days are allowed for PGD-probe optimization. The optimized probes will then be suitable for interphase cell analysis, a prerequisite for PGD since blastomeres are biopsied from normally growing day 3 - embryos regardless of their position in the mitotic cell cycle. Furthermore, routine application of these rapid methods should make PGD even more affordable for translocation carriers enrolled in IVF programs.

  6. The effects of acute L-carnitine administration on ventilatory breakpoint and exercise performanceduring incremental exercise

    Directory of Open Access Journals (Sweden)

    Mojtaba Kaviani

    2009-01-01

    Full Text Available (Received 31 October, 2009 ; Accepted 10 March, 2010AbstractBackground and purpose: Many athletes adopt nutritional manipulations to improve their performance. Among the substances generally consumed is carnitine (L-trimethyl-3-hydroxy-ammoniobutanoate which has been used by athletes as an ergogenic aid, due to its role in the transport of long-chain fatty acids across mitochondrial membranes. Nutritional supplements containing carbohydrates, proteins, vitamins, and minerals have been widely used in various sporting fields to provide a boost to the recommended daily allowance. The aim of this study is to investigate the effects of acute L-carnitine administration on ventilatory breakpoint, an exercise performance during incremental exercise.Materials and methods: This study was double-blind, randomized and crossover in design. The subjects were 12 randomly selected active male physical education students, 21.75±0.64 years old, with a mean body mass index (BMI of 23.7±0.94kg/m2, divided into 2 groups. They received orally either 2g of L-carnitine dissolved in 200 ml of water, plus 6 drops of lemon juice or a placebo (6 ml lemon juice dissolved in 200 ml of water 90 minutes before they began to exercise on a treadmill. They performed a modified protocol of Conconi test to exhaustion. One-way analysis of variance with repeated measurements was used for data analysis.Results: The results showed that exercise performance improved in LC group (2980±155 meter compared with placebo group (2331±51 meter. Furthermore, no significant difference was found in ventilatory breakpoint between the two groups.Conclusion: This finding indicates that administration of L- Carnitine, 90 minutes prior to exercise may improve performance; despite the ventilatory breakpoint as one of the anaerobic system indices that had no effect. J Mazand Univ Med Sci 2009; 19(73: 43-50 (Persian.

  7. Using Sorting by Reversal: Breakpoint Graph for Gene Assembly in Ciliates

    Science.gov (United States)

    Brijder, Robert; Jan Hoogeboom, Hendrik

    2007-09-01

    The theory of gene assembly in ciliates has much in common with the theory of sorting by reversal. Both model processes that are based on splicing, and have a fixed begin and end product. The main difference is the type of splicing operations used to obtain the end product from the begin product. In this overview paper we show that the concept of breakpoint graph, known from the theory of sorting by reversal, has many uses in the theory of gene assembly. Our aim is to present the material in an intuitive and informal manner to allow for an efficient introduction into the subject.

  8. Unit roots and structural breakpoints in China's macroeconomic and financial time series

    Institute of Scientific and Technical Information of China (English)

    LIANG Qi; TENG Jianzhou

    2006-01-01

    This paper applies unit-root tests to 10 Chinese macroeconomic and financial time series that allow for the possibility of up to two endogenous structural breaks.We found that 6 of the series,i.e.,GDP,GDP per capita,employment,bank credit,deposit liabilities and investment,can be more accurately characterized as a segmented trend stationarity process around one or two structural breakpoints as opposed to a stochastic unit root process.Our findings have important implications for policy-makers to formulate long-term growth strategy and short-run stabilization policies,as well as causality analysis among the series.

  9. Concurrent Breakpoints

    Science.gov (United States)

    2011-12-18

    and raytracer from the Java Grande Fo- rum [16]; and Jigsaw, W3C’s leading-edge Web server platform. For Jigsaw, we used a test harness that simulates...notify1 stall 1.00 Meth. II raytracer 1860 1.097 1.274 16.1 race1 test fail 1.00 1.196 9.0 race2 test fail 1.00 1.360 24.0 race3 1.00 1.428 30.2

  10. Robust demarcation of basal cell carcinoma by dependent component analysis-based segmentation of multi-spectral fluorescence images.

    Science.gov (United States)

    Kopriva, Ivica; Persin, Antun; Puizina-Ivić, Neira; Mirić, Lina

    2010-07-02

    This study was designed to demonstrate robust performance of the novel dependent component analysis (DCA)-based approach to demarcation of the basal cell carcinoma (BCC) through unsupervised decomposition of the red-green-blue (RGB) fluorescent image of the BCC. Robustness to intensity fluctuation is due to the scale invariance property of DCA algorithms, which exploit spectral and spatial diversities between the BCC and the surrounding tissue. Used filtering-based DCA approach represents an extension of the independent component analysis (ICA) and is necessary in order to account for statistical dependence that is induced by spectral similarity between the BCC and surrounding tissue. This generates weak edges what represents a challenge for other segmentation methods as well. By comparative performance analysis with state-of-the-art image segmentation methods such as active contours (level set), K-means clustering, non-negative matrix factorization, ICA and ratio imaging we experimentally demonstrate good performance of DCA-based BCC demarcation in two demanding scenarios where intensity of the fluorescent image has been varied almost two orders of magnitude.

  11. Between hope and evidence: how community advisors demarcate the boundary between legitimate and illegitimate stem cell treatments.

    Science.gov (United States)

    Petersen, Alan; Tanner, Claire; Munsie, Megan

    2015-03-01

    Stem cell science provides an exemplary study of the 'management of hope'. On the one hand, raising 'hopes' and expectations is a seen as a necessary aspect of securing investment in promising innovative research. On the other, such hyperbole risks raising hopes to a level that may lead people to undertake undue risks, which may ultimately undermine confidence in medical research. In this context, the 'management of hope' thus involves the negotiation of competing claims of truth about the value and safety of particular treatments and about the trustworthiness of providers. Using Gieryn's concept of boundary-work, this article examines the means by which this work of 'managing hope' is undertaken. Drawing on data collected as part of our study that investigated the perspectives of those who are consulted by patients and their carers about stem cell treatments, we explore how these community advisors – both scientists and clinicians with a stake in stem cell research and representatives from patient advocacy groups – demarcate the boundary between legitimate and illegitimate treatments. In particular, we examine how these actors rhetorically use 'evidence' to achieve this demarcation. We argue that analysing accounts of how advisors respond to patient enquiries about stem cell treatments offers a window for examining the workings of the politics of hope within contemporary bioscience and biomedicine. In conclusion, we emphasize the need to re-conceptualize the boundary between science and non-science so as to allow a better appreciation of the realities of health care in the age of medical travel.

  12. Eleven X chromosome breakpoints associated with premature ovarian failure (POF) map to a 15-Mb YAC contig spanning Xq21.

    Science.gov (United States)

    Sala, C; Arrigo, G; Torri, G; Martinazzi, F; Riva, P; Larizza, L; Philippe, C; Jonveaux, P; Sloan, F; Labella, T; Toniolo, D

    1997-02-15

    Eleven balanced X-autosome translocations associated with premature ovarian failure (POF) were mapped to a YAC contig spanning most of Xq21 and constructed between the DXS223 and DXS1171 loci. The contig corresponds to a genomic region of about 15 Mb and contains the whole X-Y homologous region. The most proximal and most distal breakpoints associated with POF were mapped 15 Mb apart. The remaining breakpoints were localized along this large region, in the X-specific and in the X-Y homologous region. Four of the YACs contained two breakpoints in the same or in flanking STS intervals. Our results confirm the cytological findings and suggest that a minimum number of eight different genes in Xq21 may be involved with ovary development. Interruption of such loci could be the cause of POF.

  13. 'Break-point Checkerboard Plate' for screening of appropriate antibiotic combinations against multidrug-resistant Pseudomonas aeruginosa.

    Science.gov (United States)

    Tateda, Kazuhiro; Ishii, Yoshikazu; Matsumoto, Tetsuya; Yamaguchi, Keizo

    2006-01-01

    Increase of multiple drug resistant Pseudomonas aeruginosa (MDRP) is becoming a serious problem in the clinical setting. Although the checkerboard method to determine FIC index and synergistic effects of antibiotic combinations is useful, it is not well adapted to a routine test, mainly because of its time-consuming and labor-intensive nature. Here we report 'Break-point Checkerboard Plate', in which breakpoint concentrations, such as 'S' (sensitive) and 'I' (intermediate), were combined in a microtiter plate with 8 antibiotics, including carbapenem, aminoglycoside and fluoroquinolone. The results obtained from 12 strains of MDRP demonstrated a strong synergistic effect of some antibiotic combinations at clinically relevant concentrations. Our data suggest a usefulness of 'Break-point Checkerboard Plate' to screen appropriate antibiotic combinations against drug resistant organisms, including MDRP.

  14. Genomic instability in rat: Breakpoints induced by ionising radiation and interstitial telomeric-like sequences

    Energy Technology Data Exchange (ETDEWEB)

    Camats, Nuria [Institut de Biotecnologia i Biomedicina (IBB), Universitat Autonoma de Barcelona, 08193 Barcelona (Spain); Departament de Biologia Cel.lular, Fisiologia i Immunologia Universitat Autonoma de Barcelona, 08193 Barcelona (Spain); Ruiz-Herrera, Aurora [Departament de Biologia Cel.lular, Fisiologia i Immunologia Universitat Autonoma de Barcelona, 08193 Barcelona (Spain); Parrilla, Juan Jose [Servicio de Ginecologia y Obstetricia, Hospital Universitario Virgen de la Arrixaca, Ctra, Madrid-Cartagena, s/n, El Palmar, 30120 Murcia (Spain); Acien, Maribel [Servicio de Ginecologia y Obstetricia, Hospital Universitario Virgen de la Arrixaca, Ctra, Madrid-Cartagena, s/n, El Palmar, 30120 Murcia (Spain); Paya, Pilar [Servicio de Ginecologia y Obstetricia, Hospital Universitario Virgen de la Arrixaca, Ctra, Madrid-Cartagena, s/n, El Palmar, 30120 Murcia (Spain); Giulotto, Elena [Dipartimento di Genetica e Microbiologia Adriano Buzzati Traverso, Universita degli Studi di Pavia, 27100 Pavia (Italy); Egozcue, Josep [Departament de Biologia Cel.lular, Fisiologia i Immunologia Universitat Autonoma de Barcelona, 08193 Barcelona (Spain); Garcia, Francisca [Institut de Biotecnologia i Biomedicina (IBB), Universitat Autonoma de Barcelona, 08193 Barcelona (Spain); Garcia, Montserrat [Institut de Biotecnologia i Biomedicina (IBB), Universitat Autonoma de Barcelona, 08193 Barcelona (Spain) and Departament de Biologia Cellular, Fisiologia i Immunologia Universitat Autonoma de Barcelona, 08193 Barcelona (Spain)]. E-mail: Montserrat.Garcia.Caldes@uab.es

    2006-03-20

    The Norwegian rat (Rattus norvegicus) is the most widely studied experimental species in biomedical research although little is known about its chromosomal structure. The characterisation of possible unstable regions of the karyotype of this species would contribute to the better understanding of its genomic architecture. The cytogenetic effects of ionising radiation have been widely used for the study of genomic instability, and the importance of interstitial telomeric-like sequences (ITSs) in instability of the genome has also been reported in previous studies in vertebrates. In order to describe the unstable chromosomal regions of R. norvegicus, the distribution of breakpoints induced by X-irradiation and ITSs in its karyotype were analysed in this work. For the X-irradiation analysis, 52 foetuses (from 14 irradiated rats) were studied, 4803 metaphases were analysed, and a total of 456 breakpoints induced by X-rays were detected, located in 114 chromosomal bands, with 25 of them significantly affected by X-irradiation (hot spots). For the analysis of ITSs, three foetuses (from three rats) were studied, 305 metaphases were analysed and 121 ITSs were detected, widely distributed in the karyotype of this species. Seventy-six percent of all hot spots analysed in this study were co-localised with ITSs.

  15. Control of onchocerciasis in Africa: threshold shifts, breakpoints and rules for elimination.

    Science.gov (United States)

    Duerr, Hans P; Raddatz, Günter; Eichner, Martin

    2011-04-01

    Control of onchocerciasis in Africa is currently based on annual community-directed treatment with ivermectin (CDTI) which has been assumed to be not efficient enough to bring about elimination. However, elimination has recently been reported to have been achieved by CDTI alone in villages of Senegal and Mali, reviving debate on the eradicability of onchocerciasis in Africa. We investigate the eradicability of onchocerciasis by examining threshold shifts and breakpoints predicted by a stochastic transmission model that has been fitted extensively to data. We show that elimination based on CDTI relies on shifting the threshold biting rate to a level that is higher than the annual biting rate. Breakpoints become relevant in the context of when to stop CDTI. In order for the model to predict a good chance for CDTI to eliminate onchocerciasis, facilitating factors such as the macrofilaricidal effect of ivermectin must be assumed. A chart predicting the minimum efficacy of CDTI required for elimination, dependent on the annual biting rate, is provided. Generalisable recommendations into strategies for the elimination of onchocerciasis are derived, particularly referring to the roles of vectors, the residual infection rate under control, and a low-spreader problem originating from patients with low parasite burdens.

  16. Heterogeneous breakpoints on the immunoglobulin genes are involved in fusion with the 5' region of BCL2 in B-cell tumors.

    Science.gov (United States)

    Yonetani, N; Ueda, C; Akasaka, T; Nishikori, M; Uchiyama, T; Ohno, H

    2001-09-01

    The 5' flanking region of the BCL2 gene (5'-BCL2) is a breakpoint cluster of rearrangements with immunoglobulin genes (IGs). In contrast to t(14;18)(q32;q21) affecting the 3' region of BCL2, 5'-BCL2 can fuse to not only the heavy chain gene (IGH), but also two light chain gene (IGL) loci. We report here cloning and sequencing of a total of eleven 5'-BCL2 / IGs junctional areas of B-cell tumors, which were amplified by long-distance polymerase chain reaction-based assays. The breakpoints on 5'-BCL2 were distributed from 378 to 2312 bp upstream of the translational initiation site and, reflecting the alteration of regulatory sequences of BCL2, 5'-BCL2 / IGs-positive cells showed markedly higher levels of BCL2 expression than those of t(14;18)-positive cells. In contrast, the breakpoints on the IGs were variable. Two 5'-BCL2 / IGH and two 5'-BCL2 / IGLkappa junctions occurred 5' of the joining (J) segments, suggesting operation of an erroneous variable (V) / diversity (D) / J and V / J rearrangement mechanism. However, two other 5'-BCL2 / IGH junctions affected switch regions, and the kappa-deleting element, which is located 24 kb downstream of the constant region of IGLkappa, followed the 5'-BCL2 in another case. One 5'-BCL2 / IGLkappa and two 5'-BCL2 / IGLlambda junctions involved intronic regions where the normal recombination process does not occur. In the remaining one case, the 5'-BCL2 fused 3' of a Vlambda gene that was upstream of another Vlambda / Jlambda complex carrying a non-producing configuration, indicating that the receptor editing mechanism was likely involved in this rearrangement. Our study revealed heterogeneous anatomy of the 5'-BCL2 / IGs fusion gene leading to transcriptional activation of BCL2, and suggested that the mechanisms underlying the formation of this particular oncogene / IGs recombination are not identical to those of t(14;18).

  17. Evaluation of Corneal Stromal Demarcation Line after Two Different Protocols of Accelerated Corneal Collagen Cross-Linking Procedures Using Anterior Segment Optical Coherence Tomography and Confocal Microscopy

    Directory of Open Access Journals (Sweden)

    Engin Bilge Ozgurhan

    2014-01-01

    Full Text Available Purpose. To evaluate the depth of corneal stromal demarcation line using AS-OCT and confocal microscopy after two different protocols of accelerated corneal collagen cross-linking procedures (CXL. Methods. Patients with keratoconus were divided into two groups. Peschke CXL device (Peschke CCL-VARIO Meditrade GmbH applied UVA light with an intended irradiance of 18.0 mW/cm2 for 5 minutes after applying riboflavin for 20 minutes (group 1 and 30 minutes (group 2. One month postoperatively, corneal stromal demarcation line was measured using AS-OCT and confocal microscopy. Results. This study enrolled 34 eyes of 34 patients (17 eyes in group 1 and 17 eyes in group 2. The mean depth of the corneal stromal demarcation line was 208.64±18.41 μm in group 1 and 240.37±18.89 μm in group 2 measured with AS OCT, while it was 210.29±18.66 μm in group 1 and 239.37±20.07 μm in group 2 measured with confocal microscopy. Corneal stromal demarcation line depth measured with AS OCT or confocal microscopy was significantly deeper in group 2 than group 1 (P<0.01. Conclusion. The group in which riboflavin was applied for 30 minutes showed significantly deeper corneal stromal demarcation line than the group in which riboflavin was applied for 20 minutes.

  18. Validation of antibiotic susceptibility testing guidelines in a routine clinical microbiology laboratory exemplifies general key challenges in setting clinical breakpoints.

    Science.gov (United States)

    Hombach, Michael; Courvalin, Patrice; Böttger, Erik C

    2014-07-01

    This study critically evaluated the new European Committee for Antimicrobial Susceptibility Testing (EUCAST) antibiotic susceptibility testing guidelines on the basis of a large set of disk diffusion diameters determined for clinical isolates. We report several paradigmatic problems that illustrate key issues in the selection of clinical susceptibility breakpoints, which are of general importance not only for EUCAST but for all guidelines systems, i.e., (i) the need for species-specific determinations of clinical breakpoints/epidemiological cutoffs (ECOFFs), (ii) problems arising from pooling data from various sources, and (iii) the importance of the antibiotic disk content for separating non-wild-type and wild-type populations.

  19. SVA retrotransposon insertion-associated deletion represents a novel mutational mechanism underlying large genomic copy number changes with non-recurrent breakpoints

    NARCIS (Netherlands)

    J. Vogt (Julia); K. Bengesser (Kathrin); K.B.M. Claes (Kathleen B.M.); K. Wimmer (Katharina); V.-F. Mautner (Victor-Felix); R. van Minkelen (Rick); E. Legius (Eric); H. Brems (Hilde); M. Upadhyaya (Meena); J. Högel (Josef); C. Lazaro (Conxi); T. Rosenbaum (Thorsten); S. Bammert (Simone); L. Messiaen (Ludwine); D.N. Cooper (David); H. Kehrer-Sawatzki (Hildegard)

    2014-01-01

    textabstractBackground: Genomic disorders are caused by copy number changes that may exhibit recurrent breakpoints processed by nonallelic homologous recombination. However, region-specific disease-associated copy number changes have also been observed which exhibit non-recurrent breakpoints. The me

  20. Orientation for the amendments to the State Indemnity Law of China-in view of the demarcation between indemnity and compensation

    Institute of Scientific and Technical Information of China (English)

    WANG Kai

    2007-01-01

    Traditionally, the understanding of the demarcation between indemnity and compensation starts from Rechtswidrigkeit (illegality). However, with the rise of"Erfolgsunrecht theory" and the objective base of negligence, and with the convergence of the theoretic bases of compensation and indemnity, the demarcation between compensation and indemnity is vanishing. This phenomenon should have given rise to our retrospection on the traditional research on the methods of state indemnity, which, at the same time, would be of a big influence on the orientation of the amendments to our State Indemnity Law and how to adopt the legislation on administrative compensation. Hence, it is necessary to reconstruct the elements of state indemnity and administrative compensation.

  1. The Federation of Indian Organizations of the Negro River’s journey for traditional land demarcation in Brazil

    Directory of Open Access Journals (Sweden)

    Fernanda Martinez de Oliveira

    2011-07-01

    Full Text Available The article aims to present the fight for government recognition of indigenous collective rights to land ownership in the Upper Rio Negro region in Brazil. It contextualizes the historical aspects of the colonization process in the region and the efforts to create the  Federation of Indian Organizations of the Negro River (FOIRN. Focus of particular interest is how the organizational strategy adopted by the FOIRN has allowed the Indian population of the Upper Rio Negro to active participate in the land demarcation process, with their opinions heard and respected. The article was written with basis on information obtained from a variety of sources, such as documents, conversations and interviews with the main social actors involved in the area, carried out during a field visit to São Gabriel da Cachoeira in January 2010. 

  2. Localization of X chromosome short arm markers relative to synovial sarcoma- and renal adenocarcinoma-associated translocation breakpoints

    NARCIS (Netherlands)

    Sinke, R J; de Leeuw, B; Janssen, H A; Weghuis, D O; Suijkerbuijk, R F; Meloni, A M; Gilgenkrantz, S; Berger, W; Ropers, H H; Sandberg, A A

    1993-01-01

    A series of thirteen different DNA markers was mapped relative to papillary renal cell carcinoma- and synovial sarcoma-associated translocation breakpoints in Xp11.2 using a panel of tumor-derived somatic cell hybrids in conjunction with Southern blot analysis. Our results indicate that the two tran

  3. Accuracy of carbapenem nonsusceptibility for identification of KPC-possessing Enterobacteriaceae by use of the revised CLSI breakpoints.

    Science.gov (United States)

    Landman, David; Salamera, Julius; Singh, Manisha; Quale, John

    2011-11-01

    Using the updated 2010 CLSI carbapenem breakpoints for the Enterobacteriaceae, nonsusceptibility to ertapenem and imipenem predicted the presence of bla(KPC) poorly, especially among Escherichia coli and Enterobacter species. In regions where KPC-producing bacteria are endemic, testing for nonsusceptibility to meropenem may provide improved accuracy in identifying these isolates.

  4. Accuracy of Carbapenem Nonsusceptibility for Identification of KPC-Possessing Enterobacteriaceae by Use of the Revised CLSI Breakpoints

    Science.gov (United States)

    Landman, David; Salamera, Julius; Singh, Manisha; Quale, John

    2011-01-01

    Using the updated 2010 CLSI carbapenem breakpoints for the Enterobacteriaceae, nonsusceptibility to ertapenem and imipenem predicted the presence of blaKPC poorly, especially among Escherichia coli and Enterobacter species. In regions where KPC-producing bacteria are endemic, testing for nonsusceptibility to meropenem may provide improved accuracy in identifying these isolates. PMID:21880962

  5. Gentamicin susceptibility in Escherichia coli related to the genetic background: problems with breakpoints

    DEFF Research Database (Denmark)

    Jakobsen, L.; Sandvang, D.; Jensen, Vibeke Frøkjær

    2007-01-01

    In total, 120 Escherichia coli isolates positive for one of the gentamicin resistance (GEN(R)) genes aac(3)-II, aac(3)-IV or ant(2 '')-I were tested for gentamicin susceptibility by the agar dilution method. Isolates positive for aac(3)-IV or ant(2 '')-I had an MIC distribution of 8-64 mg....../L, whereas isolates positive for aac(3)-II had MICs of 32 to > 512 mg/L, suggesting a relationship between the distribution of MICs and the specific GEN(R) mechanism. The MIC distribution, regardless of the GEN(R) mechanism, was 8 - > 512 mg/L, which supports the clinical breakpoint of MIC > 4 mg/L suggested...

  6. Accurate Breakpoint Mapping in Apparently Balanced Translocation Families with Discordant Phenotypes Using Whole Genome Mate-Pair Sequencing

    Science.gov (United States)

    Aristidou, Constantia; Koufaris, Costas; Theodosiou, Athina; Bak, Mads; Mehrjouy, Mana M.; Behjati, Farkhondeh; Tanteles, George; Christophidou-Anastasiadou, Violetta; Tommerup, Niels

    2017-01-01

    Familial apparently balanced translocations (ABTs) segregating with discordant phenotypes are extremely challenging for interpretation and counseling due to the scarcity of publications and lack of routine techniques for quick investigation. Recently, next generation sequencing has emerged as an efficacious methodology for precise detection of translocation breakpoints. However, studies so far have mainly focused on de novo translocations. The present study focuses specifically on familial cases in order to shed some light to this diagnostic dilemma. Whole-genome mate-pair sequencing (WG-MPS) was applied to map the breakpoints in nine two-way ABT carriers from four families. Translocation breakpoints and patient-specific structural variants were validated by Sanger sequencing and quantitative Real Time PCR, respectively. Identical sequencing patterns and breakpoints were identified in affected and non-affected members carrying the same translocations. PTCD1, ATP5J2-PTCD1, CADPS2, and STPG1 were disrupted by the translocations in three families, rendering them initially as possible disease candidate genes. However, subsequent mutation screening and structural variant analysis did not reveal any pathogenic mutations or unique variants in the affected individuals that could explain the phenotypic differences between carriers of the same translocations. In conclusion, we suggest that NGS-based methods, such as WG-MPS, can be successfully used for detailed mapping of translocation breakpoints, which can also be used in routine clinical investigation of ABT cases. Unlike de novo translocations, no associations were determined here between familial two-way ABTs and the phenotype of the affected members, in which the presence of cryptic imbalances and complex chromosomal rearrangements has been excluded. Future whole-exome or whole-genome sequencing will potentially reveal unidentified mutations in the patients underlying the discordant phenotypes within each family. In

  7. [Localization of 8q24 break-point of Burkitt lymphoma in Japan : relationship to EBV status].

    Science.gov (United States)

    Tatsumi, E; Ohno, H

    1997-02-01

    It has been reported that the break point of 8q24 in t (8; 14) (q24; q32) is located far up-stream from c-myc gene locus in endemic EBV (Epstein-Barr virus)-positive BL, while the break-point is located close to the 1st intron of c-myc gene in sporadic EBV-negative BL. Considering that no statistical analysis is available regarding BL in Japan, the break-point of chromosome No.8 was investigated in 13 BL/L3 cell lines (having t(8; 14)) and 4 fresh samples derived from Japanese patients, including 3 EBV-positive BL cell lines, by using long-distance PCR. In this PCR, one primer was set in the 2nd intron of the c-myc gene, and the other primer in Ig constant region gene, mu, gamma, alpha and epsilon. This long distance PCR can cover up to 30 kb. Thus, this PCR does'nt generate product, if the 8q24 break-point is located far up-stream (more than 50 kb) fom c-myc gene. In 2 of the 3 t (8; 14) EBV-positive BL lines, no product was generated in two lines(N831 and Middle 91), while a product was synthesized in one line(Akata), indicating that the 8q24 break-point is near the c-myc gene in Akata. In all the other BL/L3 lines, a product was synthesized. A larger number of BL cases are necessary to investigate in order to know which 8q24 break-point pattern is exhibited by EBV-positive BL in Japan, while this method is suitable for testing a large number of case materials.

  8. 29 CFR Appendix D to Subpart R of... - Illustration of the Use of Control Lines To Demarcate Controlled Decking Zones (CDZs): Non...

    Science.gov (United States)

    2010-07-01

    ... 29 Labor 8 2010-07-01 2010-07-01 false Illustration of the Use of Control Lines To Demarcate Controlled Decking Zones (CDZs): Non-mandatory Guidelines for Complying With § 1926.760(c)(3) D Appendix D... Steel Erection Pt. 1926, Subpt. R, App. D Appendix D to Subpart R of Part 1926—Illustration of the...

  9. Indigenous territorial rights as a human right; an analysis of the (auto demarcation of indigenous territories process in Venezuela (1999-2014

    Directory of Open Access Journals (Sweden)

    Linda Bustillos

    2016-04-01

    Full Text Available The 1999 Constitution of the Bolivarian Republic of Venezuela (CBRV recognizes Indigenous Rights; among them, the territorial claims. In agreement with what is stated in the article 119 of the Magna Carta, the right to the territory of these populations is exercised through the public policy of demarcation, which is understood as the process in which its territorial space is disclaimed, made by the State in participation with the peoples and communities to be demarcated, subsequently to entitle the collective ownership for these human beings groups. Fifteen years after the Constitution was approved, this process of delineation has been slow and misleading. This delay has caused that in the present, these human beings groups are being stalked by outside interests (illegal mining, development projects, irregular forces, among others who threaten their existence as distinct cultures; since the right to territory is a fundamental human right for their survival. This article is the result of a field research. In the first part, the study analyzes the Organic Law of Indigenous Peoples and Communities (LOPCI (2005 in Venezuela, with the purpose of clarifying at what stage the territorial demarcation process is paralyzed; and as a result, it describes how many communities and indigenous peoples have been demarcated and entitled from 2005 to 2014.

  10. Conventional cytogenetics and breakpoint distribution by fluorescent in situ hybridization in patients with malignant hemopathies associated with inv(3)(q21;q26) and t(3;3)(q21;q26).

    Science.gov (United States)

    De Braekeleer, Etienne; Douet-Guilbert, Nathalie; Basinko, Audrey; Bovo, Clément; Guéganic, Nadia; Le Bris, Marie-Josée; Morel, Frédéric; De Braekeleer, Marc

    2011-10-01

    Inv(3)(q21q26)/t(3;3)(q21;q26) is recognized as a distinctive entity of acute myeloid leukemia (AML) with recurrent genetic abnormalities of prognostic significance. It occurs in 1-2.5% of AML and is also observed in myelodysplastic syndromes and in the blastic phase of chronic myeloid leukemia. The molecular consequence of the inv(3)/t(3;3) rearrangements is the juxtaposition of the ribophorin I (RPN1) gene (located in band 3q21) with the ecotropic viral integration site 1 (EVI1) gene (located in band 3q26.2). Following conventional cytogenetics to determine the karyotype, fluorescent in situ hybridization (FISH) with a panel of bacterial artificial chromosome clones was used to map the breakpoints involved in 15 inv(3)/t(3;3). Inv(3) or t(3;3) was the sole karyotypic anomaly in 6 patients, while additional abnormalities were identified in the remaining 9 patients, including 4 with monosomy of chromosome7 (-7) or a deletion of its long arm (7q-). Breakpoints in band 3q21 were distributed in a 235 kb region centromeric to and including the RPN1 locus, while those in band 3q26.2 were scattered in a 900 kb region located on each side of and including the EVI1 locus. In contrast to most of the inversions and translocations associated with AML that lead to fusion genes, inv(3)/t(3;3) does not generate a chimeric gene, but rather induces gene overexpression. The wide dispersion of the breakpoints in bands 3q21 and 3q26 and the heterogeneity of the genomic consequences could explain why the mechanisms leading to leukemogenesis are still poorly understood. Therefore, it is important to further characterize these chromosomal abnormalities by FISH.

  11. Demarcation of homogeneous structural domains within a rock mass based on joint orientation and trace length

    Science.gov (United States)

    Song, Shengyuan; Wang, Qing; Chen, Jianping; Cao, Chen; Li, Yanyan; Zhou, Xin

    2015-11-01

    This paper presents a new method for determining the structural domain boundaries within the rock mass. This new method is based on a statistical comparison of data from pairs of sample regions. The stereonet is divided into 100 windows with approximately equal areas. The poles of joints occurring in each corresponding window on the two projection plots of the regions being compared are then merged and arranged in ascending order with respect to their trace lengths. Finally, the Wald-Wolfowitz runs test is used to identify the homogeneity of structural populations by analyzing the joint sequence. Based on a significance level of 0.01, the homogeneity of structural populations collected from four adjacent adits at the Songta dam site is determined using the proposed method. The results show that the boundaries of structural domain change with the sizes of the sampling domains being compared. The initial sampling domains should be selected according to the engineering geological conditions of the studied area. In addition, the clear advantage of the proposed method is that both joint orientation and trace length are considered.

  12. What are genres good for? Divisions, demarcations and classifications in structural and cognitive anthropology, on the example of music culture

    Directory of Open Access Journals (Sweden)

    Bojan Žikić

    2016-02-01

    Full Text Available Levi-Strauss’s theoretical-methodological "legatee" – anthropological structuralism was one of the most important theoretical frameworks used in cognitive anthropology. Since it was sometimes too abstract for ‘practical’ minds, trained in British-American empirical traditions, Levi-Strauss thought was mediated through the works of British structural-functionalist, particularly those of Mary Douglas and Edmund Leach, who established its premises as a kind of contextualised particularism of the unquestioned universalism. Ideas about the way in which human cultural mind functions, is one of the corner stones of cognitive anthropology, which cognitive anthropology shares with structural anthropology, and from which cognitive anthropology actually inherits what it shares with structural anthropology – this sounds properly structural – that is: an interest in the processes of division, demarcation and classification in a sense of cultural management of a perceived surrounding reality. An example for such analysis, that I use in this paper, is music, or more precisely music culture, an expression that I use in order to imply that the affinity to a type of music, or musical genre should be understood in a sense of a particular cultural way of thinking and acting.

  13. 有关词义分类的几点思考%Reflections on Demarcation of Certain Lexical Meaning

    Institute of Scientific and Technical Information of China (English)

    马壮寰

    2012-01-01

    The study of lexical meaning, an integral part of semantics, normally begins with demarcating lexical meaning, which is still a controversial and open issue today. Of the two widely accepted distinctive types of meaning, "sense" is the term which this paper attempts to elucidate. The paper also provides certain critical commentary on defining "sense" as "wholly internal to the language system" .%作为语义学的重要部分,对词义的研究通常以词义分类或区分开始。如何区分词义一直是一个有争论的、开放的议题。本文主要针对被普遍接受的sense与reference(或sense与denotation)的二项对立中的sense加以某些诠释并对sense“完全是语言内部的”这一界定进行了一定批评性思考。

  14. Susceptibility breakpoints for amphotericin B and Aspergillus species in an in vitro pharmacokinetic-pharmacodynamic model simulating free-drug concentrations in human serum

    NARCIS (Netherlands)

    Elefanti, A.; Mouton, J.W.; Verweij, P.E.; Zerva, L.; Meletiadis, J.

    2014-01-01

    Although conventional amphotericin B was for many years the drug of choice and remains an important agent against invasive aspergillosis, reliable susceptibility breakpoints are lacking. Three clinical Aspergillus isolates (Aspergillus fumigatus, Aspergillus flavus, and Aspergillus terreus) were tes

  15. Identification of submicroscopic genetic changes and precise breakpoint mapping in myelofibrosis using high resolution mate-pair sequencing.

    Science.gov (United States)

    Lasho, Terra; Johnson, Sarah H; Smith, David I; Crispino, John D; Pardanani, Animesh; Vasmatzis, George; Tefferi, Ayalew

    2013-09-01

    We used high resolution mate-pair sequencing (HRMPS) in 15 patients with primary myelofibrosis (PMF): eight with normal karyotype and seven with PMF-characteristic cytogenetic abnormalities, including der(6)t(1;6)(q21-23;p21.3) (n = 4), der(7)t(1;7)(q10;p10) (n = 2), del(20)(q11.2q13.3) (n = 3), and complex karyotype (n = 1). We describe seven novel deletions/translocations in five patients (including two with normal karyotype) whose breakpoints were PCR-validated and involved MACROD2, CACNA2D4, TET2, SGMS2, LRBA, SH3D19, INTS3, FOP (CHTOP), SCLT1, and PHF17. Deletions with breakpoints involving MACROD2 (lysine deacetylase; 20p12.1) were recurrent and found in two of the 15 study patients. A novel fusion transcript was found in one of the study patients (INTS3-CHTOP), and also in an additional non-study patient with PMF. In two patients with der(6)t(1;6)(q21-23;p21.3), we were able to map the precise translocation breakpoints, which involved KCNN3 and GUSBP2 in one case and HYDIN2 in another. This study demonstrates the utility of HRMPS in uncovering submicroscopic deletions/translocations/fusions, and precise mapping of breakpoints in those with overt cytogenetic abnormalities. The overall results confirm the genetic heterogeneity of PMF, given the low frequency of recurrent specific abnormalities, identified by this screening strategy. Currently, we are pursuing the pathogenetic relevance of some of the aforementioned findings.

  16. Variable breakpoints target PAX5 in patients with dicentric chromosomes: a model for the basis of unbalanced translocations in cancer.

    Science.gov (United States)

    An, Qian; Wright, Sarah L; Konn, Zoë J; Matheson, Elizabeth; Minto, Lynne; Moorman, Anthony V; Parker, Helen; Griffiths, Mike; Ross, Fiona M; Davies, Teresa; Hall, Andy G; Harrison, Christine J; Irving, Julie A; Strefford, Jon C

    2008-11-04

    The search for target genes involved in unbalanced acquired chromosomal abnormalities has been largely unsuccessful, because the breakpoints of these rearrangements are too variable. Here, we use the example of dicentric chromosomes in B cell precursor acute lymphoblastic leukemia to show that, despite this heterogeneity, single genes are targeted through a variety of mechanisms. FISH showed that, although they were heterogeneous, breakpoints on 9p resulted in the partial or complete deletion of PAX5. Molecular copy number counting further delineated the breakpoints and facilitated cloning with long-distance inverse PCR. This approach identified 5 fusion gene partners with PAX5: LOC392027 (7p12.1), SLCO1B3 (12p12), ASXL1 (20q11.1), KIF3B (20q11.21), and C20orf112 (20q11.1). In each predicted fusion protein, the DNA-binding paired domain of PAX5 was present. Using quantitative PCR, we demonstrated that both the deletion and gene fusion events resulted in the same underexpression of PAX5, which extended to the differential expression of the PAX5 target genes, EBF1, ALDH1A1, ATP9A, and FLT3. Further molecular analysis showed deletion and mutation of the homologous PAX5 allele, providing further support for the key role of PAX5. Here, we show that specific gene loci may be the target of heterogeneous translocation breakpoints in human cancer, acting through a variety of mechanisms. This approach indicates an application for the identification of cancer genes in solid tumours, where unbalanced chromosomal rearrangements are particularly prevalent and few genes have been identified. It can be extrapolated that this strategy will reveal that the same mechanisms operate in cancer pathogenesis in general.

  17. Huntingtin-associated protein 1 interacts with breakpoint cluster region protein to regulate neuronal differentiation.

    Directory of Open Access Journals (Sweden)

    Pai-Tsang Huang

    Full Text Available Alterations in microtubule-dependent trafficking and certain signaling pathways in neuronal cells represent critical pathogenesis in neurodegenerative diseases. Huntingtin (Htt-associated protein-1 (Hap1 is a brain-enriched protein and plays a key role in the trafficking of neuronal surviving and differentiating cargos. Lack of Hap1 reduces signaling through tropomyosin-related kinases including extracellular signal regulated kinase (ERK, resulting in inhibition of neurite outgrowth, hypothalamic dysfunction and postnatal lethality in mice. To examine how Hap1 is involved in microtubule-dependent trafficking and neuronal differentiation, we performed a proteomic analysis using taxol-precipitated microtubules from Hap1-null and wild-type mouse brains. Breakpoint cluster region protein (Bcr, a Rho GTPase regulator, was identified as a Hap1-interacting partner. Bcr was co-immunoprecipitated with Hap1 from transfected neuro-2a cells and co-localized with Hap1A isoform more in the differentiated than in the nondifferentiated cells. The Bcr downstream effectors, namely ERK and p38, were significantly less activated in Hap1-null than in wild-type mouse hypothalamus. In conclusion, Hap1 interacts with Bcr on microtubules to regulate neuronal differentiation.

  18. Evaluation of susceptibility test breakpoints used to predict mecA-mediated resistance in Staphylococcus pseudintermedius isolated from dogs.

    Science.gov (United States)

    Bemis, David A; Jones, Rebekah D; Frank, Linda A; Kania, Stephen A

    2009-01-01

    Clinical and Laboratory Standards Institute interpretive breakpoints for in vitro susceptibility tests that predict mecA-mediated oxacillin resistance in Staphylococcus pseudintermedius isolates from animals have been changed twice in the past decade. Moreover, there are no counterpart recommendations for human isolates of S. pseudintermedius. Individual medical and veterinary laboratories variably use interpretive breakpoints identical to those recommended for use with Staphylococcus aureus or identical to those recommended for use with coagulase-negative staphylococci. The purpose of the current study was to examine correlations between oxacillin disk diffusion, oxacillin gradient diffusion, oxacillin microbroth dilution, and cefoxitin disk diffusion tests used to predict mecA-mediated resistance in S. pseudintermedius and to retrospectively estimate, from disk diffusion zone diameter measurements, the prevalence and rate of increase of oxacillin resistance among canine S. pseudintermedius isolates submitted to a veterinary teaching hospital laboratory. Oxacillin disk diffusion zone diameters of or=0.5 microg/ml were highly correlated with detection of mecA in canine S. pseudintermedius isolates by polymerase chain reaction. MecA-mediated resistance among S. pseudintermedius isolates from dogs increased from less than 5% in 2001 to near 30% in 2007. More than 90% of the methicillin-resistant S. pseudintermedius isolates in 2006 and 2007 were also resistant to representatives of >or=4 additional antimicrobial drug classes. Cefoxitin disk diffusion with the resistance breakpoint set at pseudintermedius.

  19. SRBreak: A Read-Depth and Split-Read Framework to Identify Breakpoints of Different Events Inside Simple Copy-Number Variable Regions.

    Science.gov (United States)

    Nguyen, Hoang T; Boocock, James; Merriman, Tony R; Black, Michael A

    2016-01-01

    Copy-number variation (CNV) has been associated with increased risk of complex diseases. High-throughput sequencing (HTS) technologies facilitate the detection of copy-number variable regions (CNVRs) and their breakpoints. This helps in understanding genome structure as well as their evolution process. Various approaches have been proposed for detecting CNV breakpoints, but currently it is still challenging for tools based on a single analysis method to identify breakpoints of CNVs. It has been shown, however, that pipelines which integrate multiple approaches are able to report more reliable breakpoints. Here, based on HTS data, we have developed a pipeline to identify approximate breakpoints (±10 bp) relating to different ancestral events within a specific CNVR. The pipeline combines read-depth and split-read information to infer breakpoints, using information from multiple samples to allow an imputation approach to be taken. The main steps involve using a normal mixture model to cluster samples into different groups, followed by simple kernel-based approaches to maximize information obtained from read-depth and split-read approaches, after which common breakpoints of groups are inferred. The pipeline uses split-read information directly from CIGAR strings of BAM files, without using a re-alignment step. On simulated data sets, it was able to report breakpoints for very low-coverage samples including those for which only single-end reads were available. When applied to three loci from existing human resequencing data sets (NEGR1, LCE3, IRGM) the pipeline obtained good concordance with results from the 1000 Genomes Project (92, 100, and 82%, respectively). The package is available at https://github.com/hoangtn/SRBreak, and also as a docker-based application at https://registry.hub.docker.com/u/hoangtn/srbreak/.

  20. Caspofungin Etest susceptibility testing of Candida species: risk of misclassification of susceptible isolates of C. glabrata and C. krusei when adopting the revised CLSI caspofungin breakpoints.

    Science.gov (United States)

    Arendrup, Maiken Cavling; Pfaller, Michael A

    2012-07-01

    The purpose of this study was to evaluate the performance of caspofungin Etest and the recently revised CLSI breakpoints. A total of 497 blood isolates, of which 496 were wild-type isolates, were included. A total of 65/496 susceptible isolates (13.1%) were misclassified as intermediate (I) or resistant (R). Such misclassifications were most commonly observed for Candida krusei (73.1%) and Candida glabrata (33.1%). The revised breakpoints cannot be safely adopted for these two species.

  1. Effects of Breakpoint Changes on Carbapenem Susceptibility Rates ofEnterobacteriaceae: Results from the SENTRY Antimicrobial Surveillance Program, United States, 2008 to 2012

    Directory of Open Access Journals (Sweden)

    Robert P Rennie

    2014-01-01

    Full Text Available In the absence of clinical resistance, breakpoints for many antimicrobial agents are often set high. Clinical failures following use of the agents over time requires re-evaluation of breakpoints. This is based on patient response, pharmacokinetic/pharmacodynamic information and in vitro minimal inhibitory concentration data. Data from the SENTRY Antimicrobial Surveillance Program has shown that Clinical and Laboratory Standards Institute breakpoint changes for carbapenems that occurred between 2008 and 2012 in North America have resulted in decreased levels of susceptibility for some species. In particular, reduced susceptibility to imipenem was observed for Proteus mirabilis (35% and Morganella morganii (80%. Minor decreases in susceptibility were also noted for Enterobacter species with ertapenem (5% and imipenem (4.3%, and Serratia species with imipenem (6.4%. No significant decreases in susceptibility were observed for meropenem following the breakpoint changes. There were no earlier breakpoints established for doripenem. Very few of these Enterobacteriaceae produce carbapenamase enzymes; therefore, the clinical significance of these changes has not yet been clearly determined. In conclusion, ongoing surveillance studies with in vitro minimum inhibitory concentration data are essential in predicting the need for breakpoint changes and in identifying the impact of such changes on the percent susceptibility of different species.

  2. Marine geodesy a multipurpose approach to solve oceanic problems. [including submersible navigation under iced seas, demarcation and determination of boundaries in deep ocean, tsunamis, and ecology

    Science.gov (United States)

    Saxena, N.

    1974-01-01

    Various current and future problem areas of marine geodesy are identified. These oceanic problem areas are highly diversified and include submersible navigation under ice seas, demarcation and determination of boundaries in deep ocean, tsunamis, ecology, etc., etc. Their achieved as well as desired positional accuracy estimates, based upon publications and discussions, are also given. A multipurpose approach to solve these problems is described. An optimum configuration of an ocean-bottom control-net unit is provided.

  3. Nodal dependent differential localisation of dishevelled-2 demarcates regions of differing cell behaviour in the visceral endoderm.

    Directory of Open Access Journals (Sweden)

    Georgios Trichas

    2011-02-01

    coordinating global cell movements across epithelia (such as during convergence extension, PCP signalling in interplay with TGFβ signalling can demarcate regions of differing behaviour within epithelia, thereby modulating the movement of cells within them.

  4. Evaluation of Oxacillin and Cefoxitin Disk and MIC Breakpoints for Prediction of Methicillin Resistance in Human and Veterinary Isolates of Staphylococcus intermedius Group

    Science.gov (United States)

    Wu, M. T.; Westblade, L. F.; Dien Bard, J.; Wallace, M. A.; Stanley, T.; Burd, E.; Hindler, J.

    2015-01-01

    Staphylococcus pseudintermedius is a coagulase-positive species that colonizes the nares and anal mucosa of healthy dogs and cats. Human infections with S. pseudintermedius range in severity from bite wounds and rhinosinusitis to endocarditis; historically, these infections were thought to be uncommon, but new laboratory methods suggest that their true incidence is underreported. Oxacillin and cefoxitin disk and MIC tests were evaluated for the detection of mecA- or mecC-mediated methicillin resistance in 115 human and animal isolates of the Staphylococcus intermedius group (SIG), including 111 Staphylococcus pseudintermediusand 4 Staphylococcus delphini isolates, 37 of which were mecA positive. The disk and MIC breakpoints evaluated included the Clinical and Laboratory Standards Institute (CLSI) M100-S25 Staphylococcus aureus/Staphylococcus lugdunensis oxacillin MIC breakpoints and cefoxitin disk and MIC breakpoints, the CLSI M100-S25 coagulase-negative Staphylococcus (CoNS) oxacillin MIC breakpoint and cefoxitin disk breakpoint, the CLSI VET01-S2 S. pseudintermedius oxacillin MIC and disk breakpoints, and the European Committee on Antimicrobial Susceptibility Testing (EUCAST) S. pseudintermedius cefoxitin disk breakpoint. The oxacillin results interpreted by the VET01-S2 (disk and MIC) and M100-S25 CoNS (MIC) breakpoints agreed with the results of mecA/mecC PCR for all isolates, with the exception of one false-resistant result (1.3% of mecA/mecC PCR-negative isolates). In contrast, cefoxitin tests performed poorly, ranging from 3 to 89% false susceptibility (very major errors) and 0 to 48% false resistance (major errors). BD Phoenix, bioMérieux Vitek 2, and Beckman Coulter MicroScan commercial automated susceptibility test panel oxacillin MIC results were also evaluated and demonstrated >95% categorical agreement with mecA/mecC PCR results if interpreted by using the M100-S25 CoNS breakpoint. The Alere penicillin-binding protein 2a test accurately detected all

  5. Evaluation of Oxacillin and Cefoxitin Disk and MIC Breakpoints for Prediction of Methicillin Resistance in Human and Veterinary Isolates of Staphylococcus intermedius Group.

    Science.gov (United States)

    Wu, M T; Burnham, C-A D; Westblade, L F; Dien Bard, J; Lawhon, S D; Wallace, M A; Stanley, T; Burd, E; Hindler, J; Humphries, R M

    2016-03-01

    Staphylococcus pseudintermedius is a coagulase-positive species that colonizes the nares and anal mucosa of healthy dogs and cats. Human infections with S. pseudintermedius range in severity from bite wounds and rhinosinusitis to endocarditis; historically, these infections were thought to be uncommon, but new laboratory methods suggest that their true incidence is underreported. Oxacillin and cefoxitin disk and MIC tests were evaluated for the detection of mecA- or mecC-mediated methicillin resistance in 115 human and animal isolates of the Staphylococcus intermedius group (SIG), including 111 Staphylococcus pseudintermediusand 4 Staphylococcus delphini isolates, 37 of which were mecA positive. The disk and MIC breakpoints evaluated included the Clinical and Laboratory Standards Institute (CLSI) M100-S25 Staphylococcus aureus/Staphylococcus lugdunensis oxacillin MIC breakpoints and cefoxitin disk and MIC breakpoints, the CLSI M100-S25 coagulase-negative Staphylococcus (CoNS) oxacillin MIC breakpoint and cefoxitin disk breakpoint, the CLSI VET01-S2 S. pseudintermedius oxacillin MIC and disk breakpoints, and the European Committee on Antimicrobial Susceptibility Testing (EUCAST) S. pseudintermedius cefoxitin disk breakpoint. The oxacillin results interpreted by the VET01-S2 (disk and MIC) and M100-S25 CoNS (MIC) breakpoints agreed with the results of mecA/mecC PCR for all isolates, with the exception of one false-resistant result (1.3% of mecA/mecC PCR-negative isolates). In contrast, cefoxitin tests performed poorly, ranging from 3 to 89% false susceptibility (very major errors) and 0 to 48% false resistance (major errors). BD Phoenix, bioMérieux Vitek 2, and Beckman Coulter MicroScan commercial automated susceptibility test panel oxacillin MIC results were also evaluated and demonstrated >95% categorical agreement with mecA/mecC PCR results if interpreted by using the M100-S25 CoNS breakpoint. The Alere penicillin-binding protein 2a test accurately detected all

  6. Bilateral renal agenesis/hypoplasia/dysplasia (BRAHD: postmortem analysis of 45 cases with breakpoint mapping of two de novo translocations.

    Directory of Open Access Journals (Sweden)

    Louise Harewood

    Full Text Available BACKGROUND: Bilateral renal agenesis/hypoplasia/dysplasia (BRAHD is a relatively common, lethal malformation in humans. Established clinical risk factors include maternal insulin dependent diabetes mellitus and male sex of the fetus. In the majority of cases, no specific etiology can be established, although teratogenic, syndromal and single gene causes can be assigned to some cases. METHODOLOGY/PRINCIPAL FINDINGS: 45 unrelated fetuses, stillbirths or infants with lethal BRAHD were ascertained through a single regional paediatric pathology service (male:female 34:11 or 3.1:1. The previously reported phenotypic overlaps with VACTERL, caudal dysgenesis, hemifacial microsomia and Müllerian defects were confirmed. A new finding is that 16/45 (35.6%; m:f 13:3 or 4.3:1 BRAHD cases had one or more extrarenal malformations indicative of a disoder of laterality determination including; incomplete lobulation of right lung (seven cases, malrotation of the gut (seven cases and persistence of the left superior vena cava (five cases. One such case with multiple laterality defects and sirelomelia was found to have a de novo apparently balanced reciprocal translocation 46,XY,t(2;6(p22.3;q12. Translocation breakpoint mapping was performed by interphase fluorescent in-situ hybridization (FISH using nuclei extracted from archival tissue sections in both this case and an isolated bilateral renal agenesis case associated with a de novo 46,XY,t(1;2(q41;p25.3. Both t(2;6 breakpoints mapped to gene-free regions with no strong evidence of cis-regulatory potential. Ten genes localized within 500 kb of the t(1;2 breakpoints. Wholemount in-situ expression analyses of the mouse orthologs of these genes in embryonic mouse kidneys showed strong expression of Esrrg, encoding a nuclear steroid hormone receptor. Immunohistochemical analysis showed that Esrrg was restricted to proximal ductal tissue within the embryonic kidney. CONCLUSIONS/SIGNIFICANCE: The previously unreported

  7. Analysis of t(9;17)(q33.2;q25.3) chromosomal breakpoint regions and genetic association reveals novel candidate genes for bipolar disorder

    DEFF Research Database (Denmark)

    Rajkumar, A.P.; Christensen, Jane H.; Mattheisen, Manuel

    2015-01-01

    OBJECTIVES: Breakpoints of chromosomal abnormalities facilitate identification of novel candidate genes for psychiatric disorders. Genome-wide significant evidence supports the linkage between chromosome 17q25.3 and bipolar disorder (BD). Co-segregation of translocation t(9;17)(q33.2;q25.......3) with psychiatric disorders has been reported. We aimed to narrow down these chromosomal breakpoint regions and to investigate the associations between single nucleotide polymorphisms within these regions and BD as well as schizophrenia (SZ) in large genome-wide association study samples. METHODS: We cross......,856) data. Genetic associations between these disorders and single nucleotide polymorphisms within these breakpoint regions were analysed by BioQ, FORGE, and RegulomeDB programmes. RESULTS: Four protein-coding genes [coding for (endonuclease V (ENDOV), neuronal pentraxin I (NPTX1), ring finger protein 213...

  8. Nerve growth factor receptor gene is at human chromosome region 17q12-17q22, distal to the chromosome 17 breakpoint in acute leukemias

    Energy Technology Data Exchange (ETDEWEB)

    Huebner, K.; Isobe, M.; Chao, M.; Bothwell, M.; Ross, A.H.; Finan, J.; Hoxie, J.A.; Sehgal, A.; Buck, C.R.; Lanahan, A.

    1986-03-01

    Genomic and cDNA clones for the human nerve growth factor receptor have been used in conjunction with somatic cell hybrid analysis and in situ hybridization to localize the nerve growth factor receptor locus to human chromosome region 17q12-q22. Additionally, part, if not all, of the nerve growth factor receptor locus is present on the translocated portion of 17q (17q21-qter) from a poorly differential acute leukemia in which the chromosome 17 breakpoint was indistinguishable cytogenetically from the 17 breakpoint observed in the t(15;17)(q22;q21) translocation associated with acute promyelocytic leukemia. Thus the nerve growth factor receptor locus may be closely distal to the acute promyelocytic leukemia-associated chromosome 17 breakpoint at 17q21.

  9. Translocation breakpoint maps 5 kb 3' from TWIST in a patient affected with Saethre-Chotzen syndrome.

    Science.gov (United States)

    Krebs, I; Weis, I; Hudler, M; Rommens, J M; Roth, H; Scherer, S W; Tsui, L C; Füchtbauer, E M; Grzeschik, K H; Tsuji, K; Kunz, J

    1997-07-01

    Saethre-Chotzen syndrome, a common autosomal dominant craniosynostosis in humans, is characterized by brachydactyly, soft tissue syndactyly and facial dysmorphism including ptosis, facial asymmetry, and prominent ear crura. Previously, we identified a yeast artificial chromosome that encompassed the breakpoint of an apparently balanced t(6;7) (q16.2;p15.3) translocation associated with a mild form of Saethre-Chotzen syndrome. We now describe, at the DNA sequence level, the region on chromosome 7 affected by this translocation event. The rearrangement occurred approximately 5 kb 3' of the human TWIST locus and deleted 518 bp of chromosome 7. The TWIST gene codes for a transcription factor containing a basic helix-loop-helix (b-HLH) motif and has recently been described as a candidate gene for Saethre-Chotzen syndrome, based on the detection of mutations within the coding region. Potential exon sequences flanking the chromosome 7 translocation breakpoint did not hit known genes in database searches. The chromosome rearrangement downstream of TWIST is compatible with the notion that this is a Saethre-Chotzen syndrome gene and implies loss of function of one allele by a positional effect as a possible mechanism of mutation to evoke the syndrome.

  10. A real-time PCR-based semi-quantitative breakpoint to aid in molecular identification of urinary tract infections.

    Science.gov (United States)

    Hansen, Wendy L J; van der Donk, Christina F M; Bruggeman, Cathrien A; Stobberingh, Ellen E; Wolffs, Petra F G

    2013-01-01

    This study presents a novel approach to aid in diagnosis of urinary tract infections (UTIs). A real-time PCR assay was used to screen for culture-positive urinary specimens and to identify the causative uropathogen. Semi-quantitative breakpoints were used to screen for significant bacteriuria (presence of ≥ 10(5) CFU/ml of uropathogens) or low-level bacteriuria (containing between 10(3) and 10(4) CFU/ml of uropathogens). The 16S rDNA-based assay could identify the most prevalent uropathogens using probes for Escherichia coli, Pseudomonas species, Pseudomonas aeruginosa, Staphylococcus species, Staphylococcus aureus, Enterococcus species and Streptococcus species. 330 urinary specimens were analysed and results were compared with conventional urine culture. Using a PCR Ct value of 25 as semi-quantitative breakpoint for significant bacteriuria resulted in a sensitivity and specificity of 97% and 80%, respectively. In 78% of the samples with monomicrobial infections the assay contained probes to detect the bacteria present in the urine specimens and 99% of these uropathogens was correctly identified. Concluding, this proof-of-concept approach demonstrates that the assay can distinguish bacteriuria from no bacteriuria as well as detect the involved uropathogen within 4 hours after sampling, allowing adequate therapy decisions within the same day as well as drastically reduce consequent urine culturing.

  11. Impact of new Clinical Laboratory Standards Institute Streptococcus pneumoniae penicillin susceptibility testing breakpoints on reported resistance changes over time.

    Science.gov (United States)

    Mera, Robertino M; Miller, Linda A; Amrine-Madsen, Heather; Sahm, Daniel F

    2011-03-01

    The analysis comprised a total of 97,843 U.S. isolates from the Surveillance Network(®) database for the period 1996-2008. Penicillin resistance, when defined using the old Clinical Laboratory Standards Institute breakpoint (≥2 μg/ml), had an initial rise that started in 1996, peaked in 2000, declined until 2003, and rebounded through 2008 (15.6%, 23.2%, 15.4%, and 16.9%, respectively). Using the new Clinical Laboratory Standards Institute criteria and applying a breakpoint of ≥8 μg/ml to blood and bronchial isolates, resistance was unchanged (0.24% in 2003) but rose to 1.52% in 2008. Using the new meningitis criteria (≥0.12 μg/ml), resistance prevalence was 34.8% in 2008, whereas it was 12.3% using the old criteria (≥2 μg/ml) for cerebrospinal fluid isolates. The rise, fall, and subsequent rebound of penicillin resistance in the United States, presumably influenced by the introduction of the conjugate pneumococcal vaccine, is clearly seen with the old definition, but only the rebound is seen when the new criteria are applied. In the postvaccine period, isolates with minimum inhibitory concentrations of 1 and 2 μg/ml decline, whereas those with minimum inhibitory concentrations of 0.12-0.5 increase, which may signal the loss of resistant vaccine serotypes and the acquisition of resistance by nonvaccine serotypes.

  12. Attempt to validate breakpoint MIC values estimated from pharmacokinetic data obtained during oxolinic acid therapy of winter ulcer disease in Atlantic salmon ( Salmo salar )

    DEFF Research Database (Denmark)

    Coyne, R.; Bergh, Ø.; Samuelsen, O.

    2004-01-01

    and between healthy and moribund fish, presents difficulties in generating a clinically meaningful description relevant to the whole population. This issue is discussed, and it is suggested that for this application, the minimum concentration achieved by at least 80% of the treated population might represent...... a useful parameter for describing the concentrations of agents achieved during therapy. The plasma data from this investigation were used to estimate clinically relevant breakpoint minimum inhibitory concentration (MIC) values. The validity of these breakpoint values was discussed with reference...

  13. Impact of revised cefepime CLSI breakpoints on Escherichia coli and Klebsiella pneumoniae susceptibility and potential impact if applied to Pseudomonas aeruginosa.

    Science.gov (United States)

    Hamada, Yukihiro; Sutherland, Christina A; Nicolau, David P

    2015-05-01

    The CLSI reduced the cefepime Enterobacteriaceae susceptibility breakpoint and introduced the susceptible-dose-dependent (S-DD) category. In this study, MICs were determined for a Gram-negative collection to assess the impact of this change. For Enterobacteriaceae, this resulted in <2% reduction in susceptibility, with 1% being S-DD. If applied to Pseudomonas aeruginosa, the % susceptibility (%S) dropped from 77% to 43%, with 34% being S-DD. The new breakpoints did little to the Enterobacteriaceae %S, but for P. aeruginosa, a profound reduction was seen in %S. The recognition of a S-DD response to cefepime should alert clinicians to the possible need for higher doses.

  14. Quantitative determination of zero-gravity effects on electronic materials processing germanium crystal growth with simultaneous interface demarcation. Experiment MA-060

    Science.gov (United States)

    Gatos, H. C.; Witt, A. F.

    1977-01-01

    Experiment MA-060 was designed to establish the crystal growth and segregation characteristics of a melt in a directional solidification configuration under near zero-g conditions. The interface demarcation technique was incorporated into the experiment since it constitutes a unique tool for recording the morphology of the growth rate throughout solidification, and for establishing an absolute time reference framework for all stages of the solidification process. An extensive study was performed of the germanium crystals grown during the Apollo-Soyuz Test Project mission. It was found that single crystal growth was achieved and that the interface demarcation functioned successfully. There was no indication that convection driven by thermal or surface tension gradients was present in the melt. The gallium segregation, in the absence of gravity, was found to be fundamentally different in its initial and its subsequent stages from that of the ground-based tests. None of the existing theoretical models for growth and segregation can account for the observed segregation behavior in the absence of gravity.

  15. In vitro antibacterial activity of ceftobiprole against clinical isolates from French teaching hospitals: proposition of zone diameter breakpoints.

    Science.gov (United States)

    Lascols, C; Legrand, P; Mérens, A; Leclercq, R; Muller-Serieys, C; Drugeon, H B; Kitzis, M D; Reverdy, M E; Roussel-Delvallez, M; Moubareck, C; Brémont, S; Miara, A; Gjoklaj, M; Soussy, C-J

    2011-03-01

    The aims of this study were to determine the in vitro activity profile of ceftobiprole, a pyrrolidinone cephalosporin, against a large number of bacterial pathogens and to propose zone diameter breakpoints for clinical categorisation according to the European Committee on Antimicrobial Susceptibility Testing (EUCAST) minimum inhibitory concentration (MIC) breakpoints. MICs of ceftobiprole were determined by broth microdilution against 1548 clinical isolates collected in eight French hospitals. Disk diffusion testing was performed using 30 μg disks according to the method of the Comité de l'Antibiogramme de la Société Française de Microbiologie (CA-SFM). The in vitro activity of ceftobiprole, expressed by MIC(50/90) (MICs for 50% and 90% of the organisms, respectively) (mg/L), was as follows: meticillin-susceptible Staphylococcus aureus, 0.25/0.5; meticillin-resistant S. aureus (MRSA), 1/2; meticillin-susceptible coagulase-negative staphylococci (CoNS), 0.12/0.5; meticillin-resistant CoNS, 1/2; penicillin-susceptible Streptococcus pneumoniae, ≤ 0.008/0.03; penicillin-resistant S. pneumoniae, 0.12/0.5; viridans group streptococci, 0.03/0.12; β-haemolytic streptococci, ≤ 0.008/0.016; Enterococcus faecalis, 0.25/1; Enterococcus faecium, 64/128; Enterobacteriaceae, 0.06/32; Pseudomonas aeruginosa, 4/16; Acinetobacter baumannii, 0.5/64; Haemophilus influenzae, 0.03/0.12; and Moraxella catarrhalis, 0.25/0.5. According to the regression curve, zone diameter breakpoints could be 28, 26, 24 and 22 mm for MICs of 0.5, 1, 2 and 4 mg/L respectively. In conclusion, this study confirms the potent in vitro activity of ceftobiprole against many Gram-positive bacteria, including MRSA but not E. faecium, whilst maintaining a Gram-negative spectrum similar to the advanced-generation cephalosporins such as cefepime. Thus ceftobiprole appears to be well suited for the empirical treatment of a variety of healthcare-associated infections.

  16. Detection of three common translocation breakpoints in non-Hodgkin's lymphomas by fluorescence in situ hybridization on routine paraffin-embedded tissue sections

    NARCIS (Netherlands)

    Haralambieva, E; Kleiverda, K; Mason, DY; Schuuring, E; Kluin, PM

    2002-01-01

    Non-random chromosomal translocations are specifically involved in the pathogenesis of many non-Hodgkin's lymphomas and have clinical implications as diagnostic and/or prognostic markers. Their detection is often impaired by technical problems, including the distribution of the breakpoints over larg

  17. Sequencing and Analyzing the "t" (1;7) Reciprocal Translocation Breakpoints Associated with a Case of Childhood-Onset Schizophrenia/Autistic Disorder

    Science.gov (United States)

    Idol, Jacquelyn R.; Addington, Anjene M.; Long, Robert T.; Rapoport, Judith L.; Green, Eric D.

    2008-01-01

    We characterized a "t"(1;7)(p22;q21) reciprocal translocation in a patient with childhood-onset schizophrenia (COS) and autism using genome mapping and sequencing methods. Based on genomic maps of human chromosome 7 and fluorescence in situ hybridization (FISH) studies, we delimited the region of 7q21 harboring the translocation breakpoint to a…

  18. Analysis of crossover breakpoints yields new insights into the nature of the gene conversion events associated with large NF1 deletions mediated by nonallelic homologous recombination.

    Science.gov (United States)

    Bengesser, Kathrin; Vogt, Julia; Mussotter, Tanja; Mautner, Victor-Felix; Messiaen, Ludwine; Cooper, David N; Kehrer-Sawatzki, Hildegard

    2014-02-01

    Large NF1 deletions are mediated by nonallelic homologous recombination (NAHR). An in-depth analysis of gene conversion operating in the breakpoint-flanking regions of large NF1 deletions was performed to investigate whether the rate of discontinuous gene conversion during NAHR with crossover is increased, as has been previously noted in NAHR-mediated rearrangements. All 20 germline type-1 NF1 deletions analyzed were mediated by NAHR associated with continuous gene conversion within the breakpoint-flanking regions. Continuous gene conversion was also observed in 31/32 type-2 NF1 deletions investigated. In contrast to the meiotic type-1 NF1 deletions, type-2 NF1 deletions are predominantly of post-zygotic origin. Our findings therefore imply that the mitotic as well as the meiotic NAHR intermediates of large NF1 deletions are processed by long-patch mismatch repair (MMR), thereby ensuring gene conversion tract continuity instead of the discontinuous gene conversion that is characteristic of short-patch repair. However, the single type-2 NF1 deletion not exhibiting continuous gene conversion was processed without MMR, yielding two different deletion-bearing chromosomes, which were distinguishable in terms of their breakpoint positions. Our findings indicate that MMR failure during NAHR, followed by post-meiotic/mitotic segregation, has the potential to give rise to somatic mosaicism in human genomic rearrangements by generating breakpoint heterogeneity.

  19. Identification of a yeast artificial chromosome that spans the human papillary renal cell carcinoma-associated t(X;1) breakpoint in Xp11.2

    NARCIS (Netherlands)

    Suijkerbuijk, R F; Meloni, A M; Sinke, R J; de Leeuw, B; Wilbrink, M; Janssen, H A; Geraghty, M T; Monaco, A P; Sandberg, A A; Geurts van Kessel, A

    1993-01-01

    Recently, a specific chromosome abnormality, t(X;1)(p11;q21), was described for a subgroup of human papillary renal cell carcinomas. The translocation breakpoint in Xp11 is located in the same region as that in t(X;18)(p11;q11)-positive synovial sarcoma. We used fluorescence in situ hybridization (F

  20. Sequencing and characterisation of rearrangements in three S. pastorianus strains reveals the presence of chimeric genes and gives evidence of breakpoint reuse.

    Directory of Open Access Journals (Sweden)

    Sarah K Hewitt

    Full Text Available Gross chromosomal rearrangements have the potential to be evolutionarily advantageous to an adapting organism. The generation of a hybrid species increases opportunity for recombination by bringing together two homologous genomes. We sought to define the location of genomic rearrangements in three strains of Saccharomyces pastorianus, a natural lager-brewing yeast hybrid of Saccharomyces cerevisiae and Saccharomyces eubayanus, using whole genome shotgun sequencing. Each strain of S. pastorianus has lost species-specific portions of its genome and has undergone extensive recombination, producing chimeric chromosomes. We predicted 30 breakpoints that we confirmed at the single nucleotide level by designing species-specific primers that flank each breakpoint, and then sequencing the PCR product. These rearrangements are the result of recombination between areas of homology between the two subgenomes, rather than repetitive elements such as transposons or tRNAs. Interestingly, 28/30 S. cerevisiae-S. eubayanus recombination breakpoints are located within genic regions, generating chimeric genes. Furthermore we show evidence for the reuse of two breakpoints, located in HSP82 and KEM1, in strains of proposed independent origin.

  1. Monobactam and aminoglycoside combination therapy against metallo-beta-lactamase-producing multidrug-resistant Pseudomonas aeruginosa screened using a 'break-point checkerboard plate'.

    Science.gov (United States)

    Araoka, Hideki; Baba, Masaru; Takagi, Shinsuke; Matsuno, Naofumi; Ishiwata, Kazuya; Nakano, Nobuaki; Tsuji, Masanori; Yamamoto, Hisashi; Seo, Sachiko; Asano-Mori, Yuki; Uchida, Naoyuki; Masuoka, Kazuhiro; Wake, Atsushi; Taniguchi, Shuichi; Yoneyama, Akiko

    2010-03-01

    Metallo-beta-lactamase-producing multidrug-resistant Pseudomonas aeruginosa (MDR P. aeruginosa) is a cause of life-threatening infections. With parenteral colistin not available in Japan, we treated MDR P. aeruginosa sepsis with monobactam and aminoglycoside combination therapy, with screening using a 'break-point checkerboard plate'.

  2. Susceptibility breakpoints and target values for therapeutic drug monitoring of voriconazole and Aspergillus fumigatus in an in vitro pharmacokinetic/pharmacodynamic model

    NARCIS (Netherlands)

    Siopi, M.; Mavridou, E.; Mouton, J.W.; Verweij, P.E.; Zerva, L.; Meletiadis, J.

    2014-01-01

    BACKGROUND: Although voriconazole reached the bedside 10 years ago and became the standard care in the treatment of invasive aspergillosis, reliable clinical breakpoints are still in high demand. Moreover, this has increased due to the recent emergence of azole resistance. METHODS: Four clinical wil

  3. Identification of a yeast artificial chromosome (YAC) spanning the synovial sarcoma-specific t(X;18)(p11.2;q11.2) breakpoint

    NARCIS (Netherlands)

    de Leeuw, B; Berger, W; Sinke, R J; Suijkerbuijk, R F; Gilgenkrantz, S; Geraghty, M T; Valle, D; Monaco, A P; Lehrach, H; Ropers, H H

    1993-01-01

    A somatic cell hybrid containing the synovial sarcoma-associated t(X;18)(p11.2;q11.2) derivative (der(X)) chromosome was used to characterize the translocation breakpoint region on the X chromosome. By using Southern hybridization of DNA from this der(X) hybrid in conjunction with Xp-region specific

  4. An Interaction with Ewing's Sarcoma Breakpoint Protein EWS Defines a Specific Oncogenic Mechanism of ETS Factors Rearranged in Prostate Cancer.

    Science.gov (United States)

    Kedage, Vivekananda; Selvaraj, Nagarathinam; Nicholas, Taylor R; Budka, Justin A; Plotnik, Joshua P; Jerde, Travis J; Hollenhorst, Peter C

    2016-10-25

    More than 50% of prostate tumors have a chromosomal rearrangement resulting in aberrant expression of an oncogenic ETS family transcription factor. However, mechanisms that differentiate the function of oncogenic ETS factors expressed in prostate tumors from non-oncogenic ETS factors expressed in normal prostate are unknown. Here, we find that four oncogenic ETS (ERG, ETV1, ETV4, and ETV5), and no other ETS, interact with the Ewing's sarcoma breakpoint protein, EWS. This EWS interaction was necessary and sufficient for oncogenic ETS functions including gene activation, cell migration, clonogenic survival, and transformation. Significantly, the EWS interacting region of ERG has no homology with that of ETV1, ETV4, and ETV5. Therefore, this finding may explain how divergent ETS factors have a common oncogenic function. Strikingly, EWS is fused to various ETS factors by the chromosome translocations that cause Ewing's sarcoma. Therefore, these findings link oncogenic ETS function in both prostate cancer and Ewing's sarcoma.

  5. Evaluation of cefoxitin disk diffusion breakpoint for detection of methicillin resistance in Staphylococcus pseudintermedius isolates from dogs.

    Science.gov (United States)

    Bemis, David A; Jones, Rebekah D; Videla, Ricardo; Kania, Stephen A

    2012-09-01

    Cefoxitin disk diffusion susceptibility testing is a recommended screening method for the detection of methicillin resistance in human isolates of Staphylococcus aureus and coagulase-negative staphylococci. A retrospective analysis of 1,146 clinical isolates of Staphylococcus pseudintermedius from dogs was conducted to determine if screening by the cefoxitin disk method can be similarly useful with S. pseudintermedius. The distribution of cefoxitin growth inhibition zone diameters within this collection was bimodal and correlated well with the results of methicillin resistance gene (mecA) detection by polymerase chain reaction. Of the isolates, 5% had discordant results and, when retested, 84% of these were in agreement. While a greater diversity of isolates and interlaboratory comparisons must be tested, the current study suggests that an epidemiological breakpoint (of approximately ≤ 30 mm = resistant; ≥ 31 = susceptible) can be established to predict methicillin resistance in S. pseudintermedius.

  6. Beckwith–Wiedemann syndrome and uniparental disomy 11p: fine mapping of the recombination breakpoints and evaluation of several techniques

    Science.gov (United States)

    Romanelli, Valeria; Meneses, Heloisa N M; Fernández, Luis; Martínez-Glez, Victor; Gracia-Bouthelier, Ricardo; F Fraga, Mario; Guillén, Encarna; Nevado, Julián; Gean, Esther; Martorell, Loreto; Marfil, Victoria Esteban; García-Miñaur, Sixto; Lapunzina, Pablo

    2011-01-01

    Beckwith–Wiedemann syndrome (BWS) is a phenotypically and genotypically heterogeneous overgrowth syndrome characterized by somatic overgrowth, macroglossia and abdominal wall defects. Other usual findings are hemihyperplasia, embryonal tumours, adrenocortical cytomegaly, ear anomalies, visceromegaly, renal abnormalities, neonatal hypoglycaemia, cleft palate, polydactyly and a positive family history. BWS is a complex, multigenic disorder associated, in up to 90% of patients, with alteration in the expression or function of one or more genes in the 11p15.5 imprinted gene cluster. There are several molecular anomalies associated with BWS and the large proportion of cases, about 85%, is sporadic and karyotypically normal. One of the major categories of BWS molecular alteration (10–20% of cases) is represented by mosaic paternal uniparental disomy (pUPD), namely patients with two paternally derived copies of chromosome 11p15 and no maternal contribution for that. In these patients, in addition to the effects of IGF2 overexpression, a decreased level of the maternally expressed gene CDKN1C may contribute to the BWS phenotype. In this paper, we reviewed a series of nine patients with BWS because of pUPD using several methods with the aim to evaluate the percentage of mosaicism, the methylation status at both loci, the extension of the pUPD at the short arm and the breakpoints of recombination. Fine mapping of mitotic recombination breakpoints by single-nucleotide polymorphism-array in individuals with UPD and fine estimation of epigenetic defects will provide a basis for understanding the aetiology of BWS, allowing more accurate prognostic predictions and facilitating management and surveillance of individuals with this disorder. PMID:21248736

  7. Mapping Clearances in Tropical Dry Forests Using Breakpoints, Trend, and Seasonal Components from MODIS Time Series: Does Forest Type Matter?

    Directory of Open Access Journals (Sweden)

    Kenneth Grogan

    2016-08-01

    Full Text Available Tropical environments present a unique challenge for optical time series analysis, primarily owing to fragmented data availability, persistent cloud cover and atmospheric aerosols. Additionally, little is known of whether the performance of time series change detection is affected by diverse forest types found in tropical dry regions. In this paper, we develop a methodology for mapping forest clearing in Southeast Asia using a study region characterised by heterogeneous forest types. Moderate Resolution Imaging Spectroradiometer (MODIS time series are decomposed using Breaks For Additive Season and Trend (BFAST and breakpoints, trend, and seasonal components are combined in a binomial probability model to distinguish between cleared and stable forest. We found that the addition of seasonality and trend information improves the change model performance compared to using breakpoints alone. We also demonstrate the value of considering forest type in disturbance mapping in comparison to the more common approach that combines all forest types into a single generalised forest class. By taking a generalised forest approach, there is less control over the error distribution in each forest type. Dry-deciduous and evergreen forests are especially sensitive to error imbalances using a generalised forest model i.e., clearances were underestimated in evergreen forest, and overestimated in dry-deciduous forest. This suggests that forest type needs to be considered in time series change mapping, especially in heterogeneous forest regions. Our approach builds towards improving large-area monitoring of forest-diverse regions such as Southeast Asia. The findings of this study should also be transferable across optical sensors and are therefore relevant for the future availability of dense time series for the tropics at higher spatial resolutions.

  8. Beckwith-Wiedemann syndrome and uniparental disomy 11p: fine mapping of the recombination breakpoints and evaluation of several techniques.

    Science.gov (United States)

    Romanelli, Valeria; Meneses, Heloisa N M; Fernández, Luis; Martínez-Glez, Victor; Gracia-Bouthelier, Ricardo; F Fraga, Mario; Guillén, Encarna; Nevado, Julián; Gean, Esther; Martorell, Loreto; Marfil, Victoria Esteban; García-Miñaur, Sixto; Lapunzina, Pablo

    2011-04-01

    Beckwith-Wiedemann syndrome (BWS) is a phenotypically and genotypically heterogeneous overgrowth syndrome characterized by somatic overgrowth, macroglossia and abdominal wall defects. Other usual findings are hemihyperplasia, embryonal tumours, adrenocortical cytomegaly, ear anomalies, visceromegaly, renal abnormalities, neonatal hypoglycaemia, cleft palate, polydactyly and a positive family history. BWS is a complex, multigenic disorder associated, in up to 90% of patients, with alteration in the expression or function of one or more genes in the 11p15.5 imprinted gene cluster. There are several molecular anomalies associated with BWS and the large proportion of cases, about 85%, is sporadic and karyotypically normal. One of the major categories of BWS molecular alteration (10-20% of cases) is represented by mosaic paternal uniparental disomy (pUPD), namely patients with two paternally derived copies of chromosome 11p15 and no maternal contribution for that. In these patients, in addition to the effects of IGF2 overexpression, a decreased level of the maternally expressed gene CDKN1C may contribute to the BWS phenotype. In this paper, we reviewed a series of nine patients with BWS because of pUPD using several methods with the aim to evaluate the percentage of mosaicism, the methylation status at both loci, the extension of the pUPD at the short arm and the breakpoints of recombination. Fine mapping of mitotic recombination breakpoints by single-nucleotide polymorphism-array in individuals with UPD and fine estimation of epigenetic defects will provide a basis for understanding the aetiology of BWS, allowing more accurate prognostic predictions and facilitating management and surveillance of individuals with this disorder.

  9. Penicillin susceptibility breakpoints for Streptococcus pneumoniae and their effect on susceptibility categorisation in Germany (1997-2013).

    Science.gov (United States)

    Imöhl, M; Reinert, R R; Tulkens, P M; van der Linden, M

    2014-11-01

    Continuous nationwide surveillance of invasive pneumococcal disease (IPD) was conducted in Germany. From July 1, 1997, to June 30, 2013, data on penicillin susceptibility were available for 20,437 isolates. 2,790 of these isolates (13.7 %) originate from patients with meningitis and 17,647 isolates (86.3 %) are from non-meningitis cases. A slight decline in isolates susceptible at 0.06 and 0.12 μg/ml can be noticed over the years. Overall, 89.1 % of the isolates had minimum inhibitory concentrations (MICs) of ≤0.015 μg/ml. In 2012/2013, the first three isolates of Streptococcus pneumoniae with MICs of 8 μg/ml were found. The application of different guidelines with other MIC breakpoints for the interpretation of penicillin resistance leads to differences in susceptibility categorisation. According to the pre-2008 Clinical and Laboratory Standards Institute (CLSI) interpretive criteria, 5.3 % of isolates overall were intermediate and 1.4 % were resistant to penicillin. Application of the 2008-2014 CLSI interpretive criteria resulted in 7.6 % resistance among meningitis cases and 0.5 % intermediate resistance in non-meningitis cases. Referring to the 2009-2014 European Committee on Antimicrobial Susceptibility Testing (EUCAST) breakpoints, 7.6 % of the isolates in the meningitis group were resistant to penicillin. In the non-meningitis group, 6.1 % of the isolates were intermediate and 0.5 % were resistant. These differences should be kept in mind when surveillance studies on pneumococcal penicillin resistance are compared.

  10. Empirical third-generation cephalosporin therapy for adults with community-onset Enterobacteriaceae bacteraemia: Impact of revised CLSI breakpoints.

    Science.gov (United States)

    Hsieh, Chih-Chia; Lee, Chung-Hsun; Li, Ming-Chi; Hong, Ming-Yuan; Chi, Chih-Hsien; Lee, Ching-Chi

    2016-04-01

    Third-generation cephalosporins (3GCs) [ceftriaxone (CRO) and cefotaxime (CTX)] have remarkable potency against Enterobacteriaceae and are commonly prescribed for the treatment of community-onset bacteraemia. However, clinical evidence supporting the updated interpretive criteria of the Clinical and Laboratory Standards Institute (CLSI) is limited. Adults with community-onset monomicrobial Enterobacteriaceae bacteraemia treated empirically with CRO or CTX were recruited. Clinical information was collected from medical records and CTX MICs were determined using the broth microdilution method. Eligible patients (n=409) were categorised into de-escalation (260; 63.6%), no switch (115; 28.1%) and escalation (34; 8.3%) groups according to the type of definitive antibiotics. Multivariate regression revealed five independent predictors of 28-day mortality: fatal co-morbidities based on McCabe classification [odds ratio (OR)=19.96; P<0.001]; high Pitt bacteraemia score (≥4) at bacteraemia onset (OR=13.91; P<0.001); bacteraemia because of pneumonia (OR=5.45; P=0.007); de-escalation after empirical therapy (OR=0.28; P=0.03); and isolates with a CTX MIC≤1mg/L (OR=0.17; P=0.02). Of note, isolates with a CTX MIC≤8mg/L (indicated as susceptible by previous CLSI breakpoints) were not associated with mortality. Furthermore, clinical failure and 28-day mortality rates had a tendency to increase with increasing CTX MIC (γ=1.00; P=0.01). Conclusively, focusing on patients with community-onset Enterobacteriaceae bacteraemia receiving empirical 3GC therapy, the present study provides clinically critical evidence to validate the proposed reduction in the susceptibility breakpoint of CTX to MIC≤1mg/L.

  11. Modelling the association of dengue fever cases with temperature and relative humidity in Jeddah, Saudi Arabia-A generalised linear model with break-point analysis.

    Science.gov (United States)

    Alkhaldy, Ibrahim

    2017-04-01

    The aim of this study was to examine the role of environmental factors in the temporal distribution of dengue fever in Jeddah, Saudi Arabia. The relationship between dengue fever cases and climatic factors such as relative humidity and temperature was investigated during 2006-2009 to determine whether there is any relationship between dengue fever cases and climatic parameters in Jeddah City, Saudi Arabia. A generalised linear model (GLM) with a break-point was used to determine how different levels of temperature and relative humidity affected the distribution of the number of cases of dengue fever. Break-point analysis was performed to modelled the effect before and after a break-point (change point) in the explanatory parameters under various scenarios. Akaike information criterion (AIC) and cross validation (CV) were used to assess the performance of the models. The results showed that maximum temperature and mean relative humidity are most probably the better predictors of the number of dengue fever cases in Jeddah. In this study three scenarios were modelled: no time lag, 1-week lag and 2-weeks lag. Among these scenarios, the 1-week lag model using mean relative humidity as an explanatory variable showed better performance. This study showed a clear relationship between the meteorological variables and the number of dengue fever cases in Jeddah. The results also demonstrated that meteorological variables can be successfully used to estimate the number of dengue fever cases for a given period of time. Break-point analysis provides further insight into the association between meteorological parameters and dengue fever cases by dividing the meteorological parameters into certain break-points.

  12. Quantitative determination of zero-gravity effects on electronic materials processing germanium crystal growth with simultaneous interface demarcation experiment MA-060, section 5

    Science.gov (United States)

    Gatos, H. C.; Witt, A. F.; Lichtensteiger, M.; Herman, C. J.

    1982-01-01

    The crystal growth and segregation characteristics of a melt in a directional solidification configuration under near zero g conditions were investigated. The germanium (doped with gallium) system was selected because it was extensively studied on Earth and because it lends itself to a very detailed macroscopic and microscopic characterization. An extensive study was performed of the germanium crystals grown during the Apollo-Soyuz Test Project mission. It was found that single crystal growth was achieved and that the interface demarcation functioned successfully. On the basis of the results obtained to date, there is no indication that convection driven by thermal or surface tension gradients was present in the melt. The gallium segregation, in the absence of gravity, was found to be fundamentally different in its initial and its subsequent stages from that of the ground based tests. None of the existing theoretical models for growth and segregation can account for the observed segregation behavior in the absence of gravity.

  13. Monitoring Forest Dynamics in the Andean Amazon: The Applicability of Breakpoint Detection Methods Using Landsat Time-Series and Genetic Algorithms

    Directory of Open Access Journals (Sweden)

    Fabián Santos

    2017-01-01

    Full Text Available The Andean Amazon is an endangered biodiversity hot spot but its forest dynamics are less studied than those of the Amazon lowland and forests from middle or high latitudes. This is because its landscape variability, complex topography and cloudy conditions constitute a challenging environment for any remote-sensing assessment. Breakpoint detection with Landsat time-series data is an established robust approach for monitoring forest dynamics around the globe but has not been properly evaluated for implementation in the Andean Amazon. We analyzed breakpoint detection-generated forest dynamics in order to determine its limitations when applied to three different study areas located along an altitude gradient in the Andean Amazon in Ecuador. Using all available Landsat imagery for the period 1997–2016, we evaluated different pre-processing approaches, noise reduction techniques, and breakpoint detection algorithms. These procedures were integrated into a complex function called the processing chain generator. Calibration was not straightforward since it required us to define values for 24 parameters. To solve this problem, we implemented a novel approach using genetic algorithms. We calibrated the processing chain generator by applying a stratified training sampling and a reference dataset based on high resolution imagery. After the best calibration solution was found and the processing chain generator executed, we assessed accuracy and found that data gaps, inaccurate co-registration, radiometric variability in sensor calibration, unmasked cloud, and shadows can drastically affect the results, compromising the application of breakpoint detection in mountainous areas of the Andean Amazon. Moreover, since breakpoint detection analysis of landscape variability in the Andean Amazon requires a unique calibration of algorithms, the time required to optimize analysis could complicate its proper implementation and undermine its application for large

  14. Contemporary potencies of minocycline and tetracycline HCL tested against Gram-positive pathogens: SENTRY Program results using CLSI and EUCAST breakpoint criteria.

    Science.gov (United States)

    Jones, Ronald N; Wilson, Michael L; Weinstein, Melvin P; Stilwell, Matthew G; Mendes, Rodrigo E

    2013-04-01

    Tetracycline class agents vary widely in their activity against emerging important antimicrobial-resistant pathogens such as methicillin-resistant Staphylococcus aureus (MRSA) and Acinetobacter spp. Also, published susceptibility breakpoints are discordant between the Clinical and Laboratory Standards Institute (CLSI), the European Committee on Antimicrobial Susceptibility Testing (EUCAST), and regulatory-approved documents. We have assessed the impact of these differences for tetracycline HCL and minocycline when tested against contemporary Gram-positive pathogens. The SENTRY Antimicrobial Surveillance Program (2011) compared minocycline and tetracycline HCL activity via reference methods (M07-A9) using a worldwide collection of S. aureus (SA; 4917 strains with 1955 MRSA), Streptococcus pneumoniae (SPN; 1899), S. pyogenes (GRA; 246), and S. agalactiae (GRB; 217). Regardless of applied categorical breakpoints, minocycline exhibited wider coverage (% susceptible) than tetracycline HCL of 4.5-11.8/0.5-2.6/1.4-2.3/0.4-0.4% for MRSA/SPN/GRB/GRA, respectively. Lower EUCAST susceptible breakpoints produced reduced susceptibility rates for minocycline ranging from no difference (≤0.5 μg/mL) for GRA to -8.9% (≤1 μg/mL) for MRSA (97.2% susceptible by CLSI; 88.3% by EUCAST). Use of tetracycline HCL-susceptible results to predict minocycline susceptibility was very accurate (99.0-100.0%), with absolute categorical agreement rates ranging from 92.1% to 98.4% (CLSI) to 98.4% to 99.6% (EUCAST) for streptococci; greatest predictive error was noted using the CLSI breakpoints (14.7%) compared to EUCAST criteria (only 5.0%; acceptable), both for MRSA testing dominated by false-resistant results for minocycline. In conclusion, minocycline demonstrates continued superior in vitro activity compared to tetracycline HCL when testing SA (especially MRSA) and pathogenic streptococci. When testing tetracyclines, laboratories must recognize the expanded spectrum of minocycline against

  15. Myelodysplastic syndrome with a t(2;11)(p21;q23-24) and translocation breakpoint close to miR-125b-1.

    Science.gov (United States)

    Thorsen, Jim; Aamot, Hege Vangstein; Roberto, Roberta; Tjønnfjord, Geir E; Micci, Francesca; Heim, Sverre

    2012-10-01

    The upregulation of oncogenes and the formation of fusion genes are commonly observed in hematological malignancies with recurring balanced translocations. However, in some malignancies exhibiting balanced chromosomal rearrangements, neither oncogene deregulation nor generation of fusion genes appears to be involved, suggesting that other mechanisms are at play. In the rare myelodysplastic syndrome (MDS) containing a t(2;11)(p21;q23-24) translocation, breakpoints near a microRNA locus, miR-125b-1, in 11q24 have been suggested to be pathogenetically involved. Here we report the detailed mapping and sequencing of the breakpoint located only 2 kilobases from miR-125b-1 in an MDS patient with a t(2;11)(p21;q23-24).

  16. Increased expression of aphidicolin-induced common fragile sites in Tourette syndrome: The key to understand the genetics of comorbid phenotypes?

    Energy Technology Data Exchange (ETDEWEB)

    Gericke, G.S.; Simonic, I.; Cloete, E.; Becker, P.J. [Univ. of Pretoria (South Africa)

    1996-02-16

    In a comparison of 80 common aphidicolin-induced fragile sites (FS) between 26 DSM-IV Tourette syndrome (TS) and 24 control individuals, the mean of the summed break frequencies following mild aphidicolin pretreatment was significantly higher in TS individuals than in controls (P < 0.001). Other breakpoints encountered during this study, i.e., random breaks, breaks corresponding to rare FS, and breakpoints recorded by others but not listed as common FS according to the Chromosome Coordinating Meeting were listed as category II breakpoints. By using the most significantly different mean FS breakage figures between TS and control individuals, further stepwise discriminant analysis allowed identification of TS individuals from only a few sites in both the common FS and category II breakpoint groups. Future research needs to focus on confirmation of altered common fragile site expression in association with behavioral variation, whether expression of certain discriminatory sites concurs with specific comorbid disorder expression; the nature of the molecular alterations at these FS and the implications of a genomic instability phenotype for the mapping of a primary TS gene or genes. 45 refs., 1 fig., 2 tabs.

  17. Influence of clinical breakpoint changes from CLSI 2009 to EUCAST 2011 antimicrobial susceptibility testing guidelines on multidrug resistance rates of Gram-negative rods.

    Science.gov (United States)

    Hombach, Michael; Wolfensberger, Aline; Kuster, Stefan P; Böttger, Erik C

    2013-07-01

    Multidrug resistance (MDR) rates of Gram-negative rods were analyzed comparing CLSI 2009 and EUCAST 2011 antibiotic susceptibility testing guidelines. After EUCAST 2011 was applied, the MDR rates increased for Klebsiella pneumoniae (2.2%), Enterobacter cloacae (1.1%), Pseudomonas aeruginosa (0.7%), and Escherichia coli (0.4%). A total of 24% of Enterobacteriaceae MDR isolates and 12% of P. aeruginosa MDR isolates were categorized as MDR due to breakpoint changes.

  18. Incidence of extended-spectrum-β-lactamase-producing Escherichia coli and Klebsiella pneumoniae isolates that test susceptible to cephalosporins and aztreonam by the revised CLSI breakpoints.

    Science.gov (United States)

    McWilliams, Carla S; Condon, Susan; Schwartz, Rebecca M; Ginocchio, Christine C

    2014-07-01

    The incidence of aztreonam and cephalosporin susceptibility, determined using the revised CLSI breakpoints, for extended-spectrum-β-lactamase (ESBL)-producing Escherichia coli and Klebsiella pneumoniae isolates was evaluated. Our analysis showed that results for aztreonam and/or ≥1 cephalosporin were reported as susceptible or intermediate for 89.2% of ESBL-producing E coli isolates (569/638 isolates) and 67.7% of ESBL-producing K. pneumoniae isolates (155/229 isolates).

  19. Clinical Correlation of the CLSI Susceptibility Breakpoint for Piperacillin- Tazobactam against Extended-Spectrum-β-Lactamase-Producing Escherichia coli and Klebsiella Species†

    Science.gov (United States)

    Gavin, Patrick J.; Suseno, Mira T.; Thomson, Richard B.; Gaydos, J. Michael; Pierson, Carl L.; Halstead, Diane C.; Aslanzadeh, Jaber; Brecher, Stephen; Rotstein, Coleman; Brossette, Stephen E.; Peterson, Lance R.

    2006-01-01

    We assessed infections caused by extended-spectrum-β-lactamase-producing Escherichia coli or Klebsiella spp. treated with piperacillin-tazobactam to determine if the susceptibility breakpoint predicts outcome. Treatment was successful in 10 of 11 nonurinary infections from susceptible strains and in 2 of 6 infections with MICs of >16/4 μg/ml. All six urinary infections responded to treatment regardless of susceptibility. PMID:16723596

  20. Correlation of Minimum Inhibitory Concentration Breakpoints and Methicillin Resistance Gene Carriage in Clinical Isolates of Staphylococcus epidermidis

    Directory of Open Access Journals (Sweden)

    Fereshteh Eftekhar,

    2011-09-01

    Full Text Available Staphylococcus epidermidis is the most important member of coagulase negative staphylococci responsible for community and hospital acquired infections. Most clinical isolates of S. epidermidis are resistant to methicillin making these infections difficult to treat. In this study, correlation of methicillin resistance phenotype was compared with methicillin resistance (mecA gene carriage in 55 clinical isolates of S. epidermidis. Susceptibility was measured by disc diffusion using methicillin discs, and minimum inhibitory concentrations (MIC were measured using broth microdilution. Methicillin resistance gene (MecA gene carriage was detected by specific primers and PCR. Disc susceptibility results showed 90.9% resistance to methicillin. Considering a MIC of 4 µg/ml, 78.1% of the isolates were methicillin resistant, 76.36% of which carried the mecA gene. On the other hand, when a breakpoint of 0.5 µg/ml was used, 89.09% were methicillin resistant, of which 93.75% were mecA positive. There was a better correlation between MIC of 0.5 µg/ml with disc diffusion results and mecA gene carriage. The findings suggest that despite the usefulness of molecular methods for rapid diagnosis of virulence genes, gene carriage does not necessarily account for virulence phenotype. Ultimately, gene expression, which is controlled by the environment, would determine the outcome

  1. Summer holidays as break-point in shaping a tannery sludge microbial community around a stable core microbiota.

    Science.gov (United States)

    Giordano, Cesira; Boscaro, Vittorio; Munz, Giulio; Mori, Gualtiero; Vannini, Claudia

    2016-07-27

    Recently, several investigations focused on the discovery of a bacterial consortium shared among different wastewater treatment plants (WWTPs). Nevertheless, the definition of a core microbiota over time represents the necessary counterpart in order to unravel the dynamics of bacterial communities in these environments. Here we performed a monthly survey on the bacterial community of a consortial industrial plant. Objectives of this study were: (1) to identify a core microbiota constant over time; (2) to evaluate the temporal dynamics of the community during one year. A conspicuous and diversified core microbiota is constituted by operational taxonomic units which are present throughout the year in the plant. Community composition data confirm that the presence and abundance of bacteria in WWTPs is highly consistent at high taxonomic level. Our results indicate however a difference in microbial community structure between two groups of samples, identifying the summer holiday period as the break-point. Changes in the structure of the microbial community occur otherwise gradually, one month after another. Further studies will clarify how the size and diversity of the core microbiota could affect the observed dynamics.

  2. First application of liquid-metal-jet sources for small-animal imaging: High-resolution CT and phase-contrast tumor demarcation

    Energy Technology Data Exchange (ETDEWEB)

    Larsson, Daniel H.; Lundstroem, Ulf; Burvall, Anna; Hertz, Hans M. [Department of Applied Physics, KTH Royal Institute of Technology/Albanova, 10691 Stockholm (Sweden); Westermark, Ulrica K.; Arsenian Henriksson, Marie [Department of Microbiology, Tumor and Cell Biology (MTC), Karolinska Institutet, 17177 Stockholm (Sweden)

    2013-02-15

    Purpose: Small-animal studies require images with high spatial resolution and high contrast due to the small scale of the structures. X-ray imaging systems for small animals are often limited by the microfocus source. Here, the authors investigate the applicability of liquid-metal-jet x-ray sources for such high-resolution small-animal imaging, both in tomography based on absorption and in soft-tissue tumor imaging based on in-line phase contrast. Methods: The experimental arrangement consists of a liquid-metal-jet x-ray source, the small-animal object on a rotating stage, and an imaging detector. The source-to-object and object-to-detector distances are adjusted for the preferred contrast mechanism. Two different liquid-metal-jet sources are used, one circulating a Ga/In/Sn alloy and the other an In/Ga alloy for higher penetration through thick tissue. Both sources are operated at 40-50 W electron-beam power with {approx}7 {mu}m x-ray spots, providing high spatial resolution in absorption imaging and high spatial coherence for the phase-contrast imaging. Results: High-resolution absorption imaging is demonstrated on mice with CT, showing 50 {mu}m bone details in the reconstructed slices. High-resolution phase-contrast soft-tissue imaging shows clear demarcation of mm-sized tumors at much lower dose than is required in absorption. Conclusions: This is the first application of liquid-metal-jet x-ray sources for whole-body small-animal x-ray imaging. In absorption, the method allows high-resolution tomographic skeletal imaging with potential for significantly shorter exposure times due to the power scalability of liquid-metal-jet sources. In phase contrast, the authors use a simple in-line arrangement to show distinct tumor demarcation of few-mm-sized tumors. This is, to their knowledge, the first small-animal tumor visualization with a laboratory phase-contrast system.

  3. Molecular breakpoint cloning and gene expression studies of a novel translocation t(4;15(q27;q11.2 associated with Prader-Willi syndrome

    Directory of Open Access Journals (Sweden)

    Slater Howard R

    2005-05-01

    Full Text Available Abstract Background Prader-Willi syndrome (MIM #176270; PWS is caused by lack of the paternally-derived copies, or their expression, of multiple genes in a 4 Mb region on chromosome 15q11.2. Known mechanisms include large deletions, maternal uniparental disomy or mutations involving the imprinting center. De novo balanced reciprocal translocations in 5 reported individuals had breakpoints clustering in SNRPN intron 2 or exon 20/intron 20. To further dissect the PWS phenotype and define the minimal critical region for PWS features, we have studied a 22 year old male with a milder PWS phenotype and a de novo translocation t(4;15(q27;q11.2. Methods We used metaphase FISH to narrow the breakpoint region and molecular analyses to map the breakpoints on both chromosomes at the nucleotide level. The expression of genes on chromosome 15 on both sides of the breakpoint was determined by RT-PCR analyses. Results Pertinent clinical features include neonatal hypotonia with feeding difficulties, hypogonadism, short stature, late-onset obesity, learning difficulties, abnormal social behavior and marked tolerance to pain, as well as sticky saliva and narcolepsy. Relative macrocephaly and facial features are not typical for PWS. The translocation breakpoints were identified within SNRPN intron 17 and intron 10 of a spliced non-coding transcript in band 4q27. LINE and SINE sequences at the exchange points may have contributed to the translocation event. By RT-PCR of lymphoblasts and fibroblasts, we find that upstream SNURF/SNRPN exons and snoRNAs HBII-437 and HBII-13 are expressed, but the downstream snoRNAs PWCR1/HBII-85 and HBII-438A/B snoRNAs are not. Conclusion As part of the PWCR1/HBII-85 snoRNA cluster is highly conserved between human and mice, while no copy of HBII-438 has been found in mouse, we conclude that PWCR1/HBII-85 snoRNAs is likely to play a major role in the PWS- phenotype.

  4. Integrated approach for demarcating subsurface pollution and saline water intrusion zones in SIPCOT area: a case study from Cuddalore in Southern India.

    Science.gov (United States)

    Sankaran, S; Sonkamble, S; Krishnakumar, K; Mondal, N C

    2012-08-01

    This paper deals with a systematic hydrogeological, geophysical, and hydrochemical investigations carried out in SIPCOT area in Southern India to demarcate groundwater pollution and saline intrusion through Uppanar River, which flows parallel to sea coast with high salinity (average TDS 28, 870 mg/l) due to back waters as well as discharge of industrial and domestic effluents. Hydrogeological and geophysical investigations comprising topographic survey, self-potential, multi-electrode resistivity imaging, and water quality monitoring were found the extent of saline water intrusion in the south and pockets of subsurface pollution in the north of the study area. Since the area is beset with highly permeable unconfined quaternary alluvium forming potential aquifer at shallow depth, long-term excessive pumping and influence of the River have led to lowering of the water table and degradation of water quality through increased salinity there by generating reversal of hydraulic gradient in the south. The improper management of industrial wastes and left over chemicals by closed industries has led surface and subsurface pollution in the north of the study area.

  5. [Comparison of microdilution and disk diffusion methods for the detection of fluconazole and voriconazole susceptibility against clinical Candida glabrata isolates and determination of changing susceptibility with new CLSI breakpoints].

    Science.gov (United States)

    Hazırolan, Gülşen; Sarıbaş, Zeynep; Arıkan Akdağlı, Sevtap

    2016-07-01

    Candida albicans is the most frequently isolated species as the causative agent of Candida infections. However, in recent years, the isolation rate of non-albicans Candida species have increased. In many centers, Candida glabrata is one of the commonly isolated non-albicans species of C.glabrata infections which are difficult-to-treat due to decreased susceptibility to fluconazole and cross-resistance to other azoles. The aims of this study were to determine the in vitro susceptibility profiles of clinical C.glabrata isolates against fluconazole and voriconazole by microdilution and disk diffusion methods and to evaluate the results with both the previous (CLSI) and current species-specific CLSI (Clinical and Laboratory Standards Institute) clinical breakpoints. A total of 70 C.glabrata strains isolated from clinical samples were included in the study. The identification of the isolates was performed by morphologic examination on cornmeal Tween 80 agar and assimilation profiles obtained by using ID32C (BioMérieux, France). Broth microdilution and disk diffusion methods were performed according to CLSI M27-A3 and CLSI M44-A2 documents, respectively. The results were evaluated according to CLSI M27-A3 and M44-A2 documents and new vs. species-specific CLSI breakpoints. By using both previous and new CLSI breakpoints, broth microdilution test results showed that voriconazole has greater in vitro activity than fluconazole against C.glabrata isolates. For the two drugs tested, very major error was not observed with disk diffusion method when microdilution method was considered as the reference method. Since "susceptible" category no more exists for fluconazole vs. C.glabrata, the isolates that were interpreted as susceptible by previous breakpoints were evaluated as susceptible-dose dependent by current CLSI breakpoints. Since species-specific breakpoints remain yet undetermined for voriconazole, comparative analysis was not possible for this agent. The results obtained

  6. Multicenter evaluation of the new Vitek 2 yeast susceptibility test using new CLSI clinical breakpoints for fluconazole.

    Science.gov (United States)

    Pfaller, M A; Diekema, D J; Procop, G W; Wiederhold, N P

    2014-06-01

    A fully automated antifungal susceptibility test system recently updated to reflect the new species-specific clinical breakpoints (CBPs) of fluconazole for Candida (Vitek 2 AF03 yeast susceptibility test; bioMérieux, Inc., Durham, NC) was compared in three different laboratories with the Clinical and Laboratory Standards Institute (CLSI) reference broth microdilution (BMD) method by testing 2 quality control strains, 10 reproducibility strains (4 Candida species and 6 Cryptococcus neoformans strains), and 746 isolates of Candida species (702 isolates, 13 species) and 44 isolates of C. neoformans against fluconazole. Excellent essential agreement (EA) (within 2 dilutions) between the reference and Vitek 2 MICs was observed for fluconazole and Candida species (94.0%). The EA was lower for fluconazole and C. neoformans at 86.4%. The mean times to a result with the Vitek 2 test were 9.1 h for Candida species and 12.1 h for C. neoformans. Categorical agreement (CA) between the two methods was assessed by using the new species-specific CBPs. For less common species without fluconazole CBPs, the epidemiological cutoff values (ECVs) were used to differentiate wild-type (WT; MIC, ≤ ECV) from non-WT (MIC, >ECV) strains. The CAs between the two methods were 92.0% for Candida species (0.3% very major errors [VME] and 2.6% major errors [ME]) and 84.1% for C. neoformans (4.5% VME and 11.4% ME). The updated Vitek 2 AF03 IUO yeast susceptibility system is comparable to the CLSI BMD reference method for testing the susceptibility of clinically important yeasts to fluconazole when using the new (lower) CBPs and ECVs.

  7. 领土划界中的保有合法占有物原则评析%On doctrine of uti possidetis in territorial demarcation

    Institute of Scientific and Technical Information of China (English)

    廖济贞

    2011-01-01

    The international law version of the doctrine of uti possidetis in Rome law originated in Latin America independence,and then was applied in the African decolonization and disintegrations of some Eastern European countries.The doctrine had been applied in several cases by ICJ.The main role of this doctrine in territorial demarcation is to freeze the current territory situation just like the camera to take photographs.The "photographs" shall play the function of evidence in the disputes.If there are no any clear administrative borders,the doctrine can't be applied easily.Sometimes,the application of uti possidetis leads to new disputes and conflicts with self-determination.Though its role is limited,the doctrine has potential applications in the coming frontiers disputes.%罗马法中保有合法占有物原则进入国际法领域发端于拉丁美洲,并在非洲独立运动和东欧部分国家解体过程中得到应用。国际法院也在多个判决中适用了该原则。这一原则在领土划界中的主要作用是冻结现有边界状态,即所谓的照相功能,并以此作为未来划界的依据。如果缺乏清晰的行政边界,该原则将无法发挥作用。同时,适用该原则有时会产生新的争端,并与民族自决权相冲突。尽管该原则的作用有限,但是在解决边界问题中仍有一定的现实需求。

  8. RGB星分界点的不同对恒星演化的影响%The impact of the difference of demarcation points of RGB stars on stellar evolution

    Institute of Scientific and Technical Information of China (English)

    唐勃峰; 蒋苏云; 李岩民

    2012-01-01

    An attitude of different demarcation points of stellar evolutional stages would affect the evolutionary track in the Hertzsprung-Russell diagram was presented based on mass loss rate, a consecutive piecewise function in the stellar evolution calculations was developed by using modified evolution code. 2 evolutional models with different demarcation point was computed, conclusion suggested that it was more suitable to choose the lowest luminosity in the Hayashi line as the demarcation point than to choose the moment which abundance of Hydrogen of core equal to zero, according to the continuity of mass loss rate function.%提出恒星演化阶段分界点的不同会影响恒星在赫罗图中演化轨迹的观点.基于在恒星演化计算中质量损失率应是一连续的分段函数的考虑,使用改进后的恒星演化计算程序.采用2种不同的分界点分别计算了恒星的演化,基于质量损失率函数连续性的考虑,对于主序星与RGB星的分界点,选取Hayashi线光度最低处比选取核心H丰度为零处更合适.

  9. Modulated Binding of SATB1, a Matrix Attachment Region Protein, to the AT-Rich Sequence Flanking the Major Breakpoint Region of BCL2

    Science.gov (United States)

    Ramakrishnan, Meera; Liu, Wen-Man; DiCroce, Patricia A.; Posner, Aleza; Zheng, Jian; Kohwi-Shigematsu, Terumi; Krontiris, Theodore G.

    2000-01-01

    The t(14,18) chromosomal translocation that occurs in human follicular lymphoma constitutively activates the BCL2 gene and disrupts control of apoptosis. Interestingly, 70% of the t(14,18) translocations are confined to three 15-bp clusters positioned within a 150-bp region (major breakpoint region or [MBR]) in the untranslated portion of terminal exon 3. We analyzed DNA-protein interactions in the MBR, as these may play some role in targeting the translocation to this region. An 87-bp segment (87MBR) immediately 3′ to breakpoint cluster 3 was essential for DNA-protein interaction monitored with mobility shift assays. We further delineated a core binding region within 87MBR: a 33-bp, very AT-rich sequence highly conserved between the human and mouse BCL2 gene (37MBR). We have purified and identified one of the core factors as the matrix attachment region (MAR) binding protein, SATB1, which is known to bind to AT-rich sequences with a high propensity to unwind. Additional factors in nuclear extracts, which we have not yet characterized further, increased SATB1 affinity for the 37MBR target four- to fivefold. Specific binding activity within 37MBR displayed cell cycle regulation in Jurkat T cells, while levels of SATB1 remained constant throughout the cell cycle. Finally, we demonstrated in vivo binding of SATB1 to the MBR, strongly suggesting the BCL2 major breakpoint region is a MAR. We discuss the potential consequences of our observations for both MBR fragility and regulatory function. PMID:10629043

  10. Evidence of break-points in breathing pattern at the gas-exchange thresholds during incremental cycling in young, healthy subjects.

    Science.gov (United States)

    Cross, Troy J; Morris, Norman R; Schneider, Donald A; Sabapathy, Surendran

    2012-03-01

    The present study investigated whether 'break-points' in breathing pattern correspond to the first ([Formula: see text]) and second gas-exchange thresholds ([Formula: see text]) during incremental cycling. We used polynomial spline smoothing to detect accelerations and decelerations in pulmonary gas-exchange data, which provided an objective means of 'break-point' detection without assumption of the number and shape of said 'break-points'. Twenty-eight recreational cyclists completed the study, with five individuals excluded from analyses due to low signal-to-noise ratios and/or high risk of 'pseudo-threshold' detection. In the remaining participants (n = 23), two separate and distinct accelerations in respiratory frequency (f (R)) during incremental work were observed, both of which demonstrated trivial biases and reasonably small ±95% limits of agreement (LOA) for the [Formula: see text] (0.2 ± 3.0 ml O(2) kg(-1) min(-1)) and [Formula: see text] (0.0 ± 2.4 ml O(2) kg(-1) min(-1)), respectively. A plateau in tidal volume (V (T)) data near the [Formula: see text] was identified in only 14 individuals, and yielded the most unsatisfactory mean bias ±LOA of all comparisons made (-0.4 ± 5.3 ml O(2) kg(-1) min(-1)). Conversely, 18 individuals displayed V (T)-plateau in close proximity to the [Formula: see text] evidenced by a mean bias ± LOA of 0.1 ± 3.1 ml O(2) kg(-1) min(-1). Our findings suggest that both accelerations in f (R) correspond to the gas-exchange thresholds, and a plateau (or decline) in V (T) at the [Formula: see text] is a common (but not universal) feature of the breathing pattern response to incremental cycling.

  11. Identification of a Novel P190-Derived Breakpoint Peptide Suitable for Peptide Vaccine Therapeutic Approach in Ph+ Acute Lymphoblastic Leukemia Patients

    OpenAIRE

    Ippoliti, Micaela; Defina, Marzia; Gozzini, Antonella; Baratè, Claudia; Aprile, Lara; Pietrini, Alice; Gozzetti, Alessandro; Raspadori, Donatella; Lauria, Francesco; Bocchia, Monica

    2012-01-01

    Ph+ acute lymphoblastic leukemia (Ph+ ALL) is a high-risk acute leukemia with poor prognosis, in which the specific t(9;22)(q34;q11) translocation results in a chimeric bcr-abl (e1a2 breakpoint) and in a 190 KD protein (p190) with constitutive tyrosine kinase activity. The advent of first- and second-generation tyrosine kinase inhibitors (TKIs) improved the short-term outcome of Ph+ ALL patients not eligible for allo-SCT; yet disease recurrence is almost inevitable. Peptides derived from p190...

  12. Translocation breakpoint at 7q31 associated with tics: further evidence for IMMP2L as a candidate gene for Tourette syndrome.

    Science.gov (United States)

    Patel, Chirag; Cooper-Charles, Lisa; McMullan, Dominic J; Walker, Judith M; Davison, Val; Morton, Jenny

    2011-06-01

    Gilles de la Tourette syndrome is a complex neuropsychiatric disorder with a strong genetic basis. We identified a male patient with Tourette syndrome-like tics and an apparently balanced de novo translocation [46,XY,t(2;7)(p24.2;q31)]. Further analysis using array comparative genomic hybridisation (CGH) revealed a cryptic deletion at 7q31.1-7q31.2. Breakpoints disrupting this region have been reported in one isolated and one familial case of Tourette syndrome. In our case, IMMP2L, a gene coding for a human homologue of the yeast inner mitochondrial membrane peptidase subunit 2, was disrupted by the breakpoint on 7q31.1, with deletion of exons 1-3 of the gene. The IMMP2L gene has previously been proposed as a candidate gene for Tourette syndrome, and our case provides further evidence of its possible role in the pathogenesis. The deleted region (7q31.1-7q31.2) of 7.2 Mb of genomic DNA also encompasses numerous genes, including FOXP2, associated with verbal dyspraxia, and the CFTR gene.

  13. On the validity of setting breakpoint minimum inhibition concentrations at one quarter of the plasma concentration achieved following oral administration of oxytetracycline

    DEFF Research Database (Denmark)

    Coyne, R.; Samuelsen, O.; Bergh, Ø.

    2004-01-01

    Plasma concentrations of oxytetracycline (OTC) were established in two Atlantic salmon (Salmo salar) pre-smolts populations after they had received OTC medicated feed at a rate of 75 mg OTC/kg over 10 days. One population was experiencing an epizootic of furunculosis in a commercial freshwater farm...... and the other was held in a laboratory. Both populations were maintained at approximately 13 °C. The mean plasma concentration in 26 health farm fish was 0.25±0.06 and the 80th percentile was 0.21 mg/l. The mean concentration for 26 laboratory fish was 0.21±0.06 mg/l with an 80th percentile of 0.15 mg....../l. The validity of setting a breakpoint minimum inhibitory concentration (MIC) at a quarter of these plasma concentrations was investigated. The MIC of the Aeromonas salmonicida isolated from the farmed fish (n=7) was 0.5 mg/l and the breakpoints generated by application of the 4:1 ratio were in the range 0...

  14. Identification of a Novel P190-Derived Breakpoint Peptide Suitable for Peptide Vaccine Therapeutic Approach in Ph+ Acute Lymphoblastic Leukemia Patients

    Directory of Open Access Journals (Sweden)

    Micaela Ippoliti

    2012-01-01

    Full Text Available Ph+ acute lymphoblastic leukemia (Ph+ ALL is a high-risk acute leukemia with poor prognosis, in which the specific t(9;22(q34;q11 translocation results in a chimeric bcr-abl (e1a2 breakpoint and in a 190 KD protein (p190 with constitutive tyrosine kinase activity. The advent of first- and second-generation tyrosine kinase inhibitors (TKIs improved the short-term outcome of Ph+ ALL patients not eligible for allo-SCT; yet disease recurrence is almost inevitable. Peptides derived from p190-breakpoint area are leukemia-specific antigens that may mediate an antitumor response toward p190+ leukemia cells. We identified one peptide named p190-13 able to induce in vitro peptide-specific CD4+ T cell proliferation in Ph+ ALL patients in complete remission during TKIs. Thus this peptide appears a good candidate for developing an immune target vaccine strategy possibly synergizing with TKIs for remission maintenance.

  15. Isolation of chromosome-specific DNA sequences from an Alu polymerase chain reaction library to define the breakpoint in a patient with a constitutional translocation t(1;13) (q22;q12) and ganglioneuroblastoma.

    Science.gov (United States)

    Michalski, A J; Cotter, F E; Cowell, J K

    1992-08-01

    We describe the cytogenetic and molecular characterization of a t(1;13)(q22;q12) constitutional rearrangement occurring in a patient with a relatively benign form of neuroblastoma, called ganglioneuroblastoma. Somatic cell hybrids were generated between mouse 3T3 cells and a lymphoblastoid cell line from this patient, D.G. One isolated subclone, DGF27C11, contained the derivative chromosome, 1pter-q22::13q12-qter, but no other material from either chromosome 1 or 13. Using available DNA probes the 13 breakpoint was assigned proximal to all reported markers. In order to generate flanking markers to define this translocation further, an Alu polymerase chain reaction library was constructed from a somatic cell hybrid containing only the proximal, 13pter-13q14, region of chromosome 13. Seven unique sequences have been isolated from the library, three of which lie below and four of which lie above the 13q12 breakpoint. More precise mapping of the distal markers was achieved using a panel of somatic cell hybrids with overlapping deletions of chromosome 13. The paucity of probes in the 1q22 region has made a precise assignment of this breakpoint difficult, however it has been shown to lie distal to c-SKI and proximal to APOA2. This refined characterization of the breakpoint is a prerequisite for its cloning, which may yield genes important in the pathogenesis of ganglioneuroblastoma.

  16. A high-resolution comparative map between pig chromosome 17 and human chromosomes 4, 8, and 20: Identification of synteny breakpoints

    DEFF Research Database (Denmark)

    Lahbib-Mansais, Yvette; Karlskov-Mortensen, Peter; Mompart, Florence;

    2005-01-01

    We report on the construction of a high-resolution comparative map of porcine chromosome 17 (SSC17) focusing on evolutionary breakpoints with human chromosomes. The comparative map shows high homology with human chromosome 20 but suggests more limited homologies with other human chromosomes. SSC17...... is of particular interest in studies of chromosomal organization due to the presence of QTLs that affect meat quality and carcass composition. A total of 158 pig ESTs available in databases or developed by the Sino-Danish Pig Genome Sequencing Consortium were mapped using the INRA-University of Minnesota porcine...... radiation hydrid panel. The high-resolution map was further anchored by fluorescence in situ hybridization. This study confirmed the extensive conservation between SSC17 and HSA20 and enabled the gene order to be determined. The homology of the SSC17 pericentromeric region was extended to other human...

  17. Impact of penicillin nonsusceptibility on clinical outcomes of patients with nonmeningeal Streptococcus pneumoniae bacteremia in the era of the 2008 clinical and laboratory standards institute penicillin breakpoints.

    Science.gov (United States)

    Choi, Seong-Ho; Chung, Jin-Won; Sung, Heungsup; Kim, Mi-Na; Kim, Sung-Han; Lee, Sang-Oh; Kim, Yang Soo; Woo, Jun Hee; Choi, Sang-Ho

    2012-09-01

    To investigate the impact of penicillin nonsusceptibility on clinical outcomes of patients with nonmeningeal Streptococcus pneumoniae bacteremia (SPB), a retrospective cohort study was performed. The characteristics of 39 patients with penicillin-nonsusceptible SPB (PNSPB) were compared to those of a group of age- and sex-matched patients (n = 78) with penicillin-susceptible SPB (PSSPB). Susceptibility to penicillin was redetermined by using the revised Clinical and Laboratory Standards Institute (CLSI) penicillin breakpoints in CLSI document M100-S18. Although the PNSPB group tended to have more serious initial manifestations than the PSSPB group, the two groups did not differ significantly in terms of their 30-day mortality rates (30.8% versus 23.1%; P = 0.37) or the duration of hospital stay (median number of days, 14 versus 12; P = 0.89). Broad-spectrum antimicrobial agents, such as extended-spectrum cephalosporins, vancomycin, and carbapenem, were frequently used in both the PNSPB and PSSPB groups. Multivariate analysis revealed that ceftriaxone nonsusceptibility (adjusted odds ratio [aOR] = 4.88; 95% confidence interval [CI] = 1.07 to 22.27; P = 0.041) was one of the independent risk factors for 30-day mortality. Thus, when the 2008 CLSI penicillin breakpoints are applied and the current clinical practice of using wide-spectrum empirical antimicrobial agents is pursued, fatal outcomes in patients with nonmeningeal SPB that can be attributed to penicillin nonsusceptibility are likely to be rare. Further studies that examine the clinical impact of ceftriaxone nonsusceptibility in nonmningeal SPB may be warranted.

  18. Impact of changes in CLSI and EUCAST breakpoints for susceptibility in bloodstream infections due to extended-spectrum β-lactamase-producing Escherichia coli.

    Science.gov (United States)

    Rodríguez-Baño, J; Picón, E; Navarro, M D; López-Cerero, L; Pascual, A

    2012-09-01

    The impact of recent changes in and discrepancies between the breakpoints for cephalosporins and other antimicrobials, as determined by CLSI and European Committee on Antimicrobial Susceptibility Testing (EUCAST), was analysed in patients with bloodstream infections caused by extended-spectrum β-lactamase (ESBL) producing Escherichia coli in Spain, was analysed. We studied a cohort of 191 episodes of bloodstream infection caused by ESBL-producing E. coli in 13 Spanish hospitals; the susceptibility of isolates to different antimicrobials was investigated by microdilution and interpreted according to recommendations established in 2009 and 2010 by CLSI, and in 2011 by EUCAST. Overall, 58.6% and 14.7% of isolates were susceptible to ceftazidime, and 35.1% and 14.7% to cefepime using the CLSI-2010 and EUCAST-2009/2011 recommendations, respectively (all isolates would have been considered resistant using the previous guidelines). Discrepancies between the CLSI-2010 and the EUCAST-2011 recommendations were statistically significant for other antimicrobials only in the case of amikacin (98.4% versus 75.9% of susceptible isolates; p <0.01). The results varied depending on the ESBL produced. No significant differences were found in the percentage of patients classified as receiving appropriate therapy, following the different recommendations. Four out of 11 patients treated with active cephalosporins according to CLSI-2010 guidelines died (all had severe sepsis or shock); these cases would have been considered resistant according to EUCAST-2011. In conclusion, by using current breakpoints, extended-spectrum cephalosporins would be regarded as active agents for treating a significant proportion of patients with bloodstream infections caused by ESBL-producing E. coli.

  19. Evaluation by Data Mining Techniques of Fluconazole Breakpoints Established by the Clinical and Laboratory Standards Institute (CLSI) and Comparison with Those of the European Committee on Antimicrobial Susceptibility Testing (EUCAST)▿

    Science.gov (United States)

    Cuesta, Isabel; Bielza, Concha; Cuenca-Estrella, Manuel; Larrañaga, Pedro; Rodríguez-Tudela, Juan L.

    2010-01-01

    The EUCAST and the CLSI have established different breakpoints for fluconazole and Candida spp. However, the reference methodologies employed to obtain the MICs provide similar results. The aim of this work was to apply supervised classification algorithms to analyze the clinical data used by the CLSI to establish fluconazole breakpoints for Candida infections and to compare these data with the results obtained with the data set used to set up EUCAST fluconazole breakpoints, where the MIC for detecting failures was >4 mg/liter, with a sensitivity of 87%, a false-positive rate of 8%, and an area under the receiver operating characteristic (ROC) curve of 0.89. Five supervised classifiers (J48 and CART decision trees, the OneR decision rule, the naïve Bayes classifier, and simple logistic regression) were used to analyze the original cohort of patients (Rex's data set), which was used to establish CLSI breakpoints, and a later cohort of candidemia (Clancy's data set), with which CLSI breakpoints were validated. The target variable was the outcome of the infections, and the predictor variable was the MIC or dose/MIC ratio. For Rex's data set, the MIC detecting failures was >8 mg/liter, and for Clancy's data set, the MIC detecting failures was >4 mg/liter, in close agreement with the EUCAST breakpoint (MIC > 4 mg/liter). The sensitivities, false-positive rates, and areas under the ROC curve obtained by means of CART, the algorithm with the best statistical results, were 52%, 18%, and 0.7, respectively, for Rex's data set and 65%, 6%, and 0.72, respectively, for Clancy's data set. In addition, the correlation between outcome and dose/MIC ratio was analyzed for Clancy's data set, where a dose/MIC ratio of >75 was associated with successes, with a sensitivity of 93%, a false-positive rate of 29%, and an area under the ROC curve of 0.83. This dose/MIC ratio of >75 was identical to that found for the cohorts used by EUCAST to establish their breakpoints (a dose/MIC ratio of

  20. 考虑耕地生态质量的基本农田划定方法%Demarcating method of prime farmland considering ecological quality of cultivated land

    Institute of Scientific and Technical Information of China (English)

    任艳敏; 唐秀美; 刘玉; 潘瑜春

    2014-01-01

    Evaluating the quality of cultivated land comprehensively and systematically is an important prerequisite in performing, demarcating, and conducting high standards of prime farmland scientifically. Taking Tunchang county, Hainan Province as an example, these indexes are chosen to evaluate the quality of cultivated land in the paper as following: topography, erosion condition of soil, ecological system service value, flood disaster, connection, etc, on the basis of comprehensive consideration of nature quality and location condition. It shows that the ecological quality is very important in prime farmland evaluation, and index system is improved. The result: 88.91% of cultivated land is demarcated into prime farmland, with comprehensive evaluating score equal or larger than 70, mainly in the central south and north of the platforms and plains regions of Tunchang country. Contrastive analysis was studied between the method of this paper (method 1) and natural quality of agricultural land (method 2) in demarcating prime farmland. Cultivated land of the study area is classified into four type regions, namely: Type region I, Type region II, Type region III, Type region IV. Among them, Type region I is described as the farmland area demarcated by the above two methods, which is the largest part (84.49%) and has some essential characteristics such as good nature quality, convenient location convenient, less natural disasters, and soil erosion, as well as fairly flat land. Except that, prime farmland is close to towns or rural settlements in spatial distribution, and their average patch area is large and is in the obviously centralized distribution, which is easy to agricultural scaled production and mechanization. Type region II is chosen through method 2, only occupies 4.42%of the area, but distributes in every town. This kind of cultivated land is mainly west and east of the mountainous and hilly regions. The patches are much smaller than Type region I or Type region

  1. Mapping of wheat mitochondrial mRNA termini and comparison with breakpoints in DNA homology among plants.

    Science.gov (United States)

    Choi, Boyoung; Acero, Maria M; Bonen, Linda

    2012-11-01

    Mitochondrial DNA rearrangements occur very frequently in flowering plants and when close to genes there must be concomitant acquisition of new regulatory cis-elements. To explore whether there might be limits to such DNA shuffling, we have mapped the termini of mitochondrial mRNAs in wheat, a monocot, and compared them to the known positions for counterpart genes in the eudicot Arabidopsis. Nine genes share homologous 3' UTRs over their full-length and for six of them, the termini map very close to the site of wheat/Arabidopsis DNA rearrangements. Only one such case was seen for comparisons of 5' UTRs, and the 5' ends of mRNAs are typically more heterogeneous than 3' termini. Approximately half of the thirty-one wheat mitochondrial transcriptional units are preceded by CRTA promoter-like motifs, and of the potential stem-loop or tRNA-like structures identified as candidate RNA processing/stability signals near the 5' or 3' ends, several are shared with Arabidopsis. Comparison of the mitochondrial gene flanking sequences from normal fertile wheat (Triticum aestivum) with those of Aegilops kotschyi which is the source of mitochondria present in K-type cytoplasmic male sterile wheat, revealed six cases where mRNAs are precluded from sharing full-length homologous UTRs because of genomic reorganization events, and the presence of short repeats located at the sites of discontinuity points to a reciprocal recombination-mediated mode of rearrangement.

  2. Breakpoint of a balanced translocation (X:14) (q27.1;q32.3) in a girl with severe hemophilia B maps proximal to the factor IX gene.

    Science.gov (United States)

    Di Paola, J; Goldman, T; Qian, Q; Patil, S R; Schutte, B C; Schute, B C

    2004-03-01

    Hemophilia B is an X-linked bleeding disorder caused by the deficiency of coagulation factor (F)IX, with an estimated prevalence of 1 in 30 000 male births. It is almost exclusively seen in males with rare exceptions. We report a girl who was diagnosed with severe (PAC DNA probe, RP6-88D7 (which contains the FIX gene) hybridized only on the normal chromosome X as well as onto the derivative 14. Using a PAC DNA probe, RP11-963P9 that is located proximal to the FIX gene, we obtained signals on the normal and derivative X and also on the derivative 14. We conclude that the breakpoint is located within the DNA sequence of this clone mapping proximal to the FIX gene. Since the FIX gene seems to be intact in the derivative 14, the breakpoint may affect an upstream regulatory sequence that subjects the gene to position effect variegation (PEV).

  3. Evaluation of CLSI M44-A2 Disk Diffusion and Associated Breakpoint Testing of Caspofungin and Micafungin Using a Well-Characterized Panel of Wild-Type and fks Hot Spot Mutant Candida Isolates▿

    Science.gov (United States)

    Arendrup, Maiken Cavling; Park, Steven; Brown, Steven; Pfaller, Michael; Perlin, David S.

    2011-01-01

    Disk diffusion testing has recently been standardized by the CLSI, and susceptibility breakpoints have been established for several antifungal compounds. For caspofungin, 5-μg disks are approved, and for micafungin, 10-μg disks are under evaluation. We evaluated the performances of caspofungin and micafungin disk testing using a panel of Candida isolates with and without known FKS echinocandin resistance mechanisms. Disk diffusion and microdilution assays were performed strictly according to CLSI documents M44-A2 and M27-A3. Eighty-nine clinical Candida isolates were included: Candida albicans (20 isolates/10 mutants), C. glabrata (19 isolates/10 mutants), C. dubliniensis (2 isolates/1 mutant), C. krusei (16 isolates/3 mutants), C. parapsilosis (14 isolates/0 mutants), and C. tropicalis (18 isolates/4 mutants). Quality control strains were C. parapsilosis ATCC 22019 and C. krusei ATCC 6258. The correlations between zone diameters and MIC results were good for both compounds, with identical susceptibility classifications for 93.3% of the isolates by applying the current CLSI breakpoints. However, the numbers of fks hot spot mutant isolates misclassified as being susceptible (S) (very major errors [VMEs]) were high (61% for caspofungin [S, ≥11 mm] and 93% for micafungin [S, ≥14 mm]). Changing the disk diffusion breakpoint to S at ≥22 mm significantly improved the discrimination. For caspofungin, 1 VME was detected (a C. tropicalis isolate with an F76S substitution) (3.5%), and for micafungin, 10 VMEs were detected, the majority of which were for C. glabrata (8/10). The broadest separation between zone diameter ranges for wild-type (WT) and mutant isolates was seen for caspofungin (6 to 12 mm versus −4 to 7 mm). In conclusion, caspofungin disk diffusion testing with a modified breakpoint led to excellent separation between WT and mutant isolates for all Candida species. PMID:21357293

  4. Refinement of the Seathre-Chotzen syndrome locus between D7S664 and D7S507 which flank a translocation breakpoint in an affected individual

    Energy Technology Data Exchange (ETDEWEB)

    Lewanda, A.F. [Johns Hopkins Univ., Baltimore, MD (United States)]|[Children`s National Medical Center, Washington, DC (United States); Taylor, E.W.; Jabs, E.W. [Johns Hopkins Univ., Baltimore, MD (United States)] [and others

    1994-09-01

    Saethre-Chotzen syndrome (SCS) is a common autosomal dominant craniosynostosis disorder that has been mapped to distal chromosome 7p. In addition to craniosynostosis, patients with SCS have facial asymmetry, low frontal hairline, ptosis, deviated nasal septum, brachydactyly, and partial cutaneous syndactyly. We evaluated 66 individuals in 10 SCS families. Linkage analysis was performed with 11 dinucleotide repeat markers between D7S513 and D7S516, spanning a genetic distance of 27 cM. The tightest linkage was to marker D7S664 (Z = 7.16, {theta} = 0.00), with a confidence interval of 8 cM. Haplotype analysis of those families with informative recombination events showed the disease locus to lie within the 12 cM region between markers D7S513 and D7S507. We used FISH to physically map the gene using chromosome spreads from the SCS patient with t(2;7)(p23;p22) reported by Reid et al. and YAC clones from a contig spanning the critical interval. These studies confirmed that the breakpoint lies within this region, and in fact identified a microdeletion. Further studies will be targeted towards identification of candidate genes for Saethre-Chotzen syndrome.

  5. Deletion of UBE3A in brothers with Angelman syndrome at the breakpoint with an inversion at 15q11.2.

    Science.gov (United States)

    Kuroda, Yukiko; Ohashi, Ikuko; Saito, Toshiyuki; Nagai, Jun-Ichi; Ida, Kazumi; Naruto, Takuya; Wada, Takahito; Kurosawa, Kenji

    2014-11-01

    Angelman syndrome (AS) is characterized by severe intellectual disability with ataxia, epilepsy, and behavioral uniqueness. The underlining molecular deficit is the absence of the maternal copy of the imprinted UBE3A gene due to maternal deletions, which is observed in 70-75% of cases, and can be detected using fluorescent in situ hybridization (FISH) of the UBE3A region. Only a few familial AS cases have been reported with a complete deletion of UBE3A. Here, we report on siblings with AS caused by a microdeletion of 15q11.2-q12 encompassing UBE3A at the breakpoint of an inversion at 15q11.2 and 15q26.1. Karyotyping revealed an inversion of 15q, and FISH revealed the deletion of the UBE3A region. Array comparative genomic hybridization (CGH) demonstrated a 467 kb deletion at 15q11.2-q12, encompassing only UBE3A, SNORD115, and PAR1, and a 53 kb deletion at 15q26.1, encompassing a part of SLCO3A1. Their mother had a normal karyotype and array CGH detected no deletion of 15q11.2-q12, so we assumed gonadal mosaicism. This report describes a rare type of familial AS detected using the D15S10 FISH test.

  6. Effectiveness of antibiotic combination therapy as evaluated by the Break-point Checkerboard Plate method for multidrug-resistant Pseudomonas aeruginosa in clinical use.

    Science.gov (United States)

    Nakamura, Itaru; Yamaguchi, Tetsuo; Tsukimori, Ayaka; Sato, Akihiro; Fukushima, Shinji; Mizuno, Yasutaka; Matsumoto, Tetsuya

    2014-04-01

    Multidrug-resistant Pseudomonas aeruginosa (MDRP) strains are defined as having resistance to the following 3 groups of antibiotics: carbapenems, aminoglycosides, and fluoroquinolones. Antibiotic combinations have demonstrated increased activity in vitro compared with a single agent. As an in vitro method of determining the combination activity of antibiotics, the Break-point Checkerboard Plate (BC-plate) can be used routinely in clinical microbiology laboratories. We evaluated the effectiveness of the BC-plate for MDRP infections in clinical settings. We retrospectively selected cases of MDRP infection treated with combination therapy of antibiotics in Tokyo Medical University Hospital (1015 beds), Tokyo, Japan, from November 2010 to October 2012. A total of 28 MDRP strains were clinically isolated from 28 patients during the study period. This study design is a case series of MDRP infection. Six infections among the 28 patients were treated based on the results of the BC-plate assay, and the 6 strains tested positive for MBL. One patient had pneumonia, 3 had urinary tract infections, 1 had vertebral osteomyelitis, and 1 had nasal abscess. The combination of aztreonam with amikacin demonstrated the most frequently recognized in vitro effect (5 patients). Next, aztreonam with ciprofloxacin and piperacillin with amikacin revealed equivalent in vitro effects (3 patients, respectively). The clinical cure rate was 83.3% (5/6 patients). Antibiotic combination therapy based on the results of the BC-plate assay might indicate the effective therapy against MDRP infection in clinical settings.

  7. A complex chromosome rearrangement involving four chromosomes, nine breakpoints and a cryptic 0.6-Mb deletion in a boy with cerebellar hypoplasia and defects in skull ossification.

    Science.gov (United States)

    Guilherme, R S; Cernach, M C S P; Sfakianakis, T E; Takeno, S S; Nardozza, L M M; Rossi, C; Bhatt, S S; Liehr, T; Melaragno, M I

    2013-01-01

    Constitutional complex chromosomal rearrangements (CCRs) are considered rare cytogenetic events. Most apparently balanced CCRs are de novo and are usually found in patients with abnormal phenotypes. High-resolution techniques are unveiling genomic imbalances in a great percentage of these cases. In this paper, we report a patient with growth and developmental delay, dysmorphic features, nervous system anomalies (pachygyria, hypoplasia of the corpus callosum and cerebellum), a marked reduction in the ossification of the cranial vault, skull base sclerosis, and cardiopathy who presents a CCR with 9 breakpoints involving 4 chromosomes (3, 6, 8 and 14) and a 0.6-Mb deletion in 14q24.1. Although the only genomic imbalance revealed by the array technique was a deletion, the clinical phenotype of the patient most likely cannot be attributed exclusively to haploinsufficiency. Other events must also be considered, including the disruption of critical genes and position effects. A combination of several different investigative approaches (G-banding, FISH with different probes and SNP array techniques) was required to describe this CCR in full, suggesting that CCRs may be more frequent than initially thought. Additionally, we propose that a chain chromosome breakage mechanism may have occurred as a single rearrangement event resulting in this CCR. This study demonstrates the importance of applying different cytogenetic and molecular techniques to detect subtle rearrangements and to delineate the rearrangements at a more accurate level, providing a better understanding of the mechanisms involved in CCR formation and a better correlation with phenotype.

  8. Comprehensive meiotic segregation analysis of a 4-breakpoint t(1;3;6) complex chromosome rearrangement using single sperm array comparative genomic hybridization and FISH.

    Science.gov (United States)

    Hornak, Miroslav; Vozdova, Miluse; Musilova, Petra; Prinosilova, Petra; Oracova, Eva; Linkova, Vlasta; Vesela, Katerina; Rubes, Jiri

    2014-10-01

    Complex chromosomal rearrangements (CCR) represent rare structural chromosome abnormalities frequently associated with infertility. In this study, meiotic segregation in spermatozoa of an infertile normospermic carrier of a 4-breakpoint t(1;3;6) CCR was analysed. A newly developed array comparative genomic hybridization protocol was used, and all chromosomes in 50 single sperm cells were simultaneously examined. Three-colour FISH was used to analyse chromosome segregation in 1557 other single sperm cells. It was also used to measure an interchromosomal effect; sperm chromatin structure assay was used to measure chromatin integrity. A high-frequency of unbalanced spermatozoa (84%) was observed, mostly arising from the 3:3 symmetrical segregation mode. Array comparative genomic hybridization was used to detect additional aneuploidies in two out of 50 spermatozoa (4%) in chromosomes not involved in the complex chromosome rearrangement. Significantly increased rates of diploidy and XY disomy were found in the CCR carrier compared with the control group (P < 0.001). Defective condensation of sperm chromatin was also found in 22.7% of spermatozoa by sperm chromatin structure assay. The results indicate that the infertility in the man with CCR and normal spermatozoa was caused by a production of chromosomally unbalanced, XY disomic and diploid spermatozoa and spermatozoa with defective chromatin condensation.

  9. Site Features

    Data.gov (United States)

    U.S. Environmental Protection Agency — This dataset consists of various site features from multiple Superfund sites in U.S. EPA Region 8. These data were acquired from multiple sources at different times...

  10. Nonreciprocal chromosomal translocations in renal cancer involve multiple DSBs and NHEJ associated with breakpoint inversion but not necessarily with transcription.

    Science.gov (United States)

    Ali, Hanif; Daser, Angelika; Dear, Paul; Wood, Henry; Rabbitts, Pamela; Rabbitts, Terence

    2013-04-01

    Chromosomal translocations and other abnormalities are central to the initiation of cancer in all cell types. Understanding the mechanism is therefore important to evaluate the evolution of cancer from the cancer initiating events to overt disease. Recent work has concentrated on model systems to develop an understanding of the molecular mechanisms of translocations but naturally occurring events are more ideal case studies since biological selection is absent from model systems. In solid tumours, nonreciprocal translocations are most commonly found, and accordingly we have investigated the recurrent nonreciprocal t(3;5) chromosomal translocations in renal carcinoma to better understand the mechanism of these naturally occurring translocations in cancer. Unexpectedly, the junctions of these translocations can be associated with site-specific, intrachromosomal inversion involving at least two double strand breaks (DSB) in cis and rejoining by nonhomologous end joining or micro-homology end joining. However, these translocations are not necessarily associated with transcribed regions questioning accessibility per se in controlling these events. In addition, intrachromosomal deletions also occur. We conclude these naturally occurring, nonreciprocal t(3;5) chromosomal translocations occur after complex and multiple unresolved intrachromosomal DSBs leading to aberrant joining with concurrent interstitial inversion and that clonal selection of cells is the critical element in cancer development emerging from a plethora of DSBs that may not always be pathogenic.

  11. Study on the Method for the Demarcation of Urban-rural Fringe Based on Land Use Dynamic Indicator%基于动态指标的城乡交错带边界界定方法研究

    Institute of Scientific and Technical Information of China (English)

    赵华甫; 朱玉环; 吴克宁; 胡晓涛

    2012-01-01

    The purpose of this paper is to propose the hypotheses of land use dynamic characteristics in urban-rural fringe and verified a new demarcation method based on dynamic indicator for urban-rural fringe supporting by the land use information from 1999 and 2010 TM images. Methods include theoretical deduction and empirical analysis. The results show 1 ) From urban core to rural area, the dynamic degree of land use increases slowly at first, then rapid rise with local shocks will occur from the inner edge to the outer edge of the urban-rural fringe, and subsequently with a sudden drop to a lower level. This validates the hypotheses of land use dynamic characteristics of urban-rural fringe. Therefore the definition of urban-rural fringe boundary by land use dynamic indicators is feasible; 2) the empirical analysis of demarcation method for Beijing urban-rural fringe based upon land use dynamic degree finds that inner edge of Beijing urban-rural fringe should be close the Third Circuit Road or Forth Circuit Road of Beijing. The western outer edge of it might be approached the inside Fifth Circuit Road and other direction of outer edges will be close to the Sixth Circuit Road of Beijing. The paper concludes that the feasibility of the proposed method and it will provide a new view of the demarcation on urban-rural fringe.%研究目的:在北京市1999年和2010年两期LandsatTM数据支持下,提出并验证城乡交错带土地利用动态变化特征假设和动态指标界定城乡交错带边界的新方法。研究方法:理论假设和实证分析相结合。研究结果:(1)由城市核心区到外围腹地,土地利用动态度具有先缓慢增加,至城乡交错带内缘时发生突变、急速升高、局部可能发生震荡,到城乡交错带的外缘发生突降至较低水平的特征;(2)采用土地利用动态度界定城乡交错带实证分析认为,北京市城乡交错带的内缘大部分在三、四环路之间,外缘西

  12. Demarcation and Periodization and Periodization of the Qujialing Culture%屈家岭文化的界定与分期

    Institute of Scientific and Technical Information of China (English)

    陈文

    2001-01-01

    The Qujialing culture generally recognized in academic circles, actually, contains two complexes of cultural eletemts which did not coexist with each other and were characterized by two combinations of pottery objects different in date. What should be excluded is the complex with the combination of the small ding tripod, curved-bellied cup, ring-foot gui basin, dou stemmed vessel, pot and jar of black pottery ware. The Qujialing is the archaeological culture with grey clay pottery as the main ware and with the double-bellied vessel, pot shaped object, bell-shaped cup, gu-shaped cup, high ring-foot cup, necked jar and painted spindle-whorl as the typical features, and belongs to the late Neolithic Age. Through analyses of many type sites it is known that the culture can be divided into four periods with five stages, with the combined typical pottery objects running through the course of development and showing a clear evolutionary track. It was disbributed chiefly in the Yangtze-Hanshui Plain, expanded to the surrounding zones around the third period, and formed certain local features ind ifferent areas.

  13. Identification of subtelomeric genomic imbalances and breakpoint mapping with quantitative PCR in 296 individuals with congenital defects and/or mental retardation

    Directory of Open Access Journals (Sweden)

    Brockmann Knut

    2009-03-01

    Full Text Available Abstract Background Submicroscopic imbalances in the subtelomeric regions of the chromosomes are considered to play an important role in the aetiology of mental retardation (MR. The aim of the study was to evaluate a quantitative PCR (qPCR protocol established by Boehm et al. (2004 in the clinical routine of subtelomeric testing. Results 296 patients with MR and a normal karyotype (500–550 bands were screened for subtelomeric imbalances by using qPCR combined with SYBR green detection. In total, 17 patients (5.8% with 20 subtelomeric imbalances were identified. Six of the aberrations (2% were classified as causative for the symptoms, because they occurred either de novo in the patients (5 cases or the aberration were be detected in the patient and an equally affected parent (1 case. The extent of the deletions ranged from 1.8 to approximately 10 Mb, duplications were 1.8 to approximately 5 Mb in size. In 6 patients, the copy number variations (CNVs were rated as benign polymorphisms, and the clinical relevance of these CNVs remains unclear in 5 patients (1.7%. Therefore, the overall frequency of clinically relevant imbalances ranges between 2% and 3.7% in our cohort. Conclusion This study illustrates that the qPCR/SYBR green technique represents a rapid and versatile method for the detection of subtelomeric imbalances and the option to map the breakpoint. Thus, this technique is highly suitable for genotype/phenotype studies in patients with MR/developmental delay and/or congenital defects.

  14. Four chromosomal breakpoints and four new probes mark out a 10-cM region encompassing the fragile-X locus (FRAXA).

    Science.gov (United States)

    Rousseau, F; Vincent, A; Rivella, S; Heitz, D; Triboli, C; Maestrini, E; Warren, S T; Suthers, G K; Goodfellow, P; Mandel, J L

    1991-01-01

    We report the validation and use of a cell hybrid panel which allowed us a rapid physical localization of new DNA probes in the vicinity of the fragile-X locus (FRAXA). Seven regions are defined by this panel, two of which lie between DXS369 and DXS296, until now the closest genetic markers that flank FRAXA. Of those two interesting regions, one is just distal to DXS369 and defined by probe 2-71 (DXS476), which is not polymorphic. The next one contains probes St677 (DXS463) and 2-34 (DXS477), which are within 130 kb and both detect TaqI RFLPs. The combined informativeness of these two probes is 30%. We cloned from an irradiation-reduced hybrid line another new polymorphic probe, Do33 (DXS465; 42% heterozygosity). This probe maps to the DXS296 region, proximal to a chromosomal breakpoint that corresponds to the Hunter syndrome locus (IDS). The physical order is thus Cen-DXS369-DXS476-(DXS463,DXS477)-(DXS296, DXS465)-IDS-DXS304-tel. We performed a linkage analysis for five of these markers in both the Centre d'Etude du Polymorphisme Humain families and in a large set of fragile-X families. This establishes that DXS296 is distal to FRAXA. The relative position of DXS463 and DXS477 with respect to FRAXA remains uncertain, but our results place them genetically halfway between DXS369 and DXS304. Thus the DXS463-DXS477 cluster defines presently either the closest proximal or the closest distal polymorphic marker with respect to FRAXA. The three new polymorphic probes described here have a combined heterozygosity of 60% and represent a major improvement for genetic analysis of fragile-X families, in particular for diagnostic applications.

  15. Antifungal susceptibilities of bloodstream isolates of Candida species from nine hospitals in Korea: application of new antifungal breakpoints and relationship to antifungal usage.

    Directory of Open Access Journals (Sweden)

    Eun Jeong Won

    Full Text Available We applied the new clinical breakpoints (CBPs of the Clinical and Laboratory Standards Institute (CLSI to a multicenter study to determine the antifungal susceptibility of bloodstream infection (BSI isolates of Candida species in Korea, and determined the relationship between the frequency of antifungal-resistant Candida BSI isolates and antifungal use at hospitals. Four hundred and fifty BSI isolates of Candida species were collected over a 1-year period in 2011 from nine hospitals. The susceptibilities of the isolates to four antifungal agents were determined using the CLSI M27 broth microdilution method. By applying the species-specific CBPs, non-susceptibility to fluconazole was found in 16.4% (70/428 of isolates, comprising 2.6% resistant and 13.8% susceptible-dose dependent isolates. However, non-susceptibility to voriconazole, caspofungin, or micafungin was found in 0% (0/370, 0% (0/437, or 0.5% (2/437 of the Candida BSI isolates, respectively. Of the 450 isolates, 72 (16.0% showed decreased susceptibility to fluconazole [minimum inhibitory concentration (MIC ≥4 μg/ml]. The total usage of systemic antifungals varied considerably among the hospitals, ranging from 190.0 to 7.7 defined daily dose per 1,000 patient days, and fluconazole was the most commonly prescribed agent (46.3%. By Spearman's correlation analysis, fluconazole usage did not show a significant correlation with the percentage of fluconazole resistant isolates at hospitals. However, fluconazole usage was significantly correlated with the percentage of fluconazole non-susceptible isolates (r = 0.733; P = 0.025 or the percentage of isolates with decreased susceptibility to fluconazole (MIC ≥4 μg/ml (r = 0.700; P = 0.036 at hospitals. Our work represents the first South Korean multicenter study demonstrating an association between antifungal use and antifungal resistance among BSI isolates of Candida at hospitals using the new CBPs of the CLSI.

  16. Isavuconazole and nine comparator antifungal susceptibility profiles for common and uncommon Candida species collected in 2012: application of new CLSI clinical breakpoints and epidemiological cutoff values.

    Science.gov (United States)

    Castanheira, Mariana; Messer, Shawn A; Rhomberg, Paul R; Dietrich, Rachel R; Jones, Ronald N; Pfaller, Michael A

    2014-08-01

    The in vitro activity of isavuconazole and nine antifungal comparator agents was assessed using reference broth microdilution methods against 1,421 common and uncommon species of Candida from a 2012 global survey. Isolates were identified using CHROMagar, biochemical methods and sequencing of ITS and/or 28S regions. Candida spp. were classified as either susceptible or resistant and as wild type (WT) or non-WT using CLSI clinical breakpoints or epidemiological cutoff values, respectively, for the antifungal agents. Isolates included 1,421 organisms from 21 different species of Candida. Among Candida spp., resistance to all 10 tested antifungal agents was low (0.0-7.9 %). The vast majority of each species of Candida, with the exception of Candida glabrata, Candida krusei, and Candida guilliermondii (modal MICs of 0.5 µg/ml), were inhibited by ≤0.12 µg/ml of isavuconazole (99.0 %; range 94.3 % [Candida tropicalis] to 100.0 % [Candida lusitaniae and Candida dubliniensis]). C. glabrata, C. krusei, and C. guilliermondii were largely inhibited by ≤1 µg/ml of isavuconazole (89.7, 96.9 and 92.8 %, respectively). Decreased susceptibility to isavuconazole was most prominent with C. glabrata where the modal MIC for isavuconazole was 0.5 µg/ml for those strains that were SDD to fluconazole or WT to voriconazole, and was 4 µg/ml for those that were either resistant or non-WT to fluconazole or voriconazole, respectively. In conclusion, these data document the activity of isavuconazole and generally the low resistance levels to the available antifungal agents in a large, contemporary (2012), global collection of molecularly characterized species of Candida.

  17. Site assessment

    DEFF Research Database (Denmark)

    Villanueva, Héctor; Gómez Arranz, Paula

    This report describes the site assessment of given position in a given site, for a wind turbine with a well-defined hub height and rotor diameter. The analysis is carried out in accordance to IEC 61400-12-1 [1], and both an obstacle assessment and a terrain assessment are performed....

  18. Array-based comparative genomic hybridization facilitates identification of breakpoints of a novel der(1)t(1;18)(p36.3;q23)dn in a child presenting with mental retardation.

    Science.gov (United States)

    Lennon, P A; Cooper, M L; Curtis, M A; Lim, C; Ou, Z; Patel, A; Cheung, S W; Bacino, C A

    2006-06-01

    Monosomy of distal 1p36 represents the most common terminal deletion in humans and results in one of the most frequently diagnosed mental retardation syndromes. This deletion is considered a contiguous gene deletion syndrome, and has been shown to vary in deletion sizes that contribute to the spectrum of phenotypic anomalies seen in patients with monosomy 1p36. We report on an 8-year-old female with characteristics of the monosomy 1p36 syndrome who demonstrated a novel der(1)t(1;18)(p36.3;q23). Initial G-banded karyotype analysis revealed a deleted chromosome 1, with a breakpoint within 1p36.3. Subsequent FISH and array-based comparative genomic hybridization not only confirmed and partially characterized the deletion of chromosome 1p36.3, but also uncovered distal trisomy for 18q23. In this patient, the duplicated 18q23 is translocated onto the deleted 1p36.3 region, suggesting telomere capture. Molecular characterization of this novel der(1)t(1;18)(p36.3;q23), guided by our clinical array-comparative genomic hybridization, demonstrated a 3.2 Mb terminal deletion of chromosome 1p36.3 and a 200 kb duplication of 18q23 onto the deleted 1p36.3, presumably stabilizing the deleted chromosome 1. DNA sequence analysis around the breakpoints demonstrated no homology, and therefore this telomere capture of distal 18q is apparently the result of a non-homologous recombination. Partial trisomy for 18q23 has not been previously reported. The importance of mapping the breakpoints of all balanced and unbalanced translocations found in the clinical laboratory, when phenotypic abnormalities are found, is discussed.

  19. Privacy in Online Social Networking Sites

    Directory of Open Access Journals (Sweden)

    M.Ida Evones

    2015-11-01

    Full Text Available There are more than 192 act ive social networking websites. Bringing every kind of social group together in one place and letting them interact is really a big thing indeed .Huge amount of information process in the sites each day, end up making it vulnerable to attack. There is no systematic framework taking into account the importance of privacy. Increased privacy settings don’t always guarantee privacy when there is a loop hole in the applications. Lack of user education results is over sharing. Privacy settings to limit access to some data are available, but these settings are never the default. Only a tiny minority make use of these. Online social network does not provide any demarcation line between private and public information. The personal informat ion shared in online social networks can harm the user in often unexpected ways. Private data is available in plenty. The major privacy problems are due to complicated privacy model, implementation errors and economic pressure. Until recently, not much work was done in this area. The recent papers, which I have collected is a Testimony to state that lot of work needs to be done in this area.

  20. Breakpoint phenomenon in layered superconductors

    Science.gov (United States)

    Shukrinov, Yu M.

    2008-10-01

    We study theoretically the multiple branch structure in the IV-characteristics of intrinsic Josephson junctions in HTSC and investigate in detailed its outermost branch at difierent values of the dissipation parameter. A difierent character of the IV-characteristics in the difierent intervals of the dissipation parameter β was observed. This feature follows from the fact of the creation of the longitudinal plasma wave with difierent wave number k. The possibility to observe experimentally the change of the wave vector of the longitudinal plasma wave by changing the temperature is analyzed.

  1. Breakpoint phenomenon in layered superconductors

    Energy Technology Data Exchange (ETDEWEB)

    Shukrinov, Yu M [Bogoliubov Laboratory of Theoretical Physics, Joint Institute for Nuclear Research, Dubna, Moscow Region, 141980, Russia and Photonics and Electronics Science and Engineering Center, Kyoto University, Kyoto 615-8510 (Japan)], E-mail: shukrinv@theor.jinr.ru

    2008-10-15

    We study theoretically the multiple branch structure in the IV-characteristics of intrinsic Josephson junctions in HTSC and investigate in detailed its outermost branch at different values of the dissipation parameter. A different character of the IV-characteristics in the different intervals of the dissipation parameter {beta} was observed. This feature follows from the fact of the creation of the longitudinal plasma wave with different wave number k. The possibility to observe experimentally the change of the wave vector of the longitudinal plasma wave by changing the temperature is analyzed.

  2. Planning model for the expansion of the electrical generation system with risk demarcation criteria; Modelo para la planificacion de la expansion del sistema electrico de generacion con criterios de acotamiento de riesgo

    Energy Technology Data Exchange (ETDEWEB)

    Hernandez Galicia, Julio Alberto; Nieva Gomez, Rolando [Instituto de Investigaciones Electricas, Cuernavaca, Morelos (Mexico)

    2009-07-01

    The general characteristics of a planning model for the electrical generation system expansion with risk demarcation criteria, as well as the main results of a representative study case of the Mexican Electrical System is presented. The model is based on a methodology of multiannual optimization for the generation expansion plans determination. In this context, every expansion plan defines the technology type to be installed, as well as the installation year, unit size and its location within a regional electric network. For this purpose, the model considers an interregional representation of the system identifying the necessary reinforcements to the capacity of the interregional connections. It also incorporates a Demarcation of Risk module that considers the uncertainty of the future scenarios of fuels prices to generate a set of expansion plans, among which includes the following: a) For every future of the fuel prices: the plan that diminishes the present value of the total cost (investment plus production). b) The plan that diminishes the economic risk derived from the uncertainty in the future of the fuel prices. c) A subgroup of expansion plans that are located in the efficient borders of decision, under the context of three criteria of interest: the economic risk, the investment cost of and the total cost in the future considered of greater relevance. [Spanish] Se presentan las caracteristicas generales de un modelo de planificacion de la expansion del sistema electrico de generacion con criterios de acotamiento de riesgo, asi como los principales resultados de un caso de estudio representativo del Sistema Electrico Mexicano. El modelo se basa en una metodologia de optimacion multi-anual para la determinacion de planes de expansion de la generacion. En este contexto, cada plan de expansion define el tipo de tecnologia que debera instalarse, asi como el ano de instalacion, el tamano de la unidad y su localizacion dentro de una red electrica regional. Para

  3. Falsification and Demarcation in Astronomy and Cosmology

    Science.gov (United States)

    Sovacool, Benjamin

    2005-01-01

    This work inaugurates a critical inquiry into whether the ideas of Karl Popper, a philosopher of science, are used by astronomers and astrophysicists, a practicing community of scientists. It examines four basic components of Karl Popper's philosophy falsification, prohibition, simplicity, and risk taking and the extent that these themes become…

  4. Demarcating misconduct from misinterpretations and mistakes

    DEFF Research Database (Denmark)

    Andersen, Hanne

    2012-01-01

    debated how to define scientific misconduct. Most definitions centered on falsification, fabrication, and plagiarism (the so-called FFP definition), but suggestions were also made for definitions that were broader and more open-ended, such as the 1995 suggestion from the US Commission of Research...

  5. Demarcation of Security in Authentication Protocols

    DEFF Research Database (Denmark)

    Ahmed, Naveed; Jensen, Christian D.

    2011-01-01

    Security analysis of communication protocols is a slippery business; many “secure” protocols later turn out to be insecure. Among many, two complains are more frequent: inadequate definition of security and unstated assumptions in the security model. In our experience, one principal cause...... for such state of affairs is an apparent overlap of security and correctness, which may lead to many sloppy security definitions and security models. Although there is no inherent need to separate security and correctness requirements, practically, such separation is significant. It makes security analysis...... easier, and enables us to define security goals with a fine granularity. We present one such separation, by introducing the notion of binding sequence as a security primitive. A binding sequence, roughly speaking, is the only required security property of an authentication protocol. All other...

  6. Study and Demarcating of Electron Magnetic Spectrometer

    Institute of Scientific and Technical Information of China (English)

    LIYe-jun; SHANYu-sheng; TAOYe-zheng; CHENGYou-jian; ZHANGHai-feng

    2003-01-01

    The principle of electron magnetic spectrometer is a moving charged particle circles a central point for the Lorenz force when it moves in a steady magnetic field, at the same time, we consider the influence of gravity excursion, magnetic grads excursion and curvature excursion. Having adopted yoke iron equalizing technology and had magnetic field and gravity field at the same line.

  7. Demarcating dramaturgy: mapping theory onto practice

    OpenAIRE

    Bolton, Jacqueline

    2009-01-01

    Dramaturgy and its agent, the dramaturg, are terms which have entered the discourse of UK practitioners particularly over the past two decades, almost exclusively in reference to the development of new plays and playwrights. Within British theatre, understandings of dramaturgical practice continue to be shaped by the structures and objectives of literary management departments instituted within subsidized producing theatres and companies. In Germany, the dramaturgical profession dates back to...

  8. Demarcating misconduct from misinterpretations and mistakes

    DEFF Research Database (Denmark)

    Andersen, Hanne

    2012-01-01

    Within recent years, scientific misconduct has become an increasingly important topic, not only in the scientific community, but in the general public as well. Spectacular cases have been extensively covered in the news media, such as the cases of the Korean stem cell researcher Hwang, the German...... for dealing with scientific misconduct were introduced in the 1990s. At this time, research agencies, universities and other research institutions around the world developed guidelines for good scientific practice and formed committees to handle cases of scientific misconduct. In this process it was widely...... debated how to define scientific misconduct. Most definitions centered on falsification, fabrication, and plagiarism (the so-called FFP definition), but suggestions were also made for definitions that were broader and more open-ended, such as the 1995 suggestion from the US Commission of Research...

  9. Site Restoration

    Energy Technology Data Exchange (ETDEWEB)

    Noynaert, L.; Bruggeman, A.; Cornelissen, R.; Massaut, V.; Rahier, A

    2001-04-01

    The objectives, the programme, and the achievements of the Site Restoration Department of SCK-CEN in 2000 are summarised. Main activities include the decommissioning of the BR3 PWR-reactor as well as other clean-up activities, projects on waste minimisation and activities related to the management of decommissioning projects. The department provides consultancy and services to external organisations.

  10. [Antifungal susceptibility profiles of Candida species to triazole: application of new CLSI species-specific clinical breakpoints and epidemiological cutoff values for characterization of antifungal resistance].

    Science.gov (United States)

    Karabıçak, Nilgün; Alem, Nihal

    2016-01-01

    The Clinical and Laboratory Standards Institute (CLSI) Subcommittee on Antifungal Susceptibility Testing has newly introduced species-specific clinical breakpoints (CBPs) for fluconazole and voriconazole. When CBPs can not be determined, wild-type minimal inhibitory concentration (MIC) distributions are detected and epidemiological cutoff values (ECVs) provide valuable means for the detection of emerging resistance. The aim of this study is to determine triazole resistance patterns in Candida species by the recently revised CLSI CBPs. A total of 140 Candida strains isolated from blood cultures of patients with invasive candidiasis hospitalized in various intensive care units in Turkey and sent to our reference laboratory between 2011-2012, were included in the study. The isolates were identified by conventional methods, and susceptibility testing was performed against fluconazole, itraconazole and voriconazole, by the 24-h CLSI broth microdilution (BMD) method. Azole resistance rates for all Candida species were determined using the new species-specific CLSI CBPs and ECVs criteria, when appropriate. The species distribution of the isolates were as follows; C.parapsilosis (n= 31 ), C.tropicalis (n= 26 ), C.glabrata (n= 21), C.albicans (n= 18), C.lusitaniae (n= 16), C.krusei (n= 16), C.kefyr (n= 9), C.guilliermondii (n= 2), and C.dubliniensis (n= 1). According to the newly determined CLSI CBPs for fluconazole and C.albicans, C.parapsilosis, C.tropicalis [susceptible (S), ≤ 2 µg/ml; dose-dependent susceptible (SDD), 4 µg/ml; resistant (R), ≥ 8 µg/ml], and C.glabrata (SDD, ≤ 32 µg/ml; R≥ 64 µg/ml) and for voriconazole and C.albicans, C.parapsilosis, C.tropicalis (S, ≤ 0.12 µg/ml; SDD, 0.25-0.5 µg/ml; R, ≥ 1 µg/ml), and C.krusei (S, ≤ 0.5 µg/ml; SDD, 1 µg/ml; R, ≥ 2 µg/ml), it was found that three of C.albicans, one of C.parapsilosis and one of C.glabrata isolates were resistant to fluconazole, while two of C.albicans and two of C

  11. 环境污染案件涉及的刑民界限问题初探%Demarcating Criminal Law and Civil Law When Applied to Cases Involving Environmental Pollution

    Institute of Scientific and Technical Information of China (English)

    武祎

    2015-01-01

    市场经济环境下,经济发展速度急速向前,环境污染事故频繁发生,究其原因,与片面追求经济发展、GDP增长而忽视环境保护有很大关系,同时也突显了环境保护司法手段滞后于经济发展的问题。在面对这些造成巨大经济和环境损失的污染事故时,如何正确使用司法手段进行惩罚与预防是本文试图解决的问题。文章从大连康菲石油污染事件为视角切入,分析其中存在的法律责任承担问题,进而通过对现有环境保护法律规定的梳理,析出环境污染案件涉及的刑民界限,为刑法与民法在市场经济条件下的环境污染案件中如何正确适用找到解决途径,同众学者商榷。%Under the market economy environment and along with the enormous rapidity of economic development , there has been an abrupt increase in environmental pollution accidents , whose frequent occurrence can be largely attributable to the one-sided mindset of pursuing economic development and GDP growth while ignoring environmen -tal protection .Meanwhile , the frequent occurrence of such accidents also highlight the fact that our legal means of environmental protection and environmental jurisprudence still lags behind fast economic development .In the face of these environmental pollution accidents causing huge economic losses , the crux of the matter is how to correctly use legal means to punish the perpetrators and prevent such accidents .Exemplified by a legal case involving marine oil pollution in Dalian , this paper aims to ascertain the legal liability in pollution cases and attempts a demarcation of criminal law invocation and that of civil law in dealing with such cases so as to come up with effective solutions to environmental pollution legally under the market-based economic conditions .

  12. The Development of Demarcation and Connotation of Hybridity in Postcolonial Cultural Context%“混杂性”概念在后殖民文化语境中的植入及内涵衍变

    Institute of Scientific and Technical Information of China (English)

    苗颖

    2013-01-01

    “混杂性”是当今文化理论研究的热点,是后殖民主义理论的关键词。混杂性本为生物学术语,在十九世纪殖民种族主义话语中,沾染了负面的种族与文化内涵。法农等反殖民族知识分子批判了种族主义的混杂观。至二十世纪八、九十年代,混杂性的内涵得到了进一步的发展。萨义德强调了文化混杂性的普遍存在,驳斥了帝国主义与民族主义的文化本质主义与文化纯粹观。霍米•巴巴从语言与文化层面论述了混杂性的颠覆力与能动性,建构了混杂性理论体系。“混杂性”概念在后殖民文化语境中的植入与内涵衍变,反映出不同的意识形态理念。%Hybridity is a hotspot in current culture studies as well as a key term in postcolonialism. Hybridity is a biological term in origin. It is contaminated with negative racial and cultural connotation in the nineteenth century colonial racist discourse. Fanon and other anti-colonial intellectuals criticize the racial connotation of hybridity. In 1980s and 1990s, there is further connotative development of hybridity. Said emphasizes permeating existence of cultural hybridity to refute imperialist and nationalist concept of cultural purity and essentialism. Homi Bhabha explores the subversive and initiative nature of hybridity from language and cultural perspectives and constructs the theory of hybridity. Analyzes the development of demarcation and connotation of hybridity in postcolonial cultural context from historical dimension associating with different ideologies, which shows that hybridity should be studied dialectically and context-specifically.

  13. Site Restoration

    Energy Technology Data Exchange (ETDEWEB)

    Noynaert, L.; Bruggeman, A.; Cornelissen, R.; Massaut, V.; Rahier, A

    2002-04-01

    The objectives, the programme, and the achievements of SCK-CEN's Site Restoration Department for 2001 are described. Main activities include the decommissioning of the BR3 PWR-reactor as well as other clean-up activities, projects on waste minimisation and the management of spent fuel and the flow of dismantled materials and the recycling of materials from decommissioning activities based on the smelting of metallic materials in specialised foundries. The department provides consultancy and services to external organisations and performs R and D on new techniques including processes for the treatment of various waste components including the reprocessing of spent fuel, the treatment of tritium, the treatment of liquid alkali metals into cabonates through oxidation, the treatment of radioactive organic waste and the reconditioning of bituminised waste products.

  14. The t(14;18)(q32;q21)/IGH-MALT1 translocation in MALT lymphomas contains templated nucleotide insertions and a major breakpoint region similar to follicular and mantle cell lymphoma.

    Science.gov (United States)

    Murga Penas, Eva Maria; Callet-Bauchu, Evelyne; Ye, Hongtao; Gazzo, Sophie; Berger, Françoise; Schilling, Georgia; Albert-Konetzny, Nadine; Vettorazzi, Eik; Salles, Gilles; Wlodarska, Iwona; Du, Ming-Qing; Bokemeyer, Carsten; Dierlamm, Judith

    2010-03-18

    The t(14;18)(q32;q21) involving the immunoglobulin heavy chain locus (IGH) and the MALT1 gene is a recurrent abnormality in mucosa-associated lymphoid tissue (MALT) lymphomas. However, the nucleotide sequence of only one t(14;18)-positive MALT lymphoma has been reported so far. We here report the molecular characterization of the IGH-MALT1 fusion products in 5 new cases of t(14;18)-positive MALT lymphomas. Similar to the IGH-associated translocations in follicular and mantle cell lymphomas, the IGH-MALT1 junctions in MALT lymphoma showed all features of a recombination signal sequence-guided V(D)J-mediated translocation at the IGH locus. Furthermore, analogous to follicular and mantle cell lymphoma, templated nucleotides (T-nucleotides) were identified at the t(14;18)/IGH-MALT1 breakpoint junctions. On chromosome 18, we identified a novel major breakpoint region in MALT1 upstream of its coding region. Moreover, the presence of duplications of MALT1 nucleotides in one case suggests an underlying staggered DNA-break process not consistent with V(D)J-mediated recombination. The molecular characteristics of the t(14;18)/IGH-MALT1 resemble those found in the t(14;18)/IGH-BCL2 in follicular lymphoma and t(11;14)/CCND1-IGH in mantle cell lymphoma, suggesting that these translocations could be generated by common pathomechanisms involving illegitimate V(D)J-mediated recombination on IGH as well as new synthesis of T-nucleotides and nonhomologous end joining (NHEJ) or alternative NHEJ repair pathways on the IGH-translocation partner.

  15. Impact of revised CLSI breakpoints for susceptibility to third-generation cephalosporins and carbapenems among Enterobacteriaceae isolates in the Asia-Pacific region: results from the Study for Monitoring Antimicrobial Resistance Trends (SMART), 2002-2010.

    Science.gov (United States)

    Huang, Chi-Chang; Chen, Yao-Shen; Toh, Han-Siong; Lee, Yu-Lin; Liu, Yuag-Meng; Ho, Cheng-Mao; Lu, Po-Liang; Liu, Chun-Eng; Chen, Yen-Hsu; Wang, Jen-Hsien; Tang, Hung-Jen; Yu, Kwok-Woon; Liu, Yung-Ching; Chuang, Yin-Ching; Xu, Yingchun; Ni, Yuxing; Ko, Wen-Chien; Hsueh, Po-Ren

    2012-06-01

    This study examined the rates of susceptibility to third-generation cephalosporins and carbapenems among Enterobacteriaceae isolates that had been obtained from patients with intraabdominal infections in the Asia-Pacific region as part of the Study for Monitoring Antimicrobial Resistance Trends (SMART). Susceptibility profiles obtained using 2009 Clinical and Laboratory Standards Institute (CLSI) breakpoints were compared with those obtained using the 2011 CLSI breakpoints. From 2002 to 2010, Escherichia coli and Klebsiella pneumoniae together accounted for more than 60% of the 13714 Enterobacteriaceae isolates analyzed during the study period. Extended-spectrum β-lactamase (ESBL) producers comprised 28.2% of E. coli isolates and 22.1% of K. pneumoniae isolates in the Asia-Pacific region, with China (55.6% and 33.7%, respectively) and Thailand (43.1% and 40.7%, respectively) having the highest proportions of ESBL producers. Based on the 2011 CLSI criteria, 77.2% of the Enterobacteriaceae isolates, 40.4% of ESBL-producing E. coli, and 25.2% of ESBL-producing K. pneumoniae isolates were susceptible to ceftazidime. Carbapenems showed in vitro activity against >90% of Enterobacteriaceae isolates in all participating countries, except for ertapenem in South Korea (susceptibility rate 82.2%). Marked differences (>5%) in susceptibility of ESBL-producing E. coli and K. pneumoniae isolates to carbapenems were noted between the profiles obtained using the 2009 CLSI criteria and those using the 2011 CLSI criteria. Continuous monitoring of antimicrobial resistance is necessary in the Asia-Pacific region.

  16. Region 9 NPL Sites (Superfund Sites) Polygons

    Data.gov (United States)

    U.S. Environmental Protection Agency — NPL site POLYGON locations for the US EPA Region 9. NPL (National Priorities List) sites are hazardous waste sites that are eligible for extensive long-term cleanup...

  17. Region 9 NPL Sites (Superfund Sites 2013)

    Data.gov (United States)

    U.S. Environmental Protection Agency — NPL site POINT locations for the US EPA Region 9. NPL (National Priorities List) sites are hazardous waste sites that are eligible for extensive long-term cleanup...

  18. Region 9 NPL Sites (Superfund Sites)

    Data.gov (United States)

    U.S. Environmental Protection Agency — NPL site POINT locations for the US EPA Region 9. NPL (National Priorities List) sites are hazardous waste sites that are eligible for extensive long-term cleanup...

  19. Characterization of FRA7B, a human common fragile site mapped at the 7p chromosome terminal region.

    Science.gov (United States)

    Bosco, Nazario; Pelliccia, Franca; Rocchi, Angela

    2010-10-01

    Common fragile sites (CFS) are specific regions of the mammalian chromosomes that are particularly prone to gaps and breaks. They are a cause of genome instability, and the location of many CFS correlates with breakpoints of aberrations recurrent in some cancers. The molecular characterization of some CFS has not clarified the causes of their fragility. In this work, by using fluorescence in situ hybridization analysis with BAC and PAC clones, we determined the DNA sequence of the CFS FRA7B. The FRA7B sequence was then analyzed to identify coding sequences and some structural features possibly involved in fragility. FRA7B spans about 12.2 megabases, and is therefore one of the largest CFS analyzed. It maps at the 7p21.3-22.3 chromosome bands, therefore at the interface of G- and R-band regions that are probably difficult to replicate. A 90-kilobase long sequence that presents very high flexibility values was identified at the very beginning of the more fragile CFS region. Three large genes (THSD7A, SDK1, and MAD1L1) and two miRNA genes (MIRN589 and MIRN339) map in the fragile region. The chromosome band 7p22 is a recurrent breakpoint in chromosome abnormalities in different types of neoplasm. FRA7B is the first characterized CFS located in a chromosome terminal region.

  20. Contaminated Sites in Iowa

    Data.gov (United States)

    Iowa State University GIS Support and Research Facility — Sites contaminated by hazardous materials or wastes. These sites are those administered by the Contaminated Sites Section of Iowa DNR. Many are sites which are...

  1. Riboproteomics of the hepatitis C virus internal ribosomal entry site.

    Science.gov (United States)

    Lu, Henry; Li, Weiqun; Noble, William Stafford; Payan, Donald; Anderson, D C

    2004-01-01

    Hepatitis C virus (HCV) protein translation is mediated by a cis-acting RNA, an internal ribosomal entry site (IRES), located in the 5' nontranslated region of the viral RNA. To examine proteins bound to the IRES, which could include proteins important for its function as well as potential drug targets, we used shotgun peptide sequencing to identify proteins in quadruplicate protein affinity extracts of lysed Huh7 cells, obtained using a biotinylated IRES. Twenty-six proteins bound the HCV IRES but not a reversed complementary sequence RNA or vector RNA controls. These included five ribosomal subunits, nine eukaryotic initiation factor 3 subunits, and novel interacting proteins such as the cytoskeletal-related proteins actin, FHOS (formin homologue overexpressed in spleen) and MIP-T3 (microtubule interacting protein that associates with TRAF3). Other novel HCV IRES-binding proteins included UNR (upstream of N-ras), UNR-interacting protein, and the RNA-binding proteins PAI-1 (plasminogen activator inhibitor-1) mRNA binding protein and Ewing sarcoma breakpoint 1 region protein EWS. A large set of additional proteins bound both the HCV IRES and a reversed complementary IRES sequence control, including the known HCV interactors PTB (polypyrimidine tract binding protein), the La autoantigen, and nucleolin. The discovery of these novel HCV IRES-binding proteins suggests links between IRES biology and the cytoskeleton, signal transduction, and other cellular functions.

  2. Six-year susceptibility trends and effect of revised Clinical Laboratory Standards Institute breakpoints on ciprofloxacin susceptibility reporting in typhoidal Salmonellae in a tertiary care paediatric hospital in Northern India.

    Science.gov (United States)

    Saksena, R; Nayyar, C; Manchanda, V

    2016-01-01

    The antimicrobial trends over 6 years were studied, and the effect of revised Clinical Laboratory Standards Institute (CLSI) breakpoints (2012) for ciprofloxacin susceptibility reporting in typhoidal Salmonellae was determined. A total of 874 (95.4%) isolates were nalidixic acid-resistant (NAR). Using the CLSI 2011 guidelines (M100-S21), 585 (66.9%) isolates were ciprofloxacin susceptible. The susceptibility reduced to 11 (1.25%) isolates when interpreted using 2012 guidelines (M100-S22). Among the forty nalidixic acid susceptible (NAS) Salmonellae, susceptibility to ciprofloxacin decreased from 37 isolates (M100-S21) to 12 isolates (M100-S22). The 25 cases which appeared resistant with newer guidelines had a minimum inhibitory concentration (MIC) range between 0.125 and 0.5 μg/ml. MIC50 for the third generation cephalosporins varied between 0.125 and 0.5 μg/ml over 6 years whereas MIC90 varied with a broader range of 0.19-1 μg/ml. The gap between NAR and ciprofloxacin-resistant strains identified using 2011 guidelines has been reduced; however, it remains to be seen whether additional NAS, ciprofloxacin-resistant isolates are truly resistant to ciprofloxacin by other mechanisms of resistance.

  3. Six-year susceptibility trends and effect of revised Clinical Laboratory Standards Institute breakpoints on ciprofloxacin susceptibility reporting in typhoidal Salmonellae in a tertiary care paediatric hospital in Northern India

    Directory of Open Access Journals (Sweden)

    R Saksena

    2016-01-01

    Full Text Available The antimicrobial trends over 6 years were studied, and the effect of revised Clinical Laboratory Standards Institute (CLSI breakpoints (2012 for ciprofloxacin susceptibility reporting in typhoidal Salmonellae was determined. A total of 874 (95.4% isolates were nalidixic acid-resistant (NAR. Using the CLSI 2011 guidelines (M100-S21, 585 (66.9% isolates were ciprofloxacin susceptible. The susceptibility reduced to 11 (1.25% isolates when interpreted using 2012 guidelines (M100-S22. Among the forty nalidixic acid susceptible (NAS Salmonellae, susceptibility to ciprofloxacin decreased from 37 isolates (M100-S21 to 12 isolates (M100-S22. The 25 cases which appeared resistant with newer guidelines had a minimum inhibitory concentration (MIC range between 0.125 and 0.5 μg/ml. MIC50 for the third generation cephalosporins varied between 0.125 and 0.5 μg/ml over 6 years whereas MIC90 varied with a broader range of 0.19–1 μg/ml. The gap between NAR and ciprofloxacin-resistant strains identified using 2011 guidelines has been reduced; however, it remains to be seen whether additional NAS, ciprofloxacin-resistant isolates are truly resistant to ciprofloxacin by other mechanisms of resistance.

  4. Demarkacija i obeležavanje V graničnog odseka državne granice između Srbije i Crne Gore i Republike Makedonije / Demarcation and denoting of the 5th section of the border between Serbia and Montenegro and Republic of Macedonia

    Directory of Open Access Journals (Sweden)

    Goran Prodanović

    2006-04-01

    Full Text Available U ovom radu govori se o demarkaciji i obeležavanju V graničnog odseka državne granice između Srbije i Crne Gore i Republike Makedonije. Posebno je naglašen tehnički deo, odnosno izvršenje terenskih geodetskih radova čiji su nosioci, sa srpskocrnogorske strane, bili pripadnici Vojnogeografskog instituta. / The topic of this text is demarcation and denoting of the 5 section of the border between Serbia and Montenegro and Republic of Macedonia (especially geodetic survey indispensable for these labors, -which members Joint Working Group of Serbia and Montenegro from Military Geographic Institute carried out.

  5. Hanford Site Development Plan

    Energy Technology Data Exchange (ETDEWEB)

    Rinne, C.A.; Curry, R.H.; Hagan, J.W.; Seiler, S.W.; Sommer, D.J. (Westinghouse Hanford Co., Richland, WA (USA)); Yancey, E.F. (Pacific Northwest Lab., Richland, WA (USA))

    1990-01-01

    The Hanford Site Development Plan (Site Development Plan) is intended to guide the short- and long-range development and use of the Hanford Site. All acquisition, development, and permanent facility use at the Hanford Site will conform to the approved plan. The Site Development Plan also serves as the base document for all subsequent studies that involve use of facilities at the Site. This revision is an update of a previous plan. The executive summary presents the highlights of the five major topics covered in the Site Development Plan: general site information, existing conditions, planning analysis, Master Plan, and Five-Year Plan. 56 refs., 67 figs., 31 tabs.

  6. SITE COMPREHENSIVE LISTING (CERCLIS) (Superfund) - NPL Sites

    Data.gov (United States)

    U.S. Environmental Protection Agency — National Priorities List (NPL) Sites - The Comprehensive Environmental Response, Compensation and Liability Information System (CERCLIS) (Superfund) Public Access...

  7. Superfund Site Information - Site Sampling Data

    Data.gov (United States)

    U.S. Environmental Protection Agency — This asset includes Superfund site-specific sampling information including location of samples, types of samples, and analytical chemistry characteristics of...

  8. Identification of Duchenne muscular dystrophy carrier by detecting junction fragments between the breakpoints of introns%连接片段在Duchenne型肌营养不良症携带者检测中的应用

    Institute of Scientific and Technical Information of China (English)

    钟敏; 潘速跃; 李伟

    2015-01-01

    目的:探讨连接片段在缺失型Duchenne型肌营养不良症(Duchenne muscular dystrophy, DMD)携带者检测中的应用价值。方法对1个DMD家系和1例DMD散发病例进行研究。DMD家系中以确诊的患者Ⅲ2和待查携带者Ⅱ3为研究对象;散发病例以患者Ⅱ1及其母亲Ⅰ2为研究对象。通过外显子检测确定家系中患者Ⅲ2第31~43外显子缺失,散发病例患者Ⅱ1第45~54外显子缺失。然后以PCR步移法在相应内含子设计引物定位断裂点的位点,最后在尽量靠近断裂连接点处设计1对引物直接对患者及其待查女性亲属进行连接片段的PCR扩增。结果对上述DMD家系中待查女性Ⅱ3的检测结果为PCR扩增出与患者Ⅲ2一致的阳性片段,诊断其为DMD携带者。对散发病例患者母亲Ⅰ2的检测结果为PCR反应阴性,而对照的患者Ⅱ1扩增出阳性结果,排除其母亲为DMD携带者。结论利用常规PCR技术直接检测缺失型DMD患者的女性亲属是否带有连接片段,可以同样达到进行携带者检测的目的。该方法有别于目前DMD携带者检测中所使用的各种定量分析方法。%Objective To investigate the value of the junction fragments between the breakpoints of introns in identifying deletional Duchenne muscular dystrophy (DMD) carriers. Methods A DMD family (including the index patient III2 and the suspected carrier II3) and a sporadic DMD case (including the patient II1 and his mother I2) were studied. The patient III2 of the DMD family was identified as having exons 31-43 deletion of the DMD gene, and the sporadic patient II1 had exons 45-54 deletion. A PCR-based genome-walking method was used to locate the breakpoints in the corresponding introns. The junction fragments of the patients and their female relatives waiting for a diagnosis were amplified by PCR with primers adjacent to the deletion junctions. Results PCR amplification yielded identical positive results for the

  9. Rapid and cost-effective polymorphism identification and genotyping using restriction site associated DNA (RAD) markers.

    Science.gov (United States)

    Miller, Michael R; Dunham, Joseph P; Amores, Angel; Cresko, William A; Johnson, Eric A

    2007-02-01

    Restriction site associated DNA (RAD) tags are a genome-wide representation of every site of a particular restriction enzyme by short DNA tags. Most organisms segregate large numbers of DNA sequence polymorphisms that disrupt restriction sites, which allows RAD tags to serve as genetic markers spread at a high density throughout the genome. Here, we demonstrate the applicability of RAD markers for both individual and bulk-segregant genotyping. First, we show that these markers can be identified and typed on pre-existing microarray formats. Second, we present a method that uses RAD marker DNA to rapidly produce a low-cost microarray genotyping resource that can be used to efficiently identify and type thousands of RAD markers. We demonstrate the utility of the former approach by using a tiling path array for the fruit fly to map a recombination breakpoint, and the latter approach by creating and using an enriched RAD marker array for the threespine stickleback. The high number of RAD markers enabled localization of a previously identified region, as well as a second region also associated with the lateral plate phenotype. Taken together, our results demonstrate that RAD markers, and the method to develop a RAD marker microarray resource, allow high-throughput, high-resolution genotyping in both model and nonmodel systems.

  10. Expression and identification of folate-sensitive fragile sites in British Suffolk sheep (Ovis aries)

    Indian Academy of Sciences (India)

    Ahmad Ali; Muhammad Abdullah; Masroor Ellahi Babar; Khalid Javed; Asif Nadeem

    2008-12-01

    An investigation to understand the dynamics and biological significance of fragile site expression, and identification of 5-fluorodeoxyuridine (FUdR) induced chromosomal gaps/breaks, were carried out in an experimental flock of 45 Suffolk sheep. The statistical comparison revealed, highly significant variation in the frequency of chromosomal fragile site expression between control and FUdR cultures. Mean (± S.D.) values for cells with gaps and breaks, or aberrant cell count (AC), and the number of aberrations (NoA) per animal were 2.02 ± 0.34, 2.42 ± 0.48, 13.26 ± 0.85 and 21.87 ± 1.88 ($P \\lt 0.01$) in control and FUdR cultures, respectively. The comparison of age revealed nonsignificant variation between control and FUdR cultures. The G-band analysis of fragile site data revealed gaps in 29 autosomal and two X-chromosomal bands in the control cultures, whereas FUdR treated cultures scored 78 unstable bands in autosomes of which 56 were significantly fragile. X-chromosomes expressed breaks and gaps in six G-negative bands and five of them (Xq13, Xq15, Xq17, Xq24 and Xq26) were significantly fragile. The distribution comparison of autosomal fragile sites between sex groups did not reveal any significant variation. Female X-chromosomes were significantly more fragile than the male X-chromosomes. The distribution comparison for age groups (lambs versus adults) revealed significantly higher number of fragile bands in adults. Comparison of published data on reciprocal translocations in sheep with the fragile-site data obtained in this study indicated that the break sites of both phenomena were correlated. Similarities were also found between fragile sites and breakpoints of evolutionary significance in family Bovidae.

  11. NPL Site Locations

    Data.gov (United States)

    U.S. Environmental Protection Agency — The National Priorities List (NPL) is a list published by EPA of Superfund sites. A site must be added to this list before remediation can begin under Superfund. The...

  12. NPL Site Boundaries

    Data.gov (United States)

    U.S. Environmental Protection Agency — The National Priorities List (NPL) is a list published by EPA of Superfund sites. A site must be added to this list before remediation can begin under Superfund. The...

  13. Site Area Boundaries

    Data.gov (United States)

    U.S. Environmental Protection Agency — This dataset consists of site boundaries from multiple Superfund sites in U.S. EPA Region 8. These data were acquired from multiple sources at different times and...

  14. Study on the Method for the Demarcation of Urban-rural Fringe based on Spatial Correlation Analysis of Land Use Dynamic Indicator%土地利用空间关联下城乡结合部边界界定方法研究

    Institute of Scientific and Technical Information of China (English)

    周浩; 雷国平; 张红梅; 苗智博

    2016-01-01

    The purpose of this paper is to propose and ascertain the spatial correlation theory of land use change in urban-rural fringe and to examine a new demarcation method based on partial spatial autocorrelation of land use change in urban-rural fringe supported by the land use information from 2005 TM images and 2015 OLI images. Methods applied include theoretical deduction, empirical analysis and comparative analysis. The results showed that from urban center to rural area, the spatial correlation of land use change showed the trend of aggregation of low to low firstly, and then correlation was not significant of the land use dynamic degree, but the partial area showed the trend of aggregation of low to high, high to low and high to high, and then gradually showed the low to low aggregation occurring from the inner edge to the outer edge of the urban-rural fringe. It validated the hypotheses on partial spatial autocorrelation of land use change in urban-rural fringe. Therefore, the delineation of urban-rural fringe boundary was feasible. The empirical analysis of demarcation method in Shenyang urban-rural fringe found that the inner edge of urban-rural fringe should locate between the Second Circuit Road and Third Circuit Road, the northern, western and southern outer edge mainly distributed in the outside of the Fourth Circuit Road, and the eastern outer edge mainly distributed between the Third Circuit Road and the Fourth Circuit Road, and the total area was 1234 km2. The paper concluded that the spatial correlation theory of land use change in urban-rural fringe was valid and it would provide a new view of the demarcation on urban-rural fringe.%研究目的:在沈阳市2005和2015年两期TM/OLI 数据支持下,提出并验证城乡结合部土地利用变化空间关联理论假设和界定城乡结合部边界的新方法。研究方法:理论假设和实证分析相结合。研究结果:(1)由城市核心区到外围乡村,土地利用变化先低

  15. Drupal 7 Multilingual Sites

    CERN Document Server

    Pol, Kristen

    2012-01-01

    A practical book with plenty of screenshots to guide you through the many features of multilingual Drupal. A demo ecommerce site is provided if you want to practice on a sample site, although you can apply the techniques learnt in the book directly to your site too. Any Drupal users who know the basics of building a Drupal site and are familiar with the Drupal UI, will benefit from this book. No previous knowledge of localization or internationalization is required.

  16. Comparison of the Sensititre YeastOne colorimetric antifungal panel with CLSI microdilution for antifungal susceptibility testing of the echinocandins against Candida spp., using new clinical breakpoints and epidemiological cutoff values.

    Science.gov (United States)

    Pfaller, M A; Chaturvedi, V; Diekema, D J; Ghannoum, M A; Holliday, N M; Killian, S B; Knapp, C C; Messer, S A; Miskou, A; Ramani, R

    2012-08-01

    A commercially prepared dried colorimetric microdilution panel (Sensititre Yeast One, TREK Diagnostic Systems, Cleveland, OH, USA) was compared in 3 different laboratories with the Clinical and Laboratory Standards Institute (CLSI) reference microdilution method by testing 2 quality control strains, 25 reproducibility strains, and 404 isolates of Candida spp. against anidulafungin, caspofungin, and micafungin. Reference CLSI BMD MIC end points and YeastOne colorimetric end points were read after 24 h of incubation. Excellent (100%) essential agreement (within 2 dilutions) between the reference and colorimetric MICs was observed. Categorical agreement (CA) between the 2 methods was assessed using the new species-specific clinical breakpoints (CBPs): susceptible (S), ≤0.25 μg/mL; intermediate (I), 0.5 μg/mL; and resistant (R), ≥1 μg/mL, for C. albicans, C. tropicalis, and C. krusei, and ≤2 μg/mL (S), 4 μg/mL (I), and ≥8 μg/mL (R) for C. parapsilosis and all 3 echinocandins. The new CBPs for anidulafungin and caspofungin and C. glabrata are ≤0.12 μg/mL (S), 0.25 μg/mL (I), and ≥0.5 μg/mL (R), whereas those for micafungin are ≤0.06 μg/mL (S), 0.12 μg/mL (I), and ≥0.25 μg/mL (R). Due to the lack of CBPs for any of the echinocandins and C. lusitaniae, the epidemiological cutoff values (ECVs) were used for this species to categorize the isolates as wild-type (WT; MIC ≤ECV) and non-WT (MIC >ECV), respectively, for anidulafungin (≤2 μg/mL/>2 μg/mL), caspofungin (≤1 μg/mL/>1 μg/mL), and micafungin (≤0.5 μg/mL/>0.5 μg/mL). CA ranged from 93.6% (caspofungin) to 99.6% (micafungin) with less than 1% very major or major errors. The YeastOne colorimetric method remains comparable to the CLSI BMD reference method for testing the susceptibility of Candida spp. to the echinocandins when using the new (lower) CBPs and ECVs. Further study using defined fks mutant strains of Candida is warranted.

  17. Echinocandin and triazole antifungal susceptibility profiles for clinical opportunistic yeast and mold isolates collected from 2010 to 2011: application of new CLSI clinical breakpoints and epidemiological cutoff values for characterization of geographic and temporal trends of antifungal resistance.

    Science.gov (United States)

    Pfaller, Michael A; Messer, Shawn A; Woosley, Leah N; Jones, Ronald N; Castanheira, Mariana

    2013-08-01

    The SENTRY Antimicrobial Surveillance Program monitors global susceptibility and resistance rates of newer and established antifungal agents. We report the echinocandin and triazole antifungal susceptibility patterns for 3,418 contemporary clinical isolates of yeasts and molds. The isolates were obtained from 98 laboratories in 34 countries during 2010 and 2011. Yeasts not presumptively identified by CHROMagar, the trehalose test, or growth at 42°C and all molds were sequence identified using internal transcribed spacer (ITS) and 28S (yeasts) or ITS, translation elongation factor (TEF), and 28S (molds) genes. Susceptibility testing was performed against 7 antifungals (anidulafungin, caspofungin, micafungin, fluconazole, itraconazole, posaconazole, and voriconazole) using CLSI methods. Rates of resistance to all agents were determined using the new CLSI clinical breakpoints and epidemiological cutoff value criteria, as appropriate. Sequencing of fks hot spots was performed for echinocandin non-wild-type (WT) strains. Isolates included 3,107 from 21 Candida spp., 146 from 9 Aspergillus spp., 84 from Cryptococcus neoformans, 40 from 23 other mold species, and 41 from 9 other yeast species. Among Candida spp., resistance to the echinocandins was low (0.0 to 1.7%). Candida albicans and Candida glabrata that were resistant to anidulafungin, caspofungin, or micafungin were shown to have fks mutations. Resistance to fluconazole was low among the isolates of C. albicans (0.4%), Candida tropicalis (1.3%), and Candida parapsilosis (2.1%); however, 8.8% of C. glabrata isolates were resistant to fluconazole. Among echinocandin-resistant C. glabrata isolates from 2011, 38% were fluconazole resistant. Voriconazole was active against all Candida spp. except C. glabrata (10.5% non-WT), whereas posaconazole showed decreased activity against C. albicans (4.4%) and Candida krusei (15.2% non-WT). All agents except for the echinocandins were active against C. neoformans, and the

  18. Olkiluoto site description 2011

    Energy Technology Data Exchange (ETDEWEB)

    NONE

    2012-12-15

    This fourth version of the Olkiluoto Site Report, produced by the OMTF (Olkiluoto Modelling Task Force), updates the Olkiluoto Site Report 2008 with the data and knowledge obtained up to December 2010. A descriptive model of the site (the Site Descriptive Model, SDM), i.e. a model describing the geological and hydrogeological structure of the site, properties of the bedrock and the groundwater and its flow, and the associated interacting processes and mechanisms. The SDM is divided into six parts: surface system, geology, rock mechanics, hydrogeology, hydrogeochemistry and transport properties.

  19. Site Environmental Report, 1993

    Energy Technology Data Exchange (ETDEWEB)

    1994-06-01

    The Site Environmental Report (SER) is prepared annually in accordance with DOE Order 5400.1, ``General Environmental Protection Program.`` This 1993 SER provides the general public as well as scientists and engineers with the results from the site`s ongoing Environmental Monitoring Program. Also included in this report is information concerning the site`s progress toward achieving full compliance with requirements set forth by DOE, US Environmental Protection Agency (USEPA), and Ohio EPA (OEPA). For some readers, the highlights provided in the Executive Summary may provide sufficient information. Many readers, however, may wish to read more detailed descriptions of the information than those which are presented here.

  20. Tomography finds waste sites

    Science.gov (United States)

    Bush, Susan M.

    Geophysical diffraction tomography (GDT), a remote sensing method, is being developed for hazardous waste site characterization by researchers at Oak Ridge National Laboratory, Tenn., with the support of the U.S. Army Toxic and Hazardous Materials Agency, Aberdeen Proving Ground, Md.More accurate assessment of hazardous sites translates into more efficient and less costly cleanup efforts by defining parameters such as waste site boundaries, geophysical site characteristics, buried container leakage, and hazardous material migration. Remote sensing devices eliminate the potential for environmental damage, safety hazards, or high costs associated with intrusive site characterization techniques.

  1. Site Development Planning Handbook

    Energy Technology Data Exchange (ETDEWEB)

    None

    1981-01-01

    The Handbook provides facility managers and site planners at DOE organizations responsible for planning site developments and facilities utilization a step-by-step planning checklist to ensure that planners at each site are focusing on Department-wide goals and objectives. It begins with a brief discussion of a site development-by-objectives program design to promote, recognize, and implement opportunities for improvements in site utilization through planning. Additional information is included on: assembling existing data, plans, programs, and procedures; establishing realistic objectives; identifying site problems, opportunities; and development needs; determining priorities among development needs; developing short and long-range plans; choosing the right development solutions and meeting minimum legal site restrictions; presenting the plan; implementing elements of the plan; monitoring and reporting plan status; and modifying development program plans. (MCW)

  2. 1999 Excavation on the Gejiazhuang Site in Xingtai City,Hebei%河北邢台市葛家庄遗址1999年发掘简报

    Institute of Scientific and Technical Information of China (English)

    河北省文物研究所; 吉林大学边疆考古研究中心; 邢台市文物管理处

    2005-01-01

    In the first half of 1999, the Hebei Provincial Institute of Cultural Relics and other institutions carried out a large-scale excavation in the east of the northern area of the Gejiazhuang site in Xingtai City. The work resulted in the revelation of a great number of ash-pits, cellars, sacrificial pits and tombs, as well as quantities of pottery, stone, bone, antler, shell and bronze objects and oracle bones and shells. The remains discovered can be divided into four phases with six stages: The first phase belongs to the late Longshan culture, and the second, third and fourth, to the pre-dynastic, middle and late Shang cultures respectively. The second and fourth fall into two stages either, but the richest in content is the third phase. The excavation has important academic value to studying the origin of the Shang people, the demarcation between the Xia and the Shang, and the chronology of the Shang's history.

  3. Hazardous waste sites

    Energy Technology Data Exchange (ETDEWEB)

    Hembra, R.L

    1989-01-01

    This report has found that while most states have accomplished few or no cleanups of sites contaminated by hazardous waste, some have enacted tough cleanup laws, committed relatively large resources to the cleanup effort, and achieved considerable results. At the 17 cleanup sites analyzed, state cleanup plans were generally stringent. However, no federal standards have been set for over half of the contaminants found at these sites. For 11 sites, the states set cleanup levels without doing formal risk assessments. Also, most states reviewed did not consider the full range of alternatives EPA requires. Most states have not shown that they can effectively clean up large, hazardous waste sites. This report recommends that EPA turn sites targeted for cleanup over to the states only if there are adequate controls and oversight.

  4. CELT site testing program

    Science.gov (United States)

    Schoeck, Matthias; Erasmus, D. Andre; Djorgovski, S. George; Chanan, Gary A.; Nelson, Jerry E.

    2003-01-01

    The California Extremely Large Telescope, CELT, is a proposed 30-m telescope. Choosing the best possible site for CELT is essential in order to extract the best science from the observations and to reduce the complexity of the telescope. Site selection is therefore currently one of the most critical pacing items of the CELT project. In this paper, we first present selected results from a survey of the atmospheric transparency at optical and infrared wavelengths over the southwestern USA and northern Mexico using satellite data. Results of a similar study of South America have been reported elsewhere. These studies will serve as the pre-selection criterion of the sites at which we will perform on-site testing. We then describe the current status of on-site turbulence evaluation efforts and the future plans of the CELT site testing program.

  5. Site environmental programs

    Energy Technology Data Exchange (ETDEWEB)

    Schmidt, J.W.; Hanf, R.W.

    1995-06-01

    This section of the 1994 Hanford Site Environmental Report summarizes the site environmental programs. Effluent monitoring and environmental surveillance programs monitor for impacts from operations in several areas. The first area consists of the point of possible release into the environment. The second area consists of possible contamination adjacent to DOE facilities, and the third area is the general environment both on and off the site.

  6. Region 9 Removal Sites

    Data.gov (United States)

    U.S. Environmental Protection Agency — Point geospatial dataset representing locations of CERCLA (Superfund) Removal sites. CERCLA (Comprehensive Environmental Response, Compensation, and Liability Act)...

  7. 1994 Site environmental report

    Energy Technology Data Exchange (ETDEWEB)

    NONE

    1995-07-01

    The Fernald site is a Department of Energy (DOE)-owned facility that produced high-quality uranium metals for military defense for nearly 40 years. DOE suspended production at the site in 1989 and formally ended production in 1991. Although production activities have ceased, the site continues to examine the air and liquid pathways as possible routes through which pollutants from past operations and current remedial activities may leave the site. The Site Environmental Report (SER) is prepared annually in accordance with DOE Order 5400.1, General Environmental Protection Program. This 1994 SER provides the general public as well as scientists and engineers with the results from the site`s ongoing Environmental Monitoring Program. Also included in this report is information concerning the site`s progress toward achieving full compliance with requirements set forth by DOE, U.S. Environmental Protection Agency (USEPA), and Ohio EPA (OEPA). For some readers, the highlights provided in this Executive Summary may provide sufficient information. Many readers, however, may wish to read more detailed descriptions of the information than those which are presented here. All information presented in this summary is discussed more fully in the main body of this report.

  8. SITE-94. Mineralogy of the Aespoe site

    Energy Technology Data Exchange (ETDEWEB)

    Andersson, Karin [Chalmers Univ. of Technology, Goeteborg (Sweden). Technical Environmental Planning

    1996-12-01

    The water composition has several impacts on the repository. It will influence the behaviour of the engineered materials (e.g. corrosion). It may also determine the possible solubility and speciation of released radionuclides. It also acts as a transport medium for the released elements. The groundwater composition and the potential development of the composition due to the presence of the repository as well as due to external variations is thus an important issue in a safety analysis. The development of the groundwater composition is strongly dependent on reactions with the minerals present in water bearing fractures. Here equilibrium chemistry may be of importance, but also reaction kinetics is important to the long-term behaviour. Within the SITE-94 project, a safety analysis is performed for the conditions at the Aespoe site. The mineralogy of the area has been evaluated from drill cores at various places at the site. In this report a recommendation for selection of mineralogy to be used in geochemical modelling of the repository is given. Calcite and iron containing minerals dominate the fracture filling mineralogy at the Aespoe site. Some typical fracture filling mineralogies may be identified in the fractures: epidote, chlorite, calcite, hematite, some illite/smectite + quartz, fluorite, pyrite and goethite. In addition to these a number of minor minerals are found in the fractures. Uncertainties in the fracture filling data may be due to problems when taking out the drill cores. Drilling water may remove important clay minerals and sealed fractures may be reopened mechanically and treated as water conducting fractures. The problem of determining the variability of the mineralogy along the flow paths also remains. This problem will never be solved when the investigation is performed by drilling investigation holes

  9. Preliminary Site Characterization Report, Rulsion Site, Colorado

    Energy Technology Data Exchange (ETDEWEB)

    NONE

    1996-08-01

    This report is a summary of environmental information gathered during a review of the documents pertaining to Project Rulison and interviews with personnel who worked on the project. Project Rulison was part of Operation Plowshare (a program designed to explore peaceful uses for nuclear devices). The project consisted of detonating a 43-kiloton nuclear device on September 10, 1969, in western Colorado to stimulate natural gas production. Following the detonation, a reentry well was drilled and several gas production tests were conducted. The reentry well was shut-in after the last gas production test and was held in standby condition until the general cleanup was undertaken in 1972. A final cleanup was conducted after the emplacement and testing wells were plugged in 1976. However, some surface radiologic contamination resulted from decontamination of the drilling equipment and fallout from the gas flaring during drilling operations. With the exception of the drilling effluent pond, all surface contamination at the Rulison Site was removed during the cleanup operations. All mudpits and other excavations were backfilled, and both upper and lower drilling pads were leveled and dressed. This report provides information regarding known or suspected areas of contamination, previous cleanup activities, analytical results, a review of the regulatory status, the site`s physical environment, and future recommendations for Project Ruhson. Based on this research, several potential areas of contamination have been identified. These include the drilling effluent pond and mudpits used during drilling operations. In addition, contamination could migrate in the gas horizon.

  10. Site characterization handbook

    Energy Technology Data Exchange (ETDEWEB)

    1988-06-01

    This Handbook discusses both management and technical elements that should be considered in developing a comprehensive site characterization program. Management elements typical of any project of a comparable magnitude and complexity are combined with a discussion of strategies specific to site characterization. Information specific to the technical elements involved in site characterization is based on guidance published by the Nuclear Regulatory Commission (NRC) with respect to licensing requirements for LLW disposal facilities. The objective of this Handbook is to provide a reference for both NRC Agreement States and non-Agreement States for use in developing a comprehensive site characterization program that meets the specific objectives of the State and/or site developer/licensee. Each site characterization program will vary depending on the objectives, licensing requirements, schedules/budgets, physical characteristics of the site, proposed facility design, and the specific concerns raised by government agencies and the public. Therefore, the Handbook is not a prescriptive guide to site characterization. 18 refs., 6 figs.

  11. The Greenland Ramsar Sites

    DEFF Research Database (Denmark)

    Egevang, C.; Boertmann, D.

    The eleven Ramsar sites in Greenland are reviewed in terms of their status as habitats for waterbirds and other fauna. Management and monitoring is proposed, as well as revisions of their boundaries. A number of potential new Ramsar sites are described...

  12. Site decommissioning management plan

    Energy Technology Data Exchange (ETDEWEB)

    Fauver, D.N.; Austin, J.H.; Johnson, T.C.; Weber, M.F.; Cardile, F.P.; Martin, D.E.; Caniano, R.J.; Kinneman, J.D.

    1993-10-01

    The Nuclear Regulatory Commission (NRC) staff has identified 48 sites contaminated with radioactive material that require special attention to ensure timely decommissioning. While none of these sites represent an immediate threat to public health and safety they have contamination that exceeds existing NRC criteria for unrestricted use. All of these sites require some degree of remediation, and several involve regulatory issues that must be addressed by the Commission before they can be released for unrestricted use and the applicable licenses terminated. This report contains the NRC staff`s strategy for addressing the technical, legal, and policy issues affecting the timely decommissioning of the 48 sites and describes the status of decommissioning activities at the sites.

  13. Comparison of the Vitek 2 yeast susceptibility system with CLSI microdilution for antifungal susceptibility testing of fluconazole and voriconazole against Candida spp., using new clinical breakpoints and epidemiological cutoff values.

    Science.gov (United States)

    Pfaller, Michael A; Diekema, Daniel J; Procop, Gary W; Rinaldi, Michael G

    2013-09-01

    A commercially available, fully automated yeast susceptibility test system (Vitek 2; bioMérieux, Marcy d'Etoile, France) was compared in 3 different laboratories with the Clinical and Laboratory Standards Institute (CLSI) reference microdilution (BMD) method by testing 2 quality control strains, 10 reproducibility strains, and 425 isolates of Candida spp. against fluconazole and voriconazole. Reference CLSI BMD MIC endpoints and Vitek 2 MIC endpoints were read after 24 hours and 9.1-27.1 hours incubation, respectively. Excellent essential agreement (within 2 dilutions) between the reference and Vitek 2 MICs was observed for fluconazole (97.9%) and voriconazole (96.7%). Categorical agreement (CA) between the 2 methods was assessed using the new species-specific clinical breakpoints (CBPs): susceptible (S) ≤2 μg/mL, susceptible dose-dependent (SDD) 4 μg/mL, and resistant (R) ≥8 μg/mL for fluconazole and Candida albicans, Candida tropicalis, and Candida parapsilosis and ≤32 μg/mL (SDD), ≥64 μg/mL (R) for Candida glabrata; S ≤0.12 μg/mL, SDD 0.25-0.5 μg/mL, R ≥1 μg/mL for voriconazole and C. albicans, C. tropicalis, and C. parapsilosis, and ≤0.5 μg/mL (S), 1 μg/mL (SDD), ≥2 μg/mL (R) for Candida krusei. The epidemiological cutoff value (ECV) of 0.5 μg/mL for voriconazole and C. glabrata was used to differentiate wild-type (WT; MIC ≤ ECV) from non-WT (MIC > ECV) strains of this species. Due to the lack of CBPs for the less common species, the ECVs for fluconazole and voriconazole, respectively, were used for Candida lusitaniae (2 μg/mL and 0.03 μg/mL), Candida dubliniensis (0.5 μg/mL and 0.03 μg/mL), Candida guilliermondii (8 μg/mL and 0.25 μg/mL), and Candida pelliculosa (4 μg/mL and 0.25 μg/mL) to categorize isolates of these species as WT and non-WT. CA between the 2 methods was 96.8% for fluconazole and 96.5% for voriconazole with less than 1% very major errors and 1.3-3.0% major errors. The Vitek 2 yeast susceptibility system

  14. Lunar Polar Landing Sites

    Science.gov (United States)

    Kamps, Oscar; Foing, Bernard H.; Flahaut, Jessica

    2016-07-01

    An important step for a scientific mission is to assess on where the mission should be conducted. This study on landing site selection focuses on a mission to the poles of the Moon where an in-situ mission should be conducted to answer the questions with respect to volatiles and ices. The European interest for a mission to the poles of the Moon is presented in the mission concept called Heracles. This mission would be a tele-operated, sample return mission where astronauts will controlling a rover from an Orion capsule in cislunar orbit. The primary selection of landing sites was based on the scientific interest of areas near the poles. The maximum temperature map from Diviner was used to select sites where CO^2¬ should always be stable. This means that the maximum temperature is lower than 54K which is the sublimation temperature for CO^2¬ in lunar atmospheric pressure. Around these areas 14 potential regions of interest were selected. Further selection was based on the epoch of the surface in these regions of interest. It was thought that it would be of high scientific value if sites are sampled which have another epoch than already sampled by one of the Apollo or Luna missions. Only 6 sites on both North as South Pole could contain stable CO^2 ¬and were older than (Pre-)Necterian. Before a landing site and rover traverse was planned these six sites were compared on their accessibility of the areas which could contain stable CO^2. It was assumed that slope lower than 20^o is doable to rove. Eventually Amundsen and Rozhdestvenskiy West were selected as regions of interest. Assumptions for selecting landing sites was that area should have a slope lower than 5^o, a diameter of 1km, in partial illuminated area, and should not be isolated but inside an area which is in previous steps marked as accessible area to rove. By using multiple tools in ArcGIS it is possible to present the area's which were marked as potential landing sites. The closest potential landing

  15. SITE-94. Radionuclide solubilities for SITE-94

    Energy Technology Data Exchange (ETDEWEB)

    Arthur, R.; Apted, M. [QuantiSci, Denver, CO (United States)

    1996-12-01

    In this report, solubility constraints are evaluated on radioelement source-term concentrations supporting the SITE-94 performance assessment. Solubility models are based on heterogeneous-equilibrium, mass- and charge-balance constraints incorporated into the EQ3/6 geochemical software package, which is used to calculate the aqueous speciation behavior and solubilities of U, Th, Pu, Np, Am, Ni, Ra, Se, Sn, Sr, Tc and Zr in site groundwaters and near-field solutions. The chemical evolution of the near field is approximated using EQ3/6 in terms of limiting conditions at equilibrium, or steady state, in three closed systems representing fully saturated bentonite, Fe{sup o} corrosion products of the canister, and spent fuel. The calculations consider both low-temperature (15 deg C) and high-temperature (80 deg C) conditions in the near field, and the existence of either reducing or strongly oxidizing conditions in each of the bentonite, canister, and spent-fuel barriers. Heterogeneities in site characteristics are evaluated through consideration of a range of initial groundwaters and their interactions with engineered barriers. Aqueous speciation models for many radioelements are constrained by thermodynamic data that are estimated with varying degrees of accuracy. An important question, however, is how accurate do these models need to be for purposes of estimating source-term concentrations? For example, it is unrealistic to expect a high degree of accuracy in speciation models if such models predict solubilities that are below the analytical detection limit for a given radioelement. From a practical standpoint, such models are irrelevant if calculated solubilities cannot be tested by direct comparison to experimental data. In the absence of models that are both accurate and relevant for conditions of interest, the detection limit could define a pragmatic upper limit on radioelement solubility 56 refs, 25 tabs, 10 figs

  16. Site Calibration report

    DEFF Research Database (Denmark)

    Gómez Arranz, Paula; Vesth, Allan

    This report describes the site calibration carried out at Østerild, during a given period. The site calibration was performed with two Windcube WLS7 (v1) lidars at ten measurements heights. The lidar is not a sensor approved by the current version of the IEC 61400-12-1 [1] and therefore the site...... calibration with lidars does not comply with the standard. However, the measurements are carried out following the guidelines of IEC 61400-12-1 where possible, but with some deviations presented in the following chapters....

  17. 中等质量恒星在赫罗图中由E-AGB星进入TP-AGB星的分界点%The Demarcation Point from E-AGB to TP-AGB in HR Diagram for Intermediate-mass Stars

    Institute of Scientific and Technical Information of China (English)

    洪雅芳; 蒋苏云

    2011-01-01

    通过对3~ 10M☉恒星在赫罗图上演化轨迹的研究,分析恒星内部氦壳层燃烧峰值处能量、密度、温度、氦壳层表面光度与恒星表面光度比及恒星半径的变化,给出了中等质量恒星由早期AGB星演化至热脉冲AGB星阶段在赫罗图上的分界点,与119颗碳星的观测结果吻合得相当好.同时提出:在恒星演化至该分界点之后,其星风物质损失公式可能需要引入一个与表面光度无关的量以主导超星风的形成.在此基础上,通过对考虑湍流压效应下5M☉恒星的结构和演化及星风物质损失率的分析,发现湍流压在热脉冲AGB星阶段对星风物质损失影响较大,从而使得热脉冲AGB星的湍流压不可忽略,进而提出了影响热脉冲AGB星星风物质损失的可能的物理因素.%Stars with the initial masses in the range of 3 < M/Mq < 10 have evolved from the main-sequence phase to the end of the asymptotic giant branch (AGB). The evolutionary tracks in the Hertzsprung-Russel diagram (HR diagram) are investigated. The temporal variations of the energy productive rate, density and temperature at the maximum of helium burning in the helium-shell, stellar radius, and the ratio of the luminosity at the upper border of helium-shell to that of the stellar surface are analyzed. The demarcation point from E-AGB to TP-AGB in HR diagram for the intermediate-mass stars are proposed. They are in excellent agreement with the millimetric observations of 119 carbonrich giants. In order to form continuous superwind, a mass-loss function, which is unaffected by the luminosity of stellar surface after the demarcation point, is possibly necessary.Based on the above ideas, turbulent pressure has been taken into account for the mass-loss, structure and evolution of stars with masses of 5 MQ. The effect of turbulent pressure cannot be overlooked in the TP-AGB phase, particularly for stellar mass-loss. Also, the possible physical factors influencing on

  18. Superfund Site Information

    Data.gov (United States)

    U.S. Environmental Protection Agency — This asset includes a number of individual data sets related to site-specific information for Superfund, which is governed under the Comprehensive Environmental...

  19. Measuring site occupancy

    DEFF Research Database (Denmark)

    Rogowska-Wrzesinska, Adelina; Wojdyla, Katarzyna; Williamson, James

    2014-01-01

    Site occupancy is an extremely important aspect of quantification of protein modifications. Knowing the degree of modification of each oxidised cysteine residue is critical to understanding the biological role of these modifications. Yet modification site occupancy is very often overlooked, in part...... occupancy of the modification site. We show that, on one hand, heavily modified cysteines are not necessarily involved in the response to oxidative stress. On the other hand residues with low modification level can be dramatically affected by mild oxidative imbalance. We make use of high resolution mass...... peptides corresponding to 90 proteins. Only 6 modified peptides changed significantly under mild oxidative stress. Quantitative information allowed us to determine relative modification site occupancy of each identified modified residue and pin point heavily modified ones. The method proved to be precise...

  20. Jet Car Track Site

    Data.gov (United States)

    Federal Laboratory Consortium — Located in Lakehurst, New Jersey, the Jet Car Track Site supports jet cars with J57 engines and has a maximum jet car thrust of 42,000 pounds with a maximum speed of...

  1. Programming for SITE.

    Science.gov (United States)

    Mody, Bella

    1979-01-01

    Describes the Satellite Instructional Television Experiment (SITE) project in India during 1975-76, including programing patterns, formats, and audiences. Demonstrates that countries like India have the technical and managerial capability to design, operate, and maintain advanced communication technology. (JMF)

  2. Coal mine site reclamation

    Energy Technology Data Exchange (ETDEWEB)

    NONE

    2013-02-15

    Coal mine sites can have significant effects on local environments. In addition to the physical disruption of land forms and ecosystems, mining can also leave behind a legacy of secondary detrimental effects due to leaching of acid and trace elements from discarded materials. This report looks at the remediation of both deep mine and opencast mine sites, covering reclamation methods, back-filling issues, drainage and restoration. Examples of national variations in the applicable legislation and in the definition of rehabilitation are compared. Ultimately, mine site rehabilitation should return sites to conditions where land forms, soils, hydrology, and flora and fauna are self-sustaining and compatible with surrounding land uses. Case studies are given to show what can be achieved and how some landscapes can actually be improved as a result of mining activity.

  3. Demarcation of coastal vulnerability line along the Indian coast

    Digital Repository Service at National Institute of Oceanography (India)

    Ajai; Baba, M.; Unnikrishnan, A.S.; Rajawat, A.S.; Bhattacharya, S.; Ratheesh, R.; Kurian, N.P.; Hameed, S.; Sundar, D.

    been considered. Changes along the shoreline are considered as net impact of dynamic coastal processes and are mapped using multidate satellite data. Vulnerability due to coastal erosion has been assessed based on rate of coastal erosion. Coastal...

  4. Estimating Absolute Site Effects

    Energy Technology Data Exchange (ETDEWEB)

    Malagnini, L; Mayeda, K M; Akinci, A; Bragato, P L

    2004-07-15

    The authors use previously determined direct-wave attenuation functions as well as stable, coda-derived source excitation spectra to isolate the absolute S-wave site effect for the horizontal and vertical components of weak ground motion. They used selected stations in the seismic network of the eastern Alps, and find the following: (1) all ''hard rock'' sites exhibited deamplification phenomena due to absorption at frequencies ranging between 0.5 and 12 Hz (the available bandwidth), on both the horizontal and vertical components; (2) ''hard rock'' site transfer functions showed large variability at high-frequency; (3) vertical-motion site transfer functions show strong frequency-dependence, and (4) H/V spectral ratios do not reproduce the characteristics of the true horizontal site transfer functions; (5) traditional, relative site terms obtained by using reference ''rock sites'' can be misleading in inferring the behaviors of true site transfer functions, since most rock sites have non-flat responses due to shallow heterogeneities resulting from varying degrees of weathering. They also use their stable source spectra to estimate total radiated seismic energy and compare against previous results. they find that the earthquakes in this region exhibit non-constant dynamic stress drop scaling which gives further support for a fundamental difference in rupture dynamics between small and large earthquakes. To correct the vertical and horizontal S-wave spectra for attenuation, they used detailed regional attenuation functions derived by Malagnini et al. (2002) who determined frequency-dependent geometrical spreading and Q for the region. These corrections account for the gross path effects (i.e., all distance-dependent effects), although the source and site effects are still present in the distance-corrected spectra. The main goal of this study is to isolate the absolute site effect (as a function of frequency

  5. Site clearance working group

    Energy Technology Data Exchange (ETDEWEB)

    NONE

    1997-03-01

    The Gulf of Mexico and Louisiana continue to be areas with a high level of facility removal, and the pace of removal is projected to increase. Regulations were promulgated for the Gulf of Mexico and Louisiana requiring that abandoned sites be cleared of debris that could interfere with fishing and shrimping activities. The site clearance regulations also required verification that the sites were clear. Additionally, government programs were established to compensate fishermen for losses associated with snagging their equipment on oil and gas related objects that remained on the water bottoms in areas other than active producing sites and sites that had been verified as clear of obstructions and snags. The oil and gas industry funds the compensation programs. This paper reviews the regulations and evolving operating practices in the Gulf of Mexico and Louisiana where site clearance and fisherman`s gear compensation regulations have been in place for a number of years. Although regulations and guidelines may be in place elsewhere in the world, this paper focuses on the Gulf of Mexico and Louisiana. Workshop participants are encouraged to bring up international issues during the course of the workshop. Additionally, this paper raises questions and focuses on issues that are of concern to the various Gulf of Mexico and Louisiana water surface and water bottom stakeholders. This paper does not have answers to the questions or issues. During the workshop participants will debate the questions and issues in an attempt to develop consensus opinions and/or make suggestions that can be provided to the appropriate organizations, both private and government, for possible future research or policy adjustments. Site clearance and facility removal are different activities. Facility removal deals with removal of the structures used to produce oil and gas including platforms, wells, casing, piles, pipelines, well protection structures, etc.

  6. Region 9 NPL Sites (Superfund Sites 2013) Polygons

    Data.gov (United States)

    U.S. Environmental Protection Agency — NPL site POLYGON locations for the US EPA Region 9. NPL (National Priorities List) sites are hazardous waste sites that are eligible for extensive long-term cleanup...

  7. Superfund and Toxic Release Inventory Sites - MDC_ContaminatedSite

    Data.gov (United States)

    NSGIC GIS Inventory (aka Ramona) — A point feature class of open DERM Contaminated sites - see phase code for status of site. Contaminated sites identifies properties where environmental contamination...

  8. CLSI三代头孢菌素新旧折点对判定肺炎克雷伯菌药物敏感性及产ESBLs菌株分布的影响%Antimicrobial susceptibility interpretation and distribution of extended-spectrum β-lactamases producers in Klebsiella pneumonia isolates according to CLSI 2009 and 2010 breakpoints of cefotaxime and cefiazidime

    Institute of Scientific and Technical Information of China (English)

    许伟伟; 江洋; 熊自忠; 沈继录

    2012-01-01

    Objective To evaluate the influences of CLSI 2009 (S19) and 2010 (S20) breakpoints of cefotaxime (CTX) and cefiazidime (CAZ) on the antimicrobial susceptibility interpretation and distribution of extended-spectrum β-lactamases (ESBLs) producers in Klebsiella pneumonia isolates. Method Fifty K. Pneumonia isolates were collected from the First Affiliated Hospital of Anhui Medical University in 2008. Antimicrobial susceptibility of those isolates were tested by disk diffusion method, and ESBLs producers were confirmed by the CLSI phenotypic confirmatory test. Susceptibility of K. Pneumonia to CTX and CAZ as well as the distribution of ESBLs producers were analyzed according to the breakpoints of the S19 and S20, respectively. The modified three-dimensional extract test was used to detect the ESBLs-negative isolates with resistance to CTX and/or CAZ. Result According to the S19, the resistance rate to CTX and CAZ was 54.0% and 30.0% , respectively, while to the S20, the resistance rate was 68% and 42% , respectively. ESBLs producers were detected in 64.0% (32/50) of K. Pneumonia. According to S19/S20 breakpoints, the distribution of ESBLs producers in CTX or CAZ resistant isolates was 81.3%/100.0% and 43. 8%/62. 5% , respectively. In ESBLs-negative producers, two were resistant to CTX and/or CAZ. One produced AmpC enzyme and ESBLs, the other only produced AmpC enzyme. Conclusion The resistance rate of CTX and CAZ increases according to new breakpoints (S20), and the consistency of the drug resistance and ESBLs phenotype is improved. Detection rate of ESBLs producers is influenced by AmpC-producing capability of those isolates.%目的 了解CLSI 2010(S20)及2009 (S19)头孢他啶(CAZ)、头孢噻肟(CTX)新旧折点变化对本地区肺炎克雷伯菌药物敏感性及产超广谱β-内酰胺酶(ESBLs)菌株分布的影响.方法 收集安徽医科大学第一附属医院临床分离的50株肺炎克雷伯菌;纸片扩散法测定菌株对CTX及CAZ的敏感性,CLSI

  9. YUCCA MOUNTAIN SITE DESCRIPTION

    Energy Technology Data Exchange (ETDEWEB)

    A.M. Simmons

    2004-04-16

    The ''Yucca Mountain Site Description'' summarizes, in a single document, the current state of knowledge and understanding of the natural system at Yucca Mountain. It describes the geology; geochemistry; past, present, and projected future climate; regional hydrologic system; and flow and transport within the unsaturated and saturated zones at the site. In addition, it discusses factors affecting radionuclide transport, the effect of thermal loading on the natural system, and tectonic hazards. The ''Yucca Mountain Site Description'' is broad in nature. It summarizes investigations carried out as part of the Yucca Mountain Project since 1988, but it also includes work done at the site in earlier years, as well as studies performed by others. The document has been prepared under the Office of Civilian Radioactive Waste Management quality assurance program for the Yucca Mountain Project. Yucca Mountain is located in Nye County in southern Nevada. The site lies in the north-central part of the Basin and Range physiographic province, within the northernmost subprovince commonly referred to as the Great Basin. The basin and range physiography reflects the extensional tectonic regime that has affected the region during the middle and late Cenozoic Era. Yucca Mountain was initially selected for characterization, in part, because of its thick unsaturated zone, its arid to semiarid climate, and the existence of a rock type that would support excavation of stable openings. In 1987, the United States Congress directed that Yucca Mountain be the only site characterized to evaluate its suitability for development of a geologic repository for high-level radioactive waste and spent nuclear fuel.

  10. Hydroelectric generating site signage

    Energy Technology Data Exchange (ETDEWEB)

    Bentley, K. [British Columbia Hydro, Vancouver, BC (Canada)

    1997-04-01

    Recreational sites have been developed at several BC Hydro reservoirs. These sites are visited by approximately 800,000 people annually and therefore, require consistent control measures to ensure public safety and to restrict public access to hazardous areas. BC Hydro is in the process of establishing a province-wide standard in which layout, colour, description of hazards, BC Hydro identity and sign placement would follow an established set of criteria. Proposed signs would consist of a pictograph and a printed warning below. Preliminary designs for 16 of the signs were presented. 16 figs.

  11. CLSI头孢菌素新、旧药敏折点对产ESBLs菌药物敏感性结果评估%Evaluation and Analysis of Drug Sensitivity of ESBLs Producing Strains According to the New and Old Cephalosporin Breakpoints in CISI

    Institute of Scientific and Technical Information of China (English)

    黄秋兰; 候慧丽; 范德平; 沈钰萍

    2013-01-01

    目的 探讨CLSI头孢菌素新、旧药敏折点对超广谱β-内酰胺酶(ESBLs)菌药物敏感性及菌株分布的影响并了解耐药基因.方法 收集本院临床分离的300株菌,纸片扩散法测定菌株对头孢他啶(CAZ)、头孢噻肟(CTX)的敏感性,CLSI表型确证试验确定产ESBLs菌株,根据药物敏感性结果对产ESBLs菌和非产ESBLs菌在S19和S20新旧折点下CAZ、CTX的敏感性以及ESBLs阳性菌株分布率进行分析,并采用聚合酶链式反应(PCR)检测分析耐药基因.结果 本组菌株中产ESBLs菌株61株,包括大肠埃希菌32株和肺炎克雷伯菌26株、产酸克雷伯菌1株、奇异变形杆菌2株;旧折点下CAZ、CTX耐药率分别为39.3%、50.8%,新折点下耐药率分别为68.9%、98.4%;旧折点下分别有34.8%、44.3%的产ESBLs菌株分布在CAZ、CTX耐药菌株中,新折点下则升高至46.0%、59.4%;产ESBLs菌株以TEM型耐药基因为主.结论 根据CLSI新折点S20判读对CAZ、CTX的耐药率较S19有所增高,并且药敏结果与产ESBLs菌株具有高度一致性,且产ESBLs菌株以TEM型耐药基因为主.%Objective To explore the influence of the new and old cephalosporin breakpoints in Clinical and Laboratory Standards Institute (CLSI) on the drug sensitivity and strain distribution of extended spectrum β - lactamases (ESBLs) producing strains and to investigate their resistance genes. Methods Totally, 300 cases of strains from clinical isolates in Nanxiang Hospital of Jiading District, Shanghai, were collected. The sensitivity of the strains to ceftazidime (CAZ) and cefotaxime (CTX) was detected by disk diffusion method. The ESBLs producing strains were determined by CLSI phenotypic confirmatory test. The sensitivity of ESBLs - positive and ESBLs - negative isolates to CAZ and CTX and the distribution of ESBLs producers in the resistant isolates were analyzed according to the new and old breakpoints (S20 and S19). The resistance genes were detected by

  12. Region 9 NPL Sites - 2014

    Data.gov (United States)

    U.S. Environmental Protection Agency — NPL site point locations for the US EPA Region 9. NPL (National Priorities List) sites are hazardous waste sites that are eligible for extensive long-term cleanup...

  13. 2014 Site Environmental Report

    Energy Technology Data Exchange (ETDEWEB)

    Paquette, Douglas [Brookhaven National Lab. (BNL), Upton, NY (United States); Remien, Jason [Brookhaven National Lab. (BNL), Upton, NY (United States); Foley, Brian [Brookhaven National Lab. (BNL), Upton, NY (United States); Burke, John [Brookhaven National Lab. (BNL), Upton, NY (United States); Dorsch, William [Brookhaven National Lab. (BNL), Upton, NY (United States); Ratel, Karen [Brookhaven National Lab. (BNL), Upton, NY (United States); Howe, Robert [Brookhaven National Lab. (BNL), Upton, NY (United States); Welty, Tim [Brookhaven National Lab. (BNL), Upton, NY (United States); Williams, Jeffrey [Brookhaven National Lab. (BNL), Upton, NY (United States); Pohlpt, Peter [Brookhaven National Lab. (BNL), Upton, NY (United States); Lagattolla, Richard [Brookhaven National Lab. (BNL), Upton, NY (United States); Metz, Robert [Brookhaven National Lab. (BNL), Upton, NY (United States); Milligan, James [Brookhaven National Lab. (BNL), Upton, NY (United States); Lettieri, Lawrence [Brookhaven National Lab. (BNL), Upton, NY (United States)

    2015-10-01

    BNL prepares an annual Site Environmental Report (SER) in accordance with DOE Order 231.1B, Environment, Safety and Health Reporting. The report is written to inform the public, regulators, employees, and other stakeholders of the Laboratory’s environmental performance during the calendar year in review.

  14. Visit our Site

    NARCIS (Netherlands)

    Jos de Haan; Renée Mast; Marleen Varekamp; Susanne Janssen

    2006-01-01

    Original title: Bezoek onze site. More and more cultural organisations are digitising content and making this cultural treasure chest available to a wider public via the Internet. International comparison shows that the Netherlands is one of the leaders in this regard. This report summarises the ma

  15. Sites and Enactments

    DEFF Research Database (Denmark)

    Korsgaard, Steffen; Neergaard, Helle

    2010-01-01

    This paper develops a framework for researching entrepreneurial opportunities. We argue that these can best be understood as dynamic and fluid effects of entrepreneurial processes that are enacted differently across different sites. On this basis we develop a framework for studying entrepreneuria...

  16. Sites and Enactments

    DEFF Research Database (Denmark)

    Korsgaard, Steffen T.; Neergaard, Helle

    2008-01-01

    is formulated where opportunities are seen as dynamic in the sense that they are enacted in different social practices at different sites. The method is illustrated through an analysis of the birth of The Republic of Tea, a very successful tea company, as presented in the book "The Republic of Tea"....

  17. Site-Specific Innovation

    DEFF Research Database (Denmark)

    Reeh, Henrik; Hemmersam, Peter

    2015-01-01

    , but also places for emerging lifestyles and cultural processes. In this transformation process, harbours provide arenas for a new urban dynamics, involving multiple sectors and functions in society, as opposed to the monoculturalism prevailing in the ages of the industrial city. To us, the critical...... question is how innovation may contribute to urban life and site-specific qualities....

  18. Power plant siting

    Energy Technology Data Exchange (ETDEWEB)

    Winter, J.V.; Conner, D.A.

    1978-01-01

    Just to keep up with expected demand, the US will need over 500 new power generation units by 1985. Where these power plants will be located is the subject of heated debate among utility officials, government leaders, conservationists, concerned citizens and a multitude of special interest groups. This book offers a balanced review of all of the salient factors that must be taken into consideration in selecting power plant locations. To deal with this enormously complex subject, the authors (1) offer a general overview of the history and reasoning behind present legislation on the state and national levels; (2) describe the many different agencies that have jurisdiction in power plant location, from local water authorities and city councils to state conservation boards and the Nuclear Regulatory Commission; and (3) include a state-by-state breakdown of siting laws, regulations and present licensing procedures. Architects, engineers, contractors, and others involved in plant construction and site evaluation will learn of the trade-offs that must be made in balancing the engineering, economic, and environmental impacts of plant location. The book covers such areas as availability of water supplies for generation or cooling; geology, typography, and demography of the proposed site; and even the selection of the fuel best suited for the area. Finally, the authors examine the numerous environmental aspects of power plant siting.

  19. Small Wind Site Assessment Guidelines

    Energy Technology Data Exchange (ETDEWEB)

    Olsen, Tim [Advanced Energy Systems LLC, Eugene, OR (United States); Preus, Robert [National Renewable Energy Lab. (NREL), Golden, CO (United States)

    2015-09-01

    Site assessment for small wind energy systems is one of the key factors in the successful installation, operation, and performance of a small wind turbine. A proper site assessment is a difficult process that includes wind resource assessment and the evaluation of site characteristics. These guidelines address many of the relevant parts of a site assessment with an emphasis on wind resource assessment, using methods other than on-site data collection and creating a small wind site assessment report.

  20. Studies on the use of SIR-C and X-SAR data for identification, demarcation, and assessment of forest ecosystems. Final report; Untersuchungen zum Einsatz von SIR-C und X-SAR Daten fuer die Identifizierung, Abgrenzung und Beurteilung von Waldoekosystemen. Abschlussbericht

    Energy Technology Data Exchange (ETDEWEB)

    Johlige, A.; Foerster, B.; Ammer, U.

    1997-12-31

    The purpose of the present evaluation was to use SIR-C and X-SAR data for forest surveying and assess their suitability for this task. Amongst other work this included the discrimination of forest and non-forest, demarcation of cleared areas within forests, discrimination of different forest types, and assessment of the influence of foliation. The chief steps of the study were the preparation of radar data, accompanying aerial photo evaluation for the extraction of training and verification areas, and detailed signature analysis. Evaluation trials in ``Oberpfaffenhofen`` supertest area yielded unsatisfactory results when it came to discriminating different forest ecosystems. This can be attributed to the very heterogeneous and small-scale structure of the area and the absence of topographically coded X, C, and L band data. In the second study area, located in the ``Bavarian Forest National Park``, geocoded data of all three bands were available in the form of combined products. This permitted using the mask of the local angles of incidence to reduce the influence of relief. In this case distinguishability within wooded regions was also enhanced. A general finding was that ground resolution as it presents to the user is clearly poorer than the nominal resolution. What impressed us most was the high degree of weather-independence of the radar data. All data handled in this study were recorded under conditions that would have made photography impossible. (orig.) [Deutsch] Ziel der Auswertung ist es SIR-C/X-SAR Daten fuer die Waldbeobachtung einzusetzen und ihre Eignung dafuer zu bewerten. Zu loesende Teilaufgaben waren u.a. die Wald-Nichtwaldtrennung, die Abtrennung unbestockter Flaechen im Wald, Unterscheidung verschiedener Waldtypen selbst und die Beurteilung des Einflusses des Belaubungszustndes. Die zentralen Arbeitsschritte waren die Aufbereitung der Radardaten, die begleitende Luftbildauswertung zur Extraktion von Trainings- und Verifizierungsgebieten und die

  1. The Federation of Indian Organizations of the Negro River’s journey for traditional land demarcation in Brazil La jornada de la Federación de Organizaciones Indígenas del Río Negro para la demarcación de las tierras tradicionales en Brasil

    Directory of Open Access Journals (Sweden)

    Fernanda Martinez de Oliveira

    2011-07-01

    Full Text Available The article aims to present the fight for government recognition of indigenous collective rights to land ownership in the Upper Rio Negro region in Brazil. It contextualizes the historical aspects of the colonization process in the region and the efforts to create the  Federation of Indian Organizations of the Negro River (FOIRN. Focus of particular interest is how the organizational strategy adopted by the FOIRN has allowed the Indian population of the Upper Rio Negro to active participate in the land demarcation process, with their opinions heard and respected. The article was written with basis on information obtained from a variety of sources, such as documents, conversations and interviews with the main social actors involved in the area, carried out during a field visit to São Gabriel da Cachoeira in January 2010.

     

    El artículo tiene como objetivo presentar la lucha por el reconocimiento gubernamental de los derechos colectivos indígenas de la propiedad de la tierra en la región del Alto Río Negro en Brasil. Se contextualizan los aspectos históricos del proceso de colonización de la región y los esfuerzos para crear la Federación de Organizaciones Indígenas del Río Negro (FOIRN. El foco de interés particular es cómo la estrategia de organización adoptada por la FOIRN ha permitido a la población indígena del Alto Río Negro participar activamente en el proceso de demarcación de tierras, escuchando y respetando sus opiniones. El artículo fue escrito con base en informaciones obtenidas de diversas fuentes, tales como documentos, conversaciones y entrevistas con los principales actores sociales involucrados en el área, llevadas a cabo durante una visita a São Gabriel da Cachoeira, en enero de 2010.

     

     

  2. Site-directed mutagenesis.

    Science.gov (United States)

    Bachman, Julia

    2013-01-01

    Site-directed mutagenesis is a PCR-based method to mutate specified nucleotides of a sequence within a plasmid vector. This technique allows one to study the relative importance of a particular amino acid for protein structure and function. Typical mutations are designed to disrupt or map protein-protein interactions, mimic or block posttranslational modifications, or to silence enzymatic activity. Alternatively, noncoding changes are often used to generate rescue constructs that are resistant to knockdown via RNAi.

  3. PhosphoSiteAnalyzer

    DEFF Research Database (Denmark)

    Bennetzen, Martin V; Cox, Jürgen; Mann, Matthias

    2012-01-01

    an algorithm to retrieve kinase predictions from the public NetworKIN webpage in a semiautomated way and applies hereafter advanced statistics to facilitate a user-tailored in-depth analysis of the phosphoproteomic data sets. The interface of the software provides a high degree of analytical flexibility...... and is designed to be intuitive for most users. PhosphoSiteAnalyzer is a freeware program available at http://phosphosite.sourceforge.net ....

  4. 1999 SITE ENVIRONMENTAL REPORT

    Energy Technology Data Exchange (ETDEWEB)

    ENGEL-COX,J.; ZIMMERMAN,E.; LEE,R.; WILLIAMS,J.; GREEN,T.; PAQUETTE,D.; HOODA,B.; SCARPITTA,S.; GENZER,P.; ET AL

    2000-09-01

    Throughout the scientific community, Brookhaven National Laboratory (BNL) is renowned for its leading-edge research in physics, medicine, chemistry, biology, materials, and the environment. BNL is committed to supporting its world-class scientific research with an internationally recognized environmental protection program. The 1999 Site Environmental Report (SER) summarizes the status of the Laboratory's environmental programs and performance, including the steady progress towards cleaning up the site and fully integrating environmental stewardship into all facets of the Laboratory's mission. BNL is located on 5,265 acres of pine barrens in Suffolk County in the center of Long Island, New York. The Laboratory is situated above a sole source aquifer at the headwaters of the Peconic River; therefore, protecting ground and surface water quality is a special concern. Approximately 3,600 acres of the site are undeveloped and serve as habitat for a wide variety of animals and plants, including one New York State endangered species, the tiger salamander, and two New York State threatened species, the banded sunfish and the stiff goldenrod. Monitoring, preserving, and restoring these ecological resources is a high priority for the Laboratory.

  5. ZFN-Site searches genomes for zinc finger nuclease target sites and off-target sites

    Directory of Open Access Journals (Sweden)

    Iseli Christian

    2011-05-01

    Full Text Available Abstract Background Zinc Finger Nucleases (ZFNs are man-made restriction enzymes useful for manipulating genomes by cleaving target DNA sequences. ZFNs allow therapeutic gene correction or creation of genetically modified model organisms. ZFN specificity is not absolute; therefore, it is essential to select ZFN target sites without similar genomic off-target sites. It is important to assay for off-target cleavage events at sites similar to the target sequence. Results ZFN-Site is a web interface that searches multiple genomes for ZFN off-target sites. Queries can be based on the target sequence or can be expanded using degenerate specificity to account for known ZFN binding preferences. ZFN off-target sites are outputted with links to genome browsers, facilitating off-target cleavage site screening. We verified ZFN-Site using previously published ZFN half-sites and located their target sites and their previously described off-target sites. While we have tailored this tool to ZFNs, ZFN-Site can also be used to find potential off-target sites for other nucleases, such as TALE nucleases. Conclusions ZFN-Site facilitates genome searches for possible ZFN cleavage sites based on user-defined stringency limits. ZFN-Site is an improvement over other methods because the FetchGWI search engine uses an indexed search of genome sequences for all ZFN target sites and possible off-target sites matching the half-sites and stringency limits. Therefore, ZFN-Site does not miss potential off-target sites.

  6. 1994 Site Environmental Report

    Energy Technology Data Exchange (ETDEWEB)

    NONE

    1995-05-01

    The 1994 Site Environmental Report summarizes environmental activities at Lawrence Berkeley Laboratory (LBL) for the calendar year (CY) 1994. The report strives to present environmental data in a manner that characterizes the performance and compliance status of the Laboratory`s environmental management programs when measured against regulatory standards and DOE requirements. The report also discusses significant highlight and planning efforts of these programs. The format and content of the report are consistent with the requirements of the US Department of Energy (DOE) Order 5400.1, General Environmental Protection Program.

  7. Windows Azure web sites

    CERN Document Server

    Chambers, James

    2013-01-01

    A no-nonsense guide to maintaining websites in Windows Azure If you're looking for a straightforward, practical guide to get Azure websites up and running, then this is the book for you. This to-the-point guide provides you with the tools you need to move and maintain a website in the cloud. You'll discover the features that most affect developers and learn how they can be leveraged to work to your advantage. Accompanying projects enhance your learning experience and help you to walk away with a thorough understanding of Azure's supported technologies, site deployment, and manageme

  8. 2003 SITE ENVIRONMENTAL REPORT

    Energy Technology Data Exchange (ETDEWEB)

    ENVIRONMENT AND WASTE MANAGMENT SERVICES DIVISION; ET AL.

    2004-10-01

    Each year, Brookhaven National Laboratory (BNL), a multi-program national laboratory, prepares an annual Site Environmental Report (SER) in accordance with Order 231.1A, Environment, Safety and Health Reporting, of the U.S. Department of Energy (DOE). The SER is written to inform outside regulators, the public, and Laboratory employees of BNL's environmental performance during the calendar year in review, and to summarize BNL's on-site environmental data; environmental management performance; compliance with applicable DOE, Environmental Protection Agency (EPA), state, and local regulations; and environmental, restoration, and surveillance monitoring programs. BNL has prepared annual SERs since 1971 and has documented nearly all of its environmental history since the Laboratory's inception in 1947. This report is intended to be a technical document. It is available in print and as a downloadable file on the BNL web page at http://www.bnl.ser.htm. A summary of the SER is also prepared each year to provide a general overview, and is distributed with a CD version of the full-length SER. The summary supports BNL's educational and community outreach program.

  9. Multi-Sited Resilience

    DEFF Research Database (Denmark)

    Olwig, Mette Fog

    2012-01-01

    Participatory methods to build local resilience often involve the organization of local community groups. When global organizations use such methods, it reflects a desire to incorporate local agency. They thereby acknowledge the ability of a society to be innovative and adapt when faced with natu......Participatory methods to build local resilience often involve the organization of local community groups. When global organizations use such methods, it reflects a desire to incorporate local agency. They thereby acknowledge the ability of a society to be innovative and adapt when faced...... with natural disasters and climate change. In a globalized world, however, it is hard to discern what is “local” as global organizations play an increasingly visible and powerful role. This paper will argue that local understandings and practices of resilience cannot be disentangled from global understandings...... flooding in northern Ghana, this paper examines the mutual construction of “local” and “global” notions and practices of resilience through multi-sited processes. It is based on interviews and participant observation in multiple sites at the “local,” “regional” and “global” levels....

  10. 1996 Site environmental report

    Energy Technology Data Exchange (ETDEWEB)

    NONE

    1997-06-01

    The FEMP is a Department of Energy (DOE)-owned facility that produced high-quality uranium metals for military defense for nearly 40 years. DOE suspended production at the FEMP in 1989 and formally ended production in 1991. Although production activities have ceased, the site continues to examine the air and liquid pathways as possible routes through which pollutants from past operations and current remedial activities may leave the FEMP. The Site Environmental Report (SER) is prepared annually in accordance with DOE Order 5400.1, General Environmental Protection Program. This 1996 SER provides the general public as well as scientists and engineers with the results from the ongoing Environmental Monitoring Program. Also included in this report is information concerning the FEMP progress toward achieving full compliance with requirements set forth by DOE, U.S. Environmental Protection Agency (EPA), and Ohio EPA (OEPA). For some readers, the highlights provided in this Executive Summary may provide sufficient information. Many readers, however, may wish are presented here. All information presented in this summary is discussed more fully in the main body of this report.

  11. AMF 1 Site Science

    Energy Technology Data Exchange (ETDEWEB)

    Miller, Mark Alan [Rutgers Univ., New Brunswick, NJ (United States)

    2016-08-18

    This report documents progress on DOE Grant# DE-FG02-08ER64531 funded by the Department of Energy’s Atmospheric Systems Research (ASR) program covering the period between its inception in 2008 and its conclusion in 2014. The Atmospheric Radiation Measurement (ARM) Program’s Mobile Facility #1 (AMF#1) is a collection of state-of-the art atmospheric sensing systems including remote and in situ instrumentation designed to characterize the atmospheric column above and in the immediate vicinity of the deployment location. The grant discussed in this report funded the activities of the AMF#1 Site Scientist Team. Broad responsibilities of this team included examining new deployment sites and recommending instrument deployment configurations; data quality control during the early stages of deployments and for certain instruments through the course of the deployment; scientific outreach in the host country or location (particularly international deployments); scientific research oriented toward basic questions about cloud physics and radiation transfer in the deployment region; and training of Ph.D. students to conduct future research relevant to the Atmospheric Systems Research (ASR) program.

  12. Site-City Interaction through Modifications of Site Effects

    CERN Document Server

    Semblat, Jean-François; Guéguen, Philippe; Bard, Pierre-Yves; Duval, Anne Marie

    2009-01-01

    The analysis of seismic site effects generally disregards the influence of surface structures on the free field motion in densely urbanized areas. This paper aims at investigating this particular problem called site-city interaction especially by comparison to the "free-field" amplification process. Several evidences (experimental, analytical, numerical) of the site-city interaction phenomenon have been given in previous work (Gu\\'eguen, Bard, Semblat 2000). The influence of site city-interaction could be large for structures having eigenfrequencies close to that of the surface soil layers. Furthermore, the density of structures is also an important governing parameter of the problem. Considering a specific site (Nice, France) where site-city interaction is supposed to be significant, we start from detailed experimental and numerical studies of seismic site effects giving both amplification levels and occuring frequencies, as well as the location of the maximum amplification areas. The influence of site-city ...

  13. The Demarcation of Practice in Marxist philosophy —— Also comments on the generalization and narrow theory on practice%马克思主义哲学实践范畴的界定——兼评实践泛化论和实践狭化论

    Institute of Scientific and Technical Information of China (English)

    刘然

    2012-01-01

    关于实践范畴的外延学界长期存在争议,两个基本倾向是泛化和狭化。外延的准确界定需要内涵的精确把握,在重新解读实践内涵的过程中,我们必须坚持两个原则:一是在哲学史中理解实践,二是把实践作为一个统一体进行研究。依此原则,我们的结论是:不是用物质或者精神规定实践,而是用实践规定物质和精神。实践是人类全部生活的基础,但是,不是所有人类活动都是实践。判断实践的标准是能动性和现实性的统一。在此基础上,依据马克思的《资本论》及其手稿为核心文本,我们对物质活动、交往活动和精神活动分别做了比较精确的实践界定,明确了它们的内涵和外延。西方存在主义马克思主义哲学家萨特的历史人类学中关于集合和群体的论述,以及当代中国化马克思主义哲学的一些成果给了我们重要启示。%The category of practice in Marxist philosophy in an important position is self - evident, but the connotation and extension of it is in a long - standing dispute. Two basic tendencies are the generalization and narrow. The accurate extension needs the exact defi- nition. In the interpretation of the connotation of practice, we must adhere to two principles : one is to understand the practice in the history of philosophy; the other is to take the practice as a unity. According to them, we not only reveal errors of the practice generali- zation theory and the practice narrow theory, but also through the practice connotation determine draw an important conclusion: not reg- ulate practice with material or spirit, but regulate material or spirit with practice. Practice is the foundation of all human life, but not all human activities are practice. The standard to judge practice is unity of the initiative and the reality. According to the version of Ma- rx which has the "Capital" and its manuscripts as the core, we demarcate exactly the

  14. Web Site Development Support

    Science.gov (United States)

    Abdul, Hameed

    2016-01-01

    This summer I assisted the RPT Program Office in developing a design plan to update their existing website to current NASA web standards. The finished website is intended for the general public, specifically potential customers interested in learning about NASA's chemical rocket test facility capabilities and test assignment process. The goal of the website is to give the public insight about the purpose and function of the RPT Program. Working on this project gave me the opportunity to learn skills necessary for effective project management. The RPT Program Office manages numerous facilities so they are required to travel often to other sites for meetings throughout the year. Maneuvering around the travel schedule of the office and the workload priority of the IT Department proved to be quite the challenge. I overcame the travel schedule of the office by frequently communicating and checking in with my mentor via email and telephone.

  15. IOs as Social Sites

    DEFF Research Database (Denmark)

    Park, Susan M.; Vetterlein, Antje

    for actors with a given identity, which becomes institutionalized and internalized over time. Building on recent work that details how a norm’s strength is also derived from its specificity, the article assesses how the different ways an IO adopts norms may affect the norm’s power. The article provides......Norms research has made significant inroads into examining their emergence and influence in international relations, while recognizing international organizations (IOs) as key social sites for norms to be created and/or disseminated. This paper interrogates how IOs as “organizational platforms......” (Finnemore 1996) influence the norm building process. Going beyond state-centric approaches to norm construction, it argues that the process of taking up a norm by an IO does affect the norm’s power. A norm’s strength is determined by the extent to which it is uncontested and taken for granted as appropriate...

  16. 2009 Site Environmental Report

    Energy Technology Data Exchange (ETDEWEB)

    Ratel, K.M.; Brookhaven National Laboratory

    2010-09-30

    Each year, Brookhaven National Laboratory (BNL) prepares an annual Site Environmental Report (SER) in accordance with DOE Order 231.1A, Environment, Safety and Health Reporting of the U.S. Department of Energy. The report is written to inform the public, regulators, employees, and other stakeholders of BNL's environmental performance during the calendar year in review. The SER summarizes environmental data; environmental management performance; compliance with applicable DOE, federal, state, and local regulations; and compliance, restoration, and surveillance monitoring program performance. BNL has prepared annual SERs since 1971 and has documented nearly all of its environmental history since the Laboratory's inception in 1947. The report is available in print and as a downloadable file on the BNL web page at http://www.bnl.gov/ewms/ser/. A summary of the SER is also prepared each year to provide a general overview of the report, and is distributed with a CD of the full report.

  17. 2006 SITE ENVIRONMENTAL REPORT

    Energy Technology Data Exchange (ETDEWEB)

    BROOKHAVEN NATIONAL LABORATORY; RATEL,K.

    2007-10-01

    Each year, Brookhaven National Laboratory (BNL) prepares an annual Site Environmental Report (SER) in accordance with DOE Order 231.1A, Environment, Safety and Health Reporting of the U.S. Department of Energy. The report is written to inform the public, regulators, employees, and other stakeholders of BNL's environmental performance during the calendar year in review. The SER summarizes environmental data; environmental management performance; compliance with applicable DOE, federal, state, and local regulations; and compliance, restoration, and surveillance monitoring program performance. BNL has prepared annual SERs since 1971 and has documented nearly all of its environmental history since the Laboratory's inception in 1947. The report is available in print and as a downloadable file on the BNL web page at http://www.bnl.gov/ewms/ser/. A summary of the SER is also prepared each year to provide a general overview of the report, and is distributed with a CD of the full report.

  18. Sprucing up the site

    CERN Multimedia

    2009-01-01

    From the Globe to restaurants and meeting rooms, feverish activity is under way on both of the CERN sites to replace old equipment, carry out maitenance on existing facilities and buildings and increase their energy efficiency. Work being carried out on the Globe of Science and Innovation.The visual landmark of CERN, the Globe, has been undergoing maintenance work since July. The 40 m diameter sphere, made entirely of wood, is currently being sanded down and new treatments are being applied to the wood to protect the whole building. The work will continue until the beginning of October. Major work is also under way on some of the most emblematic rooms of the Lab, such as the Conference Room in Building 60 and the Council Chamber: while the first has been completely refurbished, with around 15 extra seats added and new audiovisual facilities installed, in the latter the air conditioning and the main electrical switchboards have been r...

  19. 1999 Rose Site 25P

    Data.gov (United States)

    US Fish and Wildlife Service, Department of the Interior — Underwater Site 25P was established off Rose Atoll, American Samoa by Dr. James Maragos, U.S. Fish & Wildlife Service, on July 30, 1999. The site was originally...

  20. 1999 Rose Site 31P

    Data.gov (United States)

    US Fish and Wildlife Service, Department of the Interior — Underwater Site 31P was established off Rose Atoll, American Samoa by Dr. James Maragos, U.S. Fish & Wildlife Service, on August 22, 1999. The site was...

  1. 1999 Rose Site 13P

    Data.gov (United States)

    US Fish and Wildlife Service, Department of the Interior — Underwater Site 13P was established off Rose Atoll, American Samoa by Dr. James Maragos, U.S. Fish & Wildlife Service, on August 25, 1999. The site was...

  2. 1999 Rose Site 27P

    Data.gov (United States)

    US Fish and Wildlife Service, Department of the Interior — Underwater Site 27P was established off Rose Atoll, American Samoa by Dr. James Maragos, U.S. Fish & Wildlife Service, on August 24, 1999. The site was...

  3. 2002 Rose Site 10P

    Data.gov (United States)

    US Fish and Wildlife Service, Department of the Interior — Underwater Site 10P was established off Rose Atoll, American Samoa by Dr. James Maragos, U.S. Fish & Wildlife Service, on July 31, 1999. The site was originally...

  4. 1999 Rose Site 10P

    Data.gov (United States)

    US Fish and Wildlife Service, Department of the Interior — Underwater Site 10P was established off Rose Atoll, American Samoa by Dr. James Maragos, U.S. Fish & Wildlife Service, on July 31, 1999. The site was originally...

  5. 2002 Rose Site 8P

    Data.gov (United States)

    US Fish and Wildlife Service, Department of the Interior — Underwater Site 8P was established off Rose Atoll, American Samoa by Dr. James Maragos, U.S. Fish & Wildlife Service, on July 29, 1999. The site was originally...

  6. 1999 Rose Site 8P

    Data.gov (United States)

    US Fish and Wildlife Service, Department of the Interior — Underwater Site 8P was established off Rose Atoll, American Samoa by Dr. James Maragos, U.S. Fish & Wildlife Service, on July 29, 1999. The site was originally...

  7. 2004 Rose Site 25P

    Data.gov (United States)

    US Fish and Wildlife Service, Department of the Interior — Underwater Site 25P was established off Rose Atoll, American Samoa by Dr. James Maragos, U.S. Fish & Wildlife Service, on July 30, 1999. The site was originally...

  8. 2012 Rose Site 8P

    Data.gov (United States)

    US Fish and Wildlife Service, Department of the Interior — Underwater Site 8P was established off Rose Atoll, American Samoa by Dr. James Maragos, U.S. Fish & Wildlife Service, on July 29, 1999. The site was originally...

  9. 2004 Rose Site 13P

    Data.gov (United States)

    US Fish and Wildlife Service, Department of the Interior — Underwater Site 13P was established off Rose Atoll, American Samoa by Dr. James Maragos, U.S. Fish & Wildlife Service, on August 25, 1999. The site was...

  10. 2012 Rose Site 10P

    Data.gov (United States)

    US Fish and Wildlife Service, Department of the Interior — Underwater Site 10P was established off Rose Atoll, American Samoa by Dr. James Maragos, U.S. Fish & Wildlife Service, on July 31, 1999. The site was originally...

  11. 2004 Rose Site 8P

    Data.gov (United States)

    US Fish and Wildlife Service, Department of the Interior — Underwater Site 8P was established off Rose Atoll, American Samoa by Dr. James Maragos, U.S. Fish & Wildlife Service, on July 29, 1999. The site was originally...

  12. 2012 Rose Site 25P

    Data.gov (United States)

    US Fish and Wildlife Service, Department of the Interior — Underwater Site 25P was established off Rose Atoll, American Samoa by Dr. James Maragos, U.S. Fish & Wildlife Service, on July 30, 1999. The site was originally...

  13. 2006 Rose Site 13P

    Data.gov (United States)

    US Fish and Wildlife Service, Department of the Interior — Underwater Site 13P was established off Rose Atoll, American Samoa by Dr. James Maragos, U.S. Fish & Wildlife Service, on August 25, 1999. The site was...

  14. 2006 Rose Site 9P

    Data.gov (United States)

    US Fish and Wildlife Service, Department of the Interior — Underwater Site 9P was established off Rose Atoll, American Samoa by Dr. James Maragos, U.S. Fish & Wildlife Service, on July 31, 1999. The site was originally...

  15. 2012 Rose Site 31P

    Data.gov (United States)

    US Fish and Wildlife Service, Department of the Interior — Underwater Site 31P was established off Rose Atoll, American Samoa by Dr. James Maragos, U.S. Fish & Wildlife Service, on August 22, 1999. The site was...

  16. 1999 Rose Site 9P

    Data.gov (United States)

    US Fish and Wildlife Service, Department of the Interior — Underwater Site 9P was established off Rose Atoll, American Samoa by Dr. James Maragos, U.S. Fish & Wildlife Service, on July 31, 1999. The site was originally...

  17. 2006 Rose Site 31P

    Data.gov (United States)

    US Fish and Wildlife Service, Department of the Interior — Underwater Site 31P was established off Rose Atoll, American Samoa by Dr. James Maragos, U.S. Fish & Wildlife Service, on August 22, 1999. The site was...

  18. 2004 Rose Site 9P

    Data.gov (United States)

    US Fish and Wildlife Service, Department of the Interior — Underwater Site 9P was established off Rose Atoll, American Samoa by Dr. James Maragos, U.S. Fish & Wildlife Service, on July 31, 1999. The site was originally...

  19. 2012 Rose Site 27P

    Data.gov (United States)

    US Fish and Wildlife Service, Department of the Interior — Underwater Site 27P was established off Rose Atoll, American Samoa by Dr. James Maragos, U.S. Fish & Wildlife Service, on August 24, 1999. The site was...

  20. 2006 Rose Site 27P

    Data.gov (United States)

    US Fish and Wildlife Service, Department of the Interior — Underwater Site 27P was established off Rose Atoll, American Samoa by Dr. James Maragos, U.S. Fish & Wildlife Service, on August 24, 1999. The site was...

  1. 2004 Rose Site 31P

    Data.gov (United States)

    US Fish and Wildlife Service, Department of the Interior — Underwater Site 31P was established off Rose Atoll, American Samoa by Dr. James Maragos, U.S. Fish & Wildlife Service, on August 22, 1999. The site was...

  2. 2012 Rose Site 13P

    Data.gov (United States)

    US Fish and Wildlife Service, Department of the Interior — Underwater Site 13P was established off Rose Atoll, American Samoa by Dr. James Maragos, U.S. Fish & Wildlife Service, on August 25, 1999. The site was...

  3. 2004 Rose Site 10P

    Data.gov (United States)

    US Fish and Wildlife Service, Department of the Interior — Underwater Site 10P was established off Rose Atoll, American Samoa by Dr. James Maragos, U.S. Fish & Wildlife Service, on July 31, 1999. The site was originally...

  4. 2012 Rose Site 9P

    Data.gov (United States)

    US Fish and Wildlife Service, Department of the Interior — Underwater Site 9P was established off Rose Atoll, American Samoa by Dr. James Maragos, U.S. Fish & Wildlife Service, on July 31, 1999. The site was originally...

  5. 2006 Rose Site 10P

    Data.gov (United States)

    US Fish and Wildlife Service, Department of the Interior — Underwater Site 10P was established off Rose Atoll, American Samoa by Dr. James Maragos, U.S. Fish & Wildlife Service, on July 31, 1999. The site was originally...

  6. 2002 Rose Site 9P

    Data.gov (United States)

    US Fish and Wildlife Service, Department of the Interior — Underwater Site 9P was established off Rose Atoll, American Samoa by Dr. James Maragos, U.S. Fish & Wildlife Service, on July 31, 1999. The site was originally...

  7. 2004 Johnston Site 10P

    Data.gov (United States)

    US Fish and Wildlife Service, Department of the Interior — Underwater Site 10P was established at Johnston Atoll by Dr. James Maragos, U.S. Fish & Wildlife Service, on January 15, 2004. Site 10P replaced site JOH 2A-P...

  8. SHAREPOINT SITE CREATING AND SETTING

    Directory of Open Access Journals (Sweden)

    Oleksandr V. Tebenko

    2011-02-01

    Full Text Available Tools for sites building that offer users the ability to work together, an actual theme in information society and modern Web technologies. This article considers the SharePoint system, which enables to create sites of any complexity, including large portals with a complex structure of documents. Purpose of this article is to consider the main points of site creating and its setting with tools of SharePoint system, namely: a site template creating and configuring, web application environment to create and configure Web applications, change of existing and creation of new theme site, a web part setting.

  9. A hemicentric inversion in the maize line knobless Tama flint created two sites of centromeric elements and moved the kinetochore-forming region.

    Science.gov (United States)

    Lamb, Jonathan C; Meyer, Julie M; Birchler, James A

    2007-06-01

    A maize line, knobless Tama flint (KTF), was found to contain a version of chromosome 8 with two spatially distinct regions of centromeric elements, one at the original genetic position and the other at a novel location on the long arm. The new site of centromeric elements functions as the kinetochore-forming region resulting in a change of arm length ratio. Examination of fluorescence in situ hybridization markers on chromosome 8 revealed an inversion between the two centromere sites relative to standard maize lines, indicating that this chromosome 8 resulted from a hemicentric inversion with one breakpoint approximately 20 centi-McClintocks (cMc) on the long arm (20% of the total arm length from the centromere) and the other in the original cluster of centromere repeats. This inversion moved the kinetochore-forming region but left the remainder of the centromere repeats. In a hybrid between a standard line (Mo17) and KTF, both chromosome 8 homologues were completely synapsed at pachytene despite the inversion. Although the homologous centromeres were not paired, they were always correctly oriented at anaphase and migrated to opposite poles. Additionally, recombination on 8L was severely repressed in the hybrid.

  10. 湖南安乡县划城岗遗址第二次发掘简报%Secondary Excavation at the Huachenggang Site in Anxiang County,Hunan

    Institute of Scientific and Technical Information of China (English)

    湖南省文物考古研究所

    2001-01-01

    The Huachenggang site lies at Shahukou village in Anzhang township, Anxiang county, Hunan province, and constitutes a very important Neolithic site in the middle Yangtze River. The secondary excavation there was carried out in four areas and revealed rich cultural remains and objects.According to the correlation between the stratigraphical deposits in the areas and the features of the unearthed objects from there, the cultural remains of the site can be divided into four categories respectively belonging to the Tangjiagang, Daxi, Qujialing and Shijiahe cultures, which form a evolutionary sequence in one continuous line. The excavation of the site provides new evidence for further verifying the existence of the Tangjiagang culture, researching into the origin and periodization of the Daxi culture in the Dongting Lake region and understanding the demarcation between the Daxi and Qujialing cultures. The unearthed plentiful painted and white pottery exquisite in workmanship furnishes important clues to studies into the origin and evolution of these types of vessels produced in this area.

  11. 2004 SITE ENVIRONMENTAL REPORT

    Energy Technology Data Exchange (ETDEWEB)

    BROOKHAVEN NATIONAL LABORATORY; SER TEAM; ENVIRONMENTAL INFORMATION MANAGEMENT SERVICES GROUP; ENVIROMENTAL AND WASTE MANAGEMENT SERVICES DIVISION FIELD SAMPLING TEAM; (MANY OTHER CONTRIBUTORS)

    2005-08-22

    Each year, Brookhaven National Laboratory (BNL) prepares an annual Site Environmental Report (SER) in accordance with DOE Order 231.1A, Environment, Safety and Health Reporting of the U.S. Department of Energy (DOE). The SER is written to inform the public, regulators, Laboratory employees, and other stakeholders of BNL's environmental performance during the calendar year in review. The report summarizes BNL's environmental data; environmental management performance; compliance with applicable DOE, federal, state, and local regulations; and restoration and surveillance monitoring programs. BNL has prepared annual SERs since 1971 and has documented nearly all of its environmental history since the Laboratory's inception in 1947. The SER is intended to be a technical document. It is available in print and as a downloadable file on the BNL web page at http://www.bnl.gov/esd/SER.htm. A summary of the SER is also prepared each year to provide a general overview of the report, and is distributed with a CD version of the full report. The summary supports BNL's educational and community outreach program.

  12. Generic Site Safety Report

    CERN Document Server

    International Atomic Energy Agency. Vienna. ITER Joint Central Team

    2001-01-01

    The ITER Engineering Design Activities (EDA) are being conducted jointly by Euratom, Japan, and the Russian Federation, as Parties to the ITER EDA Agreement signed on 21 July 1992 and subsequently extended until July 20th 2001. (The United States of America was an ITER Party until September 30th 1999). The activities are conducted under the auspices of the IAEA by the ITER Joint Central Team and by the Home Teams (HT). The JCT is composed of qualified persons made available by each of the Parties in approximately equal numbers. The JCT members are located at the ITER Joint Work Sites (JWS) in Naka (Japan), Garching (Germany), and formerly in San Diego (USA). The Home Teams are established and organized by each Party for performing the tasks of the work programme for the EDA, assigned to them in approximately equal shares. Home Teams in each of the Parties perform specific design tasks, and perform research and development in technology (physics R&D is contributed voluntarily). The Home Team Leaders (HTL) ...

  13. 2002 SITE ENVIRONMENTAL REPORT.

    Energy Technology Data Exchange (ETDEWEB)

    BROOKHAVEN NATIONAL LABORATORY

    2003-10-01

    The 2002 Site Environmental Report (SER) is prepared in accordance with DOE Order 231.1, ''Environment, Safety and Health Reporting'', and summarizes the status of Brookhaven National Laboratory's (BNL) environmental programs and performance and restoration efforts, as well as any impacts, both past and present, that Laboratory operations have had on the environment. The document is intended to be technical in nature. A summary of the report is also prepared as a separate document to provide a general overview and includes a CD version of the full report. Operated by Brookhaven Science Associates (BSA) for the Department of Energy (DOE), BNL manages its world-class scientific research with particular sensitivity to environmental and community issues. BNL's motto, ''Exploring Life's Mysteries...Protecting its Future'', reflects BNL's management philosophy to fully integrate environmental stewardship into all facets of its missions, with a health balance between science and the environment.

  14. 2007 Site Environmental Report

    Energy Technology Data Exchange (ETDEWEB)

    Ratel,K.

    2008-10-01

    Brookhaven National Laboratory (BNL) prepares an annual Site Environmental Report (SER) in accordance with DOE Order 231.1A, Environment, Safety and Health Reporting of the U.S. Department of Energy. The report is written to inform the public, regulators, employees, and other stakeholders of the Laboratory's environmental performance during the calendar year in review. Volume I of the SER summarizes environmental data; environmental management performance; compliance with applicable DOE, federal, state, and local regulations; and performance in restoration and surveillance monitoring programs. BNL has prepared annual SERs since 1971 and has documented nearly all of its environmental history since the Laboratory's inception in 1947. Volume II of the SER, the Groundwater Status Report, also is prepared annually to report on the status of and evaluate the performance of groundwater treatment systems at the Laboratory. Volume II includes detailed technical summaries of groundwater data and its interpretation, and is intended for internal BNL users, regulators, and other technically oriented stakeholders. A brief summary of the information contained in Volume II is included in this volume in Chapter 7, Groundwater Protection. Both reports are available in print and as downloadable files on the BNL web page at http://www.bnl.gov/ewms/ser/. An electronic version on compact disc is distributed with each printed report. In addition, a summary of Volume I is prepared each year to provide a general overview of the report, and is distributed with a compact disc containing the-length report.

  15. 2005 SITE ENVIRONMENTAL REPORT

    Energy Technology Data Exchange (ETDEWEB)

    BROOKHAVEN NATIONAL LABORATORY

    2006-08-29

    Each year, Brookhaven National Laboratory (BNL) prepares an annual Site Environmental Report (SER) in accordance with DOE Order 231.1A, Environment, Safety and Health Reporting of the U.S. Department of Energy (DOE). The report is written to inform the public, regulators, employees, and other stakeholders of BNL's environmental performance during the calendar year in review. The SER summarizes environmental data; environmental management performance; compliance with applicable DOE, federal, state, and local regulations; and compliance, restoration, and surveillance monitoring program performance. BNL has prepared annual SERs since 1971 and has documented nearly all of its environmental history since the Laboratory's inception in 1947. The report is available in print and as a downloadable file on the BNL web page at http://www.bnl.gov/ewms/ser/. A summary of the SER is also prepared each year to provide a general overview of the report, and is distributed with a CD of the full report.

  16. Site Management Guide (Blue Book)

    Energy Technology Data Exchange (ETDEWEB)

    None

    2014-03-01

    The U.S. Department of Energy (Department) Office of Legacy Management (LM), established in 2003, manages the Department’s postclosure responsibilities and ensures the future protection of human health and the environment. During World War II and the Cold War, the Federal government developed and operated a vast network of industrial facilities for the research, production, and testing of nuclear weapons, as well as other scientific and engineering research. These processes left a legacy of radioactive and chemical waste, environmental contamination, and hazardous facilities and materials at well over 100 sites. Since 1989, the Department has taken an aggressive accelerated cleanup approach to reduce risks and cut costs. At most Departmental sites undergoing cleanup, some residual hazards will remain at the time cleanup is completed due to financial and technical impracticality. However, the Department still has an obligation to protect human health and the environment after cleanup is completed. LM fulfills DOE’s postclosure obligation by providing long-term management of postcleanup sites which do not have continuing missions. LM is also responsible for sites under the Formerly Utilized Sites Remedial Action Program (FUSRAP). Currently, the U.S. Army Corps of Engineers (USACE) is responsible for site surveys and remediation at FUSRAP sites. Once remediation is completed, LM becomes responsible for long-term management. LM also has responsibility for uranium processing sites addressed by Title II of the Uranium Mill Tailings Radiation Control Act (UMTRCA). UMTRCA Title II sites are sites that were commercially owned and are regulated under a U.S. Nuclear Regulatory Commission (NRC) license. For license termination, the owner must conduct an NRC-approved cleanup of any on-site radioactive waste remaining from former uranium ore-processing operations. The site owner must also provide full funding for inspections and, if necessary, ongoing maintenance. Once site

  17. 2010年CLSI头孢菌素折点改变对产ESBLs奇异变形杆菌药物敏感性结果评估和分析%Evaluation and analysis of the suscepbility interpretation on ESBL-producing Proteus mirabilis according to the changes of cephalosporin breakpoints in CLSI 2010

    Institute of Scientific and Technical Information of China (English)

    陶胜来; 熊自忠

    2012-01-01

    Objective To evaluate the influences of susceptibility interpretation and distribution of extended-spectrum (3-lactamases (ESBLs) producers in Proteus mirabilis according to CLSI 2009 (S19) and 2010 (S20) breakpoints of ceftazi-dime (CAZ) , cefotaxime (CTX) and cefazolin (CFZ). Method ESBLs producers were confirmed by the CLSI phenotypic confirmatory test in 33 clinical isolates of Proteus mirabilis and antimicrobial susceptibility of these isolates were tested by agar dilution method. Antibacterial susceptibility of ESBLs-positive and ESBLs-negative isolates and the distribution of ESBLs producers of the resistant isolates were analyzed according to the breakpoints of S19 and S20. Result ESBLs producers were detected in 18.2% (6/33) of Proteus mirabilis. In ESBLs positive isolates, the resistence rate of CAZ, CTX and CFZ increased from 50. 0% , 50. 0% and 66. 7% under S19 to 66. 7% , 100. 0% and 100. 0% under S20, respectively. The susceptibility rates decreased from 33. 3% , 50. 0% and 0. 0% under S19 to 16. 7% , 0. 0% and 0. 0% under S20, respectively. There was a statistically significant difference between the S19 and S20 cephalosporin breakpoints in the distribution of ESBLs producers. Conclusion If use the new CTX and CFZ S20 breakpoints, the concordance of antibacterial susceptibility results and ESBL phenotype will increase greatly. It is no longer necessary to be confirmed by CLSI phenotype confirmatory test. As to CAZ, further evaluation and research is required.%目的 评估2009年CLSI M100-S19及2010年CLSI M100-S20文件中头孢他啶(CAZ)、头孢噻肟(CTX)和头孢唑啉(CFZ)最低抑菌浓度新旧折点变化对产ESBLs奇异变形杆菌药物敏感性试验结果的影响.方法 对临床分离33株奇异变形杆菌进行产ESBLs菌株的确证试验,琼脂稀释法检测最低抑菌浓度(MIC),根据药物敏感性结果分别对产ESBLs奇异变形杆菌和非产ESBLs奇异变形杆菌在S19和S20新旧折点下CAZ、CTX和CFZ三种药物

  18. SITE COMPREHENSIVE LISTING (CERCLIS) - Contaminants at CERCLIS (Superfund) Sites

    Data.gov (United States)

    U.S. Environmental Protection Agency — Contaminants at Comprehensive Environmental Response, Compensation and Liability Information System (CERCLIS) (Superfund) Sites - The CERCLIS Public Access Database...

  19. SITE COMPREHENSIVE LISTING (CERCLIS) (Superfund) - Responsible Parties at CERCLIS Sites

    Data.gov (United States)

    U.S. Environmental Protection Agency — Responsible Parties at CERCLIS Sites - The Comprehensive Environmental Response, Compensation and Liability Information System (CERCLIS) (Superfund) Public Access...

  20. SitesIdentify: a protein functional site prediction tool

    Directory of Open Access Journals (Sweden)

    Doig Andrew J

    2009-11-01

    Full Text Available Abstract Background The rate of protein structures being deposited in the Protein Data Bank surpasses the capacity to experimentally characterise them and therefore computational methods to analyse these structures have become increasingly important. Identifying the region of the protein most likely to be involved in function is useful in order to gain information about its potential role. There are many available approaches to predict functional site, but many are not made available via a publicly-accessible application. Results Here we present a functional site prediction tool (SitesIdentify, based on combining sequence conservation information with geometry-based cleft identification, that is freely available via a web-server. We have shown that SitesIdentify compares favourably to other functional site prediction tools in a comparison of seven methods on a non-redundant set of 237 enzymes with annotated active sites. Conclusion SitesIdentify is able to produce comparable accuracy in predicting functional sites to its closest available counterpart, but in addition achieves improved accuracy for proteins with few characterised homologues. SitesIdentify is available via a webserver at http://www.manchester.ac.uk/bioinformatics/sitesidentify/

  1. SITE COMPREHENSIVE LISTING (CERCLIS) (Superfund) - Non-NPL Sites

    Data.gov (United States)

    U.S. Environmental Protection Agency — Non-NPL Sites - The Comprehensive Environmental Response, Compensation and Liability Information System (CERCLIS) (Superfund) Public Access Database contains a...

  2. Umatilla Satellite and Release Sites Project : Final Siting Report.

    Energy Technology Data Exchange (ETDEWEB)

    Montgomery, James M.

    1992-04-01

    This report presents the results of site analysis for the Umatilla Satellite and Release Sites Project. The purpose of this project is to provide engineering services for the siting and conceptual design of satellite and release facilities for the Umatilla Basin hatchery program. The Umatilla Basin hatchery program consists of artificial production facilities for salmon and steelhead to enhance production in the Umatilla River as defined in the Umatilla master plan approved in 1989 by the Northwest Power Planning Council. Facilities identified in the master plan include adult salmon broodstock holding and spawning facilities, facilities for recovery, acclimation, and/or extended rearing of salmon juveniles, and development of river sites for release of hatchery salmon and steelhead. The historic and current distribution of fall chinook, summer chinook, and coho salmon and steelhead trout was summarized for the Umatilla River basin. Current and future production and release objectives were reviewed. Twenty seven sites were evaluated for the potential and development of facilities. Engineering and environmental attributes of the sites were evaluated and compared to facility requirements for water and space. Site screening was conducted to identify the sites with the most potential for facility development. Alternative sites were selected for conceptual design of each facility type. A proposed program for adult holding facilities, final rearing/acclimation, and direct release facilities was developed.

  3. Corrective Action Site 02-37-02 Background Information and Comparison to Corrective Action Site 09-99-06

    Energy Technology Data Exchange (ETDEWEB)

    None

    2012-06-26

    -entry survey, and routine surveys around the crater lip did not identify alpha contamination. Background information includes several radiological surveys conducted after these two tests. The MULLET area has been surveyed frequently. The early surveys indicate the area as both contaminated and containing buried radioactive material. A survey conducted in 1970 found the radiological/chemical piping partially intact, including the 'Y' junction, and shows two runs of intact piping running past the U2am crater lip. The survey focused on the piping system itself and detected alpha contamination from 4 counts per minute (cpm) to 900,000 cpm. The highest value was at a pipe flange between a dirt pile and a dirt berm within the current site fence line. All readings were direct, and no smears were taken. A 1972 survey was essentially a repeat of the 1970 survey; however, it does not show the 'Y' junction nor does it show piping extending past the U2am crater lip. It also shows a new fence line separating the radiological/chemical piping from the U2am crater area with all piping within the fence. Alpha contamination was detected on pipe flanges during the survey, but alpha contamination was not detected on the dirt pile or the dirt berm. All readings were direct, and no smears were taken. Additional surveys were conducted in 1986, 1990, 1992, 1993, and 1996. One of the surveys focused on determining the extent of soil contamination around GZ. An alpha contamination plume extending approximately 200 feet south of GZ was detected in a swath approximately 100 feet wide. The maximum measurement was 15,000 cpm alpha. All surveys show the piping within the fence line. Recent surveys (2007 and 2008) were performed around the current fence line by the demarcation group. No removable contamination was identified during these surveys. In late 2008, a visual inspection of the site was conducted by the National Security Technologies, LLC, Environmental Restoration group. All piping is within the

  4. 2010 Site Environmental Report

    Energy Technology Data Exchange (ETDEWEB)

    Ratel, K.; Lee, R; Remien, J; Hooda, B; Green, T; Williams, J; Pohlot, P; Dorsch, W; Paquette, D; Burke, J

    2011-10-01

    Brookhaven National Laboratory (BNL) prepares an annual Site Environmental Report (SER) in accordance with DOE Order 231.1A, Environment, Safety and Health Reporting of the U.S. Department of Energy. The report is written to inform the public, regulators, employees, and other stakeholders of the Laboratory's environmental performance during the calendar year in review. Volume I of the SER summarizes environmental data; environmental management performance; compliance with applicable DOE, federal, state, and local regulations; and performance in restoration and surveillance monitoring programs. BNL has prepared annual SERs since 1971 and has documented nearly all of its environmental history since the Laboratory's inception in 1947. Volume II of the SER, the Groundwater Status Report, also is prepared annually to report on the status of and evaluate the performance of groundwater treatment systems at the Laboratory. Volume II includes detailed technical summaries of groundwater data and its interpretation, and is intended for internal BNL users, regulators, and other technically oriented stakeholders. A brief summary of the information contained in Volume II is included in Chapter 7, Groundwater Protection, of this volume. Both reports are available in print and as downloadable files on the BNL web page at http://www.bnl.gov/ewms/ser/. An electronic version on compact disc is distributed with each printed report. In addition, a summary of Volume I is prepared each year to provide a general overview of the report, and is distributed with a compact disc containing the full report. BNL is operated and managed for DOE's Office of Science by Brookhaven Science Associates (BSA), a partnership formed by Stony Brook University and Battelle Memorial Institute. For more than 60 years, the Laboratory has played a lead role in the DOE Science and Technology mission and continues to contribute to the DOE missions in energy resources, environmental quality, and

  5. Drupal 7 Multi Sites Configuration

    CERN Document Server

    Butcher, Matt

    2012-01-01

    Follow the creation of a multi-site instance with Drupal. The practical examples and accompanying screenshots will help you to get multiple Drupal sites set up in no time. This book is for Drupal site builders. It is assumed that readers are familiar with Drupal already, with a basic grasp of its concepts and components. System administration concepts, such as configuring Apache, MySQL, and Vagrant are covered but no previous knowledge of these tools is required.

  6. Site environmental report for 2002.

    Energy Technology Data Exchange (ETDEWEB)

    Larsen, Barbara L.

    2003-06-01

    Sandia National Laboratories, California (SNL/CA) is a government-owned/contractor-operated laboratory. Sandia Corporation, a Lockheed Martin Company, operates the laboratory for the Department of Energy's (DOE) National Nuclear Security Administration. The DOE, Sandia Site Office oversees operations at the site, using Sandia Corporation as a management and operating contractor. This Site Environmental Report for 2002 was prepared in accordance with DOE Order 231.1. The report provides a summary of environmental monitoring information and compliance activities that occurred at SNL/CA during calendar year 2002. General site and environmental program information is also included.

  7. Implementing ‘Site BIM’

    DEFF Research Database (Denmark)

    Davies, Richard; Harty, Chris

    2013-01-01

    of an innovative ‘Site BIM’ system on a major hospital construction project. The main contractor on the project developed BIM-enabled tools to allow site workers using mobile tablet personal computers to access design information and to capture work quality and progress data on-site. Accounts show that ‘Site BIM......’, while judged to be successful and actively supporting users, was delivered through an exploratory and emergent development process of informal prototyping. Technical IT skills were adopted into the construction project through personal relationships and arrangements rather than formal processes...

  8. UST/LUST Site Information

    Data.gov (United States)

    U.S. Environmental Protection Agency — This asset contains all Underground Storage Tank (UST) site information. It includes details such as property location, acreage, identification and characterization,...

  9. Region 9 Removal Sites 2012

    Data.gov (United States)

    U.S. Environmental Protection Agency — Point geospatial dataset representing locations of CERCLA (Superfund) Removal sites. CERCLA (Comprehensive Environmental Response, Compensation, and Liability Act)...

  10. Early Site Permit Demonstration Program: Siting Guide, Site selection and evaluation criteria for an early site permit application. Revision 1

    Energy Technology Data Exchange (ETDEWEB)

    1993-03-24

    In August 1991, the Joint Contractors came to agreement with Sandia National Laboratories (SNL) and the Department of Energy (DOE) on a workscope for the cost-shared Early Site Permit Demonstration Program. One task within the scope was the development of a guide for site selection criteria and procedures. A generic Siting Guide his been prepared that is a roadmap and tool for applicants to use developing detailed siting plans for their specific region of the country. The guide presents three fundamental principles that, if used, ensure a high degree of success for an ESP applicant. First, the site selection process should take into consideration environmentally diverse site locations within a given region of interest. Second, the process should contain appropriate opportunities for input from the public. Third, the process should be applied so that it is clearly reasonable to an impartial observer, based on appropriately selected criteria, including criteria which demonstrate that the site can host an advanced light water reactor (ALWR). The Siting Guide provides for a systematic, comprehensive site selection process in which three basic types of criteria (exclusionary, avoidance, and suitability) are presented via a four-step procedure. It provides a check list of the criteria for each one of these steps. Criteria are applied qualitatively, as well as presented numerically, within the guide. The applicant should use the generic guide as an exhaustive checklist, customizing the guide to his individual situation.

  11. Bedrock hydrogeology Forsmark. Site descriptive modelling, SDM-Site Forsmark

    Energy Technology Data Exchange (ETDEWEB)

    Follin, Sven (SF GeoLogic AB, Taeby (Sweden))

    2008-12-15

    The Swedish Nuclear Fuel and Waste Management Company (SKB) has conducted site investigations at two different locations, the Forsmark and Laxemar-Simpevarp areas, with the objective of siting a final repository for spent nuclear fuel according to the KBS-3 concept. Site characterisation should provide all data required for an integrated evaluation of the suitability of the investigated site and an important component in the characterisation work is the development of a hydrogeological model. The hydrogeological model is used by repository engineering to design the underground facility and to develop a repository layout adapted to the site. It also provides input to the safety assessment. Another important use of the hydrogeological model is in the environmental impact assessment. This report presents the understanding of the hydrogeological conditions of the bedrock at Forsmark reached following the completion of the surface-based investigations and provides a summary of the bedrock hydrogeological model and the underlying data supporting its development. It constitutes the main reference on bedrock hydrogeology for the site descriptive model concluding the surface-based investigations at Forsmark, SDM-site, and is intended to describe the hydraulic properties and hydrogeological conditions of the bedrock at the site and to give the information essential for demonstrating understanding

  12. Site locality identification study: Hanford Site. Volume II. Data cataloging

    Energy Technology Data Exchange (ETDEWEB)

    1980-07-01

    Data compilation and cataloging for the candidate site locality identification study were conducted in order to provide a retrievable data cataloging system for the present siting study and future site evaluation and licensng processes. This task occurred concurrently with and also independently of other tasks of the candidate site locality identification study. Work in this task provided the data utilized primarily in the development and application of screening and ranking processes to identify candidate site localities on the Hanford Site. The overall approach included two steps: (1) data acquisition and screening; and (2) data compilation and cataloging. Data acquisition and screening formed the basis for preliminary review of data sources with respect to their probable utilization in the candidate site locality identification study and review with respect to the level of completeness and detail of the data. The important working assumption was that the data to be used in the study be based on existing and available published and unpublished literature. The data compilation and cataloging provided the basic product of the Task; a retrievable data cataloging system in the form of an annotated reference list and key word index and an index of compiled data. The annotated reference list and key word index are cross referenced and can be used to trace and retrieve the data sources utilized in the candidate site locality identification study.

  13. Nevada Test Site Environmental Report 2005, Attachment A - Site Description

    Energy Technology Data Exchange (ETDEWEB)

    Cathy A. Wills

    2006-10-01

    This appendix to the ''Nevada Test Site Environmental Report 2005'', dated October 2006 (DOE/NV/11718--1214; DOE/NV/25946--007) expands on the general description of the Nevada Test Site (NTS) presented in the Introduction. Included are subsections that summarize the site?s geological, hydrological, climatological, and ecological setting. The cultural resources of the NTS are also presented. The subsections are meant to aid the reader in understanding the complex physical and biological environment of the NTS. An adequate knowledge of the site's environment is necessary to assess the environmental impacts of new projects, design and implement environmental monitoring activities for current site operations, and assess the impacts of site operations on the public residing in the vicinity of the NTS. The NTS environment contributes to several key features of the site which afford protection to the inhabitants of adjacent areas from potential exposure to radioactivity or other contaminants resulting from NTS operations. These key features include the general remote location of the NTS, restricted access, extended wind transport times, the great depths to slow-moving groundwater, little or no surface water, and low population density. This appendix complements the annual summary of monitoring program activities and dose assessments presented in the main body of this report.

  14. Criteria for School Site Selection.

    Science.gov (United States)

    Stanford Univ., CA.

    An outline of the factors and conditions affecting the desirability of a specific building site. The primary factor headings are--(1) availability, (2) location, (3) environment, (4) accessibility, (5) size, (6) shape, (7) topography, (8) acquisition, (9) cost of land, (10) soil condition, (11) sub-surface condition, (12) site preparation, (13)…

  15. Site environmental report for 1996

    Energy Technology Data Exchange (ETDEWEB)

    Holland, R.C.

    1997-08-01

    To help verify effective protection of public safety and preservation of the environment, Sandia National Laboratories (SNL)/California maintains an extensive, ongoing environmental monitoring program. This program monitors all significant airborne and liquid effluents and the environment at the SNL/California site perimeter. Lawrence Livermore National Laboratory (LLNL) performs off-site environmental monitoring for both sites. These monitoring efforts ensure that emission controls are effective in preventing contamination of the environment. As part of SNL/California`s Environmental Monitoring Program, an environmental surveillance system measures the possible presence of radioactive and hazardous materials in ambient air, surface water, groundwater, sewage, soil, vegetation, and locally produced food-stuffs. The program also includes an extensive environmental dosimetry program, which measures external radiation levels around the Livermore site and nearby vicinity. Each year, the results of the Environmental Monitoring Program are published in this report, the Site Environmental Report. This executive summary focuses on impacts to the environment and estimated radiation doses to the public from site emissions. Chapter 3, {open_quotes}Compliance Summary,{close_quotes} reviews the site`s various environmental protection activities and compliance status, with applicable environmental regulations. The effluent monitoring and environmental surveillance results for 1996 show that SNL/California operations had no harmful effects on the environment or the public. 37 figs., 12 tabs.

  16. Privacy and Social Networking Sites

    Science.gov (United States)

    Timm, Dianne M.; Duven, Carolyn J.

    2008-01-01

    College students are relying on the Internet to make connections with other people every day. As the Internet has developed and grown, so have the capabilities for interaction. Social networking sites, a group of Web sites that provide people with the opportunity to create an online profile and to share that profile with others, are a part of…

  17. Hanford site sodium management plan

    Energy Technology Data Exchange (ETDEWEB)

    Guttenberg, S.

    1995-09-25

    The Hanford Site Sodium Management Plan, Revision 1, provides changes to the major elements and management strategy to ensure an integrated and coordinated approach for disposition of the more than 350,000 gallons of sodium and related sodium facilities located at the DOE`s Hanford Site

  18. Educational Leadership. [SITE 2002 Section].

    Science.gov (United States)

    2002

    This document contains the following papers on educational leadership from the SITE (Society for Information Technology & Teacher Education) 2002 conference: (1) "Personality Assessment of Educational Leaders via Technology" (Pamela T. Barber Freeman and Michael L. McFrazier); (2) "Contributions and Concerns of SITE Participants: A Survey of…

  19. Site Environmental Report for 2013

    Energy Technology Data Exchange (ETDEWEB)

    Pauer, Ron [Lawrence Berkeley National Lab. (LBNL), Berkeley, CA (United States); Baskin, David [Lawrence Berkeley National Lab. (LBNL), Berkeley, CA (United States); Borglin, Ned [Lawrence Berkeley National Lab. (LBNL), Berkeley, CA (United States); Fox, Robert [Lawrence Berkeley National Lab. (LBNL), Berkeley, CA (United States); Harvey, Zachary [Lawrence Berkeley National Lab. (LBNL), Berkeley, CA (United States); Jelinski, John [Lawrence Berkeley National Lab. (LBNL), Berkeley, CA (United States); Thorson, Patrick [Lawrence Berkeley National Lab. (LBNL), Berkeley, CA (United States); Wahl, Linnea [Lawrence Berkeley National Lab. (LBNL), Berkeley, CA (United States); Wehle, Petra [Lawrence Berkeley National Lab. (LBNL), Berkeley, CA (United States); Xu, Suying [Lawrence Berkeley National Lab. (LBNL), Berkeley, CA (United States)

    2014-09-01

    This report, prepared by LBNL for the U.S. Department of Energy, Berkeley Site Office provides a comprehensive summary of the environmental program activities at LBNL for calendar year 2013 SERS are prepared annually for all DOE sites with significant environmental activities, and distributed to relevant external regulatory agencies and other interested organizations or individual.

  20. Hanford Site technical baseline database

    Energy Technology Data Exchange (ETDEWEB)

    Porter, P.E., Westinghouse Hanford

    1996-05-10

    This document includes a cassette tape that contains the Hanford specific files that make up the Hanford Site Technical Baseline Database as of May 10, 1996. The cassette tape also includes the delta files that delineate the differences between this revision and revision 3 (April 10, 1996) of the Hanford Site Technical Baseline Database.

  1. Hanford Site technical baseline database

    Energy Technology Data Exchange (ETDEWEB)

    Porter, P.E.

    1996-09-30

    This document includes a cassette tape that contains the Hanford specific files that make up the Hanford Site Technical Baseline Database as of September 30, 1996. The cassette tape also includes the delta files that dellinate the differences between this revision and revision 4 (May 10, 1996) of the Hanford Site Technical Baseline Database.

  2. Site Environmental Report summary, 1993

    Energy Technology Data Exchange (ETDEWEB)

    1994-06-01

    This report describes the Fernald site mission, exposure pathways, and environmental standards and guidelines. Environmental monitoring activities measure and estimate the amount of radioactive and nonradioactive materials that may leave the site and enter the surrounding environment. This presents an overall view of the impact these activities have on the local environment and public health.

  3. Southern Africa CTA Site Proposal

    CERN Document Server

    Krüger, P P

    2012-01-01

    Southern Africa has some of the world's best sites for air Cherenkov telescopes. South Africa has only one viable site, which is south of Sutherland and also close to the Southern African Large Telescope (SALT). This site has very good infrastructure and is easy to access, but only 47% of the night-time has a cloudless sky usable for observations. Namibia, which already hosts the H.E.S.S telescope, has a number of potential sites with much less cloud coverage. The H.E.S.S. site is one of the highest of these sites at 1840 m a.s.l. with about 64% of the night-time cloudless. It also has very low night sky background levels and is relatively close (about 100 km) to Windhoek. Moving further away from Windhoek to the south, the cloud coverage and artificial night sky brightness becomes even less, with the site at Kuibis (between Keetmanshoop and Luderitz) at 1640 m a.s.l. having clear night skies 73% of the time. Even though this site seems remote (being 660 km from Windhoek by road), it is close to the national ...

  4. Nevada Test Site Environmental Report 2007 Attachment A: Site Description

    Energy Technology Data Exchange (ETDEWEB)

    Cathy Wills

    2008-09-01

    This appendix expands on the general description of the Nevada Test Site (NTS) presented in the Introduction to the Nevada Test Site Environmental Report 2007 (U.S. Department of Energy [DOE], 2008). Included are subsections that summarize the site's geological, hydrological, climatological, and ecological setting. The cultural resources of the NTS are also presented. The subsections are meant to aid the reader in understanding the complex physical and biological environment of the NTS. An adequate knowledge of the site's environment is necessary to assess the environmental impacts of new projects, design and implement environmental monitoring activities for current site operations, and assess the impacts of site operations on the public residing in the vicinity of the NTS. The NTS environment contributes to several key features of the site which afford protection to the inhabitants of adjacent areas from potential exposure to radioactivity or other contaminants resulting from NTS operations. These key features include the general remote location of the NTS, restricted access, extended wind transport times, the great depths to slow-moving groundwater, little or no surface water, and low population density. This attachment complements the annual summary of monitoring program activities and dose assessments presented in the main body of this report.

  5. Introduction to the Hanford Site

    Energy Technology Data Exchange (ETDEWEB)

    Cushing, C.E.

    1995-06-01

    This section of the 1994 Hanford Site Environmental Report discusses the Site mission and provides general information about the site. The U.S. DOE has established a new mission for Hanford including: Management of stored wastes, environmental restoration, research and development, and development of new technologies. The Hanford Reservation is located in south central Washington State just north of the confluence of the Snake and Yakima Rivers with the Columbia River. The approximately 1,450 square kilometers which comprises the Hanford Site, with restricted public access, provides a buffer for the smaller areas within the site which have historically been used for the production of nuclear materials, radioactive waste storage, and radioactive waste disposal.

  6. Site description of Forsmark at completion of the site investigation phase. SDM-Site Forsmark

    Energy Technology Data Exchange (ETDEWEB)

    2008-12-15

    The Swedish Nuclear Fuel and Waste Management Co., SKB, has undertaken site characterisation in two different areas, Forsmark and Laxemar-Simpevarp, in order to identify a suitable location for a geological repository of spent nuclear fuel according to the KBS-3 method. The site investigations have been conducted in campaigns, punctuated by data freezes. After each data freeze, the site data have been analysed and modelling has been carried out with the overall purpose to develop a site descriptive model (SDM). The site descriptive model is used by repository engineering to design the underground facility and to develop a repository layout adapted to the site. It is also essential for safety assessment, since the model is the only source for site-specific input. Another important use of the site descriptive model is in the environmental impact assessment. An SDM is an integrated model for geology, thermal properties, rock mechanics, hydrogeology, hydrogeochemistry, bedrock transport properties and a description of the surface system. The site descriptive model compiled in the current report, SDM-Site, presents an integrated understanding of the Forsmark area at the completion of the surface-based investigations, which were conducted at Forsmark during the period 2002 to 2007. It also provides a summary of the abundant underlying data and the discipline-specific models that support the site understanding. The description relies heavily on background reports that address, in particular, details in data analyses and modelling in the different disciplines. The Forsmark area is located in northern Uppland within the municipality of Oesthammar, about 120 km north of Stockholm. The candidate area for site investigation is located along the shoreline of Oeregrundsgrepen, within the north-western part of a major tectonic lens that formed between 1.87 and 1.85 billion years ago during the Svecokarelian orogeny. The candidate area is approximately 6 km long and 2 km wide. The

  7. Site description of Laxemar at completion of the site investigation phase. SDM-Site Laxemar

    Energy Technology Data Exchange (ETDEWEB)

    2009-12-15

    The Swedish Nuclear Fuel and Waste Management Company (SKB) has undertaken site characterisation in two different areas, Forsmark and Laxemar-Simpevarp, in order to identify a suitable location for a geological repository of spent nuclear fuel according to the KBS-3 method. The site investigations have been conducted in campaigns, punctuated by data freezes. After each data freeze, the site data have been analysed and modelling has been carried out with the overall purpose to develop a site descriptive model (SDM). The site descriptive model is used by repository engineering to design the underground facility and to develop a repository layout adapted to the site. It is also essential for safety assessment, since the SDM is the only source for site-specific input. Another important use of the site descriptive model is in the environmental impact assessment. An SDM is an integrated model of geology, thermal properties, rock mechanics, hydrogeology, hydrogeochemistry, bedrock transport properties and a description of the surface system. The site descriptive model compiled in the current report, SDM-Site Laxemar, presents an integrated understanding of the Laxemar-Simpevarp area (with special emphasis on the Laxemar subarea) at the completion of the surface-based investigations, which were conducted during the period 2002 to 2007. A summary is also provided of the abundant underlying data and the discipline specific models that support the site understanding. The description relies heavily on background reports that address, in particular, details of the data analyses and modelling of the different disciplines. The Laxemar-Simpevarp area is located in the province of Smaaland within the municipality of Oskarshamn, about 230 km south of Stockholm. The candidate area for site investigation is located along the shoreline of the strait of Kalmarsund, within a 1.8 billion year old suite of well preserved bedrock belonging to the Transscandinavian Igneous Belt formed during

  8. Web sites that work secrets from winning web sites

    CERN Document Server

    Smith, Jon

    2012-01-01

    Leading web site entrepreneur Jon Smith has condensed the secrets of his success into 52 inspiring ideas that even the most hopeless technophobe can implement. The brilliant tips and practical advice in Web sites that work will uplift and transform any website, from the simplest to the most complicated. It deals with everything from fundamentals such as how to assess the effectiveness of a website and how to get a site listed on the most popular search engines to more sophisticated challenges like creating a community and dealing with legal requirements. Straight-talking, practical and humorou

  9. 1992 Fernald Site Environmental Report

    Energy Technology Data Exchange (ETDEWEB)

    1993-06-01

    The Fernald site is a Department of Energy (DOE) owned facility that produced high-quality uranium metals for military defense for nearly 40 years. DOE suspended production at the Fernald site in 1989 and formally ended production in 1991. Although production activities have ceased, the site continues to examine the air and liquid pathways as possible routes through which pollutants from past operations and current remedial activities may leave the site. This report covers the reporting period from January 1, 1992, through December 31, 1992, with the exception of Chapter Three, which provides information from the first quarter of 1993 as well as calendar year 1992 information. This 1992 report provides the general public as well as scientists and engineers with the results from the site`s ongoing Environmental Monitoring Program. Use included in this report are summary data of the sampling conducted to determine if the site complies with DOE, US Environmental Protection Agency (USEPA), and Ohio EPA (OEPA) requirements. Finally, this report provides general information on the major waste management and environmental restoration activities during 1992.

  10. The 50 Constellation Priority Sites

    Science.gov (United States)

    Noble, S.; Joosten, K.; Eppler, D.; Gruener, J.; Mendell, W.; French, R.; Plescia, J.; Spudis, P.; Wargo, M.; Robinson, M.; Lucey, P.

    2009-01-01

    The Constellation program (CxP) has developed a list of 50 sites of interest on the Moon which will be targeted by the LRO narrow angle camera. The list has also been provided to the M team to supplement their targeting list. This list does not represent a "site selection" process; rather the goal was to find "representative" sites and terrains to understand the range of possible surface conditions for human lunar exploration to aid engineering design and operational planning. The list compilers leveraged heavily on past site selection work (e.g. Geoscience and a Lunar Base Workshop - 1988, Site Selection Strategy for a Lunar Outpost - 1990, Exploration Systems Architecture Study (ESAS) - 2005). Considerations included scientific, resource utilization, and operational merits, and a desire to span lunar terrain types. The targets have been organized into two "tiers" of 25 sites each to provide a relative priority ranking in the event of mutual interference. A LEAG SAT (special action team) was established to validate and recommend modifications to the list. This SAT was chaired by Dr. Paul Lucey. They provided their final results to CxP in May. Dr. Wendell Mendell will organize an on-going analysis of the data as they come down to ensure data quality and determine if and when a site has sufficient data to be retired from the list. The list was compiled using the best available data, however, it is understood that with the flood of new lunar data, minor modifications or adjustments may be required.

  11. Savannah River Site computing architecture

    Energy Technology Data Exchange (ETDEWEB)

    1991-03-29

    A computing architecture is a framework for making decisions about the implementation of computer technology and the supporting infrastructure. Because of the size, diversity, and amount of resources dedicated to computing at the Savannah River Site (SRS), there must be an overall strategic plan that can be followed by the thousands of site personnel who make decisions daily that directly affect the SRS computing environment and impact the site`s production and business systems. This plan must address the following requirements: There must be SRS-wide standards for procurement or development of computing systems (hardware and software). The site computing organizations must develop systems that end users find easy to use. Systems must be put in place to support the primary function of site information workers. The developers of computer systems must be given tools that automate and speed up the development of information systems and applications based on computer technology. This document describes a proposal for a site-wide computing architecture that addresses the above requirements. In summary, this architecture is standards-based data-driven, and workstation-oriented with larger systems being utilized for the delivery of needed information to users in a client-server relationship.

  12. Confidence assessment. Site-descriptive modelling SDM-Site Laxemar

    Energy Technology Data Exchange (ETDEWEB)

    2008-12-15

    The objective of this report is to assess the confidence that can be placed in the Laxemar site descriptive model, based on the information available at the conclusion of the surface-based investigations (SDM-Site Laxemar). In this exploration, an overriding question is whether remaining uncertainties are significant for repository engineering design or long-term safety assessment and could successfully be further reduced by more surface-based investigations or more usefully by explorations underground made during construction of the repository. Procedures for this assessment have been progressively refined during the course of the site descriptive modelling, and applied to all previous versions of the Forsmark and Laxemar site descriptive models. They include assessment of whether all relevant data have been considered and understood, identification of the main uncertainties and their causes, possible alternative models and their handling, and consistency between disciplines. The assessment then forms the basis for an overall confidence statement. The confidence in the Laxemar site descriptive model, based on the data available at the conclusion of the surface based site investigations, has been assessed by exploring: - Confidence in the site characterization data base, - remaining issues and their handling, - handling of alternatives, - consistency between disciplines and - main reasons for confidence and lack of confidence in the model. Generally, the site investigation database is of high quality, as assured by the quality procedures applied. It is judged that the Laxemar site descriptive model has an overall high level of confidence. Because of the relatively robust geological model that describes the site, the overall confidence in the Laxemar Site Descriptive model is judged to be high, even though details of the spatial variability remain unknown. The overall reason for this confidence is the wide spatial distribution of the data and the consistency between

  13. Genomic rearrangements at the FRA2H common fragile site frequently involve non-homologous recombination events across LTR and L1(LINE) repeats.

    Science.gov (United States)

    Brueckner, Lena M; Sagulenko, Evgeny; Hess, Elisa M; Zheglo, Diana; Blumrich, Anne; Schwab, Manfred; Savelyeva, Larissa

    2012-08-01

    Common fragile sites (cFSs) are non-random chromosomal regions that are prone to breakage under conditions of replication stress. DNA damage and chromosomal alterations at cFSs appear to be critical events in the development of various human diseases, especially carcinogenesis. Despite the growing interest in understanding the nature of cFS instability, only a few cFSs have been molecularly characterised. In this study, we fine-mapped the location of FRA2H using six-colour fluorescence in situ hybridisation and showed that it is one of the most active cFSs in the human genome. FRA2H encompasses approximately 530 kb of a gene-poor region containing a novel large intergenic non-coding RNA gene (AC097500.2). Using custom-designed array comparative genomic hybridisation, we detected gross and submicroscopic chromosomal rearrangements involving FRA2H in a panel of 54 neuroblastoma, colon and breast cancer cell lines. The genomic alterations frequently involved different classes of long terminal repeats and long interspersed nuclear elements. An analysis of breakpoint junction sequence motifs predominantly revealed signatures of microhomology-mediated non-homologous recombination events. Our data provide insight into the molecular structure of cFSs and sequence motifs affected by their activation in cancer. Identifying cFS sequences will accelerate the search for DNA biomarkers and targets for individualised therapies.

  14. 2006 Johnston Site 6P

    Data.gov (United States)

    US Fish and Wildlife Service, Department of the Interior — Underwater Site 6P was established at Johnston Atoll by Dr. James Maragos, U.S. Fish & Wildlife Service, on July 3, 2000. With a start point (meter 0) at...

  15. Topical Day on Site Remediation

    Energy Technology Data Exchange (ETDEWEB)

    Vandenhove, H. [ed.

    1996-09-18

    Ongoing activities at the Belgian Nuclear Research Centre relating to site remediation and restoration are summarized. Special attention has been paid to the different phases of remediation including characterization, impact assessment, evaluation of remediation actions, and execution of remediation actions.

  16. Sprucing up the site - update

    CERN Multimedia

    2009-01-01

    As mentioned in a previous article the Bulletin will be publishing regular short updates following the consolidation work going on around the CERN sites: All internal lighting is being replaced in the office buildings on the Prevessin site. Work has started in building 866 and will move to 864 and 865 later. New energy-efficient lights are being installed, which will reduce electricity consumption by 30 -50%, and in the common areas like corridors the lighting will be switched on by motion sensors. Also in the Prevessin site, the lines in the car parks are being repainted. This will continue in the Meyrin site later. Work has started in Building 30 to completely refurbish the AT Auditorium.

  17. Hanford Site Environmental Report 1999

    Energy Technology Data Exchange (ETDEWEB)

    TM Poston; RW Hanf; RL Dirkes

    2000-09-28

    This Hanford Site environmental report is prepared annually to summarize environmental data and information, to describe environmental management performance, to demonstrate the status of compliance with environmental regulations, and to highlight major environmental programs and efforts. The report is written to meet requirements and guidelines of the U.S. Department of Energy (DOE) and to meet the needs of the public. This summary has been written with a minimum of technical terminology. Individual sections of the report are designed to: (1) describe the Hanford Site and its mission; (2) summarize the status of compliance with environmental regulations; (3) describe the environmental programs at the Hanford Site; (4) discuss the estimated radionuclide exposure to the public from 1999 Hanford Site activities; (5) present the effluent monitoring, environmental surveillance, groundwater protection and monitoring information; and (6) discuss the activities to ensure quality.

  18. Sensitive Sites - OSPR [ds358

    Data.gov (United States)

    California Department of Resources — The data was created by reviewing the information contained in the Site Summaries of the Area Contingency Plan (ACP) section 9800. A summary of the document is: "The...

  19. 2002 Rose Site 7P

    Data.gov (United States)

    US Fish and Wildlife Service, Department of the Interior — Underwater Site 7P was established off Rose Atoll, American Samoa by Dr. James Maragos, U.S. Fish & Wildlife Service, on February 24, 2002. With a start point...

  20. 2000 Johnston Site 4P

    Data.gov (United States)

    US Fish and Wildlife Service, Department of the Interior — Underwater Site 4P was established at Johnston Atoll by Dr. James Maragos, U.S. Fish & Wildlife Service, on July 1, 2000. With a start point (meter 0) at...

  1. 2000 Johnston Site 6P

    Data.gov (United States)

    US Fish and Wildlife Service, Department of the Interior — Underwater Site 6P was established at Johnston Atoll by Dr. James Maragos, U.S. Fish & Wildlife Service, on July 3, 2000. With a start point (meter 0) at...

  2. 2000 Johnston Site 5P

    Data.gov (United States)

    US Fish and Wildlife Service, Department of the Interior — Underwater Site 5P was established at Johnston Atoll by Dr. James Maragos, U.S. Fish & Wildlife Service, on July 2, 2000. With a start point (meter 0) at...

  3. 2004 Rose Site 29P

    Data.gov (United States)

    US Fish and Wildlife Service, Department of the Interior — Underwater Site 29P was established off Rose Atoll, American Samoa by Dr. James Maragos, U.S. Fish & Wildlife Service, on July 31, 2004. With a start point...

  4. 2005 Rose Site 26P

    Data.gov (United States)

    US Fish and Wildlife Service, Department of the Interior — Underwater Site 26P was established off Rose Atoll, American Samoa by Dr. James Maragos, U.S. Fish (5) = between meters 4 and 5). Quantitative analysis of the...

  5. 2012 Rose Site 23P

    Data.gov (United States)

    US Fish and Wildlife Service, Department of the Interior — Underwater Site 23P was established off Rose Atoll, American Samoa by Dr. James Maragos, U.S. Fish & Wildlife Service, on February 10, 2004. With a start point...

  6. 2004 Rose Site 28P

    Data.gov (United States)

    US Fish and Wildlife Service, Department of the Interior — Underwater Site 28P was established off Rose Atoll, American Samoa by Dr. James Maragos, U.S. Fish & Wildlife Service, on July 29, 2004. With a start point...

  7. 2004 Rose Site 30P

    Data.gov (United States)

    US Fish and Wildlife Service, Department of the Interior — Underwater Site 30P was established off Rose Atoll, American Samoa by Dr. James Maragos, U.S. Fish & Wildlife Service, on July 29, 2004. With a start point...

  8. Runway Arrested Landing Site (RALS)

    Data.gov (United States)

    Federal Laboratory Consortium — The Runway Arrested Landing Site includes an underground complex located on a Mod 2, Mod 3, and Mod 3+ arresting gear and are located under the runway and accurately...

  9. 2005 Rose Site 31P

    Data.gov (United States)

    US Fish and Wildlife Service, Department of the Interior — Underwater Site 31P was established off Rose Atoll, American Samoa by Dr. James Maragos, U.S. Fish (5) = between meters 4 and 5). Quantitative analysis of the...

  10. 2012 Rose Site 26P

    Data.gov (United States)

    US Fish and Wildlife Service, Department of the Interior — Underwater Site 26P was established off Rose Atoll, American Samoa by Dr. James Maragos, U.S. Fish & Wildlife Service, on July 29, 2004. With a start point...

  11. 2012 Rose Site 29P

    Data.gov (United States)

    US Fish and Wildlife Service, Department of the Interior — Underwater Site 29P was established off Rose Atoll, American Samoa by Dr. James Maragos, U.S. Fish & Wildlife Service, on July 31, 2004. With a start point...

  12. Drug Establishments Current Registration Site

    Data.gov (United States)

    U.S. Department of Health & Human Services — The Drug Establishments Current Registration Site (DECRS) is a database of current information submitted by drug firms to register establishments (facilities) which...

  13. 2004 Rose Site 23P

    Data.gov (United States)

    US Fish and Wildlife Service, Department of the Interior — Underwater Site 23P was established off Rose Atoll, American Samoa by Dr. James Maragos, U.S. Fish & Wildlife Service, on February 10, 2004. With a start point...

  14. 2004 Rose Site 4P

    Data.gov (United States)

    US Fish and Wildlife Service, Department of the Interior — Underwater Site 4P was established off Rose Atoll, American Samoa by Dr. James Maragos, U.S. Fish & Wildlife Service, on February 9, 2004. With a start point...

  15. 2012 Rose Site 4P

    Data.gov (United States)

    US Fish and Wildlife Service, Department of the Interior — Underwater Site 4P was established off Rose Atoll, American Samoa by Dr. James Maragos, U.S. Fish & Wildlife Service, on February 9, 2004. With a start point...

  16. Hanford Site 1998 Environmental Report

    Energy Technology Data Exchange (ETDEWEB)

    RL Dirkes; RW Hanf; TM Poston

    1999-09-21

    This Hanford Site environmental report is prepared annually to summarize environmental data and information, to describe environmental management performance, to demonstrate the status of compliance with environmental regulations, and to highlight major environmental programs and efforts. The report is written to meet requirements and guidelines of the U.S. Department of Energy (DOE) and to meet the needs of the public. This summary has been written with a minimum of technical terminology. Individual sections of the report are designed to: describe the Hanford Site and its mission; summarize the status of compliance with environmental regulations; describe the environmental programs at the Hanford Site; discuss the estimated radionuclide exposure to the public from 1998 Hanford Site activities; present the effluent monitoring, environmental surveillance, and groundwater protection and monitoring information; and discuss the activities to ensure quality.

  17. Site Specific Weed Control Technologies

    DEFF Research Database (Denmark)

    Christensen, Svend; Søgaard, Henning Tangen; Kudsk, Per;

    2009-01-01

    describe the basic parts of site specific weed control technologies, comprising of weed sensing systems, weed management models and precision weed control implements. A review of state-of-the-art technologies shows that several weed sensing systems and precision implements have been developed over the last...... of knowledge about the economic and environmental potential for increasing the resolution of weed control. The integration of site-specific information on weed distribution, weed species composition and density, and the effect on crop yield, is decisive for successful site-specific weed management.   Keywords......Site-specific weed control technologies are defined as machinery or equipment embedded with technologies that detect weeds growing in a crop and, taking into account predefined factors such as economics, takes action to maximise the chances of successfully controlling them. In the article, we...

  18. Site Environmental Report for 2014

    Energy Technology Data Exchange (ETDEWEB)

    Pauer, Ronald O. [Lawrence Berkeley National Lab. (LBNL), Berkeley, CA (United States); Baskin, David [Lawrence Berkeley National Lab. (LBNL), Berkeley, CA (United States); Borglin, Ned [Lawrence Berkeley National Lab. (LBNL), Berkeley, CA (United States); Fox, Robert [Lawrence Berkeley National Lab. (LBNL), Berkeley, CA (United States); Harvey, Zachary [Lawrence Berkeley National Lab. (LBNL), Berkeley, CA (United States); Jelinski, John [Lawrence Berkeley National Lab. (LBNL), Berkeley, CA (United States); Thorson, Patrick [Lawrence Berkeley National Lab. (LBNL), Berkeley, CA (United States); Wehle, Petra [Lawrence Berkeley National Lab. (LBNL), Berkeley, CA (United States); Xu, Suying [Lawrence Berkeley National Lab. (LBNL), Berkeley, CA (United States)

    2015-09-01

    The annual Site Environmental Report documents Lawrence Berkeley National Laboratory’s performance in reducing its environmental impacts, progress toward cleaning up groundwater contamination, and compliance with applicable Department of Energy, federal, state, and local environmental regulations.

  19. 2012 Rose Site 7P

    Data.gov (United States)

    US Fish and Wildlife Service, Department of the Interior — Underwater Site 7P was established off Rose Atoll, American Samoa by Dr. James Maragos, U.S. Fish & Wildlife Service, on February 24, 2002. With a start point...

  20. 2005 Rose Site 13P

    Data.gov (United States)

    US Fish and Wildlife Service, Department of the Interior — Underwater Site 13P was established off Rose Atoll, American Samoa by Dr. James Maragos, U.S. Fish (5) = between meters 4 and 5). Quantitative analysis of the...

  1. 2004 Rose Site 5P

    Data.gov (United States)

    US Fish and Wildlife Service, Department of the Interior — Underwater Site 5P was established off Rose Atoll, American Samoa by Dr. James Maragos, U.S. Fish & Wildlife Service, on February 20, 2002. With a start point...

  2. 2006 Rose Site 26P

    Data.gov (United States)

    US Fish and Wildlife Service, Department of the Interior — Underwater Site 26P was established off Rose Atoll, American Samoa by Dr. James Maragos, U.S. Fish & Wildlife Service, on July 29, 2004. With a start point...

  3. State Cancer Profiles Web site

    Data.gov (United States)

    U.S. Department of Health & Human Services — The State Cancer Profiles (SCP) web site provides statistics to help guide and prioritize cancer control activities at the state and local levels. SCP is a...

  4. The Table Mountain Field Site

    Data.gov (United States)

    Federal Laboratory Consortium — The Table Mountain Field Site, located north of Boulder, Colorado, is designated as an area where the magnitude of strong, external signals is restricted (by State...

  5. 2004 Rose Site 32P

    Data.gov (United States)

    US Fish and Wildlife Service, Department of the Interior — Underwater Site 32P was established off Rose Atoll, American Samoa by Dr. James Maragos, U.S. Fish & Wildlife Service, on August 2, 2004. With a start point...

  6. 2004 Rose Site 14P

    Data.gov (United States)

    US Fish and Wildlife Service, Department of the Interior — Underwater Site 14P was established off Rose Atoll, American Samoa by Dr. James Maragos, U.S. Fish & Wildlife Service, on February 25, 2002. With a start point...

  7. 2012 Rose Site 32P

    Data.gov (United States)

    US Fish and Wildlife Service, Department of the Interior — Underwater Site 32P was established off Rose Atoll, American Samoa by Dr. James Maragos, U.S. Fish & Wildlife Service, on August 2, 2004. With a start point...

  8. 2005 Rose Site 27P

    Data.gov (United States)

    US Fish and Wildlife Service, Department of the Interior — Underwater Site 27P was established off Rose Atoll, American Samoa by Dr. James Maragos, U.S. Fish (5) = between meters 4 and 5). Quantitative analysis of the...

  9. 2004 Rose Site 26P

    Data.gov (United States)

    US Fish and Wildlife Service, Department of the Interior — Underwater Site 26P was established off Rose Atoll, American Samoa by Dr. James Maragos, U.S. Fish & Wildlife Service, on July 29, 2004. With a start point...

  10. 2012 Rose Site 28P

    Data.gov (United States)

    US Fish and Wildlife Service, Department of the Interior — Underwater Site 28P was established off Rose Atoll, American Samoa by Dr. James Maragos, U.S. Fish & Wildlife Service, on July 29, 2004. With a start point...

  11. 2012 Rose Site 14P

    Data.gov (United States)

    US Fish and Wildlife Service, Department of the Interior — Underwater Site 14P was established off Rose Atoll, American Samoa by Dr. James Maragos, U.S. Fish & Wildlife Service, on February 25, 2002. With a start point...

  12. 2004 Rose Site 7P

    Data.gov (United States)

    US Fish and Wildlife Service, Department of the Interior — Underwater Site 7P was established off Rose Atoll, American Samoa by Dr. James Maragos, U.S. Fish & Wildlife Service, on February 24, 2002. With a start point...

  13. 2002 Rose Site 5P

    Data.gov (United States)

    US Fish and Wildlife Service, Department of the Interior — Underwater Site 5P was established off Rose Atoll, American Samoa by Dr. James Maragos, U.S. Fish & Wildlife Service, on February 20, 2002. With a start point...

  14. 2006 Rose Site 29P

    Data.gov (United States)

    US Fish and Wildlife Service, Department of the Interior — Underwater Site 29P was established off Rose Atoll, American Samoa by Dr. James Maragos, U.S. Fish & Wildlife Service, on July 31, 2004. With a start point...

  15. Site environmental report for 1994

    Energy Technology Data Exchange (ETDEWEB)

    Brekke, D.D.; Holland, R.C.; Gordon, K.W. [ed.

    1995-12-01

    Sandia National Laboratories (SNL) is committed to conducting its operations in an environmentally safe and sound manner. It is mandatory that activities at SNL/California comply with all applicable environmental statutes, regulations, and standards. Moreover, SNL/California continuously strives to reduce risks to employees, the public, and the environment to the lowest levels reasonably possible. To help verify effective protection of public safety and preservation of the environment, SNL/California maintains an extensive, ongoing environmental monitoring program. This program monitors all significant airborne and liquid effluents and the environment at the SNL/California site perimeter. Lawrence Livermore National Laboratory (LLNL) performs off-site environmental monitoring for both sites. These monitoring efforts ensure that emission controls are effective in preventing contamination of the environment. As part of SNL/California`s Environmental Monitoring Program, an environmental surveillance system measures the possible presence of radioactive and hazardous materials in ambient air, surface water, groundwater, sewage, soil, vegetation, and locally-produced food-stuffs. The program also includes an extensive environmental dosimetry program, which measures external radiation levels around the Livermore site and nearby vicinity. Each year, the results of the Environmental Monitoring Program are published in this report, the Site Environmental Report This executive summary focuses on impacts to the environment and estimated radiation doses to the public from site emissions. Chapter 3, {open_quotes}Compliance Summary,{close_quotes} reviews the site`s various environmental protection activities and compliance status with applicable environmental regulations. The effluent monitoring and environmental surveillance results for 1994 show that SNL/California operations had no harmful effects on the environment or the public. A summary of the findings is provided below.

  16. Uncertainties in Site Amplification Estimation

    Science.gov (United States)

    Cramer, C. H.; Bonilla, F.; Hartzell, S.

    2004-12-01

    Typically geophysical profiles (layer thickness, velocity, density, Q) and dynamic soil properties (modulus and damping versus strain curves) are used with appropriate input ground motions in a soil response computer code to estimate site amplification. Uncertainties in observations can be used to generate a distribution of possible site amplifications. The biggest sources of uncertainty in site amplifications estimates are the uncertainties in (1) input ground motions, (2) shear-wave velocities (Vs), (3) dynamic soil properties, (4) soil response code used, and (5) dynamic pore pressure effects. A study of site amplification was conducted for the 1 km thick Mississippi embayment sediments beneath Memphis, Tennessee (see USGS OFR 04-1294 on the web). In this study, the first three sources of uncertainty resulted in a combined coefficient of variation of 10 to 60 percent. The choice of soil response computer program can lead to uncertainties in median estimates of +/- 50 percent. Dynamic pore pressure effects due to the passing of seismic waves in saturated soft sediments are normally not considered in site-amplification studies and can contribute further large uncertainties in site amplification estimates. The effects may range from dilatancy and high-frequency amplification (such as observed at some sites during the 1993 Kushiro-Oki, Japan and 2001 Nisqually, Washington earthquakes) or general soil failure and deamplification of ground motions (such as observed at Treasure Island during the 1989 Loma Prieta, California earthquake). Examples of two case studies using geotechnical data for downhole arrays in Kushiro, Japan and the Wildlife Refuge, California using one dynamic code, NOAH, will be presented as examples of modeling uncertainties associated with these effects. Additionally, an example of inversion for estimates of in-situ dilatancy-related geotechnical modeling parameters will be presented for the Kushiro, Japan site.

  17. The Hanford Site focus, 1994

    Energy Technology Data Exchange (ETDEWEB)

    Peterson, J.M.

    1994-03-01

    This report describes what the Hanford Site will look like in the next two years. We offer thumbnail sketches of Hanford Site programs and the needs we are meeting through our efforts. We describe our goals, some recent accomplishments, the work we will do in fiscal year (FY) 1994, the major activities the FY 1995 budget request covers, and the economic picture in the next few years. The Hanford Site budget shows the type of work being planned. US Department of Energy (DOE) sites like the Hanford Site use documents called Activity Data Sheets to meet this need. These are building blocks that are included in the budget. Each Activity Data Sheet is a concise (usually 4 or 5 pages) summary of a piece of work funded by the DOE`s Environmental Restoration and Waste Management budget. Each sheet describes a waste management or environmental restoration need over a 5-year period; related regulatory requirements and agreements; and the cost, milestones, and steps proposed to meet the need. The Hanford Site is complex and has a huge budget, and its Activity Data Sheets run to literally thousands of pages. This report summarizes the Activity Data Sheets in a less detailed and much more reader-friendly fashion.

  18. Hanford Site environmental management specification

    Energy Technology Data Exchange (ETDEWEB)

    Grygiel, M.L.

    1998-06-10

    The US Department of Energy, Richland Operations Office (RL) uses this Hanford Site Environmental Management Specification (Specification) to document top-level mission requirements and planning assumptions for the prime contractors involved in Hanford Site cleanup and infrastructure activities under the responsibility of the US Department of Energy, Office of Environmental Management. This Specification describes at a top level the activities, facilities, and infrastructure necessary to accomplish the cleanup of the Hanford Site and assigns this scope to Site contractors and their respective projects. This Specification also references the key National Environmental Policy Act of 1969 (NEPA), Comprehensive Environmental Response, Compensation, and Liability Act of 1980 (CERCLA), and safety documentation necessary to accurately describe the cleanup at a summary level. The information contained in this document reflects RL`s application of values, priorities, and critical success factors expressed by those involved with and affected by the Hanford Site project. The prime contractors and their projects develop complete baselines and work plans to implement this Specification. These lower-level documents and the data that support them, together with this Specification, represent the full set of requirements applicable to the contractors and their projects. Figure 1-1 shows the relationship of this Specification to the other basic Site documents. Similarly, the documents, orders, and laws referenced in this specification represent only the most salient sources of requirements. Current and contractual reference data contain a complete set of source documents.

  19. Site Environmental Report for 1998

    Energy Technology Data Exchange (ETDEWEB)

    Holland, R.C.

    1999-06-01

    Sandia National Laboratories (SNL) is committed to conducting its operations in an environmentally safe and sound manner. It is mandatory that activities at SNL/California comply with all applicable environmental statutes, regulations, and standards. Moreover, SNL/California continuously strives to reduce risks to employees, the public, and the environment to the lowest levels reasonably possible. To help verify effective protection of public safety and preservation of the environment, SNL/California maintains an extensive, ongoing environmental monitoring program. This program monitors all significant effluents and the environment at the SNL/California site perimeter. Lawrence Livermore National Laboratory (LLNL) performs off-site external radiation monitoring for both sites. These monitoring efforts ensure that emission controls are effective in preventing contamination of the environment. As part of SNL/California's Environmental Monitoring Program, an environmental surveillance system measures the possible presence of hazardous materials in groundwater, stormwater, and sewage. The program also includes an extensive environmental dosimetry program, which measures external radiation levels around the Livermore site and nearby vicinity. Each year, the results of the Environmental Monitoring Program are published in this report, the Site Environmental Report. This executive summary focuses on impacts to the environment. Chapter 3, ''Compliance Summary,'' reviews the site's various environmental protection activities and compliance status with applicable environmental regulations. The effluent monitoring and environmental surveillance results for 1998 show that SNL/California operations had no harmful effects on the environment or the public.

  20. Savannah River Site computing architecture

    Energy Technology Data Exchange (ETDEWEB)

    1991-03-29

    A computing architecture is a framework for making decisions about the implementation of computer technology and the supporting infrastructure. Because of the size, diversity, and amount of resources dedicated to computing at the Savannah River Site (SRS), there must be an overall strategic plan that can be followed by the thousands of site personnel who make decisions daily that directly affect the SRS computing environment and impact the site's production and business systems. This plan must address the following requirements: There must be SRS-wide standards for procurement or development of computing systems (hardware and software). The site computing organizations must develop systems that end users find easy to use. Systems must be put in place to support the primary function of site information workers. The developers of computer systems must be given tools that automate and speed up the development of information systems and applications based on computer technology. This document describes a proposal for a site-wide computing architecture that addresses the above requirements. In summary, this architecture is standards-based data-driven, and workstation-oriented with larger systems being utilized for the delivery of needed information to users in a client-server relationship.

  1. Nevada Test Site Environmental Report 2009, Attachment A: Site Description

    Energy Technology Data Exchange (ETDEWEB)

    Cathy Wills, ed.

    2010-09-13

    This attachment expands on the general description of the Nevada Test Site (NTS) presented in the Introduction to the Nevada Test Site Environmental Report 2009. Included are subsections that summarize the site’s geological, hydrological, climatological, and ecological setting. The cultural resources of the NTS are also presented. The subsections are meant to aid the reader in understanding the complex physical and biological environment of the NTS. An adequate knowledge of the site’s environment is necessary to assess the environmental impacts of new projects, design and implement environmental monitoring activities for current site operations, and assess the impacts of site operations on the public residing in the vicinity of the NTS. The NTS environment contributes to several key features of the site that afford protection to the inhabitants of adjacent areas from potential exposure to radioactivity or other contaminants resulting from NTS operations. These key features include the general remote location of the NTS, restricted access, extended wind transport times, the great depths to slow-moving groundwater, little or no surface water, and low population density. This attachment complements the annual summary of monitoring program activities and dose assessments presented in the main body of this report.

  2. Nevada Test Site Environmental Report 2008 Attachment A: Site Description

    Energy Technology Data Exchange (ETDEWEB)

    Cathy A. Wills

    2009-09-01

    This attachment expands on the general description of the Nevada Test Site (NTS) presented in the Introduction to the Nevada Test Site Environmental Report 2008 (National Security Technologies, LLC [NSTec], 2009a). Included are subsections that summarize the site’s geological, hydrological, climatological, and ecological setting. The cultural resources of the NTS are also presented. The subsections are meant to aid the reader in understanding the complex physical and biological environment of the NTS. An adequate knowledge of the site’s environment is necessary to assess the environmental impacts of new projects, design and implement environmental monitoring activities for current site operations, and assess the impacts of site operations on the public residing in the vicinity of the NTS. The NTS environment contributes to several key features of the site that afford protection to the inhabitants of adjacent areas from potential exposure to radioactivity or other contaminants resulting from NTS operations. These key features include the general remote location of the NTS, restricted access, extended wind transport times, the great depths to slow-moving groundwater, little or no surface water, and low population density. This attachment complements the annual summary of monitoring program activities and dose assessments presented in the main body of this report.

  3. Instrumentation for CTA site characterization

    CERN Document Server

    Fruck, Christian; Ernenwein, Jean-Pierre; Mandát, Dušan; Schweizer, Thomas; Häfner, Dennis; Bulik, Tomasz; Cieslar, Marek; Costantini, Heide; Dominik, Michal; Ebr, Jan; Garczarczyk, Markus; Lorentz, Eckart; Pareschi, Giovanni; Pech, Miroslav; Puerto-Giménez, Irene; Teshima, Masahiro

    2015-01-01

    Many atmospheric and climatic criteria have to be taken into account for the selection of a suitable site for the next generation of imaging air-shower Cherenkov telescopes, the "Cherenkov Telescope Array" CTA. Such data are not available with sufficient precision or the comparability to allow for a comprehensive characterization of the proposed sites to be made. Identical cross-calibrated instruments have been developed which allow for precise comparison between sites, the cross-validation of existing data, and the ground-validation of satellite data. The site characterization work package of the CTA consortium opted to construct and deploy 9 copies of an autonomous multi-purpose weather sensor, incorporating an infrared cloud sensor a newly developed sensor for measuring the light of the night sky, and an All-Sky-Camera, the whole referred to as Autonomous Tool for Measuring Observatory Site COnditions PrEcisely (ATMOSCOPE). We present here the hardware that was combined into the ATMOSCOPE and characterize ...

  4. Site description of Forsmark at completion of the site investigation phase. SDM-Site Forsmark

    Energy Technology Data Exchange (ETDEWEB)

    2008-12-15

    The Swedish Nuclear Fuel and Waste Management Co., SKB, has undertaken site characterisation in two different areas, Forsmark and Laxemar-Simpevarp, in order to identify a suitable location for a geological repository of spent nuclear fuel according to the KBS-3 method. The site investigations have been conducted in campaigns, punctuated by data freezes. After each data freeze, the site data have been analysed and modelling has been carried out with the overall purpose to develop a site descriptive model (SDM). The site descriptive model is used by repository engineering to design the underground facility and to develop a repository layout adapted to the site. It is also essential for safety assessment, since the model is the only source for site-specific input. Another important use of the site descriptive model is in the environmental impact assessment. An SDM is an integrated model for geology, thermal properties, rock mechanics, hydrogeology, hydrogeochemistry, bedrock transport properties and a description of the surface system. The site descriptive model compiled in the current report, SDM-Site, presents an integrated understanding of the Forsmark area at the completion of the surface-based investigations, which were conducted at Forsmark during the period 2002 to 2007. It also provides a summary of the abundant underlying data and the discipline-specific models that support the site understanding. The description relies heavily on background reports that address, in particular, details in data analyses and modelling in the different disciplines. The Forsmark area is located in northern Uppland within the municipality of Oesthammar, about 120 km north of Stockholm. The candidate area for site investigation is located along the shoreline of Oeregrundsgrepen, within the north-western part of a major tectonic lens that formed between 1.87 and 1.85 billion years ago during the Svecokarelian orogeny. The candidate area is approximately 6 km long and 2 km wide. The

  5. Site description of Laxemar at completion of the site investigation phase. SDM-Site Laxemar

    Energy Technology Data Exchange (ETDEWEB)

    2009-12-15

    The Swedish Nuclear Fuel and Waste Management Company (SKB) has undertaken site characterisation in two different areas, Forsmark and Laxemar-Simpevarp, in order to identify a suitable location for a geological repository of spent nuclear fuel according to the KBS-3 method. The site investigations have been conducted in campaigns, punctuated by data freezes. After each data freeze, the site data have been analysed and modelling has been carried out with the overall purpose to develop a site descriptive model (SDM). The site descriptive model is used by repository engineering to design the underground facility and to develop a repository layout adapted to the site. It is also essential for safety assessment, since the SDM is the only source for site-specific input. Another important use of the site descriptive model is in the environmental impact assessment. An SDM is an integrated model of geology, thermal properties, rock mechanics, hydrogeology, hydrogeochemistry, bedrock transport properties and a description of the surface system. The site descriptive model compiled in the current report, SDM-Site Laxemar, presents an integrated understanding of the Laxemar-Simpevarp area (with special emphasis on the Laxemar subarea) at the completion of the surface-based investigations, which were conducted during the period 2002 to 2007. A summary is also provided of the abundant underlying data and the discipline specific models that support the site understanding. The description relies heavily on background reports that address, in particular, details of the data analyses and modelling of the different disciplines. The Laxemar-Simpevarp area is located in the province of Smaaland within the municipality of Oskarshamn, about 230 km south of Stockholm. The candidate area for site investigation is located along the shoreline of the strait of Kalmarsund, within a 1.8 billion year old suite of well preserved bedrock belonging to the Transscandinavian Igneous Belt formed during

  6. Attract Visitors to Your Site

    CERN Document Server

    MacDonald, Matthew

    2010-01-01

    To be a success, a website has to attract-and keep--visitors. This Mini Missing Manual shows you how to attract new and return visitors and use the power of keywords and Web search engines to rise up in the rankings of search results. You'll also learn how to use a powerful-and free--service that tracks visitor activity on your site so you know which of your Web pages they love, and-just as important--which pages don't work for them. Using this information, you can fine-tune your site to keep the visitors coming. This Mini Missing Manual is excerpted from Creating a Web Site: The Missing Man

  7. Hanford Site Environmental Report 1993

    Energy Technology Data Exchange (ETDEWEB)

    Dirkes, R.L.; Hanf, R.W.; Woodruff, R.K. [eds.

    1994-06-01

    The Hanford Site Environmental Report is prepared annually to summarize environmental data and information, describe environmental management performance, and demonstrate the status of compliance with environmental regulations. The report also highlights major environmental programs and efforts. The report is written to meet reporting requirements and Guidelines of the U.S. Department of Energy (DOE) an to meet the needs of the public. This summary has been written with a minimum of technical terminology. Individual sections of the report are designed to (a) describe the Hanford Site and its mission, (b) summarize the status in 1993 of compliance with environmental regulations, (c) describe the environmental programs at the Hanford Site, (d) discuss estimated radionuclide exposure to the public from 1993 Hanford activities, (e) present information on effluent monitoring and environmental surveillance, including ground-water protection and monitoring, (f) discuss activities to ensure quality. More detailed information can be found in the body of the report, the appendixes, and the cited references.

  8. Pathfinder landing sites at candidate SNC impact ejection sites

    Science.gov (United States)

    Golombek, Matthew P.

    1994-01-01

    If Mars Pathfinder were able to land at a site on Mars from which the SNC meteorites were ejected by impact, the Pathfinder mission would essentially represent a very inexpensive sample return mission. Geologic units that contain four potential impact craters from which SNC meteorites could have been ejected from Mars are accessible to the Mars Pathfinder lander. Determining that SNC meteorites came from a particular spot on Mars raises the intriguing possibility of using Pathfinder as a sample return mission and providing a radiometric age for the considerably uncertain martian crater-age timescale. Pathfinder instruments are capable of determining if the rock type at the landing site is similar to that of one or more of the SNC meteorites, which would strengthen the hypothesis that the SNC meteorites did, in fact, come from Mars. Unfortunately, instrument observations from Pathfinder are probably not capable of determining if the geologic unit sampled by the lander is definitively the unit from which a SNC meteorite came from as opposed to Mars in general or perhaps a particular region on Mars. This abstract evaluates the possibility of landing at potential SNC ejection sites and the ability of Pathfinder to identify the landing site as the place from which an SNC meteorite came.

  9. Soil gas waste site screening at the Savannah River Site

    Energy Technology Data Exchange (ETDEWEB)

    Wyatt, D.E.; Looney, B.B.; Price, V.; Richers, D.M. [Westinghouse Savannah River Co., Aiken, SC (United States); Pirkle, R.J. [Microseeps, Pittsburgh, PA (United States)

    1993-10-01

    The environmental restoration effort at Savannah River Site (SRS) has utilized soil gas sampling as a principal method for screening and characterizing waste sites. More than 98 waste sites have been evaluated using this technology at scattered locations across the 310 square mile area of the facility, generating over 6,000 soil gas samples arranged in clustered data sets of 25 to 2,000 samples each. Additionally, a regional background survey of soil gases has been carried out over a 500 square mile area which includes the SRS for the purpose of determining the background concentrations of species of interest which relate to waste site investigations. Although selected waste sites have been sampled using a Geoprobe soil gas sampling system to depths of 25 feet, for the most part the soil gas studies at SRS have been carried out at a depth of about 3 feet. In many cases this depth is several feet above the depth of waste burial. A series of ``groundsheet`` studies have been carried out which reveal that barometric pumping is the mechanism which is responsible for the presence near the surface of volatile components of the more deeply buried waste. These studies found that barometric pumping causes soil gases containing volatile contaminants to migrate through the ground surface into the atmosphere. The surveys monitored the presence of the C{sub 1}--C{sub 4} hydrocarbons, the C{sub 5}--C{sub 10} normal paraffins, the gasoline range aromatics (BTEX), and selected chlorinated hydrocarbons. In a large majority of the shallow surveys conducted, a free-gas method of soil gas technology was employed in which the soil gas sample was obtained directly from the pore space. At selected waste sites, soil cores were taken and soil gas was analyzed from a portion of the heated headspace over a soil/water slurry. At most waste sites, shallow (1 foot) soil cores were taken and analyzed for soil mercury using a pyrolysis screening technique commonly used in the minerals industry.

  10. Linking snow depth to avalanche release area size: measurements from the Vallée de la Sionne field site

    Science.gov (United States)

    Veitinger, Jochen; Sovilla, Betty

    2016-08-01

    One of the major challenges in avalanche hazard assessment is the correct estimation of avalanche release area size, which is of crucial importance to evaluate the potential danger that avalanches pose to roads, railways or infrastructure. Terrain analysis plays an important role in assessing the potential size of avalanche releases areas and is commonly based on digital terrain models (DTMs) of a snow-free summer terrain. However, a snow-covered winter terrain can significantly differ from its underlying, snow-free terrain. This may lead to different, and/or potentially larger release areas. To investigate this hypothesis, the relation between avalanche release area size, snow depth and surface roughness was investigated using avalanche observations of artificially triggered slab avalanches over a period of 15 years in a high-alpine field site. High-resolution, continuous snow depth measurements at times of avalanche release showed a decrease of mean surface roughness with increasing release area size, both for the bed surface and the snow surface before avalanche release. Further, surface roughness patterns in snow-covered winter terrain appeared to be well suited to demarcate release areas, suggesting an increase of potential release area size with greater snow depth. In this context, snow depth around terrain features that serve as potential delineation borders, such as ridges or trenches, appeared to be particularly relevant for release area size. Furthermore, snow depth measured at a nearby weather station was, to a considerable extent, related to potential release area size, as it was often representative of snow depth around those critical features where snow can accumulate over a long period before becoming susceptible to avalanche release. Snow depth - due to its link to surface roughness - could therefore serve as a highly useful variable with regard to potential release area definition for varying snow cover scenarios, as, for example, the avalanche

  11. The pedagogy of memorial sites

    Directory of Open Access Journals (Sweden)

    Luiza Kończyk

    2012-06-01

    Full Text Available Memorial site pedagogy is a term describing the practice and theory of historico-political education in museums in former nazi concentration camps. It combines gaining and deepening historical knowledge on the topic of World War II with self-development and shaping socially desirable attitudes, through usage of non-formal educational methods. Pedagogy of memorial sites aims at, among other things, learning tolerance and respect for diversity and shaping reflective and active members of society. It offers an answer to the needs of contemporary European societies in the area of strengthening democratic attitudes.

  12. Joomla! 15 Site Blueprints LITE

    CERN Document Server

    Ogunjobi, Timi

    2011-01-01

    Each chapter is dedicated to a hands-on example project, which are based on fictitious web site development briefs that illustrate practical ways of applying Joomla!. Each chapter contains step-by-step instructions for building the web project, aided by the extensive use of screenshots. When you have completed each project, you will have the knowledge and confidence to apply the techniques you have learned to create your own custom web application. This book is for anybody who wants to build Joomla! sites, and see how to apply the many available Joomla! plugins and features in different scenar

  13. From Measurements to Site Approval

    DEFF Research Database (Denmark)

    Toft, Henrik Stensgaard; Svenningsen, Lasse; Sørensen, John Dalsgaard

    2014-01-01

    for the turbulence and average values for the wind shear and air density. The analysis in the present paper shows that wind shear variations can have a significant influence on fatigue loads for some wind turbine sensors (components). The natural variation in shear should therefore be taken into account in site......In the present paper the influence of natural variations in turbulence, wind shear and air density on the fatigue damage equivalent loads during power production are investigated. In site suitability analysis it is normally assumed that the fatigue loads can be estimated based on a 90% quantile...

  14. 2011 ANNUAL SITE ENVIRONMENTAL REPORT

    Energy Technology Data Exchange (ETDEWEB)

    Meyer, A.; Eddy, T.; Jannik, T.; Terry, B.; Cauthen, K.; Coward, L.; Dunaway-Ackerman, J.; Wilson, M.; Hutchison, J.; O' Quinn, S.

    2012-10-01

    The Savannah River Site Environmental Report for 2011 (SRNS-STI-2012-00200) is prepared for the U.S. Department of Energy (DOE) according to requirements of DOE Order 231.1 B, “Environment, Safety and Health Reporting." The annual SRS Environmental Report has been produced for more than 50 years. Several hundred copies are and interested individuals. The report’s purpose is to: present summary environmental data that characterize site environmental management performance; describe compliance status with respect to environmental standards and requirements; highlight significant programs and efforts.

  15. SITE DESIGN SETTING IN SHAREPOINT

    Directory of Open Access Journals (Sweden)

    Oleksii V. Tebenko

    2010-10-01

    Full Text Available Creation and promotion of the site is one of way to implement of ICT in education. To build modern sites and large portals, to avoid the process of content creation and management tools, when new content is added, dynamic model for page building is used. The article deals with means and methods of dynamic page template in SharePoint. Purpose of the article is to analyze the key components of SharePoint for dynamic pages, such as setting and changing master pages, standard types of spaceholders master pages, setting aggregates content and consideration of standard types of SharePoint spaceholders.

  16. Drupal 6 site blueprints LITE

    CERN Document Server

    Ogunjobi, Timi

    2011-01-01

    Each chapter is dedicated to a hands-on example project, which are based on fictitious web site development briefs that illustrate practical ways of applying Drupal. Each chapter contains step-by-step instructions for building the web project, aided by the extensive use of screenshots. When you have completed each project, you will have the knowledge and confidence to apply the techniques you have learned to create your own custom web application. This book is for anybody who wants to build Drupal sites, and see how to apply the many available Drupal plugins and features in different scenarios

  17. Numerical modeling of surf beat generated by moving breakpoint

    Institute of Scientific and Technical Information of China (English)

    2009-01-01

    As an important hydrodynamic phenomenon in the nearshore zone, the cross-shore surf beat is numerically studied in this paper with a fully nonlinear Boussinesq-type model, which resolves the primary wave motion as well as the long waves. Compared with the classical Boussinesq equations, the equations adopted here allow for improved linear dispersion characteristics. Wave breaking and run-up in the swash zone are included in the numerical model. Mutual interactions between short waves and long waves are inherent in the model. The numerical study of long waves is based on bichromatic wave groups with a wide range of mean frequencies, group frequencies and modulation rates. The cross-shore variation in the amplitudes of short waves and long waves is investigated. The model results are compared with laboratory experiments from the literature and good agreement is found.

  18. Discovery of Genomic Breakpoints Affecting Breast Cancer Progression and Prognosis

    Science.gov (United States)

    2010-10-01

    the codon is induced. This translates into the introduction of a stop-codon early in the ATXN7 sequence. This most likely results in the loss of a...www.genboree.org. All MCF-7 BAC clones are available from Amplicon Express under name HTA and plate/row/ column names as indicated. The sequence data from this

  19. Numerical modeling of surf beat generated by moving breakpoint

    Institute of Scientific and Technical Information of China (English)

    DONG GuoHai; MA XiaoZhou; TENG Bin

    2009-01-01

    As an important hydrodynamic phenomenon in the nearshore zone, the cross-shore surf beat is nu-merically studied in this paper with a fully nonlinear Boussinesq-type model, which resolves the pri-mary wave motion as well as the long waves. Compared with the classical Boussinesq equations, the equations adopted here allow for improved linear dispersion characteristics. Wave breaking and run-up in the swash zone are included in the numerical model. Mutual interactions between short waves and long waves are inherent in the model. The numerical study of long waves is based on bichromatic wave groups with a wide range of mean frequencies, group frequencies and modulation rates. The cross-shore variation in the amplitudes of short waves and long waves is investigated. The model results are compared with laboratory experiments from the literature and good agreement is found.

  20. Layering-based Breakpoint Handling in Contour Line Extraction

    Institute of Scientific and Technical Information of China (English)

    CHEN Dan; LONG Yi; CAI Jinhua

    2003-01-01

    This paper deals withthe automatic connection of contourlines extracted from a scanned browngeographical map. For the variety oftopographical elements contained on amap, the factors causing the interrup-tion of contour line are also multiform,which make the connection task verydifficult. On the basis of separatingthose elements always making the con-tours break and regarding them as ref-erent layers, a layering-based methodis presented. The purpose is to takeinto account property information (likeinclination and configuration) of con-tour lines when they come across otherdifferent symbols, such as gully, cliff,dry land and elevation annotation etc.In this paper, the authors propose thatit should be far more effective and di-rect to adopt different algorithmic op-erators to different factors than usingsingle one operator to all.

  1. Nearshore bars and the break-point hypothesis

    Science.gov (United States)

    Sallenger, A.H.; Howd, P.A.

    1989-01-01

    The set of hypotheses calling for bar formation at the break point was tested with field data. During two different experiments, waves were measured across the surf zone coincident with the development of a nearshore bar. We use a criterion, based on the wave height to depth ratio, to determine the offshore limit of the inner surf zone. During the first experiment, the bar became better developed and migrated offshore while remaining well within the inner surf zone. During the second experiment, the surf zone was narrower and we cannot rule out the possibility of break point processes contributing to bar development. We conclude that bars are not necessarily coupled with the break point and can become better developed and migrate offshore while being in the inner surf zone landward from initial wave breaking in the outer surf zone. ?? 1989.

  2. Region 9 NPL Site (Polygons) 2015

    Data.gov (United States)

    U.S. Environmental Protection Agency — NPL site POLYGON locations for the US EPA Region 9. NPL (National Priorities List) sites are hazardous waste sites that are eligible for extensive long-term cleanup...

  3. Region 9 NPL Sites (Points) 2015

    Data.gov (United States)

    U.S. Environmental Protection Agency — NPL site point locations for the US EPA, Region 9. NPL (National Priorities List) sites are hazardous waste sites that are eligible for extensive long-term cleanup...

  4. Region 9 NPL Site Polygons - 2014

    Data.gov (United States)

    U.S. Environmental Protection Agency — NPL site POLYGON locations for the US EPA Region 9. NPL (National Priorities List) sites are hazardous waste sites that are eligible for extensive long-term cleanup...

  5. Leaking Underground Storage Tank Sites in Iowa

    Data.gov (United States)

    Iowa State University GIS Support and Research Facility — Leaking Underground Storage Tank (LUST) sites where petroleum contamination has been found. There may be more than one LUST site per UST site.

  6. Site Environmental Report for 2015

    Energy Technology Data Exchange (ETDEWEB)

    Pauer, Ron O. [Lawrence Berkeley National Lab. (LBNL), Berkeley, CA (United States); Baskin, David A. [Lawrence Berkeley National Lab. (LBNL), Berkeley, CA (United States); Borglin, Ned K. [Lawrence Berkeley National Lab. (LBNL), Berkeley, CA (United States); Fox, Robert A. [Lawrence Berkeley National Lab. (LBNL), Berkeley, CA (United States); Harvey, Zachary R. [Lawrence Berkeley National Lab. (LBNL), Berkeley, CA (United States); Jelinski, John A. [Lawrence Berkeley National Lab. (LBNL), Berkeley, CA (United States); Kassis, Maram M. [Lawrence Berkeley National Lab. (LBNL), Berkeley, CA (United States); Muhlholland, Brendan J. [Lawrence Berkeley National Lab. (LBNL), Berkeley, CA (United States); Thorson, Patrick A. [Lawrence Berkeley National Lab. (LBNL), Berkeley, CA (United States); Xu, Suying Y. [Lawrence Berkeley National Lab. (LBNL), Berkeley, CA (United States); Sutherland, Nancy L. [Lawrence Berkeley National Lab. (LBNL), Berkeley, CA (United States); Wehle, Petra C. [Lawrence Berkeley National Lab. (LBNL), Berkeley, CA (United States)

    2016-09-30

    The annual Site Environmental Report documents Lawrence Berkeley National Laboratory’s performance in reducing its environmental impacts, progress toward cleaning up groundwater contamination, and compliance with applicable Department of Energy, federal, state, and local environmental regulations. The report is required by DOE Order 231.1B, Environment, Safety, and Health Reporting.

  7. Integrating risks at contaminated sites

    Energy Technology Data Exchange (ETDEWEB)

    MacDonell, M.; Habegger, L.; Nieves, L.; Schreiber, Z.; Travis, C.

    2000-02-17

    The U.S. Department of Energy (DOE) is responsible for a number of large sites across the country that were radioactively and chemically contaminated by past nuclear research, development, and production activities. Multiple risk assessments are being conducted for these sites to evaluate current conditions and determine what measures are needed to protect human health and the environment from today through the long term. Integrating the risks associated with multiple contaminants in different environmental media across extensive areas, over time periods that extend beyond 1,000 years, and for a number of different impact categories--from human health and ecological to social and economic--represents a considerable challenge. A central element of these integrated analyses is the ability to reflect key interrelationships among environmental resources and human communities that may be adversely affected by the actions or inactions being considered for a given site. Complicating the already difficult task of integrating many kinds of risk is the importance of reflecting the diverse values and preferences brought to bear by the multiple parties interested in the risk analysis process and outcome. An initial conceptual framework has been developed to provide an organized structure to this risk integration, with the aim of supporting effective environmental management decisions. This paper highlights key issues associated with comprehensive risk integration and offers suggestions developed from preliminary work at a complex DOE site.

  8. Flux-Based Site Management

    Science.gov (United States)

    Managing DNAPL contaminated sites continues to be among the most pressing environmental problems currently faced. In particular, the benefits of partial DNAPL mass depletion due to remedial activity are unclear. Recent work conducted by an inter-agency research team has been in...

  9. India: From SITE to INSAT.

    Science.gov (United States)

    Chaudhri, M. M.

    1986-01-01

    Identifies core of India's illiteracy problem and describes use of educational technology to educate rural children. Highlights include descriptions of the Satellite Instructional Television Experiment (SITE) project; motivation behind low-cost educational aids development in rural areas; an educational radio pilot project; and development and…

  10. Efficient on-site construction

    DEFF Research Database (Denmark)

    Thuesen, Christian Langhoff; Hvam, Lars

    2011-01-01

    from the German platform such as: platform does not imply that “off-site manufacturing” is the most optimal production method, rather it is a matter of handling complexity; strong commitment and loyalty from the whole organization is needed; importance of having a specific customer focus (target...

  11. World's finest tech sites immortalised

    CERN Multimedia

    2008-01-01

    They may have transformed man's understanding of the universe but the monumental impact of the world's first large radio telescope and the planet's largest particle physics lab has never been fully recognised. Now both Jodrell Bank and CERN are among the technological landmarks that could be immortalised alongside the pyramids of Egypt and Taj Mahal on UNESCO's World Heritage Site (WHS) list.

  12. Step sites in syngas catalysis

    DEFF Research Database (Denmark)

    Rostrup-Nielsen, J.; Nørskov, Jens Kehlet

    2006-01-01

    Step sites play an important role in many catalytic reactions. This paper reviews recent results on metal catalysts for syngas reactions with emphasis on steam reforming. Modern characterization techniques (STEM, HREM...) and theoretical calculations (DFT) has allowed a more quantitative explanat...

  13. Hanford Site Ecological Quality Profile

    Energy Technology Data Exchange (ETDEWEB)

    Bilyard, Gordon R.; Sackschewsky, Michael R.; Tzemos, Spyridon

    2002-02-17

    This report reviews the ecological quality profile methodology and results for the Hanford Site. It covers critical ecological assets and terrestrial resources, those in Columbia River corridor and those threatened and engdangered, as well as hazards and risks to terrestrial resources. The features of a base habitat value profile are explained, as are hazard and ecological quality profiles.

  14. NGNP SITE 2 HAZARDS ASSESSMENT

    Energy Technology Data Exchange (ETDEWEB)

    Wayne Moe

    2011-10-01

    The Next Generation Nuclear Plant (NGNP) Project initiated at Idaho National Laboratory (INL) by the U.S. Department of Energy pursuant to the 2005 Energy Policy Act, is based on research and development activities supported by the Generation IV Nuclear Energy Systems Initiative. The principal objective of the NGNP Project is to support commercialization of the high temperature gas-cooled reactor (HTGR) technology. The HTGR is a helium-cooled and graphite-moderated reactor that can operate at temperatures much higher than those of conventional light water reactor (LWR) technologies. Accordingly, it can be applied in many industrial applications as a substitute for burning fossil fuels, such as natural gas, to generate process heat in addition to producing electricity, which is the principal application of current LWRs. Nuclear energy in the form of LWRs has been used in the U.S. and internationally principally for the generation of electricity. However, because the HTGR operates at higher temperatures than LWRs, it can be used to displace the use of fossil fuels in many industrial applications. It also provides a carbon emission-free energy supply. For example, the energy needs for the recovery and refining of petroleum, for the petrochemical industry and for production of transportation fuels and feedstocks using coal conversion processes require process heat provided at temperatures approaching 800 C. This temperature range is readily achieved by the HTGR technology. This report summarizes a site assessment authorized by INL under the NGNP Project to determine hazards and potential challenges that site owners and HTGR designers need to be aware of when developing the HTGR design for co-location at industrial facilities, and to evaluate the site for suitability considering certain site characteristics. The objectives of the NGNP site hazard assessments are to do an initial screening of representative sites in order to identify potential challenges and restraints

  15. Sacrifical sites, types and function

    Directory of Open Access Journals (Sweden)

    Örnulv Vorren

    1987-01-01

    Full Text Available Much has been written and said about Saami mythology and pre-Christian religion. There is, however, considerably less documentation of concrete cultural elements in scholarly descriptions. These investigations are considered important not only because they aim to provide documentation that can be used for studies of Saami mythology and pre-Christian religion. They also provide material that can throw light on the function of the holy places in a social context through analysis of their origin, their connections with certain families and persons, their associations with the siidas, their location within the areas where the Saamis from these siidas gained their livelihood, etc. The materials collected about the sacrificial sites also play an important role in studying the course of events leading up to the differentiation of Saami hunting and gathering culture. A question that has frequently arisen in the course of this work is with what powers or deities the different sacrificial sites were associated. This is naturally connected with their origin and their form. This, in turn, is reflected in the traditions and legends recounted concerning them. It is also reflected in their location in the physical environment and in the kinds of offerings that have been found. In the materials so far collected it is possible to distinguish between about eight different types of sacrificial site and holy mountain or fell according to their form and location: holy fells, rock formations, stone boulders, holes, cracks in fells, springs, lakes, ring-shaped sacrificial sites. Missionaries were urged to destroy the offering sites.

  16. Environmental assessment: Davis Canyon site, Utah

    Energy Technology Data Exchange (ETDEWEB)

    none,

    1986-05-01

    In February 1983, the US Department of Energy (DOE) identified the Davis Canyon site in Utah as one of the nine potentially acceptable sites for a mined geologic repository for spent nuclear fuel and high- level radioactive waste. To determine their suitability, the Davis Canyon site and the eight other potentially acceptable sites have been evaluated in accordance with the DOE's General Guidelines for the Recommendation of Sites for the Nuclear Waste Repositories. These evaluations were reported in draft environmental assessments (EAs), which were issued for public review and comment. After considering the comments received on the draft EAs, the DOE prepared the final EA. The Davis Canyon site is in the Paradox Basin, which is one of five distinct geohydrologic settings considered for the first repository. This setting contains one other potentially acceptable site -- the Lavender Canyon site. Although the Lavender Canyon site is suitable for site characterization, the DOE has concluded that the Davis Canyon site is the preferred site in the Paradox Basin. On the basis of the evaluations reported in this EA, the DOE has found that the Davis Canyon site is not disqualified under the guidelines. Furthermore, the DOE has found that the site is suitable for site characterization because the evidence does not support a conclusion that the site will not be able to meet each of the qualifying conditions specified in the guidelines. On the basis of these findings, the DOE is nominating the Davis Canyon site as one of the five sites suitable for characterization.

  17. Environmental assessment: Davis Canyon site, Utah

    Energy Technology Data Exchange (ETDEWEB)

    none,

    1986-05-01

    In February 1983, the US Department of Energy (DOE) identified the Davis Canyon site in Utah as one of the nine potentially acceptable sites for a mined geologic repository for spent nuclear fuel and high-level radioactive waste. To determine their suitability, the Davis Canyon site and the eight other potentially acceptable sites have been evaluated in accordance with the DOE's General Guidelines for the Recommendation of Sites for the Nuclear Waste Repositories. These evaluations were reported in draft environmental assessments (EAs), which were issued for public review and comment. After considering the comments received on the draft EAs, the DOE prepared the final EA. The Davis Canyon site is in the Paradox Basin, which is one of five distinct geohydrologic settings considering for the first repository. This setting contains one other potentially acceptable site -- the Lavender Canyon site. Although the Lavender Canyon site is suitable for site characterization, the DOE has concluded that the Davis Canyon site is the preferred site in the Paradox Basin. On the basis of the evaluations reported in this EA, the DOE has found that the Davis Canyon site is not disqualified under the guidelines. Furthermore, the DOE has found that the site is suitable for site characterization because the evidence does not support a conclusion that the site will not be able to meet each of the qualifying conditions specified in the guidelines. On the basis of these findings, the DOE is nominating the Davis Canyon site as one of five sites suitable for characterization.

  18. 75 FR 879 - National Semiconductor Corporation Arlington Manufacturing Site Including On-Site Leased Workers...

    Science.gov (United States)

    2010-01-06

    ... Employment and Training Administration National Semiconductor Corporation Arlington Manufacturing Site... Semiconductor Corporation, Arlington Manufacturing Site, including on-site leased workers from GCA, CMPA, Custom... Mechanical Systems were employed on-site at the Arlington, Texas location of National...

  19. Nevada Test Site annual site environmental report, 1989

    Energy Technology Data Exchange (ETDEWEB)

    Wruble, D T; McDowell, E M [eds.

    1990-11-01

    Prior to 1989 annual reports of environmental monitoring and assessment results for the Nevada Test Site (NTS) were prepared in two separate parts. Onsite effluent monitoring and environmental monitoring results were reported in an onsite report prepared by the US Department of Energy, Nevada Operations Office (DOE/NV). Results of the offsite radiological surveillance program conducted by the US Environmental Protection Agency (EPA), Environmental Monitoring Systems Laboratory, Las Vegas, Nevada, were reported separately by that Agency. Beginning with this 1989 annual Site environmental report for the NTS, these two documents are being combined into a single report to provide a more comprehensive annual documentation of the environmental protection program conducted for the nuclear testing program and other nuclear and non-nuclear activities at the Site. The two agencies have coordinated preparation of this combined onsite and offsite report through sharing of information on environmental releases and meteorological, hydrological, and other supporting data used in dose-estimate calculations. 57 refs., 52 figs., 65 tabs.

  20. SFR site investigation. Bedrock Hydrogeochemistry

    Energy Technology Data Exchange (ETDEWEB)

    Nilsson, Ann-Chatrin [Geosigma AB, Uppsala (Sweden); Tullborg, Eva-Lena [Terralogica AB, Graabo (Sweden); Smellie, John [Conterra AB, Uppsala (Sweden); Gimeno, Maria J.; Gomez, Javier B.; Auque, Luis F. [Univ. of Zaragoza, Zaragoza (Spain); Sandstroem, Bjoern [WSP Sverige AB, Goeteborg (Sweden); Pedersen, Karsten [Micans AB, Moelnlycke (Sweden)

    2011-11-15

    There are plans that the final repository for low and intermediate level radioactive waste, SFR, located about 150 km north of Stockholm, will be extended. Geoscientific studies to define and characterise a suitable bedrock volume for the extended repository have been carried out from 2007 to 2011, and have included the drilling and evaluation of seven new core drilled and four percussion boreholes. These new data, together with existing data extending back to 1985, have been interpreted and modelled in order to provide the necessary information for safety assessment and repository design. This report presents the final hydrogeochemical site description for the SFR site, and will constitute a background report for the integrated site description (the SFR Site Descriptive Model version 1.0) together with corresponding reports from the geological and hydrogeological disciplines. Most of the hydrogeochemical data from the field investigations consist of major ions and isotopes together with sporadic gas, microbe and measured redox data. Despite the close proximity of the Forsmark site, few data from this source are of relevance because of the shallow nature of the SFR site, the fact that SFR is located beneath the Baltic Sea and also the drawdown/upconing impacts of its construction on the hydrogeochemistry. This artificially imposed dynamic flow system is naturally more prevalent along major deformation fracture zones of higher transmissivity, whilst lower transmissive fractures together with the less transmissive bedrock masses between major deformation zones, still retain some evidence of the natural groundwater mixing patterns established prior to the SFR construction. The groundwaters in the SFR dataset cover a depth down to -250 m.a.s.l. with single sampling locations at -300 and -400 m.a.s.l. and represent a relatively limited salinity range (1,500 to 5,500 mg/L chloride). However, the {delta}{sup 18}O values show a wide variation (-15.5 to -7.5 per mille V

  1. Environmental assessment, Richton Dome site, Mississippi (US)

    Energy Technology Data Exchange (ETDEWEB)

    none,

    1986-05-01

    The Nuclear Waste Policy Act of 1982 (42 USC Sections 10101-10226) requires the environmental assessment of a potential site to include a statement of the basis for the nomination of a site as suitable for characterization. Volume 2 of this environmental assessment provides a detailed evaluation of the Richton Dome Site and its suitability as the site for a radioactive waste disposal facility under DOE siting guidelines, as well as a comparison of the Richton Dome site with other proposed sites. Evaluation of the Richton Dome site is based on the reference repository design, but the evaluation will not change if based on the Mission Plan repository concept. The comparative evaluation of proposed sites is required under DOE guidelines, but is not intended to directly support the subsequent recommendation of three sites for characterization as candidate sites. 428 refs., 24 figs., 62 tabs. (MHB)

  2. Environmental assessment, Deaf Smith County site, Texas

    Energy Technology Data Exchange (ETDEWEB)

    1986-05-01

    The Nuclear Waste Policy Act of 1982 (42 USC sections 10101-10226) requires the environmental assessment of a proposed site to include a statement of the basis for nominating a site as suitable for characterization. Volume 2 provides a detailed statement evaluating the site suitability of the Deaf Smith County Site under DOE siting guidelines, as well as a comparison of the Deaf Smith County Site to the other sites under consideration. The evaluation of the Deaf Smith County Site is based on the impacts associated with the reference repository design, but the evaluation will not change if based on the Mission Plan repository concept. The second part of this document compares the Deaf Smith County Site to Davis Canyon, Hanford, Richton Dome and Yucca Mountain. This comparison is required under DOE guidelines and is not intended to directly support subsequent recommendation of three sites for characterization as candidate sites. 259 refs., 29 figs., 66 refs. (MHB)

  3. Confidence assessment. Site descriptive modelling SDM-Site Forsmark

    Energy Technology Data Exchange (ETDEWEB)

    2008-09-15

    The objective of this report is to assess the confidence that can be placed in the Forsmark site descriptive model, based on the information available at the conclusion of the surface-based investigations (SDM-Site Forsmark). In this exploration, an overriding question is whether remaining uncertainties are significant for repository engineering design or long-term safety assessment and could successfully be further reduced by more surface based investigations or more usefully by explorations underground made during construction of the repository. The confidence in the Forsmark site descriptive model, based on the data available at the conclusion of the surface-based site investigations, have been assessed by exploring: Confidence in the site characterisation data base; Key remaining issues and their handling; Handling of alternative models; Consistency between disciplines; and, Main reasons for confidence and lack of confidence in the model. It is generally found that the key aspects of importance for safety assessment and repository engineering of the Forsmark site descriptive model are associated with a high degree of confidence. Because of the robust geological model that describes the site, the overall confidence in Forsmark site descriptive model is judged to be high. While some aspects have lower confidence this lack of confidence is handled by providing wider uncertainty ranges, bounding estimates and/or alternative models. Most, but not all, of the low confidence aspects have little impact on repository engineering design or for long-term safety. Poor precision in the measured data are judged to have limited impact on uncertainties on the site descriptive model, with the exceptions of inaccuracy in determining the position of some boreholes at depth in 3-D space, as well as the poor precision of the orientation of BIPS images in some boreholes, and the poor precision of stress data determined by overcoring at the locations where the pre

  4. 49 CFR 325.77 - Computation of open site requirements-nonstandard sites.

    Science.gov (United States)

    2010-10-01

    ... site requirements—nonstandard sites. (a) If the distance between the microphone location point and the microphone target point is other than 50 feet (15.2 m), the test site must be an open site within a radius.... Figure 3 illustrates a test site which is larger than a standard test site and is based upon a...

  5. Y-12 Site Sustainability Plan

    Energy Technology Data Exchange (ETDEWEB)

    Spencer, Charles G

    2012-12-01

    The accomplishments to date and the long-range planning of the Y-12 Energy Management and Sustainability and Stewardship programs support the U.S. Department of Energy (DOE) and the National Nuclear Security Administration (NNSA) vision for a commitment to energy effi ciency and sustainability and to achievement of the Guiding Principles. Specifi cally, the Y-12 vision is to support the Environment, Safety and Health Policy and the DOE Strategic Sustainability Performance Plan, while promoting overall sustainability and reduction of greenhouse gas emissions. The mission of the Y-12 Energy Management program is to incorporate energy-effi cient technologies site-wide and to position Y-12 to meet NNSA energy requirement needs through 2025 and beyond. The plan addresses greenhouse gases, buildings, fleet management, water use, pollution prevention, waste reduction, sustainable acquisition, electronic stewardship and data centers, site innovation and government-wide support.

  6. Preliminary site characterization - final report

    Energy Technology Data Exchange (ETDEWEB)

    Clark, D.; Smith, L.B.

    1993-12-01

    This report summarizes the ecological unit reconnaissance conducted at the F-Area Burning/Rubble Pit(s) RCRA/CERCLA Unit (F-Area BRP) on August 30 and 31, 1993 as part of the RFI/RI baseline risk assessment for the waste unit The baseline risk assessment will assess the potential endangerment to human health and the environment associated with the unit and will be used to evaluate remediation criteria, if needed. The information presented in this report will be used in subsequent stages of the ecological risk assessment to refine the conceptual site model, assist in the selection of contaminants of concern, identify potential ecological receptors, and evaluate trophic relationships and other exposure pathways. The unit reconnaissance survey was conducted in accordance with Specification No. E-18272, Rev. 1 dated August 5, 1993, and the Draft {open_quotes}Ecological Risk Assessment Program Plan for Evaluation of Waste Sites on the Savannah River Site{close_quotes}. The objectives of the site reconnaissance were to: Assess the general characteristics of on-unit biological communities including mammals, birds, reptiles, amphibians, and any aquatic communities present. Determine the location, extent, and characteristics of on-unit ecological resources, such as forested areas and wetlands, that could serve as important wildlife habitat or provide other ecological functions. Identify any overt effects of contamination on biological communities. The field investigations included mapping and describing all wetland and terrestrial habitats; recording wildlife observations of birds, mammals, and reptiles; and investigating ecological resources in nearby downgradient and downstream areas which could be affected by mobile contaminants or future remedial actions. In preparation for the field investigation, existing unit information including aerial photographs and reports were reviewed to help identify and describe ecological resources at the waste unit.

  7. Dermatomycosis Frequency and Localization Sites

    OpenAIRE

    Koçinaj, Allma Ferizi; Kotori, Merita Grajqevci; Koraqi, Andi; Fida, Monika

    2015-01-01

    Introduction: Since the prevalence of skin mycotic infections is changing and is area depended we aimed to analyze the frequency of the skin myocotic infections and the appearance sites. Material and Methods: There were involved 560 patients referred to the Dermatology Clinic of University Clinical Center of Kosova during a period of one year. Results: The mean age of our study group was around thirties with a predominance of female and rural patients. Although most of cases presented with si...

  8. Rulison Site corrective action report

    Energy Technology Data Exchange (ETDEWEB)

    NONE

    1996-09-01

    Project Rulison was a joint US Atomic Energy Commission (AEC) and Austral Oil Company (Austral) experiment, conducted under the AEC`s Plowshare Program, to evaluate the feasibility of using a nuclear device to stimulate natural gas production in low-permeability gas-producing geologic formations. The experiment was conducted on September 10, 1969, and consisted of detonating a 40-kiloton nuclear device at a depth of 2,568 m below ground surface (BGS). This Corrective Action Report describes the cleanup of petroleum hydrocarbon- and heavy-metal-contaminated sediments from an old drilling effluent pond and characterization of the mud pits used during drilling of the R-EX well at the Rulison Site. The Rulison Site is located approximately 65 kilometers (40 miles) northeast of Grand Junction, Colorado. The effluent pond was used for the storage of drilling mud during drilling of the emplacement hole for the 1969 gas stimulation test conducted by the AEC. This report also describes the activities performed to determine whether contamination is present in mud pits used during the drilling of well R-EX, the gas production well drilled at the site to evaluate the effectiveness of the detonation in stimulating gas production. The investigation activities described in this report were conducted during the autumn of 1995, concurrent with the cleanup of the drilling effluent pond. This report describes the activities performed during the soil investigation and provides the analytical results for the samples collected during that investigation.

  9. Site maps and facilities listings

    Energy Technology Data Exchange (ETDEWEB)

    1993-11-01

    In September 1989, a Memorandum of Agreement among DOE offices regarding the environmental management of DOE facilities was signed by appropriate Assistant Secretaries and Directors. This Memorandum of Agreement established the criteria for EM line responsibility. It stated that EM would be responsible for all DOE facilities, operations, or sites (1) that have been assigned to DOE for environmental restoration and serve or will serve no future production need; (2) that are used for the storage, treatment, or disposal of hazardous, radioactive, and mixed hazardous waste materials that have been properly characterized, packaged, and labelled, but are not used for production; (3) that have been formally transferred to EM by another DOE office for the purpose of environmental restoration and the eventual return to service as a DOE production facility; or (4) that are used exclusively for long-term storage of DOE waste material and are not actively used for production, with the exception of facilities, operations, or sites under the direction of the DOE Office of Civilian Radioactive Waste Management. As part of the implementation of the Memorandum of Agreement, Field Offices within DOE submitted their listings of facilities, systems, operation, and sites for which EM would have line responsibility. It is intended that EM facility listings will be revised on a yearly basis so that managers at all levels will have a valid reference for the planning, programming, budgeting and execution of EM activities.

  10. The SARA REU Site Program

    Science.gov (United States)

    Wood, M. A.; Oswalt, T. D.; SARA Collaboration

    2000-12-01

    We present an overview of the Research Experiences for Undergraduates (REU) Site Program hosted by the Southeastern Association for Research in Astronomy (SARA) for the past 6 years. SARA is a consortium of the six universities: Florida Institute of Technology, East Tennessee State University, Florida International University, The University of Georgia, Valdosta State University, and Clemson University. We host 10-11 student interns per year out of an application pool of ~150-200. Recruiting flyers are sent to the ~3400 undergraduate institutions in the United States, and we use a web-based application form and review process. We are a distributed REU Site, but come together for group meetings at the beginning and end of the summer program and stay in contact in between using email list manager software. Interns complete a research project working one-on-one with a faculty mentor, and each intern travels to observe at the SARA Observatory at Kitt Peak National Observatory. Interns give both oral and display presentations of their results at the final group meeting. In addition, all interns write a paper for publication in the IAPPP Communications, an international amateur-professional journal, and several present at professional meetings and in refereed publications. We include in the group meetings a ``how-to'' session on giving talks and posters, an Ethics Session, and a session on Women in Astronomy. This work was supported by the NSF Research Experiences for Undergraduates (REU) Site Program through grant AST 96169939 to The Florida Institute of Technology.

  11. Site identification presentation: Basalt Waste Isolation Project

    Energy Technology Data Exchange (ETDEWEB)

    1979-11-01

    The final step in the site identification process for the Basalt Waste Isolation Project is described. The candidate sites are identified. The site identification methodology is presented. The general objectives which must be met in selecting the final site are listed. Considerations used in the screening process are also listed. Summary tables of the guidelines used are included. (DMC)

  12. Main: SITE3SORPS1 [PLACE

    Lifescience Database Archive (English)

    Full Text Available SITE3SORPS1 S000212 11-May-2006 (last modified) kehi Site 3 of spinach (S.o.) rps1 promoter; S1...F binding site; For a compilation of related GT elements and factors, see Villain et al. (1996); Site 3; rps1; S1F; spinach (Spinacia oleracea) AGTTAGTTAAAAGA ...

  13. 10 CFR 63.15 - Site characterization.

    Science.gov (United States)

    2010-01-01

    ... 10 Energy 2 2010-01-01 2010-01-01 false Site characterization. 63.15 Section 63.15 Energy NUCLEAR... MOUNTAIN, NEVADA Licenses Preapplication Review § 63.15 Site characterization. (a) DOE shall conduct a program of site characterization with respect to the Yucca Mountain site before it submits an...

  14. 10 CFR 60.15 - Site characterization.

    Science.gov (United States)

    2010-01-01

    ... 10 Energy 2 2010-01-01 2010-01-01 false Site characterization. 60.15 Section 60.15 Energy NUCLEAR... Preapplication Review § 60.15 Site characterization. (a) Prior to submittal of an application for a license to be issued under this part DOE shall conduct a program of site characterization with respect to the site...

  15. Geology Laxemar. Site descriptive modelling SDM-Site Laxemar

    Energy Technology Data Exchange (ETDEWEB)

    Wahlgren, Carl-Henric (Geological Survey of Sweden, Uppsala (Sweden)); Curtis, Philip; Hermanson, Jan; Forssberg, Ola; Oehman, Johan (Golder Associates AB (Sweden)); Fox, Aaron; La Pointe, Paul (Golder Associates Inc (United States)); Drake, Henrik (Dept. of Earth Sciences, Univ. of Goeteborg, Goeteborg (Sweden)); Triumf, Carl-Axel; Mattsson, Haakan; Thunehed, Hans (GeoVista AB, Luleaa (Sweden)); Juhlin, Christopher (Dept. of Earth Sciences, Uppsala Univ., Uppsala (Sweden))

    2008-11-15

    The geological work during the SDM Site Laxemar modelling stage has involved the continued development of deterministic models for rock domains (RSM) and deformation zones (ZSM), the identification and deterministic modelling of fracture domains (FSM), and the development of statistical models for fractures and minor deformation zones (geological discrete fracture network (DFN) modelling). The geological DFN model addresses fractures/structures with a size of less than 1 km, which is the lower cut-off of structures included in the deterministic modelling of deformation zones. In order to take account of variability in data resolution, deterministic models for rock domains and deformation zones are presented in both regional and local scale model volumes, while the geological DFN model is valid only within specific fracture domains inside the Laxemar local model volume. The geological and geophysical data that constitute the basis for the SDM-Site Laxemar modelling work comprise all data that have been acquired from Laxemar, i.e. all data that were available at the data freeze for SDM-Site Laxemar at August 31, 2007. Selected quality controlled data from the complementary cored borehole KLX27A have also been utilised in the modelling work. Data from the following investigations were acquired during the complete site investigation between the data freezes for Laxemar 1.2 and SDM-Site Laxemar as defined above: A revised bedrock geological map at the ground surface. Geological and geophysical data from 40 new cored boreholes and 14 percussion boreholes. Sampling and subsequent modal and geochemical analytical work of bedrock samples taken in connection with excavations in southern Laxemar. Detailed mapping of fractures and rock units along 10 trench excavations and 2 large surface exposures (drill sites for KLX09 and KLX11A/KLX20A). Special studies involving more detailed characterisation of deformation zones identified in the geological single-hole interpretation

  16. Strategic plan for Hanford site information management

    Energy Technology Data Exchange (ETDEWEB)

    NONE

    1994-09-01

    The Hanford Site missions are to clean up the Site, to provide scientific knowledge and technology to meet global needs, and to partner in the economic diversification of the region. To achieve these long-term missions and increase confidence in the quality of the Site`s decision making process, a dramatically different information management culture is required, consistent with US Department of Energy (DOE) mandates on increased safety, productivity, and openness at its sites. This plan presents a vision and six strategies that will move the Site toward an information management culture that will support the Site missions and address the mandates of DOE.

  17. Solid waste management complex site development plan

    Energy Technology Data Exchange (ETDEWEB)

    Greager, T.M.

    1994-09-30

    The main purpose of this Solid Waste Management Complex Site Development Plan is to optimize the location of future solid waste treatment and storage facilities and the infrastructure required to support them. An overall site plan is recommended. Further, a series of layouts are included that depict site conditions as facilities are constructed at the SWMC site. In this respect the report serves not only as the siting basis for future projects, but provides siting guidance for Project W-112, as well. The plan is intended to function as a template for expected growth of the site over the next 30 years so that future facilities and infrastructure will be properly integrated.

  18. Adapting MARSSIM for FUSRAP site closure.

    Science.gov (United States)

    Johnson, Robert; Durham, L; Rieman, C

    2003-06-01

    The Multi-Agency Radiation Survey and Site Investigation Manual (MARSSIM) provides a coherent, technically defensible process for establishing that exposed surfaces satisfy site cleanup requirements. Unfortunately, many sites have complications that challenge a direct application of MARSSIM. Example complications include Record of Decision (ROD) requirements that are not MARSSIM-friendly, the potential for subsurface contamination, and incomplete characterization information. These types of complications are typically the rule, rather than the exception, for sites undergoing radiologically-driven remediation and closure. One such site is the Formerly Utilized Sites Remedial Action Program (FUSRAP) Linde site in Tonawanda, New York. Cleanup of the site is currently underway. The Linde site presented a number of challenges to designing and implementing a closure strategy consistent with MARSSIM. This paper discusses some of the closure issues confronted by the U.S. Army Corps of Engineers Buffalo District at the Linde site and describes how MARSSIM protocols were adapted to address these issues.

  19. SFR site investigation. Bedrock Hydrogeochemistry

    Energy Technology Data Exchange (ETDEWEB)

    Nilsson, Ann-Chatrin [Geosigma AB, Uppsala (Sweden); Tullborg, Eva-Lena [Terralogica AB, Graabo (Sweden); Smellie, John [Conterra AB, Uppsala (Sweden); Gimeno, Maria J.; Gomez, Javier B.; Auque, Luis F. [Univ. of Zaragoza, Zaragoza (Spain); Sandstroem, Bjoern [WSP Sverige AB, Goeteborg (Sweden); Pedersen, Karsten [Micans AB, Moelnlycke (Sweden)

    2011-11-15

    There are plans that the final repository for low and intermediate level radioactive waste, SFR, located about 150 km north of Stockholm, will be extended. Geoscientific studies to define and characterise a suitable bedrock volume for the extended repository have been carried out from 2007 to 2011, and have included the drilling and evaluation of seven new core drilled and four percussion boreholes. These new data, together with existing data extending back to 1985, have been interpreted and modelled in order to provide the necessary information for safety assessment and repository design. This report presents the final hydrogeochemical site description for the SFR site, and will constitute a background report for the integrated site description (the SFR Site Descriptive Model version 1.0) together with corresponding reports from the geological and hydrogeological disciplines. Most of the hydrogeochemical data from the field investigations consist of major ions and isotopes together with sporadic gas, microbe and measured redox data. Despite the close proximity of the Forsmark site, few data from this source are of relevance because of the shallow nature of the SFR site, the fact that SFR is located beneath the Baltic Sea and also the drawdown/upconing impacts of its construction on the hydrogeochemistry. This artificially imposed dynamic flow system is naturally more prevalent along major deformation fracture zones of higher transmissivity, whilst lower transmissive fractures together with the less transmissive bedrock masses between major deformation zones, still retain some evidence of the natural groundwater mixing patterns established prior to the SFR construction. The groundwaters in the SFR dataset cover a depth down to -250 m.a.s.l. with single sampling locations at -300 and -400 m.a.s.l. and represent a relatively limited salinity range (1,500 to 5,500 mg/L chloride). However, the {delta}{sup 18}O values show a wide variation (-15.5 to -7.5 per mille V

  20. Savannah River Site Approved Site Treatment Plan, 1998 Annual Update

    Energy Technology Data Exchange (ETDEWEB)

    Lawrence, B. [Westinghouse Savannah River Company, AIKEN, SC (United States); Berry, M.

    1998-03-01

    The U.S. Department of Energy, Savannah River Operations Office (DOE- SR),has prepared the Site Treatment Plan (STP) for Savannah River Site (SRS) mixed wastes in accordance with RCRA Section 3021(b), and SCDHEC has approved the STP (except for certain offsite wastes) and issued an order enforcing the STP commitments in Volume I. DOE-SR and SCDHEC agree that this STP fulfills the requirements contained in the FFCAct, RCRA Section 3021, and therefore,pursuant to Section 105(a) of the FFCAct (RCRA Section 3021(b)(5)), DOE`s requirements are to implement the plan for the development of treatment capacities and technologies pursuant to RCRA Section 3021.Emerging and new technologies not yet considered may be identified to manage waste more safely, effectively, and at lower cost than technologies currently identified in the plan. DOE will continue to evaluate and develop technologies that offer potential advantages in public acceptance, privatization, consolidation, risk abatement, performance, and life-cycle cost. Should technologies that offer such advantages be identified, DOE may request a revision/modification of the STP in accordance with the provisions of Consent Order 95-22-HW.The Compliance Plan Volume (Volume I) identifies project activity schedule milestones for achieving compliance with Land Disposal Restrictions (LDR). Information regarding the technical evaluation of treatment options for SRS mixed wastes is contained in the Background Volume (Volume II) and is provided for information.