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Sample records for weak intergenic promoter

  1. Sequences in the intergenic spacer influence RNA Pol I transcription from the human rRNA promoter

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    Li, W.M.; Sylvester, J.E. [Hahnemann Univ., Philadelphia, PA (United States)

    1994-09-01

    In most eucaryotic species, ribosomal genes are tandemly repeated about 100-5000 times per haploid genome. The 43 Kb human rDNA repeat consists of a 13 Kb coding region for the 18S, 5.8S, 28S ribosomal RNAs (rRNAs) and transcribed spacers separated by a 30 Kb intergenic spacer. For species such as frog, mouse and rat, sequences in the intergenic spacer other than the gene promoter have been shown to modulate transcription of the ribosomal gene. These sequences are spacer promoters, enhancers and the terminator for spacer transcription. We are addressing whether the human ribosomal gene promoter is similarly influenced. In-vitro transcription run-off assays have revealed that the 4.5 kb region (CBE), directly upstream of the gene promoter, has cis-stimulation and trans-competition properties. This suggests that the CBE fragment contains an enhancer(s) for ribosomal gene transcription. Further experiments have shown that a fragment ({approximately}1.6 kb) within the CBE fragment also has trans-competition function. Deletion subclones of this region are being tested to delineate the exact sequences responsible for these modulating activities. Previous sequence analysis and functional studies have revealed that CBE contains regions of DNA capable of adopting alternative structures such as bent DNA, Z-DNA, and triple-stranded DNA. Whether these structures are required for modulating transcription remains to be determined as does the specific DNA-protein interaction involved.

  2. Expressing activity of promoter elements of large intergenic region from cotton leaf curl virus in host plant*

    Institute of Scientific and Technical Information of China (English)

    2001-01-01

    Cotton leaf curl virus (CLCuV) is a type of single-stranded DNAvirus, belonging to geminivirus of subgroup III. In order to determine the function of CLCuV large intergenic region (LIR), total DNA of CLCuV-infected cotton leaves was used as template, and fragment of LIR was obtained by PCR and inserted into clone vector. The fragment of LIR was fused with gus reporter gene and nos terminator in the orientation of transcription of virion sense and complementary sense respectively, and the plant expression vectors were constructed. GUS activity of Agrobacterium-mediated transgenic tobacco was measured. The result indicated that LIR showed strong promoter activity in complementary sense gene orientation. Average GUS activity of the complementary sense promoter was 5-6 times that of CaMV 35S promoter, and the highest GUS activity of individual plant was ten times of that of CaMV 35S promoter. Histochemical localization confirmed its activity in both mesophyll and vascular tissues. Activity of virion sense of LIR was rather low. Thus LIR isolated from CLCuV could be used as a novel strong promoter in plant genetic manipulation.

  3. Genome-wide Anaplasma phagocytophilum AnkA-DNA interactions are enriched in intergenic regions and gene promoters and correlate with infection-induced differential gene expression.

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    J Stephen Dumler

    2016-09-01

    Full Text Available Anaplasma phagocytophilum, an obligate intracellular prokaryote, infects neutrophils and alters cardinal functions via reprogrammed transcription. Large contiguous regions of neutrophil chromosomes are differentially expressed during infection. Secreted A. phagocytophilum effector AnkA transits into the neutrophil or granulocyte nucleus to complex with DNA in heterochromatin across all chromosomes. AnkA binds to gene promoters to dampen cis-transcription and also has features of matrix attachment region (MAR-binding proteins that regulate three-dimensional chromatin architecture and coordinate transcriptional programs encoded in topologically-associated chromatin domains. We hypothesize that identification of additional AnkA binding sites will better delineate how A. phagocytophilum infection results in reprogramming of the neutrophil genome. Using AnkA-binding ChIP-seq, we showed that AnkA binds broadly throughout all chromosomes in a reproducible pattern, especially at: i intergenic regions predicted to be matrix attachment regions (MARs; ii within predicted lamina-associated domains; and iii at promoters ≤3,000 bp upstream of transcriptional start sites. These findings provide genome-wide support for AnkA as a regulator of cis-gene transcription. Moreover, the dominant mark of AnkA in distal intergenic regions known to be AT-enriched, coupled with frequent enrichment in the nuclear lamina, provides strong support for its role as a MAR-binding protein and genome re-organizer. AnkA must be considered a prime candidate to promote neutrophil reprogramming and subsequent functional changes that belie improved microbial fitness and pathogenicity.

  4. Functionality of intergenic transcription: an evolutionary comparison.

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    Philipp Khaitovich

    2006-10-01

    Full Text Available Although a large proportion of human transcription occurs outside the boundaries of known genes, the functional significance of this transcription remains unknown. We have compared the expression patterns of known genes as well as intergenic transcripts within the ENCODE regions between humans and chimpanzees in brain, heart, testis, and lymphoblastoid cell lines. We find that intergenic transcripts show patterns of tissue-specific conservation of their expression, which are comparable to exonic transcripts of known genes. This suggests that intergenic transcripts are subject to functional constraints that restrict their rate of evolutionary change as well as putative positive selection to an extent comparable to that of classical protein-coding genes. In brain and testis, we find that part of this intergenic transcription is caused by widespread use of alternative promoters. Further, we find that about half of the expression differences between humans and chimpanzees are due to intergenic transcripts.

  5. Functionality of Intergenic Transcription: An Evolutionary Comparison

    Science.gov (United States)

    Visagie, Johann; Giger, Thomas; Joerchel, Sabrina; Petzold, Ekkehard; Green, Richard E; Lachmann, Michael; Pääbo, Svante

    2006-01-01

    Although a large proportion of human transcription occurs outside the boundaries of known genes, the functional significance of this transcription remains unknown. We have compared the expression patterns of known genes as well as intergenic transcripts within the ENCODE regions between humans and chimpanzees in brain, heart, testis, and lymphoblastoid cell lines. We find that intergenic transcripts show patterns of tissue-specific conservation of their expression, which are comparable to exonic transcripts of known genes. This suggests that intergenic transcripts are subject to functional constraints that restrict their rate of evolutionary change as well as putative positive selection to an extent comparable to that of classical protein-coding genes. In brain and testis, we find that part of this intergenic transcription is caused by widespread use of alternative promoters. Further, we find that about half of the expression differences between humans and chimpanzees are due to intergenic transcripts. PMID:17040132

  6. CHIR99021 promotes self-renewal of mouse embryonic stem cells by modulation of protein-encoding gene and long intergenic non-coding RNA expression

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    Wu, Yongyan [College of Veterinary Medicine, Northwest A and F University, Yangling 712100, Shaanxi (China); Key Laboratory of Animal Biotechnology, Ministry of Agriculture, Northwest A and F University, Yangling 712100, Shaanxi (China); Ai, Zhiying [Key Laboratory of Animal Biotechnology, Ministry of Agriculture, Northwest A and F University, Yangling 712100, Shaanxi (China); College of Life Sciences, Northwest A and F University, Yangling 712100, Shaanxi (China); Yao, Kezhen [College of Veterinary Medicine, Northwest A and F University, Yangling 712100, Shaanxi (China); Key Laboratory of Animal Biotechnology, Ministry of Agriculture, Northwest A and F University, Yangling 712100, Shaanxi (China); Cao, Lixia; Du, Juan; Shi, Xiaoyan [Key Laboratory of Animal Biotechnology, Ministry of Agriculture, Northwest A and F University, Yangling 712100, Shaanxi (China); College of Life Sciences, Northwest A and F University, Yangling 712100, Shaanxi (China); Guo, Zekun, E-mail: gzk@nwsuaf.edu.cn [College of Veterinary Medicine, Northwest A and F University, Yangling 712100, Shaanxi (China); Key Laboratory of Animal Biotechnology, Ministry of Agriculture, Northwest A and F University, Yangling 712100, Shaanxi (China); Zhang, Yong, E-mail: zhylab@hotmail.com [College of Veterinary Medicine, Northwest A and F University, Yangling 712100, Shaanxi (China); Key Laboratory of Animal Biotechnology, Ministry of Agriculture, Northwest A and F University, Yangling 712100, Shaanxi (China)

    2013-10-15

    Embryonic stem cells (ESCs) can proliferate indefinitely in vitro and differentiate into cells of all three germ layers. These unique properties make them exceptionally valuable for drug discovery and regenerative medicine. However, the practical application of ESCs is limited because it is difficult to derive and culture ESCs. It has been demonstrated that CHIR99021 (CHIR) promotes self-renewal and enhances the derivation efficiency of mouse (m)ESCs. However, the downstream targets of CHIR are not fully understood. In this study, we identified CHIR-regulated genes in mESCs using microarray analysis. Our microarray data demonstrated that CHIR not only influenced the Wnt/β-catenin pathway by stabilizing β-catenin, but also modulated several other pluripotency-related signaling pathways such as TGF-β, Notch and MAPK signaling pathways. More detailed analysis demonstrated that CHIR inhibited Nodal signaling, while activating bone morphogenetic protein signaling in mESCs. In addition, we found that pluripotency-maintaining transcription factors were up-regulated by CHIR, while several developmental-related genes were down-regulated. Furthermore, we found that CHIR altered the expression of epigenetic regulatory genes and long intergenic non-coding RNAs. Quantitative real-time PCR results were consistent with microarray data, suggesting that CHIR alters the expression pattern of protein-encoding genes (especially transcription factors), epigenetic regulatory genes and non-coding RNAs to establish a relatively stable pluripotency-maintaining network. - Highlights: • Combined use of CHIR with LIF promotes self-renewal of J1 mESCs. • CHIR-regulated genes are involved in multiple pathways. • CHIR inhibits Nodal signaling and promotes Bmp4 expression to activate BMP signaling. • Expression of epigenetic regulatory genes and lincRNAs is altered by CHIR.

  7. An intergenic region shared by At4g35985 and At4g35987 in Arabidopsis thaliana is a tissue specific and stress inducible bidirectional promoter analyzed in transgenic arabidopsis and tobacco plants.

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    Joydeep Banerjee

    Full Text Available On chromosome 4 in the Arabidopsis genome, two neighboring genes (calmodulin methyl transferase At4g35987 and senescence associated gene At4g35985 are located in a head-to-head divergent orientation sharing a putative bidirectional promoter. This 1258 bp intergenic region contains a number of environmental stress responsive and tissue specific cis-regulatory elements. Transcript analysis of At4g35985 and At4g35987 genes by quantitative real time PCR showed tissue specific and stress inducible expression profiles. We tested the bidirectional promoter-function of the intergenic region shared by the divergent genes At4g35985 and At4g35987 using two reporter genes (GFP and GUS in both orientations in transient tobacco protoplast and Agro-infiltration assays, as well as in stably transformed transgenic Arabidopsis and tobacco plants. In transient assays with GFP and GUS reporter genes the At4g35985 promoter (P85 showed stronger expression (about 3.5 fold compared to the At4g35987 promoter (P87. The tissue specific as well as stress responsive functional nature of the bidirectional promoter was evaluated in independent transgenic Arabidopsis and tobacco lines. Expression of P85 activity was detected in the midrib of leaves, leaf trichomes, apical meristemic regions, throughout the root, lateral roots and flowers. The expression of P87 was observed in leaf-tip, hydathodes, apical meristem, root tips, emerging lateral root tips, root stele region and in floral tissues. The bidirectional promoter in both orientations shows differential up-regulation (2.5 to 3 fold under salt stress. Use of such regulatory elements of bidirectional promoters showing spatial and stress inducible promoter-functions in heterologous system might be an important tool for plant biotechnology and gene stacking applications.

  8. Recombination-stable multimeric green fluorescent protein for characterization of weak promoter outputs in Saccharomyces cerevisiae

    DEFF Research Database (Denmark)

    Rugbjerg, Peter; Knuf, Christoph; Förster, Jochen;

    2015-01-01

    GFP variants, yeast-enhanced GFP, GFP+ and superfolder GFP to yield a sequence-diverged triple GFP molecule 3vGFP with 74–84% internal repeat identity. Unlike a single GFP, the brightness of 3vGFP allowed characterization of a weak promoter in S. cerevisiae. Utilizing 3vGFP, we further engineered...... a less leaky Cu2+-inducible promoter based on CUP1. The basal expression level of the new promoter was approx. 61% below the wild-type CUP1 promoter, thus expanding the absolute range of Cu2+-based gene control. The stability of 3vGFP towards direct-repeat recombination was assayed in S. cerevisiae...

  9. Recombination-stable multimeric green fluorescent protein for characterization of weak promoter outputs in Saccharomyces cerevisiae.

    Science.gov (United States)

    Rugbjerg, Peter; Knuf, Christoph; Förster, Jochen; Sommer, Morten O A

    2015-12-01

    Green fluorescent proteins (GFPs) are widely used for visualization of proteins to track localization and expression dynamics. However, phenotypically important processes can operate at too low expression levels for routine detection, i.e. be overshadowed by autofluorescence noise. While GFP functions well in translational fusions, the use of tandem GFPs to amplify fluorescence signals is currently avoided in Saccharomyces cerevisiae and many other microorganisms due to the risk of loop-out by direct-repeat recombination. We increased GFP fluorescence by translationally fusing three different GFP variants, yeast-enhanced GFP, GFP+ and superfolder GFP to yield a sequence-diverged triple GFP molecule 3vGFP with 74-84% internal repeat identity. Unlike a single GFP, the brightness of 3vGFP allowed characterization of a weak promoter in S. cerevisiae. Utilizing 3vGFP, we further engineered a less leaky Cu(2+)-inducible promoter based on CUP1. The basal expression level of the new promoter was approximately 61% below the wild-type CUP1 promoter, thus expanding the absolute range of Cu(2+)-based gene control. The stability of 3vGFP towards direct-repeat recombination was assayed in S. cerevisiae cultured for 25 generations under strong and slightly toxic expression after which only limited reduction in fluorescence was detectable. Such non-recombinogenic GFPs can help quantify intracellular responses operating a low copy number in recombination-prone organisms.

  10. Recombination-stable multimeric green fluorescent protein for characterization of weak promoter outputs in Saccharomyces cerevisiae

    DEFF Research Database (Denmark)

    Rugbjerg, Peter; Knuf, Christoph; Förster, Jochen

    2015-01-01

    Green fluorescent proteins (GFPs) are widely used for visualization of proteins to track localization and expression dynamics. However, phenotypically important processes can operate at too low expression levels for routine detection, i.e. be overshadowed by autofluorescence noise. While GFP...... GFP variants, yeast-enhanced GFP, GFP+ and superfolder GFP to yield a sequence-diverged triple GFP molecule 3vGFP with 74–84% internal repeat identity. Unlike a single GFP, the brightness of 3vGFP allowed characterization of a weak promoter in S. cerevisiae. Utilizing 3vGFP, we further engineered...... cultured for 25 generations under strong and slightly toxic expression after which only limited reduction in fluorescence was detectable. Such non-recombinogenic GFPs can help quantify intracellular responses operating a low copy number in recombination-prone organisms....

  11. Promoting solution phase discharge in Li-O2 batteries containing weakly solvating electrolyte solutions

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    Gao, Xiangwen; Chen, Yuhui; Johnson, Lee; Bruce, Peter G.

    2016-08-01

    On discharge, the Li-O2 battery can form a Li2O2 film on the cathode surface, leading to low capacities, low rates and early cell death, or it can form Li2O2 particles in solution, leading to high capacities at relatively high rates and avoiding early cell death. Achieving discharge in solution is important and may be encouraged by the use of high donor or acceptor number solvents or salts that dissolve the LiO2 intermediate involved in the formation of Li2O2. However, the characteristics that make high donor or acceptor number solvents good (for example, high polarity) result in them being unstable towards LiO2 or Li2O2. Here we demonstrate that introduction of the additive 2,5-di-tert-butyl-1,4-benzoquinone (DBBQ) promotes solution phase formation of Li2O2 in low-polarity and weakly solvating electrolyte solutions. Importantly, it does so while simultaneously suppressing direct reduction to Li2O2 on the cathode surface, which would otherwise lead to Li2O2 film growth and premature cell death. It also halves the overpotential during discharge, increases the capacity 80- to 100-fold and enables rates >1 mA cmareal-2 for cathodes with capacities of >4 mAh cmareal-2. The DBBQ additive operates by a new mechanism that avoids the reactive LiO2 intermediate in solution.

  12. Magic trait electric organ discharge (EOD): Dual function of electric signals promotes speciation in African weakly electric fish.

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    Feulner, Philine Gd; Plath, Martin; Engelmann, Jacob; Kirschbaum, Frank; Tiedemann, Ralph

    2009-07-01

    A unique evolutionary specialization of African weakly electric fish (Mormyridae) is their ability to produce and perceive electric signals. Mormyrids use their electric organs discharge (EOD) for electrolocation and electrocommunication. Here we discuss the adaptive significance of the EOD in foraging (electric prey detection) in light of recent results demonstrating that mormyrid fish mate assortatively according to EOD waveform characteristics (electric mate choice). Therefore the EOD as a single trait pleiotropically combines natural divergent selection and reproductive isolation. Consequently we postulate the EOD as a "magic trait" promoting the diversification of African weakly electric fish.

  13. Recombination-stable multimeric green fluorescent protein for characterization of weak promoter outputs inSaccharomyces cerevisiae

    DEFF Research Database (Denmark)

    Rugbjerg, Peter; Knuf, Christoph; Förster, Jochen;

    2015-01-01

    functions well in translational fusions, the use of tandem GFPs to amplify fluorescence signals is currently avoided in Saccharomyces cerevisiae and many other microorganisms due to the risk of loop-out by direct-repeat recombination. We increased GFP fluorescence by translationally fusing three different...... GFP variants, yeast-enhanced GFP, GFP+ and superfolder GFP to yield a sequence-diverged triple GFP molecule 3vGFP with 74–84% internal repeat identity. Unlike a single GFP, the brightness of 3vGFP allowed characterization of a weak promoter in S. cerevisiae. Utilizing 3vGFP, we further engineered...... a less leaky Cu2+-inducible promoter based on CUP1. The basal expression level of the new promoter was approx. 61% below the wild-type CUP1 promoter, thus expanding the absolute range of Cu2+-based gene control. The stability of 3vGFP towards direct-repeat recombination was assayed in S. cerevisiae...

  14. Generation of stable Xenopus laevis transgenic lines expressing a transgene controlled by weak promoters.

    Science.gov (United States)

    L'hostis-Guidet, Anne; Recher, Gaëlle; Guillet, Brigitte; Al-Mohammad, Abdulrahim; Coumailleau, Pascal; Tiaho, François; Boujard, Daniel; Madigou, Thierry

    2009-10-01

    Combining two existing protocols of trangenesis, namely the REMI and the I-SceI meganuclease methods, we generated Xenopus leavis expressing a transgene under the control of a promoter that presented a restricted pattern of activity and a low level of expression. This was realized by co-incubating sperm nuclei, the I-SceI enzyme and the transgene prior to transplantation into unfertilized eggs. The addition of the woodchuck hepatitis virus posttranscriptional regulatory element in our constructs further enhanced the expression of the transgene without affecting the tissue-specificity of the promoter activity. Using this combination of methods we produced high rates of fully transgenic animals that stably transmitted the transgene to the next generations with a transmission rate of 50% indicating a single integration event.

  15. TNF-like weak inducer of apoptosis (TWEAK promotes beta cell neogenesis from pancreatic ductal epithelium in adult mice.

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    Fei Wu

    Full Text Available AIM/HYPOTHESIS: The adult mammalian pancreas has limited ability to regenerate in order to restore adequate insulin production from multipotent progenitors, the identity and function of which remain poorly understood. Here we test whether the TNF family member TWEAK (TNF-like weak inducer of apoptosis promotes β-cell neogenesis from proliferating pancreatic ductal epithelium in adult mice. METHODS: C57Bl/6J mice were treated with Fc-TWEAK and pancreas harvested at different time points for analysis by histology and immunohistochemistry. For lineage tracing, 4 week old double transgenic mice CAII-CreER(TM: R26R-eYFP were implanted with tamoxifen pellet, injected with Fc-TWEAK or control Ig twice weekly and analyzed at day 18 for TWEAK-induced duct cell progeny by costaining for insulin and YFP. The effect of TWEAK on pancreatic regeneration was determined by pancytokeratin immunostaining of paraffin embedded sections from wildtype and TWEAK receptor (Fn14 deficient mice after Px. RESULTS: TWEAK stimulates proliferation of ductal epithelial cells through its receptor Fn14, while it has no mitogenic effect on pancreatic α- or β-cells or acinar cells. Importantly, TWEAK induces transient expression of endogenous Ngn3, a master regulator of endocrine cell development, and induces focal ductal structures with characteristics of regeneration foci. In addition, we identify by lineage tracing TWEAK-induced pancreatic β-cells derived from pancreatic duct epithelial cells. Conversely, we show that Fn14 deficiency delays formation of regenerating foci after Px and limits their expansion. CONCLUSIONS/INTERPRETATION: We conclude that TWEAK is a novel factor mediating pancreatic β-cell neogenesis from ductal epithelium in normal adult mice.

  16. A small intergenic region drives exclusive tissue-specific expression of the adjacent genes in Arabidopsis thaliana

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    Valle Estela M

    2009-10-01

    Full Text Available Abstract Background Transcription initiation by RNA polymerase II is unidirectional from most genes. In plants, divergent genes, defined as non-overlapping genes organized head-to-head, are highly represented in the Arabidopsis genome. Nevertheless, there is scarce evidence on functional analyses of these intergenic regions. The At5g06290 and At5g06280 loci are head-to-head oriented and encode a chloroplast-located 2-Cys peroxiredoxin B (2CPB and a protein of unknown function (PUF, respectively. The 2-Cys peroxiredoxins are proteins involved in redox processes, they are part of the plant antioxidant defence and also act as chaperons. In this study, the transcriptional activity of a small intergenic region (351 bp shared by At5g06290 and At5g06280 in Arabidopsis thaliana was characterized. Results Activity of the intergenic region in both orientations was analyzed by driving the β-glucuronidase (GUS reporter gene during the development and growth of Arabidopsis plants under physiological and stressful conditions. Results have shown that this region drives expression either of 2cpb or puf in photosynthetic or vascular tissues, respectively. GUS expression driven by the promoter in 2cpb orientation was enhanced by heat stress. On the other hand, the promoter in both orientations has shown similar down-regulation of GUS expression under low temperatures and other stress conditions such as mannitol, oxidative stress, or fungal elicitor. Conclusion The results from this study account for the first evidence of an intergenic region that, in opposite orientation, directs GUS expression in different spatially-localized Arabidopsis tissues in a mutually exclusive manner. Additionally, this is the first demonstration of a small intergenic region that drives expression of a gene whose product is involved in the chloroplast antioxidant defence such as 2cpb. Furthermore, these results contribute to show that 2cpb is related to the heat stress defensive system

  17. Magic trait electric organ discharge (EOD): Dual function of electric signals promotes speciation in African weakly electric fish

    OpenAIRE

    Feulner, Philine GD; Plath, Martin; Engelmann, Jacob; Kirschbaum, Frank; Tiedemann, Ralph

    2009-01-01

    A unique evolutionary specialization of African weakly electric fish (Mormyridae) is their ability to produce and perceive electric signals. Mormyrids use their electric organs discharge (EOD) for electrolocation and electrocommunication. Here we discuss the adaptive significance of the EOD in foraging (electric prey detection) in light of recent results demonstrating that mormyrid fish mate assortatively according to EOD waveform characteristics (electric mate choice). Therefore the EOD as a...

  18. Functional analysis of an intergenic non-coding sequence within mce1 operon of M.tuberculosis

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    Bose Mridula

    2010-04-01

    Full Text Available Abstract Background The mce operons play an important role in the entry of M. tuberculosis into macrophages and non-phagocytic cells. Their non-redundant function as well as complex regulation is implied by the phenotype of mce mutants. Recently, mce1 operon was found to extend over 13 genes, fadD5 (Rv0166 being the first gene of the operon. The presence of a non-coding sequence of 200 base pairs between Rv0166 and Rv0167 is peculiar to mce1 among the four mce operons of M.tuberculosis. We have examined the function of this region. Results We predicted putative promoter activity of the 200 base pairs of non-coding, intergenic region between Rv0166 and Rv0167 in silico using MEME software and designate it as intergenic promoter, IGPr. We demonstrate both promoter activity and a putative negative regulatory function of this fragment by reporter assays carried out in the surrogate host M.smegmatis. We find that the repressive elements not only control the native promoter but also repress a heterologous promoter of M.smegmatis. The higher activity of the intergenic promoter in a clinical isolate in comparison with the wild type sequence from M.tuberculosis H37Rv could be correlated with a point mutation within the negative element. We have mapped two transcription start sites for mce1 operon both of which are utilized in M.tuberculosis H37Rv as well as the clinical isolate VPCI591. Our studies show that the promoter activity in the non-coding region is relevant not only in reporter gene expression but also in the expression of mce1 operon in M. tuberculosis cells grown in synthetic medium. Conclusion The mce operon of M.tuberculosis H37Rv potentially can be transcribed from two promoters P1 and P2, former mapping upstream of Rv0166 and the latter in the non-coding intergenic region between Rv0166 and Rv0167. The transcription initiation from P1 results in a transcript with Rv0166 while that from P2 will be without it. The sequences between the

  19. Intergenic spacer length variants in Old Portuguese bread wheat cultivars

    Indian Academy of Sciences (India)

    Ana Carvalho; Henrique Guedes-Pinto; José Lima-Brito

    2011-08-01

    The intergenic spacer of the ribosomal DNA is highly variable, but is location specific in the nucleolar organizer region of the chromosomes. This study provides an event of high level of polymorphism / size variation and occurrence of 14 unique phenotypes in 48 landraces of Portuguese bread wheat cultivars for IGS-amplified products obtained by PCR-RFLP technique performed with TaqI. The attendant IGS polymorphism has been used to deduce affinities between landraces. Some of the high molecular weight IGS allelic variants were also probed for their chromosomal localization by sequential silver nitrate staining and fluorescence in situ hybridization. However, only the intergenic spacer allelic variant of 3.1 kb could be successfully hybridized, and was observed to be physically located on the chromosome pair 1B in the NOR loci of the cultivar ‘Magueija’.

  20. Transposable element insertions in long intergenic non-coding RNA genes

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    Sivakumar eKannan

    2015-06-01

    Full Text Available Transposable elements (TE are abundant in mammalian genomes and appear to have contributed to the evolution of their hosts by providing novel regulatory or coding sequences. We analyzed different regions of long intergenic non-coding RNA (lincRNA genes in human and mouse genomes to systematically assess the potential contribution of TEs to the evolution of the structure and regulation of expression of lincRNA genes. Introns of lincRNA genes contain the highest percentage of TE-derived sequences, followed by exons and then promoter regions although the density of TEs is not significantly different between exons and promoters. Higher frequencies of ancient TEs in promoters and exons compared to introns implies that many lincRNA genes emerged before the split of primates and rodents. The content of TE-derived sequences in lincRNA genes is substantially higher than that in protein-coding genes, especially in exons and promoter regions. A significant positive correlation was detected between the content of TEs and evolutionary rate of lincRNAs indicating that inserted TEs are preferentially fixed in fast-evolving lincRNA genes. These results are consistent with the RIDL (Repeat Insertion Domains of LncRNAs hypothesis under which TEs have substantially contributed to the origin, evolution, and in particular functional diversification, of lincRNA genes.

  1. Weak Convergence and Weak Convergence

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    Narita Keiko

    2015-09-01

    Full Text Available In this article, we deal with weak convergence on sequences in real normed spaces, and weak* convergence on sequences in dual spaces of real normed spaces. In the first section, we proved some topological properties of dual spaces of real normed spaces. We used these theorems for proofs of Section 3. In Section 2, we defined weak convergence and weak* convergence, and proved some properties. By RNS_Real Mizar functor, real normed spaces as real number spaces already defined in the article [18], we regarded sequences of real numbers as sequences of RNS_Real. So we proved the last theorem in this section using the theorem (8 from [25]. In Section 3, we defined weak sequential compactness of real normed spaces. We showed some lemmas for the proof and proved the theorem of weak sequential compactness of reflexive real Banach spaces. We referred to [36], [23], [24] and [3] in the formalization.

  2. Effects of structural changes in the dsdA-dsdC intergenic region on D-serine deaminase synthesis.

    Science.gov (United States)

    McFall, E; Nikam, S S; Palchaudhuri, S

    1991-02-01

    Single-base-pair changes well upstream of its transcription initiation site resulted in partially to fully constitutive expression of the D-serine deaminase structural gene, dsdA, independently of the cyclic AMP-cyclic AMP-binding protein complex and of the specific D-serine deaminase activator protein. These promoter mutations appear to define a consensus sequence that is repeated several times. Basal expression of dsdA+ was also strongly enhanced by subcloning on multicopy plasmids, by the DNA gyrase inhibitor novobiocin, and in dsdC(Con) mutants by increasing growth temperature. These results suggest that activation of dsdA+ expression by the dsdC-encoded protein involves distortion of promoter DNA. A dsdA translation start at bp -731 was verified by subcloning of dsdC+. Plasmid-specified activator at a high concentration interfered with chromosomal dsdC(Con) expression, and the interference was enhanced by deletion of most of the intergenic region from the plasmid. Even at a high concentration, however, plasmid-specified activator did not activate expression of chromosomal dsdA+, and in one case it was actually repressive. These results confirm the strong cis tropism of plasmid-specified dsdC-encoded protein and suggest that it is mediated by multiple sites in the dsdA-dsdC intergenic region.

  3. Weak Force

    CERN Multimedia

    Without the weak force, the sun wouldn't shine. The weak force causes beta decay, a form of radioactivity that triggers nuclear fusion in the heart of the sun. The weak force is unlike other forces: it is characterised by disintegration. In beta decay, a down quark transforms into an up quark and an electron is emitted. Some materials are more radioactive than others because the delicate balance between the strong force and the weak force varies depending on the number of particles in the atomic nucleus. We live in the midst of a natural radioactive background that varies from region to region. For example, in Cornwall where there is a lot of granite, levels of background radiation are much higher than in the Geneva region. Text for the interactive: Move the Geiger counter to find out which samples are radioactive - you may be surprised. It is the weak force that is responsible for the Beta radioactivity here. The electrons emitted do not cross the plastic cover. Why do you think there is some detected radioa...

  4. Quantitative modeling of a gene's expression from its intergenic sequence.

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    Md Abul Hassan Samee

    2014-03-01

    Full Text Available Modeling a gene's expression from its intergenic locus and trans-regulatory context is a fundamental goal in computational biology. Owing to the distributed nature of cis-regulatory information and the poorly understood mechanisms that integrate such information, gene locus modeling is a more challenging task than modeling individual enhancers. Here we report the first quantitative model of a gene's expression pattern as a function of its locus. We model the expression readout of a locus in two tiers: 1 combinatorial regulation by transcription factors bound to each enhancer is predicted by a thermodynamics-based model and 2 independent contributions from multiple enhancers are linearly combined to fit the gene expression pattern. The model does not require any prior knowledge about enhancers contributing toward a gene's expression. We demonstrate that the model captures the complex multi-domain expression patterns of anterior-posterior patterning genes in the early Drosophila embryo. Altogether, we model the expression patterns of 27 genes; these include several gap genes, pair-rule genes, and anterior, posterior, trunk, and terminal genes. We find that the model-selected enhancers for each gene overlap strongly with its experimentally characterized enhancers. Our findings also suggest the presence of sequence-segments in the locus that would contribute ectopic expression patterns and hence were "shut down" by the model. We applied our model to identify the transcription factors responsible for forming the stripe boundaries of the studied genes. The resulting network of regulatory interactions exhibits a high level of agreement with known regulatory influences on the target genes. Finally, we analyzed whether and why our assumption of enhancer independence was necessary for the genes we studied. We found a deterioration of expression when binding sites in one enhancer were allowed to influence the readout of another enhancer. Thus, interference

  5. A genome-wide analysis of genetic diversity in Trypanosoma cruzi intergenic regions.

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    Leonardo G Panunzi

    2014-05-01

    Full Text Available BACKGROUND: Trypanosoma cruzi is the causal agent of Chagas Disease. Recently, the genomes of representative strains from two major evolutionary lineages were sequenced, allowing the construction of a detailed genetic diversity map for this important parasite. However this map is focused on coding regions of the genome, leaving a vast space of regulatory regions uncharacterized in terms of their evolutionary conservation and/or divergence. METHODOLOGY: Using data from the hybrid CL Brener and Sylvio X10 genomes (from the TcVI and TcI Discrete Typing Units, respectively, we identified intergenic regions that share a common evolutionary ancestry, and are present in both CL Brener haplotypes (TcII-like and TcIII-like and in the TcI genome; as well as intergenic regions that were conserved in only two of the three genomes/haplotypes analyzed. The genetic diversity in these regions was characterized in terms of the accumulation of indels and nucleotide changes. PRINCIPAL FINDINGS: Based on this analysis we have identified i a core of highly conserved intergenic regions, which remained essentially unchanged in independently evolving lineages; ii intergenic regions that show high diversity in spite of still retaining their corresponding upstream and downstream coding sequences; iii a number of defined sequence motifs that are shared by a number of unrelated intergenic regions. A fraction of indels explains the diversification of some intergenic regions by the expansion/contraction of microsatellite-like repeats.

  6. Weak relativity

    CERN Document Server

    Selleri, Franco

    2015-01-01

    Weak Relativity is an equivalent theory to Special Relativity according to Reichenbach’s definition, where the parameter epsilon equals to 0. It formulates a Neo-Lorentzian approach by replacing the Lorentz transformations with a new set named “Inertial Transformations”, thus explaining the Sagnac effect, the twin paradox and the trip from the future to the past in an easy and elegant way. The cosmic microwave background is suggested as a possible privileged reference system. Most importantly, being a theory based on experimental proofs, rather than mutual consensus, it offers a physical description of reality independent of the human observation.

  7. Negative correlation between expression level and evolutionary rate of long intergenic noncoding RNAs.

    Science.gov (United States)

    Managadze, David; Rogozin, Igor B; Chernikova, Diana; Shabalina, Svetlana A; Koonin, Eugene V

    2011-01-01

    Mammalian genomes contain numerous genes for long noncoding RNAs (lncRNAs). The functions of the lncRNAs remain largely unknown but their evolution appears to be constrained by purifying selection, albeit relatively weakly. To gain insights into the mode of evolution and the functional range of the lncRNA, they can be compared with much better characterized protein-coding genes. The evolutionary rate of the protein-coding genes shows a universal negative correlation with expression: highly expressed genes are on average more conserved during evolution than the genes with lower expression levels. This correlation was conceptualized in the misfolding-driven protein evolution hypothesis according to which misfolding is the principal cost incurred by protein expression. We sought to determine whether long intergenic ncRNAs (lincRNAs) follow the same evolutionary trend and indeed detected a moderate but statistically significant negative correlation between the evolutionary rate and expression level of human and mouse lincRNA genes. The magnitude of the correlation for the lincRNAs is similar to that for equal-sized sets of protein-coding genes with similar levels of sequence conservation. Additionally, the expression level of the lincRNAs is significantly and positively correlated with the predicted extent of lincRNA molecule folding (base-pairing), however, the contributions of evolutionary rates and folding to the expression level are independent. Thus, the anticorrelation between evolutionary rate and expression level appears to be a general feature of gene evolution that might be caused by similar deleterious effects of protein and RNA misfolding and/or other factors, for example, the number of interacting partners of the gene product.

  8. A mechanism for extremely weak SpaP-expression in Streptococcus mutans strain Z1

    Directory of Open Access Journals (Sweden)

    Yutaka Sato

    2011-04-01

    Full Text Available Background: Streptococcus mutans surface-protein antigen (SpaP, PAc, or antigen I/II has been well known to play an important role in initial attachment to tooth surfaces. However, strains with weak SpaP-expression were recently reported to be found in natural populations of S. mutans. The S. mutans gbpC-negative strain Z1, which we previously isolated from saliva and plaque samples, apparently expresses relatively low levels of SpaP protein compared to S. mutans strains MT8148 or UA159. Objective: To elucidate the mechanism for weak SpaP-expression in this strain, the spaP gene region in strain Z1 was amplified by polymerase chain reaction (PCR and analyzed. Methods: Allelic exchange mutants between strains Z1 and UA159 involving the spaP gene region were constructed. The SpaP protein expressed in the mutants was detected with Coomasie Brilliant Blue (CBB-staining and Western blot analysis following SDS-PAGE. Results: The 4689 bp spaP gene coding sequence for Z1 appeared to be intact. In contrast, a 20 bp nucleotide sequence appeared to be deleted from the region immediately upstream from the Z1 spaP gene when compared to the same region in UA159. The 216 bp and 237 bp intergenic fragments upstream from the spaP gene, respectively, from Z1 and UA159 were isolated, modified, and transformed into the other strain by allelic replacement. The resultant UA159-promoter region-mutant exhibited extremely weak SpaP-expression similar to that of strain Z1 and the Z1 complemented mutant expressed Spa protein levels like that of strain UA159. Conclusion: These results suggest that weak SpaP-expression in strain Z1 resulted from a 20 bp-deletion in the spaP gene promoter region.

  9. Chromosome-wide mapping of DNA methylation patterns in normal and malignant prostate cells reveals pervasive methylation of gene-associated and conserved intergenic sequences

    Science.gov (United States)

    2011-01-01

    Background DNA methylation has been linked to genome regulation and dysregulation in health and disease respectively, and methods for characterizing genomic DNA methylation patterns are rapidly emerging. We have developed/refined methods for enrichment of methylated genomic fragments using the methyl-binding domain of the human MBD2 protein (MBD2-MBD) followed by analysis with high-density tiling microarrays. This MBD-chip approach was used to characterize DNA methylation patterns across all non-repetitive sequences of human chromosomes 21 and 22 at high-resolution in normal and malignant prostate cells. Results Examining this data using computational methods that were designed specifically for DNA methylation tiling array data revealed widespread methylation of both gene promoter and non-promoter regions in cancer and normal cells. In addition to identifying several novel cancer hypermethylated 5' gene upstream regions that mediated epigenetic gene silencing, we also found several hypermethylated 3' gene downstream, intragenic and intergenic regions. The hypermethylated intragenic regions were highly enriched for overlap with intron-exon boundaries, suggesting a possible role in regulation of alternative transcriptional start sites, exon usage and/or splicing. The hypermethylated intergenic regions showed significant enrichment for conservation across vertebrate species. A sampling of these newly identified promoter (ADAMTS1 and SCARF2 genes) and non-promoter (downstream or within DSCR9, C21orf57 and HLCS genes) hypermethylated regions were effective in distinguishing malignant from normal prostate tissues and/or cell lines. Conclusions Comparison of chromosome-wide DNA methylation patterns in normal and malignant prostate cells revealed significant methylation of gene-proximal and conserved intergenic sequences. Such analyses can be easily extended for genome-wide methylation analysis in health and disease. PMID:21669002

  10. Muscle Weakness

    Science.gov (United States)

    Al Kaissi, Ali; Ryabykh, Sergey; Ochirova, Polina; Kenis, Vladimir; Hofstätter, Jochen G.; Grill, Franz; Ganger, Rudolf; Kircher, Susanne Gerit

    2017-01-01

    Marked ligamentous hyperlaxity and muscle weakness/wasting associated with awkward gait are the main deficits confused with the diagnosis of myopathy. Seven children (6 boys and 1 girl with an average age of 8 years) were referred to our department because of diverse forms of skeletal abnormalities. No definitive diagnosis was made, and all underwent a series of sophisticated investigations in other institutes in favor of myopathy. We applied our methodology through the clinical and radiographic phenotypes followed by targeted genotypic confirmation. Three children (2 boys and 1 girl) were compatible with the diagnosis of progressive pseudorheumatoid chondrodysplasia. The genetic mutation was correlated with the WISP 3 gene actively expressed by articular chondrocytes and located on chromosome 6. Klinefelter syndrome was the diagnosis in 2 boys. Karyotyping confirmed 47,XXY (aneuploidy of Klinefelter syndrome). And 2 boys were finally diagnosed with Morquio syndrome (MPS type IV A) as both showed missense mutations in the N-acetylgalactosamine-sulfate sulfatase gene. Misdiagnosis can lead to the initiation of a long list of sophisticated investigations. PMID:28210640

  11. Regulatory roles of conserved intergenic domains in vertebrate Dlx bigene clusters.

    Science.gov (United States)

    Ghanem, Noël; Jarinova, Olga; Amores, Angel; Long, Qiaoming; Hatch, Gary; Park, Byung Keon; Rubenstein, John L R; Ekker, Marc

    2003-04-01

    Dlx homeobox genes of vertebrates are generally arranged as three bigene clusters on distinct chromosomes. The Dlx1/Dlx2, Dlx5/Dlx6, and Dlx3/Dlx7 clusters likely originate from duplications of an ancestral Dlx gene pair. Overlaps in expression are often observed between genes from the different clusters. To determine if the overlaps are a result of the conservation of enhancer sequences between paralogous clusters, we compared the Dlx1/2 and the Dlx5/Dlx6 intergenic regions from human, mouse, zebrafish, and from two pufferfish, Spheroides nephelus and Takifugu rubripes. Conservation between all five vertebrates is limited to four sequences, two in Dlx1/Dlx2 and two in Dlx5/Dlx6. These noncoding sequences are >75% identical over a few hundred base pairs, even in distant vertebrates. However, when compared to each other, the four intergenic sequences show a much more limited similarity. Each intergenic sequence acts as an enhancer when tested in transgenic animals. Three of them are active in the forebrain with overlapping patterns despite their limited sequence similarity. The lack of sequence similarity between paralogous intergenic regions and the high degree of sequence conservation of orthologous enhancers suggest a rapid divergence of Dlx intergenic regions early in chordate/vertebrate evolution followed by fixation of cis-acting regulatory elements.

  12. Unusual structure of ribosomal DNA in the copepod Tigriopus californicus: intergenic spacer sequences lack internal subrepeats.

    Science.gov (United States)

    Burton, R S; Metz, E C; Flowers, J M; Willett, C S

    2005-01-03

    Eukaryotic nuclear ribosomal DNA (rDNA) is typically arranged as a series of tandem repeats coding for 18S, 5.8S, and 28S ribosomal RNAs. Transcription of rDNA repeats is initiated in the intergenic spacer (IGS) region upstream of the 18S gene. The IGS region itself typically consists of a set of subrepeats that function as transcriptional enhancers. Two important evolutionary forces have been proposed to act on the IGS region: first, selection may favor changes in the number of subrepeats that adaptively adjust rates of rDNA transcription, and second, coevolution of IGS sequence with RNA polymerase I transcription factors may lead to species specificity of the rDNA transcription machinery. To investigate the potential role of these forces on population differentiation and hybrid breakdown in the intertidal copepod Tigriopus californicus, we have characterized the rDNA of five T. californicus populations from the Pacific Coast of North America and one sample of T. brevicornicus from Scotland. Major findings are as follows: (1) the structural genes for 18S and 28S are highly conserved across T. californicus populations, in contrast to other nuclear and mitochondrial DNA (mtDNA) genes previously studied in these populations. (2) There is extensive differentiation among populations in the IGS region; in the extreme, no homology is observed across the IGS sequences (>2 kb) from the two Tigriopus species. (3) None of the Tigriopus IGS sequences have the subrepeat structure common to other eukaryotic IGS regions. (4) Segregation of rDNA in laboratory crosses indicates that rDNA is located on at least two separate chromosomes in T. californicus. These data suggest that although IGS length polymorphism does not appear to play the adaptive role hypothesized in some other eukaryotic systems, sequence divergence in the rDNA promoter region within the IGS could lead to population specificity of transcription in hybrids.

  13. Modulation of Re-initiation of Measles Virus Transcription at Intergenic Regions by PXD to NTAIL Binding Strength.

    Science.gov (United States)

    Bloyet, Louis-Marie; Brunel, Joanna; Dosnon, Marion; Hamon, Véronique; Erales, Jenny; Gruet, Antoine; Lazert, Carine; Bignon, Christophe; Roche, Philippe; Longhi, Sonia; Gerlier, Denis

    2016-12-01

    Measles virus (MeV) and all Paramyxoviridae members rely on a complex polymerase machinery to ensure viral transcription and replication. Their polymerase associates the phosphoprotein (P) and the L protein that is endowed with all necessary enzymatic activities. To be processive, the polymerase uses as template a nucleocapsid made of genomic RNA entirely wrapped into a continuous oligomer of the nucleoprotein (N). The polymerase enters the nucleocapsid at the 3'end of the genome where are located the promoters for transcription and replication. Transcription of the six genes occurs sequentially. This implies ending and re-initiating mRNA synthesis at each intergenic region (IGR). We explored here to which extent the binding of the X domain of P (XD) to the C-terminal region of the N protein (NTAIL) is involved in maintaining the P/L complex anchored to the nucleocapsid template during the sequential transcription. Amino acid substitutions introduced in the XD-binding site on NTAIL resulted in a wide range of binding affinities as determined by combining protein complementation assays in E. coli and human cells and isothermal titration calorimetry. Molecular dynamics simulations revealed that XD binding to NTAIL involves a complex network of hydrogen bonds, the disruption of which by two individual amino acid substitutions markedly reduced the binding affinity. Using a newly designed, highly sensitive dual-luciferase reporter minigenome assay, the efficiency of re-initiation through the five measles virus IGRs was found to correlate with NTAIL/XD KD. Correlatively, P transcript accumulation rate and F/N transcript ratios from recombinant viruses expressing N variants were also found to correlate with the NTAIL to XD binding strength. Altogether, our data support a key role for XD binding to NTAIL in maintaining proper anchor of the P/L complex thereby ensuring transcription re-initiation at each intergenic region.

  14. Human Disease-Associated Genetic Variation Impacts Large Intergenic Non-Coding RNA Expression

    NARCIS (Netherlands)

    Kumar, Vinod; Westra, Harm-Jan; Karjalainen, Juha; Zhernakova, Daria V.; Esko, Tonu; Hrdlickova, Barbara; Almeida, Rodrigo; Zhernakova, Alexandra; Reinmaa, Eva; Hofker, Marten H.; Fehrmann, Rudolf S. N.; Fu, Jingyuan; Withoff, Sebo; Metspalu, Andres; Franke, Lude; Wijmenga, Cisca; Vosa, Urmo

    2013-01-01

    Recently it has become clear that only a small percentage (7%) of disease-associated single nucleotide polymorphisms (SNPs) are located in protein-coding regions, while the remaining 93% are located in gene regulatory regions or in intergenic regions. Thus, the understanding of how genetic variation

  15. Ribosomal operon intergenic sequence region (ISR) heterogeneity in Campylobacter coli and Campylobacter jejuni

    Science.gov (United States)

    Campylobacter jejuni and Campylobacter coli are closely related species that can not be distinguished by their 16S or 23S rRNA gene sequences. However, the intergenic sequence region (ISR) that is between the 16S and 23S genes is markedly different and characteristic for each species. A peculiarit...

  16. Use of the CP and CPm Intergene Sequences to Discriminate CTV Strains

    Science.gov (United States)

    There is a need to develop a rapid assay to distinguish potentially mild vs severe strains of Citrus tristeza virus. Multiple alignment performed on the coat protein (CP) and the minor coat protein (CPm) intergene sequences (~80-100 bp) from different CTV isolates revealed that severe strains (VT, ...

  17. Weak Galois and Weak Cocleft Coextensions

    Institute of Scientific and Technical Information of China (English)

    J.N. Alonso (A)lvarez; J.M. Fernández Vilaboa; R. González Rodríguez; A.B. Rodríguez Raposo

    2007-01-01

    For a weak entwining structure (A, C,ψ) living in a braided monoidal category with equalizers and coequalizers, we formulate the notion of weak A-Galois coextension with normal basis and we show that these Galois coextensions are equivalent to the weak A-cocleft coextensions introduced by the authors.

  18. Conserved intergenic sequences revealed by CTAG-profiling in Salmonella: thermodynamic modeling for function prediction

    Science.gov (United States)

    Tang, Le; Zhu, Songling; Mastriani, Emilio; Fang, Xin; Zhou, Yu-Jie; Li, Yong-Guo; Johnston, Randal N.; Guo, Zheng; Liu, Gui-Rong; Liu, Shu-Lin

    2017-01-01

    Highly conserved short sequences help identify functional genomic regions and facilitate genomic annotation. We used Salmonella as the model to search the genome for evolutionarily conserved regions and focused on the tetranucleotide sequence CTAG for its potentially important functions. In Salmonella, CTAG is highly conserved across the lineages and large numbers of CTAG-containing short sequences fall in intergenic regions, strongly indicating their biological importance. Computer modeling demonstrated stable stem-loop structures in some of the CTAG-containing intergenic regions, and substitution of a nucleotide of the CTAG sequence would radically rearrange the free energy and disrupt the structure. The postulated degeneration of CTAG takes distinct patterns among Salmonella lineages and provides novel information about genomic divergence and evolution of these bacterial pathogens. Comparison of the vertically and horizontally transmitted genomic segments showed different CTAG distribution landscapes, with the genome amelioration process to remove CTAG taking place inward from both terminals of the horizontally acquired segment. PMID:28262684

  19. Conserved intergenic sequences revealed by CTAG-profiling in Salmonella: thermodynamic modeling for function prediction

    Science.gov (United States)

    Tang, Le; Zhu, Songling; Mastriani, Emilio; Fang, Xin; Zhou, Yu-Jie; Li, Yong-Guo; Johnston, Randal N.; Guo, Zheng; Liu, Gui-Rong; Liu, Shu-Lin

    2017-03-01

    Highly conserved short sequences help identify functional genomic regions and facilitate genomic annotation. We used Salmonella as the model to search the genome for evolutionarily conserved regions and focused on the tetranucleotide sequence CTAG for its potentially important functions. In Salmonella, CTAG is highly conserved across the lineages and large numbers of CTAG-containing short sequences fall in intergenic regions, strongly indicating their biological importance. Computer modeling demonstrated stable stem-loop structures in some of the CTAG-containing intergenic regions, and substitution of a nucleotide of the CTAG sequence would radically rearrange the free energy and disrupt the structure. The postulated degeneration of CTAG takes distinct patterns among Salmonella lineages and provides novel information about genomic divergence and evolution of these bacterial pathogens. Comparison of the vertically and horizontally transmitted genomic segments showed different CTAG distribution landscapes, with the genome amelioration process to remove CTAG taking place inward from both terminals of the horizontally acquired segment.

  20. α-MSH regulates intergenic splicing of MC1R and TUBB3 in human melanocytes

    OpenAIRE

    Dalziel, Martin; Kolesnichenko, Marina; das Neves, Ricardo Pires; Iborra, Francisco; Goding, Colin; Furger, André

    2010-01-01

    Alternative splicing enables higher eukaryotes to increase their repertoire of proteins derived from a restricted number of genes. However, the possibility that functional diversity may also be augmented by splicing between adjacent genes has been largely neglected. Here, we show that the human melanocortin 1 receptor (MC1R) gene, a critical component of the facultative skin pigmentation system, has a highly complex and inefficient poly(A) site which is instrumental in allowing intergenic spl...

  1. The Mitochondrial Genome of Conus textile, coxI-coxII Intergenic Sequences and Conoidean Evolution

    OpenAIRE

    2007-01-01

    The cone snails belong to the superfamily Conoidea, comprising ∼10,000 venomous marine gastropods. We determined the complete mitochondrial DNA sequence of Conus textile. The gene order is identical in Conus textile, Lophiotoma cerithiformis (another Conoidean gastropod), and the neogastropod Ilyanassa obsoleta, (not in the superfamily Conoidea). However, the intergenic interval between the coxI/coxII genes, was much longer in C. textile (165 bp) than in any other previously analyzed gastropo...

  2. Intergenic and repeat transcription in human, chimpanzee and macaque brains measured by RNA-Seq.

    Directory of Open Access Journals (Sweden)

    Augix Guohua Xu

    Full Text Available Transcription is the first step connecting genetic information with an organism's phenotype. While expression of annotated genes in the human brain has been characterized extensively, our knowledge about the scope and the conservation of transcripts located outside of the known genes' boundaries is limited. Here, we use high-throughput transcriptome sequencing (RNA-Seq to characterize the total non-ribosomal transcriptome of human, chimpanzee, and rhesus macaque brain. In all species, only 20-28% of non-ribosomal transcripts correspond to annotated exons and 20-23% to introns. By contrast, transcripts originating within intronic and intergenic repetitive sequences constitute 40-48% of the total brain transcriptome. Notably, some repeat families show elevated transcription. In non-repetitive intergenic regions, we identify and characterize 1,093 distinct regions highly expressed in the human brain. These regions are conserved at the RNA expression level across primates studied and at the DNA sequence level across mammals. A large proportion of these transcripts (20% represents 3'UTR extensions of known genes and may play roles in alternative microRNA-directed regulation. Finally, we show that while transcriptome divergence between species increases with evolutionary time, intergenic transcripts show more expression differences among species and exons show less. Our results show that many yet uncharacterized evolutionary conserved transcripts exist in the human brain. Some of these transcripts may play roles in transcriptional regulation and contribute to evolution of human-specific phenotypic traits.

  3. Intergenic regions of Borrelia plasmids contain phylogenetically conserved RNA secondary structure motifs

    Directory of Open Access Journals (Sweden)

    Delihas Nicholas

    2009-03-01

    Full Text Available Abstract Background Borrelia species are unusual in that they contain a large number of linear and circular plasmids. Many of these plasmids have long intergenic regions. These regions have many fragmented genes, repeated sequences and appear to be in a state of flux, but they may serve as reservoirs for evolutionary change and/or maintain stable motifs such as small RNA genes. Results In an in silico study, intergenic regions of Borrelia plasmids were scanned for phylogenetically conserved stem loop structures that may represent functional units at the RNA level. Five repeat sequences were found that could fold into stable RNA-type stem loop structures, three of which are closely linked to protein genes, one of which is a member of the Borrelia lipoprotein_1 super family genes and another is the complement regulator-acquiring surface protein_1 (CRASP-1 family. Modeled secondary structures of repeat sequences display numerous base-pair compensatory changes in stem regions, including C-G→A-U transversions when orthologous sequences are compared. Base-pair compensatory changes constitute strong evidence for phylogenetic conservation of secondary structure. Conclusion Intergenic regions of Borrelia species carry evolutionarily stable RNA secondary structure motifs. Of major interest is that some motifs are associated with protein genes that show large sequence variability. The cell may conserve these RNA motifs whereas allow a large flux in amino acid sequence, possibly to create new virulence factors but with associated RNA motifs intact.

  4. The Xis2d protein of CTnDOT binds to the intergenic region between the mob and tra operons.

    Science.gov (United States)

    Hopp, Crystal M; Gardner, Jeffrey F; Salyers, Abigail A

    2015-09-01

    CTnDOT is a 65kbp integrative and conjugative element (ICE) that carries genes encoding both tetracycline and erythromycin resistances. The excision operon of this element encodes Xis2c, Xis2d, and Exc proteins involved in the excision of CTnDOT from host chromosomes. These proteins are also required in the complex transcriptional regulation of the divergently transcribed transfer (tra) and mobilization (mob) operons of CTnDOT. Transcription of the tra operon is positively regulated by Xis2c and Xis2d, whereas, transcription of the mob operon is positively regulated by Xis2d and Exc. Xis2d is the only protein that is involved in the excision reaction, as well as the transcriptional regulation of both the mob and tra operons. This paper helps establish how Xis2d binds the DNA in the mob and tra region. Unlike other excisionase proteins, Xis2d binds a region of dyad symmetry. The binding site is located in the intergenic region between the mob and tra promoters, and once bound Xis2d induces a bend in the DNA. Xis2d binding to this region could be the preliminary step for the activation of both operons. Then the other proteins, like Exc, can interact with Xis2d and form higher order complexes. Copyright © 2015 Elsevier B.V. All rights reserved.

  5. A New Intergenic α-Globin Deletion (α-αΔ125) Found in a Kabyle Population.

    Science.gov (United States)

    Singh, Amrathlal Rabbind; Lacan, Philippe; Cadet, Estelle; Bignet, Patricia; Dumesnil, Cécile; Vannier, Jean-Pierre; Joly, Philippe; Rochette, Jacques

    2016-01-01

    We have identified a deletion of 125 bp (α-α(Δ125)) (NG_000006.1: g.37040_37164del) in the α-globin gene cluster in a Kabyle population. A combination of singlex and multiplex polymerase chain reaction (PCR)-based assays have been used to identify the molecular defect. Sequencing of the abnormal PCR amplification product revealed a novel α1-globin promoter deletion. The endpoints of the deletion were characterized by sequencing the deletion junctions of the mutated allele. The observed deletion was located 378 bp upstream of the α1-globin gene transcription initiation site and leaves the α2 gene intact. In some patients, the α-α(Δ125) deletion was shown to segregate with Hb S (HBB: c.20A>T) and/or Hb C (HBB: c.19G>A) or a β-thalassemic allele. The α-α(Δ125) deletion has no discernible effect on red cell indices when inherited with no other abnormal globin genes. The family study demonstrated that the deletion is heritable. This is the only example of an intergenic α2-α1 non coding DNA deletion, leaving the α2-globin gene and the α1 coding part intact.

  6. Transcriptome analysis reveals long intergenic non-coding RNAs involved in skeletal muscle growth and development in pig.

    Science.gov (United States)

    Zou, Cheng; Li, Jingxuan; Luo, Wenzhe; Li, Long; Hu, An; Fu, Yuhua; Hou, Ye; Li, Changchun

    2017-08-18

    Long intergenic non-coding RNAs (lincRNAs) play essential roles in numerous biological processes and are widely studied. The skeletal muscle is an important tissue that plays an essential role in individual movement ability. However, lincRNAs in pig skeletal muscles are largely undiscovered and their biological functions remain elusive. In this study, we assembled transcriptomes using RNA-seq data published in previous studies of our laboratory group and identified 323 lincRNAs in porcine leg muscle. We found that these lincRNAs have shorter transcript length, fewer exons and lower expression level than protein-coding genes. Gene ontology and pathway analyses indicated that many potential target genes (PTGs) of lincRNAs were involved in skeletal-muscle-related processes, such as muscle contraction and muscle system process. Combined our previous studies, we found a potential regulatory mechanism in which the promoter methylation of lincRNAs can negatively regulate lincRNA expression and then positively regulate PTG expression, which can finally result in abnormal phenotypes of cloned piglets through a certain unknown pathway. This work detailed a number of lincRNAs and their target genes involved in skeletal muscle growth and development and can facilitate future studies on their roles in skeletal muscle growth and development.

  7. On Weak Regular *-semigroups

    Institute of Scientific and Technical Information of China (English)

    Yong Hua LI; Hai Bin KAN; Bing Jun YU

    2004-01-01

    In this paper, a special kind of partial algebras called projective partial groupoids is defined.It is proved that the inverse image of all projections of a fundamental weak regular *-semigroup under the homomorphism induced by the maximum idempotent-separating congruence of a weak regular *-semigroup has a projective partial groupoid structure. Moreover, a weak regular *-product which connects a fundamental weak regular *-semigroup with corresponding projective partial groupoid is defined and characterized. It is finally proved that every weak regular *-product is in fact a weak regular *-semigroup and any weak regular *-semigroup is constructed in this way.

  8. Disruption of a Large Intergenic Noncoding RNA in Subjects with Neurodevelopmental Disabilities

    OpenAIRE

    Talkowski, Michael E.; Maussion, Gilles; Crapper, Liam; Rosenfeld, Jill A.; Blumenthal, Ian; Hanscom, Carrie; Chiang, Colby; Lindgren, Amelia; Pereira, Shahrin; Ruderfer, Douglas; Diallo, Alpha B.; Lopez, Juan Pablo; Turecki, Gustavo; Chen, Elizabeth S.; Gigek, Carolina

    2012-01-01

    Large intergenic noncoding (linc) RNAs represent a newly described class of ribonucleic acid whose importance in human disease remains undefined. We identified a severely developmentally delayed 16-year-old female with karyotype 46,XX,t(2;11)(p25.1;p15.1)dn in the absence of clinically significant copy number variants (CNVs). DNA capture followed by next-generation sequencing of the translocation breakpoints revealed disruption of a single noncoding gene on chromosome 2, LINC00299, whose RNA ...

  9. Cofinitely weak supplemented modules

    OpenAIRE

    Alizade, Rafail; Büyükaşık, Engin

    2003-01-01

    We prove that a module M is cofinitely weak supplemented or briefly cws (i.e., every submodule N of M with M/N finitely generated, has a weak supplement) if and only if every maximal submodule has a weak supplement. If M is a cws-module then every M-generated module is a cws-module. Every module is cws if and only if the ring is semilocal. We study also modules, whose finitely generated submodules have weak supplements.

  10. 薄弱学校推进义务教育均衡发展的四个抓手%Four Grippers of Weak Schools to Promote Balanced Development of Compulsory Education

    Institute of Scientific and Technical Information of China (English)

    郭菊英

    2015-01-01

    推进义务教育均衡发展主要包涵经费投入、办学条件、教师队伍、学校管理和办学水平等,而对于边远地区薄弱学校而言,除等待从外部均衡来有益的资源外,侧重"四个抓手".注重均衡发展基础,优化资源配置;握好均衡发展龙头,改进班子作风;抓好发展保障,规范学校管理;抓住创建合格学校契机,提高学校办学水平.%Promote balanced development of compulsory inclusion major funding, school conditions, teachers, school admin-istrators and school level, etc., and for the purposes of weak schools in remote areas, in addition to wait to benefit from external balance resources, focus on the"four grippers". Focus on balanced development of basic, optimize the allocation of resources;balanced development of leading a good grip, improved team style;grasp the development of security, regulate school man-agement;seize the opportunity to create good schools and improve the school level.

  11. GENERALIZED WEAK FUNCTIONS

    Institute of Scientific and Technical Information of China (English)

    丁夏畦; 罗佩珠

    2004-01-01

    In this paper the authors introduce some new ideas on generalized numbers and generalized weak functions. They prove that the product of any two weak functions is a generalized weak function. So in particular they solve the problem of the multiplication of two generalized functions.

  12. Partial Deletion of the L-Segment Intergenic Region Produces an Attenuated Machupo Virus that Protects Guinea Pigs Against Lethal Guanarito Virus Infection

    Science.gov (United States)

    2017-01-11

    1 Golden, J.W. et al. Machupo virus live-attenuated vaccine Partial deletion of the L-segment intergenic region produces an attenuated Machupo...had a 35 nucleotide deletion in the L-segment non-coding intergenic region . Contrary to Car91, Car68 produced a lethal infection in guinea pigs with...Keywords: Arenavirus, Machupo virus, Guanarito virus, intergenic region , live-attenuated vaccines, cross-protection 45 TR-17-030 DISTRIBUTION

  13. De Novo Identification of Regulatory Regions in Intergenic Spaces of Prokaryotic Genomes

    Energy Technology Data Exchange (ETDEWEB)

    Chain, P; Garcia, E; Mcloughlin, K; Ovcharenko, I

    2007-02-20

    This project was begun to implement, test, and experimentally validate the results of a novel algorithm for genome-wide identification of candidate transcription-factor binding sites in prokaryotes. Most techniques used to identify regulatory regions rely on conservation between different genomes or have a predetermined sequence motif(s) to perform a genome-wide search. Therefore, such techniques cannot be used with new genome sequences, where information regarding such motifs has not yet been discovered. This project aimed to apply a de novo search algorithm to identify candidate binding-site motifs in intergenic regions of prokaryotic organisms, initially testing the available genomes of the Yersinia genus. We retrofitted existing nucleotide pattern-matching algorithms, analyzed the candidate sites identified by these algorithms as well as their target genes to screen for meaningful patterns. Using properly annotated prokaryotic genomes, this project aimed to develop a set of procedures to identify candidate intergenic sites important for gene regulation. We planned to demonstrate this in Yersinia pestis, a model biodefense, Category A Select Agent pathogen, and then follow up with experimental evidence that these regions are indeed involved in regulation. The ability to quickly characterize transcription-factor binding sites will help lead to a better understanding of how known virulence pathways are modulated in biodefense-related organisms, and will help our understanding and exploration of regulons--gene regulatory networks--and novel pathways for metabolic processes in environmental microbes.

  14. Structural analysis of two length variants of the rDNA intergenic spacer from Eruca sativa.

    Science.gov (United States)

    Lakshmikumaran, M; Negi, M S

    1994-03-01

    Restriction enzyme analysis of the rRNA genes of Eruca sativa indicated the presence of many length variants within a single plant and also between different cultivars which is unusual for most crucifers studied so far. Two length variants of the rDNA intergenic spacer (IGS) from a single individual E. sativa (cv. Itsa) plant were cloned and characterized. The complete nucleotide sequences of both the variants (3 kb and 4 kb) were determined. The intergenic spacer contains three families of tandemly repeated DNA sequences denoted as A, B and C. However, the long (4 kb) variant shows the presence of an additional repeat, denoted as D, which is a duplication of a 224 bp sequence just upstream of the putative transcription initiation site. Repeat units belonging to the three different families (A, B and C) were in the size range of 22 to 30 bp. Such short repeat elements are present in the IGS of most of the crucifers analysed so far. Sequence analysis of the variants (3 kb and 4 kb) revealed that the length heterogeneity of the spacer is located at three different regions and is due to the varying copy numbers of repeat units belonging to families A and B. Length variation of the spacer is also due to the presence of a large duplication (D repeats) in the 4 kb variant which is absent in the 3 kb variant. The putative transcription initiation site was identified by comparisons with the rDNA sequences from other plant species.

  15. Concerted actions of a thermo-labile regulator and a unique intergenic RNA thermosensor control Yersinia virulence.

    Directory of Open Access Journals (Sweden)

    Katja Böhme

    2012-02-01

    Full Text Available Expression of all Yersinia pathogenicity factors encoded on the virulence plasmid, including the yop effector and the ysc type III secretion genes, is controlled by the transcriptional activator LcrF in response to temperature. Here, we show that a protein- and RNA-dependent hierarchy of thermosensors induce LcrF synthesis at body temperature. Thermally regulated transcription of lcrF is modest and mediated by the thermo-sensitive modulator YmoA, which represses transcription from a single promoter located far upstream of the yscW-lcrF operon at moderate temperatures. The transcriptional response is complemented by a second layer of temperature-control induced by a unique cis-acting RNA element located within the intergenic region of the yscW-lcrF transcript. Structure probing demonstrated that this region forms a secondary structure composed of two stemloops at 25°C. The second hairpin sequesters the lcrF ribosomal binding site by a stretch of four uracils. Opening of this structure was favored at 37°C and permitted ribosome binding at host body temperature. Our study further provides experimental evidence for the biological relevance of an RNA thermometer in an animal model. Following oral infections in mice, we found that two different Y. pseudotuberculosis patient isolates expressing a stabilized thermometer variant were strongly reduced in their ability to disseminate into the Peyer's patches, liver and spleen and have fully lost their lethality. Intriguingly, Yersinia strains with a destabilized version of the thermosensor were attenuated or exhibited a similar, but not a higher mortality. This illustrates that the RNA thermometer is the decisive control element providing just the appropriate amounts of LcrF protein for optimal infection efficiency.

  16. Mutations in the embC-embA intergenic region contribute to Mycobacterium tuberculosis resistance to ethambutol.

    Science.gov (United States)

    Cui, Zhenling; Li, Yuanyuan; Cheng, Song; Yang, Hua; Lu, Junmei; Hu, Zhongyi; Ge, Baoxue

    2014-11-01

    The rapid increase in Mycobacterium tuberculosis resistance to ethambutol (EMB) threatens the diagnosis and treatment of tuberculosis (TB). We investigated the role of mutations in the embC-embA intergenic region (IGR) in EMB-resistant clinical strains from east China. A total of 767 M. tuberculosis clinical strains were collected and analyzed for their drug susceptibility to EMB using the MGIT 960 system and MIC assay, and the embC-embA IGRs of these strains were sequenced. The transcriptional activity of the embC-embA IGR mutations was examined by reporter gene assays in recombinant Mycobacterium smegmatis strains, and the effect of IGR mutations on its binding to EmbR, a transcription regulator of embAB, was analyzed by gel mobility shift assays. Correlation coefficient analysis showed that the embC-embA IGR mutation is associated with EMB resistance. The clinical strains carrying IGR mutations had a much higher level of embA and embB mRNA as well as higher MICs to EMB. IGR mutations had higher transcriptional activity when transformed into M. smegmatis strains. Mutated IGRs bound to EmbR with much higher affinity than wild-type fragments. The sensitivity of molecular drug susceptibility testing (DST) with IGR mutations as an additional marker increased from 65.5% to 73.5%. Mutations of the embC-embA IGR enhance the binding of EmbR to the promoter region of embAB and increase the expression of embAB, thus contributing to EMB resistance. Therefore, identification of IGR mutations as markers of EMB resistance could increase the sensitivity of molecular DST.

  17. Concerted Actions of a Thermo-labile Regulator and a Unique Intergenic RNA Thermosensor Control Yersinia Virulence

    Science.gov (United States)

    Kortmann, Jens; Seekircher, Stephanie; Heroven, Ann Kathrin; Berger, Evelin; Pisano, Fabio; Thiermann, Tanja; Wolf-Watz, Hans; Narberhaus, Franz; Dersch, Petra

    2012-01-01

    Expression of all Yersinia pathogenicity factors encoded on the virulence plasmid, including the yop effector and the ysc type III secretion genes, is controlled by the transcriptional activator LcrF in response to temperature. Here, we show that a protein- and RNA-dependent hierarchy of thermosensors induce LcrF synthesis at body temperature. Thermally regulated transcription of lcrF is modest and mediated by the thermo-sensitive modulator YmoA, which represses transcription from a single promoter located far upstream of the yscW-lcrF operon at moderate temperatures. The transcriptional response is complemented by a second layer of temperature-control induced by a unique cis-acting RNA element located within the intergenic region of the yscW-lcrF transcript. Structure probing demonstrated that this region forms a secondary structure composed of two stemloops at 25°C. The second hairpin sequesters the lcrF ribosomal binding site by a stretch of four uracils. Opening of this structure was favored at 37°C and permitted ribosome binding at host body temperature. Our study further provides experimental evidence for the biological relevance of an RNA thermometer in an animal model. Following oral infections in mice, we found that two different Y. pseudotuberculosis patient isolates expressing a stabilized thermometer variant were strongly reduced in their ability to disseminate into the Peyer's patches, liver and spleen and have fully lost their lethality. Intriguingly, Yersinia strains with a destabilized version of the thermosensor were attenuated or exhibited a similar, but not a higher mortality. This illustrates that the RNA thermometer is the decisive control element providing just the appropriate amounts of LcrF protein for optimal infection efficiency. PMID:22359501

  18. Characterization of IS6110 insertions in the dnaA-dnaN intergenic region of Mycobacterium tuberculosis clinical isolates.

    Science.gov (United States)

    Turcios, L; Casart, Y; Florez, I; de Waard, J; Salazar, L

    2009-02-01

    Mycobacterium tuberculosis isolates with identical IS6110 restriction fragment length polymorphism (RFLP) patterns are considered to be clonally related. The presence of IS6110 in the dnaA-dnaN intergenic region, one preferential locus for the integration of IS6110, was evaluated in 125 M. tuberculosis isolates. Five isolates had IS6110 inserted in this region, and two consisted of a mix of isogenic strains that putatively have evolved during a single infection. Strains from the same isolate had identical spoligo and mycobacterial interspersed repetitive unit-variable-number tandem repeat profiles, but had slight variations in IS6110 RFLP patterns, due to the presence of IS6110 in the dnaA-dnaN intergenic region. Duplication of the dnaA-dnaN intergenic region was found in one isogenic strain.

  19. An intergenic risk locus containing an enhancer deletion in 2q35 modulates breast cancer risk by deregulating IGFBP5 expression.

    Science.gov (United States)

    Wyszynski, Asaf; Hong, Chi-Chen; Lam, Kristin; Michailidou, Kyriaki; Lytle, Christian; Yao, Song; Zhang, Yali; Bolla, Manjeet K; Wang, Qin; Dennis, Joe; Hopper, John L; Southey, Melissa C; Schmidt, Marjanka K; Broeks, Annegien; Muir, Kenneth; Lophatananon, Artitaya; Fasching, Peter A; Beckmann, Matthias W; Peto, Julian; Dos-Santos-Silva, Isabel; Sawyer, Elinor J; Tomlinson, Ian; Burwinkel, Barbara; Marme, Frederik; Guénel, Pascal; Truong, Thérèse; Bojesen, Stig E; Nordestgaard, Børge G; González-Neira, Anna; Benitez, Javier; Neuhausen, Susan L; Brenner, Hermann; Dieffenbach, Aida Karina; Meindl, Alfons; Schmutzler, Rita K; Brauch, Hiltrud; Nevanlinna, Heli; Khan, Sofia; Matsuo, Keitaro; Ito, Hidemi; Dörk, Thilo; Bogdanova, Natalia V; Lindblom, Annika; Margolin, Sara; Mannermaa, Arto; Kosma, Veli-Matti; Wu, Anna H; Van Den Berg, David; Lambrechts, Diether; Wildiers, Hans; Chang-Claude, Jenny; Rudolph, Anja; Radice, Paolo; Peterlongo, Paolo; Couch, Fergus J; Olson, Janet E; Giles, Graham G; Milne, Roger L; Haiman, Christopher A; Henderson, Brian E; Dumont, Martine; Teo, Soo Hwang; Wong, Tien Y; Kristensen, Vessela; Zheng, Wei; Long, Jirong; Winqvist, Robert; Pylkäs, Katri; Andrulis, Irene L; Knight, Julia A; Devilee, Peter; Seynaeve, Caroline; García-Closas, Montserrat; Figueroa, Jonine; Klevebring, Daniel; Czene, Kamila; Hooning, Maartje J; van den Ouweland, Ans M W; Darabi, Hatef; Shu, Xiao-Ou; Gao, Yu-Tang; Cox, Angela; Blot, William; Signorello, Lisa B; Shah, Mitul; Kang, Daehee; Choi, Ji-Yeob; Hartman, Mikael; Miao, Hui; Hamann, Ute; Jakubowska, Anna; Lubinski, Jan; Sangrajrang, Suleeporn; McKay, James; Toland, Amanda E; Yannoukakos, Drakoulis; Shen, Chen-Yang; Wu, Pei-Ei; Swerdlow, Anthony; Orr, Nick; Simard, Jacques; Pharoah, Paul D P; Dunning, Alison M; Chenevix-Trench, Georgia; Hall, Per; Bandera, Elisa; Amos, Chris; Ambrosone, Christine; Easton, Douglas F; Cole, Michael D

    2016-09-01

    Breast cancer is the most diagnosed malignancy and the second leading cause of cancer mortality in females. Previous association studies have identified variants on 2q35 associated with the risk of breast cancer. To identify functional susceptibility loci for breast cancer, we interrogated the 2q35 gene desert for chromatin architecture and functional variation correlated with gene expression. We report a novel intergenic breast cancer risk locus containing an enhancer copy number variation (enCNV; deletion) located approximately 400Kb upstream to IGFBP5, which overlaps an intergenic ERα-bound enhancer that loops to the IGFBP5 promoter. The enCNV is correlated with modified ERα binding and monoallelic-repression of IGFBP5 following oestrogen treatment. We investigated the association of enCNV genotype with breast cancer in 1,182 cases and 1,362 controls, and replicate our findings in an independent set of 62,533 cases and 60,966 controls from 41 case control studies and 11 GWAS. We report a dose-dependent inverse association of 2q35 enCNV genotype (percopy OR = 0.68 95%CI 0.55-0.83, P = 0.0002; replication OR = 0.77 95% CI 0.73-0.82, P = 2.1 × 10(-19)) and identify 13 additional linked variants (r(2 )>( )0.8) in the 20Kb linkage block containing the enCNV (P = 3.2 × 10(-15) - 5.6 × 10(-17)). These associations were independent of previously reported 2q35 variants, rs13387042/rs4442975 and rs16857609, and were stronger for ER-positive than ER-negative disease. Together, these results suggest that 2q35 breast cancer risk loci may be mediating their effect through IGFBP5.

  20. On Weakly Semicommutative Rings*

    Institute of Scientific and Technical Information of China (English)

    CHEN WEI-XING; CUI SHU-YING

    2011-01-01

    A ring R is said to be weakly scmicommutative if for any a, b ∈ R,ab = 0 implies aRb C_ Nil(R), where Nil(R) is the set of all nilpotcnt elements in R.In this note, we clarify the relationship between weakly semicommutative rings and NI-rings by proving that the notion of a weakly semicommutative ring is a proper generalization of NI-rings. We say that a ring R is weakly 2-primal if the set of nilpotent elements in R coincides with its Levitzki radical, and prove that if R is a weakly 2-primal ring which satisfies oα-condition for an endomorphism α of R (that is, ab = 0 (←→) aα(b) = 0 where a, b ∈ R) then the skew polynomial ring R[π; αα]is a weakly 2-primal ring, and that if R is a ring and I is an ideal of R such that I and R/I are both weakly semicommutative then R is weakly semicommutative.Those extend the main results of Liang et al. 2007 (Taiwanese J. Math., 11(5)(2007),1359-1368) considerably. Moreover, several new results about weakly semicommutative rings and NI-rings are included.

  1. Sequence analysis of the rDNA intergenic spacer of Metarhizium strains isolated in Brazil

    Directory of Open Access Journals (Sweden)

    Fabiana Y. Yanaka-Schäfer

    2008-01-01

    Full Text Available To assess the extent of genetic variability of rDNA intergenic spacer (IGS in Metarhizium sp., 34 strains (27 isolated in Brazil were sequenced and analyzed together with an additional 20 Metarhizium anisopliae var. anisopliae sequences retrieved from GenBank. Overall, the global nucleotide diversity for the region under study was of 0.090, while for the Brazilian isolates it was only 0.016. Phylogenetic analyses showed four well-supported groups (A, B, C, and D, one of which (D has not been previously identified. All but one of the Brazilian strains cluster in this novel D phylogroup, suggesting that the genetic variation found in Brazil is a subset of the worldwide M. anisopiliae var. anisopliae variation.

  2. Optimisation of automated ribosomal intergenic spacer analysis for the estimation of microbial diversity in fynbos soil

    Directory of Open Access Journals (Sweden)

    Karin Jacobs

    2010-07-01

    Full Text Available Automated ribosomal intergenic spacer analysis (ARISA has become a commonly used molecular technique for the study of microbial populations in environmental samples. The reproducibility and accuracy of ARISA, with and without the polymerase chain reaction (PCR are important aspects that influence the results and effectiveness of these techniques. We used the primer set ITS4/ITS5 for ARISA to assess the fungal community composition of two sites situated in the Sand Fynbos. The primer set proved to deliver reproducible ARISA profiles of the fungal community composition with little variation observed between ARISA-PCRs. Variation that occurred in a sample due to repeated DNA extraction is expected for ecological studies. This reproducibility made ARISA a useful tool for the assessment and comparison of diversity in ecological samples. In this paper, we also offered particular suggestions concerning the binning strategy for the analysis of ARISA profiles.

  3. Genome-wide identification, characterization and evolutionary analysis of long intergenic noncoding RNAs in cucumber.

    Directory of Open Access Journals (Sweden)

    Zhiqiang Hao

    Full Text Available Long intergenic noncoding RNAs (lincRNAs are intergenic transcripts with a length of at least 200 nt that lack coding potential. Emerging evidence suggests that lincRNAs from animals participate in many fundamental biological processes. However, the systemic identification of lincRNAs has been undertaken in only a few plants. We chose to use cucumber (Cucumis sativus as a model to analyze lincRNAs due to its importance as a model plant for studying sex differentiation and fruit development and the rich genomic and transcriptome data available. The application of a bioinformatics pipeline to multiple types of gene expression data resulted in the identification and characterization of 3,274 lincRNAs. Next, 10 lincRNAs targeted by 17 miRNAs were also explored. Based on co-expression analysis between lincRNAs and mRNAs, 94 lincRNAs were annotated, which may be involved in response to stimuli, multi-organism processes, reproduction, reproductive processes, and growth. Finally, examination of the evolution of lincRNAs showed that most lincRNAs are under purifying selection, while 16 lincRNAs are under natural selection. Our results provide a rich resource for further validation of cucumber lincRNAs and their function. The identification of lincRNAs targeted by miRNAs offers new clues for investigations into the role of lincRNAs in regulating gene expression. Finally, evaluation of the lincRNAs suggested that some lincRNAs are under positive and balancing selection.

  4. Cotranscription and intergenic splicing of the PPARG and TSEN2 genes in cattle

    Directory of Open Access Journals (Sweden)

    Amarger Valérie

    2006-04-01

    Full Text Available Abstract Background Intergenic splicing resulting in the combination of mRNAs sequences from distinct genes is a newly identified mechanism likely to contribute to protein diversity. Few cases have been described, most of them involving neighboring genes and thus suggesting a cotranscription event presumably due to transcriptional termination bypass. Results We identified bovine chimeric transcripts resulting from cotranscription and intergenic splicing of two neighboring genes, PPARG and TSEN2. These two genes encode the Peroxisome Proliferator Activated Receptors γ1 and γ2 and the tRNA Splicing Endonuclease 2 homolog and are situated in the same orientation about 50 kb apart on bovine chromosome 22q24. Their relative position is conserved in human and mouse. We identified two types of chimeric transcripts containing all but the last exon of the PPARG gene followed by all but the first exon of the TSEN2 gene. The two chimers differ by the presence/absence of an intermediate exon resulting from transcription of a LINE L2 sequence situated between the two genes. Both transcripts use canonical splice sites for all exons coming from both genes, as well as for the LINE L2 sequence. One of these transcripts harbors a premature STOP codon and the other encodes a putative chimeric protein combining most of the PPARγ protein and the entire TSEN2 protein, but we could not establish the existence of this protein. Conclusion By showing that both individual and chimeric transcripts are transcribed from PPARG and TSEN2, we demonstrated regulation of transcription termination. Further, the existence and functionality of a chimeric protein harboring active motifs that are a priori unrelated is hypothesized.

  5. Idiopathic isolated orbicularis weakness

    Science.gov (United States)

    MacVie, O P; Majid, M A; Husssin, H M; Ung, T; Manners, R M; Ormerod, I; Pawade, J; Harrad, R A

    2012-01-01

    Purpose Orbicularis weakness is commonly associated with seventh nerve palsy or neuromuscular and myopathic conditions such as myotonic dystrophy and myasethenia gravis. We report four cases of idiopathic isolated orbicularis weakness. Methods All four cases were female and the presenting symptoms of ocular irritation and epiphora had been present for over 7 years in three patients. All patients had lagophthalmos and three had ectropion. Three patients underwent full investigations which excluded known causes of orbicularis weakness. Two patients underwent oribularis oculi muscle biopsy and histological confirmation of orbicularis atrophy. Results All patients underwent surgery to specifically address the orbicularis weakness with satisfactory outcomes and alleviation of symptoms in all cases. Isolated orbicularis weakness may be a relatively common entity that is frequently overlooked. Conclusion Early recognition of this condition may lead to better management and prevent patients undergoing unnecessary surgical procedures. PMID:22322997

  6. [Novel bidirectional promoter from human genome].

    Science.gov (United States)

    Orekhova, A S; Sverdlova, P S; Spirin, P V; Leonova, O G; Popenko, V I; Prasolov, V S; Rubtsov, P M

    2011-01-01

    In human and other mammalian genomes a number of closely linked gene pairs transcribed in opposite directions are found. According to bioinformatic analysis up to 10% of human genes are arranged in this way. In present work the fragment of human genome was cloned that separates genes localized at 2p13.1 and oriented "head-to-head", coding for hypothetical proteins with unknown functions--CCDC (Coiled Coil Domain Containing) 142 and TTC (TetraTricopeptide repeat Containing) 31. Intergenic CCDC142-TTC31 region overlaps with CpG-island and contains a number of potential binding sites for transcription factors. This fragment functions as bidirectional promoter in the system ofluciferase reporter gene expression upon transfection of human embryonic kidney (HEK293) cells. The vectors containing genes of two fluorescent proteins--green (EGFP) and red (DsRed2) in opposite orientations separated by the fragment of CCDC142-TTC31 intergenic region were constructed. In HEK293 cells transfected with these vectors simultaneous expression of two fluorescent proteins is observed. Truncated versions of intergenic region were obtained and their promoter activity measured. Minimal promoter fragment contains elements Inr, BRE, DPE characteristic for TATA-less promoters. Thus, from the human genome the novel bidirectional promoter was cloned that can be used for simultaneous constitutive expression of two genes in human cells.

  7. Sequence analysis of rDNA intergenic spacer region (IGS) as a tool for phylogenetic studies in Trichoderma spp.

    Institute of Scientific and Technical Information of China (English)

    Mercatelli Elisabetta; Pecchia Susanna; Ciliegi Sandro; Vannacci Giovanni

    2004-01-01

    @@ Different from ribosomal genes, which contain highly conserved sequences that are detected in all organisms, the intergenic spacer of rDNA (IGS) appears to be the most rapidly-evolving spacer region. For this reason we tested this region for phylogenetic studies.

  8. Identification and Functional Prediction of Large Intergenic Noncoding RNAs (lincRNAs) in Rainbow Trout (Oncorhynchus mykiss)

    Science.gov (United States)

    Long noncoding RNAs (lncRNAs) have been recognized in recent years as key regulators of diverse cellular processes. Genome-wide large-scale projects have uncovered thousands of lncRNAs in many model organisms. Large intergenic noncoding RNAs (lincRNAs) are lncRNAs that are transcribed from intergeni...

  9. Application of rps16 Intron and trnL-trnF Intergenic Spacer Sequences to Identify Rengas Clone Riau

    Directory of Open Access Journals (Sweden)

    Dewi Indriyani Roslim

    2017-07-01

    Full Text Available Rengas clone Riau has been identified using morphological characters and molecular technique with a psbA-trnH intergenic spacer, however, this method can only determine its taxonomic status at genus level, namely Gluta sp.  This study reports application two DNA barcodes, i.e. rps16 intron and trnL-trnF intergenic spacer, to identify Rengas clone Riau.  The methods included collection of the leaves from Kajuik Lake, total DNA isolation, electrophoresis, PCR (polymerase chain reaction, gel purification and sequencing.  The rps16 intron size was 659 bp and the trnL-trnF intergenic spacer was 527 bp. The BLASTn analysis showed that sequences of the rps16 intron and the trnL-trnF intergenic spacer of Gluta sp clone Riau had 100% similarity to those of G. renghas deposited in GenBank.  These results were supported by high max score, high total score, query cover = 100%, and E-value = 0.  The dendrograms also showed the closest relationship of Gluta sp clone Riau with G. renghas deposited in GenBank compared to other species of Gluta.  In conclusion, this study succeeded in identifying Rengas clone Riau as Gluta renghas by using sequences of the rps16 intron and the trnL-trnF intergenic spacer. A combination of DNA barcodes could be applied to identify various plants as long as the database for the DNA barcodes is available in public database such as GenBank. 

  10. Weak decays. [Lectures, phenomenology

    Energy Technology Data Exchange (ETDEWEB)

    Wojcicki, S.

    1978-11-01

    Lectures are given on weak decays from a phenomenological point of view, emphasizing new results and ideas and the relation of recent results to the new standard theoretical model. The general framework within which the weak decay is viewed and relevant fundamental questions, weak decays of noncharmed hadrons, decays of muons and the tau, and the decays of charmed particles are covered. Limitation is made to the discussion of those topics that either have received recent experimental attention or are relevant to the new physics. (JFP) 178 references

  11. Weakly asymptotically hyperbolic manifolds

    CERN Document Server

    Allen, Paul T; Lee, John M; Allen, Iva Stavrov

    2015-01-01

    We introduce a class of "weakly asymptotically hyperbolic" geometries whose sectional curvatures tend to $-1$ and are $C^0$, but are not necessarily $C^1$, conformally compact. We subsequently investigate the rate at which curvature invariants decay at infinity, identifying a conformally invariant tensor which serves as an obstruction to "higher order decay" of the Riemann curvature operator. Finally, we establish Fredholm results for geometric elliptic operators, extending the work of Rafe Mazzeo and John M. Lee to this setting. As an application, we show that any weakly asymptotically hyperbolic metric is conformally related to a weakly asymptotically hyperbolic metric of constant negative curvature.

  12. Strange Weak Values

    CERN Document Server

    Hosoya, Akio

    2010-01-01

    We develop a formal theory of the weak values with emphasis on the consistency conditions and a probabilistic interpretation in the counter-factual processes. We present the condition for the choice of the post-selected state to give a negative weak value of a given projection operator and strange values of an observable in general. The general framework is applied to Hardy's paradox and the spin $1/2$ system to explicitly address the issues of counter-factuality and strange weak values. The counter-factual arguments which characterize the paradox specifies the pre-selected state and a complete set of the post-selected states clarifies how the strange weak values emerge.

  13. Coherence for weak units

    CERN Document Server

    Joyal, André

    2009-01-01

    We define weak units in a semi-monoidal 2-category $\\CC$ as cancellable pseudo-idempotents: they are pairs $(I,\\alpha)$ where $I$ is an object such that tensoring with $I$ from either side constitutes a biequivalence of $\\CC$, and $\\alpha: I \\tensor I \\to I$ is an equivalence in $\\CC$. We show that this notion of weak unit has coherence built in: Theorem A: $\\alpha$ has a canonical associator 2-cell, which automatically satisfies the pentagon equation. Theorem B: every morphism of weak units is automatically compatible with those associators. Theorem C: the 2-category of weak units is contractible if non-empty. Finally we show (Theorem E) that the notion of weak unit is equivalent to the notion obtained from the definition of tricategory: $\\alpha$ alone induces the whole family of left and right maps (indexed by the objects), as well as the whole family of Kelly 2-cells (one for each pair of objects), satisfying the relevant coherence axioms.

  14. Disruption of a large intergenic noncoding RNA in subjects with neurodevelopmental disabilities.

    Science.gov (United States)

    Talkowski, Michael E; Maussion, Gilles; Crapper, Liam; Rosenfeld, Jill A; Blumenthal, Ian; Hanscom, Carrie; Chiang, Colby; Lindgren, Amelia; Pereira, Shahrin; Ruderfer, Douglas; Diallo, Alpha B; Lopez, Juan Pablo; Turecki, Gustavo; Chen, Elizabeth S; Gigek, Carolina; Harris, David J; Lip, Va; An, Yu; Biagioli, Marta; Macdonald, Marcy E; Lin, Michael; Haggarty, Stephen J; Sklar, Pamela; Purcell, Shaun; Kellis, Manolis; Schwartz, Stuart; Shaffer, Lisa G; Natowicz, Marvin R; Shen, Yiping; Morton, Cynthia C; Gusella, James F; Ernst, Carl

    2012-12-07

    Large intergenic noncoding (linc) RNAs represent a newly described class of ribonucleic acid whose importance in human disease remains undefined. We identified a severely developmentally delayed 16-year-old female with karyotype 46,XX,t(2;11)(p25.1;p15.1)dn in the absence of clinically significant copy number variants (CNVs). DNA capture followed by next-generation sequencing of the translocation breakpoints revealed disruption of a single noncoding gene on chromosome 2, LINC00299, whose RNA product is expressed in all tissues measured, but most abundantly in brain. Among a series of additional, unrelated subjects referred for clinical diagnostic testing who showed CNV affecting this locus, we identified four with exon-crossing deletions in association with neurodevelopmental abnormalities. No disruption of the LINC00299 coding sequence was seen in almost 14,000 control subjects. Together, these subjects with disruption of LINC00299 implicate this particular noncoding RNA in brain development and raise the possibility that, as a class, abnormalities of lincRNAs may play a significant role in human developmental disorders. Copyright © 2012 The American Society of Human Genetics. Published by Elsevier Inc. All rights reserved.

  15. Ribosomal intergenic spacer analysis as a tool for monitoring methanogenic Archaea changes in an anaerobic digester.

    Science.gov (United States)

    Ciesielski, Slawomir; Bułkowska, Katarzyna; Dabrowska, Dorota; Kaczmarczyk, Dariusz; Kowal, Przemyslaw; Możejko, Justyna

    2013-08-01

    The applicability of a newly-designed PCR primer pair in examination of methanogenic Archaea in a digester treating plant biomass was evaluated by Ribosmal Intergenic Spacer Analysis (RISA). To find a suitable approach, three variants of RISA were tested: (1) standard, polyacrylamide gel-based, (2) automated, utilized capillary electrophoresis (GA-ARISA), and (3) automated microfluidics-based (MF-ARISA). All three techniques yielded a consistent picture of archaeal community structure changes during anaerobic digestion monitored for more than 6 weeks. While automated variants were more practical for handling and rapid analysis of methanogenic Archaea, the gel-based technique was advantageous when micro-organism identification was required. A DNA-sequence analysis of dominant bands extracted from the gel revealed that the main role in methane synthesis was played by micro-organisms affiliated with Methanosarcina barkeri. The obtained results revealed that RISA is a robust method allowing for detailed analysis of archaeal community structure during organic biomass conversion into biogas. In addition, our results showed that GA-ARISA has a higher resolution and reproducibility than other variants of RISA and could be used as a technique for tracking changes in methanogenic Archaea in an anaerobic digester.

  16. Epistasis in intra- and inter-gene pool crosses of the common bean.

    Science.gov (United States)

    Borel, J C; Ramalho, M A P; Abreu, A F B

    2016-02-26

    Epistasis has been shown to have an important role in the genetic control of several quantitative traits in the common bean. This study aimed to investigate the occurrence of epistasis in intra- and inter-pool gene crosses of the common bean. Four elite lines adapted to Brazilian conditions were used as parents, two from the Andean gene pool (ESAL 686; BRS Radiante) and two from the Mesoamerican gene pool (BRSMG Majestoso; BRS Valente). Four F2 populations were obtained: "A" (ESAL 686 x BRS Radiante), "B" (BRSMG Majestoso x BRS Valente), "C" (BRS Radiante x BRSMG Majestoso), and "D" (BRS Valente x ESAL 686). A random sample of F2 plants from each population was backcrossed to parents and F1 individuals, according to the triple test cross. Three types of progenies from each population were evaluated in contiguous trials. Seed yield and 100-seed weight were evaluated. Dominance genetic variance was predominant in most cases. However, the estimates of genetic variance may be biased by the occurrence of linkage disequilibrium and epistasis. Epistasis was detected for both traits; however, the occurrence differed among the populations and between the two traits. The results of this study reinforce the hypothesis that epistasis is present in the genetic control of traits in the common bean and suggest that the phenomenon is more frequent in inter-gene pool crosses than in intra-gene pool crosses.

  17. Computational identification of human long intergenic non-coding RNAs using a GA-SVM algorithm.

    Science.gov (United States)

    Wang, Yanqiu; Li, Yang; Wang, Qi; Lv, Yingli; Wang, Shiyuan; Chen, Xi; Yu, Xuexin; Jiang, Wei; Li, Xia

    2014-01-01

    Long intergenic non-coding RNAs (lincRNAs) are a new type of non-coding RNAs and are closely related with the occurrence and development of diseases. In previous studies, most lincRNAs have been identified through next-generation sequencing. Because lincRNAs exhibit tissue-specific expression, the reproducibility of lincRNA discovery in different studies is very poor. In this study, not including lincRNA expression, we used the sequence, structural and protein-coding potential features as potential features to construct a classifier that can be used to distinguish lincRNAs from non-lincRNAs. The GA-SVM algorithm was performed to extract the optimized feature subset. Compared with several feature subsets, the five-fold cross validation results showed that this optimized feature subset exhibited the best performance for the identification of human lincRNAs. Moreover, the LincRNA Classifier based on Selected Features (linc-SF) was constructed by support vector machine (SVM) based on the optimized feature subset. The performance of this classifier was further evaluated by predicting lincRNAs from two independent lincRNA sets. Because the recognition rates for the two lincRNA sets were 100% and 99.8%, the linc-SF was found to be effective for the prediction of human lincRNAs.

  18. A novel intergenic ETnII-β insertion mutation causes multiple malformations in polypodia mice.

    Directory of Open Access Journals (Sweden)

    Jessica A Lehoczky

    Full Text Available Mouse early transposon insertions are responsible for ~10% of spontaneous mutant phenotypes. We previously reported the phenotypes and genetic mapping of Polypodia, (Ppd, a spontaneous, X-linked dominant mutation with profound effects on body plan morphogenesis. Our new data shows that mutant mice are not born in expected Mendelian ratios secondary to loss after E9.5. In addition, we refined the Ppd genetic interval and discovered a novel ETnII-β early transposon insertion between the genes for Dusp9 and Pnck. The ETn inserted 1.6 kb downstream and antisense to Dusp9 and does not disrupt polyadenylation or splicing of either gene. Knock-in mice engineered to carry the ETn display Ppd characteristic ectopic caudal limb phenotypes, showing that the ETn insertion is the Ppd molecular lesion. Early transposons are actively expressed in the early blastocyst. To explore the consequences of the ETn on the genomic landscape at an early stage of development, we compared interval gene expression between wild-type and mutant ES cells. Mutant ES cell expression analysis revealed marked upregulation of Dusp9 mRNA and protein expression. Evaluation of the 5' LTR CpG methylation state in adult mice revealed no correlation with the occurrence or severity of Ppd phenotypes at birth. Thus, the broad range of phenotypes observed in this mutant is secondary to a novel intergenic ETn insertion whose effects include dysregulation of nearby interval gene expression at early stages of development.

  19. Ribosomal Intergenic Spacer 1 Based Characterization of Button Mushroom (Agaricus bisporus) Strains.

    Science.gov (United States)

    Kwon, Hyuk Woo; Choi, Min Ah; Kim, Dae Wook; Oh, Youn-Lee; Hyun, Min Woo; Kong, Won-Sik; Kim, Seong Hwan

    2016-12-01

    Breeding the button mushroom requires genetic information about its strains. This study was undertaken to genetically characterize four domestically bred button mushroom strains (Saea, Saejung, Saedo, Saeyeon cultivars) and to assess the possibility of using the intergenic spacer 1 (IGS1) region of rDNA as a genetically variable region in the genetic characterization. For the experiment, 34 strains of Agaricus bisporus, two strains of A. bitorquis, and one strain of A. silvaticus, from 17 countries were used. Nucleotide sequence analysis of IGS1 rDNA in these 37 Agaricus strains confirmed that genetic variations exist, not only among the four domestic strains, but also between the four domestic strains and foreign strains. Crossing two different haploid strains of A. bisporus seems to generate genetic variation in the IGS1 region in their off-spring haploid strains. Phylogenetic analysis based on the IGS1 sequence revealed all A. bisporus strains could be differentiated from A. silvaticus and A. bitorquis strains. Five genetic groups were resolved among A. bisporus strains. Saejung and Saeyeon cultivars formed a separate genetic group. Our results suggest that IGS1 could be complementarily applied in the polymorphism analysis of button mushroom.

  20. A long-term demasculinization of X-linked intergenic noncoding RNAs in Drosophila melanogaster.

    Science.gov (United States)

    Gao, Ge; Vibranovski, Maria D; Zhang, Li; Li, Zheng; Liu, Ming; Zhang, Yong E; Li, Xinmin; Zhang, Wenxia; Fan, Qichang; VanKuren, Nicholas W; Long, Manyuan; Wei, Liping

    2014-04-01

    Recent studies have revealed key roles of noncoding RNAs in sex-related pathways, but little is known about the evolutionary forces acting on these noncoding RNAs. Profiling the transcriptome of Drosophila melanogaster with whole-genome tiling arrays found that 15% of male-biased transcribed fragments are intergenic noncoding RNAs (incRNAs), suggesting a potentially important role for incRNAs in sex-related biological processes. Statistical analysis revealed a paucity of male-biased incRNAs and coding genes on the X chromosome, suggesting that similar evolutionary forces could be affecting the genomic organization of both coding and noncoding genes. Expression profiling across germline and somatic tissues further suggested that both male meiotic sex chromosome inactivation (MSCI) and sexual antagonism could contribute to the chromosomal distribution of male-biased incRNAs. Comparative sequence analysis showed that the evolutionary age of male-biased incRNAs is a significant predictor of their chromosomal locations. In addition to identifying abundant sex-biased incRNAs in the fly genome, our work unveils a global picture of the complex interplay between noncoding RNAs and sexual chromosome evolution.

  1. The evolutionary landscape of intergenic trans-splicing events in insects.

    Science.gov (United States)

    Kong, Yimeng; Zhou, Hongxia; Yu, Yao; Chen, Longxian; Hao, Pei; Li, Xuan

    2015-11-02

    To explore the landscape of intergenic trans-splicing events and characterize their functions and evolutionary dynamics, we conduct a mega-data study of a phylogeny containing eight species across five orders of class Insecta, a model system spanning 400 million years of evolution. A total of 1,627 trans-splicing events involving 2,199 genes are identified, accounting for 1.58% of the total genes. Homology analysis reveals that mod(mdg4)-like trans-splicing is the only conserved event that is consistently observed in multiple species across two orders, which represents a unique case of functional diversification involving trans-splicing. Thus, evolutionarily its potential for generating proteins with novel function is not broadly utilized by insects. Furthermore, 146 non-mod trans-spliced transcripts are found to resemble canonical genes from different species. Trans-splicing preserving the function of 'breakup' genes may serve as a general mechanism for relaxing the constraints on gene structure, with profound implications for the evolution of genes and genomes.

  2. LOC100287225, novel long intergenic non-coding RNA, misregulates in colorectal cancer.

    Science.gov (United States)

    Kazemzadeh, Mina; Safaralizadeh, Reza; Feizi, Mohammad Ali Hosseinpour; Ravanbakhsh, Reyhaneh; Somi, Mohammad Hossein; Hashemzadeh, Shahryar

    2016-01-01

    Colorectal cancer (CRC) is one of the most common cancers in the world; therefore, extensive research is needed to find new molecular therapeutic targets and biomarkers. LncRNA (long non-coding RNA), a new class of non-coding RNAs, has a crucial role in the onset and progression of various cancers including colorectal cancer. Research on lncRNA is still at initial stages and underlying molecular mechanisms of the vast majority of lncRNA have remained unclear. LOC100287225 is one of these novel lncRNAs (long intergenic non-coding RNA) located in the long arm of the chromosome 18. The purpose of this study was to determine the expression of LOC100287225 in colorectal tissue, and its misregulation in CRC patients. Quantitative real-time-PCR (qRT-PCR) was used to investigate the LOC100287225 expression in pairs of tumorous and adjacent tumor-free tissues of 39 colorectal cancer patients. Also, the relationship between the clinicopathology and expression of LOC100287225 was determined. QRT-PCR results revealed that not only is LOC100287225 expressed in the intestinal tissue, but has also been misregulated during tumorigenesis. Moreover, LOC100287225 RNA relative expression levels were significantly lower in tumor tissues compared with adjacent tumor-free tissues (P< 0.001). RNA expression level of LOC100287225 did not show significant correlation with clinical characteristics. In conclusion, our study demonstrated that LOC100287225 misregulation could be a potential target for gene therapy in colorectal cancer.

  3. Comparison of DNA Extraction Methods for Microbial Community Analysis in Indonesian Tempe Employing Amplified Ribosomal Intergenic Spacer Analysis

    Directory of Open Access Journals (Sweden)

    CECILIA ANNA SEUMAHU

    2012-06-01

    Full Text Available Tempe fermentation involved complex microbial communities which are only revealed partially through culture dependent methods. Culture-independent methods would be potential to unravel this complex microbial fermentation. Appropriate DNA extraction is an essential tool to obtain reliable data from culture independent method. In this study, we employed two commercial DNA extraction methods to find the best one for microbial community characterization employing amplified ribosomal intergenic spacer analysis (ARISA. Our result showed that PowerFood Microbial DNA Isolation Kit-MOBIO (PFMDIK is an excellent method for microbial DNA extraction from tempe. It gave high quantity and quality of DNA suitable for PCR amplification of 16S-23S rRNA intergenic spacer to yield a diverse and reproducible ARISA profile.

  4. Expressing activity of promoter elements of large intergenic region from cotton leaf curl virus in host plant*

    Institute of Scientific and Technical Information of China (English)

    XIE; Yingqiu; (

    2001-01-01

    [1]Jiao Jiujiu, Grey hydrogeologic system analysis and time series model, Survey Science and Technology (in Chinese), 1987,(10): 39-43.[2]Li Shuwen, Wang Baolai, Xiao Guoqiang, A compound model of grey and periodic scrape and its application in groundwater prediction, Journal of Hebei Institute of Architectural Science & Technology (in Chinese), 1992, (3): 246-251.[3]Wang Qingyin, Li Shuwen, Grey distributed parameter model and groundwater analog, Journal of Hebei Institute of Architectural Science & Technology (in Chinese), 1992, (3): 66-70.[4]Guo Chunqing, Xia Riyuan, Liu Zhenglin, Gray Systematic Theory and Methodological Study of Krast Groundwater Resources Evaluation (in Chinese), Beijing: Geological Publishing House, 1993, 3-60.[5]Wang Qingyin, Liu Kaidi, The Mathematical Method of Grey Systematic Theory and Its Application (in Chinese), Chengdu: Publishing House of Southwestern China University of Communication, 1990, 23-27.[6]Wang Qingyin, Wu Heqing, The concept of grey number and its property, in Proceedings of NAFIPS98, USA, 1998,45-49.[7]Givoli, D., Doukhovni, I., Finite element programming approach for contact problems with geometrical nonlinearity, Computers and Structures, 1996, (8): 31-41.[8]Li Shuwen, Wang Zhiqiang, Wu Qiang, The superiority of storage-centered finite element method in solving seepage problem, Coal Geology and Exploration (in Chinese), 1999, (5): 46-49.

  5. Differentiation of Closely Related Carnobacterium Food Isolates Based on 16S-23S Ribosomal DNA Intergenic Spacer Region Polymorphism

    OpenAIRE

    Kabadjova, Petia; Dousset, Xavier; Le Cam, Virginie; Prevost, Hervé

    2002-01-01

    A novel strategy for identification of Carnobacterium food isolates based on restriction fragment length polymorphism (RFLP) of PCR-amplified 16S-23S ribosomal intergenic spacer regions (ISRs) was developed. PCR amplification from all Carnobacterium strains studied always yielded three ISR amplicons, which were designated the small ISR (S-ISR), the medium ISR (M-ISR), and the large ISR (L-ISR). The lengths of these ISRs varied from one species to another. Carnobacterium divergens NCDO 2763T a...

  6. Identifying putative breast cancer-associated long intergenic non-coding RNA loci by high density SNP array analysis

    Directory of Open Access Journals (Sweden)

    Zhengyu eJiang

    2012-12-01

    Full Text Available Recent high-throughput transcript discoveries have yielded a growing recognition of long intergenic non-coding RNAs (lincRNAs, a class of arbitrarily defined transcripts (>200 nt that are primarily produced from the intergenic space. LincRNAs have been increasingly acknowledged for their expressional dynamics and likely functional associations with cancers. However, differential gene dosage of lincRNA genes between cancer genomes is less studied. By using the high-density Human Omni5-Quad BeadChips (Illumina, we investigated genomic copy number aberrations in a set of seven tumor-normal paired primary human mammary epithelial cells (HMECs established from patients with invasive ductal carcinoma. This Beadchip platform includes a total of 2,435,915 SNP loci dispersed at an average interval of ~700 nt throughout the intergenic region of the human genome. We mapped annotated or putative lincRNA genes to a subset of 332,539 SNP loci, which were included in our analysis for lincRNA-associated copy number variations (CNV. We have identified 122 lincRNAs, which were affected by somatic CNV with overlapped aberrations ranging from 0.14% to 100% in length. LincRNA-associated aberrations were detected predominantly with copy number losses and preferential clustering to the ends of chromosomes. Interestingly, lincRNA genes appear to be much less susceptible to CNV in comparison to both protein-coding and intergenic regions (CNV affected segments in percentage: 1.8%, 37.5% and 60.6%, respectively. In summary, our study established a novel approach utilizing high-resolution SNP array to identify lincRNA candidates, which could functionally link to tumorigenesis, and provide new strategies for the diagnosis and treatment of breast cancer.

  7. WEAK CONVERGENCE OF SOME SERIES

    Institute of Scientific and Technical Information of China (English)

    2000-01-01

    This paper continues the study of [1] on weak functions.The weak convergence theory is investigated in complex analysis,Fourier transform and Mellin transform.A Mobius inverse formula of weak functions is obtained.

  8. On Weak Markov's Principle

    DEFF Research Database (Denmark)

    Kohlenbach, Ulrich Wilhelm

    2002-01-01

    We show that the so-called weak Markov's principle (WMP) which states that every pseudo-positive real number is positive is underivable in E-HA + AC. Since allows one to formalize (atl eastl arge parts of) Bishop's constructive mathematics, this makes it unlikely that WMP can be proved within the...

  9. Molecular Epidemiology and Sequencing of the G-L Intergenic Region of Rabies Viruses Isolated in China

    Institute of Scientific and Technical Information of China (English)

    Sheng-Li MENG; QI-You XIAO; Guan-Mu DONG; Ge-Lin XU; Jia-Xin YAN; Ping-Gang MING; Jie WU; Xiao-Ming YANG; He-Tian MING; Feng-Cai ZHU; Dun-Jin ZHOU

    2007-01-01

    A group of 25 rabies viruses (RABVs),recovered from 24 dogs and one human case,were collected from various areas in China between 2004 and 2006.Genetic and phylogenetic analyses of the G-L intergenic region were carried out in 25 street RABV isolates and CTN vaccine strains of 7 generations.The study was based on the comparison of a 519 bp nucleotide sequence,encompassing the G-L intergenic region.The nucleotide sequence homologies of Chinese street strains were from 95.5% to 100%.The phylogenetic analysis showed that all Chinese isolates clearly supported the placement of all Chinese viruses in Lyssavirus genotype 1 and they were distributed according to their geographical origins.All of the Chinese strains were closely related but they could still be divided into two groups:group of street strains and group of CTN strains.This study presents details about the molecular epidemiology of rabies viruses based on the sequences of the G-L Intergenic region.

  10. On closed weak supplemented modules

    Institute of Scientific and Technical Information of China (English)

    ZENG Qing-yi; SHI Mei-hua

    2006-01-01

    A module M is called closed weak supplemented if for any closed submodule N of M, there is a submodule K of M such that M=K+N and K(c)N<<M. Any direct summand of closed weak supplemented module is also closed weak supplemented.Any nonsingular image of closed weak supplemented module is closed weak supplemented. Nonsingular V-rings in which all nonsingular modules are closed weak supplemented are characterized in Section 4.

  11. Intergenic DNA sequences from the human X chromosome reveal high rates of global gene flow

    Directory of Open Access Journals (Sweden)

    Wall Jeffrey D

    2008-11-01

    Full Text Available Abstract Background Despite intensive efforts devoted to collecting human polymorphism data, little is known about the role of gene flow in the ancestry of human populations. This is partly because most analyses have applied one of two simple models of population structure, the island model or the splitting model, which make unrealistic biological assumptions. Results Here, we analyze 98-kb of DNA sequence from 20 independently evolving intergenic regions on the X chromosome in a sample of 90 humans from six globally diverse populations. We employ an isolation-with-migration (IM model, which assumes that populations split and subsequently exchange migrants, to independently estimate effective population sizes and migration rates. While the maximum effective size of modern humans is estimated at ~10,000, individual populations vary substantially in size, with African populations tending to be larger (2,300–9,000 than non-African populations (300–3,300. We estimate mean rates of bidirectional gene flow at 4.8 × 10-4/generation. Bidirectional migration rates are ~5-fold higher among non-African populations (1.5 × 10-3 than among African populations (2.7 × 10-4. Interestingly, because effective sizes and migration rates are inversely related in African and non-African populations, population migration rates are similar within Africa and Eurasia (e.g., global mean Nm = 2.4. Conclusion We conclude that gene flow has played an important role in structuring global human populations and that migration rates should be incorporated as critical parameters in models of human demography.

  12. Weak Polarized Electron Scattering

    CERN Document Server

    Erler, Jens; Mantry, Sonny; Souder, Paul A

    2014-01-01

    Scattering polarized electrons provides an important probe of the weak interactions. Precisely measuring the parity-violating left-right cross section asymmetry is the goal of a number of experiments recently completed or in progress. The experiments are challenging, since A_{LR} is small, typically between 10^(-4) and 10^(-8). By carefully choosing appropriate targets and kinematics, various pieces of the weak Lagrangian can be isolated, providing a search for physics beyond the Standard Model. For other choices, unique features of the strong interaction are studied, including the radius of the neutron density in heavy nuclei, charge symmetry violation, and higher twist terms. This article reviews the theory behind the experiments, as well as the general techniques used in the experimental program.

  13. Composite weak bosons

    Energy Technology Data Exchange (ETDEWEB)

    Suzuki, M.

    1988-04-01

    Dynamical mechanism of composite W and Z is studied in a 1/N field theory model with four-fermion interactions in which global weak SU(2) symmetry is broken explicitly by electromagnetic interaction. Issues involved in such a model are discussed in detail. Deviation from gauge coupling due to compositeness and higher order loop corrections are examined to show that this class of models are consistent not only theoretically but also experimentally.

  14. The Weak Haagerup Property II

    DEFF Research Database (Denmark)

    Haagerup, Uffe; Knudby, Søren

    2015-01-01

    The weak Haagerup property for locally compact groups and the weak Haagerup constant were recently introduced by the second author [27]. The weak Haagerup property is weaker than both weak amenability introduced by Cowling and the first author [9] and the Haagerup property introduced by Connes [6......] and Choda [5]. In this paper, it is shown that a connected simple Lie group G has the weak Haagerup property if and only if the real rank of G is zero or one. Hence for connected simple Lie groups the weak Haagerup property coincides with weak amenability. Moreover, it turns out that for connected simple...... Lie groups the weak Haagerup constant coincides with the weak amenability constant, although this is not true for locally compact groups in general. It is also shown that the semidirect product R2 × SL(2,R) does not have the weak Haagerup property....

  15. Weak martingale Hardy spaces and weak atomic decompositions

    Institute of Scientific and Technical Information of China (English)

    HOU; Youliang; REN; Yanbo

    2006-01-01

    In this paper we define some weak martingale Hardy spaces and three kinds of weak atoms. They are the counterparts of martingale Hardy spaces and atoms in the classical martingale Hp-theory. And then three atomic decomposition theorems for martingales in weak martingale Hardy spaces are proved. With the help of the weak atomic decompositions of martingale, a sufficient condition for a sublinear operator defined on the weak martingale Hardy spaces to be bounded is given. Using the sufficient condition, we obtain a series of martingale inequalities with respect to the weak Lp-norm, the inequalities of weak (p ,p)-type and some continuous imbedding relationships between various weak martingale Hardy spaces. These inequalities are the weak versions of the basic inequalities in the classical martingale Hp-theory.

  16. Analysis of stress-induced duplex destabilization (SIDD properties of replication origins, genes and intergenes in the fission yeast, Schizosaccharomyces pombe

    Directory of Open Access Journals (Sweden)

    Yadav Mukesh P

    2012-11-01

    Full Text Available Abstract Background Replication and transcription, the two key functions of DNA, require unwinding of the DNA double helix. It has been shown that replication origins in the budding yeast, Saccharomyces cerevisiae contain an easily unwound stretch of DNA. We have used a recently developed method for determining the locations and degrees of stress-induced duplex destabilization (SIDD for all the reported replication origins in the genome of the fission yeast, Schizosaccharomyces pombe. Results We have found that the origins are more susceptible to SIDD as compared to the non-origin intergenic regions (NOIRs and genes. SIDD analysis of many known origins in other eukaryotes suggests that SIDD is a common property of replication origins. Interestingly, the previously shown deletion-dependent changes in the activities of the origins of the ura4 origin region on chromosome 3 are paralleled by changes in SIDD properties, suggesting SIDD’s role in origin activity. SIDD profiling following in silico deletions of some origins suggests that many of the closely spaced S. pombe origins could be clusters of two or three weak origins, similar to the ura4 origin region. Conclusion SIDD appears to be a highly conserved, functionally important property of replication origins in S. pombe and other organisms. The distinctly low SIDD scores of origins and the long range effects of genetic alterations on SIDD properties provide a unique predictive potential to the SIDD analysis. This could be used in exploring different aspects of structural and functional organization of origins including interactions between closely spaced origins.

  17. Inversion assuming weak scattering

    DEFF Research Database (Denmark)

    Xenaki, Angeliki; Gerstoft, Peter; Mosegaard, Klaus

    2013-01-01

    The study of weak scattering from inhomogeneous media or interface roughness has long been of interest in sonar applications. In an acoustic backscattering model of a stationary field of volume inhomogeneities, a stochastic description of the field is more useful than a deterministic description...... due to the complex nature of the field. A method based on linear inversion is employed to infer information about the statistical properties of the scattering field from the obtained cross-spectral matrix. A synthetic example based on an active high-frequency sonar demonstrates that the proposed...

  18. The Weak Neutral Current

    CERN Document Server

    Erler, Jens

    2013-01-01

    This is a review of electroweak precision physics with particular emphasis on low-energy precision measurements in the neutral current sector of the electroweak theory and includes future experimental prospects and the theoretical challenges one faces to interpret these observables. Within the minimal Standard Model they serve as determinations of the weak mixing angle which are competitive with and complementary to those obtained near the Z-resonance. In the context of new physics beyond the Standard Model these measurements are crucial to discriminate between models and to reduce the allowed parameter space within a given model. We illustrate this for the minimal supersymmetric Standard Model with or without R-parity.

  19. Measurement of weak radioactivity

    CERN Document Server

    Theodorsson , P

    1996-01-01

    This book is intended for scientists engaged in the measurement of weak alpha, beta, and gamma active samples; in health physics, environmental control, nuclear geophysics, tracer work, radiocarbon dating etc. It describes the underlying principles of radiation measurement and the detectors used. It also covers the sources of background, analyzes their effect on the detector and discusses economic ways to reduce the background. The most important types of low-level counting systems and the measurement of some of the more important radioisotopes are described here. In cases where more than one type can be used, the selection of the most suitable system is shown.

  20. Weakly broken galileon symmetry

    Energy Technology Data Exchange (ETDEWEB)

    Pirtskhalava, David [Scuola Normale Superiore, Piazza dei Cavalieri 7, 56126 Pisa (Italy); Santoni, Luca; Trincherini, Enrico [Scuola Normale Superiore, Piazza dei Cavalieri 7, 56126 Pisa (Italy); INFN, Sezione di Pisa, Piazza dei Cavalieri 7, 56126 Pisa (Italy); Vernizzi, Filippo [Institut de Physique Théorique, Université Paris Saclay, CEA, CNRS, Gif-sur-Yvette cédex, F-91191 (France)

    2015-09-01

    Effective theories of a scalar ϕ invariant under the internal galileon symmetryϕ→ϕ+b{sub μ}x{sup μ} have been extensively studied due to their special theoretical and phenomenological properties. In this paper, we introduce the notion of weakly broken galileon invariance, which characterizes the unique class of couplings of such theories to gravity that maximally retain their defining symmetry. The curved-space remnant of the galileon’s quantum properties allows to construct (quasi) de Sitter backgrounds largely insensitive to loop corrections. We exploit this fact to build novel cosmological models with interesting phenomenology, relevant for both inflation and late-time acceleration of the universe.

  1. Genome-wide identification and characterization of long intergenic non-coding RNAs in Ganoderma lucidum.

    Directory of Open Access Journals (Sweden)

    Jianqin Li

    Full Text Available Ganoderma lucidum is a white-rot fungus best-known for its medicinal activities. We have previously sequenced its genome and annotated the protein coding genes. However, long non-coding RNAs in G. lucidum genome have not been analyzed. In this study, we have identified and characterized long intergenic non-coding RNAs (lincRNA in G. lucidum systematically. We developed a computational pipeline, which was used to analyze RNA-Seq data derived from G. lucidum samples collected from three developmental stages. A total of 402 lincRNA candidates were identified, with an average length of 609 bp. Analysis of their adjacent protein-coding genes (apcGenes revealed that 46 apcGenes belong to the pathways of triterpenoid biosynthesis and lignin degradation, or families of cytochrome P450, mating type B genes, and carbohydrate-active enzymes. To determine if lincRNAs and these apcGenes have any interactions, the corresponding pairs of lincRNAs and apcGenes were analyzed in detail. We developed a modified 3' RACE method to analyze the transcriptional direction of a transcript. Among the 46 lincRNAs, 37 were found unidirectionally transcribed, and 9 were found bidirectionally transcribed. The expression profiles of 16 of these 37 lincRNAs were found to be highly correlated with those of the apcGenes across the three developmental stages. Among them, 11 are positively correlated (r>0.8 and 5 are negatively correlated (r<-0.8. The co-localization and co-expression of lincRNAs and those apcGenes playing important functions is consistent with the notion that lincRNAs might be important regulators for cellular processes. In summary, this represents the very first study to identify and characterize lincRNAs in the genomes of basidiomycetes. The results obtained here have laid the foundation for study of potential lincRNA-mediated expression regulation of genes in G. lucidum.

  2. The Dunaliella salina organelle genomes: large sequences, inflated with intronic and intergenic DNA

    Directory of Open Access Journals (Sweden)

    Tran Duc

    2010-05-01

    Full Text Available Abstract Background Dunaliella salina Teodoresco, a unicellular, halophilic green alga belonging to the Chlorophyceae, is among the most industrially important microalgae. This is because D. salina can produce massive amounts of β-carotene, which can be collected for commercial purposes, and because of its potential as a feedstock for biofuels production. Although the biochemistry and physiology of D. salina have been studied in great detail, virtually nothing is known about the genomes it carries, especially those within its mitochondrion and plastid. This study presents the complete mitochondrial and plastid genome sequences of D. salina and compares them with those of the model green algae Chlamydomonas reinhardtii and Volvox carteri. Results The D. salina organelle genomes are large, circular-mapping molecules with ~60% noncoding DNA, placing them among the most inflated organelle DNAs sampled from the Chlorophyta. In fact, the D. salina plastid genome, at 269 kb, is the largest complete plastid DNA (ptDNA sequence currently deposited in GenBank, and both the mitochondrial and plastid genomes have unprecedentedly high intron densities for organelle DNA: ~1.5 and ~0.4 introns per gene, respectively. Moreover, what appear to be the relics of genes, introns, and intronic open reading frames are found scattered throughout the intergenic ptDNA regions -- a trait without parallel in other characterized organelle genomes and one that gives insight into the mechanisms and modes of expansion of the D. salina ptDNA. Conclusions These findings confirm the notion that chlamydomonadalean algae have some of the most extreme organelle genomes of all eukaryotes. They also suggest that the events giving rise to the expanded ptDNA architecture of D. salina and other Chlamydomonadales may have occurred early in the evolution of this lineage. Although interesting from a genome evolution standpoint, the D. salina organelle DNA sequences will aid in the

  3. The Dunaliella salina organelle genomes: large sequences, inflated with intronic and intergenic DNA

    Energy Technology Data Exchange (ETDEWEB)

    Smith, David R.; Lee, Robert W.; Cushman, John C.; Magnuson, Jon K.; Tran, Duc; Polle, Juergen E.

    2010-05-07

    Abstract Background: Dunaliella salina Teodoresco, a unicellular, halophilic green alga belonging to the Chlorophyceae, is among the most industrially important microalgae. This is because D. salina can produce massive amounts of β-carotene, which can be collected for commercial purposes, and because of its potential as a feedstock for biofuels production. Although the biochemistry and physiology of D. salina have been studied in great detail, virtually nothing is known about the genomes it carries, especially those within its mitochondrion and plastid. This study presents the complete mitochondrial and plastid genome sequences of D. salina and compares them with those of the model green algae Chlamydomonas reinhardtii and Volvox carteri. Results: The D. salina organelle genomes are large, circular-mapping molecules with ~60% noncoding DNA, placing them among the most inflated organelle DNAs sampled from the Chlorophyta. In fact, the D. salina plastid genome, at 269 kb, is the largest complete plastid DNA (ptDNA) sequence currently deposited in GenBank, and both the mitochondrial and plastid genomes have unprecedentedly high intron densities for organelle DNA: ~1.5 and ~0.4 introns per gene, respectively. Moreover, what appear to be the relics of genes, introns, and intronic open reading frames are found scattered throughout the intergenic ptDNA regions -- a trait without parallel in other characterized organelle genomes and one that gives insight into the mechanisms and modes of expansion of the D. salina ptDNA. Conclusions: These findings confirm the notion that chlamydomonadalean algae have some of the most extreme organelle genomes of all eukaryotes. They also suggest that the events giving rise to the expanded ptDNA architecture of D. salina and other Chlamydomonadales may have occurred early in the evolution of this lineage. Although interesting from a genome evolution standpoint, the D. salina organelle DNA sequences will aid in the development of a viable

  4. Weak Decay of Hypernuclei

    CERN Document Server

    Alberico, W M

    2004-01-01

    The focus of these Lectures is on the weak decay modes of hypernuclei, with special attention to Lambda-hypernuclei. The subject involves many fields of modern theoretical and experimental physics, from nuclear structure to the fundamental constituents of matter and their interactions. The various weak decay modes of Lambda-hypernuclei are described: the mesonic mode and the non-mesonic ones. The latter are the dominant decay channels of medium--heavy hypernuclei, where, on the contrary, the mesonic decay is disfavoured by Pauli blocking effect on the outgoing nucleon. In particular, one can distinguish between one-body and two-body induced decays. Theoretical models employed to evaluate the (partial and total) decay widths of hypernuclei are illustrated, and their results compared with existing experimental data. Open problems and recent achievements are extensively discussed, in particular the determination of the ratio Gamma_n/Gamma_p, possible tests of the Delta I=1/2 rule in non-mesonic decays and the pu...

  5. ICU-Acquired Weakness.

    Science.gov (United States)

    Jolley, Sarah E; Bunnell, Aaron E; Hough, Catherine L

    2016-11-01

    Survivorship after critical illness is an increasingly important health-care concern as ICU use continues to increase while ICU mortality is decreasing. Survivors of critical illness experience marked disability and impairments in physical and cognitive function that persist for years after their initial ICU stay. Newfound impairment is associated with increased health-care costs and use, reductions in health-related quality of life, and prolonged unemployment. Weakness, critical illness neuropathy and/or myopathy, and muscle atrophy are common in patients who are critically ill, with up to 80% of patients admitted to the ICU developing some form of neuromuscular dysfunction. ICU-acquired weakness (ICUAW) is associated with longer durations of mechanical ventilation and hospitalization, along with greater functional impairment for survivors. Although there is increasing recognition of ICUAW as a clinical entity, significant knowledge gaps exist concerning identifying patients at high risk for its development and understanding its role in long-term outcomes after critical illness. This review addresses the epidemiologic and pathophysiologic aspects of ICUAW; highlights the diagnostic challenges associated with its diagnosis in patients who are critically ill; and proposes, to our knowledge, a novel strategy for identifying ICUAW. Copyright © 2016 American College of Chest Physicians. Published by Elsevier Inc. All rights reserved.

  6. Genomic organization of Tropomodulins 2 and 4 and unusual intergenic and intraexonic splicing of YL-1 and Tropomodulin 4

    Directory of Open Access Journals (Sweden)

    Zoghbi Huda Y

    2001-10-01

    Full Text Available Abstract Background The tropomodulins (TMODs are a family of proteins that cap the pointed ends of actin filaments. Four TMODs have been identified in humans, with orthologs in mice. Mutations in actin or actin-binding proteins have been found to cause several human diseases, ranging from hypertrophic cardiomyopathy to immunodefiencies such as Wiskott-Aldrich syndrome. We had previously mapped Tropomodulin 2 (TMOD2 to the genomic region containing the gene for amyotrophic lateral sclerosis 5 (ALS5. We determined the genomic structure of Tmod2 in order to better analyze patient DNA for mutations; we also determined the genomic structure of Tropomodulin 4 (TMOD4. Results In this study, we determined the genomic structure of TMOD2 and TMOD4 and found the organization of both genes to be similar. Sequence analysis of TMOD2 revealed no mutations or polymorphisms in ALS5 patients or controls. Interestingly, we discovered that another gene, YL-1, intergenically splices into TMOD4. YL-1 encodes six exons, the last of which is 291 bp from a 5' untranslated exon of TMOD4. We used 5' RACE and RT-PCR from TMOD4 to identify several intergenic RACE products. YL-1 was also found to undergo unconventional splicing using non-canonical splice sites within exons (intraexonic splicing to produce several alternative transcripts. Conclusions The genomic structure of TMOD2 and TMOD4 have been delineated. This should facilitate future mutational analysis of these genes. In addition, intergenic splicing at TMOD4/YL-1 was discovered, demonstrating yet another level of complexity of gene organization and regulation.

  7. Weak Quantum Ergodicity

    CERN Document Server

    Kaplan, L

    1998-01-01

    We examine the consequences of classical ergodicity for the localization properties of individual quantum eigenstates in the classical limit. We note that the well known Schnirelman result is a weaker form of quantum ergodicity than the one implied by random matrix theory. This suggests the possibility of systems with non-gaussian random eigenstates which are nonetheless ergodic in the sense of Schnirelman and lead to ergodic transport in the classical limit. These we call "weakly quantum ergodic.'' Indeed for a class of "slow ergodic" classical systems, it is found that each eigenstate becomes localized to an ever decreasing fraction of the available state space, in the semiclassical limit. Nevertheless, each eigenstate in this limit covers phase space evenly on any classical scale, and long-time transport properties betwen individual quantum states remain ergodic due to the diffractive effects which dominate quantum phase space exploration.

  8. Comparative bioinformatics and experimental analysis of the intergenic regulatory regions of Bacillus cereus hbl and nhe enterotoxin operons and the impact of CodY on virulence heterogeneity

    Directory of Open Access Journals (Sweden)

    Maria-Elisabeth eBöhm

    2016-05-01

    Full Text Available Bacillus cereus is a food contaminant with greatly varying enteropathogenic potential. Almost all known strains harbor the genes for at least one of the three enterotoxins Nhe, Hbl and CytK. While some strains show no cytotoxicity, others have caused outbreaks, in rare cases even with lethal outcome. The reason for these differences in cytotoxicity is unknown. To gain insight into the origin of enterotoxin expression heterogeneity in different strains, the architecture and role of 5’ intergenic regions (5’IGRs upstream of the nhe and hbl operons was investigated. In silico comparison of 142 strains of all seven phylogenetic groups of B. cereus sensu lato proved the presence of long 5’IGRs upstream of the nheABC and hblCDAB operons, which harbor recognition sites for several transcriptional regulators, including the virulence regulator PlcR, redox regulators ResD and Fnr, the nutrient-sensitive regulator CodY as well as the master regulator for biofilm formation SinR. By determining transcription start sites, unusually long 5’ untranslated regions (5’UTRs upstream of the nhe and hbl start codons were identified, which are not present upstream of cytK-1 and cytK-2. Promoter fusions lacking various parts of the nhe and hbl 5’UTR in B. cereus INRA C3 showed that the entire 331 bp 5’UTR of nhe is necessary for full promoter activity, while the presence of the complete 606 bp hbl 5’UTR lowers promoter activity. Repression was caused by a 268 bp sequence directly upstream of the hbl transcription start. Luciferase activity of reporter strains containing nhe and hbl 5’IGR lux fusions provided evidence that toxin gene transcription is upregulated by the depletion of free amino acids. Electrophoretic mobility shift assays showed that the branched-chain amino acid sensing regulator CodY binds to both nhe and hbl 5’UTR downstream of the promoter, potentially acting as a nutrient-responsive roadblock repressor of toxin gene transcription

  9. Comparative Bioinformatics and Experimental Analysis of the Intergenic Regulatory Regions of Bacillus cereus hbl and nhe Enterotoxin Operons and the Impact of CodY on Virulence Heterogeneity.

    Science.gov (United States)

    Böhm, Maria-Elisabeth; Krey, Viktoria M; Jeßberger, Nadja; Frenzel, Elrike; Scherer, Siegfried

    2016-01-01

    Bacillus cereus is a food contaminant with greatly varying enteropathogenic potential. Almost all known strains harbor the genes for at least one of the three enterotoxins Nhe, Hbl, and CytK. While some strains show no cytotoxicity, others have caused outbreaks, in rare cases even with lethal outcome. The reason for these differences in cytotoxicity is unknown. To gain insight into the origin of enterotoxin expression heterogeneity in different strains, the architecture and role of 5' intergenic regions (5' IGRs) upstream of the nhe and hbl operons was investigated. In silico comparison of 142 strains of all seven phylogenetic groups of B. cereus sensu lato proved the presence of long 5' IGRs upstream of the nheABC and hblCDAB operons, which harbor recognition sites for several transcriptional regulators, including the virulence regulator PlcR, redox regulators ResD and Fnr, the nutrient-sensitive regulator CodY as well as the master regulator for biofilm formation SinR. By determining transcription start sites, unusually long 5' untranslated regions (5' UTRs) upstream of the nhe and hbl start codons were identified, which are not present upstream of cytK-1 and cytK-2. Promoter fusions lacking various parts of the nhe and hbl 5' UTR in B. cereus INRA C3 showed that the entire 331 bp 5' UTR of nhe is necessary for full promoter activity, while the presence of the complete 606 bp hbl 5' UTR lowers promoter activity. Repression was caused by a 268 bp sequence directly upstream of the hbl transcription start. Luciferase activity of reporter strains containing nhe and hbl 5' IGR lux fusions provided evidence that toxin gene transcription is upregulated by the depletion of free amino acids. Electrophoretic mobility shift assays showed that the branched-chain amino acid sensing regulator CodY binds to both nhe and hbl 5' UTR downstream of the promoter, potentially acting as a nutrient-responsive roadblock repressor of toxin gene transcription. PlcR binding sites are

  10. Replication intermediate analysis confirms that chromosomal replication origin initiates from an unusual intergenic region in Caulobacter crescentus.

    Science.gov (United States)

    Brassinga, A K; Marczynski, G T

    2001-11-01

    The alpha-proteobacterium Caulobacter crescentus possesses a developmental cell cycle that restricts chromosome replication to a stalked cell type. The proposed C.crescentus chromosome replication origin (Cori) lies between hemE and RP001, an unusual intergenic region not previously associated with bacterial replication origins, although a similar genomic arrangement is also present at the putative replication origin in the related bacterium Rickettsia prowazekii. The cloned Cori supports autonomous plasmid replication selectively in the stalked cell type implying that replication of the entire chromosome also initiates between hemE and RP001. To confirm this location, we applied the 2-D (N/N) agarose gel electrophoresis technique to resolve and identify chromosome replication intermediates throughout a 30 kb region spanning Cori. Replication initiation in Cori was uniquely characterized by an 'origin bubble and Y-arc' pattern and this observation was supported by simple replication fork 'Y-arc' patterns that characterized the regions flanking Cori. These replication forks originated bi-directionally from within Cori as determined by the fork direction assay. Therefore, chromosomal replication initiates from the unusual hemE/RP001 intergenic region that we propose represents a new class of replication origins.

  11. Genome-assisted development of nuclear intergenic sequence markers for entomopathogenic fungi of the Metarhizium anisopliae species complex.

    Science.gov (United States)

    Kepler, R M; Rehner, S A

    2013-03-01

    Entomopathogenic fungi in the genus Metarhizium are useful for biological control programmes against economically important arthropod pests worldwide. However, understanding the true diversity and ecology of these organisms is hampered by convergent morphologies between species. The application of molecular techniques has enabled greater resolution of species than allowed by morphology alone. In particular, the commonly used biocontrol agent M. anisopliae was found to be a species complex composed of nine species. This prior work was conducted with commonly used markers in fungal phylogenetics (BTUB, RPB1, RPB2 and TEF), which likely under-represent diversity in the M. anisopliae complex. Using sequence data from nuclear genomes of M. acridum and M. robertsii we identified regions of conserved gene synteny and developed primers to amplify intergenic regions of seven loci. Using ex-type and authenticated tissue specimens for species in the M. anisopliae complex, we demonstrate that sequence data derived from intergenic loci is more variable and phylogenetically informative than previously available markers. These new markers will facilitate investigations at or below the species level for the M. anisopliae complex. The method of marker development employed here should be extendable to any group with sufficiently divergent genome data available.

  12. Cytomolecular analysis of ribosomal DNA evolution in a natural allotetraploid Brachypodium hybridum and its putative ancestors – dissecting complex repetitive structure of intergenic spacers

    Directory of Open Access Journals (Sweden)

    Natalia Borowska-Zuchowska

    2016-10-01

    Full Text Available Nucleolar dominance is an epigenetic phenomenon associated with nuclear 35S rRNA genes and consists in selective suppression of gene loci inherited from one of the progenitors in the allopolyploid. Our understanding of the exact mechanisms that determine this process is still fragmentary, especially in case of the grass species. This study aimed to shed some light on the molecular basis of this genome-specific inactivation of 35S rDNA loci in an allotetraploid Brachypodium hybridum (2n=30, which arose from the interspecific hybridization between two diploid ancestors that were very similar to modern B. distachyon (2n=10 and B. stacei (2n=20. Using fluorescence in situ hybridization with 25S rDNA and chromosome-specific BAC clones as probes we revealed that the nucleolar dominance is present not only in meristematic root-tip cells but also in differentiated cell fraction of B. hybridum. Additionally, the intergenic spacers (IGSs from both of the putative ancestors and the allotetraploid were sequenced and analyzed. The presumptive transcription initiation sites, spacer promoters and repeated elements were identified within the IGSs. Two different length variants, 2.3 kb and 3.5 kb, of IGSs were identified in B. distachyon and B. stacei, respectively, however only the IGS that had originated from B. distachyon-like ancestor was present in the allotetraploid. The amplification pattern of B. hybridum IGSs suggests that some genetic changes occurred in inactive B. stacei-like rDNA loci during the evolution of the allotetraploid. We hypothesize that their preferential silencing is an effect of structural changes in the sequence rather than just the result of the sole inactivation at the epigenetic level.

  13. Existence of HbF Enhancer Haplotypes at HBS1L-MYB Intergenic Region in Transfusion-Dependent Saudi β-Thalassemia Patients

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    Cyril Cyrus

    2017-01-01

    Full Text Available Background and Objectives. β-Thalassemia and sickle cell disease are genetic disorders characterized by reduced and abnormal β-globin chain production, respectively. The elevation of fetal hemoglobin (HbF can ameliorate the severity of these disorders. In sickle cell disease patients, the HbF level elevation is associated with three quantitative trait loci (QTLs, BCL11A, HBG2 promoter, and HBS1L-MYB intergenic region. This study elucidates the existence of the variants in these three QTLs to determine their association with HbF levels of transfusion-dependent Saudi β-thalassemia patients. Materials and Methods. A total of 174 transfusion-dependent β-thalassemia patients and 164 healthy controls from Eastern Province of Saudi Arabia were genotyped for fourteen single nucleotide polymorphisms (SNPs from the three QTL regions using TaqMan assay on real-time PCR. Results. Genotype analysis revealed that six alleles of HBS1L-MYB QTL (rs9376090C p=0.0009, rs9399137C p=0.008, rs4895441G p=0.004, rs9389269C p=0.008, rs9402686A p=0.008, and rs9494142C p=0.002 were predominantly associated with β-thalassemia. In addition, haplotype analysis revealed that haplotypes of HBS1L-MYB (GCCGCAC p=0.022 and HBG2 (GTT p=0.009 were also predominantly associated with β-thalassemia. Furthermore, the HBS1L-MYB region also exhibited association with the high HbF cohort. Conclusion. The stimulation of HbF gene expression may provide alternative therapies for the amelioration of the disease severity of β-thalassemia.

  14. Existence of HbF Enhancer Haplotypes at HBS1L-MYB Intergenic Region in Transfusion-Dependent Saudi β-Thalassemia Patients.

    Science.gov (United States)

    Cyrus, Cyril; Vatte, Chittibabu; Borgio, J Francis; Al-Rubaish, Abdullah; Chathoth, Shahanas; Nasserullah, Zaki A; Jarrash, Sana Al; Sulaiman, Ahmed; Qutub, Hatem; Alsaleem, Hassan; Alzahrani, Alhusain J; Steinberg, Martin H; Ali, Amein K Al

    2017-01-01

    Background and Objectives. β-Thalassemia and sickle cell disease are genetic disorders characterized by reduced and abnormal β-globin chain production, respectively. The elevation of fetal hemoglobin (HbF) can ameliorate the severity of these disorders. In sickle cell disease patients, the HbF level elevation is associated with three quantitative trait loci (QTLs), BCL11A, HBG2 promoter, and HBS1L-MYB intergenic region. This study elucidates the existence of the variants in these three QTLs to determine their association with HbF levels of transfusion-dependent Saudi β-thalassemia patients. Materials and Methods. A total of 174 transfusion-dependent β-thalassemia patients and 164 healthy controls from Eastern Province of Saudi Arabia were genotyped for fourteen single nucleotide polymorphisms (SNPs) from the three QTL regions using TaqMan assay on real-time PCR. Results. Genotype analysis revealed that six alleles of HBS1L-MYB QTL (rs9376090C p = 0.0009, rs9399137C p = 0.008, rs4895441G p = 0.004, rs9389269C p = 0.008, rs9402686A p = 0.008, and rs9494142C p = 0.002) were predominantly associated with β-thalassemia. In addition, haplotype analysis revealed that haplotypes of HBS1L-MYB (GCCGCAC p = 0.022) and HBG2 (GTT p = 0.009) were also predominantly associated with β-thalassemia. Furthermore, the HBS1L-MYB region also exhibited association with the high HbF cohort. Conclusion. The stimulation of HbF gene expression may provide alternative therapies for the amelioration of the disease severity of β-thalassemia.

  15. Existence of HbF Enhancer Haplotypes at HBS1L-MYB Intergenic Region in Transfusion-Dependent Saudi β-Thalassemia Patients

    Science.gov (United States)

    Vatte, Chittibabu; Borgio, J. Francis; Al-Rubaish, Abdullah; Nasserullah, Zaki A.; Jarrash, Sana Al; Sulaiman, Ahmed; Qutub, Hatem; Alsaleem, Hassan; Alzahrani, Alhusain J.; Steinberg, Martin H.

    2017-01-01

    Background and Objectives. β-Thalassemia and sickle cell disease are genetic disorders characterized by reduced and abnormal β-globin chain production, respectively. The elevation of fetal hemoglobin (HbF) can ameliorate the severity of these disorders. In sickle cell disease patients, the HbF level elevation is associated with three quantitative trait loci (QTLs), BCL11A, HBG2 promoter, and HBS1L-MYB intergenic region. This study elucidates the existence of the variants in these three QTLs to determine their association with HbF levels of transfusion-dependent Saudi β-thalassemia patients. Materials and Methods. A total of 174 transfusion-dependent β-thalassemia patients and 164 healthy controls from Eastern Province of Saudi Arabia were genotyped for fourteen single nucleotide polymorphisms (SNPs) from the three QTL regions using TaqMan assay on real-time PCR. Results. Genotype analysis revealed that six alleles of HBS1L-MYB QTL (rs9376090C p = 0.0009, rs9399137C p = 0.008, rs4895441G p = 0.004, rs9389269C p = 0.008, rs9402686A p = 0.008, and rs9494142C p = 0.002) were predominantly associated with β-thalassemia. In addition, haplotype analysis revealed that haplotypes of HBS1L-MYB (GCCGCAC p = 0.022) and HBG2 (GTT p = 0.009) were also predominantly associated with β-thalassemia. Furthermore, the HBS1L-MYB region also exhibited association with the high HbF cohort. Conclusion. The stimulation of HbF gene expression may provide alternative therapies for the amelioration of the disease severity of β-thalassemia. PMID:28280727

  16. Weak Cat-Operads

    CERN Document Server

    Dosen, K

    2010-01-01

    An operad (this paper deals with non-symmetric operads) may be conceived as a partial algebra with a family of insertion operations, Gerstenhaber's circle-i products, which satisfy two kinds of associativity, one of them involving commutativity. A Cat-operad is an operad enriched over the category Cat of small categories, as a 2-category with small hom-categories is a category enriched over Cat. The notion of weak Cat-operad is to the notion of Cat-operad what the notion of bicategory is to the notion of 2-category. The equations of operads like associativity of insertions are replaced by isomorphisms in a category. The goal of this paper is to formulate conditions concerning these isomorphisms that ensure coherence, in the sense that all diagrams of canonical arrows commute. This is the sense in which the notions of monoidal category and bicategory are coherent. The coherence proof in the paper is much simplified by indexing the insertion operations in a context-independent way, and not in the usual manner. ...

  17. Weak Total Resolvability In Graphs

    Directory of Open Access Journals (Sweden)

    Casel Katrin

    2016-02-01

    Full Text Available A vertex v ∈ V (G is said to distinguish two vertices x, y ∈ V (G of a graph G if the distance from v to x is di erent from the distance from v to y. A set W ⊆ V (G is a total resolving set for a graph G if for every pair of vertices x, y ∈ V (G, there exists some vertex w ∈ W − {x, y} which distinguishes x and y, while W is a weak total resolving set if for every x ∈ V (G−W and y ∈ W, there exists some w ∈ W −{y} which distinguishes x and y. A weak total resolving set of minimum cardinality is called a weak total metric basis of G and its cardinality the weak total metric dimension of G. Our main contributions are the following ones: (a Graphs with small and large weak total metric bases are characterised. (b We explore the (tight relation to independent 2-domination. (c We introduce a new graph parameter, called weak total adjacency dimension and present results that are analogous to those presented for weak total dimension. (d For trees, we derive a characterisation of the weak total (adjacency metric dimension. Also, exact figures for our parameters are presented for (generalised fans and wheels. (e We show that for Cartesian product graphs, the weak total (adjacency metric dimension is usually pretty small. (f The weak total (adjacency dimension is studied for lexicographic products of graphs.

  18. H2A.Z demarcates intergenic regions of the plasmodium falciparum epigenome that are dynamically marked by H3K9ac and H3K4me3.

    Directory of Open Access Journals (Sweden)

    Richárd Bártfai

    Full Text Available Epigenetic regulatory mechanisms and their enzymes are promising targets for malaria therapeutic intervention; however, the epigenetic component of gene expression in P. falciparum is poorly understood. Dynamic or stable association of epigenetic marks with genomic features provides important clues about their function and helps to understand how histone variants/modifications are used for indexing the Plasmodium epigenome. We describe a novel, linear amplification method for next-generation sequencing (NGS that allows unbiased analysis of the extremely AT-rich Plasmodium genome. We used this method for high resolution, genome-wide analysis of a histone H2A variant, H2A.Z and two histone H3 marks throughout parasite intraerythrocytic development. Unlike in other organisms, H2A.Z is a constant, ubiquitous feature of euchromatic intergenic regions throughout the intraerythrocytic cycle. The almost perfect colocalisation of H2A.Z with H3K9ac and H3K4me3 suggests that these marks are preferentially deposited on H2A.Z-containing nucleosomes. By performing RNA-seq on 8 time-points, we show that acetylation of H3K9 at promoter regions correlates very well with the transcriptional status whereas H3K4me3 appears to have stage-specific regulation, being low at early stages, peaking at trophozoite stage, but does not closely follow changes in gene expression. Our improved NGS library preparation procedure provides a foundation to exploit the malaria epigenome in detail. Furthermore, our findings place H2A.Z at the cradle of P. falciparum epigenetic regulation by stably defining intergenic regions and providing a platform for dynamic assembly of epigenetic and other transcription related complexes.

  19. Weak compactness of biharmonic maps

    Directory of Open Access Journals (Sweden)

    Shenzhou Zheng

    2012-10-01

    Full Text Available This article shows that if a sequence of weak solutions of a perturbed biharmonic map satisfies $Phi_ko 0$ in $(W^{2,2}^*$ and $u_kightharpoonup u$ weakly in $W^{2,2}$, then $u$ is a biharmonic map. In particular, we show that the space of biharmonic maps is sequentially compact under the weak-$W^{2,2}$ topology.

  20. Absence of DNA sequence diversity of the intergenic spacer 1 region in Malassezia nana isolates from cats.

    Science.gov (United States)

    de Bellis, Filippo; Castellá, Gemma; Cabañes, F Javier; Bond, Ross

    2010-03-01

    Malassezia nana is a recently-described lipophilic yeast that has been isolated from the ear canals and skin of cats in Japan and Europe and from Brazilian cattle with or without otitis externa. Previous reports have demonstrated that significant intra-species variability exists in the DNA sequence of the intergenic spacer 1 region (IGS1), particularly amongst M. globosa, M. restricta and M. pachydermatis, and that certain IGS genotypes are associated with various epidemiological factors, including host disease status. In the present study, we demonstrated that the IGS1 sequences of 12 UK isolates of M. nana from cats and of six isolates from Spain (5 cat, 1 dog) were identical to each other and to CBS 9557, the M. nana type culture originally obtained from a Japanese cat with otitis externa. Further studies are needed to determine whether other genotypes of M. nana can be identified and associated with geographical regions and the species and disease status of mammalian hosts.

  1. Conservation of the Exon-Intron Structure of Long Intergenic Non-Coding RNA Genes in Eutherian Mammals

    Directory of Open Access Journals (Sweden)

    Diana Chernikova

    2016-07-01

    Full Text Available The abundance of mammalian long intergenic non-coding RNA (lincRNA genes is high, yet their functions remain largely unknown. One possible way to study this important question is to use large-scale comparisons of various characteristics of lincRNA with those of protein-coding genes for which a large body of functional information is available. A prominent feature of mammalian protein-coding genes is the high evolutionary conservation of the exon-intron structure. Comparative analysis of putative intron positions in lincRNA genes from various mammalian genomes suggests that some lincRNA introns have been conserved for over 100 million years, thus the primary and/or secondary structure of these molecules is likely to be functionally important.

  2. Capturing intergenerativity: the use of student reflective journals to identify learning within an undergraduate course in gerontological nursing.

    Science.gov (United States)

    Davies, Susan M; Reitmaier, Amy B; Smith, Linda Reveling; Mangan-Danckwart, Deborah

    2013-03-01

    The benefits of intergenerational contact between older and young adults have been demonstrated; yet, nursing programs have underexplored the potential of such relationships for enhancing student learning. This article presents an analysis of student reflective journals as part of an evaluation of an undergraduate gerontological nursing course. The course aims to create positive learning experiences by involving older adults as partners in student learning. Older adults are recruited to receive visits from a designated student to share aspects of their life and experiences. Students write reflective journals based on these visits as a method of evaluating their learning. A framework analysis of 80 journals completed by 59 students identified four major themes representing the impact of these visits on student learning: becoming aware, making connections, seeing the unique person, and valuing intergenerational relationships. The analysis suggests the relevance of the concept of intergenerativity in illuminating shared benefits of the practicum experience.

  3. phuR intergenic mutation results in pleiotropic effects on global gene expression

    DEFF Research Database (Denmark)

    Khademi, Seyed Mohammad Hossein; Wassermann, Tina; Ciofu, Oana;

    2015-01-01

    We have previously found a positive selection for promoter mutations in Pseudomonas aeruginosa DK2 leading to increased expression of the phu (Pseudomonas heme utilization) system. By mimicking conditions of the CF airways in vitro, we experimentally demonstrated that increased expression of phu......R confers a growth advantage in the presence of hemoglobin, thus suggesting that P. aeruginosa evolves towards iron acquisition from hemoglobin....

  4. [Systemic lupus erythematosus and weakness].

    Science.gov (United States)

    Vinagre, Filipe; Santos, Maria José; da Silva, José Canas

    2006-01-01

    We report a case of a 13-year old young girl, with Juvenile Systemic Lupus Erythematosus and recent onset of muscle weakness. Investigations lead to the diagnosis of Myasthenia Gravis. The most important causes of muscle weakness in lupus patients are discussed.

  5. A ribosomal RNA gene intergenic spacer based PCR and DGGE fingerprinting method for the analysis of specific rhizobial communities in soil

    NARCIS (Netherlands)

    de Oliveira, VM; Manfio, GP; Coutinho, HLD; Keijzer-Wolters, AC; van Elsas, JD

    2006-01-01

    A direct molecular method for assessing the diversity of specific populations of rhizobia in soil, based on nested PCR amplification of 16S-23S ribosomal RNA gene (rDNA) intergenic spacer (IGS) sequences, was developed. Initial generic amplification of bacterial rDNA IGS sequences from soil DNA was

  6. Enterobacterial repetitive intergenic consensus 1R PCR assay for detection of Raoultella sp. isolates among strains identified as Klebsiella oxytoca in the clinical laboratory.

    Science.gov (United States)

    Granier, Sophie A; Leflon-Guibout, Véronique; Goldstein, Fred W; Nicolas-Chanoine, Marie-Hélène

    2003-04-01

    The enterobacterial repetitive intergenic consensus 1R PCR method, which provided recognizable profiles for reference strains of the three species of Raoultella and the two genetic groups of Klebsiella oxytoca, was applied to 19 clinical isolates identified as K. oxytoca. By this method, as confirmed by species-specific gene sequencing, two Raoultella ornithinolytica and two unclassifiable K. oxytoca isolates were identified.

  7. Promoter regions of Plasmodium vivax are poorly or not recognized by Plasmodium falciparum

    Directory of Open Access Journals (Sweden)

    del Portillo Hernando A

    2007-02-01

    Full Text Available Abstract Background Heterologous promoter analysis in Plasmodium has revealed the existence of conserved cis regulatory elements as promoters from different species can drive expression of reporter genes in heterologous transfection assays. Here, the functional characterization of different Plasmodium vivax promoters in Plasmodium falciparum using luciferase as the reporter gene is presented. Methods Luciferase reporter plasmids harboring the upstream regions of the msp1, dhfr, and vir3 genes as well as the full-length intergenic regions of the vir23/24 and ef-1α genes of P. vivax were constructed and transiently transfected in P. falciparum. Results Only the constructs with the full-length intergenic regions of the vir23/24 and ef-1α genes were recognized by the P. falciparum transcription machinery albeit to values approximately two orders of magnitude lower than those reported by luc plasmids harbouring promoter regions from P. falciparum and Plasmodium berghei. A bioinformatics approach allowed the identification of a motif (GCATAT in the ef-1α intergenic region that is conserved in five Plasmodium species but is degenerate (GCANAN in P. vivax. Mutations of this motif in the P. berghei ef-1α promoter region decreased reporter expression indicating it is active in gene expression in Plasmodium. Conclusion Together, this data indicates that promoter regions of P. vivax are poorly or not recognized by the P. falciparum transcription machinery suggesting the existence of P. vivax-specific transcription regulatory elements.

  8. Precision Metrology Using Weak Measurements

    Science.gov (United States)

    Zhang, Lijian; Datta, Animesh; Walmsley, Ian A.

    2015-05-01

    Weak values and measurements have been proposed as a means to achieve dramatic enhancements in metrology based on the greatly increased range of possible measurement outcomes. Unfortunately, the very large values of measurement outcomes occur with highly suppressed probabilities. This raises three vital questions in weak-measurement-based metrology. Namely, (Q1) Does postselection enhance the measurement precision? (Q2) Does weak measurement offer better precision than strong measurement? (Q3) Is it possible to beat the standard quantum limit or to achieve the Heisenberg limit with weak measurement using only classical resources? We analyze these questions for two prototypical, and generic, measurement protocols and show that while the answers to the first two questions are negative for both protocols, the answer to the last is affirmative for measurements with phase-space interactions, and negative for configuration space interactions. Our results, particularly the ability of weak measurements to perform at par with strong measurements in some cases, are instructive for the design of weak-measurement-based protocols for quantum metrology.

  9. Precision metrology using weak measurements.

    Science.gov (United States)

    Zhang, Lijian; Datta, Animesh; Walmsley, Ian A

    2015-05-29

    Weak values and measurements have been proposed as a means to achieve dramatic enhancements in metrology based on the greatly increased range of possible measurement outcomes. Unfortunately, the very large values of measurement outcomes occur with highly suppressed probabilities. This raises three vital questions in weak-measurement-based metrology. Namely, (Q1) Does postselection enhance the measurement precision? (Q2) Does weak measurement offer better precision than strong measurement? (Q3) Is it possible to beat the standard quantum limit or to achieve the Heisenberg limit with weak measurement using only classical resources? We analyze these questions for two prototypical, and generic, measurement protocols and show that while the answers to the first two questions are negative for both protocols, the answer to the last is affirmative for measurements with phase-space interactions, and negative for configuration space interactions. Our results, particularly the ability of weak measurements to perform at par with strong measurements in some cases, are instructive for the design of weak-measurement-based protocols for quantum metrology.

  10. Acute muscular weakness in children

    Directory of Open Access Journals (Sweden)

    Ricardo Pablo Javier Erazo Torricelli

    Full Text Available ABSTRACT Acute muscle weakness in children is a pediatric emergency. During the diagnostic approach, it is crucial to obtain a detailed case history, including: onset of weakness, history of associated febrile states, ingestion of toxic substances/toxins, immunizations, and family history. Neurological examination must be meticulous as well. In this review, we describe the most common diseases related to acute muscle weakness, grouped into the site of origin (from the upper motor neuron to the motor unit. Early detection of hyperCKemia may lead to a myositis diagnosis, and hypokalemia points to the diagnosis of periodic paralysis. Ophthalmoparesis, ptosis and bulbar signs are suggestive of myasthenia gravis or botulism. Distal weakness and hyporeflexia are clinical features of Guillain-Barré syndrome, the most frequent cause of acute muscle weakness. If all studies are normal, a psychogenic cause should be considered. Finding the etiology of acute muscle weakness is essential to execute treatment in a timely manner, improving the prognosis of affected children.

  11. High prevalence of spotted fever group rickettsiae in Amblyomma variegatum from Uganda and their identification using sizes of intergenic spacers.

    Science.gov (United States)

    Nakao, Ryo; Qiu, Yongjin; Igarashi, Manabu; Magona, Joseph W; Zhou, Lijia; Ito, Kimihito; Sugimoto, Chihiro

    2013-12-01

    The spotted fever group (SFG) rickettsiae are obligate intracellular bacteria transmitted by ticks that cause several tick-borne rickettsioses in humans worldwide. This study was intended to determine the prevalence of SFG rickettsiae in Amblyomma variegatum from 7 districts across Uganda. In addition to sequencing of gltA and ompA genes, identification of Rickettsia species based on the sizes of highly variable intergenic spacers, namely, dksA-xerC, mppA-purC, and rpmE-tRNA(fMet) was carried out. Application of multiplex PCR for simultaneous amplification of 3 spacers combined with capillary electrophoresis separation allowed simple, accurate, and high-throughput fragment sizing with considerable time and cost savings. Rickettsia genus-specific real-time PCR detected 136 positives out of 140 samples, giving an overall prevalence of 97.1%. Most samples (n=113) had a size combination of 225, 195, and 341 bp for dksA-xerC, mppA-purC, and rpmE-tRNA(fMet), respectively, which was identical to that of R. africae, a causative agent of African tick bite fever. In addition, several samples had size variants in either dksA-xerC or rpmE-tRNA(fMet). Nonetheless, the partial sequences of gltA and ompA genes of samples of all size combinations showed the greatest similarity to R. africae (99.3-100% for gltA and 98.1-100% for ompA). Given these results, it is highly possible that the tested ticks were infected with R. africae or closely related species. This is a first report on molecular genetic detection of R. africae and its high endemicity in Uganda. Clinicians in this country should be aware of this pathogen as a cause of non-malarial febrile illness. This study provided a starting point for the development of Rickettsia species identification based on the sizes of intergenic spacers. The procedure is simple, rapid, and cost-effective to perform; hence it might be particularly well suited for preliminary species identification in epidemiological investigations. The results

  12. Weakness

    Science.gov (United States)

    ... stroke After injury to a nerve During a flare-up of multiple sclerosis (MS) You may feel ... Duchenne) Myotonic dystrophy POISONING Botulism Poisoning ( insecticides , nerve gas) Shellfish poisoning OTHER Not enough healthy red blood ...

  13. DNA Hypomethylation in Intragenic and Intergenic Enhancer Chromatin of Muscle-Specific Genes Usually Correlates with their Expression.

    Science.gov (United States)

    Ehrlich, Kenneth C; Paterson, Heather L; Lacey, Michelle; Ehrlich, Melanie

    2016-12-01

    Tissue-specific enhancers are critical for gene regulation. In this study, we help elucidate the contribution of muscle-associated differential DNA methylation to the enhancer activity of highly muscle-specific genes. By bioinformatic analysis of 44 muscle-associated genes, we show that preferential gene expression in skeletal muscle (SkM) correlates with SkM-specific intragenic and intergenic enhancer chromatin and overlapping foci of DNA hypomethylation. Some genes, e.g., CASQ1 and FBXO32, displayed broad regions of both SkM- and heart-specific enhancer chromatin but exhibited focal SkM-specific DNA hypomethylation. Half of the genes had SkM-specific super-enhancers. In contrast to simple enhancer/gene-expression correlations, a super-enhancer was associated with the myogenic MYOD1 gene in both SkM and myoblasts even though SkM has < 1 percent as much MYOD1 expression. Local chromatin differences in this super-enhancer probably contribute to the SkM/myoblast differential expression. Transfection assays confirmed the tissue-specificity of the 0.3-kb core enhancer within MYOD1's super-enhancer and demonstrated its repression by methylation of its three CG dinucleotides. Our study suggests that DNA hypomethylation increases enhancer tissue-specificity and that SkM super-enhancers sometimes are poised for physiologically important, rapid up-regulation.

  14. Pan-Cancer Analyses Reveal Long Intergenic Non-Coding RNAs Relevant to Tumor Diagnosis, Subtyping and Prognosis.

    Science.gov (United States)

    Ching, Travers; Peplowska, Karolina; Huang, Sijia; Zhu, Xun; Shen, Yi; Molnar, Janos; Yu, Herbert; Tiirikainen, Maarit; Fogelgren, Ben; Fan, Rong; Garmire, Lana X

    2016-05-01

    Long intergenic noncoding RNAs (lincRNAs) are a relatively new class of non-coding RNAs that have the potential as cancer biomarkers. To seek a panel of lincRNAs as pan-cancer biomarkers, we have analyzed transcriptomes from over 3300 cancer samples with clinical information. Compared to mRNA, lincRNAs exhibit significantly higher tissue specificities that are then diminished in cancer tissues. Moreover, lincRNA clustering results accurately classify tumor subtypes. Using RNA-Seq data from thousands of paired tumor and adjacent normal samples in The Cancer Genome Atlas (TCGA), we identify six lincRNAs as potential pan-cancer diagnostic biomarkers (PCAN-1 to PCAN-6). These lincRNAs are robustly validated using cancer samples from four independent RNA-Seq data sets, and are verified by qPCR in both primary breast cancers and MCF-7 cell line. Interestingly, the expression levels of these six lincRNAs are also associated with prognosis in various cancers. We further experimentally explored the growth and migration dependence of breast and colon cancer cell lines on two of the identified lncRNAs. In summary, our study highlights the emerging role of lincRNAs as potentially powerful and biologically functional pan-cancer biomarkers and represents a significant leap forward in understanding the biological and clinical functions of lincRNAs in cancers.

  15. Genome-wide identification of long intergenic noncoding RNA genes and their potential association with domestication in pigs.

    Science.gov (United States)

    Zhou, Zhong-Yin; Li, Ai-Min; Adeola, Adeniyi C; Liu, Yan-Hu; Irwin, David M; Xie, Hai-Bing; Zhang, Ya-Ping

    2014-06-02

    Thousands of long intergenic noncoding RNAs (lincRNAs) have been identified in the human and mouse genomes, some of which play important roles in fundamental biological processes. The pig is an important domesticated animal, however, pig lincRNAs remain poorly characterized and it is unknown if they were involved in the domestication of the pig. Here, we used available RNA-seq resources derived from 93 samples and expressed sequence tag data sets, and identified 6,621 lincRNA transcripts from 4,515 gene loci. Among the identified lincRNAs, some lincRNA genes exhibit synteny and sequence conservation, including linc-sscg2561, whose gene neighbor Dnmt3a is associated with emotional behaviors. Both linc-sscg2561 and Dnmt3a show differential expression in the frontal cortex between domesticated pigs and wild boars, suggesting a possible role in pig domestication. This study provides the first comprehensive genome-wide analysis of pig lincRNAs.

  16. An improved PCR method for direct identification of Porphyra (Bangiales, Rhodophyta) using conchocelis based on a RUBISCO intergenic spacer

    Institute of Scientific and Technical Information of China (English)

    WANG Chao; DONG Dong; WANG Guangce; ZHANG Baoyu; PENG Guang; XU Pu; TANG Xiaorong

    2009-01-01

    An improved method of PCR in which the small segment of conchocelis is amplified directly without DNA extraction was used to amplify a RUBISCO intergenic spacer DNA fragment from nine species of red algal genus Porphyra (Bangiales, Rhodophyta), including Porphyra yezoensis (Jiangsu, China), P. haitanensis (Fujian, China), P. oligospermatangia (Qingdao, China), P. katadai (Qingdao, China), P. tenera (Qingdao, China), P. suborboculata (Fujian, China), P. pseudolinearis (Kogendo, Korea), P. linearis (Devon, England), and P. fallax (Seattle, USA). Standard PCR and the method developed here were both conducted using primers specific for the RUBISCO spacer region, after which the two PCR products were sequenced. The sequencing data of the amplicons obtained using both methods were identical, suggesting that the improved PCR method was functional. These findings indicate that the method developed here may be useful for the rapid identification of species of Porphyra in a germplasm bank. In addition, a phylogenetic tree was constructed using the RUBISCO spacer and partial rbcS sequence, and the results were in concordant with possible alternative phylogenies based on traditional morphological taxonomic characteristics, indicating that the RUBISCO spacer is a useful region for phylogenetic studies.

  17. Correlation of maple sap composition with bacterial and fungal communities determined by multiplex automated ribosomal intergenic spacer analysis (MARISA).

    Science.gov (United States)

    Filteau, Marie; Lagacé, Luc; LaPointe, Gisèle; Roy, Denis

    2011-08-01

    During collection, maple sap is contaminated by bacteria and fungi that subsequently colonize the tubing system. The bacterial microbiota has been more characterized than the fungal microbiota, but the impact of both components on maple sap quality remains unclear. This study focused on identifying bacterial and fungal members of maple sap and correlating microbiota composition with maple sap properties. A multiplex automated ribosomal intergenic spacer analysis (MARISA) method was developed to presumptively identify bacterial and fungal members of maple sap samples collected from 19 production sites during the tapping period. Results indicate that the fungal community of maple sap is mainly composed of yeast related to Mrakia sp., Mrakiella sp., Guehomyces pullulans, Cryptococcus victoriae and Williopsis saturnus. Mrakia, Mrakiella and Guehomyces peaks were identified in samples of all production sites and can be considered dominant and stable members of the fungal microbiota of maple sap. A multivariate analysis based on MARISA profiles and maple sap chemical composition data showed correlations between Candida sake, Janthinobacterium lividum, Williopsis sp., Leuconostoc mesenteroides, Mrakia sp., Rhodococcus sp., Pseudomonas tolaasii, G. pullulans and maple sap composition at different flow periods. This study provides new insights on the relationship between microbial community and maple sap quality.

  18. Molecular typing among beef isolates of Escherichia coli using consensus repetitive intergenic enterobacteria-polymerase chain reaction (ERIC-PCR)

    Science.gov (United States)

    Zoolkifli, Nurliyana Wan; Mutalib, Sahilah Abd

    2013-11-01

    Genomic DNA of Escherichia coli were characterized by enterobacterial repetitive intergenic consensus-Polymerase chain reaction (ERIC-PCR) and the presence of Shiga toxin gene-I (Stx1) and Shiga toxin gene-2 (Stx2). These isolates were originated from imported raw beef which are come from two countries namely Australia and India. The isolation of E. coli was conducted by using Eosin Methylene Blue Agar (EMBA). A total of 94 strains had been isolated from 30 samples of imported raw beefand 42 strains had been detected positively E. coli by doing biochemical tests. All strains had been tested and the results of biochemical tests showed that 3 strains were from Australia samples while the other 39 strains were from India samples. The biochemical tests used are Indole test, Methyl Red test, Voges-Proskauer test and Citrate test. All the 42 strains were examined for Shiga toxin (stx1 and stx2) gene detection by two pair primers which are stx2F (5'-TTCTTCGGTATCCTATTCCC-3'), stx2R (5'-ATGCATCTCTGGTCATTGTA-3'), stx1F (5'-CAGTTAATGTGGTGGCGAAG-3'), and stx1R (5'-CTGTCACAGTAACAACCGT-3'). The results showed that none of the strains are positive for Shiga toxin gene. Application of ERIC-PCR method towards E. coli had successfully shown the high diversity polymorphism in 21 different genome types of DNA with primers ERIC1R (5'- CACTTAGGGGTCCTCGAATGTA- 3') and ERIC2R (5'- AAGTAAGTGACTGGGGTGACGC- 3').

  19. Characterization of mitochondrial control region, two intergenic spacers and tRNAs of Zaprionus indianus (Diptera: Drosophilidae).

    Science.gov (United States)

    da Silva, Norma Machado; de Souza Dias, Aline; da Silva Valente, Vera Lúcia; Valiati, Victor Hugo

    2009-12-01

    The control region in insects is the major noncoding region in animal mitochondrial DNA (mtDNA), and is responsible for a large part of the variation in the DNA sequence and size of the genome of this organelle. In this study, the mtDNA control region, two intergenic spacers and tRNA genes of a Zaprionus indianus strain were cloned, sequenced and compared with other Drosophila species. The overall A+T content in the Z. indianus control region is 94.3%, and a comparison with other Drosophila species demonstrated that the most conserved region appears to be the 420 base pairs nearest to the tRNA(ile), similar to the findings of other authors. We also describe conserved sequence blocks, including a poly-T involved in the replication process of Drosophila mtDNA; a putative secondary structure also involved in the replication process and repeated sequences. tRNA(ile) sequence demonstrated the greatest variability when the tRNA sequences of species were compared.

  20. 116S-23S rRNA Gene Intergenic Spacer Region Variability Helps Resolve Closely Related Sphingomonads

    Directory of Open Access Journals (Sweden)

    Sima eTokajian

    2016-02-01

    Full Text Available Sphingomonads comprise a physiologically versatile group many of which appear to be adapted to oligotrophic environments, but several also had features in their genomes indicative of host associations. In this study, the extent variability of the 16S-23S rDNA intergenic spacer (ITS sequences of 14 ATCC reference sphingomonad strains and 23 isolates recovered from drinking water was investigated through PCR amplification and sequencing. Sequencing analysis of the 16S-23S rRNA gene ITS region revealed that the ITS sizes for all studied isolates varied between 415 to 849 bp, while their G+C content was 42.2 mol% to 57.9 mol%. Five distinct ITS types were identified: ITSnone (without tRNA genes, ITSAla(TGC, ITSAla (TGC+Ile (GAT, ITSIle (GAT+Ala (TGC and ITS Ile (GAT+Pseudo. All of the identified tRNAAla (TGC molecules consisted of 73 bases, and all of the tRNAIle (GAT molecules consisted of 74 bases. We also detected striking variability in the size of the ITS region among the various examined isolates. Highest variability was detected within the ITS-2.

  1. The mitochondrial genome of the leaf-cutter ant Atta laevigata: a mitogenome with a large number of intergenic spacers.

    Directory of Open Access Journals (Sweden)

    Cynara de Melo Rodovalho

    Full Text Available In this paper we describe the nearly complete mitochondrial genome of the leaf-cutter ant Atta laevigata, assembled using transcriptomic libraries from Sanger and Illumina next generation sequencing (NGS, and PCR products. This mitogenome was found to be very large (18,729 bp, given the presence of 30 non-coding intergenic spacers (IGS spanning 3,808 bp. A portion of the putative control region remained unsequenced. The gene content and organization correspond to that inferred for the ancestral pancrustacea, except for two tRNA gene rearrangements that have been described previously in other ants. The IGS were highly variable in length and dispersed through the mitogenome. This pattern was also found for the other hymenopterans in particular for the monophyletic Apocrita. These spacers with unknown function may be valuable for characterizing genome evolution and distinguishing closely related species and individuals. NGS provided better coverage than Sanger sequencing, especially for tRNA and ribosomal subunit genes, thus facilitating efforts to fill in sequence gaps. The results obtained showed that data from transcriptomic libraries contain valuable information for assembling mitogenomes. The present data also provide a source of molecular markers that will be very important for improving our understanding of genomic evolutionary processes and phylogenetic relationships among hymenopterans.

  2. Effectiveness of enterobacterial repetitive intergenic consensus PCR and random amplified polymorphic DNA fingerprinting for Helicobacter pylori strain differentiation.

    Science.gov (United States)

    Finger, S Alison; Velapatiño, Billie; Kosek, Margaret; Santivañez, Livia; Dailidiene, Daiva; Quino, Willi; Balqui, Jacqueline; Herrera, Phabiola; Berg, Douglas E; Gilman, Robert H

    2006-07-01

    We compared the robustness and discriminatory power of the enterobacterial repetitive intergenic consensus (ERIC) and random amplified polymorphic DNA (RAPD) fingerprinting methods for detecting cases of mixed Helicobacter pylori infection in Peruvian shantytown residents. H. pylori isolates from 63 participants were cultured, and five single colonies and a pool of additional colonies from each participant were analyzed by ERIC-PCR and by RAPD tests with four 10-nucleotide primers (one primer per reaction). There was 94% agreement between the ERIC and RAPD profiles in classifying sets of isolates as uniform versus closely related but not identical versus probably unrelated, indicating a high kappa statistic of 0.8942. Subtle differences in related ERIC or RAPD patterns likely reflect gene transfer between strains, recombination, and/or mutation, whereas markedly different patterns reflect infection by unrelated strains. At least half of infected shantytown residents seemed to carry more than one H. pylori strain, although in 19 of 31 persons, the strains were closely related. Three RAPD tests, each with a different primer, were needed to achieve the sensitivity of one ERIC test. ERIC-PCR constitutes a resource- and time-efficient method for H. pylori strain differentiation.

  3. An attenuated Machupo virus with a disrupted L-segment intergenic region protects guinea pigs against lethal Guanarito virus infection.

    Science.gov (United States)

    Golden, Joseph W; Beitzel, Brett; Ladner, Jason T; Mucker, Eric M; Kwilas, Steven A; Palacios, Gustavo; Hooper, Jay W

    2017-07-05

    Machupo virus (MACV) is a New World (NW) arenavirus and causative agent of Bolivian hemorrhagic fever (HF). Here, we identified a variant of MACV strain Carvallo termed Car(91) that was attenuated in guinea pigs. Infection of guinea pigs with an earlier passage of Carvallo, termed Car(68), resulted in a lethal disease with a 63% mortality rate. Sequencing analysis revealed that compared to Car(68), Car(91) had a 35 nucleotide (nt) deletion and a point mutation within the L-segment intergenic region (IGR), and three silent changes in the polymerase gene that did not impact amino acid coding. No changes were found on the S-segment. Because it was apathogenic, we determined if Car(91) could protect guinea pigs against Guanarito virus (GTOV), a distantly related NW arenavirus. While naïve animals succumbed to GTOV infection, 88% of the Car(91)-exposed guinea pigs were protected. These findings indicate that attenuated MACV vaccines can provide heterologous protection against NW arenaviruses. The disruption in the L-segment IGR, including a single point mutant and 35 nt partial deletion, were the only major variance detected between virulent and avirulent isolates, implicating its role in attenuation. Overall, our data support the development of live-attenuated arenaviruses as broadly protective pan-arenavirus vaccines.

  4. Peripheral facial weakness (Bell's palsy).

    Science.gov (United States)

    Basić-Kes, Vanja; Dobrota, Vesna Dermanović; Cesarik, Marijan; Matovina, Lucija Zadro; Madzar, Zrinko; Zavoreo, Iris; Demarin, Vida

    2013-06-01

    Peripheral facial weakness is a facial nerve damage that results in muscle weakness on one side of the face. It may be idiopathic (Bell's palsy) or may have a detectable cause. Almost 80% of peripheral facial weakness cases are primary and the rest of them are secondary. The most frequent causes of secondary peripheral facial weakness are systemic viral infections, trauma, surgery, diabetes, local infections, tumor, immune disorders, drugs, degenerative diseases of the central nervous system, etc. The diagnosis relies upon the presence of typical signs and symptoms, blood chemistry tests, cerebrospinal fluid investigations, nerve conduction studies and neuroimaging methods (cerebral MRI, x-ray of the skull and mastoid). Treatment of secondary peripheral facial weakness is based on therapy for the underlying disorder, unlike the treatment of Bell's palsy that is controversial due to the lack of large, randomized, controlled, prospective studies. There are some indications that steroids or antiviral agents are beneficial but there are also studies that show no beneficial effect. Additional treatments include eye protection, physiotherapy, acupuncture, botulinum toxin, or surgery. Bell's palsy has a benign prognosis with complete recovery in about 80% of patients, 15% experience some mode of permanent nerve damage and severe consequences remain in 5% of patients.

  5. Warping the Weak Gravity Conjecture

    Directory of Open Access Journals (Sweden)

    Karta Kooner

    2016-08-01

    Full Text Available The Weak Gravity Conjecture, if valid, rules out simple models of Natural Inflation by restricting their axion decay constant to be sub-Planckian. We revisit stringy attempts to realise Natural Inflation, with a single open string axionic inflaton from a probe D-brane in a warped throat. We show that warped geometries can allow the requisite super-Planckian axion decay constant to be achieved, within the supergravity approximation and consistently with the Weak Gravity Conjecture. Preliminary estimates of the brane backreaction suggest that the probe approximation may be under control. However, there is a tension between large axion decay constant and high string scale, where the requisite high string scale is difficult to achieve in all attempts to realise large field inflation using perturbative string theory. We comment on the Generalized Weak Gravity Conjecture in the light of our results.

  6. Interpolation for weak Orlicz spaces with condition

    Institute of Scientific and Technical Information of China (English)

    JIAO Yong; PENG LiHua; LIU PeiDe

    2008-01-01

    An interpolation theorem for weak Orlicz spaces generalized by N-functions satisfying M△ condition is given.It is proved to be true for weak Orlicz martingale spaces by weak atomic decomposition of weak Hardy martingale spaces.And applying the interpolation theorem,we obtain some embedding relationships among weak Orlicz martingale spaces.

  7. Electromagnetism in nonleptonic weak interactions

    Energy Technology Data Exchange (ETDEWEB)

    Ecker, G. E-mail: ecker@doppler.thp.univie.ac.at; Isidori, G.; Mueller, G.; Neufeld, H.; Pich, A

    2000-12-18

    We construct a low-energy effective field theory that permits the complete treatment of isospin-breaking effects in nonleptonic weak interactions to next-to-leading order. To this end, we enlarge the chiral Lagrangian describing strong and {delta}S=1 weak interactions by including electromagnetic terms with the photon as additional dynamical degree of freedom. The complete and minimal list of local terms at next-to-leading order is given. We perform the one-loop renormalization at the level of the generating functional and specialize to K{yields}{pi}{pi} decays.

  8. Cosmology and the weak interaction

    Energy Technology Data Exchange (ETDEWEB)

    Schramm, D.N. (Fermi National Accelerator Lab., Batavia, IL (USA)):(Chicago Univ., IL (USA))

    1989-12-01

    The weak interaction plays a critical role in modern Big Bang cosmology. This review will emphasize two of its most publicized cosmological connections: Big Bang nucleosynthesis and Dark Matter. The first of these is connected to the cosmological prediction of Neutrino Flavours, N{sub {nu}} {approximately} 3 which is now being confirmed at SLC and LEP. The second is interrelated to the whole problem of galaxy and structure formation in the universe. This review will demonstrate the role of the weak interaction both for dark matter candidates and for the problem of generating seeds to form structure. 87 refs., 3 figs., 5 tabs.

  9. Weak disorder in Fibonacci sequences

    Energy Technology Data Exchange (ETDEWEB)

    Ben-Naim, E [Theoretical Division and Center for Nonlinear Studies, Los Alamos National Laboratory, Los Alamos, NM 87545 (United States); Krapivsky, P L [Department of Physics and Center for Molecular Cybernetics, Boston University, Boston, MA 02215 (United States)

    2006-05-19

    We study how weak disorder affects the growth of the Fibonacci series. We introduce a family of stochastic sequences that grow by the normal Fibonacci recursion with probability 1 - {epsilon}, but follow a different recursion rule with a small probability {epsilon}. We focus on the weak disorder limit and obtain the Lyapunov exponent that characterizes the typical growth of the sequence elements, using perturbation theory. The limiting distribution for the ratio of consecutive sequence elements is obtained as well. A number of variations to the basic Fibonacci recursion including shift, doubling and copying are considered. (letter to the editor)

  10. Identification of Carnobacterium Species by Restriction Fragment Length Polymorphism of the 16S-23S rRNA Gene Intergenic Spacer Region and Species-Specific PCR

    OpenAIRE

    Rachman, Cinta; Kabadjova, Petia; Valcheva, Rosica; Prévost, Hervé; Dousset, Xavier

    2004-01-01

    The genus Carnobacterium is currently divided into the following eight species: Carnobacterium piscicola, C. divergens, C. gallinarum, C. mobile, C. funditum, C. alterfunditum, C. inhibens, and C. viridans. An identification tool for the rapid differentiation of these eight Carnobacterium species was developed, based on the 16S-23S ribosomal DNA (rDNA) intergenic spacer region (ISR). PCR-restriction fragment length polymorphism (PCR-RFLP) analysis of this 16S-23S rDNA ISR was performed in ord...

  11. Evidence of uneven selective pressure on different subsets of the conserved human genome; implications for the significance of intronic and intergenic DNA

    Directory of Open Access Journals (Sweden)

    MacKenzie Alasdair

    2009-12-01

    Full Text Available Abstract Background Human genetic variation produces the wide range of phenotypic differences that make us individual. However, little is known about the distribution of variation in the most conserved functional regions of the human genome. We examined whether different subsets of the conserved human genome have been subjected to similar levels of selective constraint within the human population. We used set theory and high performance computing to carry out an analysis of the density of Single Nucleotide Polymorphisms (SNPs within the evolutionary conserved human genome, at three different selective stringencies, intersected with exonic, intronic and intergenic coordinates. Results We demonstrate that SNP density across the genome is significantly reduced in conserved human sequences. Unexpectedly, we further demonstrate that, despite being conserved to the same degree, SNP density differs significantly between conserved subsets. Thus, both the conserved exonic and intronic genomes contain a significantly reduced density of SNPs compared to the conserved intergenic component. Furthermore the intronic and exonic subsets contain almost identical densities of SNPs indicating that they have been constrained to the same degree. Conclusion Our findings suggest the presence of a selective linkage between the exonic and intronic subsets and ascribes increased significance to the role of introns in human health. In addition, the identification of increased plasticity within the conserved intergenic subset suggests an important role for this subset in the adaptation and diversification of the human population.

  12. Inferring a role for methylation of intergenic DNA in the regulation of genes aberrantly expressed in precursor B-cell acute lymphoblastic leukemia.

    Science.gov (United States)

    Almamun, Md; Kholod, Olha; Stuckel, Alexei J; Levinson, Benjamin T; Johnson, Nathan T; Arthur, Gerald L; Davis, J Wade; Taylor, Kristen H

    2017-01-17

    A complete understanding of the mechanisms involved in the development of pre-B ALL is lacking. In this study, we integrated DNA methylation data and gene expression data to elucidate the impact of aberrant intergenic DNA methylation on gene expression in pre-B ALL. We found a subset of differentially methylated intergenic loci that were associated with altered gene expression in pre-B ALL patients. Notably, 84% of these regions were also bound by transcription factors (TF) known to play roles in differentiation and B-cell development in a lymphoblastoid cell line. Further, an overall downregulation of eRNA transcripts was observed in pre-B ALL patients and these transcripts were associated with the downregulation of putative target genes involved in B-cell migration, proliferation, and apoptosis. The identification of novel putative regulatory regions highlights the significance of intergenic DNA sequences and may contribute to the identification of new therapeutic targets for the treatment of pre-B ALL.

  13. The cohomology group of weak entwining structure

    Institute of Scientific and Technical Information of China (English)

    2007-01-01

    In this paper, we reveal that a weak entwining structure admits a rich cohomology theory. As an application we compute the cohomology of a weak entwining structure associated to a weak coalgebra-Galois extension.

  14. Second threshold in weak interactions

    NARCIS (Netherlands)

    Veltman, M.J.G.

    1977-01-01

    The point of view that weak interactions must have a second threshold below 300 – 600 GeV is developed. Above this threshold new physics must come in. This new physics may be the Higgs system, or some other nonperturbative system possibly having some similarities to the Higgs system. The limit of la

  15. Beam splitting on weak illumination.

    Science.gov (United States)

    Snyder, A W; Buryak, A V; Mitchell, D J

    1998-01-01

    We demonstrate, in both two and three dimensions, how a self-guided beam in a non-Kerr medium is split into two beams on weak illumination. We also provide an elegant physical explanation that predicts the universal character of the observed phenomenon. Possible applications of our findings to guiding light with light are also discussed.

  16. Weak measurements and supraluminal communication

    CERN Document Server

    Belinsky, A V

    2016-01-01

    There is suggested a version of the experiment with a correlated pair of particles in the entangled state. The experiment demonstrates that, in the case of weak and/or non-demolition measurements of one of the particles, it is possible to transmit information with a speed not limited by velocity of light.

  17. On Weak-BCC-Algebras

    Science.gov (United States)

    Thomys, Janus; Zhang, Xiaohong

    2013-01-01

    We describe weak-BCC-algebras (also called BZ-algebras) in which the condition (x∗y)∗z = (x∗z)∗y is satisfied only in the case when elements x, y belong to the same branch. We also characterize ideals, nilradicals, and nilpotent elements of such algebras. PMID:24311983

  18. Eldercare at Home: Bone Weakness

    Science.gov (United States)

    ... socialize. This can make exercising fun. If you don't exercise, your bones and muscles will become weak and your chances of falling will increase. Let’s exercise together. I will pick you up and we will go to the mall and walk for a little ...

  19. Submanifolds Weakly Associated with Graphs

    Indian Academy of Sciences (India)

    A Carriazo; L M Fernández; A Rodríguez-Hidalgo

    2009-06-01

    We establish an interesting link between differential geometry and graph theory by defining submanifolds weakly associated with graphs. We prove that, in a local sense, every submanifold satisfies such an association, and other general results. Finally, we study submanifolds associated with graphs either in low dimensions or belonging to some special families.

  20. On the weak project construction cost management

    Institute of Scientific and Technical Information of China (English)

    高守刚; 姜婧; 李玲

    2013-01-01

    the weak cost management is the most talked about topics in the weak industry, but also the basis of the weak construction business management and focus. With the increasingly fierce market competition, weak construction enterprises, the competition among enterprises wil gradual y transition from product quality competition to price competition. To strengthen the management of the weak construction enterprises cost, cut public spending ef iciency, improve market competitiveness, wil be the main way most weak construction corporate earnings and long-term business strategy. Based on the to weak project construction cost management based on analysis of the type of project construction costs, and further proposed the weak project construction cost management measures.

  1. Increased expression of long intergenic non-coding RNA LINC00152 in gastric cancer and its clinical significance.

    Science.gov (United States)

    Pang, Qianqian; Ge, Jiaxin; Shao, Yongfu; Sun, Weiliang; Song, Haojun; Xia, Tian; Xiao, Bingxiu; Guo, Junming

    2014-06-01

    It has been known that differential expression of long non-coding RNA (lncRNA) plays critical roles in carcinogenesis. However, the significance of lncRNA, especially long intergenic ncRNA (lincRNA, the main type of lncRNA family), in the diagnosis of gastric cancer is largely unknown. The aim of this study was to determine the expression level of LINC00152, a newfound lincRNA, in gastric carcinoma and its clinical association. The expression of LINC00152 in 71 pairs of tumorous and adjacent normal tissues from patients with gastric cancer was detected by quantitative real-time reverse transcription-polymerase chain reaction. And then, the potential associations between its level in gastric cancer tissue and the clinicopathological features were analyzed. Finally, a receiver operating characteristic (ROC) curve was constructed for differentiating patients with gastric cancer from patients with benign gastric diseases. The results showed that the expression level of LINC00152 in gastric carcinoma was significantly increased, compared with matched normal tissue (P=0.045) and normal mucosa from health control (P=0.004), respectively. Levels of LINC00152 in gastric cancer cell lines, BGC-823, MGC-803, and SGC-7901, were significantly higher than those in human normal gastric epithelial cell line GES-1. In addition, high expression of LINC00152 was correlated with invasion (P=0.042). LINC00152 levels in gastric juice from patients with gastric cancer were further found significantly higher than those from normal controls (P=0.002). Moreover, the area under the ROC curve (AUC) was up to 0.645 (95 % CI=0.559-0.740, P=0.003). This study highlights that lincRNA LINC00152 might be a novel biomarker for predicting gastric cancer.

  2. Influence of commonly used primer systems on automated ribosomal intergenic spacer analysis of bacterial communities in environmental samples.

    Directory of Open Access Journals (Sweden)

    Witoon Purahong

    Full Text Available Due to the high diversity of bacteria in many ecosystems, their slow generation times, specific but mostly unknown nutrient requirements and syntrophic interactions, isolation based approaches in microbial ecology mostly fail to describe microbial community structure. Thus, cultivation independent techniques, which rely on directly extracted nucleic acids from the environment, are a well-used alternative. For example, bacterial automated ribosomal intergenic spacer analysis (B-ARISA is one of the widely used methods for fingerprinting bacterial communities after PCR-based amplification of selected regions of the operon coding for rRNA genes using community DNA. However, B-ARISA alone does not provide any taxonomic information and the results may be severely biased in relation to the primer set selection. Furthermore, amplified DNA stemming from mitochondrial or chloroplast templates might strongly bias the obtained fingerprints. In this study, we determined the applicability of three different B-ARISA primer sets to the study of bacterial communities. The results from in silico analysis harnessing publicly available sequence databases showed that all three primer sets tested are specific to bacteria but only two primers sets assure high bacterial taxa coverage (1406f/23Sr and ITSF/ITSReub. Considering the study of bacteria in a plant interface, the primer set ITSF/ITSReub was found to amplify (in silico sequences of some important crop species such as Sorghum bicolor and Zea mays. Bacterial genera and plant species potentially amplified by different primer sets are given. These data were confirmed when DNA extracted from soil and plant samples were analyzed. The presented information could be useful when interpreting existing B-ARISA results and planning B-ARISA experiments, especially when plant DNA can be expected.

  3. Detection of Clostridium tyrobutyricum in milk to prevent late blowing in cheese by automated ribosomal intergenic spacer analysis.

    Science.gov (United States)

    Panelli, Simona; Brambati, Eva; Bonacina, Cesare; Feligini, Maria

    2013-10-01

    Clostridium tyrobutyricum has been identified as the main causal agent of the late blowing defect in cheese, with major effects on quality and commercial value. In this work, for the first time, we applied automated ribosomal intergenic spacer analysis (ARISA) approach to diagnose the presence of C. tyrobutyricum in raw milk before cheesemaking. A species-specific primer set was designed and used for this original application of the ARISA. Sensitivity of detection, reproducibility of the fluorescent PCR assay, and repeatability of the capillary electrophoretic analysis of amplicons were evaluated using DNA extracted from milk added with known amounts of C. tyrobutyricum genome copies, ranging from 3 × 10(6) to 3. Results indicated that the sensitivity of the technique permits to detect the bacterium in all the samples. The reproducibility, evaluated by analyzing 3 sets of serial dilutions, resulted satisfactory, with little deviation within PCR reactions amplifying the same starting amount of template (standard deviations ≤ 0.1, coefficients of variation ≤ 3%). The peaks' fluorescence displayed an evident correspondence with the number of genome copies contained in each dilution. The capillary electrophoretic analysis, tested by running a single PCR product per dilution point in 10 repeats, resulted efficient and highly repeatable, with excellent coefficients of variation ≤ 2% and standard deviations ≤ 0.1 in all the sample sets. This application of ARISA gives good estimates of the total C. tyrobutyricum DNA content allowing a specific, fine-scale resolution of this pollutant species in a complex system as milk. A further advantage linked to the automatization of the process.

  4. Heterogeneity within the gram-positive anaerobic cocci demonstrated by analysis of 16S-23S intergenic ribosomal RNA polymorphisms.

    Science.gov (United States)

    Hill, K E; Davies, C E; Wilson, M J; Stephens, P; Lewis, M A O; Hall, V; Brazier, J; Thomas, D W

    2002-11-01

    Peptostreptococci are gram-positive, strictly anaerobic bacteria which, although regarded as members of the commensal human microflora, are also frequently isolated from sites of clinical infection. The study of this diverse group of opportunist pathogens has been hindered by an inadequate taxonomy and the lack of a valid identification scheme. Recent re-classification of the Peptostreptococcus family into five distinct genus groups has helped to clarify the situation. However, this has been on the basis of 16S rRNA sequence determinations, which are both time-consuming and expensive. The aim of the present study was to evaluate the use of PCR-amplified ribosomal DNA spacer polymorphisms for the rapid differentiation of the currently recognised taxa within the group of anaerobic gram-positive cocci. A collection comprising 19 reference strains with representatives of each of the 15 species, two close relatives and two of the well-characterised groups, together with 38 test strains was studied. All strains were identified to species group level by phenotypic means. Amplification of the 16S-23S intergenic spacer region (ISR) with universal primers produced distinct banding patterns for all the 19 reference strains and the patterns could be differentiated easily visually. However, of the 38 test strains, less than half could be speciated from ISR analysis alone. Only five groups produced correlating banding patterns for all members tested (Peptoniphilus lacrimalis, P. ivorii, Anaerococcus octavius, Peptostreptococcus anaerobius and Micromonas micros). For other species, either the type strain differed significantly from other species members (e.g., A. hydrogenalis) or there appeared to be considerable intra-species variation (e.g., A. vaginalis). Partial 16S rRNA gene sequences for the 'trisimilis' and 'betaGAL' groups showed that both are most closely related to the Anaerococcus group. This work highlights the heterogeneous nature of a number of Peptostreptococcus

  5. 16S-23S rRNA Gene Intergenic Spacer Region Variability Helps Resolve Closely Related Sphingomonads.

    Science.gov (United States)

    Tokajian, Sima; Issa, Nahla; Salloum, Tamara; Ibrahim, Joe; Farah, Maya

    2016-01-01

    Sphingomonads comprise a physiologically versatile group many of which appear to be adapted to oligotrophic environments, but several also had features in their genomes indicative of host associations. In this study, the extent variability of the 16S-23S rDNA intergenic spacer (ITS) sequences of 14 ATCC reference sphingomonad strains and 23 isolates recovered from drinking water was investigated through PCR amplification and sequencing. Sequencing analysis of the 16S-23S rRNA gene ITS region revealed that the ITS sizes for all studied isolates varied between 415 and 849 bp, while their G+C content was 42.2-57.9 mol%. Five distinct ITS types were identified: ITS(none) (without tRNA genes), ITS(Ala(TGC)), ITS(Ala(TGC)+Ile(GAT)), ITS(Ile(GAT)+Ala(TGC)), and ITS (Ile(GAT)+Pseudo). All of the identified tRNA(Ala(TGC)) molecules consisted of 73 bases, and all of the tRNA(Ile(GAT)) molecules consisted of 74 bases. We also detected striking variability in the size of the ITS region among the various examined isolates. Highest variability was detected within the ITS-2. The importance of this study is that this is the first comparison of the 16S-23S rDNA ITS sequence similarities and tRNA genes from sphingomonads. Collectively the data obtained in this study revealed the heterogeneity and extent of variability within the ITS region compared to the 16S rRNA gene within closely related isolates. Sequence and length polymorphisms within the ITS region along with the ITS types (tRNA-containing or lacking and the type of tRNA) and ITS-2 size and sequence similarities allowed us to overcome the limitation we previously encountered in resolving closely related isolates based on the 16S rRNA gene sequence.

  6. Identification of Aedes aegypti Long Intergenic Non-coding RNAs and Their Association with Wolbachia and Dengue Virus Infection.

    Directory of Open Access Journals (Sweden)

    Kayvan Etebari

    2016-10-01

    Full Text Available Long intergenic non-coding RNAs (lincRNAs are appearing as an important class of regulatory RNAs with a variety of biological functions. The aim of this study was to identify the lincRNA profile in the dengue vector Aedes aegypti and evaluate their potential role in host-pathogen interaction. The majority of previous RNA-Seq transcriptome studies in Ae. aegypti have focused on the expression pattern of annotated protein coding genes under different biological conditions. Here, we used 35 publically available RNA-Seq datasets with relatively high depth to screen the Ae. aegypti genome for lincRNA discovery. This led to the identification of 3,482 putative lincRNAs. These lincRNA genes displayed a slightly lower GC content and shorter transcript lengths compared to protein-encoding genes. Ae. aegypti lincRNAs also demonstrate low evolutionary sequence conservation even among closely related species such as Culex quinquefasciatus and Anopheles gambiae. We examined their expression in dengue virus serotype 2 (DENV-2 and Wolbachia infected and non-infected adult mosquitoes and Aa20 cells. The results revealed that DENV-2 infection increased the abundance of a number of host lincRNAs, from which some suppress viral replication in mosquito cells. RNAi-mediated silencing of lincRNA_1317 led to enhancement in viral replication, which possibly indicates its potential involvement in the host anti-viral defense. A number of lincRNAs were also differentially expressed in Wolbachia-infected mosquitoes. The results will facilitate future studies to unravel the function of lncRNAs in insects and may prove to be beneficial in developing new ways to control vectors or inhibit replication of viruses in them.

  7. Ribosomal RNA gene silencing in interpopulation hybrids of Tigriopus californicus: nucleolar dominance in the absence of intergenic spacer subrepeats.

    Science.gov (United States)

    Flowers, Jonathan M; Burton, Ronald S

    2006-07-01

    A common feature of interspecific animal and plant hybrids is the uniparental silencing of ribosomal RNA gene transcription, or nucleolar dominance. A leading explanation for the genetic basis of nucleolar dominance in animal hybrids is the enhancer-imbalance model. The model proposes that limiting transcription factors are titrated by a greater number of enhancer-bearing subrepeat elements in the intergenic spacer (IGS) of the dominant cluster of genes. The importance of subrepeats for nucleolar dominance has repeatedly been supported in competition assays between Xenopus laevis and X. borealis minigene constructs injected into oocytes. However, a more general test of the importance of IGS subrepeats for nuclear dominance in vivo has not been conducted. In this report, rRNA gene expression was examined in interpopulation hybrids of the marine copepod Tigriopus californicus. This species offers a rare opportunity to test the role of IGS subrepeats in nucleolar dominance because the internal subrepeat structure, found in the IGS of virtually all animal and plant species, is absent in T. californicus. Our results clearly establish that nucleolar dominance occurs in F1 and F2 interpopulation hybrids of this species. In the F2 generation, nucleolar dominance appears to break down in some hybrids in a fashion that is inconsistent with a transcription factor titration model. These results are significant because they indicate that nucleolar dominance can be established and maintained without enhancer-bearing repeat elements in the IGS. This challenges the generality of the enhancer-imbalance model for nucleolar dominance and suggests that dominance of rRNA transcription in animals may be determined by epigenetic factors as has been established in plants.

  8. Identification of Aedes aegypti Long Intergenic Non-coding RNAs and Their Association with Wolbachia and Dengue Virus Infection

    Science.gov (United States)

    Etebari, Kayvan; Asad, Sultan; Zhang, Guangmei; Asgari, Sassan

    2016-01-01

    Long intergenic non-coding RNAs (lincRNAs) are appearing as an important class of regulatory RNAs with a variety of biological functions. The aim of this study was to identify the lincRNA profile in the dengue vector Aedes aegypti and evaluate their potential role in host-pathogen interaction. The majority of previous RNA-Seq transcriptome studies in Ae. aegypti have focused on the expression pattern of annotated protein coding genes under different biological conditions. Here, we used 35 publically available RNA-Seq datasets with relatively high depth to screen the Ae. aegypti genome for lincRNA discovery. This led to the identification of 3,482 putative lincRNAs. These lincRNA genes displayed a slightly lower GC content and shorter transcript lengths compared to protein-encoding genes. Ae. aegypti lincRNAs also demonstrate low evolutionary sequence conservation even among closely related species such as Culex quinquefasciatus and Anopheles gambiae. We examined their expression in dengue virus serotype 2 (DENV-2) and Wolbachia infected and non-infected adult mosquitoes and Aa20 cells. The results revealed that DENV-2 infection increased the abundance of a number of host lincRNAs, from which some suppress viral replication in mosquito cells. RNAi-mediated silencing of lincRNA_1317 led to enhancement in viral replication, which possibly indicates its potential involvement in the host anti-viral defense. A number of lincRNAs were also differentially expressed in Wolbachia-infected mosquitoes. The results will facilitate future studies to unravel the function of lncRNAs in insects and may prove to be beneficial in developing new ways to control vectors or inhibit replication of viruses in them. PMID:27760142

  9. Tumor necrosis factor-like weak inducer of apoptosis promotes expression of matrix metalloproteinase 9 in rat cardiac fibroblasts via the nuclear factor-κB pathway%TWEAK通过NF-κB途径促进大鼠成纤维细胞表达基质金属蛋白酶9

    Institute of Scientific and Technical Information of China (English)

    王德金; 任满意; 陈慧娜; 王旭平; 隋树建

    2011-01-01

    目的 研究肿瘤坏死因子样凋亡微弱诱导剂(TWEAK)影响大鼠心肌成纤维细胞(CFs)增殖和胶原合成的作用机制.方法 采用胰酶消化法培养新生Wistar大鼠CFs,加入重组人TWEAK(rhTWEAK)和NF-κB抑制剂PDTC干预,qRT-PCR检测核转录因子NF-κB和金属蛋白酶9(MMP9)mRNA,Western blot检测NF-κB和MMP9蛋白表达,四甲基偶氮唑蓝(MTT)法测定细胞增殖.结果 rhTWEAK作用后NF-κB和MMP9 mRNA表达上调,同时蛋白表达明显增加,PDTC可抑制MMP9蛋白表达和细胞增殖.结论 TWEAK可通过NF-κB途径促进大鼠心肌成纤维细胞表达MMP9.%Objective To investigate the mechanism and effects of tumor necrosis factor-like weak inducer of apoptosis (TWEAK) on the proliferation and collagen synthesis in cultured rat cardiac fibroblasts (CFs). Methods Cultured CFs from neonatal Wistar rats were isolated by trypsinization and treated with recombinant human TWEAK (rhT-WEAK) and PDTC( NF-kB specific inhibitor). mRNA and protein expressions of NF-kB and MMP9 were detected by qRT-PCR and Western blot, respectively. CFs proliferation was examined by MTT. Results rhTWEAK significantly elevated mRNA and protein expressions of NF-kB and MMP9. PDTC could inhibit MMP9 protein expression and CFs proliferation induced by NF-kB's activation. Conclusion TWEAK can promote expressions of matrix metalloprotein-ase 9 in rat cardiac fibroblasts via the NF-kB pathway.

  10. The Weak Scale from BBN

    CERN Document Server

    Hall, Lawrence J; Ruderman, Joshua T

    2014-01-01

    The measured values of the weak scale, $v$, and the first generation masses, $m_{u,d,e}$, are simultaneously explained in the multiverse, with all these parameters scanning independently. At the same time, several remarkable coincidences are understood. Small variations in these parameters away from their measured values lead to the instability of hydrogen, the instability of heavy nuclei, and either a hydrogen or a helium dominated universe from Big Bang Nucleosynthesis. In the 4d parameter space of $(m_u,m_d,m_e,v)$, catastrophic boundaries are reached by separately increasing each parameter above its measured value by a factor of $(1.4,1.3,2.5,\\sim5)$, respectively. The fine-tuning problem of the weak scale in the Standard Model is solved: as $v$ is increased beyond the observed value, it is impossible to maintain a significant cosmological hydrogen abundance for any values of $m_{u,d,e}$ that yield both hydrogen and heavy nuclei stability. For very large values of $v$ a new regime is entered where weak in...

  11. Identification of the transcriptional promoters in the proximal regions of human microRNA genes.

    Science.gov (United States)

    Long, Yue-Sheng; Deng, Guang-Fei; Sun, Xun-Sha; Yi, Yong-Hong; Su, Tao; Zhao, Qi-Hua; Liao, Wei-Ping

    2011-08-01

    To identify the transcriptional promoters in the proximal regions of human microRNA (miRNA) genes, we analyzed the 5' flanking regions of intergenic miRNAs and intronic miRNAs. With the TSSG program prediction, we found that the ratio of intronic-s miRNA genes with a least one promoter was significantly lower than those of intergenic miRNA genes and intronic-a miRNA genes. More than half of the miRNA genes have only one promoter and less than 20% of the miRNA genes have more than three promoters in the 5-kb upstream regions. All potential promoters are randomly distributed within these regions. Approximately 60% of the miRNA promoters have a TATA-like box, being significantly higher than that of all human promoters. Luciferase reporter assays showed that 22 of the 30 promoters drove gene expression in HEK-293 cells, indicating a high accuracy of the promoter prediction. This study lays a foundation for future investigation into the transcriptional regulatory mechanisms of human miRNA genes.

  12. Genetic diversity, inter-gene pool introgression and nutritional quality of common beans (Phaseolus vulgaris L.) from Central Africa.

    Science.gov (United States)

    Blair, Matthew W; González, Laura F; Kimani, Paul M; Butare, Louis

    2010-07-01

    The Great Lakes region of Central Africa is a major producer of common beans in Africa. The region is known for high population density and small average farm size. The common bean represents the most important legume crop of the region, grown on over a third of the cultivated land area, and the per capita consumption is among the highest in the world for the food crop. The objective of this study was to evaluate the genetic diversity in a collection of 365 genotypes from the Great Lakes region of Central Africa, including a large group of landraces from Rwanda as well as varieties from primary centers of diversity and from neighboring countries of Central Africa, such as the Democratic Republic of Congo and Uganda, using 30 fluorescently labeled microsatellite markers and automated allele detection. In addition, the landraces were evaluated for their seed iron and zinc concentration to determine if genetic diversity influenced nutritional quality. Principal coordinate and neighbor-joining analyses allowed the separation of the landraces into 132 Andean and 195 Mesoamerican (or Middle American) genotypes with 32 landraces and 6 varieties intermediate between the gene pools and representing inter-gene pool introgression in terms of seed characteristics and alleles. Genetic diversity and the number of alleles were high for the collection, reflecting the preference for a wide range of seed types in the region and no strong commercial class preference, although red, red mottled and brown seeded beans were common. Observed heterozygosity was also high and may be explained by the common practice of maintaining seed and plant mixtures, a coping strategy practiced by Central African farmers to reduce the effects of abiotic and biotic stresses. Finally, nutritional quality differed between the gene pools with respect to seed iron and zinc concentration, while genotypes from the intermediate group were notably high in both minerals. In conclusion, this study has shown that

  13. Detailed characterization of the mouse embryonic stem cell transcriptome reveals novel genes and intergenic splicing associated with pluripotency

    Directory of Open Access Journals (Sweden)

    Stanton Lawrence W

    2008-04-01

    Full Text Available Abstract Background Transcriptional control of embryonic stem (ES cell pluripotency has been a subject of intense study. Transcriptional regulators including Oct4 (Oct3/4 index, Sox2 and Nanog are fundamental for maintaining the undifferentiated state. However, the ES cell transcriptome is not limited to their targets, and exhibits considerable complexity when assayed with microarray, MPSS, cDNA/EST sequencing, and SAGE technologies. To identify novel genes associated with pluripotency, we globally searched for ES transcripts not corresponding to known genes, validated their sequences, determined their expression profiles, and employed RNAi to test their function. Results Gene Identification Signature (GIS analysis, a SAGE derivative distinguished by paired 5' and 3' transcript end tags, identified 153 candidate novel transcriptional units (TUs distinct from known genes in a mouse E14 ES mRNA library. We focused on 16 TUs free of artefacts and mapping discrepancies, five of which were validated by RTPCR product sequencing. Two of the TUs were revealed by annotation to represent novel protein-coding genes: a PRY-domain cluster member and a KRAB-domain zinc finger. The other three TUs represented intergenic splicing events involving adjacent, functionally unrelated protein-coding genes transcribed in the same orientation, with one event potentially encoding a fusion protein containing domains from both component genes (Clk2 and Scamp3. Expression profiling using embryonic samples and adult tissue panels confirmed that three of the TUs were unique to or most highly expressed in ES cells. Expression levels of all five TUs dropped dramatically during three distinct chemically induced differentiation treatments of ES cells in culture. However, siRNA knockdowns of the TUs did not alter mRNA levels of pluripotency or differentiation markers, and did not affect cell morphology. Conclusion Transcriptome libraries retain considerable potential for novel

  14. Strengths, weaknesses, opportunities and threats

    DEFF Research Database (Denmark)

    Bull, J. W.; Jobstvogt, N.; Böhnke-Henrichs, A.;

    2016-01-01

    environmental awareness. Threats include resistance to change, and difficulty with interdisciplinary collaboration. Consideration of SWOT themes suggested five strategic areas for developing and implementing ES.The ES concept could improve decision-making related to natural resource use, and interpretation...... facilitate interdisciplinary research, ensuring decision-making that supports sustainable development........ Such an assessment could form the basis for improving ES thinking, further embedding it into environmental decisions and management.The Young Ecosystem Services Specialists (YESS) completed a Strengths-Weaknesses-Opportunities-Threats (SWOT) analysis of ES through YESS member surveys. Strengths include the approach...

  15. Weak Precedence Story Parsing Grammar

    Institute of Scientific and Technical Information of China (English)

    张松懋

    1995-01-01

    Story understanding is one of the important branches of natural language understanding research in AI techniques.The story understanding approach based on Story Parsing Grammar (SPG) involves that SPG is used to represent different abstracting processes of stories with different levels in story understanding and that the story understanding process is converted to the recognition process of stories using the syntactic parser of SPG.This kind of story understanding is called story parsing.In this paper,firstly a subclass of SPG,called Weak Precedence SPG(WPSPG),is defined.Afterwards the syntactic parsing algorithm of WPSPG is studied.An example of story parsing is also given.

  16. Weakly distributive domains(Ⅱ)

    Institute of Scientific and Technical Information of China (English)

    JIANG Ying; ZHANG Guo-Qiang

    2007-01-01

    In our previous work(Inform.and Comput.,2005,202:87-103),we have shown that for any ω-algebraic meet-cpo D,if all higher-order stable function spaces built from D are ω-algebraic,then D is finitary.This accomplishes the first of a possible,two-step process in solving the problem raised(LNCS,1991,530:16-33;Domainsand lambda-calculi,Cambridge Univ.Press,1998)whetherthe category of stable bifinite domains of Amadio-Droste-G(o)bel(LNCS,1991,530:16-33;Theor.Comput.Sci.,1993,111:89-101)is the largest cartesian closed full subcategory within the category of ω-algebraic meet-cpos with stable functions.This paper presents the results of the second step,which is to show that for any ω-algebraic meet-cpo D satisfying axioms M and I to be contained in a cartesian closed full sub-category using ω-algebraic meet-cpos with stable functions,it must not violate M I∞.We introduce a new class of domains called weakly distributive domains and show that for these domains to be in a cartesian closed category using ω-algebraic meet-cpos,property M I must not be violated.Further,we demonstrate that principally distributive domains(those for which each principle ideal is distributive)form a proper subclass of weakly distributive domains,and Birkhoff's M3 and N5(Introduction to Lattices and order,Cambridge Univ.Press,2002)are weakly distributive(but non-distributive).Then,we establish characterization results for weakly distributive domains.We also introduce the notion of meet-generators in constructing stable functions and show that if an ω-algebraic meet-cpo D contains an infinite number of meet-generators,then[D→D]fails I.However,the original problem of Amadio and Curien remains open.

  17. New approaches for genotyping of Helicobacter pylori based on amplification of polymorphisms in intergenic DNA regions and at the insertion site of the cag pathogenicity island.

    Science.gov (United States)

    Bereswill, S; Schönenberger, R; Thies, C; Stähler, F; Strobel, S; Pfefferle, P; Wille, L; Kist, M

    2000-11-01

    The population of the gastric pathogen Helicobacter pylori shows a high degree of genetic diversity. It is well established that heterogeneity at the isolate level is caused by nucleotide transitions within genes, differences in the gene order, and by genetic instability of single genes as well as of a large virulence-associated genomic DNA region, the cag pathogenicity island (PAI). Analysis of intergenic regions with specific PCR-assays developed in this study, revealed that DNA polymorphisms in the noncoding DNA localized in front of the genes ribA and vacA and at the insertion site of the cag PAI contribute to the genetic diversity of H. pylori and are useful for differentiation of individual isolates. Thirteen individual genotypes were identified by PCR analysis of these polymorphic loci in 487, 241, and 182 clinical H. pylori isolates. Sequence analysis revealed that genetic variability in front of genes ribA and vacA, and in the intergenic region at the PAI insertion site is caused by insertion and deletions of so-far-unknown DNA sequences as well as by parts of the H. pylori IS elements IS605 and IS606, respectively. The new genotypes identified could be used to differentiate antrum and corpus isolates from the same patients. Their combination with vacA allele subtypes and with the cagA status allowed to differentiate 140 isolates in 51 subtypes. In 36 cases the corresponding genotype patterns were isolate specific. In summary, the results confirm that DNA polymorphisms in intergenic regions contribute to the genetic diversity of H. pylori. Although individual H. pylori genotypes were not associated with peptic ulcer disease, the PCR-based approaches for their detection developed here should be of use for further investigation of genetic diversity in H. pylori and for epidemiological purposes.

  18. Phylogeny of Panax using chloroplast trnC-trnD intergenic region and the utility of trnC-trnD in interspecific studies of plants.

    Science.gov (United States)

    Lee, Chunghee; Wen, Jun

    2004-06-01

    Sequences of the chloroplast trnC-trnD region and the internal transcribed spacer (ITS) regions of nuclear ribosomal DNA were obtained for all species of Panax L. (the ginseng plant genus, Araliaceae) to reconstruct phylogenetic relationships. The trnC-trnD phylogeny is congruent with the ITS phylogeny for the diploid taxa of Panax. This study is the first use of the trnC-trnD sequence data for phylogenetic analysis at the interspecific level. We evaluated this DNA region for its phylogenetic utility at the lower taxonomic level for flowering plants. The trnC-trnD region includes the trnC-petN intergenic spacer, the petN gene, the petN-psbM intergenic spacer, the psbM gene, and the psbM-trnD intergenic spacer. The petN and psbM genes are small, 90 and 104-114 bp across angiosperms, respectively, and have conserved sequences. We have designed universal amplification and sequencing primers within these two genes. Using these primers, we have successfully amplified the entire trnC-trnD region for a diversity of flowering plant groups, including Aralia L. (Araliaceae), Calycanthus L. (Calycanthaceae), Corylus L. (Betulaceae), Hamamelis L. (Hamamelidaceae), Hydrocotyle L. (Apiaceae), Illigera Blume (Hernandiaceae), Nelumbo Adans. (Nelumbonaceae), Nolana L. ex L.f. (Solanaceae), Prunus L. (Rosaceae), and Staphylea L. (Staphyleaceae). In Panax, the trnC-trnD region provides a similar number of informative phylogenetic characters as the ITS regions and a slightly higher number of informative characters than the chloroplast ndhF gene. We thus demonstrate the utility of the trnC-trnD region for lower-level phylogenetic studies in flowering plants.

  19. Weakly circadian cells improve resynchrony.

    Directory of Open Access Journals (Sweden)

    Alexis B Webb

    Full Text Available The mammalian suprachiasmatic nuclei (SCN contain thousands of neurons capable of generating near 24-h rhythms. When isolated from their network, SCN neurons exhibit a range of oscillatory phenotypes: sustained or damping oscillations, or arrhythmic patterns. The implications of this variability are unknown. Experimentally, we found that cells within SCN explants recover from pharmacologically-induced desynchrony by re-establishing rhythmicity and synchrony in waves, independent of their intrinsic circadian period We therefore hypothesized that a cell's location within the network may also critically determine its resynchronization. To test this, we employed a deterministic, mechanistic model of circadian oscillators where we could independently control cell-intrinsic and network-connectivity parameters. We found that small changes in key parameters produced the full range of oscillatory phenotypes seen in biological cells, including similar distributions of period, amplitude and ability to cycle. The model also predicted that weaker oscillators could adjust their phase more readily than stronger oscillators. Using these model cells we explored potential biological consequences of their number and placement within the network. We found that the population synchronized to a higher degree when weak oscillators were at highly connected nodes within the network. A mathematically independent phase-amplitude model reproduced these findings. Thus, small differences in cell-intrinsic parameters contribute to large changes in the oscillatory ability of a cell, but the location of weak oscillators within the network also critically shapes the degree of synchronization for the population.

  20. Optimal Weak Lensing Skewness Measurements

    CERN Document Server

    Zhang, T J; Zhang, P; Dubinski, J; Zhang, Tong-Jie; Pen, Ue-Li; Zhang, Pengjie; Dubinski, John

    2003-01-01

    Weak lensing measurements are entering a precision era to statistically map the distribution of matter in the universe. The most common measurement has been of the variance of the projected surface density of matter, which corresponds to the induced correlation in alignments of background galaxies. This measurement of the fluctuations is insensitive to the total mass content, like using waves on the ocean to measure its depths. But when the depth is shallow as happens near a beach, waves become skewed. Similarly, a measurement of skewness in the projected matter distribution directly measures the total matter content of the universe. While skewness has already been convincingly detected, its constraint on cosmology is still weak. We address optimal analyses for the CFHT Legacy Survey in the presence of noise. We show that a compensated Gaussian filter with a width of 2.5 arc minutes optimizes the cosmological constraint, yielding $\\Delta \\Omega_m/\\Omega_m\\sim 10%$. This is significantly better than other filt...

  1. The weak scale from BBN

    Science.gov (United States)

    Hall, Lawrence J.; Pinner, David; Ruderman, Joshua T.

    2014-12-01

    The measured values of the weak scale, v, and the first generation masses, m u, d, e , are simultaneously explained in the multiverse, with all these parameters scanning independently. At the same time, several remarkable coincidences are understood. Small variations in these parameters away from their measured values lead to the instability of hydrogen, the instability of heavy nuclei, and either a hydrogen or a helium dominated universe from Big Bang Nucleosynthesis. In the 4d parameter space of ( m u , m d , m e , v), catastrophic boundaries are reached by separately increasing each parameter above its measured value by a factor of (1.4, 1.3, 2.5, ˜ 5), respectively. The fine-tuning problem of the weak scale in the Standard Model is solved: as v is increased beyond the observed value, it is impossible to maintain a significant cosmological hydrogen abundance for any values of m u, d, e that yield both hydrogen and heavy nuclei stability.

  2. Weak Quasielastic Production of Hyperons

    CERN Document Server

    Athar, M Sajjad; Alam, M Rafi; Chauhan, S; Singh, S K

    2016-01-01

    We present the results for antineutrino induced quasielastic hyperon production from nucleon and nuclear targets \\cite{Alam:2014bya,Singh:2006xp}. The inputs are the nucleon-hyperon(N--Y) transition form factors determined from the analysis of neutrino-nucleon scattering and semileptonic decays of neutron and hyperons using SU(3) symmetry. The calculations for the nuclear targets are done in local density approximation. The nuclear medium effects(NME) like Fermi motion, Pauli blocking and final state interaction(FSI) effects due to hyperon-nucleon scattering have been taken into account. The hyperons giving rise to pions through weak decays also contribute to the weak pion production in addition to the $\\Delta$ excitation mechanism which dominates in the energy region of $<$ 0.7 GeV. We also present the results of longitudinal and perpendicular components of polarization of final hyperon \\cite{Akbar:2016awk}. These measurements in the future accelerator experiments with antineutrinos may give some informat...

  3. Weak lensing and cosmological investigation

    CERN Document Server

    Acquaviva, V

    2005-01-01

    In the last few years the scientific community has been dealing with the challenging issue of identifying the dark energy component. We regard weak gravitational lensing as a brand new, and extremely important, tool for cosmological investigation in this field. In fact, the features imprinted on the cosmic microwave background radiation by the lensing from the intervening distribution of matter represent a pretty unbiased estimator, and can thus be used for putting constraints on different dark energy models. This is true in particular for the magnetic-type B-modes of CMB polarization, whose unlensed spectrum at large multipoles (l approximately=1000) is very small even in presence of an amount of gravitational waves as large as currently allowed by the experiments: therefore, on these scales the lensing phenomenon is the only responsible for the observed power, and this signal turns out to be a faithful tracer of the dark energy dynamics. We first recall the formal apparatus of the weak lensing in extended t...

  4. Political corruption and weak state

    Directory of Open Access Journals (Sweden)

    Stojiljković Zoran

    2013-01-01

    Full Text Available The author starts from the hypothesis that it is essential for the countries of the region to critically assess the synergy established between systemic, political corruption and a selectively weak, “devious” nature of the state. Moreover, the key dilemma is whether the expanded practice of political rent seeking supports the conclusion that the root of all corruption is in the very existence of the state - particularly in excessive, selective and deforming state interventions and benefits that create a fertile ground for corruption? The author argues that the destructive combination of weak government and rampant political corruption is based on scattered state intervention, while also rule the parties cartel in the executive branch subordinate to parliament, the judiciary and the police. Corrupt exchange takes place with the absence of strong institutional framework and the precise rules of the political and electoral games, control of public finances and effective political and anti-monopoly legislation and practice included. Exit from the current situation can be seen in the realization of effective anti­corruption strategy that integrates preventive and repressive measures and activities and lead to the establishment of principles of good governance. [Projekat Ministarstva nauke Republike Srbije, br. 179076: Politički identitet Srbije u regionalnom i globalnom kontekstu

  5. Time—periodic weak solutions

    Directory of Open Access Journals (Sweden)

    Eliana Henriques de Brito

    1990-01-01

    Full Text Available In continuing from previous papers, where we studied the existence and uniqueness of the global solution and its asymptotic behavior as time t goes to infinity, we now search for a time-periodic weak solution u(t for the equation whose weak formulation in a Hilbert space H isddt(u′,v+δ(u′,v+αb(u,v+βa(u,v+(G(u,v=(h,vwhere: ′=d/dt; (′ is the inner product in H; b(u,v, a(u,v are given forms on subspaces U⊂W, respectively, of H; δ>0, α≥0, β≥0 are constants and α+β>0; G is the Gateaux derivative of a convex functional J:V⊂H→[0,∞ for V=U, when α>0 and V=W when α=0, hence β>0; v is a test function in V; h is a given function of t with values in H.

  6. Detection of two Bartonella tamiae-like sequences in Amblyomma americanum (Acari: Ixodidae) using 16S-23S intergenic spacer region-specific primers.

    Science.gov (United States)

    Billeter, Sarah A; Miller, Melissa K; Breitschwerdt, Edward B; Levy, Michael G

    2008-01-01

    Four hundred and sixty-six questing Amblyomma americanum (L.) (Acari: Ixodidae) from Carolina County, VA, and 98 questing A. americanum from Chatham County, NC, were screened by polymerase chain reaction (PCR) for the Bartonella 16S-23S intergenic spacer region. Two amplicons, approximately 270-280 bp, were detected in two ticks from Virginia. Based upon PCR and sequencing, an adult male and adult female tick harbored DNA sequences closely related to Bartonella tamiae (DQ395180). Bartonella DNA was not detected in A. americanum from North Carolina. Potential transmission of Bartonella spp. by A. americanum should be the focus of future experimental studies.

  7. The intergenic region between the divergently transcribed niiA and niaD genes of Aspergillus nidulans contains multiple NirA binding sites which act bidirectionally.

    OpenAIRE

    1995-01-01

    The niaD and niiA genes of Aspergillus nidulans, which code, respectively, for nitrate and nitrite reductases, are divergently transcribed, and their ATGs are separated by 1,200 bp. The genes are under the control of the positively acting NirA transcription factor, which mediates nitrate induction. The DNA binding domain of NirA was expressed as a fusion protein with the glutathione S-transferase of Schistosoma japonicum. Gel shift and footprint experiments have shown that in the intergenic r...

  8. Casimir torque in weak coupling

    CERN Document Server

    Milton, Kimball A; Long, William

    2013-01-01

    In this paper, dedicated to Johan H{\\o}ye on the occasion of his 70th birthday, we examine manifestations of Casimir torque in the weak-coupling approximation, which allows exact calculations so that comparison with the universally applicable, but generally uncontrolled, proximity force approximation may be made. In particular, we examine Casimir energies between planar objects characterized by $\\delta$-function potentials, and consider the torque that arises when angles between the objects are changed. The results agree very well with the proximity force approximation when the separation distance between the objects is small compared with their sizes. In the opposite limit, where the size of one object is comparable to the separation distance, the shape dependence starts becoming irrelevant. These calculations are illustrative of what to expect for the torques between, for example, conducting planar objects, which eventually should be amenable to both improved theoretical calculation and experimental verific...

  9. New Weak Keys in RSA

    Institute of Scientific and Technical Information of China (English)

    WANG Baocang; LIU Shuanggen; HU Yupu

    2006-01-01

    The security of the RSA system with the prime pairs of some special form is investigated. A new special-purpose algorithm for factoring RSA numbers is proposed. The basic idea of the method is to factor RSA numbers by factoring a well-chosen quadratic polynomial with integral coefficients. When viewed as a general-purpose algorithm, the new algorithm has a high computational complexity. It is shown that the RSA number n=pq can be easily factored if p and q have the special form of p=as+b, q=cs+d, where a, b, c, d are relatively small numbers. Such prime pairs (p, q) are the weak keys of RSA, so when we generate RSA modulus, we should avoid using such prime pairs (p, q).

  10. Phylogenetic analysis of the genus Avena based on chloroplast intergenic spacer psbA-trnH and single-copy nuclear gene Acc1.

    Science.gov (United States)

    Yan, Hong-Hai; Baum, Bernard R; Zhou, Ping-Ping; Zhao, Jun; Wei, Yu-Ming; Ren, Chang-Zhong; Xiong, Fang-Qiu; Liu, Gang; Zhong, Lin; Zhao, Gang; Peng, Yuan-Ying

    2014-05-01

    Two uncorrelated nucleotide sequences, chloroplast intergenic spacer psbA-trnH and acetyl CoA carboxylase gene (Acc1), were used to perform phylogenetic analyses in 75 accessions of the genus Avena, representing 13 diploids, seven tetraploid, and four hexaploids by maximum parsimony and Bayesian inference. Phylogenic analyses based on the chloroplast intergenic spacer psbA-trnH confirmed that the A genome diploid might be the maternal donor of species of the genus Avena. Two haplotypes of the Acc1 gene region were obtained from the AB genome tetraploids, indicating an allopolyploid origin for the tetraploid species. Among the AB genome species, both gene trees revealed differences between Avena agadiriana and the other species, suggesting that an AS genome diploid might be the A genome donor and the other genome diploid donor might be the Ac genome diploid Avena canariensis or the Ad genome diploid Avena damascena. Three haplotypes of the Acc1 gene have been detected among the ACD genome hexaploid species. The haplotype that seems to represent the D genome clustered with the tetraploid species Avena murphyi and Avena maroccana, which supported the CD genomic designation instead of AC for A. murphyi and A. maroccana.

  11. Structure of rrn operons in pathogenic non-cultivable treponemes: sequence but not genomic position of intergenic spacers correlates with classification of Treponema pallidum and Treponema paraluiscuniculi strains.

    Science.gov (United States)

    Cejková, Darina; Zobaníková, Marie; Pospísilová, Petra; Strouhal, Michal; Mikalová, Lenka; Weinstock, George M; Smajs, David

    2013-02-01

    This study examined the sequences of the two rRNA (rrn) operons of pathogenic non-cultivable treponemes, comprising 11 strains of T. pallidum ssp. pallidum (TPA), five strains of T. pallidum ssp. pertenue (TPE), two strains of T. pallidum ssp. endemicum (TEN), a simian Fribourg-Blanc strain and a rabbit T. paraluiscuniculi (TPc) strain. PCR was used to determine the type of 16S-23S ribosomal intergenic spacers in the rrn operons from 30 clinical samples belonging to five different genotypes. When compared with the TPA strains, TPc Cuniculi A strain had a 17 bp deletion, and the TPE, TEN and Fribourg-Blanc isolates had a deletion of 33 bp. Other than these deletions, only 17 heterogeneous sites were found within the entire region (excluding the 16S-23S intergenic spacer region encoding tRNA-Ile or tRNA-Ala). The pattern of nucleotide changes in the rrn operons corresponded to the classification of treponemal strains, whilst two different rrn spacer patterns (Ile/Ala and Ala/Ile) appeared to be distributed randomly across species/subspecies classification, time and geographical source of the treponemal strains. It is suggested that the random distribution of tRNA genes is caused by reciprocal translocation between repetitive sequences mediated by a recBCD-like system.

  12. Inter- and intraspecific genomic variability of the 16S-23S intergenic spacer regions (ISR) in representatives of Acidithiobacillus thiooxidans and Acidithiobacillus ferrooxidans.

    Science.gov (United States)

    Ni, Yong-Qing; Yang, Yuan; Bao, Jing-Ting; He, Kai-Yu; Li, Hong-Yu

    2007-05-01

    The complete sequences of 32 intergenic spacer regions (ISR) from Acidithiobacillus strains, including 29 field strains isolated from coal, copper, molybdenum mine wastes or sediment of different geoclimatic regions in China, reference strain ATCC19859 and the type strains of the two species were determined. These data, together with other sequences available in the GenBank database, were used to carry out the first detailed assessment of the inter- and intraspecific genomic variability of the ISR sequences and to infer phylogenetic relationships within the genus. The total length of the 16S-23S rRNA intergenic spacer regions of the Acidithiobacillus thiooxidans and Acidithiobacillus ferrooxidans strains ranged from 451 to 490 bp, and from 434 to 456 bp, respectively. The degree of intrageneric ISR sequence similarity was higher than the degree of intergeneric similarity, and the overall similarity values of the ISRs varied from 60.49% to 84.71% between representatives of different species of the genus Acidithiobacillus. Sequences from the spacer of the A. thiooxidans and A. ferrooxidans strains ranged from 86.71% to 99.56% and 92.36% to 100% similarity, respectively. All Acidithiobacillus strains were separated into three phylogenetic major clusters and seven phylogenetic groups. ISR may be a potential target for the development of in situ hybridization probe aimed at accurately detecting acidithiobacilli in the various acidic environments.

  13. Evidence for introduction bottleneck and extensive inter-gene pool (Mesoamerica x Andes) hybridization in the European common bean (Phaseolus vulgaris L.) germplasm.

    Science.gov (United States)

    Gioia, Tania; Logozzo, Giuseppina; Attene, Giovanna; Bellucci, Elisa; Benedettelli, Stefano; Negri, Valeria; Papa, Roberto; Spagnoletti Zeuli, Pierluigi

    2013-01-01

    Common bean diversity within and between Mesoamerican and Andean gene pools was compared in 89 landraces from America and 256 landraces from Europe, to elucidate the effects of bottleneck of introduction and selection for adaptation during the expansion of common bean (Phaseolus vulgaris L.) in Europe. Thirteen highly polymorphic nuclear microsatellite markers (nuSSRs) were used to complement chloroplast microsatellite (cpSSRs) and nuclear markers (phaseolin and Pv-shatterproof1) data from previous studies. To verify the extent of the introduction bottleneck, inter-gene pool hybrids were distinguished from "pure" accessions. Hybrids were identified on the basis of recombination of gene pool specific cpSSR, phaseolin and Pv-shatterproof1 markers with a Bayesian assignments based on nuSSRs, and with STRUCTURE admixture analysis. More hybrids were detected than previously, and their frequency was almost four times larger in Europe (40.2%) than in America (12.3%). The genetic bottleneck following the introduction into Europe was not evidenced in the analysis including all the accessions, but it was significant when estimated only with "pure" accessions, and five times larger for Mesoamerican than for Andean germplasm. The extensive inter-gene pool hybridization generated a large amount of genotypic diversity that mitigated the effects of the bottleneck that occurred when common bean was introduced in Europe. The implication for evolution and the advantages for common bean breeding are discussed.

  14. Evidence for introduction bottleneck and extensive inter-gene pool (Mesoamerica x Andes hybridization in the European common bean (Phaseolus vulgaris L. germplasm.

    Directory of Open Access Journals (Sweden)

    Tania Gioia

    Full Text Available Common bean diversity within and between Mesoamerican and Andean gene pools was compared in 89 landraces from America and 256 landraces from Europe, to elucidate the effects of bottleneck of introduction and selection for adaptation during the expansion of common bean (Phaseolus vulgaris L. in Europe. Thirteen highly polymorphic nuclear microsatellite markers (nuSSRs were used to complement chloroplast microsatellite (cpSSRs and nuclear markers (phaseolin and Pv-shatterproof1 data from previous studies. To verify the extent of the introduction bottleneck, inter-gene pool hybrids were distinguished from "pure" accessions. Hybrids were identified on the basis of recombination of gene pool specific cpSSR, phaseolin and Pv-shatterproof1 markers with a Bayesian assignments based on nuSSRs, and with STRUCTURE admixture analysis. More hybrids were detected than previously, and their frequency was almost four times larger in Europe (40.2% than in America (12.3%. The genetic bottleneck following the introduction into Europe was not evidenced in the analysis including all the accessions, but it was significant when estimated only with "pure" accessions, and five times larger for Mesoamerican than for Andean germplasm. The extensive inter-gene pool hybridization generated a large amount of genotypic diversity that mitigated the effects of the bottleneck that occurred when common bean was introduced in Europe. The implication for evolution and the advantages for common bean breeding are discussed.

  15. On fuzzy weakly-closed sets

    OpenAIRE

    Mahanta, J.; P. K. Das

    2012-01-01

    A new class of fuzzy closed sets, namely fuzzy weakly closed set in a fuzzy topological space is introduced and it is established that this class of fuzzy closed sets lies between fuzzy closed sets and fuzzy generalized closed sets. Alongwith the study of fundamental results of such closed sets, we define and characterize fuzzy weakly compact space and fuzzy weakly closed space.

  16. Twisting theory for weak Hopf algebras

    Institute of Scientific and Technical Information of China (English)

    CHEN Ju-zhen; ZHANG Yan; WANG Shuan-hong

    2008-01-01

    The main aim of this paper is to study the twisting theory of weak Hopf algebras and give an equivalence between the (braided) monoidal categories of weak Hopf bimodules over the original and the twisted weak Hopf algebra to generalize the result from Oeckl (2000).

  17. Reconstruction of weak quasi-Hopf algebras

    CERN Document Server

    Häring, Reto Andreas

    1995-01-01

    All rational semisimple braided tensor categories are representation categories of weak quasi Hopf algebras. To proof this result we construct for any given category of this kind a weak quasi tensor functor to the category of finite dimensional vector spaces. This allows to reconstruct a weak quasi Hopf algebra with the given category as its representation category.

  18. Engineering of core promoter regions enables the construction of constitutive and inducible promoters in Halomonas sp.

    Science.gov (United States)

    Li, Tingting; Li, Teng; Ji, Weiyue; Wang, Qiuyue; Zhang, Haoqian; Chen, Guo-Qiang; Lou, Chunbo; Ouyang, Qi

    2016-02-01

    Halomonas strain TD01, a newly identified halophilic bacterium, has proven to be a promising low-cost host for the production of chemicals. However, genetic manipulation in Halomonas sp. is still difficult due to the lack of well-characterized and tunable expression systems. In this study, a systematic, efficient method was exploited to construct both a constitutive promoter library and inducible promoters. Porin, a highly expressed protein in Halomonas TD01, was first identified from the Halomonas TD01 proteome. Subsequent study of the intergenic region upstream of porin led to the identification of a core promoter region, including -10 and -35 elements. By randomizing the sequence between the -35 and -10 elements, a constitutive promoter library was obtained with 310-fold variation in transcriptional activity; an inducible promoter with a >200-fold induction was built by integrating a lac operator into the core promoter region. As two complementary expression systems, the constitutive and inducible promoters were then employed to regulate the biosynthetic pathway of poly-3-hydroxybutyrate (PHB) in Halomonas TD01, demonstrating the usefulness of the expression systems, furthermore, they could be applied in future metabolic engineering of Halomonas TD strains, and the systematic method used in this study can be generalized to other less-characterized bacterial strains.

  19. Weakly Distributive Modules. Applications to Supplement Submodules

    Indian Academy of Sciences (India)

    Engin Büyükaşik; Yilmaz M Demirci

    2010-11-01

    In this paper, we define and study weakly distributive modules as a proper generalization of distributive modules. We prove that, weakly distributive supplemented modules are amply supplemented. In a weakly distributive supplemented module every submodule has a unique coclosure. This generalizes a result of Ganesan and Vanaja. We prove that -projective duo modules, in particular commutative rings, are weakly distributive. Using this result we obtain that in a commutative ring supplements are unique. This generalizes a result of Camillo and Lima. We also prove that any weakly distributive $\\oplus$-supplemented module is quasi-discrete.

  20. Weakly relativistic dispersion of Bernstein waves

    Science.gov (United States)

    Robinson, P. A.

    1988-01-01

    Weakly relativistic effects on the dispersion of Bernstein waves are investigated for waves propagating nearly perpendicular to a uniform magnetic field in a Maxwellian plasma. Attention is focused on those large-wave-vector branches that are either weakly damped or join continuously onto weakly damped branches since these are the modes of most interest in applications. The transition between dispersion at perpendicular and oblique propagation is examined and major weakly relativistic effects can dominate even in low-temperature plasmas. A number of simple analytic criteria are obtained which delimit the ranges of harmonic number and propagation angle within which various types of weakly damped Bernstein modes can exist.

  1. Weakly relativistic dispersion of Bernstein waves

    Science.gov (United States)

    Robinson, P. A.

    1988-01-01

    Weakly relativistic effects on the dispersion of Bernstein waves are investigated for waves propagating nearly perpendicular to a uniform magnetic field in a Maxwellian plasma. Attention is focused on those large-wave-vector branches that are either weakly damped or join continuously onto weakly damped branches since these are the modes of most interest in applications. The transition between dispersion at perpendicular and oblique propagation is examined and major weakly relativistic effects can dominate even in low-temperature plasmas. A number of simple analytic criteria are obtained which delimit the ranges of harmonic number and propagation angle within which various types of weakly damped Bernstein modes can exist.

  2. A Universe without Weak Interactions

    Energy Technology Data Exchange (ETDEWEB)

    Harnik, Roni; Kribs, Graham D.; Perez, Gilad

    2006-04-07

    A universe without weak interactions is constructed that undergoes big-bang nucleosynthesis, matter domination, structure formation, and star formation. The stars in this universe are able to burn for billions of years, synthesize elements up to iron, and undergo supernova explosions, dispersing heavy elements into the interstellar medium. These definitive claims are supported by a detailed analysis where this hypothetical ''Weakless Universe'' is matched to our Universe by simultaneously adjusting Standard Model and cosmological parameters. For instance, chemistry and nuclear physics are essentially unchanged. The apparent habitability of the Weakless Universe suggests that the anthropic principle does not determine the scale of electroweak breaking, or even require that it be smaller than the Planck scale, so long as technically natural parameters may be suitably adjusted. Whether the multi-parameter adjustment is realized or probable is dependent on the ultraviolet completion, such as the string landscape. Considering a similar analysis for the cosmological constant, however, we argue that no adjustments of other parameters are able to allow the cosmological constant to raise up even remotely close to the Planck scale while obtaining macroscopic structure. The fine-tuning problems associated with the electroweak breaking scale and the cosmological constant therefore appear to be qualitatively different from the perspective of obtaining a habitable universe.

  3. A universe without weak interactions

    Science.gov (United States)

    Harnik, Roni; Kribs, Graham D.; Perez, Gilad

    2006-08-01

    A universe without weak interactions is constructed that undergoes big-bang nucleosynthesis, matter domination, structure formation, and star formation. The stars in this universe are able to burn for billions of years, synthesize elements up to iron, and undergo supernova explosions, dispersing heavy elements into the interstellar medium. These definitive claims are supported by a detailed analysis where this hypothetical “weakless universe” is matched to our Universe by simultaneously adjusting standard model and cosmological parameters. For instance, chemistry and nuclear physics are essentially unchanged. The apparent habitability of the weakless universe suggests that the anthropic principle does not determine the scale of electroweak breaking, or even require that it be smaller than the Planck scale, so long as technically natural parameters may be suitably adjusted. Whether the multiparameter adjustment is realized or probable is dependent on the ultraviolet completion, such as the string landscape. Considering a similar analysis for the cosmological constant, however, we argue that no adjustments of other parameters are able to allow the cosmological constant to raise up even remotely close to the Planck scale while obtaining macroscopic structure. The fine-tuning problems associated with the electroweak breaking scale and the cosmological constant therefore appear to be qualitatively different from the perspective of obtaining a habitable universe.

  4. Weak homology of elliptical galaxies

    CERN Document Server

    Bertin, G; Principe, M D

    2002-01-01

    We start by studying a small set of objects characterized by photometric profiles that have been pointed out to deviate significantly from the standard R^{1/4} law. For these objects we confirm that a generic R^{1/n} law, with n a free parameter, can provide superior fits (the best-fit value of n can be lower than 2.5 or higher than 10), better than those that can be obtained by a pure R^{1/4} law, by an R^{1/4}+exponential model, and by other dynamically justified self--consistent models. Therefore, strictly speaking, elliptical galaxies should not be considered homologous dynamical systems. Still, a case for "weak homology", useful for the interpretation of the Fundamental Plane of elliptical galaxies, could be made if the best-fit parameter n, as often reported, correlates with galaxy luminosity L, provided the underlying dynamical structure also follows a systematic trend with luminosity. We demonstrate that this statement may be true even in the presence of significant scatter in the correlation n(L). Pr...

  5. Testing the weak equivalence principle

    Science.gov (United States)

    Nobili, Anna M.; Comandi, Gian Luca; Pegna, Raffaello; Bramanti, Donato; Doravari, Suresh; Maccarone, Francesco; Lucchesi, David M.

    2010-01-01

    The discovery of Dark Energy and the fact that only about 5% of the mass of the universe can be explained on the basis of the current laws of physics have led to a serious impasse. Based on past history, physics might indeed be on the verge of major discoveries; but the challenge is enormous. The way to tackle it is twofold. On one side, scientists try to perform large scale direct observations and measurements - mostly from space. On the other, they multiply their efforts to put to the most stringent tests ever the physical theories underlying the current view of the physical world, from the very small to the very large. On the extremely small scale very exciting results are expected from one of the most impressive experiments in the history of mankind: the Large Hadron Collider. On the very large scale, the universe is dominated by gravity and the present impasse undoubtedly calls for more powerful tests of General Relativity - the best theory of gravity to date. Experiments testing the Weak Equivalence Principle, on which General Relativity ultimately lies, have the strongest probing power of them all; a breakthrough in sensitivity is possible with the “Galileo Galilei” (GG) satellite experiment to fly in low Earth orbit.

  6. The Geometry And Significance Of Weak Energy

    CERN Document Server

    Parks, A D

    2000-01-01

    Summary: The theory of weak values for quantum mechanical observables has come to serve as a useful basis for contemporary discussions concerning such varied topics as the tunnelling-time controversy and quantum stochastic processes. An intrinsic complex-valued weak energy has recently been observed experimentally and reported in the literature. In this paper it is shown that: (a) the real and imaginary valued parts of this weak energy have geometric interpretations related to a phase acquired from parallel transport in Hilbert space and the variational dynamics occurring in the associated projective Hilbert space, respectively; (b) the weak energy defines functions which translate correlation amplitudes and probabilities in time; (c) correlation probabilities can be controlled by manipulating the weak energy and there exists a condition of weak stationarity that guarantees their time invariance; and (d) a time-weak energy uncertainty relation of the usual form prevails when a suitable set of dynamical constr...

  7. Weak* convergence of operator means

    Energy Technology Data Exchange (ETDEWEB)

    Romanov, Alexandr V [Moscow State Institute of Electronics and Mathematics (Technical University), Moscow (Russian Federation)

    2011-12-31

    For a linear operator U with ||U'n||{<=}const on a Banach space X we discuss conditions for the convergence of ergodic operator nets T{sub {alpha}} corresponding to the adjoint operator U* of U in the W*O-topology of the space EndX*. The accumulation points of all possible nets of this kind form a compact convex set L in EndX*, which is the kernel of the operator, where {Gamma}{sub 0}={l_brace}U{sub n}*, n{>=}0{r_brace}. It is proved that all ergodic nets T{sub {alpha}} weakly* converge if and only if the kernel L consists of a single element. In the case of X=C({Omega}) and the shift operator U generated by a continuous transformation {phi} of a metrizable compactum {Omega} we trace the relationships among the ergodic properties of U, the structure of the operator semigroups L, G and {Gamma}={Gamma}-bar{sub 0}, and the dynamical characteristics of the semi-cascade ({phi},{Omega}). In particular, if cardL=1, then a) for any {omega} element of {Omega} the closure of the trajectory {l_brace}{phi}{sup n}{omega}, n{>=}0{r_brace} contains precisely one minimal set m, and b) the restriction ({phi},m) is strictly ergodic. Condition a) implies the W*O-convergence of any ergodic sequence of operators T{sub n} element of EndX* under the additional assumption that the kernel of the enveloping semigroup E({phi},{Omega}) contains elements obtained from the 'basis' family of transformations {l_brace}{phi}{sup n}, n{>=}0{r_brace} of the compact set {Omega} by using some transfinite sequence of sequential passages to the limit.

  8. A p53-bound enhancer region controls a long intergenic noncoding RNA required for p53 stress response

    NARCIS (Netherlands)

    Melo, C A; Léveillé, N; Rooijers, K; Wijchers, P J; Geeven, G; Tal, A; Melo, S A; de Laat, W; Agami, R

    2016-01-01

    Genome-wide chromatin studies identified the tumor suppressor p53 as both a promoter and an enhancer-binding transcription factor. As an enhancer factor, p53 can induce local production of enhancer RNAs, as well as transcriptional activation of distal neighboring genes. Beyond the regulation of prot

  9. Weakly and Strongly Regular Near-rings

    Institute of Scientific and Technical Information of China (English)

    N.Argac; N.J.Groenewald

    2005-01-01

    In this paper, we prove some basic properties of left weakly regular near-rings.We give an affirmative answer to the question whether a left weakly regular near-ring with left unity and satisfying the IFP is also right weakly regular. In the last section, we use among others left 0-prime and left completely prime ideals to characterize strongly regular near-rings.

  10. WEAK CONVERGENCE OF HENSTOCK INTEGRABLE SEQUENCES

    Institute of Scientific and Technical Information of China (English)

    LuisaDiPiazza

    1994-01-01

    Some relationships between pointwise and weak convergence of a sequence of Henstock integrable functions are studied, In particular it is provided an example of a sequence of Henstock integrable functions whose pointwise limit is different from the weak one. By introducing an asymptotic version of the Henstock equiintegrability notion it is given a necessary and sufficient condition in order that a pointwisely convergent sequence of Henstock integrable functions is weakly convergent to its pointwise limit.

  11. Transversality theorems for the weak topology

    OpenAIRE

    2011-01-01

    In his 1979 paper Trotman proves, using the techniques of the Thom transversality theorem, that under some conditions on the dimensions of the manifolds under consideration, openness of the set of maps transverse to a stratification in the strong (Whitney) topology implies that the stratification is $(a)$-regular. Here we first discuss the Thom transversality theorem for the weak topology and then give a similiar kind of result for the weak topology, under very weak hypotheses. Recently sever...

  12. Spin effects in the weak interaction

    Energy Technology Data Exchange (ETDEWEB)

    Freedman, S.J. (Argonne National Lab., IL (USA) Chicago Univ., IL (USA). Dept. of Physics Chicago Univ., IL (USA). Enrico Fermi Inst.)

    1990-01-01

    Modern experiments investigating the beta decay of the neutron and light nuclei are still providing important constraints on the theory of the weak interaction. Beta decay experiments are yielding more precise values for allowed and induced weak coupling constants and putting constraints on possible extensions to the standard electroweak model. Here we emphasize the implications of recent experiments to pin down the strengths of the weak vector and axial vector couplings of the nucleon.

  13. On Weakly P.P. Rings

    Institute of Scientific and Technical Information of China (English)

    Xiang Yue-ming; Ouyang Lun-qun; Wang Shu-gui

    2015-01-01

    We introduce, in this paper, the right weakly p.p. rings as the generaliza-tion of right p.p. rings. It is shown that many properties of the right p.p. rings can be extended onto the right weakly p.p. rings. Relative examples are constructed. As applications, we also characterize the regular rings and the semisimple rings in terms of the right weakly p.p. rings.

  14. Identification of clinically relevant nonhemolytic Streptococci on the basis of sequence analysis of 16S-23S intergenic spacer region and partial gdh gene

    DEFF Research Database (Denmark)

    Nielsen, Xiaohui Chen; Justesen, Ulrik Stenz; Dargis, Rimtas;

    2009-01-01

    Nonhemolytic streptococci (NHS) cause serious infections, such as endocarditis and septicemia. Many conventional phenotypic methods are insufficient for the identification of bacteria in this group to the species level. Genetic analysis has revealed that single-gene analysis is insufficient...... for the identification of all species in this group of bacteria. The aim of the present study was to establish a method based on sequence analysis of the 16S-23S intergenic spacer (ITS) region and the partial gdh gene to identify clinical relevant NHS to the species level. Sequence analysis of the ITS region....... A phylogenetic algorithm based on the analysis of partial gdh gene sequences revealed three distinct clusters. We suggest that sequence analysis of the combination of the ITS region and the partial gdh gene can be used in the reference laboratory for the species-level identification of NHS....

  15. Fusion of HMGA1 to the LPP/TPRG1 intergenic region in a lipoma identified by mapping paraffin-embedded tissues.

    Science.gov (United States)

    Wang, Xiaoke; Zamolyi, Renata Q; Zhang, Hongying; Pannain, Vera L; Medeiros, Fabiola; Erickson-Johnson, Michele; Jenkins, Robert B; Oliveira, Andre M

    2010-01-01

    Ordinary lipoma frequently harbors rearrangement of HMGA2. LPP is the most common partner gene to HMGA2, but has not been seen fused to HMGA1. We report the fusion of HMGA1 to the intergenic region between LPP and TPRG1 in a lipoma. Conventional cytogenetic analysis of an abdominal-wall lipoma diagnosed in a 60-year-old woman showed a t(3;6)(q27;p21). Molecular cytogenetic mapping of available paraffin-embedded tissues revealed the fusion of HMGA1 to a 139-kb genomic region between the LPP and TPRG1 loci. No rearrangement of HMGA2 was found. The biological function of this novel fusion could be similar to the role of HMGA2-LPP in tumorigenesis.

  16. Weak measurements with a qubit meter

    DEFF Research Database (Denmark)

    Wu, Shengjun; Mølmer, Klaus

    2009-01-01

    We derive schemes to measure the so-called weak values of quantum system observables by coupling of the system to a qubit meter system. We highlight, in particular, the meaning of the imaginary part of the weak values, and show how it can be measured directly on equal footing with the real part...... of the weak value. We present compact expressions for the weak value of single qubit observables and of product observables on qubit pairs. Experimental studies of the results are suggested with cold trapped ions....

  17. Identification of a novel DRB1 allele through intergenic recombination between HLA-DRB1 and HLA-DRB3∗02 in a Chinese family.

    Science.gov (United States)

    Huang, Weijin; Liu, Xiangjun; Li, Erwei; Zhao, Chenyan; Liu, Qiang; Liang, Zhenglun; Wang, Youchun; Lu, Fengmin

    2013-12-01

    In this study, a novel DRB1 allele was revealed by routine HLA-SBT typing noted for its extensive mismatches to any known DRB1 alleles within the exon 2. Sequences containing the exons 2, 3 of HLA-DRB1, their surrounding introns, and the full-length cDNA of DRB1 were analyzed to determine a possible recombination event. Interestingly, the sequences of entire exon 2 were characterized as DRB3(∗)02:02:01:01/02; while exon 3 were characterized as DRB1(∗)14 like alleles. Further analysis of the sequences using Simplot software suggested that an intergenic recombinant event (i.e. exchange of sequence between non-allelic genes) may have occurred between DRB3(∗)02 allele and DRB1(∗)14 like allele, and the recombination sites are located at intron 1 and the boundary of exon 2 and intron 2 of DRB1. There are 5 CGGGG sequences flanking each side of exon 2 could serve as potential recombination site. Moreover, the full-length cDNA of the novel allele has been identified. The exon 1 and exon 3 to exon 6 share the same sequence as DRB1(∗)14 like alleles. At the mRNA level, the new allele has no significant difference when compared with the other DRB1 allele. This novel recombinant allele is also found to be paternally inherited. In conclusion, this is the first report of a DRB1 and DRB3 intergenic recombination event involving whole exon 2, which generate a new DRB1(∗)14:141.

  18. Analysis of a new strain of Euphorbia mosaic virus with distinct replication specificity unveils a lineage of begomoviruses with short Rep sequences in the DNA-B intergenic region

    Directory of Open Access Journals (Sweden)

    Argüello-Astorga Gerardo R

    2010-10-01

    Full Text Available Abstract Background Euphorbia mosaic virus (EuMV is a member of the SLCV clade, a lineage of New World begomoviruses that display distinctive features in their replication-associated protein (Rep and virion-strand replication origin. The first entirely characterized EuMV isolate is native from Yucatan Peninsula, Mexico; subsequently, EuMV was detected in weeds and pepper plants from another region of Mexico, and partial DNA-A sequences revealed significant differences in their putative replication specificity determinants with respect to EuMV-YP. This study was aimed to investigate the replication compatibility between two EuMV isolates from the same country. Results A new isolate of EuMV was obtained from pepper plants collected at Jalisco, Mexico. Full-length clones of both genomic components of EuMV-Jal were biolistically inoculated into plants of three different species, which developed symptoms indistinguishable from those induced by EuMV-YP. Pseudorecombination experiments with EuMV-Jal and EuMV-YP genomic components demonstrated that these viruses do not form infectious reassortants in Nicotiana benthamiana, presumably because of Rep-iteron incompatibility. Sequence analysis of the EuMV-Jal DNA-B intergenic region (IR led to the unexpected discovery of a 35-nt-long sequence that is identical to a segment of the rep gene in the cognate viral DNA-A. Similar short rep sequences ranging from 35- to 51-nt in length were identified in all EuMV isolates and in three distinct viruses from South America related to EuMV. These short rep sequences in the DNA-B IR are positioned downstream to a ~160-nt non-coding domain highly similar to the CP promoter of begomoviruses belonging to the SLCV clade. Conclusions EuMV strains are not compatible in replication, indicating that this begomovirus species probably is not a replicating lineage in nature. The genomic analysis of EuMV-Jal led to the discovery of a subgroup of SLCV clade viruses that contain in

  19. [Strength and weaknesses of the German digital health economy].

    Science.gov (United States)

    Leppert, Florian; Gerlach, Jan; Ostwald, Dennis A; Greiner, Wolfgang

    2017-07-26

    There are high expectations from digitalization of health care, ehealth and telemedicine. Nevertheless, the diffusion of these services falls short of expectations. This study analyses the strength and weaknesses of the German digital health economy. Thereby, we specially focus on small and medium-sized enterprises (SME). The study is based on a literature review, interviews of experts and a workshop. The digital health economy is influenced by a heterogeneous environment with both promotive and obstructive factors. One of the largest weaknesses results from a lack of business models. There is a lack of possibilities of reimbursement by the Statutory Health Insurance (SHI). In addition, private users only have a small willingness to pay for digital services. The large number of regulations makes the implementation even harder, especially for SMEs. Thus, the current environment hampers fast diffusion of digital services in the German health care market. © Georg Thieme Verlag KG Stuttgart · New York.

  20. Effects of structural changes in the dsdA-dsdC intergenic region on D-serine deaminase synthesis.

    OpenAIRE

    McFall, E; Nikam, S S; Palchaudhuri, S

    1991-01-01

    Single-base-pair changes well upstream of its transcription initiation site resulted in partially to fully constitutive expression of the D-serine deaminase structural gene, dsdA, independently of the cyclic AMP-cyclic AMP-binding protein complex and of the specific D-serine deaminase activator protein. These promoter mutations appear to define a consensus sequence that is repeated several times. Basal expression of dsdA+ was also strongly enhanced by subcloning on multicopy plasmids, by the ...

  1. Strength and Weakness of Animal Vaccine Industry in China

    Institute of Scientific and Technical Information of China (English)

    2010-01-01

    Based on the introduction of the status of animal vaccine industry in China,the strength,weakness,opportunity and threat of animal vaccine industry are analyzed by SWOT. Among them,strength is mainly reflected in the broad market,and the favorable industrial policy and development environment. Weakness is the irrational structure of product,the nonstandard production inspection,and the irregular market. Opportunity is mainly reflected in improving government’s emphasis on animal security,expanding the scope of compulsory immunization,increasing the proportion of scale breeding,upgrading animal vaccine in China,speeding up industry consolidation and improving market concentration. Threat is manifested mainly in the poor market consciousness due to the long-term planned economy. And animal vaccine enterprises in China are at a relatively disadvantage position during the competition with international companies. Based on these,countermeasures to promote the development of animal vaccine enterprises in China are put forward from the aspects of both government and enterprise. On the one hand,government should improve the laws and regulations and promote the healthy development of vaccine industry,strengthen the manufacturers’ consciousness of quality and biological safety,and create a favorable environment for market competition. On the other hand,enterprises should adjust the product structure and strengthen research and innovation,improve the brand competitiveness,take the road of common development,enhance the management capacity of the enterprises,and promote customer service.

  2. Weak interaction: past answers, present questions

    Energy Technology Data Exchange (ETDEWEB)

    Ne' eman, Y.

    1977-02-01

    A historical sketch of the weak interaction is presented. From beta ray to pion decay, the V-A theory of Marshak and Sudarshan, CVC principle of equivalence, universality as an algebraic condition, PCAC, renormalized weak Hamiltonian in the rehabilitation of field theory, and some current issues are considered in this review. 47 references. (JFP)

  3. On modeling weak sinks in MODPATH

    Science.gov (United States)

    Abrams, Daniel B.; Haitjema, Henk; Kauffman, Leon J.

    2012-01-01

    Regional groundwater flow systems often contain both strong sinks and weak sinks. A strong sink extracts water from the entire aquifer depth, while a weak sink lets some water pass underneath or over the actual sink. The numerical groundwater flow model MODFLOW may allow a sink cell to act as a strong or weak sink, hence extracting all water that enters the cell or allowing some of that water to pass. A physical strong sink can be modeled by either a strong sink cell or a weak sink cell, with the latter generally occurring in low resolution models. Likewise, a physical weak sink may also be represented by either type of sink cell. The representation of weak sinks in the particle tracing code MODPATH is more equivocal than in MODFLOW. With the appropriate parameterization of MODPATH, particle traces and their associated travel times to weak sink streams can be modeled with adequate accuracy, even in single layer models. Weak sink well cells, on the other hand, require special measures as proposed in the literature to generate correct particle traces and individual travel times and hence capture zones. We found that the transit time distributions for well water generally do not require special measures provided aquifer properties are locally homogeneous and the well draws water from the entire aquifer depth, an important observation for determining the response of a well to non-point contaminant inputs.

  4. Spin Seebeck effect in a weak ferromagnet

    Science.gov (United States)

    Arboleda, Juan David; Arnache Olmos, Oscar; Aguirre, Myriam Haydee; Ramos, Rafael; Anadon, Alberto; Ibarra, Manuel Ricardo

    2016-06-01

    We report the observation of room temperature spin Seebeck effect (SSE) in a weak ferromagnetic normal spinel Zinc Ferrite (ZFO). Despite the weak ferromagnetic behavior, the measurements of the SSE in ZFO show a thermoelectric voltage response comparable with the reported values for other ferromagnetic materials. Our results suggest that SSE might possibly originate from the surface magnetization of the ZFO.

  5. CP Violation, Neutral Currents, and Weak Equivalence

    Science.gov (United States)

    Fitch, V. L.

    1972-03-23

    Within the past few months two excellent summaries of the state of our knowledge of the weak interactions have been presented. Correspondingly, we will not attempt a comprehensive review but instead concentrate this discussion on the status of CP violation, the question of the neutral currents, and the weak equivalence principle.

  6. Towards a classification of weak hand holds

    NARCIS (Netherlands)

    Kimmelman, V.; Sáfár, A.; Crasborn, O.

    2016-01-01

    The two symmetrical manual articulators (the hands) in signed languages are a striking modalityspecific phonetic property. The weak hand can maintain the end position of an articulation while the other articulator continues to produce additional signs. This weak hand spreading (hold) has been

  7. Revisiting Weak Simulation for Substochastic Markov Chains

    DEFF Research Database (Denmark)

    Jansen, David N.; Song, Lei; Zhang, Lijun

    2013-01-01

    The spectrum of branching-time relations for probabilistic systems has been investigated thoroughly by Baier, Hermanns, Katoen and Wolf (2003, 2005), including weak simulation for systems involving substochastic distributions. Weak simulation was proven to be sound w.r.t. the liveness fragment...

  8. S-parameters for weakly excited slots

    DEFF Research Database (Denmark)

    Albertsen, Niels Christian

    1999-01-01

    A simple approach to account for parasitic effects in weakly excited slots cut in the broad wall of a rectangular waveguide is proposed......A simple approach to account for parasitic effects in weakly excited slots cut in the broad wall of a rectangular waveguide is proposed...

  9. Weakly exact categories and the snake lemma

    CERN Document Server

    Jafari, Amir

    2009-01-01

    We generalize the notion of an exact category and introduce weakly exact categories. A proof of the snake lemma in this general setting is given. Some applications are given to illustrate how one can do homological algebra in a weakly exact category.

  10. Strong Connections and Invertible Weak Entwining Structures

    Institute of Scientific and Technical Information of China (English)

    J.N.ALONSO (A)LVAREZ; J.M.FERN(A)NDEZ VILABOA; R.GONZ(A)LEZ RODR(I)GUEZ

    2012-01-01

    In this paper we obtain a criterion under which the bijectivity of the canonical morphism of a weak Galois extension associated to a weak invertible entwining structure is equivalent to the existence of a strong connection form.Also we obtain an explicit formula for a strong connection under equivariant projective conditions or under coseparability conditions.

  11. Weakly tight functions and their decomposition

    Directory of Open Access Journals (Sweden)

    Mona Khare

    2005-01-01

    Full Text Available The present paper deals with the study of a weakly tight function and its relation to tight functions. We obtain a Jordan-decomposition-type theorem for a locally bounded weakly tight real-valued function defined on a sublattice of IX, followed by the notion of a total variation.

  12. Cohomology of Weakly Reducible Maximal Triangular Algebras

    Institute of Scientific and Technical Information of China (English)

    董浙; 鲁世杰

    2000-01-01

    In this paper, we introduce the concept of weakly reducible maximal triangular algebras φwhich form a large class of maximal triangular algebras. Let B be a weakly closed algebra containing 5φ, we prove that the cohomology spaces Hn(φ, B) (n≥1) are trivial.

  13. Fixed points of occasionally weakly biased mappings

    Directory of Open Access Journals (Sweden)

    Y. Mahendra Singh, M. R. Singh

    2012-09-01

    Full Text Available Common fixed point results due to Pant et al. [Pant et al., Weak reciprocal continuity and fixed point theorems, Ann Univ Ferrara, 57(1, 181-190 (2011] are extended to a class of non commuting operators called occasionally weakly biased pair[ N. Hussain, M. A. Khamsi A. Latif, Commonfixed points for JH-operators and occasionally weakly biased pairs under relaxed conditions, Nonlinear Analysis, 74, 2133-2140 (2011]. We also provideillustrative examples to justify the improvements. Abstract. Common fixed point results due to Pant et al. [Pant et al., Weakreciprocal continuity and fixed point theorems, Ann Univ Ferrara, 57(1, 181-190 (2011] are extended to a class of non commuting operators called occasionally weakly biased pair[ N. Hussain, M. A. Khamsi A. Latif, Common fixed points for JH-operators and occasionally weakly biased pairs under relaxed conditions, Nonlinear Analysis, 74, 2133-2140 (2011]. We also provide illustrative examples to justify the improvements.

  14. Self-Dual Weak Hopf Algebras

    Institute of Scientific and Technical Information of China (English)

    Munir AHMED; Fang LI

    2008-01-01

    In this paper, we define the notion of self-dual graded weak Hopf algebra and self-dual semilattice graded weak Hopf algebra. We give characterization of finite-dimensional such algebras when they are in structually simple forms in the sense of E. L. Green and E. N. Morcos. We also give the definition of self-dual weak Hopf quiver and apply these types of quivers to classify the finite-dimensional self-dual semilattice graded weak Hopf algebras. Finally, we prove partially the conjecture given by N. Andruskiewitsch and H.-J. Schneider in the case of finite-dimensional pointed semilattice graded weak Hopf algebra H when grH is self-dual.

  15. Atomic homodyne detection of weak atomic transitions.

    Science.gov (United States)

    Gunawardena, Mevan; Elliott, D S

    2007-01-26

    We have developed a two-color, two-pathway coherent control technique to detect and measure weak optical transitions in atoms by coherently beating the transition amplitude for the weak transition with that of a much stronger transition. We demonstrate the technique in atomic cesium, exciting the 6s(2)S(1/2) --> 8s(2)S(1/2) transition via a strong two-photon transition and a weak controllable Stark-induced transition. We discuss the enhancement in the signal-to-noise ratio for this measurement technique over that of direct detection of the weak transition rate, and project future refinements that may further improve its sensitivity and application to the measurement of other weak atomic interactions.

  16. Metazoan promoters

    DEFF Research Database (Denmark)

    Lenhard, Boris; Sandelin, Albin Gustav; Carninci, Piero

    2012-01-01

    Promoters are crucial for gene regulation. They vary greatly in terms of associated regulatory elements, sequence motifs, the choice of transcription start sites and other features. Several technologies that harness next-generation sequencing have enabled recent advances in identifying promoters...... and their features, helping researchers who are investigating functional categories of promoters and their modes of regulation. Additional features of promoters that are being characterized include types of histone modifications, nucleosome positioning, RNA polymerase pausing and novel small RNAs. In this Review, we...... discuss recent findings relating to metazoan promoters and how these findings are leading to a revised picture of what a gene promoter is and how it works....

  17. Relative entropies, suitable weak solutions, and weak strong uniqueness for the compressible Navier-Stokes system

    CERN Document Server

    Feireisl, Eduard; Novotny, Antonin

    2011-01-01

    We introduce the notion of relative entropy for the weak solutions of the compressible Navier-Stokes system. We show that any finite energy weak solution satisfies a relative entropy inequality for any pair of sufficiently smooth test functions. As a corollary we establish weak-strong uniqueness principle for the compressible Navier-Stokes system.

  18. A Construction of Weakly Inverse Semigroups

    Institute of Scientific and Technical Information of China (English)

    Bing Jun YU; Yan LI

    2009-01-01

    Let S° be an inverse semigroup with semilattice biordered set E° of idempotents and E a weakly inverse biordered set with a subsemilattice Ep = { e ∈ E |(V) f ∈ E, S(f , e)(C) w(e) } isomorphic to E° by θ:Ep→E°. In this paper, it is proved that if(V)f, g∈E, f ←→ ,g(→) f°θ (ζ)s° g°θand there exists a mapping φ from Ep into the symmetric weakly inverse semigroup (ζξ)(E ∪S°) satisfying six appropriate conditions, then a weakly inverse semigroup ∑ can be constructed in (ζξ)(S°), called the weakly inverse hull of a weakly inverse system (S°, E, θ, φ) with I(∑) ≌ S°, E(∑) (≌) E. Conversely,every weakly inverse semigroup can be constructed in this way. Furthermore, a sufficient and necessary condition for two weakly inverse hulls to be isomorphic is also given.

  19. Ultra-small phase estimation via weak measurement with postselection: A comparison of joint weak measurement and weak value amplification

    CERN Document Server

    Fang, Chen; Yu, Yang; Li, Qin-Zheng; Zeng, Guihua

    2015-01-01

    We derive a general theory for the joint weak measurement with arbitrary postselection and employ it in the time-delay measurement. Especially, we study two special cases, i.e., the balanced and unbalanced postselection regimes, and present an experiment to verify the theoretical results. The experimental results show that under similar conditions, the signal-to-noise ratio of using joint weak measurement scheme remains higher than 12 dB when the measured time-delay is smaller the ultimate precision limit of the weak-value amplification scheme. Moreover, the joint weak measurement scheme is robust to the misalignment errors and the wavelength-dependency of optical components, which indicates its advantage of improving the measurement precision with convenient laboratory equipments.

  20. Thermodynamics of gravity favours Weak Censorship Conjecture

    CERN Document Server

    Acquaviva, Giovanni; Hamid, Aymen I M; Maharaj, Sunil D

    2015-01-01

    We use the formulation of thermodynamics of gravity as proposed by Clifton, Ellis and Tavakol on the gravitational collapse of dustlike matter, that violates the strong or weak cosmic censorship conjecture depending on the initial data. We transparently demonstrate that the gravitational entropy prefers the scenario where the stronger version is violated but the weak censorship conjecture is satisfied. This is a novel result, showing the weak cosmic censorship and hence the future asymptotically simple structure of spacetime, is being validated by the nature of gravity, without imposing any extra constraint on the form of matter.

  1. Weak, strong, and uniform quantum simulations

    Science.gov (United States)

    Wang, Dong-Sheng

    2015-01-01

    In this work, we introduce different types of quantum simulations according to different operator topologies on a Hilbert space, namely, uniform, strong, and weak quantum simulations. We show that they have the same computational power that the efficiently solvable problems are in bounded-error quantum polynomial time. For the weak simulation, we formalize a general weak quantum simulation problem and construct an algorithm which is valid for all instances. Also, we analyze the computational power of quantum simulations by proving the query lower bound for simulating a general quantum process.

  2. Structural features of sequential weak measurements

    Science.gov (United States)

    Diósi, Lajos

    2016-07-01

    We discuss the abstract structure of sequential weak measurement (WM) of general observables. In all orders, the sequential WM correlations without postselection yield the corresponding correlations of the Wigner function, offering direct quantum tomography through the moments of the canonical variables. Correlations in spin-1/2 sequential weak measurements coincide with those in strong measurements, they are constrained kinematically, and they are equivalent with single measurements. In sequential WMs with postselection, an anomaly occurs, different from the weak value anomaly of single WMs. In particular, the spread of polarization σ ̂ as measured in double WMs of σ ̂ will diverge for certain orthogonal pre- and postselected states.

  3. Weak Gauge Boson Radiation in Parton Showers

    CERN Document Server

    Christiansen, Jesper Roy

    2014-01-01

    The emission of W and Z gauge boson is included in a traditional QCD + QED shower. The unitarity of the shower algorithm links the real radiation of the weak gauge bosons to the negative weak virtual corrections. The shower evolution process leads to a competition between QCD, QED and weak radiation, and allows for W and Z boson production inside jets. Various effects on LHC physics are studied, both at low and high transverse momenta, and effects at higher-energy hadron colliders are outlined.

  4. Weak layer fracture: facets and depth hoar

    Directory of Open Access Journals (Sweden)

    I. Reiweger

    2013-05-01

    Full Text Available Understanding the fracture behavior of weak snow layers is essential for modeling and predicting dry-snow slab avalanches. We therefore performed laboratory experiments with snow samples containing a weak layer consisting of either faceted crystals or depth hoar. During these experiments the samples were loaded with different loading rates and at various tilt angles until fracture. The strength of the samples decreased with increasing loading rate and increasing tilt angle. Additionally, we took pictures of the side of the samples with a high-speed video camera and calculated the displacement using a particle image velocimetry (PIV algorithm. The fracture process within the weak layer could thus be studied in detail. We found a fracture in shear immediately followed by a collapse of the weak layer.

  5. Weak Markov Processes as Linear Systems

    CERN Document Server

    Gohm, Rolf

    2012-01-01

    A noncommutative Fornasini-Marchesini system (a multi-variable version of a linear system) can be realized within a weak Markov process (a model for quantum evolution). For a discrete time parameter this is worked out systematically as a theory of representations of structure maps of a system by a weak process. We introduce subprocesses and quotient processes which can be described naturally by a suitable category of weak processes. A corresponding notion of cascade for processes induces a represented cascade of systems. We study the control theoretic notion of observability which turns out to be particularly interesting in connection with a cascade structure. As an application we gain new insights into stationary Markov chains where observability for the system is closely related to asymptotic completeness in the scattering theory of the chain. This motivates a general definition of asymptotic completeness in the category of weak processes.

  6. Weak Lensing Simulations for the SKA

    CERN Document Server

    Patel, Prina; Makhathini, Sphesihle; Abdalla, Filipe; Bacon, David; Brown, Michael L; Heywood, Ian; Jarvis, Matt; Smirnov, Oleg

    2015-01-01

    Weak gravitational lensing measurements are traditionally made at optical wavelengths where many highly resolved galaxy images are readily available. However, the Square Kilometre Array (SKA) holds great promise for this type of measurement at radio wavelengths owing to its greatly increased sensitivity and resolution over typical radio surveys. The key to successful weak lensing experiments is in measuring the shapes of detected sources to high accuracy. In this document we describe a simulation pipeline designed to simulate radio images of the quality required for weak lensing, and will be typical of SKA observations. We provide as input, images with realistic galaxy shapes which are then simulated to produce images as they would have been observed with a given radio interferometer. We exploit this pipeline to investigate various stages of a weak lensing experiment in order to better understand the effects that may impact shape measurement. We first show how the proposed SKA1-Mid array configurations perfor...

  7. Vibration diagnostics of weak base embankments

    Institute of Scientific and Technical Information of China (English)

    Evgenij Ashpiz; Vladimir Kapustin; Svetlana Klepikova; Maxim Shirobokov

    2013-01-01

    In this paper the theoretical background was analyzed for vibration diagnostics method and experience in its application for weak base embankments. General schemes of survey and recommendations on hardware systems and further prospective development are outlined.

  8. Weak entropy inequalities and entropic convergence

    Institute of Scientific and Technical Information of China (English)

    GAO FuQing; LI LiNa

    2008-01-01

    A criterion for algebraic convergence of the entropy is presented and an algebraic convergence result for the entropy of an exclusion process is improved.A weak entropy inequality is considered and its relationship to entropic convergence is discussed.

  9. Weak entropy inequalities and entropic convergence

    Institute of Scientific and Technical Information of China (English)

    2008-01-01

    A criterion for algebraic convergence of the entropy is presented and an algebraic convergence result for the entropy of an exclusion process is improved. A weak entropy inequality is considered and its relationship to entropic convergence is discussed.

  10. The Sloan Nearby Cluster Weak Lensing Survey

    CERN Document Server

    Kubo, Jeffrey M; Hardin, Frances Mei; Kubik, Donna; Lawhorn, Kelsey; Lin, Huan; Nicklaus, Liana; Nelson, Dylan; Reis, Ribamar R R; Seo, Hee-Jong; Soares-Santos, Marcelle; Stebbins, Albert; Yunker, Tony

    2009-01-01

    We describe and present initial results of a weak lensing survey of nearby ($\\rm{z}\\lesssim0.1$) galaxy clusters in the Sloan Digital Sky Survey (SDSS). In this first study, galaxy clusters are selected from the SDSS spectroscopic galaxy cluster catalogs of \\citet{miller05} and \\citet{berlind06}. We report a total of seven individual low redshift cluster weak lensing measurements which include: A2048, A1767, A2244, A1066, A2199, and two clusters specifically identified with the C4 algorithm. Our program of weak lensing of nearby galaxy clusters in the SDSS will eventually reach $\\sim 200$ clusters, making it the largest weak lensing survey of individual galaxy clusters to date.

  11. Identification of novel growth phase- and media-dependent small non-coding RNAs in Streptococcus pyogenes M49 using intergenic tiling arrays

    Directory of Open Access Journals (Sweden)

    Patenge Nadja

    2012-10-01

    Full Text Available Abstract Background Small non-coding RNAs (sRNAs have attracted attention as a new class of gene regulators in both eukaryotes and bacteria. Genome-wide screening methods have been successfully applied in Gram-negative bacteria to identify sRNA regulators. Many sRNAs are well characterized, including their target mRNAs and mode of action. In comparison, little is known about sRNAs in Gram-positive pathogens. In this study, we identified novel sRNAs in the exclusively human pathogen Streptococcus pyogenes M49 (Group A Streptococcus, GAS M49, employing a whole genome intergenic tiling array approach. GAS is an important pathogen that causes diseases ranging from mild superficial infections of the skin and mucous membranes of the naso-pharynx, to severe toxic and invasive diseases. Results We identified 55 putative sRNAs in GAS M49 that were expressed during growth. Of these, 42 were novel. Some of the newly-identified sRNAs belonged to one of the common non-coding RNA families described in the Rfam database. Comparison of the results of our screen with the outcome of two recently published bioinformatics tools showed a low level of overlap between putative sRNA genes. Previously, 40 potential sRNAs have been reported to be expressed in a GAS M1T1 serotype, as detected by a whole genome intergenic tiling array approach. Our screen detected 12 putative sRNA genes that were expressed in both strains. Twenty sRNA candidates appeared to be regulated in a medium-dependent fashion, while eight sRNA genes were regulated throughout growth in chemically defined medium. Expression of candidate genes was verified by reverse transcriptase-qPCR. For a subset of sRNAs, the transcriptional start was determined by 5′ rapid amplification of cDNA ends-PCR (RACE-PCR analysis. Conclusions In accord with the results of previous studies, we found little overlap between different screening methods, which underlines the fact that a comprehensive analysis of s

  12. Electromagnetic and Weak transitions in light nuclei

    Energy Technology Data Exchange (ETDEWEB)

    M. Viviani; L.E. Marcucci; A. Kievsky; S. Rosati; R. Schiavilla

    2002-09-01

    Recent advances in the study of the p -- d radiative and mu -- {sup 3}He weak capture processes by our group are presented and discussed. The trinucleon bound and scattering states have been obtained from variational calculations by expanding the corresponding wave functions in terms of correlated hyper-spherical harmonic functions. The electromagnetic and weak transition currents include one- and two-body operators. The accuracy achieved in these calculations allows for interesting comparisons with experimental data.

  13. Model reduction of strong-weak neurons

    OpenAIRE

    Steven James Cox; Bosen eDu; Danny eSorensen

    2014-01-01

    We consider neurons with large dendritic trees that are weakly excitable in the sense that back propagating action potentials are severly attenuated as they travel from the small, strongly excitable, spike initiation zone. In previous work we have shown that the computational size of weakly excitable cell models may be reduced by two or more orders of magnitude, and that the size of strongly excitable models may be reduced by at least one order of magnitude, without sacrificing the spatio–tem...

  14. Agile Software Methodologies: Strength and Weakness

    OpenAIRE

    Dr. Adel Hamdan Mohammad; Dr. Tariq Alwada’n; Dr. Jafar "M.Ali" Ababneh

    2013-01-01

    Agile methodologies are great software development methodologies. No doubt that these methodologies have widespread reputation. The core of agile methodologies is people. Customer and each team member in agiledevelopment teams are the key success or failure factor in agile process. In this paper authors demonstrate strength and weakness points in agile methodologies. Also authors demonstrate how strength and weakness factors can affect the overall results of agile development process.

  15. Weak measurement and the traversal time problem

    OpenAIRE

    Iannaccone, G.

    1996-01-01

    The theory of weak measurement, proposed by Aharonov and coworkers, has been applied by Steinberg to the long-discussed traversal time problem. The uncertainty and ambiguity that characterize this concept from the perspective of von Neumann measurement theory apparently vanish, and joint probabilities and conditional averages become meaningful concepts. We express the Larmor clock and some other well-known methods in the weak measurement formalism. We also propose a method to determine higher...

  16. Drift waves in a weakly ionized plasma

    DEFF Research Database (Denmark)

    Popovic, M.; Melchior, H.

    1968-01-01

    A dispersion relation for low frequency drift waves in a weakly ionized plasma has been derived, and through numerical calculations the effect of collisions between the charged and the neutral particles is estimated.......A dispersion relation for low frequency drift waves in a weakly ionized plasma has been derived, and through numerical calculations the effect of collisions between the charged and the neutral particles is estimated....

  17. Banach空间的弱凸性、光滑性与一致光滑性在Z-空间上的推广%The Promotion of Weak Convexity Smoothness and Uniform Smoothness of Banach Spaces on Z-spaces

    Institute of Scientific and Technical Information of China (English)

    白小净; 魏文展

    2015-01-01

    This paper introduces the concept of smoothness and uniform smoothness and discusses the relationship that strictly convex and smoothness ,uniformly convex and uniform smoothness be‐tween Z-spaces and B-Z-spaces ,and gives the inference equivalence in reflexive B -Z -spaces .At the same time ,it introduces the concept of weak convexity and (E) property ,resulting in the relevant theorer of weak convexity and (E) property .%引入了Z-空间中光滑性与一致光滑性的概念,讨论了在Z -空间及B -Z -空间中严格凸性与光滑性、一致凸性与一致光滑性之间的关系,并且给出了它们在自反的B-Z -空间下等价的若干结果:还引入了B -Z-空间上的弱凸性与(E )性质的概念,得出了弱凸性及(E )性质的相关定理。

  18. Identification of Trichosporon spp. Strains by Sequencing D1/D2 Region and Sub-typing by Sequencing Ribosomal Intergenic Spacer Region of Ribosomal DNA

    Institute of Scientific and Technical Information of China (English)

    Jingsi ZENG; Cristina Maria de Souza Motta; Kazutaka Fukushima; Kayoko Takizawa; Oliane Maria Correia Magalhes; Rejane Pereira Neves; Kazuko Nishimura

    2009-01-01

    To re-identify and further group 25 isolates of Trichosporon spp. identified morphologically previously, sequences of D1/D2 region of large subunit (LSU) of ribosomal DNA (rDNA) of 25 tested strains for identification and those of ribosomal intergenic space 1 (IGS1) region of 11 strains for sub-grouping were detected. The identifications of tested strains were changed except 6 strains. According to the alignment of the IGS1 region, 6 T. asahii isolates tested fell into 4 groups and 5 T. faecale isolates into 3 groups. Polymorphism of 2 T.japonicum isolates was found in 10 positions. With the alignments obtained in this research compared with the relative GenBank entries, it was found that T. asahii, T.faecale and T.japonicum species were divided into 7, 3 and 2 subtypes respectively. Morphological and biophysical methods are not sufficient for Trichosporon spp. identification. Sequencing becomes neces-sary for Trichosporon diagnosis. There is obvious diversity within a species.

  19. Length polymorphisms for intergenic spacer regions of 16S-23S rDNA in members of the new hydrogen-producing bacteria

    Institute of Scientific and Technical Information of China (English)

    2007-01-01

    A method based on PCR amplification of the 16S rRNA gene (rDNA) -23S rDNA intergenic spacer regions (ISR) was developed for the identification of species within the novel group hydrogen-producing anaerobes. The sizes of the PCR products varied from 1264 to 398 bp. Strain of isolate Rennanqilyf 3 was characterized as having products of 1262, 398, 638, 437 and 436 bp. The isolate Rennanqilyf 1 had product of 1264 bp. The isolate Rennanqilyf 13 had products of 1261, 579 and 485 bp. Of the 3 species of the novel group hydrogenproducing anaerobes examined, no one was indistinguishable. Two environmental isolates were identified as hydrogen-producing bacteria, which were new species in present taxon. Rennanqilyf 3 could not be associated With any Clostridium sp. Studied. Rennanqilyf 1 could be classified into Clostridium genus. The combination between 16S rDNA equencing and length polymorphisms of IRS in 16S-23S rDNA is a better method for determining species of the hydrogen-producing bacteria.

  20. Population genetic structure and phylogeographical pattern of a relict tree fern, Alsophila spinulosa (Cyatheaceae), inferred from cpDNA atpB- rbcL intergenic spacers.

    Science.gov (United States)

    Su, Yingjuan; Wang, Ting; Zheng, Bo; Jiang, Yu; Chen, Guopei; Gu, Hongya

    2004-11-01

    Sequences of chloroplast DNA (cpDNA) atpB- rbcL intergenic spacers of individuals of a tree fern species, Alsophila spinulosa, collected from ten relict populations distributed in the Hainan and Guangdong provinces, and the Guangxi Zhuang region in southern China, were determined. Sequence length varied from 724 bp to 731 bp, showing length polymorphism, and base composition was with high A+T content between 63.17% and 63.95%. Sequences were neutral in terms of evolution (Tajima's criterion D=-1.01899, P>0.10 and Fu and Li's test D*=-1.39008, P>0.10; F*=-1.49775, P>0.10). A total of 19 haplotypes were identified based on nucleotide variation. High levels of haplotype diversity (h=0.744) and nucleotide diversity (Dij=0.01130) were detected in A. spinulosa, probably associated with its long evolutionary history, which has allowed the accumulation of genetic variation within lineages. Both the minimum spanning network and neighbor-joining trees generated for haplotypes demonstrated that current populations of A. spinulosa existing in Hainan, Guangdong, and Guangxi were subdivided into two geographical groups. An analysis of molecular variance indicated that most of the genetic variation (93.49%, Phistory. Gene genealogies together with coalescent theory provided significant information for uncovering phylogeography of A. spinulosa.

  1. Ribosomic DNA intergenic spacer 1 region is useful when identifying Candida parapsilosis spp. complex based on high-resolution melting analysis.

    Science.gov (United States)

    Gago, Sara; Alastruey-Izquierdo, Ana; Marconi, Marco; Buitrago, María José; Kerhornou, Arnaud; Kersey, Paul J; Mellado, Emilia; Cuenca-Estrella, Manuel; Rodríguez-Tudela, Juan Luis; Cuesta, Isabel

    2014-07-01

    The epidemiology of Candida parapsilosis and the closely related species C. orthopsilosis and C. metapsilosis has changed in recent years, justify the need to identify this complex at the species level. In this study we investigate the intergenic spacer 1 (IGS1) of the ribosomal DNA (rDNA) to evaluate the utility of this gene region as a phylogenetic molecular marker and the suitability of a high-resolution melting (HRM) strategy based on this region for identification of members of the C. parapsilosis spp. complex. We sequenced the IGS1 and the internal transcribed spacer (ITS) regions of the rDNA from 33 C. parapsilosis sensu lato strains. Although both regions are useful in identifying species, comparative sequence analysis showed that the diversity in the IGS1 region was higher than in the ITS sequences. We also developed an HRM analysis that reliably identifies C. parapsilosis spp. complex based on the amplification of 70 bp in the IGS1 region. All isolates were correctly identified with a confidence interval >98%. Our results demonstrate that HRM analysis based on the IGS1 region is a powerful tool for distinguishing C. parapsilosis from cryptic species.

  2. Bat white-nose syndrome: a real-time TaqMan polymerase chain reaction test targeting the intergenic spacer region of Geomyces destructanstructans.

    Science.gov (United States)

    Muller, Laura K.; Lorch, Jeffrey M.; Lindner, Daniel L.; O'Connor, Michael; Gargas, Andrea; Blehert, David S.

    2013-01-01

    The fungus Geomyces destructans is the causative agent of white-nose syndrome (WNS), a disease that has killed millions of North American hibernating bats. We describe a real-time TaqMan PCR test that detects DNA from G. destructans by targeting a portion of the multicopy intergenic spacer region of the rRNA gene complex. The test is highly sensitive, consistently detecting as little as 3.3 fg of genomic DNA from G. destructans. The real-time PCR test specifically amplified genomic DNA from G. destructans but did not amplify target sequence from 54 closely related fungal isolates (including 43 Geomyces spp. isolates) associated with bats. The test was further qualified by analyzing DNA extracted from 91 bat wing skin samples, and PCR results matched histopathology findings. These data indicate the real-time TaqMan PCR method described herein is a sensitive, specific, and rapid test to detect DNA from G. destructans and provides a valuable tool for WNS diagnostics and research.

  3. Informational redundancy of tRNA(4Ser) and tRNA(7Ser) genes in Drosophila melanogaster and evidence for intergenic recombination.

    Science.gov (United States)

    Leung, J; Sinclair, D A; Hayashi, S; Tener, G M; Grigliatti, T A

    1991-05-20

    Variant tRNA genes have been widely observed in multicellular eukaryotes. Recent biochemical studies have shown that some of them are expressed in a tissue- or a stage-specific manner. These findings would thus imply that certain modified tRNAs may be crucial for the development of the organism. Using Drosophila melanogaster as a model, we have taken a combined genetic and molecular approach to examine critically the possible biological functions of tRNA(4, 7Ser) genes. We showed that at least 50% of the total templates can be deleted from the genome without inducing abnormal phenotypes such as Minute, or a decrease in viability. In addition, two of the tRNASer variant genes that are unique in sequence are also completely dispensable. This strongly implies that even though they may be expressed in vivo, they play no essential role in the development of the fruitfly. By comparison with some of the corresponding tRNA genes in another sibling species, Drosophila erecta, our results suggest strongly that the variants are products non-reciprocal exchanges among the tRNA(4, 7Ser), genes. Such intergenic recombination events may have a major influence in the concerted evolution of the two gene families.

  4. The structure of a single unit of ribosomal RNA gene (rDNA) including intergenic subrepeats in the Australian bulldog ant Myrmecia croslandi (Hymenoptera: Formicidae).

    Science.gov (United States)

    Ohnishi, Hitoshi; Yamamoto, Masa-Toshi

    2004-02-01

    A complete single unit of a ribosomal RNA gene (rDNA) of M. croslandi was sequenced. The ends of the 18S, 5.8S and 28S rRNA genes were determined by using the sequences of D. melanogaster rDNAs as references. Each of the tandemly repeated rDNA units consists of coding and non-coding regions whose arrangement is the same as that of D. melanogaster rDNA. The intergenic spacer (IGS) contains, as in other species, a region with subrepeats, of which the sequences are different from those previously reported in other insect species. The length of IGSs was estimated to be 7-12 kb by genomic Southern hybridization, showing that an rDNA repeating unit of M. croslandi is 14-19 kb-long. The sequences of the coding regions are highly conserved, whereas IGS and ITS (internal transcribed spacer) sequences are not. We obtained clones with insertions of various sizes of R2 elements, the target sequence of which was found in the 28S rRNA coding region. A short segment in the IGS that follows the 3' end of the 28S rRNA gene was predicted to form a secondary structure with long stems.

  5. Enhancing QKD security with weak measurements

    Science.gov (United States)

    Farinholt, Jacob M.; Troupe, James E.

    2016-10-01

    Publisher's Note: This paper, originally published on 10/24/2016, was replaced with a corrected/revised version on 11/8/2016. If you downloaded the original PDF but are unable to access the revision, please contact SPIE Digital Library Customer Service for assistance. In the late 1980s, Aharonov and colleagues developed the notion of a weak measurement of a quantum observable that does not appreciably disturb the system.1, 2 The measurement results are conditioned on both the pre-selected and post-selected state of the quantum system. While any one measurement reveals very little information, by making the same measurement on a large ensemble of identically prepared pre- and post-selected (PPS) states and averaging the results, one may obtain what is known as the weak value of the observable with respect to that PPS ensemble. Recently, weak measurements have been proposed as a method of assessing the security of QKD in the well-known BB84 protocol.3 This weak value augmented QKD protocol (WV-QKD) works by additionally requiring the receiver, Bob, to make a weak measurement of a particular observable prior to his strong measurement. For the subset of measurement results in which Alice and Bob's measurement bases do not agree, the weak measurement results can be used to detect any attempt by an eavesdropper, Eve, to correlate her measurement results with Bob's. Furthermore, the well-known detector blinding attacks, which are known to perfectly correlate Eve's results with Bob's without being caught by conventional BB84 implementations, actually make the eavesdropper more visible in the new WV-QKD protocol. In this paper, we will introduce the WV-QKD protocol and discuss its generalization to the 6-state single qubit protocol. We will discuss the types of weak measurements that are optimal for this protocol, and compare the predicted performance of the 6- and 4-state WV-QKD protocols.

  6. SIMULATION OF SUBGRADE EMBANKMENT ON WEAK BASE

    Directory of Open Access Journals (Sweden)

    V. D. Petrenko

    2015-08-01

    Full Text Available Purpose. This article provides: the question of the sustainability of the subgrade on a weak base is considered in the paper. It is proposed to use the method of jet grouting. Investigation of the possibility of a weak base has an effect on the overall deformation of the subgrade; the identification and optimization of the parameters of subgrade based on studies using numerical simulation. Methodology. The theoretical studies of the stress-strain state of the base and subgrade embankment by modeling in the software package LIRA have been conducted to achieve this goal. Findings. After making the necessary calculations perform building fields of a subsidence, borders cramped thickness, bed’s coefficients of Pasternak and Winkler. The diagrams construction of vertical stress performs at any point of load application. Also, using the software system may perform peer review subsidence, rolls railroad tracks in natural and consolidated basis. Originality. For weak soils is the most appropriate nonlinear model of the base with the existing areas of both elastic and limit equilibrium, mixed problem of the theory of elasticity and plasticity. Practical value. By increasing the load on the weak base as a result of the second track construction, adds embankment or increasing axial load when changing the rolling stock process of sedimentation and consolidation may continue again. Therefore, one of the feasible and promising options for the design and reconstruction of embankments on weak bases is to strengthen the bases with the help of jet grouting. With the expansion of the railway infrastructure, increasing speed and weight of the rolling stock is necessary to ensure the stability of the subgrade on weak bases. LIRA software package allows you to perform all the necessary calculations for the selection of a proper way of strengthening weak bases.

  7. CAUSE AND EFFECT IN PROMOTING A PROJECT

    Directory of Open Access Journals (Sweden)

    SEVERIAN-VLĂDUȚ IACOB

    2013-12-01

    Full Text Available For a project to be considered successful it is necessary, besides a proper coordination, to be also done a good and wide promotion. In view of communication, promotion and maintenance ensures the organization's image. Disturbances occurring in any type of project, as a result of poor promotion, affect the image of the team and highlight the weaknesses in its management. Therefore, the promotion should be permanently monitored and evaluated. Cause-effect analysis is one of the ways we can identify some of nonconformities of the promotion process within a project.

  8. Experimental noiseless linear amplification using weak measurements

    Science.gov (United States)

    Ho, Joseph; Boston, Allen; Palsson, Matthew; Pryde, Geoff

    2016-09-01

    The viability of quantum communication schemes rely on sending quantum states of light over long distances. However, transmission loss can degrade the signal strength, adding noise. Heralded noiseless amplification of a quantum signal can provide a solution by enabling longer direct transmission distances and by enabling entanglement distillation. The central idea of heralded noiseless amplification—a conditional modification of the probability distribution over photon number of an optical quantum state—is suggestive of a parallel with weak measurement: in a weak measurement, learning partial information about an observable leads to a conditional back-action of a commensurate size. Here we experimentally investigate the application of weak, or variable-strength, measurements to the task of heralded amplification, by using a quantum logic gate to weakly couple a small single-optical-mode quantum state (the signal) to an ancilla photon (the meter). The weak measurement is carried out by choosing the measurement basis of the meter photon and, by conditioning on the meter outcomes, the signal is amplified. We characterise the gain of the amplifier as a function of the measurement strength, and use interferometric methods to show that the operation preserves the coherence of the signal.

  9. Weak crystallization theory of metallic alloys

    Science.gov (United States)

    Martin, Ivar; Gopalakrishnan, Sarang; Demler, Eugene A.

    2016-06-01

    Crystallization is one of the most familiar, but hardest to analyze, phase transitions. The principal reason is that crystallization typically occurs via a strongly first-order phase transition, and thus rigorous treatment would require comparing energies of an infinite number of possible crystalline states with the energy of liquid. A great simplification occurs when crystallization transition happens to be weakly first order. In this case, weak crystallization theory, based on unbiased Ginzburg-Landau expansion, can be applied. Even beyond its strict range of validity, it has been a useful qualitative tool for understanding crystallization. In its standard form, however, weak crystallization theory cannot explain the existence of a majority of observed crystalline and quasicrystalline states. Here we extend the weak crystallization theory to the case of metallic alloys. We identify a singular effect of itinerant electrons on the form of weak crystallization free energy. It is geometric in nature, generating strong dependence of free energy on the angles between ordering wave vectors of ionic density. That leads to stabilization of fcc, rhombohedral, and icosahedral quasicrystalline (iQC) phases, which are absent in the generic theory with only local interactions. As an application, we find the condition for stability of iQC that is consistent with the Hume-Rothery rules known empirically for the majority of stable iQC; namely, the length of the primary Bragg-peak wave vector is approximately equal to the diameter of the Fermi sphere.

  10. Weak KAM theory for a weakly coupled system of Hamilton–Jacobi equations

    KAUST Repository

    Figalli, Alessio

    2016-06-23

    Here, we extend the weak KAM and Aubry–Mather theories to optimal switching problems. We consider three issues: the analysis of the calculus of variations problem, the study of a generalized weak KAM theorem for solutions of weakly coupled systems of Hamilton–Jacobi equations, and the long-time behavior of time-dependent systems. We prove the existence and regularity of action minimizers, obtain necessary conditions for minimality, extend Fathi’s weak KAM theorem, and describe the asymptotic limit of the generalized Lax–Oleinik semigroup. © 2016, Springer-Verlag Berlin Heidelberg.

  11. Weak layer fracture: facets and depth hoar

    Directory of Open Access Journals (Sweden)

    I. Reiweger

    2013-09-01

    Full Text Available Understanding failure initiation within weak snow layers is essential for modeling and predicting dry-snow slab avalanches. We therefore performed laboratory experiments with snow samples containing a weak layer consisting of either faceted crystals or depth hoar. During these experiments the samples were loaded with different loading rates and at various tilt angles until fracture. The strength of the samples decreased with increasing loading rate and increasing tilt angle. Additionally, we took pictures of the side of four samples with a high-speed video camera and calculated the displacement using a particle image velocimetry (PIV algorithm. The fracture process within the weak layer could thus be observed in detail. Catastrophic failure started due to a shear fracture just above the interface between the depth hoar layer and the underlying crust.

  12. Weakly isolated horizon information loss paradox

    CERN Document Server

    Chen, Ge-Rui

    2014-01-01

    In this paper we investigate the information loss paradox of weakly isolated horizon(WIH) based on the Parikh and Wilczek's tunneling spectrum. We find that there are correlations among Hawking radiations from weakly isolated horizon, the information can be carried out in terms of correlations between sequential emissions, and the radiation is an entropy conservation process. We generalize Refs.[11-13]' results to a more general spacetime. Through revisiting the calculation of tunneling of weakly isolated horizon, we find that Ref.[12]'s requirement that radiating particles have the same angular momenta of unit mass as that of black hole is not needed, and the energy and angular momenta of emitting particles are very arbitrary, which should be restricted only by keeping the cosmic censorship of black hole.

  13. Revealed Quantum Information in Weak Interaction Processes

    CERN Document Server

    Hiesmayr, B C

    2014-01-01

    We analyze the achievable limits of the quantum information processing of the weak interaction revealed by hyperons with spin. We find that the weak decay process corresponds to an interferometric device with a fixed visibility and fixed phase difference for each hyperon. Nature chooses rather low visibilities expressing a preference to parity conserving or violating processes (except for the decay $\\Sigma^+\\longrightarrow p \\pi^0$). The decay process can be considered as an open quantum channel that carries the information of the hyperon spin to the angular distribution of the momentum of the daughter particles. We find a simple geometrical information theoretic interpretation of this process: two quantization axes are chosen spontaneously with probabilities $\\frac{1\\pm\\alpha}{2}$ where $\\alpha$ is proportional to the visibility times the real part of the phase shift. Differently stated the weak interaction process corresponds to spin measurements with an imperfect Stern-Gerlach apparatus. Equipped with this...

  14. Respiratory muscle weakness in peripheral neuropathies.

    Science.gov (United States)

    Burakgazi, Ahmet Z; Höke, Ahmet

    2010-12-01

    Common peripheral neuropathies do not usually cause diaphragmatic weakness and subsequent respiratory compromise. However, respiratory involvement is relatively common in Guillain-Barré syndrome (GBS). Experience in GBS has led to a standardized approach to manage respiratory problems in peripheral neuropathies. Diaphragmatic weakness is not common in chronic inflammatory demyelinating polyneuropathy and extremely rare in multifocal motor neuropathy. The linkage has been described between certain subtypes of Charcot-Marie-Tooth (CMT) disease such as CMT2C and CMT4B1 and diaphragmatic weakness. A correlation usually has not been found between electrophysiologic findings and clinical respiratory signs or spirometric abnormalities in peripheral neuropathies except in amplitudes of evoked phrenic nerve responses. Careful and frequent assessment of respiratory function by a qualified team of healthcare professionals and physicians is essential. Criteria established for mechanical ventilation in GBS cases may be applied to other peripheral neuropathies with respiratory compromise as necessary.

  15. Evidence for a Lattice Weak Gravity Conjecture

    CERN Document Server

    Heidenreich, Ben; Rudelius, Tom

    2016-01-01

    The Weak Gravity Conjecture postulates the existence of superextremal charged particles, i.e. those with mass smaller than or equal to their charge in Planck units. We present further evidence for our recent observation that in known examples a much stronger statement is true: an infinite tower of superextremal particles of different charges exists. We show that effective Kaluza-Klein field theories and perturbative string vacua respect the Sublattice Weak Gravity Conjecture, namely that a finite index sublattice of the full charge lattice exists with a superextremal particle at each site. In perturbative string theory we show that this follows from modular invariance. However, we present counterexamples to the stronger possibility that a superextremal state exists at every lattice site, including an example in which the lightest charged state is subextremal. The Sublattice Weak Gravity Conjecture has many implications both for abstract theories of quantum gravity and for real-world physics. For instance, it ...

  16. Weak lensing in the Dark Energy Survey

    Science.gov (United States)

    Troxel, Michael

    2016-03-01

    I will present the current status of weak lensing results from the Dark Energy Survey (DES). DES will survey 5000 square degrees in five photometric bands (grizY), and has already provided a competitive weak lensing catalog from Science Verification data covering just 3% of the final survey footprint. I will summarize the status of shear catalog production using observations from the first year of the survey and discuss recent weak lensing science results from DES. Finally, I will report on the outlook for future cosmological analyses in DES including the two-point cosmic shear correlation function and discuss challenges that DES and future surveys will face in achieving a control of systematics that allows us to take full advantage of the available statistical power of our shear catalogs.

  17. The strong side of weak topological insulators

    Science.gov (United States)

    Kraus, Yaacov; Ringel, Zohar; Stern, Ady

    2012-02-01

    Three-dimensional topological insulators are classified into ``strong'' (STI) and ``weak'' (WTI) according to the nature of their surface states. While the surface states of the STI are topologically protected, in the WTI they are believed to be very fragile to disorder. In this work we show that the WTI surface states are actually protected from any random perturbation which does not break time-reversal symmetry, and does not close the bulk energy gap. Consequently, the conductivity of metallic surfaces in the clean system will remain finite even in the presence of strong disorder of this type. In the weak disorder limit the surfaces are perfect metals, and strong surface disorder only acts to push them inwards. We find that WTI's differ from STI's primarily in their anisotropy, and that the anisotropy is not a sign of their weakness but rather of their richness.

  18. No-Hair Theorem for Weak Pulsar

    CERN Document Server

    Gruzinov, Andrei

    2015-01-01

    It is proposed that there exists a class of pulsars, called weak pulsars, for which the large-scale magnetosphere, and hence the gamma-ray emission, are independent of the detailed pattern of plasma production. The weak pulsar magnetosphere and its gamma-ray emission are uniquely determined by just three parameters: spin, dipole, and the spin-dipole angle. We calculate this supposedly unique pulsar magnetosphere in the axisymmetric case. The magnetosphere is found to be very close to (although interestingly not fully identical with) the magnetosphere we have previously calculated, explaining the phenomenological success of the old calculation. We offer only a highly tentative proof of this "Pulsar No-Hair Theorem". Our analytics, while convincing in its non-triviality, is incomplete, and counts only as a plausibility argument. Our numerics, while complete, is dubious. The plasma flow in the weak pulsar magnetosphere turns out to be even more intricate than what we have previously proposed: some particles, aft...

  19. Phase slips in superconducting weak links

    Energy Technology Data Exchange (ETDEWEB)

    Kimmel, Gregory; Glatz, Andreas; Aranson, Igor S.

    2017-01-01

    Superconducting vortices and phase slips are primary mechanisms of dissipation in superconducting, superfluid, and cold-atom systems. While the dynamics of vortices is fairly well described, phase slips occurring in quasi-one- dimensional superconducting wires still elude understanding. The main reason is that phase slips are strongly nonlinear time-dependent phenomena that cannot be cast in terms of small perturbations of the superconducting state. Here we study phase slips occurring in superconducting weak links. Thanks to partial suppression of superconductivity in weak links, we employ a weakly nonlinear approximation for dynamic phase slips. This approximation is not valid for homogeneous superconducting wires and slabs. Using the numerical solution of the time-dependent Ginzburg-Landau equation and bifurcation analysis of stationary solutions, we show that the onset of phase slips occurs via an infinite period bifurcation, which is manifested in a specific voltage-current dependence. Our analytical results are in good agreement with simulations.

  20. An Investigation of Human-Computer Interaction Approaches Beneficial to Weak Learners in Complex Animation Learning

    Science.gov (United States)

    Yeh, Yu-Fang

    2016-01-01

    Animation is one of the useful contemporary educational technologies in teaching complex subjects. There is a growing interest in proper use of learner-technology interaction to promote learning quality for different groups of learner needs. The purpose of this study is to investigate if an interaction approach supports weak learners, who have…

  1. Health Promotion

    DEFF Research Database (Denmark)

    Povlsen, Lene; Borup, I.

    2015-01-01

    In 1953 when the Nordic School of Public Health was founded, the aim of public health programmes was disease prevention more than health promotion. This was not unusual, since at this time health usually was seen as the opposite of disease and illness. However, with the Ottawa Charter of 1986......, the World Health Organization made a crucial change to view health not as a goal in itself but as the means to a full life. In this way, health promotion became a first priority and fundamental action for the modern society. This insight eventually reached NHV and in 2002 - 50 years after the foundation...... - an associate professorship was established with a focus on health promotion. Nevertheless, the concept of health promotion had been integrated with or mentioned in courses run prior to the new post. Subsequently, a wide spectrum of courses in health promotion was introduced, such as Empowerment for Child...

  2. Interpolation for weak Orlicz spaces with M_Δ condition

    Institute of Scientific and Technical Information of China (English)

    2008-01-01

    An interpolation theorem for weak Orlicz spaces generalized by N-functions satisfying MΔ condition is given. It is proved to be true for weak Orlicz martingale spaces by weak atomic decomposition of weak Hardy martingale spaces. And applying the interpolation theorem, we obtain some embedding relationships among weak Orlicz martingale spaces.

  3. Weak Acid Ionization Constants and the Determination of Weak Acid-Weak Base Reaction Equilibrium Constants in the General Chemistry Laboratory

    Science.gov (United States)

    Nyasulu, Frazier; McMills, Lauren; Barlag, Rebecca

    2013-01-01

    A laboratory to determine the equilibrium constants of weak acid negative weak base reactions is described. The equilibrium constants of component reactions when multiplied together equal the numerical value of the equilibrium constant of the summative reaction. The component reactions are weak acid ionization reactions, weak base hydrolysis…

  4. Weak Acid Ionization Constants and the Determination of Weak Acid-Weak Base Reaction Equilibrium Constants in the General Chemistry Laboratory

    Science.gov (United States)

    Nyasulu, Frazier; McMills, Lauren; Barlag, Rebecca

    2013-01-01

    A laboratory to determine the equilibrium constants of weak acid negative weak base reactions is described. The equilibrium constants of component reactions when multiplied together equal the numerical value of the equilibrium constant of the summative reaction. The component reactions are weak acid ionization reactions, weak base hydrolysis…

  5. Dixon's extended bodies and weak gravitational waves

    CERN Document Server

    Bini, Donato; Geralico, Andrea; Ortolan, Antonello

    2009-01-01

    General relativity considers Dixon's theory as the standard theory to deal with the motion of extended bodies in a given gravitational background. We discuss here the features of the "reaction" of an extended body to the passage of a weak gravitational wave. We find that the body acquires a dipolar moment induced by its quadrupole structure. Furthermore, we derive the "world function" for the weak field limit of a gravitational wave background and use it to estimate the deviation between geodesics and the world lines of structured bodies. Measuring such deviations, due to the existence of cumulative effects, should be favorite with respect to measuring the amplitude of the gravitational wave itself.

  6. Landau Weak Crystallization Theory and its Applications

    Science.gov (United States)

    Kats, E. I.

    Aim of this lecture is to explain main features and ingredients of weak first order phase transitions between liquid-like (uniform in space) and solid-like (non-uniform with characteristic wave vector q0) states. We illustrate how this theory (traditionally termed as Landau weak crystallization theory) works. We consider two examples describing universal temperature dependence of shear viscosity in liquids, and so-called main phase transition in membranes. Our results are in a good qualitative agreement with experimental data, offering a deeper understanding of this kind of phase transitions. We discuss also why and where predicted universal effects can be masked.

  7. Simple understanding of quantum weak values

    Science.gov (United States)

    Qin, Lupei; Feng, Wei; Li, Xin-Qi

    2016-02-01

    In this work we revisit the important and controversial concept of quantum weak values, aiming to provide a simplified understanding to its associated physics and the origin of anomaly. Taking the Stern-Gerlach setup as a working system, we base our analysis on an exact treatment in terms of quantum Bayesian approach. We also make particular connection with a very recent work, where the anomaly of the weak values was claimed from the pure statistics in association with “disturbance” and “post-selection”, rather than the unique quantum nature. Our analysis resolves the related controversies through a clear and quantitative way.

  8. Critical level statistics for weakly disordered graphene.

    Science.gov (United States)

    Amanatidis, E; Kleftogiannis, I; Katsanos, D E; Evangelou, S N

    2014-04-16

    In two dimensions chaotic level statistics with the Wigner spacing distribution P(S) is expected for massless fermions in the Dirac region. The obtained P(S) for weakly disordered finite graphene samples with zigzag edges turns out, however, to be neither chaotic (Wigner) nor localized (Poisson). It is similar to the intermediate statistics at the critical point of the Anderson metal-insulator transition. The quantum transport of finite graphene for weak disorder, with critical level statistics can occur via edge states as in topological insulators, and for strong disorder, graphene behaves as an ordinary Anderson insulator with Poisson statistics.

  9. A Weakly Homomorphic Encryption with LDN

    Directory of Open Access Journals (Sweden)

    Chao Feng

    2014-06-01

    Full Text Available As an effective solution to protect the privacy of the data, homomorphic encryption has become a hot research topic. Existing homomorphic schemes are not truly practical due to their huge key size. In this paper, we present a simple weakly homomorphic encryption scheme using only elementary modular arithmetic over the integers rather than working with ideal lattices. Compared with DGHV’s construction, the proposed scheme has shorter public key and ciphertext size. The main appeal of our approach is the conceptual simplicity. We reduce the security of weakly homomorphic scheme to “learning divisor with noise (LDN”

  10. Charged current weak electroproduction of $\\Delta$ resonance

    CERN Document Server

    Alvarez-Ruso, L; Vacas, M J V

    1998-01-01

    We study the weak production of $\\Delta$ (i.e. $e^{-} + p \\to \\Delta^{0}+ energy range corresponding to the Mainz and TJNAF electron accelerators. The differential cross sections $\\sigma(\\theta)$ are found to be of the order of $ 10^{-39}$ cm$^2$/sr, over a range of angles which increases with energy. The possibility of observing these reactions with the high luminosities available at these accelerators, and studying the weak N-$\\Delta$ transition form factors through these reactions is discussed. The production cross section of N$^*(1440)$ in the kinematic region of $\\Delta$ production is also estimated and found to be small.

  11. Students’ Weakness Detective in Traditional Class

    Directory of Open Access Journals (Sweden)

    Fatimah Altuhaifa

    2016-10-01

    Full Text Available In Artificial Intelligent in Education in learning contexts and domains, the traditional classroom is tough to find students’ weakness during lecture due to the student’s number and because the instruction is busy with explaining the lesson. According to that, choosing teaching style that can improve student talent or skills to performs better in their classes or professional life would not be an easy task. This system is going to detect the average of students’ weakness and find either a solution for this or instruction a style that can increase students’ ability and skills by filtering the collection data, understanding the problem. After that, it provides a teaching style.

  12. Compressive wavefront sensing with weak values.

    Science.gov (United States)

    Howland, Gregory A; Lum, Daniel J; Howell, John C

    2014-08-11

    We demonstrate a wavefront sensor that unites weak measurement and the compressive-sensing, single-pixel camera. Using a high-resolution spatial light modulator (SLM) as a variable waveplate, we weakly couple an optical field's transverse-position and polarization degrees of freedom. By placing random, binary patterns on the SLM, polarization serves as a meter for directly measuring random projections of the wavefront's real and imaginary components. Compressive-sensing optimization techniques can then recover the wavefront. We acquire high quality, 256 × 256 pixel images of the wavefront from only 10,000 projections. Photon-counting detectors give sub-picowatt sensitivity.

  13. From Suitable Weak Solutions to Entropy Viscosity

    KAUST Repository

    Guermond, Jean-Luc

    2010-12-16

    This paper focuses on the notion of suitable weak solutions for the three-dimensional incompressible Navier-Stokes equations and discusses the relevance of this notion to Computational Fluid Dynamics. The purpose of the paper is twofold (i) to recall basic mathematical properties of the three-dimensional incompressible Navier-Stokes equations and to show how they might relate to LES (ii) to introduce an entropy viscosity technique based on the notion of suitable weak solution and to illustrate numerically this concept. © 2010 Springer Science+Business Media, LLC.

  14. Weak interactions at high energies. [Lectures, review

    Energy Technology Data Exchange (ETDEWEB)

    Ellis, J.

    1978-08-01

    Review lectures are presented on the phenomenological implications of the modern spontaneously broken gauge theories of the weak and electromagnetic interactions, and some observations are made about which high energy experiments probe what aspects of gauge theories. Basic quantum chromodynamics phenomenology is covered including momentum dependent effective quark distributions, the transverse momentum cutoff, search for gluons as sources of hadron jets, the status and prospects for the spectroscopy of fundamental fermions and how fermions may be used to probe aspects of the weak and electromagnetic gauge theory, studies of intermediate vector bosons, and miscellaneous possibilities suggested by gauge theories from the Higgs bosons to speculations about proton decay. 187 references. (JFP)

  15. Measuring the dark side (with weak lensing)

    CERN Document Server

    Amendola, Luca; Sapone, Domenico

    2007-01-01

    We introduce a convenient parametrization of dark energy models that is general enough to include several modified gravity models and generalized forms of dark energy. In particular we take into account the linear perturbation growth factor, the anisotropic stress and the modified Poisson equation. We discuss the sensitivity of large scale weak lensing surveys like the proposed DUNE satellite to these parameters. We find that a large-scale weak-lensing tomographic survey is able to easily distinguish the Dvali-Gabadadze-Porrati model from LCDM and to determine the perturbation growth index to an absolute error of 0.02-0.03.

  16. Weak Lie symmetry and extended Lie algebra

    Energy Technology Data Exchange (ETDEWEB)

    Goenner, Hubert [Institute for Theoretical Physics, Friedrich-Hund-Platz 1, University of Goettingen, D-37077 Gottingen (Germany)

    2013-04-15

    The concept of weak Lie motion (weak Lie symmetry) is introduced. Applications given exhibit a reduction of the usual symmetry, e.g., in the case of the rotation group. In this context, a particular generalization of Lie algebras is found ('extended Lie algebras') which turns out to be an involutive distribution or a simple example for a tangent Lie algebroid. Riemannian and Lorentz metrics can be introduced on such an algebroid through an extended Cartan-Killing form. Transformation groups from non-relativistic mechanics and quantum mechanics lead to such tangent Lie algebroids and to Lorentz geometries constructed on them (1-dimensional gravitational fields).

  17. A Continuation Method for Weakly Kannan Maps

    Directory of Open Access Journals (Sweden)

    Ariza-Ruiz David

    2010-01-01

    Full Text Available The first continuation method for contractive maps in the setting of a metric space was given by Granas. Later, Frigon extended Granas theorem to the class of weakly contractive maps, and recently Agarwal and O'Regan have given the corresponding result for a certain type of quasicontractions which includes maps of Kannan type. In this note we introduce the concept of weakly Kannan maps and give a fixed point theorem, and then a continuation method, for this class of maps.

  18. A weak balance: the contribution of muscle weakness to postural instability and falls.

    NARCIS (Netherlands)

    Horlings, C.G.; Engelen, B.G.M. van; Allum, J.H.; Bloem, B.R.

    2008-01-01

    Muscle strength is a potentially important factor contributing to postural control. In this article, we consider the influence of muscle weakness on postural instability and falling. We searched the literature for research evaluating muscle weakness as a risk factor for falls in community-dwelling e

  19. What Weak Measurements and Weak Values Really Mean: Reply to Kastner

    Science.gov (United States)

    Cohen, Eliahu

    2017-06-01

    Despite their important applications in metrology and in spite of numerous experimental demonstrations, weak measurements are still confusing for part of the community. This sometimes leads to unjustified criticism. Recent papers have experimentally clarified the meaning and practical significance of weak measurements, yet in Kastner (Found Phys 47:697-707, 2017), Kastner seems to take us many years backwards in the the debate, casting doubt on the very term "weak value" and the meaning of weak measurements. Kastner appears to ignore both the basics and frontiers of weak measurements and misinterprets the weak measurement process and its outcomes. In addition, she accuses the authors of Aharonov et al. (Ann Phys 355:258-268, 2015) in statements completely opposite to the ones they have actually made. There are many points of disagreement between Kastner and us, but in this short reply I will leave aside the ontology (which is indeed interpretational and far more complex than that described by Kastner) and focus mainly on the injustice in her criticism. I shall add some general comments regarding the broader theory of weak measurements and the two-state-vector formalism, as well as supporting experimental results. Finally, I will point out some recent promising results, which can be proven by (strong) projective measurements, without the need of employing weak measurements.

  20. In vivo D-serine deaminase transcription start sites in wild-type Escherichia coli and in dsdA promoter mutants.

    Science.gov (United States)

    Bornstein-Forst, S M; McFall, E; Palchaudhuri, S

    1987-03-01

    The D-serine deaminase structural (dsdA) and regulatory (dsdC) genes are transcribed with opposite polarity from an intergenic region comprising more than 600 base pairs. The order of genes in the dsd region is supN-dsdA-dsdC-aroC---his. The DNA sequence of the intergenic region has been slightly revised from a previously published version (E. McFall and L. Runkel, J. Bacteriol. 154:1508-1512, 1983). The dsdA gene is preceded by a long open reading frame. The dsdA in vivo transcription start sites for the wild type (base pair +1) and for three phenotypically distinct promoter constitutive mutants were determined by the S1 nuclease method. They are identical and are located about 81 base pairs upstream of the translation start site. D-Serine deaminase regulation is normal in rho mutants. Possible mechanisms for dsdA activation are discussed.

  1. Weak monotonicity inequality and partial regularity for harmonic maps

    Institute of Scientific and Technical Information of China (English)

    沈尧天; 严树森

    1999-01-01

    The notion of locally weak monotonicity inequality for weakly harmonic maps is introduced and various results on this class of maps are obtained. For example, the locally weak monotonicity inequality is nearly equivalent to the ε-regularity.

  2. Higgs Boson Production and Weak Boson Structure

    OpenAIRE

    1995-01-01

    The influence of the QCD structure of the weak bosons on the Higgs boson production in $e$-$p$ scattering is studied. The energy and Higgs boson mass dependence of the cross-section, following from the new contributions, is calculated.

  3. Fermi and the Theory of Weak Interactions

    CERN Document Server

    Rajasekaran, G

    2014-01-01

    The history of weak interactions starting with Fermi's creation of the beta decay theory and culminating in its modern avatar in the form of the electroweak gauge theory is described. Discoveries of parity violation, matter-antimatter asymmetry, W and Z bosons and neutrino mass are highlighted.

  4. Studying dark matter haloes with weak lensing

    NARCIS (Netherlands)

    Velander, Malin Barbro Margareta

    2012-01-01

    Our Universe is comprised not only of normal matter but also of unknown components: dark matter and dark energy. This Thesis recounts studies of dark matter haloes, using a technique known as weak gravitational lensing, in order to learn more about the nature of these dark components. The haloes

  5. Modeling, Measuring, and Compensating Color Weak Vision.

    Science.gov (United States)

    Oshima, Satoshi; Mochizuki, Rika; Lenz, Reiner; Chao, Jinhui

    2016-06-01

    We use methods from Riemann geometry to investigate transformations between the color spaces of color-normal and color-weak observers. The two main applications are the simulation of the perception of a color weak observer for a color-normal observer, and the compensation of color images in a way that a color-weak observer has approximately the same perception as a color-normal observer. The metrics in the color spaces of interest are characterized with the help of ellipsoids defined by the just-noticeable-differences between the colors which are measured with the help of color-matching experiments. The constructed mappings are the isometries of Riemann spaces that preserve the perceived color differences for both observers. Among the two approaches to build such an isometry, we introduce normal coordinates in Riemann spaces as a tool to construct a global color-weak compensation map. Compared with the previously used methods, this method is free from approximation errors due to local linearizations, and it avoids the problem of shifting locations of the origin of the local coordinate system. We analyze the variations of the Riemann metrics for different observers obtained from new color-matching experiments and describe three variations of the basic method. The performance of the methods is evaluated with the help of semantic differential tests.

  6. Modelling, Measuring and Compensating Color Weak Vision.

    Science.gov (United States)

    Oshima, Satoshi; Mochizuki, Rika; Lenz, Reiner; Chao, Jinhui

    2016-03-08

    We use methods from Riemann geometry to investigate transformations between the color spaces of color-normal and color weak observers. The two main applications are the simulation of the perception of a color weak observer for a color normal observer and the compensation of color images in a way that a color weak observer has approximately the same perception as a color normal observer. The metrics in the color spaces of interest are characterized with the help of ellipsoids defined by the just-noticable-differences between color which are measured with the help of color-matching experiments. The constructed mappings are isometries of Riemann spaces that preserve the perceived color-differences for both observers. Among the two approaches to build such an isometry, we introduce normal coordinates in Riemann spaces as a tool to construct a global color-weak compensation map. Compared to previously used methods this method is free from approximation errors due to local linearizations and it avoids the problem of shifting locations of the origin of the local coordinate system. We analyse the variations of the Riemann metrics for different observers obtained from new color matching experiments and describe three variations of the basic method. The performance of the methods is evaluated with the help of semantic differential (SD) tests.

  7. TRANSPORTATION INEQUALITIES FOR WEAKLY DEPENDENT SEQUENCES

    Institute of Scientific and Technical Information of China (English)

    Ma Yutao

    2011-01-01

    In[3],they gave necessary and sufficient condition for T1C and then as applications T1C for weakly dependent sequences was established.In this note,based on Gozlan-Léonard characterization for W1H-inequalities,we extends this result to W1Hinequalities.

  8. On Uniform Weak König's Lemma

    DEFF Research Database (Denmark)

    Kohlenbach, Ulrich

    2002-01-01

    is of interest in the context of explicit mathematics as developed by S. Feferman. The elimination process in Kohlenbach [10] actually can be used to eliminate even this uniform weak Konig's lemma provided that PRA only has a quantifier-free rule of extensionality QF-ER instead of the full axioms (E...

  9. Weak organic acid stress in Bacillus subtilis

    NARCIS (Netherlands)

    ter Beek, A.S.

    2009-01-01

    Weak organic acids are commonly used food preservatives that protect food products from bacterial contamination. A variety of spore-forming bacterial species pose a serious problem to the food industry by causing extensive food spoilage or even food poisoning. Understanding the mechanisms of

  10. Quantum trajectories based on the weak value

    Science.gov (United States)

    Mori, Takuya; Tsutsui, Izumi

    2015-04-01

    The notion of the trajectory of an individual particle is strictly inhibited in quantum mechanics because of the uncertainty principle. Nonetheless, the weak value, which has been proposed as a novel and measurable quantity definable to any quantum observable, can offer a possible description of trajectory on account of its statistical nature. In this paper, we explore the physical significance provided by this "weak trajectory" by considering various situations where interference takes place simultaneously with the observation of particles, that is, in prototypical quantum situations for which no classical treatment is available. These include the double slit experiment and Lloyd's mirror, where in the former case it is argued that the real part of the weak trajectory describes an average over the possible classical trajectories involved in the process, and that the imaginary part is related to the variation of interference. It is shown that this average interpretation of the weak trajectory holds universally under the complex probability defined from the given transition process. These features remain essentially unaltered in the case of Lloyd's mirror where interference occurs with a single slit.

  11. Axion monodromy and the weak gravity conjecture

    Energy Technology Data Exchange (ETDEWEB)

    Hebecker, Arthur; Rompineve, Fabrizio [Heidelberg Univ. (Germany). Inst. for Theoretical Physics; Westphal, Alexander [DESY Hamburg (Germany). Theory Group

    2015-12-15

    Axions with broken discrete shift symmetry (axion monodromy) have recently played a central role both in the discussion of inflation and the 'relaxion' approach to the hierarchy problem. We suggest a very minimalist way to constrain such models by the weak gravity conjecture for domain walls: While the electric side of the conjecture is always satisfied if the cosine-oscillations of the axion potential are sufficiently small, the magnetic side imposes a cutoff, Λ{sup 3}∝mfM{sub pl}, independent of the height of these 'wiggles'. We compare our approach with the recent related proposal by Ibanez, Montero, Uranga and Valenzuela. We also discuss the non-trivial question which version, if any, of the weak gravity conjecture for domain walls should hold. In particular, we show that string compactifications with branes of different dimensions wrapped on different cycles lead to a 'geometric weak gravity conjecture' relating volumes of cycles, norms of corresponding forms and the volume of the compact space. Imposing this 'geometric conjecture', e.g. on the basis of the more widely accepted weak gravity conjecture for particles, provides at least some support for the (electric and magnetic) conjecture for domain walls.

  12. Weakly nonlinear density-velocity relation

    CERN Document Server

    Chodorowski, M J; Chodorowski, Michal J; Lokas, Ewa L

    1996-01-01

    We rigorously derive weakly nonlinear relation between cosmic density and velocity fields up to third order in perturbation theory. The density field is described by the mass density contrast, \\de. The velocity field is described by the variable \\te proportional to the velocity divergence, \\te = - f(\\Omega)^{-1} H_0^{-1} \

  13. Studying dark matter haloes with weak lensing

    NARCIS (Netherlands)

    Velander, Malin Barbro Margareta

    2012-01-01

    Our Universe is comprised not only of normal matter but also of unknown components: dark matter and dark energy. This Thesis recounts studies of dark matter haloes, using a technique known as weak gravitational lensing, in order to learn more about the nature of these dark components. The haloes ana

  14. TAUBERIAN THEOREMS FOR WEAK ALMOST CONVERGENT FUNCTIONS

    Institute of Scientific and Technical Information of China (English)

    Meng-Kuang Kuo

    2011-01-01

    The almost convergent function which was introduced by Raimi [6] and dis- cussed by Ho [4], Das and Nanda [2, 3], is the continuous analogue of almost convergent sequences (see [5]). In this paper, we establish the Tauberian conditions and the Cauchy criteria for weak almost convergent functions on R2+.

  15. Collisional properties of weakly bound heteronuclear dimers

    NARCIS (Netherlands)

    Marcelis, B.; Kokkelmans, S.J.J.M.F.; Shlyapnikov, G.V.; Petrov, D.S.

    2008-01-01

    We consider collisional properties of weakly bound heteronuclear molecules (dimers) formed in a two-species mixture of atoms with a large mass difference. We focus on dimers containing light fermionic atoms as they manifest collisional stability due to an effective dimer-dimer repulsion originating

  16. Common Fixed Points for Weakly Compatible Maps

    Indian Academy of Sciences (India)

    Renu Chugh; Sanjay Kumar

    2001-05-01

    The purpose of this paper is to prove a common fixed point theorem, from the class of compatible continuous maps to a larger class of maps having weakly compatible maps without appeal to continuity, which generalized the results of Jungck [3], Fisher [1], Kang and Kim [8], Jachymski [2], and Rhoades [9].

  17. Spurious Shear in Weak Lensing with LSST

    CERN Document Server

    Chang, C; Jernigan, J G; Peterson, J R; AlSayyad, Y; Ahmad, Z; Bankert, J; Bard, D; Connolly, A; Gibson, R R; Gilmore, K; Grace, E; Hannel, M; Hodge, M A; Jee, M J; Jones, L; Krughoff, S; Lorenz, S; Marshall, P J; Marshall, S; Meert, A; Nagarajan, S; Peng, E; Rasmussen, A P; Shmakova, M; Sylvestre, N; Todd, N; Young, M

    2012-01-01

    The Large Synoptic Survey Telescope (LSST) is one of the most powerful ground-based weak lensing survey telescopes in the upcoming decade. The complete 10-year survey will image $\\sim$ 20,000 square degrees of sky in six filter bands every few nights, bringing the final survey depth to $r\\sim27.5$, with over 4 billion well measured galaxies. To take full advantage of this unprecedented statistical power, the systematic errors associated with weak lensing measurements need to be controlled to a level similar to the statistical errors. This work is the first attempt to quantitatively estimate the absolute level and statistical properties of the systematic errors on weak lensing shear measurements due to the most important physical effects in the LSST system via high fidelity ray-tracing simulations. We identify and isolate the different sources of \\textit{additive} systematic errors on shear measurements for LSST and predict their impact on the final cosmic shear measurements using conventional weak lensing ana...

  18. Weak organic acid stress in Bacillus subtilis

    NARCIS (Netherlands)

    ter Beek, A.S.

    2009-01-01

    Weak organic acids are commonly used food preservatives that protect food products from bacterial contamination. A variety of spore-forming bacterial species pose a serious problem to the food industry by causing extensive food spoilage or even food poisoning. Understanding the mechanisms of bacteri

  19. Engineering molecular crystals with abnormally weak cohesion.

    Science.gov (United States)

    Maly, Kenneth E; Gagnon, Eric; Wuest, James D

    2011-05-14

    Adding astutely placed methyl groups to hexaphenylbenzene increases molecular weight but simultaneously weakens key C-H···π interactions, thereby leading to decreased enthalpies of sublimation and showing that materials with abnormally weak cohesion can be made by identifying and then obstructing interactions that help control association.

  20. Efficient bootstrap with weakly dependent processes

    NARCIS (Netherlands)

    Bravo, Francesco; Crudu, Federico

    2012-01-01

    The efficient bootstrap methodology is developed for overidentified moment conditions models with weakly dependent observation. The resulting bootstrap procedure is shown to be asymptotically valid and can be used to approximate the distributions of t-statistics, the J-statistic for overidentifying

  1. Modeling, Measuring, and Compensating Color Weak Vision

    Science.gov (United States)

    Oshima, Satoshi; Mochizuki, Rika; Lenz, Reiner; Chao, Jinhui

    2016-06-01

    We use methods from Riemann geometry to investigate transformations between the color spaces of color-normal and color weak observers. The two main applications are the simulation of the perception of a color weak observer for a color normal observer and the compensation of color images in a way that a color weak observer has approximately the same perception as a color normal observer. The metrics in the color spaces of interest are characterized with the help of ellipsoids defined by the just-noticable-differences between color which are measured with the help of color-matching experiments. The constructed mappings are isometries of Riemann spaces that preserve the perceived color-differences for both observers. Among the two approaches to build such an isometry, we introduce normal coordinates in Riemann spaces as a tool to construct a global color-weak compensation map. Compared to previously used methods this method is free from approximation errors due to local linearizations and it avoids the problem of shifting locations of the origin of the local coordinate system. We analyse the variations of the Riemann metrics for different observers obtained from new color matching experiments and describe three variations of the basic method. The performance of the methods is evaluated with the help of semantic differential (SD) tests.

  2. Strong suppression of weak localization in graphene

    NARCIS (Netherlands)

    Morozov, S.V.; Novoselov, K.S.; Katsnelson, M.I.; Schedin, F.; Ponomarenko, L.A.; Jiang, D.; Geim, A.K.

    2006-01-01

    Low-field magnetoresistance is ubiquitous in low-dimensional metallic systems with high resistivity and well understood as arising due to quantum interference on self-intersecting diffusive trajectories. We have found that in graphene this weak-localization magnetoresistance is strongly suppressed a

  3. The Strengths and Weaknesses of Universal Grammar

    Institute of Scientific and Technical Information of China (English)

    华芳

    2013-01-01

      Chomsky’s universal grammar (UG) has always had a following among certain linguists. This article discusses the strengths and weaknesses of UG in the L2 setting according to its proponents and opponents. The author also evaluates it using Ka⁃plan’s five-point tool and Long’s eight-point measuring stick.

  4. Quantum Signature Scheme with Weak Arbitrator

    Science.gov (United States)

    Luo, Ming-Xing; Chen, Xiu-Bo; Yun, Deng; Yang, Yi-Xian

    2012-07-01

    In this paper, we propose one quantum signature scheme with a weak arbitrator to sign classical messages. This scheme can preserve the merits in the original arbitrated scheme with some entanglement resources, and provide a higher efficiency in transmission and reduction the complexity of implementation. The arbitrator is costless and only involved in the disagreement case.

  5. Efficient bootstrap with weakly dependent processes

    NARCIS (Netherlands)

    Bravo, Francesco; Crudu, Federico

    2012-01-01

    The efficient bootstrap methodology is developed for overidentified moment conditions models with weakly dependent observation. The resulting bootstrap procedure is shown to be asymptotically valid and can be used to approximate the distributions of t-statistics, the J-statistic for overidentifying

  6. [A strong man with a weak shoulder].

    Science.gov (United States)

    Henket, Marjolijn; Lycklama á Nijeholt, Geert J; van der Zwaal, Peer

    2013-01-01

    A 47-year-old former olympic athlete had pain and weakness of his left shoulder. There was no prior trauma. He had full range-of-motion and a scapular dyskinesia. There was atrophy of the trapezius and sternocleidomastoideus muscles. He was diagnosed with 'idiopathic neuritis of the accessorius nerve'.

  7. Quantum mechanical calculations on weakly interacting complexes

    NARCIS (Netherlands)

    Heijmen, T.G.A.

    1998-01-01

    Symmetry-adapted perturbation theory (SAPT) has been applied to compute the intermolecular potential energy surfaces and the interaction-induced electrical properties of weakly interacting complexes. Asymptotic (large R) expressions have been derived for the contributions to the collision-induced pr

  8. On properties of (weakly) small groups

    CERN Document Server

    Milliet, Cédric

    2011-01-01

    A group is small if it has countably many complete $n$-types over the empty set for each natural number n. More generally, a group $G$ is weakly small if it has countably many complete 1-types over every finite subset of G. We show here that in a weakly small group, subgroups which are definable with parameters lying in a finitely generated algebraic closure satisfy the descending chain conditions for their traces in any finitely generated algebraic closure. An infinite weakly small group has an infinite abelian subgroup, which may not be definable. A small nilpotent group is the central product of a definable divisible group with a definable one of bounded exponent. In a group with simple theory, any set of pairwise commuting elements is contained in a definable finite-by-abelian subgroup. First corollary : a weakly small group with simple theory has an infinite definable finite-by-abelian subgoup. Secondly, in a group with simple theory, a normal solvable group A of derived length n is contained in an A-def...

  9. Annihilators on weakly standard BCC-algebras

    OpenAIRE

    R. Halaš; L. Plojhar

    2005-01-01

    In a recent paper the authors presented a new construction of BCC-algebras derived from posets with the top element 1. Resulting BCC-algebras, called weakly standard, are those for which every 4-element subset containing 1 is a subalgebra. In this paper we continue our investigations focusing on the properties of their lattices of congruence kernels.

  10. Legitimacy Building under Weak Institutional Settings

    DEFF Research Database (Denmark)

    Wejs, Anja; Harvold, Kjell; Larsen, Sanne Vammen;

    2014-01-01

    Local strategies for adaptation to climate change in Denmark and Norway are discussed. In both countries, the national impetus for local adaptation is weak; it is largely left to local actors to take the initiative. The dynamics of the different approaches to climate-change adaptation at the loca...

  11. WEAKLY ALGEBRAIC REFLEXIVITY AND STRONGLY ALGEBRAIC REFLEXIVITY

    Institute of Scientific and Technical Information of China (English)

    TaoChangli; LuShijie; ChenPeixin

    2002-01-01

    Algebraic reflexivity introduced by Hadwin is related to linear interpolation. In this paper, the concepts of weakly algebraic reflexivity and strongly algebraic reflexivity which are also related to linear interpolation are introduced. Some properties of them are obtained and some relations between them revealed.

  12. Weak chaos in the asymmetric heavy top

    CERN Document Server

    Barrientos, M; Ranada, A F

    1995-01-01

    We consider the dynamics of the slightly asymmetric heavy top, a non-integrable system obtained from the Lagrange top by breaking the symmetry of its inertia tensor. It shows signs of weak chaos, which we study numerically. We argue that it is a good example for introducing students to non-integrability and chaos. (author)

  13. Solitons and Weakly Nonlinear Waves in Plasmas

    DEFF Research Database (Denmark)

    Pécseli, Hans

    1985-01-01

    Theoretical descriptions of solitons and weakly nonlinear waves propagating in plasma media are reviewed, with particular attention to the Korteweg-de Vries (KDV) equation and the Nonlinear Schrödinger equation (NLS). The modifications of these basic equations due to the effects of resonant...

  14. Many-body chaos at weak coupling

    Science.gov (United States)

    Stanford, Douglas

    2016-10-01

    The strength of chaos in large N quantum systems can be quantified using λ L , the rate of growth of certain out-of-time-order four point functions. We calculate λ L to leading order in a weakly coupled matrix Φ4 theory by numerically diagonalizing a ladder kernel. The computation reduces to an essentially classical problem.

  15. Structural and functional analysis of an asymmetric bidirectional promoter in Arabidopsis thaliana

    Institute of Scientific and Technical Information of China (English)

    Shi-Juan Liu; Qiu-Juan Yue; Wei Zhang

    2015-01-01

    Bidirectional promoters are relatively abundant in eukaryotic genomes, suggesting that they have an important biological significance. As yet, few of these promoters have been characterized in detail. Here, using a promoter::GUS transgene approach has revealed that the intergenic region of Arabidopsis thaliana divergent genes At1g71850 and At1g71860 is an asymmetric bidirectional promoter, which exhibits an orienta-tion-dependent expression profile. The strength of the forward promoter was greater than that of the reverse promoter, and their tissue specificities were not identical. Deletion analyses revealed that this bidirectional promoter could be divided into three functional regions. The basal level and tissue specificity of the promoter in the reverse orientation were regulated positively by region II and negatively by region III, whereas promoter activity in the forward orientation was regulated negatively by region II and positively by region I. Thus the 52-bp stretch of region II had a dual function, enhancing expression in the reverse orientation and suppressing it in the forward orientation. These results demonstrated that the activity of the At1g71850-At1g71860 bidirectional promoter was modulated by complex interactions between both positive and negative cis-acting elements. These findings wil enhance our understanding of the regulatory mechanisms of plant bidirectional promoters.

  16. 关于Weakly Almost Clean环

    Institute of Scientific and Technical Information of China (English)

    孟文静; 陈焕艮

    2015-01-01

    This paper defines weakly almost clean rings .A commutative ring R is a weakly almost clean ring if every element x∈ R can be written in the form x= r+ e or x= r-e where r∈ reg(R) and e∈ Id(R) .Firstly , for a nonempty collection {Ri}of rings Ri ,the product R = ∏ i∈ IRi is weakly almost clean if and only if there exists m∈ I such that Rm is weakly almost clean and Rn is almost clean for all n≠ m .Further ,let R be a ring and M be an R‐module ,the trivial extension R(M) of R and M is weakly almost clean if and only if each x∈ R can be written in the form x= r+ e or x= r-e where r∈ R-(Z(R)∪ Z(M)) and e∈ Id(R) .These extend the corre‐sponding results on almost clean rings .%定义了weakly almost clean环。交换环R叫做weakly almost clean环,如果对于任意一个元素 x ∈ R可以写成 x = r+ e或x = r-e的形式,其中r∈ reg(R)且e∈ Id(R)。首先,对于环Ri的非空集合{Ri},证明了直和R=∏ i∈ IRi为weakly almost clean当且仅当存在 m ∈ I使Rm为weakly almost clean且对所有的n≠ m ,Rn为almost clean 。然后,设R是一个环且 M为一个R‐模,得到了R和M的平凡扩张R(M)为weakly almost clean当且仅当每个 x∈ R可以写成x= r+e或x= r-e的形式,其中 r∈ R-(Z(R)∪ Z(M))且e∈ Id(R)。进而推广了almost clean环的相应结果。

  17. Analysis of the 16S-23S rDNA intergenic spacers (IGSs) of marine vibrios for species-specific signature DNA sequences.

    Science.gov (United States)

    Lee, Simon K Y; Wang, H Z; Law, Sheran H W; Wu, Rudolf S S; Kong, Richard Y C

    2002-05-01

    Vibrios are widespread in the marine environment and a few pathogenic species are known to be commonly associated with outbreaks of diarrheal diseases in humans due to the consumption of raw or improperly cooked seafood. However, there are also many Vibrio species which are potentially pathogenic to vertebrate and invertebrate aquatic animals, and of which little is known. In an attempt to develop rapid PCR detection methods for these latter class of vibrios, we have examined the 16S-23S intergenic spacers (IGSs) of 10 lesser-known Vibrio species and successfully developed species-specific primers for eight of them--Vibrio costicola, V. diazotrophicus, V. fluvialis, V. nigripulchritudo, V. proteolyticus, V. salmonicida, V. splendidus and V. tubiashii. The IGS amplicons were amplified using primers complementary to conserved regions of the 16S and 23S rRNA genes, and cloned into plasmid vectors and sequenced. Analysis of the IGS sequences showed that 37 ribosomal RNA (rrn) operons representing seven different IGS types have been cloned from the 10 vibrios. The three IGS types--IGS(0), IGS(IA) and IGS(Glu)--were the most prevalent forms detected. Multiple alignment of representative sequences of these three IGS types from different Vibrio species revealed several domains of high sequence variability, which were used to design species-specific primers for PCR. The specificity of the primers were evaluated using total DNA prepared from different Vibrio species and bacterial genera. The results showed that the PCR method can be used to reliably detect eight of the 10 Vibrio species in marine waters in this study.

  18. Expression of Trypanosoma cruzi surface antigen FL-160 is controlled by elements in the 3' untranslated, the 3' intergenic, and the coding regions.

    Science.gov (United States)

    Weston, D; La Flamme, A C; Van Voorhis, W C

    1999-07-30

    The FL-160 surface antigen gene family of T. cruzi consists of hundreds of members of 160 kDa glycoproteins expressed in trypomastigotes, but not in epimastigotes. Steady-state levels of FL-160 mRNA were 80 to 100-fold higher in trypomastigotes than in epimastigotes, yet transcription rates were equivalent between the lifecycle stages. Luciferase reporter constructs demonstrated that the 3' untranslated region (UTR) and intergenic region (IR) following the coding sequence of FL-160 was sufficient to generate 8-fold higher luciferase expression in trypomastigotes compared with epimastigotes. Transfection of 3' UTR/IR deletion constructs revealed cis-acting elements which conferred a trypomastigote-specific expression pattern similar to that of FL-160. Parasites treated with translation and transcription inhibitors, cyclohexamide and Actinomycin D, respectively, displayed a stage-specific pattern of FL-160 mRNA degradation. Epimastigotes, but not trypomastigotes, treated with the inhibitors accumulated a 1.4 Kb FL-160 cleavage product. The cleavage site mapped to a 31 base poly-purine tract in the FL-160 coding region. The first 526 aa of FL-160, containing the 31 base poly-purine tract and several smaller tracts, were fused to green fluorescent protein (GFP) and expressed from the T. cruzi tubulin locus. Stable transformants expressed 4-fold more FL-160:GFP fusion mRNA and 12-fold more fusion protein in the trypomastigote stage than in the epimastigote stage suggesting post-transcriptional and translational control elements. These data reveal at least two distinct control mechanisms for trypomastigote-specific expression of FL-160 surface glycoproteins, one involving the 3' UTR/IR and one involving the coding region of FL-160.

  19. Trypanosoma cruzi I genotypes in different geographical regions and transmission cycles based on a microsatellite motif of the intergenic spacer of spliced-leader genes.

    Science.gov (United States)

    Cura, Carolina I; Mejía-Jaramillo, Ana M; Duffy, Tomás; Burgos, Juan M; Rodriguero, Marcela; Cardinal, Marta V; Kjos, Sonia; Gurgel-Gonçalves, Rodrigo; Blanchet, Denis; De Pablos, Luis M; Tomasini, Nicolás; da Silva, Alexandre; Russomando, Graciela; Cuba, Cesar A Cuba; Aznar, Christine; Abate, Teresa; Levin, Mariano J; Osuna, Antonio; Gürtler, Ricardo E; Diosque, Patricio; Solari, Aldo; Triana-Chávez, Omar; Schijman, Alejandro G

    2010-12-01

    The intergenic region of spliced-leader (SL-IR) genes from 105 Trypanosoma cruzi I (Tc I) infected biological samples, culture isolates and stocks from 11 endemic countries, from Argentina to the USA were characterised, allowing identification of 76 genotypes with 54 polymorphic sites from 123 aligned sequences. On the basis of the microsatellite motif proposed by Herrera et al. (2007) to define four haplotypes in Colombia, we could classify these genotypes into four distinct Tc I SL-IR groups, three corresponding to the former haplotypes Ia (11 genotypes), Ib (11 genotypes) and Id (35 genotypes); and one novel group, Ie (19 genotypes). Genotypes harbouring the Tc Ic motif were not detected in our study. Tc Ia was associated with domestic cycles in southern and northern South America and sylvatic cycles in Central and North America. Tc Ib was found in all transmission cycles from Colombia. Tc Id was identified in all transmission cycles from Argentina and Colombia, including Chagas cardiomyopathy patients, sylvatic Brazilian samples and human cases from French Guiana, Panama and Venezuela. Tc Ie gathered five samples from domestic Triatoma infestans from northern Argentina, nine samples from wild Mepraia spinolai and Mepraia gajardoi and two chagasic patients from Chile and one from a Bolivian patient with chagasic reactivation. Mixed infections by Tc Ia+Tc Id, Tc Ia+Tc Ie and Tc Id+Tc Ie were detected in vector faeces and isolates from human and vector samples. In addition, Tc Ia and Tc Id were identified in different tissues from a heart transplanted Chagas cardiomyopathy patient with reactivation, denoting histotropism. Trypanosoma cruzi I SL-IR genotypes from parasites infecting Triatoma gerstaeckeri and Didelphis virginiana from USA, T. infestans from Paraguay, Rhodnius nasutus and Rhodnius neglectus from Brazil and M. spinolai and M. gajardoi from Chile are to our knowledge described for the first time.

  20. Evolution of the rpoB-psbZ region in fern plastid genomes: notable structural rearrangements and highly variable intergenic spacers

    Directory of Open Access Journals (Sweden)

    Su Ying-Juan

    2011-04-01

    Full Text Available Abstract Background The rpoB-psbZ (BZ region of some fern plastid genomes (plastomes has been noted to go through considerable genomic changes. Unraveling its evolutionary dynamics across all fern lineages will lead to clarify the fundamental process shaping fern plastome structure and organization. Results A total of 24 fern BZ sequences were investigated with taxon sampling covering all the extant fern orders. We found that: (i a tree fern Plagiogyria japonica contained a novel gene order that can be generated from either the ancestral Angiopteris type or the derived Adiantum type via a single inversion; (ii the trnY-trnE intergenic spacer (IGS of the filmy fern Vandenboschia radicans was expanded 3-fold due to the tandem 27-bp repeats which showed strong sequence similarity with the anticodon domain of trnY; (iii the trnY-trnE IGSs of two horsetail ferns Equisetum ramosissimum and E. arvense underwent an unprecedented 5-kb long expansion, more than a quarter of which was consisted of a single type of direct repeats also relevant to the trnY anticodon domain; and (iv ycf66 has independently lost at least four times in ferns. Conclusions Our results provided fresh insights into the evolutionary process of fern BZ regions. The intermediate BZ gene order was not detected, supporting that the Adiantum type was generated by two inversions occurring in pairs. The occurrence of Vandenboschia 27-bp repeats represents the first evidence of partial tRNA gene duplication in fern plastomes. Repeats potentially forming a stem-loop structure play major roles in the expansion of the trnY-trnE IGS.

  1. Trypanosoma cruzi I genotypes in different geographic regions and transmission cycles based on a microsatellite motif of the intergenic spacer of spliced leader genes✯

    Science.gov (United States)

    Cura, Carolina I.; Mejía-Jaramillo, Ana M.; Duffy, Tomás; Burgos, Juan M.; Rodriguero, Marcela; Cardinal, Marta V.; Kjos, Sonia; Gurgel-Gonçalves, Rodrigo; Blanchet, Denis; De Pablos, Luis M.; Tomasini, Nicolás; Silva, Alex Da; Russomando, Graciela; Cuba Cuba, Cesar A.; Aznar, Christine; Abate, Teresa; Levin, Mariano J.; Osuna, Antonio; Gürtler, Ricardo E.; Diosque, Patricio; Solari, Aldo; Triana-Chávez, Omar; Schijman, Alejandro G.

    2011-01-01

    The intergenic region of spliced-leader (SL-IR) genes from 105 Trypanosoma cruzi I (Tc I) infected biological samples, culture isolates and stocks from 11 endemic countries, from Argentina to the USA were characterised, allowing identification of 76 genotypes with 54 polymorphic sites from 123 aligned sequences. On the basis of the microsatellite motif proposed by Herrera et al. (2007) to define four haplotypes in Colombia, we could classify these genotypes into four distinct Tc I SL-IR groups, three corresponding to the former haplotypes Ia (11 genotypes), Ib (11 genotypes) and Id (35 genotypes); and one novel group, Ie (19 genotypes). Genotypes harboring the Tc Ic motif were not detected in our study. Tc Ia was associated with domestic cycles in southern and northern South America and sylvatic cycles in Central and North America. Tc Ib was found in all transmission cycles from Colombia. Tc Id was identified in all transmission cycles from Argentina and Colombia, including Chagas cardiomyopathy patients, sylvatic Brazilian samples and human cases from French Guiana, Panama and Venezuela. Tc Ie gathered five samples from domestic Triatoma infestans from northern Argentina, nine samples from wild Mepraia spinolai and Mepraia gajardoi and two chagasic patients from Chile and one from a Bolivian patient with chagasic reactivation. Mixed infections by Tc Ia + Tc Id, Tc Ia + Tc Ie and Tc Id + Tc Ie were detected in vector faeces and isolates from human and vector samples. In addition, Tc Ia and Tc Id were identified in different tissues from a heart transplanted Chagas cardiomyopathy patient with reactivation, denoting histotropism. Trypanosoma cruzi I SL-IR genotypes from parasites infecting Triatoma gerstaeckeri and Didelphis virginiana from USA, T. infestans from Paraguay, Rhodnius nasutus and Rhodnius neglectus from Brazil and M. spinolai and M. gajardoi from Chile are to our knowledge described for the first time. PMID:20670628

  2. Genotypic Characterization of Escherichia coli O157:H7 Isolates from Different Sources in the North-West Province, South Africa, Using Enterobacterial Repetitive Intergenic Consensus PCR Analysis

    Directory of Open Access Journals (Sweden)

    Collins Njie Ateba

    2014-05-01

    Full Text Available In many developing countries, proper hygiene is not strictly implemented when animals are slaughtered and meat products become contaminated. Contaminated meat may contain Escherichia coli (E. coli O157:H7 that could cause diseases in humans if these food products are consumed undercooked. In the present study, a total of 94 confirmed E. coli O157:H7 isolates were subjected to the enterobacterial repetitive intergenic consensus (ERIC polymerase chain reaction (PCR typing to generate genetic fingerprints. The ERIC fragments were resolved by electrophoresis on 2% (w/v agarose gels. The presence, absence and intensity of band data were obtained, exported to Microsoft Excel (Microsoft Office 2003 and used to generate a data matrix. The unweighted pair group method with arithmetic mean (UPGMA and complete linkage algorithms were used to analyze the percentage of similarity and matrix data. Relationships between the various profiles and/or lanes were expressed as dendrograms. Data from groups of related lanes were compiled and reported on cluster tables. ERIC fragments ranged from one to 15 per isolate, and their sizes varied from 0.25 to 0.771 kb. A large proportion of the isolates produced an ERIC banding pattern with three duplets ranging in sizes from 0.408 to 0.628 kb. Eight major clusters (I–VIII were identified. Overall, the remarkable similarities (72% to 91% between the ERIC profiles for the isolate from animal species and their corresponding food products indicated some form of contamination, which may not exclude those at the level of the abattoirs. These results reveal that ERIC PCR analysis can be reliable in comparing the genetic profiles of E. coli O157:H7 from different sources in the North-West Province of South Africa.

  3. BAC-end microsatellites from intra and inter-genic regions of the common bean genome and their correlation with cytogenetic features.

    Directory of Open Access Journals (Sweden)

    Matthew Wohlgemuth Blair

    Full Text Available Highly polymorphic markers such as simple sequence repeats (SSRs or microsatellites are very useful for genetic mapping. In this study novel SSRs were identified in BAC-end sequences (BES from non-contigged, non-overlapping bacterial artificial clones (BACs in common bean (Phaseolus vulgaris L.. These so called "singleton" BACs were from the G19833 Andean gene pool physical map and the new BES-SSR markers were used for the saturation of the inter-gene pool, DOR364×G19833 genetic map. A total of 899 SSR loci were found among the singleton BES, but only 346 loci corresponded to the single di- or tri-nucleotide motifs that were likely to be polymorphic (ATT or AG motifs, principally and useful for primer design and individual marker mapping. When these novel SSR markers were evaluated in the DOR364×G19833 population parents, 136 markers revealed polymorphism and 106 were mapped. Genetic mapping resulted in a map length of 2291 cM with an average distance between markers of 5.2 cM. The new genetic map was compared to the most recent cytogenetic analysis of common bean chromosomes. We found that the new singleton BES-SSR were helpful in filling peri-centromeric spaces on the cytogenetic map. Short genetic distances between some new singleton-derived BES-SSR markers was common showing suppressed recombination in these regions compared to other parts of the genome. The correlation of singleton-derived SSR marker distribution with other cytogenetic features of the bean genome is discussed.

  4. The weak measurement process and the weak value of spin for metastable helium 23S1

    Science.gov (United States)

    Monachello, Vincenzo; Barker, Peter; Flack, Robert; Hiley, Basil

    2016-05-01

    An experiment is being designed and constructed in order to measure the weak value of spin for an atomic system. The principle of the ``weak measurement'' process was first proposed by Aharonov, Albert and Vaidman, and describes a scenario in which a system is weakly coupled to a pointer between well-defined pre- and post-selected states. This experiment will utilise a pulsed supersonic beam of spin-1 metastable Helium (He*) atoms in the 23S1 state. The spin of the pre-selected He* atoms will be weakly coupled to its centre-of-mass. During its flight, the atomic beam will be prepared in a desired quantum state and travel through two inhomogeneous magnets (weak and strong) which both comprise the ``weak measurement'' process. The deviation of the post-selected ms = + 1 state as measured using a micro-channel plate, phosphor screen and CCD camera setup will allow for the determination of the weak value of spin. This poster will report on the methods used and the experimental realisation.

  5. The Q_weak Experimental Apparatus

    CERN Document Server

    Allison, T; Androic, D; Armstrong, D S; Asaturyan, A; Averett, T D; Averill, R; Balewski, J; Beaufait, J; Beminiwattha, R S; Benesch, J; Benmokhtar, F; Bessuille, J; Birchall, J; Bonnell, E; Bowman, J; Brindza, P; Brown, D B; Carlini, R D; Cates, G D; Cavness, B; Clark, G; Cornejo, J C; Dusa, S Covrig; Dalton, M M; Davis, C A; Dean, D C; Deconinck, W; Diefenbach, J; Dow, K; Dowd, J F; Dunne, J A; Dutta, D; Duvall, W S; Echols, J R; Elaasar, M; Falk, W R; Finelli, K D; Finn, J M; Gaskell, D; Gericke, M T W; Grames, J; Gray, V M; Grimm, K; Guo, F; Hansknecht, J; Harrison, D J; Henderson, E; Hoskins, J R; Ihloff, E; Johnston, K; Jones, D; Jones, M; Jones, R; Kargiantoulakis, M; Kelsey, J; Khan, N; King, P M; Korkmaz, E; Kowalski, S; Kubera, A; Leacock, J; Leckey, J P; Lee, A R; Lee, J H; Lee, L; Liang, Y; MacEwan, S; Mack, D; Magee, J A; Mahurin, R; Mammei, J; Martin, J W; McCreary, A; McDonald, M H; McHugh, M J; Medeiros, P; Meekins, D; Mei, J; Michaels, R; Micherdzinska, A; Mkrtchyan, A; Mkrtchyan, H; Morgan, N; Musson, J; Mesick, K E; Narayan, A; Ndukum, L Z; Nelyubin, V; Nuruzzaman,; van Oers, W T H; Opper, A K; Page, S A; Pan, J; Paschke, K D; Phillips, S K; Pitt, M L; Poelker, M; Rajotte, J F; Ramsay, W D; Roberts, W R; Roche, J; Rose, P W; Sawatzky, B; Seva, T; Shabestari, M H; Silwal, R; Simicevic, N; Smith, G R; Sobczynski, S; Solvignon, P; Spayde, D T; Stokes, B; Storey, D W; Subedi, A; Subedi, R; Suleiman, R; Tadevosyan, V; Tobias, W A; Tvaskis, V; Urban, E; Waidyawansa, B; Wang, P; Wells, S P; Wood, S A; Yang, S; Zhamkochyan, S; Zielinski, R B

    2014-01-01

    The Jefferson Lab Q_weak experiment determined the weak charge of the proton by measuring the parity-violating elastic scattering asymmetry of longitudinally polarized electrons from an unpolarized liquid hydrogen target at small momentum transfer. A custom apparatus was designed for this experiment to meet the technical challenges presented by the smallest and most precise ${\\vec{e}}$p asymmetry ever measured. Technical milestones were achieved at Jefferson Lab in target power, beam current, beam helicity reversal rate, polarimetry, detected rates, and control of helicity-correlated beam properties. The experiment employed 180 microA of 89% longitudinally polarized electrons whose helicity was reversed 960 times per second. The electrons were accelerated to 1.16 GeV and directed to a beamline with extensive instrumentation to measure helicity-correlated beam properties that can induce false asymmetries. Moller and Compton polarimetry were used to measure the electron beam polarization to better than 1%. The ...

  6. Universal portfolios generated by weakly stationary processes

    Science.gov (United States)

    Tan, Choon Peng; Pang, Sook Theng

    2014-12-01

    Recently, a universal portfolio generated by a set of independent Brownian motions where a finite number of past stock prices are weighted by the moments of the multivariate normal distribution is introduced and studied. The multivariate normal moments as polynomials in time consequently lead to a constant rebalanced portfolio depending on the drift coefficients of the Brownian motions. For a weakly stationary process, a different type of universal portfolio is proposed where the weights on the stock prices depend only on the time differences of the stock prices. An empirical study is conducted on the returns achieved by the universal portfolios generated by the Ornstein-Uhlenbeck process on selected stock-price data sets. Promising results are demonstrated for increasing the wealth of the investor by using the weakly-stationary-process-generated universal portfolios.

  7. Weak cosmic censorship: as strong as ever.

    Science.gov (United States)

    Hod, Shahar

    2008-03-28

    Spacetime singularities that arise in gravitational collapse are always hidden inside of black holes. This is the essence of the weak cosmic censorship conjecture. The hypothesis, put forward by Penrose 40 years ago, is still one of the most important open questions in general relativity. In this Letter, we reanalyze extreme situations which have been considered as counterexamples to the weak cosmic censorship conjecture. In particular, we consider the absorption of scalar particles with large angular momentum by a black hole. Ignoring back reaction effects may lead one to conclude that the incident wave may overspin the black hole, thereby exposing its inner singularity to distant observers. However, we show that when back reaction effects are properly taken into account, the stability of the black-hole event horizon is irrefutable. We therefore conclude that cosmic censorship is actually respected in this type of gedanken experiments.

  8. A dynamical weak scale from inflation

    Science.gov (United States)

    You, Tevong

    2017-09-01

    Dynamical scanning of the Higgs mass by an axion-like particle during inflation may provide a cosmological component to explaining part of the hierarchy problem. We propose a novel interplay of this cosmological relaxation mechanism with inflation, whereby the backreaction of the Higgs vacuum expectation value near the weak scale causes inflation to end. As Hubble drops, the relaxion's dissipative friction increases relative to Hubble and slows it down enough to be trapped by the barriers of its periodic potential. Such a scenario raises the natural cut-off of the theory up to ~ 1010 GeV, while maintaining a minimal relaxion sector without having to introduce additional scanning scalars or new physics coincidentally close to the weak scale.

  9. The regularization of Old English weak verbs

    Directory of Open Access Journals (Sweden)

    Marta Tío Sáenz

    2015-07-01

    Full Text Available This article deals with the regularization of non-standard spellings of the verbal forms extracted from a corpus. It addresses the question of what the limits of regularization are when lemmatizing Old English weak verbs. The purpose of such regularization, also known as normalization, is to carry out lexicological analysis or lexicographical work. The analysis concentrates on weak verbs from the second class and draws on the lexical database of Old English Nerthus, which has incorporated the texts of the Dictionary of Old English Corpus. As regards the question of the limits of normalization, the solution adopted are, in the first place, that when it is necessary to regularize, normalization is restricted to correspondences based on dialectal and diachronic variation and, secondly, that normalization has to be unidirectional.

  10. Towards weakly constrained double field theory

    Directory of Open Access Journals (Sweden)

    Kanghoon Lee

    2016-08-01

    Full Text Available We show that it is possible to construct a well-defined effective field theory incorporating string winding modes without using strong constraint in double field theory. We show that X-ray (Radon transform on a torus is well-suited for describing weakly constrained double fields, and any weakly constrained fields are represented as a sum of strongly constrained fields. Using inverse X-ray transform we define a novel binary operation which is compatible with the level matching constraint. Based on this formalism, we construct a consistent gauge transform and gauge invariant action without using strong constraint. We then discuss the relation of our result to the closed string field theory. Our construction suggests that there exists an effective field theory description for massless sector of closed string field theory on a torus in an associative truncation.

  11. Weak Convergence Theorems for Nonself Mappings

    Institute of Scientific and Technical Information of China (English)

    Liu Yong-quan; Guo Wei-ping; Ji You-qing

    2015-01-01

    Let E be a real uniformly convex and smooth Banach space, and K be a nonempty closed convex subset of E with P as a sunny nonexpansive retrac-tion. Let T1, T2 : K → E be two weakly inward nonself asymptotically nonexpan-sive mappings with respect to P with a sequence {k(i)n } ⊂ [1,∞) (i = 1, 2), and F := F (T1)∩F (T2) = ∅. An iterative sequence for approximation common fixed points of the two nonself asymptotically nonexpansive mappings is discussed. If E has also a Fr´echet differentiable norm or its dual E∗ has Kadec-Klee property, then weak convergence theorems are obtained.

  12. Model Reduction of Strong-Weak Neurons

    Directory of Open Access Journals (Sweden)

    Steven James Cox

    2014-12-01

    Full Text Available We consider neurons with large dendritic trees that are weakly excitable in the sense that back propagating action potentials are severly attenuated as they travelfrom the small, strongly excitable, spike initiation zone. In previous workwe have shown that the computational size of weakly excitable cell modelsmay be reduced by two or more orders of magnitude, and that the size of stronglyexcitable models may be reduced by at least one order of magnitude,without sacrificing thespatio-temporal nature of its inputs (in the sense we reproduce the cell's precise mapping of inputs to outputs. We combine the best of these twostrategies via a predictor--corrector decomposition scheme andachieve a drastically reduced highly accurate model of a caricature of the neuron responsible for collision detection in the locust.

  13. Model reduction of strong-weak neurons.

    Science.gov (United States)

    Du, Bosen; Sorensen, Danny; Cox, Steven J

    2014-01-01

    We consider neurons with large dendritic trees that are weakly excitable in the sense that back propagating action potentials are severly attenuated as they travel from the small, strongly excitable, spike initiation zone. In previous work we have shown that the computational size of weakly excitable cell models may be reduced by two or more orders of magnitude, and that the size of strongly excitable models may be reduced by at least one order of magnitude, without sacrificing the spatio-temporal nature of its inputs (in the sense we reproduce the cell's precise mapping of inputs to outputs). We combine the best of these two strategies via a predictor-corrector decomposition scheme and achieve a drastically reduced highly accurate model of a caricature of the neuron responsible for collision detection in the locust.

  14. Weak lensing tomography with orthogonal polynomials

    CERN Document Server

    Schaefer, Bjoern Malte

    2011-01-01

    The topic of this article is weak cosmic shear tomography where the line of sight-weighting is carried out with a set of specifically constructed orthogonal polynomials, dubbed TaRDiS (Tomography with orthogonAl Radial Distance polynomIal Systems). We investigate the properties of these polynomials and employ weak convergence spectra, which have been obtained by weighting with these polynomials, for the estimation of cosmological parameters. We quantify their power in constraining parameters in a Fisher-matrix technique and demonstrate how each polynomial projects out statistically independent information, and how the combination of multiple polynomials lifts degeneracies. The assumption of a reference cosmology is needed for the construction of the polynomials, and as a last point we investigate how errors in the construction with a wrong cosmological model propagate to misestimates in cosmological parameters. TaRDiS performs on a similar level as traditional tomographic methods and some key features of tomo...

  15. Weak lensing tomography with orthogonal polynomials

    Science.gov (United States)

    Schäfer, Björn Malte; Heisenberg, Lavinia

    2012-07-01

    The topic of this paper is weak cosmic shear tomography where the line-of-sight weighting is carried out with a set of specifically constructed orthogonal polynomials, dubbed Tomography with Orthogonal Radial Distance Polynomial Systems (TaRDiS). We investigate the properties of these polynomials and employ weak convergence spectra, which have been obtained by weighting with these polynomials, for the estimation of cosmological parameters. We quantify their power in constraining parameters in a Fisher matrix technique and demonstrate how each polynomial projects out statistically independent information, and how the combination of multiple polynomials lifts degeneracies. The assumption of a reference cosmology is needed for the construction of the polynomials, and as a last point we investigate how errors in the construction with a wrong cosmological model propagate to misestimates in cosmological parameters. TaRDiS performs on a similar level as traditional tomographic methods and some key features of tomography are made easier to understand.

  16. Atmospheric dispersion effects in weak lensing measurements

    CERN Document Server

    Plazas, Andrés A

    2012-01-01

    The wavelength dependence of atmospheric refraction causes elongation of finite-bandwidth images along the elevation vector, which produces spurious signals in weak gravitational lensing shear measurements unless this atmospheric dispersion is calibrated and removed to high precision. Because astrometric solutions and point spread function (PSF) characteristics are typically calibrated from stellar images, differences between the reference stars' spectra and the galaxies' spectra will leave residual errors in both the astrometric positions ($\\Delta{\\bar{R}}$) and in the second moment (width) of the wavelength-averaged PSF ($\\Delta{v}$) for galaxies. We estimate the level of $\\Delta{V}$ that will induce spurious weak lensing signals in PSF-corrected galaxy shapes that exceed the statistical errors of the {\\em Dark Energy Survey (DES)} and the {\\em Large Synoptic Survey Telescope (LSST)} cosmic-shear experiments. We also estimate the $\\Delta{\\bar{R}}$ signals that will produce unacceptable spurious distortions ...

  17. Towards weakly constrained double field theory

    Science.gov (United States)

    Lee, Kanghoon

    2016-08-01

    We show that it is possible to construct a well-defined effective field theory incorporating string winding modes without using strong constraint in double field theory. We show that X-ray (Radon) transform on a torus is well-suited for describing weakly constrained double fields, and any weakly constrained fields are represented as a sum of strongly constrained fields. Using inverse X-ray transform we define a novel binary operation which is compatible with the level matching constraint. Based on this formalism, we construct a consistent gauge transform and gauge invariant action without using strong constraint. We then discuss the relation of our result to the closed string field theory. Our construction suggests that there exists an effective field theory description for massless sector of closed string field theory on a torus in an associative truncation.

  18. Shock Wave Dynamics in Weakly Ionized Plasmas

    Science.gov (United States)

    Johnson, Joseph A., III

    1999-01-01

    An investigation of the dynamics of shock waves in weakly ionized argon plasmas has been performed using a pressure ruptured shock tube. The velocity of the shock is observed to increase when the shock traverses the plasma. The observed increases cannot be accounted for by thermal effects alone. Possible mechanisms that could explain the anomalous behavior include a vibrational/translational relaxation in the nonequilibrium plasma, electron diffusion across the shock front resulting from high electron mobility, and the propagation of ion-acoustic waves generated at the shock front. Using a turbulence model based on reduced kinetic theory, analysis of the observed results suggest a role for turbulence in anomalous shock dynamics in weakly ionized media and plasma-induced hypersonic drag reduction.

  19. Asymptotic theory of weakly dependent random processes

    CERN Document Server

    Rio, Emmanuel

    2017-01-01

    Presenting tools to aid understanding of asymptotic theory and weakly dependent processes, this book is devoted to inequalities and limit theorems for sequences of random variables that are strongly mixing in the sense of Rosenblatt, or absolutely regular. The first chapter introduces covariance inequalities under strong mixing or absolute regularity. These covariance inequalities are applied in Chapters 2, 3 and 4 to moment inequalities, rates of convergence in the strong law, and central limit theorems. Chapter 5 concerns coupling. In Chapter 6 new deviation inequalities and new moment inequalities for partial sums via the coupling lemmas of Chapter 5 are derived and applied to the bounded law of the iterated logarithm. Chapters 7 and 8 deal with the theory of empirical processes under weak dependence. Lastly, Chapter 9 describes links between ergodicity, return times and rates of mixing in the case of irreducible Markov chains. Each chapter ends with a set of exercises. The book is an updated and extended ...

  20. Strong side of weak topological insulators

    Science.gov (United States)

    Ringel, Zohar; Kraus, Yaacov E.; Stern, Ady

    2012-07-01

    Three-dimensional topological insulators are classified into “strong” (STI) and “weak” (WTI) according to the nature of their surface states. While the surface states of the STI are topologically protected from localization, this does not hold for the WTI. In this work, we show that the surface states of the WTI are actually protected from any random perturbation that does not break time-reversal symmetry, and does not close the bulk energy gap. Consequently, the conductivity of metallic surfaces in the clean system remains finite even in the presence of strong disorder of this type. In the weak disorder limit, the surfaces are found to be perfect metals, and strong surface disorder only acts to push the metallic surfaces inwards. We find that the WTI differs from the STI primarily in its anisotropy, and that the anisotropy is not a sign of its weakness but rather of its richness.

  1. The Weak Gravity Conjecture in three dimensions

    Energy Technology Data Exchange (ETDEWEB)

    Montero, Miguel [Departamento de Física Teórica, Facultad de Ciencias,Universidad Autónoma de Madrid,Calle Francisco Tomás y Valiente 7, 28049 Madrid (Spain); Instituto de Física Teórica IFT-UAM/CSIC, Campus de Cantoblanco,C/ Nicolás Cabrera 13-15, 28049 Madrid (Spain); Shiu, Gary; Soler, Pablo [Department of Physics, University of Wisconsin-Madison,1150 University Ave, Madison, WI 53706 (United States); Department of Physics & Institute for Advanced Study,Hong Kong University of Science and Technology,Lo Ka Chung Building, Lee Shau Kee Campus, Clear Water Bay (Hong Kong)

    2016-10-28

    We study weakly coupled U(1) theories in AdS{sub 3}, their associated charged BTZ solutions, and their charged spectra. We find that modular invariance of the holographic dual two-dimensional CFT and compactness of the gauge group together imply the existence of charged operators with conformal dimension significantly below the black hole threshold. We regard this as a form of the Weak Gravity Conjecture (WGC) in three dimensions. We also explore the constraints posed by modular invariance on a particular discrete ℤ{sub N} symmetry which arises in our discussion. In this case, modular invariance does not guarantee the existence of light ℤ{sub N}-charged states. We also highlight the differences between our discussion and the usual heuristic arguments for the WGC based on black hole remnants.

  2. Security Weaknesses in Arbitrated Quantum Signature Protocols

    Science.gov (United States)

    Liu, Feng; Zhang, Kejia; Cao, Tianqing

    2014-01-01

    Arbitrated quantum signature (AQS) is a cryptographic scenario in which the sender (signer), Alice, generates the signature of a message and then a receiver (verifier), Bob, can verify the signature with the help of a trusted arbitrator, Trent. In this paper, we point out there exist some security weaknesses in two AQS protocols. Our analysis shows Alice can successfully disavow any of her signatures by a simple attack in the first protocol. Furthermore, we study the security weaknesses of the second protocol from the aspects of forgery and disavowal. Some potential improvements of this kind of protocols are given. We also design a new method to authenticate a signature or a message, which makes AQS protocols immune to Alice's disavowal attack and Bob's forgery attack effectively.

  3. The Weak Gravity Conjecture in three dimensions

    CERN Document Server

    Montero, Miguel; Soler, Pablo

    2016-01-01

    We study weakly coupled $U(1)$ theories in $AdS_3$, their associated charged BTZ solutions, and their charged spectra. We find that modular invariance of the holographic dual two-dimensional CFT and compactness of the gauge group together imply the existence of charged operators with conformal dimension significantly below the black hole threshold. We regard this as a form of the Weak Gravity Conjecture (WGC) in three dimensions. We also explore the constraints posed by modular invariance on a particular discrete $\\mathbb{Z}_N$ symmetry which arises in our discussion. In this case, modular invariance does not guarantee the existence of light $\\mathbb{Z}_N$-charged states. We also highlight the differences between our discussion and the usual heuristic arguments for the WGC based on black hole remnants.

  4. Testing Lorentz invariance in weak decays

    Energy Technology Data Exchange (ETDEWEB)

    Sytema, Auke; Dijck, Elwin; Hoekstra, Steven; Jungmann, Klaus; Mueller, Stefan; Noordmans, Jacob; Onderwater, Gerco; Pijpker, Coen; Timmermans, Rob; Vos, Keri; Willmann, Lorenz; Wilschut, Hans [Van Swinderen Institute, University of Groningen (Netherlands)

    2015-07-01

    Lorentz invariance is the invariance of physical laws under orientations and boosts. It is a key assumption in Special Relativity and the Standard Model of Particle Physics. Several theories unifying General Relativity and Quantum Mechanics allow breaking of Lorentz invariance. At the Van Swinderen Institute in Groningen a theoretical and experimental research program was started to study Lorentz invariance violation (LIV) in weak interactions. The theoretical work allowed a systematic approach to LIV in weak decays. Limits could be set on parameters that quantify LIV. A novel beta decay experiment was designed which tests rotational invariance with respect to the orientation of nuclear spin. In particular, using the isotope {sup 20}Na, the decay rate dependence on the nuclear polarization direction was measured. Searching for sidereal variations, systematic errors can be suppressed. The result of the experiment is presented.

  5. Image Segmentation Using Weak Shape Priors

    CERN Document Server

    Xu, Robert Sheng; Salama, Magdy

    2010-01-01

    The problem of image segmentation is known to become particularly challenging in the case of partial occlusion of the object(s) of interest, background clutter, and the presence of strong noise. To overcome this problem, the present paper introduces a novel approach segmentation through the use of "weak" shape priors. Specifically, in the proposed method, an segmenting active contour is constrained to converge to a configuration at which its geometric parameters attain their empirical probability densities closely matching the corresponding model densities that are learned based on training samples. It is shown through numerical experiments that the proposed shape modeling can be regarded as "weak" in the sense that it minimally influences the segmentation, which is allowed to be dominated by data-related forces. On the other hand, the priors provide sufficient constraints to regularize the convergence of segmentation, while requiring substantially smaller training sets to yield less biased results as compare...

  6. Towards Weakly Constrained Double Field Theory

    CERN Document Server

    Lee, Kanghoon

    2015-01-01

    We show that it is possible to construct a well-defined effective field theory incorporating string winding modes without using strong constraint in double field theory. We show that X-ray (Radon) transform on a torus is well-suited for describing weakly constrained double fields, and any weakly constrained fields are represented as a sum of strongly constrained fields. Using inverse X- ray transform we define a novel binary operation which is compatible with the level matching constraint. Based on this formalism, we construct a consistent gauge transform and gauge invariant action without using strong constraint. We then discuss the relation of our result to the closed string field theory. Our construction suggests that there exists an effective field theory description for massless sector of closed string field theory on a torus in an associative truncation.

  7. Mixed methods for elastodynamics with weak symmetry

    OpenAIRE

    Arnold, Douglas N.; Lee, Jeonghun J.

    2013-01-01

    We analyze the application to elastodynamic problems of mixed finite element methods for elasticity with weak symmetry. Our approach leads to a semidiscrete method which consists of a system of ordinary differential equations without algebraic constraints. Our error analysis, which is based on a new elliptic projection operator, applies to several mixed finite element spaces developed for elastostatics. The error estimates we obtain are robust for nearly incompressible materials.

  8. Nonuniversality of weak synchronization in chaotic systems

    OpenAIRE

    Vieira, M. de Sousa; Lichtenberg, A.J.

    1997-01-01

    We show that the separate properties of weak synchronization (WS) and strong synchronization (SS), reported recently by Pyragas [K. Pyragas, Phys. Rev. E, 54, R4508 (1996)], in unidirectionally coupled chaotic systems, are not generally distinct properties of such systems. In particular, we find analytically for the tent map and numerically for some parameters of the circle map that the transition to WS and SS coincide.

  9. Acute neuromuscular weakness associated with dengue infection

    OpenAIRE

    Harmanjit Singh Hira; Amandeep Kaur; Anuj Shukla

    2012-01-01

    Background: Dengue infections may present with neurological complications. Whether these are due to neuromuscular disease or electrolyte imbalance is unclear. Materials and Methods: Eighty-eight patients of dengue fever required hospitalization during epidemic in year 2010. Twelve of them presented with acute neuromuscular weakness. We enrolled them for study. Diagnosis of dengue infection based on clinical profile of patients, positive serum IgM ELISA, NS1 antigen, and sero-typing. Complete ...

  10. Acute neuromuscular weakness associated with dengue infection

    Directory of Open Access Journals (Sweden)

    Harmanjit Singh Hira

    2012-01-01

    Full Text Available Background: Dengue infections may present with neurological complications. Whether these are due to neuromuscular disease or electrolyte imbalance is unclear. Materials and Methods: Eighty-eight patients of dengue fever required hospitalization during epidemic in year 2010. Twelve of them presented with acute neuromuscular weakness. We enrolled them for study. Diagnosis of dengue infection based on clinical profile of patients, positive serum IgM ELISA, NS1 antigen, and sero-typing. Complete hemogram, kidney and liver functions, serum electrolytes, and creatine phosphokinase (CPK were tested. In addition, two patients underwent nerve conduction velocity (NCV test and electromyography. Results: Twelve patients were included in the present study. Their age was between 18 and 34 years. Fever, myalgia, and motor weakness of limbs were most common presenting symptoms. Motor weakness developed on 2 nd to 4 th day of illness in 11 of 12 patients. In one patient, it developed on 10 th day of illness. Ten of 12 showed hypokalemia. One was of Guillain-Barré syndrome and other suffered from myositis; they underwent NCV and electromyography. Serum CPK and SGOT raised in 8 out of 12 patients. CPK of patient of myositis was 5098 IU. All of 12 patients had thrombocytopenia. WBC was in normal range. Dengue virus was isolated in three patients, and it was of serotype 1. CSF was normal in all. Within 24 hours, those with hypokalemia recovered by potassium correction. Conclusions: It was concluded that the dengue virus infection led to acute neuromuscular weakness because of hypokalemia, myositis, and Guillain-Barré syndrome. It was suggested to look for presence of hypokalemia in such patients.

  11. Precision frequency measurements with interferometric weak values

    CERN Document Server

    Starling, David J; Jordan, Andrew N; Howell, John C; 10.1103/PhysRevA.82.063822

    2011-01-01

    We demonstrate an experiment which utilizes a Sagnac interferometer to measure a change in optical frequency of 129 kHz per root Hz with only 2 mW of continuous wave, single mode input power. We describe the measurement of a weak value and show how even higher frequency sensitivities may be obtained over a bandwidth of several nanometers. This technique has many possible applications, such as precision relative frequency measurements and laser locking without the use of atomic lines.

  12. Synchronization of cardiorhythm by weak external forcing

    Directory of Open Access Journals (Sweden)

    V. S. Anishchenko

    2000-01-01

    Full Text Available We study the possibility to synchronize cardiorhythm of a human by periodic and aperiodic sequences of light and sound pulses. Aperiodic forcing is defined by variation of RR intervals of another subject. Phase locking between cardiorhythm and weak external forcing is detected on finite time intervals. We observe the 1:1 synchronization for periodic forcing and n:m synchronization for aperiodic one.

  13. On weak solutions of random differential inclusions

    Directory of Open Access Journals (Sweden)

    Mariusz Michta

    1995-01-01

    where G is a given set-valued mapping value in the space Kn of all nonempty, compact and convex subsets of the space ℝn, and μ is some probability measure on the Borel σ-algebra in ℝn. Under certain restrictions imposed on F and μ, we obtain weak solutions of problem (I, where the initial condition requires that the solution of (I has a given distribution at time t=0.

  14. On weakly D-differentiable operators

    DEFF Research Database (Denmark)

    Christensen, Erik

    2016-01-01

    Let DD be a self-adjoint operator on a Hilbert space HH and aa a bounded operator on HH. We say that aa is weakly DD-differentiable, if for any pair of vectors ξ,ηξ,η from HH the function 〈eitDae−itDξ,η〉〈eitDae−itDξ,η〉 is differentiable. We give an elementary example of a bounded operator aa, suc...

  15. [Weak signal detection in every heart cycle].

    Science.gov (United States)

    Yuan, J; Xu, X; Gao, D; Shi, G

    2001-12-01

    In this article, a new approach is introduced to lowering the myo-electronic noise in weak ECG signals. We use artificial neural network to make the noise be white, and then we adopt an adaptive filter of which the reference signal is achieved by extracting from other ECG cycle. The outcome is the reduction of both white noise and non-white noise in ECG signal. Satisfactory results have been achieved by using this method in the experiment of late potential detection.

  16. The Weak Expectation Property and Riesz Interpolation

    CERN Document Server

    Kavruk, Ali S

    2012-01-01

    We show that Lance's weak expectation property is connected to tight Riesz interpolations in lattice theory. More precisely we first prove that if A \\subset B(H) is a unital C*-subalgebra, where B(H) is the bounded linear operators on a Hilbert space H, then A has (2,2) tight Riesz interpolation property in B(H) (defined below). An extension of this requires an additional assumption on A: A has (2,3) tight Riesz interpolation property in B(H) at every matricial level if and only if A has the weak expectation property. Let $J = span{(1,1,-1,-1,-1)}$ in $C^5$ . We show that a unital C*-algebra A has the weak expectation property if and only if $A \\otimesmin (C^5/J) = A \\otimesmax (C^5/J)$ (here \\otimesmin and \\otimesmax are the minimal and the maximal operator system tensor products, respectively, and $C^5/J$ is the operator system quotient of $C^5$ by $J$). We express the Kirchberg conjecture (KC) in terms of a four dimensional operator system problem. We prove that KC has an affirmative answer if and only if ...

  17. Heating Cooling Flows with Weak Shock Waves

    CERN Document Server

    Mathews, W G; Brighenti, F

    2006-01-01

    The discovery of extended, approximately spherical weak shock waves in the hot intercluster gas in Perseus and Virgo has precipitated the notion that these waves may be the primary heating process that explains why so little gas cools to low temperatures. This type of heating has received additional support from recent gasdynamical models. We show here that outward propagating, dissipating waves deposit most of their energy near the center of the cluster atmosphere. Consequently, if the gas is heated by (intermittent) weak shocks for several Gyrs, the gas within 30-50 kpc is heated to temperatures that far exceed observed values. This heating can be avoided if dissipating shocks are sufficiently infrequent or weak so as not to be the primary source of global heating. Local PV and viscous heating associated with newly formed X-ray cavities are likely to be small, which is consistent with the low gas temperatures generally observed near the centers of groups and clusters where the cavities are located.

  18. Evidence for a sublattice weak gravity conjecture

    Science.gov (United States)

    Heidenreich, Ben; Reece, Matthew; Rudelius, Tom

    2017-08-01

    The Weak Gravity Conjecture postulates the existence of superextremal charged particles, i.e. those with mass smaller than or equal to their charge in Planck units. We present further evidence for our recent observation that in known examples a much stronger statement is true: an infinite tower of superextremal particles of different charges exists. We show that effective Kaluza-Klein field theories and perturbative string vacua respect the Sublattice Weak Gravity Conjecture, namely that a finite index sublattice of the full charge lattice exists with a superextremal particle at each site. In perturbative string theory we show that this follows from modular invariance. However, we present counterexamples to the stronger possibility that a superextremal particle exists at every lattice site, including an example in which the lightest charged particle is subextremal. The Sublattice Weak Gravity Conjecture has many implications both for abstract theories of quantum gravity and for real-world physics. For instance, it implies that if a gauge group with very small coupling e exists, then the fundamental gravitational cutoff energy of the theory is no higher than ˜ e 1/3 M Pl.

  19. Topic Level Disambiguation for Weak Queries

    Directory of Open Access Journals (Sweden)

    Zhang, Hui

    2013-09-01

    Full Text Available Despite limited success, today's information retrieval (IR systems are not intelligent or reliable. IR systems return poor search results when users formulate their information needs into incomplete or ambiguous queries (i.e., weak queries. Therefore, one of the main challenges in modern IR research is to provide consistent results across all queries by improving the performance on weak queries. However, existing IR approaches such as query expansion are not overly effective because they make little effort to analyze and exploit the meanings of the queries. Furthermore, word sense disambiguation approaches, which rely on textual context, are ineffective against weak queries that are typically short. Motivated by the demand for a robust IR system that can consistently provide highly accurate results, the proposed study implemented a novel topic detection that leveraged both the language model and structural knowledge of Wikipedia and systematically evaluated the effect of query disambiguation and topic-based retrieval approaches on TREC collections. The results not only confirm the effectiveness of the proposed topic detection and topic-based retrieval approaches but also demonstrate that query disambiguation does not improve IR as expected.

  20. Francium Spectroscopy for Weak Interaction Studies

    Science.gov (United States)

    Orozco, Luis

    2014-05-01

    Francium, a radioactive element, is the heaviest alkali. Its atomic and nuclear structure makes it an ideal laboratory to study the weak interaction. Laser trapping and cooling in-line with the superconducting LINAC accelerator at Stony Brook opened the precision study of its atomic structure. I will present our proposal and progress towards weak interaction measurements at TRIUMF, the National Canadian Accelerator in Vancouver. These include the commissioning run of the Francium Trapping Facility, hyperfine anomaly measurements on a chain of Fr isotopes, the nuclear anapole moment through parity non-conserving transitions in the ground state hyperfine manifold. These measurements should shed light on the nucleon-nucleon weak interaction. This work is done by the FrPNC collaboration: S. Aubin College of William and Mary, J. A. Behr TRIUMF, R. Collister U. Manitoba, E. Gomez UASLP, G. Gwinner U. Manitoba, M. R. Pearson TRIUMF, L. A. Orozco UMD, M. Tandecki TRIUMF, J. Zhang UMD Supported by NSF and DOE from the USA; TRIUMF, NRC and NSERC from Canada; and CONACYT from Mexico

  1. Promoting Models

    Science.gov (United States)

    Li, Qin; Zhao, Yongxin; Wu, Xiaofeng; Liu, Si

    There can be multitudinous models specifying aspects of the same system. Each model has a bias towards one aspect. These models often override in specific aspects though they have different expressions. A specification written in one model can be refined by introducing additional information from other models. The paper proposes a concept of promoting models which is a methodology to obtain refinements with support from cooperating models. It refines a primary model by integrating the information from a secondary model. The promotion principle is not merely an academic point, but also a reliable and robust engineering technique which can be used to develop software and hardware systems. It can also check the consistency between two specifications from different models. A case of modeling a simple online shopping system with the cooperation of the guarded design model and CSP model illustrates the practicability of the promotion principle.

  2. Short ultraconserved promoter regions delineate a class of preferentially expressed alternatively spliced transcripts.

    Science.gov (United States)

    Rödelsperger, Christian; Köhler, Sebastian; Schulz, Marcel H; Manke, Thomas; Bauer, Sebastian; Robinson, Peter N

    2009-11-01

    Ultraconservation has been variously defined to describe sequences that have remained identical or nearly so over long periods of evolution to a degree that is higher than expected for sequences under typical constraints associated with protein-coding sequences, splice sites, or transcription factor binding sites. Most intergenic ultraconserved elements (UCE) appear to be tissue-specific enhancers, whereas another class of intragenic UCEs is involved in regulation of gene expression by means of alternative splicing. In this study we define a set of 2827 short ultraconserved promoter regions (SUPR) in 5 kb upstream regions of 1268 human protein-coding genes using a definition of 98% identity for at least 30 bp in 7 mammalian species. Our analysis shows that SUPRs are enriched in genes playing a role in regulation and development. Many of the genes having a SUPR-containing promoter have additional alternative promoters that do not contain SUPRs. Comparison of such promoters by CAGE tag, EST, and Solexa read analysis revealed that SUPR-associated transcripts show a significantly higher mean expression than transcripts associated with non-SUPR-containing promoters. The same was true for the comparison between all SUPR-associated and non-SUPR-associated transcripts on a genome-wide basis. SUPR-associated genes show a highly significant tendency to occur in regions that are also enriched for intergenic short ultraconserved elements (SUE) in the vicinity of developmental genes. A number of predicted transcription factor binding sites (TFBS) are overrepresented in SUPRs and SUEs, including those for transcription factors of the homeodomain family, but in contrast to SUEs, SUPRs are also enriched in core-promoter motifs. These observations suggest that SUPRs delineate a distinct class of ultraconserved sequences.

  3. Policy-based benchmarking of weak heaps and their relatives

    DEFF Research Database (Denmark)

    Bruun, Asger; Edelkamp, Stefan; Katajainen, Jyrki

    2010-01-01

    In this paper we describe an experimental study where we evaluated the practical efficiency of three worst-case efficient priority queues: 1) a weak heap that is a binary tree fulfilling half-heap ordering, 2) a weak queue that is a forest of perfect weak heaps, and 3) a runrelaxed weak queue...

  4. Nuclear Dependence in Weak Structure Functions and the Determination of Weak Mixing Angle

    CERN Document Server

    Athar, M Sajjad; Simo, I Ruiz; Vacas, M J Vicente

    2013-01-01

    We have studied nuclear medium effects in the weak structure functions $F^A_2(x)$ and $F^A_3(x)$ and in the extraction of weak mixing angle using Paschos Wolfenstein(PW) relation. We have modified the PW relation for nonisoscalar nuclear target. We have incorporated the medium effects like Pauli blocking, Fermi motion, nuclear binding energy, nucleon correlations, pion $\\&$ rho cloud contributions, and shadowing and antishadowing effects.

  5. Minor contribution of mutations at iniA codon 501 and embC-embA intergenic region in ethambutol-resistant clinical Mycobacterium tuberculosis isolates in Kuwait

    Directory of Open Access Journals (Sweden)

    Ahmad Suhail

    2009-01-01

    Full Text Available Abstract Background Ethambutol (EMB is a first-line drug for the treatment of tuberculosis (TB. Resistance to EMB in Mycobacterium tuberculosis isolates is mediated by mutations in several genes involved in arabinan synthesis notably three emb (arabinosyl transferase and iniA (isoniazid-inducible genes. Most epidemiologically unrelated EMB-resistant M. tuberculosis strains contain mutations at embB codons 306, 406 and 497, embC-embA intergenic region (IGR and iniA codon 501 (iniA501. Objective To develop a more comprehensive molecular screen for EMB-resistance detectioamong epidemiologically unrelated EMB-resistant M. tuberculosis strains previously analyzed for embB codon 306, 406 and 497 mutations by including analysis of mutations at iniA501 and in embC-embA IGR. Methods Fifty consecutive and phenotypically documented EMB-resistant and 25 pansusceptible M. tuberculosis strains isolated from 75 different TB patients over a four-year period in Kuwait were analyzed. Mutations at iniA501 were detected by PCR amplification followed by restriction fragment length polymorphism (RFLP patterns generated with Hpy 99 I. Direct DNA sequencing was used to confirm RFLP results and for detecting mutations in embC-embA IGR. Results Nearly same number of EMB-resistant M. tuberculosis strains were resistant to EMB alone and EMB together with additional resistance to rifampicin and isoniazid (9 of 50, 18% and 11 of 50, 22%, respectively. All the 25 pansusceptible strains contained wild-type sequences at iniA501 and in embC-embA IGR. The analysis of 50 EMB-resistant M. tuberculosis isolates showed that only one strain contained a mutated iniA501 while no mutation was detected in embC-embA IGR in any of the isolate. Conclusion Analysis of iniA501 and embC-embA IGR in epidemiologically unrelated EMB-resistant M. tuberculosis isolates in Kuwait indicate that mutations at these locations occur very infrequently and their inclusion for the development of a

  6. Upregulated long intergenic noncoding RNA KRT18P55 acts as a novel biomarker for the progression of intestinal-type gastric cancer

    Directory of Open Access Journals (Sweden)

    Ma B

    2016-01-01

    Full Text Available Bin Ma,* Jiajun Wang,* Yongxi Song, Peng Gao, Jingxu Sun, Xiaowan Chen, Yuchong Yang, Zhenning Wang Department of Surgical Oncology and General Surgery, The First Hospital of China Medical University, Shenyang, People’s Republic of China *These authors contributed equally to this work Background: Long noncoding RNAs (lncRNAs with dysregulated expression levels have been investigated in numerous types of different cancer. Whether lncRNAs can predict the progression of gastric cancer (GC still remains largely unclear. The aim of our study was to investigate whether KRT18P55, a novel intergenic lncRNA, can be a predictive biomarker for GC. Methods: To determine the expression levels of KRT18P55 in GC, we evaluated it in five GC cell lines (SGC-7901, MGC-803, BGC-823, AGS, and HG27 and 97 GC tissue samples in comparison with a normal control by quantitative polymerase chain reaction. In addition, the association with patient clinicopathological characteristics was analyzed to identify the clinical significance of KRT18P55. We also used publicly accessible data from The Cancer Genome Atlas (TCGA to further verify the expression levels and clinical significance of KRT18P55. Furthermore, a receiver operating characteristic curve was also conducted to evaluate the diagnostic value of KRT18P55 for GC. Results: A significant upregulation was observed in GC cell lines (P<0.01 and tissue samples (P<0.01. This finding was consistent with the results of 29 pairs of GC tissue samples from TCGA (P<0.01. Additionally, we indicated that the increased expression of KRT18P55 was related to the progression of intestinal type (P=0.032, which was also supported by results of independent GC cohorts from TCGA (P<0.01. However, we did not find significant difference in prognosis between patients with high and low expression of KRT18P55 (P>0.05. Finally, KRT18P55 showed potential diagnostic value for GC with an area under the receiver operating characteristic curve of

  7. Riemann Geometric Color-Weak Compensationfor Individual Observers

    OpenAIRE

    Kojima, Takanori; Mochizuki, Rika; Lenz, Reiner; Chao, Jinhui

    2014-01-01

    We extend a method for color weak compensation based on the criterion of preservation of subjective color differences between color normal and color weak observers presented in [2]. We introduce a new algorithm for color weak compensation using local affine maps between color spaces of color normal and color weak observers. We show howto estimate the local affine map and how to determine correspondences between the origins of local coordinates in color spaces of color normal and color weak ob...

  8. Spurious Shear in Weak Lensing with LSST

    Energy Technology Data Exchange (ETDEWEB)

    Chang, C.; Kahn, S.M.; Jernigan, J.G.; Peterson, J.R.; AlSayyad, Y.; Ahmad, Z.; Bankert, J.; Bard, D.; Connolly, A.; Gibson, R.R.; Gilmore, K.; Grace, E.; Hannel, M.; Hodge, M.A.; Jee, M.J.; Jones, L.; Krughoff, S.; Lorenz, S.; Marshall, P.J.; Marshall, S.; Meert, A.

    2012-09-19

    The complete 10-year survey from the Large Synoptic Survey Telescope (LSST) will image {approx} 20,000 square degrees of sky in six filter bands every few nights, bringing the final survey depth to r {approx} 27.5, with over 4 billion well measured galaxies. To take full advantage of this unprecedented statistical power, the systematic errors associated with weak lensing measurements need to be controlled to a level similar to the statistical errors. This work is the first attempt to quantitatively estimate the absolute level and statistical properties of the systematic errors on weak lensing shear measurements due to the most important physical effects in the LSST system via high fidelity ray-tracing simulations. We identify and isolate the different sources of algorithm-independent, additive systematic errors on shear measurements for LSST and predict their impact on the final cosmic shear measurements using conventional weak lensing analysis techniques. We find that the main source of the errors comes from an inability to adequately characterise the atmospheric point spread function (PSF) due to its high frequency spatial variation on angular scales smaller than {approx} 10{prime} in the single short exposures, which propagates into a spurious shear correlation function at the 10{sup -4}-10{sup -3} level on these scales. With the large multi-epoch dataset that will be acquired by LSST, the stochastic errors average out, bringing the final spurious shear correlation function to a level very close to the statistical errors. Our results imply that the cosmological constraints from LSST will not be severely limited by these algorithm-independent, additive systematic effects.

  9. The magnetosphere under weak solar wind forcing

    Directory of Open Access Journals (Sweden)

    C. J. Farrugia

    2007-02-01

    Full Text Available The Earth's magnetosphere was very strongly disturbed during the passage of the strong shock and the following interacting ejecta on 21–25 October 2001. These disturbances included two intense storms (Dst*≈−250 and −180 nT, respectively. The cessation of this activity at the start of 24 October ushered in a peculiar state of the magnetosphere which lasted for about 28 h and which we discuss in this paper. The interplanetary field was dominated by the sunward component [B=(4.29±0.77, −0.30±0.71, 0.49±0.45 nT]. We analyze global indicators of geomagnetic disturbances, polar cap precipitation, ground magnetometer records, and ionospheric convection as obtained from SuperDARN radars. The state of the magnetosphere is characterized by the following features: (i generally weak and patchy (in time low-latitude dayside reconnection or reconnection poleward of the cusps; (ii absence of substorms; (iii a monotonic recovery from the previous storm activity (Dst corrected for magnetopause currents decreasing from ~−65 to ~−35 nT, giving an unforced decreased of ~1.1 nT/h; (iv the probable absence of viscous-type interaction originating from the Kelvin-Helmholtz (KH instability; (v a cross-polar cap potential of just 20–30 kV; (vi a persistent, polar cap region containing (vii very weak, and sometimes absent, electron precipitation and no systematic inter-hemisphere asymmetry. Whereas we therefore infer the presence of a moderate amount of open flux, the convection is generally weak and patchy, which we ascribe to the lack of solar wind driver. This magnetospheric state approaches that predicted by Cowley and Lockwood (1992 but has never yet been observed.

  10. Planetary migration in weakly magnetized turbulent discs

    Science.gov (United States)

    Baruteau, C.; Fromang, S.; Nelson, R. P.; Masset, F.

    2011-12-01

    In laminar viscous disc models, the migration of protoplanets embedded in their nascent protoplanetary discs may be directed inwards or outwards, depending on the relative magnitude of the Lindblad and corotation torques. The long-term evolution of the corotation torque is intimately related to diffusion processes inside the planet's horseshoe region. This communication examines the properties of the corotation torque in discs where magnetohydrodynamic (MHD) turbulence develops as a result of the magnetorotational instability (MRI), considering a weak initial toroidal magnetic field. We show that the differential Lindblad torque takes very similar values in MHD turbulent and laminar viscous discs, and there exists an unsaturated corotation torque in MHD turbulent discs.

  11. Weak interactions and photoinitiated unimolecular decomposition

    Science.gov (United States)

    Mikhaylichenko, K.; Wittig, C.

    1998-04-01

    Numerical studies have been carried out to examine the applicability of the density of states measured just below dissociation threshold to transition state rate theory. The model system consists of two weakly interacting manifolds of levels, one of which is optically accessible. Both manifolds are coupled to dissociative continua. These studies demonstrate that immediately above reaction threshold, coupling to continua is relatively slow on the time scale of inter-manifold coupling, and it is the mixed manifolds which decay. At higher energies, couplings to continua exceed inter-manifold couplings, and it is the photoexcited bright states which undergo unimolecular decomposition.

  12. Weakly disordered two-dimensional Frenkel excitons

    Science.gov (United States)

    Boukahil, A.; Zettili, Nouredine

    2004-03-01

    We report the results of studies of the optical properties of weakly disordered two- dimensional Frenkel excitons in the Coherent Potential Approximation (CPA). An approximate complex Green's function for a square lattice with nearest neighbor interactions is used in the self-consistent equation to determine the coherent potential. It is shown that the Density of States is very much affected by the logarithmic singularities in the Green's function. Our CPA results are in excellent agreement with previous investigations by Schreiber and Toyozawa using the Monte Carlo simulation.

  13. Neutrino propagation in a weakly magnetized medium

    Indian Academy of Sciences (India)

    Sushan Konar; Subinoy Das

    2004-06-01

    Neutrino—photon processes, forbidden in vacuum, can take place in the presence of a thermal medium and/or an external electro-magnetic field, mediated by the corresponding charged leptons (real or virtual). Such interactions affect the propagation of neutrinos through a magnetized plasma. We investigate the neutrino—photon absorptive processes, at the one-loop level, for massless neutrinos in a weakly magnetized plasma. We find that there is no correction to the absorptive part of the axial-vector—vector amplitude due to the presence of a magnetic field, to the linear order in the field strength.

  14. Are the Weak Measurements Really Measurements?

    Directory of Open Access Journals (Sweden)

    Dmitri Sokolovski

    2013-05-01

    Full Text Available Weak measurements can be seen as an attempt at answering the Which way? question without destroying interference between the pathways involved. Unusual mean values obtained in such measurements represent the response of a quantum system to this forbidden question, in which the true composition of virtual pathways is hidden from the observer. Such values indicate a failure of a measurement where the uncertainty principle says it must fail, rather than provide an additional insight into physical reality.Quanta 2013; 2: 50–57.

  15. Weak $\\eta$ production off the nucleon

    CERN Document Server

    Alam, M Rafi; Athar, M Sajjad; Vacas, M J Vicente

    2013-01-01

    The weak $\\eta$-meson production off the nucleon induced by (anti)neutrinos is studied at low and intermediate energies, the range of interest for several ongoing and future neutrino experiments. We consider Born diagrams and the excitation of $N^\\ast (1535)S_{11}$ and $N^\\ast(1650)S_{11}$ resonances. The vector part of the N-$S_{11}$ transition form factors has been obtained from the MAID helicity amplitudes while the poorly known axial part is constrained with the help of the partial conservation of the axial current (PCAC) and assuming the pion-pole dominance of the pseudoscalar form factor.

  16. Weak η production off the nucleon

    Energy Technology Data Exchange (ETDEWEB)

    Alam, M. Rafi; Athar, M. Sajjad [Department of Physics, Aligarh Muslim University, Aligarh-202 002 (India); Alvarez-Ruso, L.; Vacas, M. J. Vicente [Departamento de Física Teórica and Instituto de Física Corpuscular, Centro Mixto Universidad de Valencia-CSIC, E-46071 Valencia (Spain)

    2015-05-15

    The weak η-meson production off the nucleon induced by (anti)neutrinos is studied at low and intermediate energies, the range of interest for several ongoing and future neutrino experiments. We consider Born diagrams and the excitation of N{sup *} (1535)S{sub 11} and N{sup *} (1650)S{sub 11} resonances. The vector part of the N-S{sub 11} transition form factors has been obtained from the MAID helicity amplitudes while the poorly known axial part is constrained with the help of the partial conservation of the axial current (PCAC) and assuming the pion-pole dominance of the pseudoscalar form factor.

  17. LensTools: Weak Lensing computing tools

    Science.gov (United States)

    Petri, A.

    2016-02-01

    LensTools implements a wide range of routines frequently used in Weak Gravitational Lensing, including tools for image analysis, statistical processing and numerical theory predictions. The package offers many useful features, including complete flexibility and easy customization of input/output formats; efficient measurements of power spectrum, PDF, Minkowski functionals and peak counts of convergence maps; survey masks; artificial noise generation engines; easy to compute parameter statistical inferences; ray tracing simulations; and many others. It requires standard numpy and scipy, and depending on tools used, may require Astropy (ascl:1304.002), emcee (ascl:1303.002), matplotlib, and mpi4py.

  18. Weak Quasi-elastic Production of Hyperons

    CERN Document Server

    Singh, S K

    2006-01-01

    The quasielastic weak production of $\\Lambda$ and $\\Sigma$ hyperons from nucleons and nuclei induced by antineutrinos is studied in the energy region of some ongoing neutrino oscillation experiments in the intermediate energy region. The hyperon nucleon transition form factors determined from neutrino nucleon scattering and an analysis of high precision data on semileptonic decays of neutron and hyperons using SU(3) symmetry have been used. The nuclear effects due to Fermi motion and final state interaction effects due to hyperon nucleon scattering have also been studied. The numerical results for differential and total cross sections have been presented.

  19. Plasma ion stratification by weak planar shocks

    Science.gov (United States)

    Simakov, Andrei N.; Keenan, Brett D.; Taitano, William T.; Chacón, Luis

    2017-09-01

    We derive fluid equations for describing steady-state planar shocks of a moderate strength ( 0 shock Mach number) propagating through an unmagnetized quasineutral collisional plasma comprising two separate ion species. In addition to the standard fluid shock quantities, such as the total mass density, mass-flow velocity, and electron and average ion temperatures, the equations describe shock stratification in terms of variations in the relative concentrations and temperatures of the two ion species along the shock propagation direction. We have solved these equations analytically for weak shocks ( 0 shocks, and they have been used to verify kinetic simulations of shocks in multi-ion plasmas.

  20. Precision frequency measurements with interferometric weak values

    Science.gov (United States)

    Starling, David J.; Dixon, P. Ben; Jordan, Andrew N.; Howell, John C.

    2010-12-01

    We demonstrate an experiment which utilizes a Sagnac interferometer to measure a change in optical frequency of 129 ± 7 kHz/Hz with only 2 mW of continuous-wave, single-mode input power. We describe the measurement of a weak value and show how even higher-frequency sensitivities may be obtained over a bandwidth of several nanometers. This technique has many possible applications, such as precision relative frequency measurements and laser locking without the use of atomic lines.

  1. Weakly bound systems, continuum effects, and reactions

    CERN Document Server

    Jaganathen, Y; Ploszajczak, M

    2012-01-01

    Structure of weakly bound/unbound nuclei close to particle drip lines is different from that around the valley of beta stability. A comprehensive description of these systems goes beyond standard Shell Model and demands an open quantum system description of the nuclear many-body system. We approach this problem using the Gamow Shell Model which provides a fully microscopic description of bound and unbound nuclear states, nuclear decays, and reactions. We present in this paper the first application of the GSM for a description of the elastic and inelastic scattering of protons on 6He.

  2. Weak 'Antigravity' Fields in General Relativity

    CERN Document Server

    Felber, F S

    2005-01-01

    Within the weak-field approximation of general relativity, new exact solutions are derived for the gravitational field of a mass moving with arbitrary velocity and acceleration. Owing to an inertial-pushing effect, a mass having a constant velocity greater than 3^-1/2 times the speed of light gravitationally repels other masses at rest within a narrow cone. At high Lorentz factors (gamma >> 1), the force of repulsion in the forward direction is about -8(gamma^5) times the Newtonian force, offering opportunities for laboratory tests of gravity at extreme velocities.

  3. Resonance phenomena for asymmetric weakly nonlinear oscillator

    Institute of Scientific and Technical Information of China (English)

    钱定边

    2002-01-01

    We establish the coexistence of periodic solution and unbounded solution, the infinity of largeamplitude subharmonics for asymmetric weakly nonlinear oscillator x" + a2x+ - b2x- + h(x) = p(t) with h(±∞) - 0 and xh(x) → +∞(x →∞), assuming that M(τ ) has zeros which are all simple and M(τ ) 0respectively, where M(τ ) is a function related to the piecewise linear equation x" + a2x+ - b2x- = p(t).``

  4. Improved Quantum Signature Scheme with Weak Arbitrator

    Science.gov (United States)

    Su, Qi; Li, Wen-Min

    2013-09-01

    In this paper, we find a man-in-the-middle attack on the quantum signature scheme with a weak arbitrator (Luo et al., Int. J. Theor. Phys., 51:2135, 2012). In that scheme, the authors proposed a quantum signature based on quantum one way function which contains both verifying the signer phase and verifying the signed message phase. However, after our analysis we will show that Eve can adopt different strategies in respective phases to forge the signature without being detected. Then we present an improved scheme to increase the security.

  5. Strong holism, weak holism, and health.

    Science.gov (United States)

    Täljedal, Inge-Bert

    2004-01-01

    The health theories of Nordenfelt and Boorse are compared. Critical attention is focused on Nordenfelt's description of his theory as one of holistic welfare, contrasting with Boorse's analytical and statistical approach. Neither theory is found to give an entirely satisfactory account of 'health' in scientific medicine or common usage. Because Nordenfelt attenuates the ontological significance of organs and organ parts and simplifies the role of statistics, his theory is regarded as weakly holistic. Boorse underrates the importance of non-statistical evaluation. A mediating position, termed 'strong holism' is suggested as a way of integrating normative and statistical elements in a more adequate health concept.

  6. Dynamical Model of Weak Pion Production Reactions

    CERN Document Server

    Sato, T; Lee, T S H

    2003-01-01

    The dynamical model of pion electroproduction has been extended to investigate the weak pion production reactions. The predicted cross sections of neutrino-induced pion production reactions are in good agreement with the existing data. We show that the renormalized(dressed) axial N-$\\Delta$ form factor contains large dynamical pion cloud effects and this renormalization effects are crucial in getting agreement with the data. We conclude that the N-$\\Delta$ transitions predicted by the constituent quark model are consistent with the existing neutrino induced pion production data in the $\\Delta$ region.

  7. Infrared spectroscopy of weakly bound molecular ions

    Energy Technology Data Exchange (ETDEWEB)

    Yeh, Lisa I-Ching

    1988-11-01

    The infrared spectra of a series of hydrated hydronium cluster ions and of protonated ethane ion are presented. A tandem mass spectrometer is ideally suited to obtaining the spectra of such weakly bound molecular ions. Traditional absorption spectroscopy is not feasible in these situations, so the techniques described in this thesis make use of some consequence of photon absorption with higher sensitivity than simply attenuation of laser power. That consequence is dissociation. By first mass selecting the parent ion under study and then mass selecting the fragment ion formed from dissociation, the near unit detection efficiency of ion counting methods has been used to full advantage.

  8. Parametric Amplification For Detecting Weak Optical Signals

    Science.gov (United States)

    Hemmati, Hamid; Chen, Chien; Chakravarthi, Prakash

    1996-01-01

    Optical-communication receivers of proposed type implement high-sensitivity scheme of optical parametric amplification followed by direct detection for reception of extremely weak signals. Incorporates both optical parametric amplification and direct detection into optimized design enhancing effective signal-to-noise ratios during reception in photon-starved (photon-counting) regime. Eliminates need for complexity of heterodyne detection scheme and partly overcomes limitations imposed on older direct-detection schemes by noise generated in receivers and by limits on quantum efficiencies of photodetectors.

  9. Asociación del intervalo intergenésico y la morbimortalidad materno fetal en el Hospital María Auxiliadora de San Juan de Miraflores, Lima. 2014

    OpenAIRE

    Huamaní Cueto, Silvia Constanza

    2015-01-01

    Determina la asociación del intervalo intergenésico sobre la morbilidad materno fetal en el Hospital María Auxiliadora, 2014. Material y métodos: estudio descriptivo correlacional y retrospectivo; la muestra estuvo conformada por 7631 historias clínicas de gestantes que dieron parto, y cuyo embarazo finalizó en un nacido vivo o muerto; se estudió 3138 historias clínicas de gestantes divididas en intervalos según criterios de inclusión. Los datos fueron obtenidos del Sistema Informático Perina...

  10. Phylogenetic and biogeographic implications inferred by mitochondrial intergenic region analyses and ITS1-5.8S-ITS2 of the entomopathogenic fungi Beauveria bassiana and B. brongniartii

    Directory of Open Access Journals (Sweden)

    Typas Milton A

    2010-06-01

    Full Text Available Abstract Background The entomopathogenic fungi of the genus Beauveria are cosmopolitan with a variety of different insect hosts. The two most important species, B. bassiana and B. brongniartii, have already been used as biological control agents of pests in agriculture and as models for the study of insect host - pathogen interactions. Mitochondrial (mt genomes, due to their properties to evolve faster than the nuclear DNA, to contain introns and mobile elements and to exhibit extended polymorphisms, are ideal tools to examine genetic diversity within fungal populations and genetically identify a species or a particular isolate. Moreover, mt intergenic region can provide valuable phylogenetic information to study the biogeography of the fungus. Results The complete mt genomes of B. bassiana (32,263 bp and B. brongniartii (33,920 bp were fully analysed. Apart from a typical gene content and organization, the Beauveria mt genomes contained several introns and had longer intergenic regions when compared with their close relatives. The phylogenetic diversity of a population of 84 Beauveria strains -mainly B. bassiana (n = 76 - isolated from temperate, sub-tropical and tropical habitats was examined by analyzing the nucleotide sequences of two mt intergenic regions (atp6-rns and nad3-atp9 and the nuclear ITS1-5.8S-ITS2 domain. Mt sequences allowed better differentiation of strains than the ITS region. Based on mt and the concatenated dataset of all genes, the B. bassiana strains were placed into two main clades: (a the B. bassiana s. l. and (b the "pseudobassiana". The combination of molecular phylogeny with criteria of geographic and climatic origin showed for the first time in entomopathogenic fungi, that the B. bassiana s. l. can be subdivided into seven clusters with common climate characteristics. Conclusions This study indicates that mt genomes and in particular intergenic regions provide molecular phylogeny tools that combined with criteria of

  11. A comparison of weak-turbulence and PIC simulations of weak electron-beam plasma interaction

    CERN Document Server

    Ratcliffe, Heather; Rozenan, Mohammed B Che; Nakariakov, Valery

    2014-01-01

    Quasilinear theory has long been used to treat the problem of a weak electron beam interacting with plasma and generating Langmuir waves. Its extension to weak-turbulence theory treats resonant interactions of these Langmuir waves with other plasma wave modes, in particular ion-sound waves. These are strongly damped in plasma of equal ion and electron temperatures, as sometimes seen in, for example, the solar corona and wind. Weak turbulence theory is derived in the weak damping limit, with a term describing ion-sound wave damping then added. In this paper we use the EPOCH particle-in-cell code to numerically test weak turbulence theory for a range of electron-ion temperature ratios. We find that in the cold ion limit the results agree well, but increasing ion temperature the three-wave resonance becomes broadened in proportion to the ion-sound wave damping rate. This may be important in, for example, the theory of solar radio bursts, where the spectrum of Langmuir waves is critical. Additionally we establish...

  12. Weak Completeness of Coalgebraic Dynamic Logics

    Directory of Open Access Journals (Sweden)

    Helle Hvid Hansen

    2015-09-01

    Full Text Available We present a coalgebraic generalisation of Fischer and Ladner's Propositional Dynamic Logic (PDL and Parikh's Game Logic (GL. In earlier work, we proved a generic strong completeness result for coalgebraic dynamic logics without iteration. The coalgebraic semantics of such programs is given by a monad T, and modalities are interpreted via a predicate lifting λ whose transpose is a monad morphism from T to the neighbourhood monad. In this paper, we show that if the monad T carries a complete semilattice structure, then we can define an iteration construct, and suitable notions of diamond-likeness and box-likeness of predicate-liftings which allows for the definition of an axiomatisation parametric in T, λ and a chosen set of pointwise program operations. As our main result, we show that if the pointwise operations are "negation-free" and Kleisli composition left-distributes over the induced join on Kleisli arrows, then this axiomatisation is weakly complete with respect to the class of standard models. As special instances, we recover the weak completeness of PDL and of dual-free Game Logic. As a modest new result we obtain completeness for dual-free GL extended with intersection (demonic choice of games.

  13. Baryons, Neutrinos, Feedback and Weak Gravitational Lensing

    CERN Document Server

    Harnois-Déraps, Joachim; Viola, Massimo; Heymans, Catherine

    2014-01-01

    (Abridged) The effect of baryonic feedback on the dark matter mass distribution is generally considered to be a nuisance to weak gravitational lensing. Measurements of cosmological parameters are affected as feedback alters the cosmic shear signal on angular scales smaller than a few arcminutes. Recent progress on the numerical modelling of baryon physics has shown that this effect could be so large that, rather than being a nuisance, the effect can be constrained with current weak lensing surveys, hence providing an alternative astrophysical insight on one of the most challenging questions of galaxy formation. In order to perform our analysis, we construct an analytic fitting formula that describes the effect of the baryons on the mass power spectrum. This fitting formula is based on three scenarios of the OWL hydrodynamical simulations. It is specifically calibrated for $z<1.5$, where it models the simulations to an accuracy that is better than $2\\%$ for scales $k<10 h\\mbox{Mpc}^{-1}$ and better than ...

  14. Conformational transitions of a weak polyampholyte

    KAUST Repository

    Narayanan Nair, Arun Kumar

    2014-10-07

    Using grand canonical Monte Carlo simulations of a flexible polyelectrolyte where the charges are in contact with a reservoir of constant chemical potential given by the solution pH, we study the behavior of weak polyelectrolytes in poor and good solvent conditions for polymer backbone. We address the titration behavior and conformational properties of a flexible diblock polyampholyte chain formed of two oppositely charged weak polyelectrolyte blocks, each containing equal number of identical monomers. The change of solution pH induces charge asymmetry in a diblock polyampholyte. For diblock polyampholyte chains in poor solvents, we demonstrate that a discontinuous transition between extended (tadpole) and collapsed (globular) conformational states is attainable by varying the solution pH. The double-minima structure in the probability distribution of the free energy provides direct evidence for the first-order like nature of this transition. At the isoelectric point electrostatically driven coil-globule transition of diblock polyampholytes in good solvents is found to consist of different regimes identified with increasing electrostatic interaction strength. At pH values above or below the isoelectric point diblock chains are found to have polyelectrolyte-like behavior due to repulsion between uncompensated charges along the chain.

  15. Weak Scale From the Maximum Entropy Principle

    CERN Document Server

    Hamada, Yuta; Kawana, Kiyoharu

    2015-01-01

    The theory of multiverse and wormholes suggests that the parameters of the Standard Model are fixed in such a way that the radiation of the $S^{3}$ universe at the final stage $S_{rad}$ becomes maximum, which we call the maximum entropy principle. Although it is difficult to confirm this principle generally, for a few parameters of the Standard Model, we can check whether $S_{rad}$ actually becomes maximum at the observed values. In this paper, we regard $S_{rad}$ at the final stage as a function of the weak scale ( the Higgs expectation value ) $v_{h}$, and show that it becomes maximum around $v_{h}={\\cal{O}}(300\\text{GeV})$ when the dimensionless couplings in the Standard Model, that is, the Higgs self coupling, the gauge couplings, and the Yukawa couplings are fixed. Roughly speaking, we find that the weak scale is given by \\begin{equation} v_{h}\\sim\\frac{T_{BBN}^{2}}{M_{pl}y_{e}^{5}},\

  16. Weak scale from the maximum entropy principle

    Science.gov (United States)

    Hamada, Yuta; Kawai, Hikaru; Kawana, Kiyoharu

    2015-03-01

    The theory of the multiverse and wormholes suggests that the parameters of the Standard Model (SM) are fixed in such a way that the radiation of the S3 universe at the final stage S_rad becomes maximum, which we call the maximum entropy principle. Although it is difficult to confirm this principle generally, for a few parameters of the SM, we can check whether S_rad actually becomes maximum at the observed values. In this paper, we regard S_rad at the final stage as a function of the weak scale (the Higgs expectation value) vh, and show that it becomes maximum around vh = {{O}} (300 GeV) when the dimensionless couplings in the SM, i.e., the Higgs self-coupling, the gauge couplings, and the Yukawa couplings are fixed. Roughly speaking, we find that the weak scale is given by vh ˜ T_{BBN}2 / (M_{pl}ye5), where ye is the Yukawa coupling of electron, T_BBN is the temperature at which the Big Bang nucleosynthesis starts, and M_pl is the Planck mass.

  17. Quantum counterfactual communication without a weak trace

    Science.gov (United States)

    Arvidsson-Shukur, D. R. M.; Barnes, C. H. W.

    2016-12-01

    The classical theories of communication rely on the assumption that there has to be a flow of particles from Bob to Alice in order for him to send a message to her. We develop a quantum protocol that allows Alice to perceive Bob's message "counterfactually"; that is, without Alice receiving any particles that have interacted with Bob. By utilizing a setup built on results from interaction-free measurements, we outline a communication protocol whereby the information travels in the opposite direction of the emitted particles. In comparison to previous attempts on such protocols, this one is such that a weak measurement at the message source would not leave a weak trace that could be detected by Alice's receiver. While some interaction-free schemes require a large number of carefully aligned beam splitters, our protocol is realizable with two or more beam splitters. We demonstrate this protocol by numerically solving the time-dependent Schrödinger equation for a Hamiltonian that implements this quantum counterfactual phenomenon.

  18. Weak gravity conjecture and effective field theory

    Science.gov (United States)

    Saraswat, Prashant

    2017-01-01

    The weak gravity conjecture (WGC) is a proposed constraint on theories with gauge fields and gravity, requiring the existence of light charged particles and/or imposing an upper bound on the field theory cutoff Λ . If taken as a consistency requirement for effective field theories (EFTs), it rules out possibilities for model building including some models of inflation. I demonstrate simple models which satisfy all forms of the WGC, but which through Higgsing of the original gauge fields produce low-energy EFTs with gauge forces that badly violate the WGC. These models illustrate specific loopholes in arguments that motivate the WGC from a bottom-up perspective; for example the arguments based on magnetic monopoles are evaded when the magnetic confinement that occurs in a Higgs phase is accounted for. This indicates that the WGC should not be taken as a veto on EFTs, even if it turns out to be a robust property of UV quantum gravity theories. However, if the latter is true, then parametric violation of the WGC at low energy comes at the cost of nonminimal field content in the UV. I propose that only a very weak constraint is applicable to EFTs, Λ ≲(log 1/g )-1 /2Mpl , where g is the gauge coupling, motivated by entropy bounds. Remarkably, EFTs produced by Higgsing a theory that satisfies the WGC can saturate but not violate this bound.

  19. Do weak global stresses synchronize earthquakes?

    Science.gov (United States)

    Bendick, R.; Bilham, R.

    2017-08-01

    Insofar as slip in an earthquake is related to the strain accumulated near a fault since a previous earthquake, and this process repeats many times, the earthquake cycle approximates an autonomous oscillator. Its asymmetric slow accumulation of strain and rapid release is quite unlike the harmonic motion of a pendulum and need not be time predictable, but still resembles a class of repeating systems known as integrate-and-fire oscillators, whose behavior has been shown to demonstrate a remarkable ability to synchronize to either external or self-organized forcing. Given sufficient time and even very weak physical coupling, the phases of sets of such oscillators, with similar though not necessarily identical period, approach each other. Topological and time series analyses presented here demonstrate that earthquakes worldwide show evidence of such synchronization. Though numerous studies demonstrate that the composite temporal distribution of major earthquakes in the instrumental record is indistinguishable from random, the additional consideration of event renewal interval serves to identify earthquake groupings suggestive of synchronization that are absent in synthetic catalogs. We envisage the weak forces responsible for clustering originate from lithospheric strain induced by seismicity itself, by finite strains over teleseismic distances, or by other sources of lithospheric loading such as Earth's variable rotation. For example, quasi-periodic maxima in rotational deceleration are accompanied by increased global seismicity at multidecadal intervals.

  20. The weak gravity conjecture and scalar fields

    Science.gov (United States)

    Palti, Eran

    2017-08-01

    We propose a generalisation of the Weak Gravity Conjecture in the presence of scalar fields. The proposal is guided by properties of extremal black holes in N=2 supergravity, but can be understood more generally in terms of forbidding towers of stable gravitationally bound states. It amounts to the statement that there must exist a particle on which the gauge force acts more strongly than gravity and the scalar forces combined. We also propose that the scalar force itself should act on this particle stronger than gravity. This implies that generically the mass of this particle decreases exponentially as a function of the scalar field expectation value for super-Planckian variations, which is behaviour predicted by the Refined Swampland Conjecture. In the context of N=2 supergravity the Weak Gravity Conjecture bound can be tied to bounds on scalar field distances in field space. Guided by this, we present a general proof that for any linear combination of moduli in any Calabi-Yau compactification of string theory the proper field distance grows at best logarithmically with the moduli values for super-Planckian distances.

  1. Droplet breakup dynamics of weakly viscoelastic fluids

    Science.gov (United States)

    Marshall, Kristin; Walker, Travis

    2016-11-01

    The addition of macromolecules to solvent, even in dilute quantities, can alter a fluid's response in an extensional flow. For low-viscosity fluids, the presence of elasticity may not be apparent when measured using a standard rotational rheometer, yet it may still alter the response of a fluid when undergoing an extensional deformation, especially at small length scales where elastic effects are enhanced. Applications such as microfluidics necessitate investigating the dynamics of fluids with elastic properties that are not pronounced at large length scales. In the present work, a microfluidic cross-slot configuration is used to study the effects of elasticity on droplet breakup. Droplet breakup and the subsequent iterated-stretching - where beads form along a filament connecting two primary droplets - were observed for a variety of material and flow conditions. We present a relationship on the modes of bead formation and how and when these modes will form based on key parameters such as the properties of the outer continuous-phase fluid. The results are vital not only for simulating the droplet breakup of weakly viscoelastic fluids but also for understanding how the droplet breakup event can be used for characterizing the extensional properties of weakly-viscoelastic fluids.

  2. Probing hysteretic elasticity in weakly nonlinear materials

    Energy Technology Data Exchange (ETDEWEB)

    Johnson, Paul A [Los Alamos National Laboratory; Haupert, Sylvain [UPMC UNIV PARIS; Renaud, Guillaume [UPMC UNIV PARIS; Riviere, Jacques [UPMC UNIV PARIS; Talmant, Maryline [UPMC UNIV PARIS; Laugier, Pascal [UPMC UNIV PARIS

    2010-12-07

    Our work is aimed at assessing the elastic and dissipative hysteretic nonlinear parameters' repeatability (precision) using several classes of materials with weak, intermediate and high nonlinear properties. In this contribution, we describe an optimized Nonlinear Resonant Ultrasound Spectroscopy (NRUS) measuring and data processing protocol applied to small samples. The protocol is used to eliminate the effects of environmental condition changes that take place during an experiment, and that may mask the intrinsic elastic nonlinearity. As an example, in our experiments, we identified external temperature fluctuation as a primary source of material resonance frequency and elastic modulus variation. A variation of 0.1 C produced a frequency variation of 0.01 %, which is similar to the expected nonlinear frequency shift for weakly nonlinear materials. In order to eliminate environmental effects, the variation in f{sub 0} (the elastically linear resonance frequency proportional to modulus) is fit with the appropriate function, and that function is used to correct the NRUS calculation of nonlinear parameters. With our correction procedure, we measured relative resonant frequency shifts of 10{sup -5} , which are below 10{sup -4}, often considered the limit to NRUS sensitivity under common experimental conditions. Our results show that the procedure is an alternative to the stringent control of temperature often applied. Applying the approach, we report nonlinear parameters for several materials, some with very small nonclassical nonlinearity. The approach has broad application to NRUS and other Nonlinear Elastic Wave Spectroscopy approaches.

  3. Shear calibration biases in weak lensing surveys

    CERN Document Server

    Hirata, C M; Hirata, Christopher M.; Seljak, Uros

    2003-01-01

    We investigate biases induced by the conversion between the observed image shape to shear distortion in current weak lensing analysis methods. Such overall calibration biases cannot be detected by the standard tests such as E/B decomposition or calibration with stars. We find that the non-Gaussianity of point spread function has a significant effect and can lead to up to 15 per cent error on the linear amplitude of fluctuations sigma_8 depending on the method of analysis. This could explain some of the discrepancies seen in recent amplitude determinations from weak lensing. Using an elliptical Laguerre expansion method we develop a re-Gaussianization method which reduces the error to calibration error of order 1 per cent even for poorly resolved galaxies. We also discuss a new type of shear selection bias which results in up to roughly 8 percent underestimation of the signal. It is expected to scale with redshift, inducing errors in the growth factor extraction if not properly corrected for. Understanding and...

  4. Genome-wide analysis of regions similar to promoters of histone genes

    KAUST Repository

    Chowdhary, Rajesh

    2010-05-28

    Background: The purpose of this study is to: i) develop a computational model of promoters of human histone-encoding genes (shortly histone genes), an important class of genes that participate in various critical cellular processes, ii) use the model so developed to identify regions across the human genome that have similar structure as promoters of histone genes; such regions could represent potential genomic regulatory regions, e.g. promoters, of genes that may be coregulated with histone genes, and iii/ identify in this way genes that have high likelihood of being coregulated with the histone genes.Results: We successfully developed a histone promoter model using a comprehensive collection of histone genes. Based on leave-one-out cross-validation test, the model produced good prediction accuracy (94.1% sensitivity, 92.6% specificity, and 92.8% positive predictive value). We used this model to predict across the genome a number of genes that shared similar promoter structures with the histone gene promoters. We thus hypothesize that these predicted genes could be coregulated with histone genes. This hypothesis matches well with the available gene expression, gene ontology, and pathways data. Jointly with promoters of the above-mentioned genes, we found a large number of intergenic regions with similar structure as histone promoters.Conclusions: This study represents one of the most comprehensive computational analyses conducted thus far on a genome-wide scale of promoters of human histone genes. Our analysis suggests a number of other human genes that share a high similarity of promoter structure with the histone genes and thus are highly likely to be coregulated, and consequently coexpressed, with the histone genes. We also found that there are a large number of intergenic regions across the genome with their structures similar to promoters of histone genes. These regions may be promoters of yet unidentified genes, or may represent remote control regions that

  5. Characterization and identification of microRNA core promoters in four model species.

    Directory of Open Access Journals (Sweden)

    Xuefeng Zhou

    2007-03-01

    Full Text Available MicroRNAs are short, noncoding RNAs that play important roles in post-transcriptional gene regulation. Although many functions of microRNAs in plants and animals have been revealed in recent years, the transcriptional mechanism of microRNA genes is not well-understood. To elucidate the transcriptional regulation of microRNA genes, we study and characterize, in a genome scale, the promoters of intergenic microRNA genes in Caenorhabditis elegans, Homo sapiens, Arabidopsis thaliana, and Oryza sativa. We show that most known microRNA genes in these four species have the same type of promoters as protein-coding genes have. To further characterize the promoters of microRNA genes, we developed a novel promoter prediction method, called common query voting (CoVote, which is more effective than available promoter prediction methods. Using this new method, we identify putative core promoters of most known microRNA genes in the four model species. Moreover, we characterize the promoters of microRNA genes in these four species. We discover many significant, characteristic sequence motifs in these core promoters, several of which match or resemble the known cis-acting elements for transcription initiation. Among these motifs, some are conserved across different species while some are specific to microRNA genes of individual species.

  6. Effect of site disorder on the magnetic properties of weak itinerant ferromagnet Ni75Al25

    Indian Academy of Sciences (India)

    Anita Semwal; S N Kaul

    2003-03-01

    Detailed study of Ni75Al25 samples with varying degree of site disorder reveals that site disorder promotes magnetic excitations such as spin waves and local spin-density fluctuations and thereby reduces both spin-wave stiffness and Curie temperature. Irreversibility lines in the - phase diagram of the weak itinerant ferromagnet Ni75Al25 have been determined for the first time and the effect of site disorder on them has been ascertained.

  7. 关于Weakly J-Clean环%On Weakly J-Clean Rings

    Institute of Scientific and Technical Information of China (English)

    沈洪地; 陈焕艮

    2015-01-01

    A ring R is called a weakly J‐clean ring if every element a∈ R can be written in the form of a=e+ j or a= -e+ j where e is an idempotent and j belongs to the Jacobson radical .The paper explores various properties of weakly J‐clean rings ,proves that a ring R is weakly J‐clean if and only if R is clean and R/J(R) is weakly Boolean ,if and only if R/6R is weakly J‐clean and idempotents can lift J(R) .A ring R is uniquely weakly nil clean if and only if R is abelian;J(R) is nil and R is weakly J‐clean .Each weakly J‐clean ring R is right(left) quasi‐duo ring .Furthermore ,the paper proves that the following are equivalent :R is J‐clean;there is an integer n≥1 such that Tn (R) is J‐clean ;there is an integer n≥2 such that Tn (R) is weakly J‐clean;there is an integer n≥2 such that × n R is w eakly J‐clean .%一个环 R叫做w eakly J‐clean环,如果R中的每一个元素都可以写成a= e+ j或a=-e+ j的形式,其中e是幂等元,j属于Jacobson根。文章探究了weakly J‐clean环的各种性质,证明了 R是weakly J‐clean环当且仅当 R是clean环并且 R/J(R)是弱布尔环,当且仅当R/6 R是w eakly J‐clean环且幂等元关于 J(R)可以提升。一个环R是唯一w eakly nil clean环当且仅当 R是阿贝尔环;J(R)是幂零的并且 R是w eakly J‐clean环。每个w eakly J‐clean环 R是右(左)quasi‐duo环。并进一步证明以下几点是等价的:R是 J‐clean环;存在一个大于等于1的整数 n ,使得 Tn (R)是 J‐clean环;存在一个大于等于2的整数 n ,使得 Tn (R)是w eakly J‐clean环;存在一个大于等于2的整数 n ,使得× n R 是w eakly J‐clean环。

  8. Casimir apparatuses in a weak gravitational field

    DEFF Research Database (Denmark)

    Bimonte, Giuseppe; Calloni, Enrico; Esposito, Giampiero

    2009-01-01

    We review and assess a part of the recent work on Casimir apparatuses in the weak gravitational field of the Earth. For a free, real massless scalar field subject to Dirichlet or Neumann boundary conditions on the parallel plates, the resulting regularized and renormalized energy-momentum tensor...... is covariantly conserved, while the trace anomaly vanishes if the massless field is conformally coupled to gravity. Conformal coupling also ensures a finite Casimir energy and finite values of the pressure upon parallel plates. These results have been extended to an electromagnetic field subject to perfect...... conductor (hence idealized) boundary conditions on parallel plates, by various authors. The regularized and renormalized energy-momentum tensor has beene valuated up to second order in the gravity acceleration. In both the scalar and the electromagnetic case, studied to first order in the gravity...

  9. Entanglement in Weakly Coupled Lattice Gauge Theories

    CERN Document Server

    Radicevic, Djordje

    2015-01-01

    We present a direct lattice gauge theory computation that, without using dualities, demonstrates that the entanglement entropy of Yang-Mills theories with arbitrary gauge group $G$ contains a generic logarithmic term at sufficiently weak coupling $e$. In two spatial dimensions, for a region of linear size $r$, this term equals $\\frac{1}{2} \\dim(G) \\log\\left(e^2 r\\right)$ and it dominates the universal part of the entanglement entropy. Such logarithmic terms arise from the entanglement of the softest mode in the entangling region with the environment. For Maxwell theory in two spatial dimensions, our results agree with those obtained by dualizing to a compact scalar with spontaneous symmetry breaking.

  10. Weakly Asymmetric Bridges and the KPZ Equation

    Science.gov (United States)

    Labbé, Cyril

    2017-08-01

    We consider the corner growth dynamics on discrete bridges from (0, 0) to (2 N, 0), or equivalently, the weakly asymmetric simple exclusion process with N particles on 2 N sites. We take an asymmetry of order N -α with α ∈ (0, 1) and provide a complete description of the asymptotic behaviour of this model. In particular, we show that the hydrodynamic limit of the density of particles is given by the inviscid Burgers equation with zero-flux boundary condition. When the interface starts from the flat initial profile, we show that KPZ fluctuations occur whenever α ∈ (0, 1/3]. In the particular regime α = 1/3, these KPZ fluctuations suddenly vanish at a deterministic time.

  11. Anisotropic turbulence in weakly stratified rotating magnetoconvection

    CERN Document Server

    Giesecke, A

    2010-01-01

    Numerical simulations of the 3D MHD-equations that describe rotating magnetoconvection in a Cartesian box have been performed using the code NIRVANA. The characteristics of averaged quantities like the turbulence intensity and the turbulent heat flux that are caused by the combined action of the small-scale fluctuations are computed. The correlation length of the turbulence significantly depends on the strength and orientation of the magnetic field and the anisotropic behavior of the turbulence intensity induced by Coriolis and Lorentz force is considerably more pronounced for faster rotation. The development of isotropic behavior on the small scales -- as it is observed in pure rotating convection -- vanishes even for a weak magnetic field which results in a turbulent flow that is dominated by the vertical component. In the presence of a horizontal magnetic field the vertical turbulent heat flux slightly increases with increasing field strength, so that cooling of the rotating system is facilitated. Horizont...

  12. Geometry of weak lensing of CMB polarization

    CERN Document Server

    Challinor, A D; Challinor, Anthony; Chon, Gayoung

    2002-01-01

    Hu has presented a harmonic-space method for calculating the effects of weak gravitational lensing on the cosmic microwave background (CMB) over the full sky. Computing the lensed power spectra to first order in the deflection power requires one to formulate the lensing displacement beyond the tangent-space approximation. We point out that for CMB polarization this displacement must undergo geometric corrections on the spherical sky to maintain statistical isotropy of the lensed fields. Although not discussed by Hu, these geometric effects are implicit in his analysis. However, there they are hidden by an overly-compact notation that is both unconventional and rather confusing. Here we aim to ameliorate this deficiency by providing a rigorous derivation of the lensed spherical power spectra.

  13. Weak Hamiltonian, CP Violation and Rare Decays

    CERN Document Server

    Buras, Andrzej J

    1998-01-01

    These lectures describe in detail the effective Hamiltonians for weak decays of mesons constructed by means of the operator product expansion and the renormalization group method. We calculate Wilson coeffcients of local operators, discuss mixing of operators under renormalization, the anomalous dimensions of operators and anomalous dimension matrices. We elaborate on the renormalzation scheme and renormalization scale dependences and their cancellations in physical amplitudes. In particular we discuss the issue of gamma-5 in D-dimensions and the role of evanescent operators in the calculation of two-loop anomalous dimensions. We present an explicit calculation of the 6 times 6 one-loop anomalous dimension matrix involving current-current and QCD-penguin operators and we give some hints how to properly calculate two-loop anomalous dimensions of these operators. In the phenonomenological part of these lectures we discuss in detail: CKM matrix, the unitarity triangle and its determination, two-body non-leptonic...

  14. Cluster mass reconstruction from weak gravitational lensing

    CERN Document Server

    Wilson, G; Frenk, C S; Wilson, Gillian; Cole, Shaun; Frenk, Carlos S

    1996-01-01

    Kaiser & Squires have proposed a technique for mapping the dark matter in galaxy clusters using the coherent weak distortion of background galaxy images caused by gravitational lensing. We investigate the effectiveness of this technique under controlled conditions by creating simulated CCD frames containing galaxies lensed by a model cluster, measuring the resulting galaxy shapes, and comparing the reconstructed mass distribution with the original. Typically, the reconstructed surface density is diminished in magnitude when compared to the original. The main cause of this reduced signal is the blurring of galaxy images by atmospheric seeing, but the overall factor by which the reconstructed surface density is reduced depends also on the signal-to-noise ratio in the CCD frame and on both the sizes of galaxy images and the magnitude limit of the sample that is analysed. We propose a method for estimating a multiplicative compensation factor. We test our technique using a lensing cluster drawn from a cosmolo...

  15. Weak Kaon Production off the Nucleon

    CERN Document Server

    Alam, M Rafi; Athar, M Sajjad; Vacas, M J Vicente

    2010-01-01

    The weak kaon production off the nucleon induced by neutrinos is studied at the low and intermediate energies of interest for some ongoing and future neutrino oscillation experiments. This process is also potentially important for the analysis of proton decay experiments. We develop a microscopical model based on the SU(3) chiral Lagrangians. The basic parameters of the model are fpi, the pion decay constant, Cabibbo's angle, the proton and neutron magnetic moments and the axial vector coupling constants for the baryons octet, D and F, that are obtained from the analysis of the semileptonic decays of neutron and hyperons. The studied mechanisms are the main source of kaon production for neutrino energies up to 1.2 to 1.5 GeV for the various channels and the cross sections are large enough to be amenable to be measured by experiments such as Minerva and T2K.

  16. Can weak lensing surveys confirm BICEP2 ?

    CERN Document Server

    Chisari, Nora Elisa; Schmidt, Fabian

    2014-01-01

    The detection of B-modes in the Cosmic Microwave Background (CMB) polarization by the BICEP2 experiment, if interpreted as evidence for a primordial gravitational wave background, has enormous ramifications for cosmology and physics. It is crucial to test this hypothesis with independent measurements. A gravitational wave background leads to B-modes in galaxy shape correlations (shear) both through lensing and tidal alignment effects. Since the systematics and foregrounds of galaxy shapes and CMB polarization are entirely different, a detection of a cross-correlation between the two observables would provide conclusive proof for the existence of a primordial gravitational wave background. We find that upcoming weak lensing surveys will be able to detect the cross-correlation between B-modes of the CMB and galaxy shapes. However, this detection is not sufficient to confirm or falsify the hypothesis of a primordial origin for CMB B-mode polarization.

  17. Spherical Accretion in Nearby Weakly Active Galaxies

    CERN Document Server

    Moscibrodzka, M A

    2005-01-01

    We consider the sample of weakly active galaxies situated in 'Local Universe' collected in the paper of Pellegrini (2005) with inferred accretion efficiencies from $10^{-2}$ to $10^{-7}$. We apply a model of spherically symmetrical Bondi accretion for given parameters ($M_{BH}$,$T_{\\infty}$,$\\rho_{\\infty}$,) taken from observation. We calculate spectra emitted by the gas accreting onto its central objects using Monte Carlo method including synchrotron and bremsstrahlung photons as seed photons. We compare our results with observed nuclear X-ray luminosities $L_{X,nuc}$ (0.3-10 keV) of the sample. Model is also tested for different external medium parameters ($\\rho_{\\infty}$ and $T_{\\infty}$) and different free parameters of the model. Our model is able to explain most of the observed nuclear luminosities $L_X$ under an assumption that half of the compresion energy is transfered directly to the electrons.

  18. Casimir apparatuses in a weak gravitational field

    DEFF Research Database (Denmark)

    Bimonte, Giuseppe; Calloni, Enrico; Esposito, Giampiero;

    2009-01-01

    We review and assess a part of the recent work on Casimir apparatuses in the weak gravitational field of the Earth. For a free, real massless scalar field subject to Dirichlet or Neumann boundary conditions on the parallel plates, the resulting regularized and renormalized energy-momentum tensor...... is covariantly conserved, while the trace anomaly vanishes if the massless field is conformally coupled to gravity. Conformal coupling also ensures a finite Casimir energy and finite values of the pressure upon parallel plates. These results have been extended to an electromagnetic field subject to perfect...... conductor (hence idealized) boundary conditions on parallel plates, by various authors. The regularized and renormalized energy-momentum tensor has beene valuated up to second order in the gravity acceleration. In both the scalar and the electromagnetic case, studied to first order in the gravity...

  19. Weak Gravity Conjecture and Extremal Black Holes

    CERN Document Server

    Cottrell, William; Soler, Pablo

    2016-01-01

    Motivated by the desire to improve our understanding of the Weak Gravity Conjecture, we compute the one-loop correction of charged particles to the geometry and entropy of extremal black holes in 4d. Contrary to expectations, we find that loops of massive charged particles can radically alter the classical black hole geometry and that fermion loops provide evidence for the necessity of the `magnetic' WGC cutoff. The corrections are reduced when supersymmetry is present, and disappear in ${\\cal N}=4$ supergravity. We further provide some speculative arguments that in a theory with only sub-extremal particles, classical Reisner-Nordstrom black holes actually possess an infinite microcanonical entropy, though only a finite amount is visible to an external observer.

  20. Meson exchange and neutral weak currents

    Energy Technology Data Exchange (ETDEWEB)

    Beck, D.H. [Univ. of Illinois, Urbana, IL (United States)

    1994-04-01

    Measurements of parity-violating electron scattering asymmetries to determine weak neutral currents in nuclei will be effected by the presence of meson exchange currents. Present low momentum transfer calculations, based on a flavor independent framework, show these effects to be small. In general, however, as the momentum transfer increases to values typical of deep-inelastic scattering, fragmentation functions show a clear flavor dependence. It is suggested that a good experimental starting point for understanding the flavor dependence of meson production and exchange currents is the Q{sup 2} dependence of parity-violating asymmetry in inclusive single pion electroproduction. A CEBAF facility with doubled energy is necessary to approach momentum transfers where this process begins to scale.

  1. Weak lensing using only galaxy position angles

    CERN Document Server

    Whittaker, Lee; Battye, Richard

    2013-01-01

    We develop a method for performing a weak lensing analysis using only measurements of galaxy position angles. By analyzing the statistical properties of the galaxy orientations given a known intrinsic ellipticity distribution, we show that it is possible to obtain estimates of the shear by minimizing a $\\chi^2$ statistic. The method is demonstrated using simulations where the components of the intrinsic ellipticity are taken to be Gaussian distributed. Uncertainties on the position angle measurements introduce a bias into the shear estimates which can be reduced to negligible levels by introducing a correction term into the formalism. We generalize our approach by developing an algorithm to obtain direct shear estimators given any azimuthally symmetric intrinsic ellipticity distribution. We demonstrate this technique by applying it to simulations where the ellipticities are taken to follow a log-normal distribution. We compare the performance of the position angle only method with the standard method based on...

  2. A heroin addict with focal weakness.

    Science.gov (United States)

    Galassi, Giuliana; Ariatti, Alessandra; Gozzi, Manuela; Cavazza, Stefano

    2013-05-01

    A 24-year-old female with 5 year history of heroin abuse experienced painless stiffness of elbow joints and weakness of shoulder and upper limb muscles. She was injecting herself 4-6 times daily alternatively in the upper extremities, sparing the lower limbs. Electromyography (EMG) showed myopathic changes in clinically affected and unaffected muscles. Magnetic resonance imaging (MRI) revealed muscle fibrosis in directly injected muscles, whereas in subcutaneous fat and within muscles of anterior and posterior compartments of both thighs, not directly injected, there were signal changes supportive of oedema and inflammation. EMG and MRI were congruent in showing abnormalities in muscles not directly injected, suggesting long distant effects of heroin or adulterants with a mechanism either toxic or immunologically mediated.

  3. General gauge mediation at the weak scale

    Science.gov (United States)

    Knapen, Simon; Redigolo, Diego; Shih, David

    2016-03-01

    We completely characterize General Gauge Mediation (GGM) at the weak scale by solving all IR constraints over the full parameter space. This is made possible through a combination of numerical and analytical methods, based on a set of algebraic relations among the IR soft masses derived from the GGM boundary conditions in the UV. We show how tensions between just a few constraints determine the boundaries of the parameter space: electroweak symmetry breaking (EWSB), the Higgs mass, slepton tachyons, and left-handed stop/sbottom tachyons. While these constraints allow the left-handed squarks to be arbitrarily light, they place strong lower bounds on all of the right-handed squarks. Meanwhile, light EW superpartners are generic throughout much of the parameter space. This is especially the case at lower messenger scales, where a positive threshold correction to m h coming from light Higgsinos and winos is essential in order to satisfy the Higgs mass constraint.

  4. Kolmogorov Dissipation scales in Weakly Ionized Plasmas

    CERN Document Server

    Krishan, V

    2009-01-01

    In a weakly ionized plasma, the evolution of the magnetic field is described by a "generalized Ohm's law" that includes the Hall effect and the ambipolar diffusion terms. These terms introduce additional spatial and time scales which play a decisive role in the cascading and the dissipation mechanisms in magnetohydrodynamic turbulence. We determine the Kolmogorov dissipation scales for the viscous, the resistive and the ambipolar dissipation mechanisms. The plasma, depending on its properties and the energy injection rate, may preferentially select one of the these dissipation scales. thus determining the shortest spatial scale of the supposedly self-similar spectral distribution of the magnetic field. The results are illustrated taking the partially ionized part of the solar atmosphere as an example. Thus the shortest spatial scale of the supposedly self-similar spectral distribution of the solar magnetic field is determined by any of the four dissipation scales given by the viscosity, the Spizer resistivity...

  5. Precision cluster mass determination from weak lensing

    CERN Document Server

    Mandelbaum, Rachel; Baldauf, Tobias; Smith, Robert E

    2009-01-01

    Weak gravitational lensing has been used extensively in the past decade to constrain the masses of galaxy clusters, and is the most promising observational technique for providing the mass calibration necessary for precision cosmology with clusters. There are several challenges in estimating cluster masses, particularly (a) the sensitivity to astrophysical effects and observational systematics that modify the signal relative to the theoretical expectations, and (b) biases that can arise due to assumptions in the mass estimation method, such as the assumed radial profile of the cluster. All of these challenges are more problematic in the inner regions of the cluster, suggesting that their influence would ideally be suppressed for the purpose of mass estimation. However, at any given radius the differential surface density measured by lensing is sensitive to all mass within that radius, and the corrupted signal from the inner parts is spread out to all scales. We develop a new statistic that is ideal for estima...

  6. Heterodyne detection with a weak local oscillator.

    Science.gov (United States)

    Jiang, Leaf A; Luu, Jane X

    2008-04-01

    Heterodyne detection in the limit of weak (a few photons) local oscillator and signal power levels has been largely neglected in the past, as authors almost always assumed that the noise was dominated by the shot noise from a strong local oscillator. We present the theory for heterodyne detection of diffuse and specular targets at arbitrary power levels, including the case where the local oscillator power is only a few photons per coherent integration period. The theory was tested with experimental results, and was found to show good agreement. We show how to interpret the power spectral density of the heterodyne signal and how to determine the optimal number of signal and local oscillator photons per coherent integration.

  7. Destabilization of free convection by weak rotation

    CERN Document Server

    Gelfgat, Alexander

    2011-01-01

    This study offers an explanation of a recently observed effect of destabilization of free convective flows by weak rotation. After studying several models where flows are driven by a simultaneous action of convection and rotation, it is concluded that the destabilization is observed in the cases where centrifugal force acts against main convective circulation. At relatively low Prandtl numbers this counter action can split the main vortex into two counter rotating vortices, where the interaction leads to instability. At larger Prandtl numbers, the counter action of the centrifugal force steepens an unstable thermal stratification, which triggers Rayleigh-B\\'enard instability mechanism. Both cases can be enhanced by advection of azimuthal velocity disturbances towards the axis, where they grow and excite perturbations of the radial velocity. The effect was studied considering a combined convective/rotating flow in a cylinder with a rotating lid and a parabolic temperature profile at the sidewall. Next, explana...

  8. General Gauge Mediation at the Weak Scale

    CERN Document Server

    Knapen, Simon; Shih, David

    2015-01-01

    We completely characterize General Gauge Mediation (GGM) at the weak scale by solving all IR constraints over the full parameter space. This is made possible through a combination of numerical and analytical methods, based on a set of algebraic relations among the IR soft masses derived from the GGM boundary conditions in the UV. We show how tensions between just a few constraints determine the boundaries of the parameter space: electroweak symmetry breaking (EWSB), the Higgs mass, slepton tachyons, and left-handed stop/sbottom tachyons. While these constraints allow the left-handed squarks to be arbitrarily light, they place strong lower bounds on all of the right-handed squarks. Meanwhile, light EW superpartners are generic throughout much of the parameter space. This is especially the case at lower messenger scales, where a positive threshold correction to $m_h$ coming from light Higgsinos and winos is essential in order to satisfy the Higgs mass constraint.

  9. Magnified Weak Lensing Cross Correlation Tomography

    Energy Technology Data Exchange (ETDEWEB)

    Ulmer, Melville P., Clowe, Douglas I.

    2010-11-30

    This project carried out a weak lensing tomography (WLT) measurement around rich clusters of galaxies. This project used ground based photometric redshift data combined with HST archived cluster images that provide the WLT and cluster mass modeling. The technique has already produced interesting results (Guennou et al, 2010,Astronomy & Astrophysics Vol 523, page 21, and Clowe et al, 2011 to be submitted). Guennou et al have validated that the necessary accuracy can be achieved with photometric redshifts for our purposes. Clowe et al titled "The DAFT/FADA survey. II. Tomographic weak lensing signal from 10 high redshift clusters," have shown that for the **first time** via this purely geometrical technique, which does not assume a standard rod or candle, that a cosmological constant is **required** for flat cosmologies. The intent of this project is not to produce the best constraint on the value of the dark energy equation of state, w. Rather, this project is to carry out a sustained effort of weak lensing tomography that will naturally feed into the near term Dark Energy Survey (DES) and to provide invaluable mass calibration for that project. These results will greatly advance a key cosmological method which will be applied to the top-rated ground-based project in the Astro2020 decadal survey, LSST. Weak lensing tomography is one of the key science drivers behind LSST. CO-I Clowe is on the weak lensing LSST committee, and senior scientist on this project, at FNAL James Annis, plays a leading role in the DES. This project has built on successful proposals to obtain ground-based imaging for the cluster sample. By 1 Jan, it is anticipated the project will have accumulated complete 5-color photometry on 30 (or about 1/3) of the targeted cluster sample (public webpage for the survey is available at http://cencos.oamp.fr/DAFT/ and has a current summary of the observational status of various clusters). In all, the project has now been awarded the equivalent of over 60

  10. Magnified Weak Lensing Cross Correlation Tomography

    Energy Technology Data Exchange (ETDEWEB)

    Ulmer, Melville P., Clowe, Douglas I.

    2010-11-30

    This project carried out a weak lensing tomography (WLT) measurement around rich clusters of galaxies. This project used ground based photometric redshift data combined with HST archived cluster images that provide the WLT and cluster mass modeling. The technique has already produced interesting results (Guennou et al, 2010,Astronomy & Astrophysics Vol 523, page 21, and Clowe et al, 2011 to be submitted). Guennou et al have validated that the necessary accuracy can be achieved with photometric redshifts for our purposes. Clowe et al titled "The DAFT/FADA survey. II. Tomographic weak lensing signal from 10 high redshift clusters," have shown that for the **first time** via this purely geometrical technique, which does not assume a standard rod or candle, that a cosmological constant is **required** for flat cosmologies. The intent of this project is not to produce the best constraint on the value of the dark energy equation of state, w. Rather, this project is to carry out a sustained effort of weak lensing tomography that will naturally feed into the near term Dark Energy Survey (DES) and to provide invaluable mass calibration for that project. These results will greatly advance a key cosmological method which will be applied to the top-rated ground-based project in the Astro2020 decadal survey, LSST. Weak lensing tomography is one of the key science drivers behind LSST. CO-I Clowe is on the weak lensing LSST committee, and senior scientist on this project, at FNAL James Annis, plays a leading role in the DES. This project has built on successful proposals to obtain ground-based imaging for the cluster sample. By 1 Jan, it is anticipated the project will have accumulated complete 5-color photometry on 30 (or about 1/3) of the targeted cluster sample (public webpage for the survey is available at http://cencos.oamp.fr/DAFT/ and has a current summary of the observational status of various clusters). In all, the project has now been awarded the equivalent of over 60

  11. Weak measurement of the Goos-Hanchen shift

    OpenAIRE

    Jayaswal, G.; Mistura, G.; Merano, M.

    2013-01-01

    It is well known from quantum mechanics that weak measurements offer a means of amplifying and detecting very small phenomena. We present here the first experimental observation of the Goos-Hanchen shift via a weak measurement approach.

  12. Residuation Properties and Weakly Primary Elements in Lattice Modules

    Directory of Open Access Journals (Sweden)

    C. S. Manjarekar

    2014-01-01

    Full Text Available We obtain some elementary residuation properties in lattice modules and obtain a relation between a weakly primary element in a lattice module M and weakly prime element of a multiplicative lattice L.

  13. Weak measurement of the Goos-Hänchen shift.

    Science.gov (United States)

    Jayaswal, G; Mistura, G; Merano, M

    2013-04-15

    It is well known from quantum mechanics that weak measurements offer a means of amplifying and detecting very small phenomena. We present here the experimental observation of the Goos-Hänchen shift via a weak measurement approach.

  14. Weak values obtained from mass-energy equivalence

    Science.gov (United States)

    Zhang, Miao

    2017-01-01

    Quantum weak measurement, measuring some observable quantities within the selected subensemble of the entire quantum ensemble, can produce many interesting results such as the superluminal phenomena. An outcome of such a measurement is the weak value which has been applied to amplify some weak signals of quantum interactions in lots of previous references. Here, we apply the weak measurement to the system of relativistic cold atoms. According to mass-energy equivalence, the internal energy of an atom will contribute its rest mass and consequently the external momentum of center of mass. This implies a weak coupling between the internal and external degrees of freedom of atoms moving in the free space. After a duration of this coupling, a weak value can be obtained by post-selecting an internal state of atoms. We show that the weak value can change the momentum uncertainty of atoms and consequently help us to experimentally measure the weak effects arising from mass-energy equivalence.

  15. RHEOLOGY OF CONFINED POLYMER MELTS UNDER SHEAR-FLOW - WEAK ADSORPTION LIMIT : Weak Adsorption Limit

    NARCIS (Netherlands)

    Subbotin, A.V.; Semenov, A.N.; Hadziioannou, G; ten Brinke, G.

    1995-01-01

    The dynamics of a confined polymer melt between weakly adsorbing surfaces is considered theoretically. The finite chain extensibility is taken into account explicitly, and the tangential stress and the first and the second normal-stress differences are calculated as functions of shear rate gamma.

  16. Weak Hopf Algebras Corresponding to Borcherds-Cartan Matrices

    Institute of Scientific and Technical Information of China (English)

    Li Xia YE; Zhi Xiang WU; Xue Feng MEI

    2007-01-01

    Let y be a generalized Kac-Moody algebra with an integral Borcherds-Cartan matrix. Inthis paper, we define a d-type weak quantum generalized Kac-Moody algebra wUdq(y), which is a weakHopf algebra. We also study the highest weight module over the weak quantum algebra wUdq(y) andWeak A-forms of wUdq(y).

  17. The influence of weak impacts on certain processes of nanotechnology

    Science.gov (United States)

    Tupik, V. A.; Margolin, V. I.; Potekhin, M. S.

    2017-07-01

    The article deals with the influence of weak and super weak impacts on certain technological processes in nanotechnology related to the synthesis of nanoscale films and coatings. We also touch upon the impacts of weak diffraction fields of complex shape on the formation of fractal films and coatings.

  18. On Weakly Singular Versions of Discrete Nonlinear Inequalities and Applications

    Directory of Open Access Journals (Sweden)

    Kelong Cheng

    2014-01-01

    Full Text Available Some new weakly singular versions of discrete nonlinear inequalities are established, which generalize some existing weakly singular inequalities and can be used in the analysis of nonlinear Volterra type difference equations with weakly singular kernels. A few applications to the upper bound and the uniqueness of solutions of nonlinear difference equations are also involved.

  19. Neutrino energy transport in weak decoupling and big bang nucleosynthesis

    CERN Document Server

    Grohs, E; Kishimoto, C T; Paris, M W; Vlasenko, A

    2015-01-01

    We calculate the evolution of the early universe through the epochs of weak decoupling, weak freeze-out and big bang nucleosynthesis (BBN) by simultaneously coupling a full strong, electromagnetic, and weak nuclear reaction network with a multi-energy group Boltzmann neutrino energy transport scheme. Such an approach allows a detailed accounting of the evolution of the $\

  20. Extensive promoter-centered chromatin interactions provide a topological basis for transcription regulation.

    Science.gov (United States)

    Li, Guoliang; Ruan, Xiaoan; Auerbach, Raymond K; Sandhu, Kuljeet Singh; Zheng, Meizhen; Wang, Ping; Poh, Huay Mei; Goh, Yufen; Lim, Joanne; Zhang, Jingyao; Sim, Hui Shan; Peh, Su Qin; Mulawadi, Fabianus Hendriyan; Ong, Chin Thing; Orlov, Yuriy L; Hong, Shuzhen; Zhang, Zhizhuo; Landt, Steve; Raha, Debasish; Euskirchen, Ghia; Wei, Chia-Lin; Ge, Weihong; Wang, Huaien; Davis, Carrie; Fisher-Aylor, Katherine I; Mortazavi, Ali; Gerstein, Mark; Gingeras, Thomas; Wold, Barbara; Sun, Yi; Fullwood, Melissa J; Cheung, Edwin; Liu, Edison; Sung, Wing-Kin; Snyder, Michael; Ruan, Yijun

    2012-01-20

    Higher-order chromosomal organization for transcription regulation is poorly understood in eukaryotes. Using genome-wide Chromatin Interaction Analysis with Paired-End-Tag sequencing (ChIA-PET), we mapped long-range chromatin interactions associated with RNA polymerase II in human cells and uncovered widespread promoter-centered intragenic, extragenic, and intergenic interactions. These interactions further aggregated into higher-order clusters, wherein proximal and distal genes were engaged through promoter-promoter interactions. Most genes with promoter-promoter interactions were active and transcribed cooperatively, and some interacting promoters could influence each other implying combinatorial complexity of transcriptional controls. Comparative analyses of different cell lines showed that cell-specific chromatin interactions could provide structural frameworks for cell-specific transcription, and suggested significant enrichment of enhancer-promoter interactions for cell-specific functions. Furthermore, genetically-identified disease-associated noncoding elements were found to be spatially engaged with corresponding genes through long-range interactions. Overall, our study provides insights into transcription regulation by three-dimensional chromatin interactions for both housekeeping and cell-specific genes in human cells. Copyright © 2012 Elsevier Inc. All rights reserved.

  1. Quantum-memory-assisted entropic uncertainty relations under weak measurements

    Science.gov (United States)

    Li, Lei; Wang, Qing-Wen; Shen, Shu-Qian; Li, Ming

    2017-08-01

    We investigate quantum-memory-assisted entropic uncertainty relations (EURs) based on weak measurements. It is shown that the lower bound of EUR revealed by weak measurements is always larger than that revealed by the corresponding projective measurements. A series of lower bounds of EUR under both weak measurements and projective measurements are presented. Interestingly, the quantum-memory-assisted EUR based on weak measurements is a monotonically decreasing function of the strength parameter. Furthermore, some information-theoretic inequalities associated with weak measurements are also derived.

  2. Spatial-domain interactions between ultra-weak optical beams

    CERN Document Server

    Khadka, Utsab; Xiao, Min

    2013-01-01

    We have observed the spatial interactions between two ultra-weak optical beams that are initially collinear and non-overlapping. The weak beams are steered towards each other by a spatially varying cross-Kerr refractive index waveguide written by a strong laser beam in a three-level atomic medium utilizing quantum coherence. After being brought together, the weak beams show controllable phase-dependent outcomes. This is the first observation of soliton-like interactions between weak beams and can be useful for all-optically tunable beam-combining, switching and gates for weak photonic signals.

  3. Weak State, Strong Community? Promoting Community Participation in Post-Conflict Countries

    Science.gov (United States)

    Burde, Dana

    2004-01-01

    The purpose of this article is to explore the effects of community participation in school governance, as an element of development and humanitarian assistance programs, on social capital and civil society building. The first section describes different types of participation in education, its institutional forms, and the paradigms that support…

  4. The Origin of Weak Lensing Convergence Peaks

    CERN Document Server

    Liu, Jia

    2016-01-01

    Weak lensing convergence peaks are a promising tool to probe nonlinear structure evolution at late times, providing additional cosmological information beyond second-order statistics. Previous theoretical and observational studies have shown that the cosmological constraints on $\\Omega_m$ and $\\sigma_8$ are improved by a factor of up to ~ 2 when peak counts and second-order statistics are combined, compared to using the latter alone. We study the origin of lensing peaks using observational data from the 154 deg$^2$ Canada-France-Hawaii Telescope Lensing Survey. We found that while high peaks (with height $\\kappa$ >3.5 $\\sigma_\\kappa$, where $\\sigma_\\kappa$ is the r.m.s. of the convergence $\\kappa$) are typically due to one single massive halo of ~$10^{15}M_\\odot$, low peaks ($\\kappa$ ~ their virial radii), compared with ~0.25 virial radii for halos linked with high peaks, hinting that low peaks are more immune to baryonic processes whose impact is confined to the inner regions of the dark matter halos. Our fi...

  5. NUMERICAL STUDIES OF WEAKLY STOCHASTIC MAGNETIC RECONNECTION

    Directory of Open Access Journals (Sweden)

    G. Kowal

    2009-01-01

    Full Text Available We study the e ects of turbulence on magnetic reconnection using three-dimensional numerical simulations.This is the rst attempt to test the model of fast magnetic reconnection proposed by Lazarian & Vishniac (1999, which assumes the presence of weak, small-scale magnetic eld structure near the current sheet. This a ects the rate of reconnection by reducing the transverse scale for reconnection ows and by allowing many independent ux reconnection events to occur simultaneously. We performed a number of simulations to test the dependencies of the reconnection speed, de ned as the ratio of the in ow velocity to the Alfv n speed, on the turbulence power, the injection scale and resistivity. Our results show that turbulence signi cantly a ects the topology of magnetic eld near the di usion region and increases the thickness of the out ow region. We con rm the predictions of the Lazarian & Vishniac model. In particular, we report the growth of the reconnection speed proportional to V 2 l , where Vl is the amplitude of velocity at the injection scale. It depends on the injection scale linj as (linj=L2=3, where L is the size of the system, which is somewhat faster but still roughly consistent with the theoretical expectations. We also show that for 3D reconnection the Ohmic resistivity is important in the local reconnection events only, and the global reconnection rate in the presence of turbulence does not depend on it.

  6. Relaxion monodromy and the Weak Gravity Conjecture

    Science.gov (United States)

    Ibáñez, L. E.; Montero, M.; Uranga, A. M.; Valenzuela, I.

    2016-04-01

    The recently proposed relaxion models require extremely large trans-Planckian axion excursions as well as a potential explicitly violating the axion shift symmetry. The latter property is however inconsistent with the axion periodicity, which corresponds to a gauged discrete shift symmetry. A way to make things consistent is to use monodromy, i.e. both the axion and the potential parameters transform under the discrete shift symmetry. The structure is better described in terms of a 3-form field C μνρ coupling to the SM Higgs through its field strength F 4. The 4-form also couples linearly to the relaxion, in the Kaloper-Sorbo fashion. The extremely small relaxion-Higgs coupling arises in a see-saw fashion as g ≃ F 4 /f , with f being the axion decay constant. We discuss constraints on this type of constructions from membrane nucleation and the Weak Gravity Conjecture. The latter requires the existence of membranes, whose too fast nucleation could in principle drive the theory out of control, unless the cut-off scale is lowered. This allows to rule out the simplest models with the QCD axion as relaxion candidate on purely theoretical grounds. We also discuss possible avenues to embed this structure into string theory.

  7. Autoresonance versus localization in weakly coupled oscillators

    Science.gov (United States)

    Kovaleva, Agnessa; Manevitch, Leonid I.

    2016-04-01

    We study formation of autoresonance (AR) in a two-degree of freedom oscillator array including a nonlinear (Duffing) oscillator (the actuator) weakly coupled to a linear attachment. Two classes of systems are studied. In the first class of systems, a periodic force with constant (resonance) frequency is applied to a nonlinear oscillator (actuator) with slowly time-decreasing stiffness. In the systems of the second class a nonlinear time-invariant oscillator is subjected to an excitation with slowly increasing frequency. In both cases, the attached linear oscillator and linear coupling are time-invariant, and the system is initially engaged in resonance. This paper demonstrates that in the systems of the first type AR in the nonlinear actuator entails oscillations with growing amplitudes in the linear attachment while in the system of the second type energy transfer from the nonlinear actuator is insufficient to excite high-energy oscillations of the attachment. It is also shown that a slow change of stiffness may enhance the response of the actuator and make it sufficient to support oscillations with growing energy in the attachment even beyond the linear resonance. Explicit asymptotic approximations of the solutions are obtained. Close proximity of the derived approximations to exact (numerical) results is demonstrated.

  8. Compact Groups analysis using weak gravitational lensing

    Science.gov (United States)

    Chalela, Martín; Johana Gonzalez, Elizabeth; Garcia Lambas, Diego; Foëx, Gael

    2017-01-01

    We present a weak lensing analysis of a sample of SDSS Compact Groups (CGs). Using the measured radial density contrast profile, we derive the average masses under the assumption of spherical symmetry, obtaining a velocity dispersion for the Singular Isothermal Spherical model, σV = 270 ± 40 km s-1, and for the NFW model, R_{200}=0.53± 0.10 h_{70}^{-1}Mpc. We test three different definitions of CGs centres to identify which best traces the true dark matter halo centre, concluding that a luminosity weighted centre is the most suitable choice. We also study the lensing signal dependence on CGs physical radius, group surface brightness, and morphological mixing. We find that groups with more concentrated galaxy members show steeper mass profiles and larger velocity dispersions. We argue that both, a possible lower fraction of interloper and a true steeper profile, could be playing a role in this effect. Straightforward velocity dispersion estimates from member spectroscopy yields σV ≈ 230 km s-1 in agreement with our lensing results.

  9. Strong eukaryotic IRESs have weak secondary structure.

    Directory of Open Access Journals (Sweden)

    Xuhua Xia

    Full Text Available BACKGROUND: The objective of this work was to investigate the hypothesis that eukaryotic Internal Ribosome Entry Sites (IRES lack secondary structure and to examine the generality of the hypothesis. METHODOLOGY/PRINCIPAL FINDINGS: IRESs of the yeast and the fruit fly are located in the 5'UTR immediately upstream of the initiation codon. The minimum folding energy (MFE of 60 nt RNA segments immediately upstream of the initiation codons was calculated as a proxy of secondary structure stability. MFE of the reverse complements of these 60 nt segments was also calculated. The relationship between MFE and empirically determined IRES activity was investigated to test the hypothesis that strong IRES activity is associated with weak secondary structure. We show that IRES activity in the yeast and the fruit fly correlates strongly with the structural stability, with highest IRES activity found in RNA segments that exhibit the weakest secondary structure. CONCLUSIONS: We found that a subset of eukaryotic IRESs exhibits very low secondary structure in the 5'-UTR sequences immediately upstream of the initiation codon. The consistency in results between the yeast and the fruit fly suggests a possible shared mechanism of cap-independent translation initiation that relies on an unstructured RNA segment.

  10. Forensic bitemark identification: weak foundations, exaggerated claims

    Science.gov (United States)

    Saks, Michael J.; Albright, Thomas; Bohan, Thomas L.; Bierer, Barbara E.; Bowers, C. Michael; Bush, Mary A.; Bush, Peter J.; Casadevall, Arturo; Cole, Simon A.; Denton, M. Bonner; Diamond, Shari Seidman; Dioso-Villa, Rachel; Epstein, Jules; Faigman, David; Faigman, Lisa; Fienberg, Stephen E.; Garrett, Brandon L.; Giannelli, Paul C.; Greely, Henry T.; Imwinkelried, Edward; Jamieson, Allan; Kafadar, Karen; Kassirer, Jerome P.; Koehler, Jonathan ‘Jay’; Korn, David; Mnookin, Jennifer; Morrison, Alan B.; Murphy, Erin; Peerwani, Nizam; Peterson, Joseph L.; Risinger, D. Michael; Sensabaugh, George F.; Spiegelman, Clifford; Stern, Hal; Thompson, William C.; Wayman, James L.; Zabell, Sandy; Zumwalt, Ross E.

    2016-01-01

    Abstract Several forensic sciences, especially of the pattern-matching kind, are increasingly seen to lack the scientific foundation needed to justify continuing admission as trial evidence. Indeed, several have been abolished in the recent past. A likely next candidate for elimination is bitemark identification. A number of DNA exonerations have occurred in recent years for individuals convicted based on erroneous bitemark identifications. Intense scientific and legal scrutiny has resulted. An important National Academies review found little scientific support for the field. The Texas Forensic Science Commission recently recommended a moratorium on the admission of bitemark expert testimony. The California Supreme Court has a case before it that could start a national dismantling of forensic odontology. This article describes the (legal) basis for the rise of bitemark identification and the (scientific) basis for its impending fall. The article explains the general logic of forensic identification, the claims of bitemark identification, and reviews relevant empirical research on bitemark identification—highlighting both the lack of research and the lack of support provided by what research does exist. The rise and possible fall of bitemark identification evidence has broader implications—highlighting the weak scientific culture of forensic science and the law's difficulty in evaluating and responding to unreliable and unscientific evidence. PMID:28852538

  11. Blind quantum computing with weak coherent pulses.

    Science.gov (United States)

    Dunjko, Vedran; Kashefi, Elham; Leverrier, Anthony

    2012-05-18

    The universal blind quantum computation (UBQC) protocol [A. Broadbent, J. Fitzsimons, and E. Kashefi, in Proceedings of the 50th Annual IEEE Symposiumon Foundations of Computer Science (IEEE Computer Society, Los Alamitos, CA, USA, 2009), pp. 517-526.] allows a client to perform quantum computation on a remote server. In an ideal setting, perfect privacy is guaranteed if the client is capable of producing specific, randomly chosen single qubit states. While from a theoretical point of view, this may constitute the lowest possible quantum requirement, from a pragmatic point of view, generation of such states to be sent along long distances can never be achieved perfectly. We introduce the concept of ϵ blindness for UBQC, in analogy to the concept of ϵ security developed for other cryptographic protocols, allowing us to characterize the robustness and security properties of the protocol under possible imperfections. We also present a remote blind single qubit preparation protocol with weak coherent pulses for the client to prepare, in a delegated fashion, quantum states arbitrarily close to perfect random single qubit states. This allows us to efficiently achieve ϵ-blind UBQC for any ϵ>0, even if the channel between the client and the server is arbitrarily lossy.

  12. Energy localization in weakly dissipative resonant chains

    Science.gov (United States)

    Kovaleva, Agnessa

    2016-08-01

    Localization of energy in oscillator arrays has been of interest for a number of years, with special attention paid to the role of nonlinearity and discreteness in the formation of localized structures. This work examines a different type of energy localization arising due to the presence of dissipation in nonlinear resonance arrays. As a basic model, we consider a Klein-Gordon chain of finite length subjected to a harmonic excitation applied at an edge of the chain. It is shown that weak dissipation may be a key factor preventing the emergence of resonance in the entire chain, even if its nondissipative analog is entirely captured into resonance. The resulting process in the dissipative oscillator array represents large-amplitude resonant oscillations in a part of the chain adjacent to the actuator and small-amplitude oscillations in the distant part of the chain. The conditions of the emergence of resonance as well as the conditions of energy localization are derived. An agreement between the obtained analytical results and numerical simulations is demonstrated.

  13. Fast Reconnection of Weak Magnetic Fields

    Science.gov (United States)

    Zweibel, Ellen G.

    1998-01-01

    Fast magnetic reconnection refers to annihilation or topological rearrangement of magnetic fields on a timescale that is independent (or nearly independent) of the plasma resistivity. The resistivity of astrophysical plasmas is so low that reconnection is of little practical interest unless it is fast. Yet, the theory of fast magnetic reconnection is on uncertain ground, as models must avoid the tendency of magnetic fields to pile up at the reconnection layer, slowing down the flow. In this paper it is shown that these problems can be avoided to some extent if the flow is three dimensional. On the other hand, it is shown that in the limited but important case of incompressible stagnation point flows, every flow will amplify most magnetic fields. Although examples of fast magnetic reconnection abound, a weak, disordered magnetic field embedded in stagnation point flow will in general be amplified, and should eventually modify the flow. These results support recent arguments against the operation of turbulent resistivity in highly conducting fluids.

  14. Planckian axions and the Weak Gravity Conjecture

    Science.gov (United States)

    Bachlechner, Thomas C.; Long, Cody; McAllister, Liam

    2016-01-01

    Several recent works [1-3] have claimed that the Weak Gravity Conjecture (WGC) excludes super-Planckian displacements of axion fields, and hence large-field axion inflation, in the absence of monodromy. We argue that in theories with N ≫ 1 axions, super-Planckian axion diameters D are readily allowed by the WGC. We clarify the non-trivial relationship between the kinetic matrix K — unambiguously defined by its form in a Minkowski-reduced basis — and the diameter of the axion fundamental domain, emphasizing that in general the diameter is not solely determined by the eigenvalues f 1 2 ≤ ṡ ṡ ṡ ≤ f N 2 of K: the orientations of the eigenvectors with respect to the identifications imposed by instantons must be incorporated. In particular, even if one were to impose the condition f N M pl does not immediately imply the existence of unsuppressed higher harmonic contributions to the potential. Finally, we argue that in effective axion-gravity theories, the zero-form version of the WGC can be satisfied by gravitational instantons that make negligible contributions to the potential.

  15. Planckian Axions and the Weak Gravity Conjecture

    CERN Document Server

    Bachlechner, Thomas C; McAllister, Liam

    2015-01-01

    Several recent works have claimed that the Weak Gravity Conjecture (WGC) excludes super-Planckian displacements of axion fields, and hence large-field axion inflation, in the absence of monodromy. We argue that in theories with $N\\gg1$ axions, super-Planckian axion diameters $\\cal{D}$ are readily allowed by the WGC. We clarify the nontrivial relationship between the kinetic matrix $K$ --- unambiguously defined by its form in a Minkowski-reduced basis --- and the diameter of the axion fundamental domain, emphasizing that in general the diameter is not solely determined by the eigenvalues $f_1^2 \\le ... \\le f_N^2$ of $K$: the orientations of the eigenvectors with respect to the identifications imposed by instantons must be incorporated. In particular, even if one were to impose the condition $f_NM_{pl}$ does not immediately imply the existence of unsuppressed higher harmonic contributions to the potential. Finally, we argue that in effective axion-gravity theories, the zero-form version of the WGC can be satisf...

  16. Weak gauge principle and electric charge quantization

    CERN Document Server

    Minguzzi, E; Almorox, A L

    2006-01-01

    We review the argument that relates the quantization of electric charge to the topology of the spacetime manifold starting from the gauge principle. We formulate it in the language of Cech cohomology so that its generalization to cases that do not involve a monopole field becomes straightforward. We consider two different formulations of the gauge principle, the usual (strong) version and a weaker version in which the transition functions can differ from matter field to matter field. From both versions it follows that the charges are quantized if the electromagnetic field is not exact. The weak case is studied in detail. To each pair of particles there corresponds an interference class $k \\in H^{1}(M,U(1))$ that controls the different behavior of the particles under topological Aharonov-Bohm experiments. If this class is trivial the phenomenology reduces to that of the usual strong gauge principle case. It is shown that the theory may give rise to two natural quantization units that we identify with the quant...

  17. Halo mass - concentration relation from weak lensing

    CERN Document Server

    Mandelbaum, Rachel; Hirata, Christopher M

    2008-01-01

    We perform a statistical weak lensing analysis of dark matter profiles around tracers of halo mass from galactic- to cluster-size halos. In this analysis we use 170,640 isolated ~L* galaxies split into ellipticals and spirals, 38,236 groups traced by isolated spectroscopic Luminous Red Galaxies (LRGs) and 13,823 MaxBCG clusters from the Sloan Digital Sky Survey (SDSS) covering a wide range of richness. Together these three samples allow a determination of the density profiles of dark matter halos over three orders of magnitude in mass, from 10^{12} M_{sun} to 10^{15} M_{sun}. The resulting lensing signal is consistent with an NFW or Einasto profile on scales outside the central region. We find that the NFW concentration parameter c_{200b} decreases with halo mass, from around 10 for galactic halos to 4 for cluster halos. Assuming its dependence on halo mass in the form of c_{200b} = c_0 [M/(10^{14}M_{sun}/h)]^{\\beta}, we find c_0=4.6 +/- 0.7 (at z=0.22) and \\beta=0.13 +/- 0.07, with very similar results for t...

  18. Weak Lensing Galaxy Cluster Field Reconstruction

    CERN Document Server

    Jullo, Eric; Jauzac, Mathilde; Kneib, Jean-Paul

    2013-01-01

    In this paper, we compare three methods to reconstruct galaxy cluster density fields with weak lensing data. The first method called FLens integrates an inpainting concept to invert the shear field with possible gaps, and a multi-scale entropy denoising procedure to remove the noise contained in the final reconstruction, that arises mostly from the random intrinsic shape of the galaxies. The second and third methods are based on a model of the density field made of a multi-scale grid of radial basis functions. In one case, the model parameters are computed with a linear inversion involving a singular value decomposition. In the other case, the model parameters are estimated using a Bayesian MCMC optimization implemented in the lensing software Lenstool. Methods are compared on simulated data with varying galaxy density fields. We pay particular attention to the errors estimated with resampling. We find the multi-scale grid model optimized with MCMC to provide the best results, but at high computational cost, ...

  19. Blind Quantum Computing with Weak Coherent Pulses

    Science.gov (United States)

    Dunjko, Vedran; Kashefi, Elham; Leverrier, Anthony

    2012-05-01

    The universal blind quantum computation (UBQC) protocol [A. Broadbent, J. Fitzsimons, and E. Kashefi, in Proceedings of the 50th Annual IEEE Symposiumon Foundations of Computer Science (IEEE Computer Society, Los Alamitos, CA, USA, 2009), pp. 517-526.] allows a client to perform quantum computation on a remote server. In an ideal setting, perfect privacy is guaranteed if the client is capable of producing specific, randomly chosen single qubit states. While from a theoretical point of view, this may constitute the lowest possible quantum requirement, from a pragmatic point of view, generation of such states to be sent along long distances can never be achieved perfectly. We introduce the concept of ɛ blindness for UBQC, in analogy to the concept of ɛ security developed for other cryptographic protocols, allowing us to characterize the robustness and security properties of the protocol under possible imperfections. We also present a remote blind single qubit preparation protocol with weak coherent pulses for the client to prepare, in a delegated fashion, quantum states arbitrarily close to perfect random single qubit states. This allows us to efficiently achieve ɛ-blind UBQC for any ɛ>0, even if the channel between the client and the server is arbitrarily lossy.

  20. Probing dark matter caustics with weak lensing

    CERN Document Server

    Gavazzi, R; Fort, B; Gavazzi, Raphael; Mohayaee, Roya; Fort, Bernard

    2006-01-01

    Caustics are high-density structures that form frequently in collisionless media. Under self-gravity, cold dark matter flows focus onto caustics which are yet to be resolved in numerical simulations and or observed in the real world. If detected, caustics would provide a strong evidence for dark matter and would rule out alternative models such as those with modified dynamics. Here, we demonstrate how they might be observed in the weak lensing data. We evaluate the shear distortion and show that its radial profile is marked by a characteristic sawtooth pattern due to the caustics in dark matter haloes that form by selfsimilar accretion. We discuss the observational complications, mainly due to the poor knowledge of the virial radii of the haloes and demonstrate that a superposition of about 600 cluster-size haloes would give a signal-to-noise ratio which is sufficiently large for the detection of caustics with ground-based observations. This number is reduced to 200 for space-based observations. These bounds ...

  1. Spatial evolutionary games with weak selection.

    Science.gov (United States)

    Nanda, Mridu; Durrett, Richard

    2017-06-06

    Recently, a rigorous mathematical theory has been developed for spatial games with weak selection, i.e., when the payoff differences between strategies are small. The key to the analysis is that when space and time are suitably rescaled, the spatial model converges to the solution of a partial differential equation (PDE). This approach can be used to analyze all [Formula: see text] games, but there are a number of [Formula: see text] games for which the behavior of the limiting PDE is not known. In this paper, we give rules for determining the behavior of a large class of [Formula: see text] games and check their validity using simulation. In words, the effect of space is equivalent to making changes in the payoff matrix, and once this is done, the behavior of the spatial game can be predicted from the behavior of the replicator equation for the modified game. We say predicted here because in some cases the behavior of the spatial game is different from that of the replicator equation for the modified game. For example, if a rock-paper-scissors game has a replicator equation that spirals out to the boundary, space stabilizes the system and produces an equilibrium.

  2. Charge segregation in weakly ionized microgels

    Science.gov (United States)

    Hyatt, John S.; Douglas, Alison M.; Stanley, Chris; Do, Changwoo; Barker, Thomas H.; Fernández-Nieves, Alberto

    2017-01-01

    We investigate microgels synthesized from N -isopropylacrylamide (NIPAM) copolymerized with a large mol% of acrylic acid, finding that when the acid groups are partially ionized at high temperatures, competition between ion-induced swelling and hydrophobic deswelling of poly(NIPAM) chains results in microphase separation. In cross-linked microgels, this manifests as a dramatic decrease in the ratio between the radius of gyration and the hydrodynamic radius to ˜0.2 , indicating that almost all the mass of the microgel is concentrated near the particle center. We also observe a concurrent decrease of the polymer network length scale via small-angle neutron scattering, confirming the presence of a dense, deswollen core surrounded by a diffuse, charged periphery. We compare these results to those obtained for a system of charged ultralow-cross-linked microgels; the form factor shows a distinct peak at high q when the temperature exceeds a threshold value. We successfully fit the form factor to theory developed to describe scattering from weakly charged gels in poor solvents, and we tie this behavior to charge segregation in the case of the cross-linked microgels.

  3. Unified properties of a weakly interacting Fermi gas in a weak magnetic field

    Institute of Scientific and Technical Information of China (English)

    2008-01-01

    When the orbital motion and the spin motion of particles were considered simultaneously,the thermodynamic potential function of a weakly interacting Fermi gas in a weak magnetic field was derived using the thermodynamics method. Based on the derived expression,the analytical expressions of energy,heat capacity,chemical potential,susceptibility and stability conditions of the system were given,and the effects of the interparticle interactions as well as the magnetic field on the properties of the system were analyzed. It was shown that the magnetic field always causes energy and stability to decrease,while the chemical potential of the system to increase. The repulsive(attractive) interactions always increase(decrease) energy and stability,but decrease(increase) the chemical potential and paramagnetism. The repulsive(attractive) interactions decrease(increase) heat capacity of the system at high temperatures but increase(decrease) it at low temperatures.

  4. Thermal stability conditions of a weakly interacting Fermi gas in a weak magnetic field

    Institute of Scientific and Technical Information of China (English)

    Fudian Men; Hui Liu; Houyu Zhu

    2009-01-01

    On the basis of the results derived from pseudopotential method and ensemble theory,thermal stability of a weakly interacting Fermi gas in a weak magnetic field is studied by using analytical method of thermodynamics.The exact analytical expressions of stability conditions at different temperatures are given,and the effects of interactions as well as magnetic field on the stability of the system are discussed.It is shown that there is an upper-limit magnetic field for the stability of the system at low temperatures,and there is an attractive dividing value at high temperatures.If attractive interaction is lower than the critical value,the stability of the system has no request for magnetic field,but if attractive interaction is higher than the dividing value,a lower-limit magnetic field exists for the stability of the system.

  5. On Characterizing weak defining hyperplanes (weak Facets in DEA with Constant Returns to Scale Technology

    Directory of Open Access Journals (Sweden)

    Dariush Akbarian

    2017-09-01

    Full Text Available The Production Possibility Set (PPS is defined as a set of inputs and outputs of a system in which inputs can produce outputs. The Production Possibility Set of the Data Envelopment Analysis (DEA model is contain of two types defining hyperplanes (facets; strong and weak efficient facets. In this paper, the problem of finding weak defining hyperplanes of the PPS of the CCR model is dealt with. However, the equation of strong defining hyperplanes of the PPS of the CCR model can be found in this paper. We state and prove some properties relative to our method. To illustrate the applicability of the proposed model, some numerical examples are finally provided. Our algorithm can easily be implemented using existing packages for operation research, such as GAMS.

  6. Relativistic thermodynamic properties of a weakly interacting Fermi gas in a weak magnetic field

    Institute of Scientific and Technical Information of China (English)

    Men Fu-Dian; Liu Hui; Fan Zhao-Lan; Zhu Hou-Yu

    2009-01-01

    This paper derives the analytical expression of free energy for a weakly interacting Fermi gas in a weak magnetic field, by using the methods of quantum statistics as well as considering the relativistic effect. Based on the derived expression, the thermodynamic properties of the system at both high and low temperatures are given and the relativistic effect on the properties of the system is discussed. It shows that, in comparison with a nonrelativistic situation,the relativistic effect changes the influence of temperature on the thermodynamic properties of the system at high temperatures, and changes the influence of particle-number density on them at extremely low temperature. But the relativistic effect does not change the influence of the magnetic field and inter-particle interactions on the thermodynamic properties of the system at both high and extremely low temperatures.

  7. Reducing quantum-memory-assisted entropic uncertainty by weak measurement and weak measurement reversal

    Science.gov (United States)

    Zhang, Yanliang; Fang, Maofa; Kang, Guodong; Zhou, Qingping

    2015-08-01

    We have investigated the dynamic features of the quantum-memory-assisted entropic uncertainty relation (QMA EUR) in the amplitude damping (AD) channel. The initial state of qubit system and quantum memory system shared between Alice and Bob is assumed as extended by Werner-like (EWL) state. To reduce the amount of entropic uncertainty of Pauli observables in this noisy channel, we presented a reduction scheme by means of weak measurements (WMs) and weak measurement reversals (WMRs) before and after the entangled system subjecting to the noisy channel. It is shown that the prior WM and poster WMR can effectively reduce quantity of entropic uncertainty, but the poster WM operation cannot played a positive role on reduction of quantity of entropic uncertainty. We hope that our proposal could be verified experimentally and might possibly have future applications in quantum information processing.

  8. Q weak: A precision measurement of the proton's weak charge

    Energy Technology Data Exchange (ETDEWEB)

    Smith, Gregory R. [Jefferson Lab., Newport News, VA (United States)

    2005-02-01

    The Q{sub weak} experiment at Jefferson Lab will measure the parity-violating asymmetry in e-p elastic scattering at very low Q{sup 2} using a longitudinally polarized electron beam and a liquid hydrogen target. The experiment will provide the first measure of the weak charge of the proton, Q{sub w}, to an accuracy of 4%. Q{sub w} is simply related to the weak mixing angle {theta}{sub w}, providing a precision test of the Standard Model. Since the value of sin{sup 2} {theta}{sub w} is approximately 1/4, the weak charge of the proton Q{sub w}{sup p}=1-4sin{sup 2} {theta}{sub w} is suppressed in the Standard Model, making it especially sensitive to the value of the mixing angle and also to possible new physics. The experiment employs an 85% polarized, 180 {mu}A, 1.2 GeV electron beam, a 35 cm liquid hydrogen target; and a toroidal magnet to focus electrons scattered at 8 {+-}2 , corresponding to Q{sup 2}{proportional_to}0.03 (GeV/c){sup 2}. With these kinematics the systematic uncertainties from hadronic processes are strongly suppressed. To obtain the necessary statistics this 2200 hours experiment must run at an event rate of over 6 GHz. This requires current (integrating) mode detection of the scattered electrons, which will be achieved using synthetic quartz Cherenkov detectors. A tracking system will be used in a low-rate counting mode to determine the average Q{sup 2} and the dilution factor of background events. The theoretical context of the experiment and the status of its design are discussed. (orig.)

  9. The instability conditions of a weakly interacting Fermi gas trapped in weak magnetic field

    Institute of Scientific and Technical Information of China (English)

    Men Fu-Dian; Liu Hui

    2006-01-01

    In this paper the analytical expression of free energy expressed by small parameter r of a weakly interacting Fermi Based on the derived expression, the exact instability conditions of a weakly interacting Fermi gas trapped in weak magnetic field at both high and low temperatures are given. From the instability conditions we get the following two results. (1) At the whole low-temperature extent, whether the interactions are repulsive or attractive with (αn + 4εF/3)(n and εF denote the particle-number density and the Fermi energy respectively, c = 4πah2/m, and a is s-wave scattering length) positive, there is a lower-limit magnetic field of instability; in addition, there is an upper-limit magnetic field for the system of attractive interactions with (αn + 4eF/3) negative. (2) At the whole high-temperature extent, the system with repulsive interactions is always stable, but for the system with attractive interactions, the greater the scattering length of attractive interactions |a| is, the stronger the magnetic field is and the larger the particle-number density is,the bigger the possibility of instability in the system will be.

  10. Tests of the weak equivalence principle

    Science.gov (United States)

    Speake, C. C.; Will, C. M.

    2012-09-01

    The Einstein equivalence principle is the foundation for general relativity and all metric theories of gravity. Of its three tenets—the equality of acceleration of test bodies, or weak equivalence principle; the validity of Lorentz invariance in local freely falling frames; and the position invariance of local physical laws—the weak equivalence principle has played the most important role historically, and continues to be a focus of intense theoretical and experimental investigation. From the probably apocryphal 16th century demonstrations by Galileo at Pisa's leaning tower to the sensitive torsion-balance measurements of today (both pictured on the cover of this issue), this principle, dubbed WEP, has been crucial to the development of gravitation theory. The universality of the rate of acceleration of all types of matter in a gravitational field can be taken as evidence that gravitation is fundamentally determined by the geometry, or metric, of spacetime. Newton began his magnum opus 'The Principia' with a discussion of WEP and his experiments to verify it, while Einstein took WEP for granted in his construction of general relativity, never once referring to the epochal experiments by Baron Eötvös. The classic 1964 experiment of Roll, Krotkov and Dicke ushered in the modern era of high-precision tests, and the search for a 'fifth force' during the late 1980s (instigated, ironically, by purported anomalies in Eötvös's old data) caused the enterprise to pivot from pure tests of the foundation of GR to searches for new physics beyond the standard model of the non-gravitational interactions. Today, the next generation of experimental tests of WEP are being prepared for launch or are being developed, with the goal of reaching unprecedented levels of sensitivity, in search of signatures of interactions inspired by string theory, extra dimensions and other concepts from the world of high-energy physics. At the same time observations continue using lunar laser

  11. Photoinitiated reactions in weakly bonded complexes

    Energy Technology Data Exchange (ETDEWEB)

    Wittig, C.

    1993-05-01

    This paper discusses photoinitiated reactions in weakly bonded binary complexes in which the constituents are only mildly perturbed by the intermolecular bond. Such complexes, with their large zero point excursions, set the stage for events that occur following electronic excitation of one of the constituents. This can take several forms, but in all cases, entrance channel specificity is imposed by the character of the complex as well as the nature of the photoinitiation process. This has enabled us to examine aspects of bimolecular processes: steric effects, chemical branching ratios, and inelastic scattering. Furthermore, monitoring reactions directly in the time domain can reveal mechanisms that cannot be inferred from measurements of nascent product excitations. Consequently, we examined several systems that had been studied previously by our group with product state resolution. With CO{sub 2}/HI, in which reaction occurs via a HOCO intermediate, the rates agree with RRKM predictions. With N{sub 2}O/HI, the gas phase single collision reaction yielding OH + N{sub 2} has been shown to proceed mainly via an HNNO intermediate that undergoes a 1,3-hydrogen shift to the OH + N{sub 2} channel. With complexes, ab initio calculations and high resolution spectroscopic studies of analogous systems suggest that the hydrogen, while highly delocalized, prefers the oxygen to the nitrogen. We observe that OH is produced with a fast risetime (< 250 fs) which can be attributed to either direct oxygen-side attack or rapid HNNO decomposition and/or a termolecular contribution involving the nearby iodine.

  12. Whistler Waves Associated with Weak Interplanetary Shocks

    Science.gov (United States)

    Velez, J. C. Ramirez; Blanco-Cano, X.; Aguilar-Rodriguez, E.; Russell, C. T.; Kajdic, P.; Jian,, L. K.; Luhmann, J. G.

    2012-01-01

    We analyze the properties of 98 weak interplanetary shocks measured by the dual STEREO spacecraft over approximately 3 years during the past solar minimum. We study the occurrence of whistler waves associated with these shocks, which on average are high beta shocks (0.2 whistler waves can extend up to 100,000 km in the upstream region but in most cases (88%) are contained in a distance within 30,000 km from the shock. This corresponds to a larger region with upstream whistlers associated with IP shocks than previously reported in the literature. The maximum amplitudes of the waves are observed next to the shock interface, and they decrease as the distance to the shock increases. In most cases the wave propagation direction becomes more aligned with the magnetic field as the distance to the shock increases. These two facts suggest that most of the waves in the upstream region are Landau damping as they move away from the shock. From the analysis we also conclude that it is likely that the generation mechanism of the upstream whistler waves is taking place at the shock interface. In the downstream region, the waves are irregularly polarized, and the fluctuations are very compressive; that is, the compressive component of the wave clearly dominates over the transverse one. The majority of waves in the downstream region (95%) propagate at oblique angles with respect to the ambient magnetic field (>60 deg.). The wave propagation with respect to the shock-normal direction has no preferred direction and varies similarly to the upstream case. It is possible that downstream fluctuations are generated by ion relaxation as suggested in previous hybrid simulation shocks.

  13. Weakly nonlinear simulation of planar stratified flows

    Energy Technology Data Exchange (ETDEWEB)

    King, Michael R. [Department of Chemical Engineering, University of Notre Dame, Notre Dame, Indiana 46556 (United States); McCready, Mark J. [Department of Chemical Engineering, University of Notre Dame, Notre Dame, Indiana 46556 (United States)

    2000-01-01

    The interfacial behavior of two-fluid, planar flows is studied by numerical integration of weakly-nonlinear amplitude equations derived via eigenfunction expansion of the governing equations. This study extends the range of classic Stuart-Landau theories by the inclusion of a spectrum of modes allowing all possible quadratic and cubic interactions. Results are obtained for four cases where linear and Stuart-Landau theories do not give a complete description; gas-liquid and oil-water pressure driven flow, matched-density liquid-liquid Couette flow, and the region of gas-liquid flow near resonance that switches from supercritical to subcritical. It is found that integration of amplitude equations gives better qualitative and quantitative agreement with experiments than Stuart-Landau theory. Further, the distinctively different behaviors of these systems can be understood in terms of the spectrum of nonlinear coefficients. In gas-liquid channel flow a low wave number wave is destabilized through quadratic interaction with the mean flow mode. For liquid-liquid Poiseuille flow, a low wave number wave is destabilized through cubic interactions with higher modes. For depth and viscosity ratios where liquid-liquid Couette flow is unstable to long waves and for which the growth rates are not too large, simulation results predict that the waves grow to a statistically steady state where there is no preferred wave number. Stabilization is provided by an apparently self-similar cascade of energy to higher modes that are linearly stable, explaining why no visible waves occur in experiments done in this region. While Stuart-Landau theory provides no prediction of wave amplitude above criticality for subcritical cases, simulations show that wave saturation at small amplitude is possible and suggests that subcritical predictions may not mean that steady waves do not exist. (c) 2000 American Institute of Physics.

  14. Weak lensing galaxy cluster field reconstruction

    Science.gov (United States)

    Jullo, E.; Pires, S.; Jauzac, M.; Kneib, J.-P.

    2014-02-01

    In this paper, we compare three methods to reconstruct galaxy cluster density fields with weak lensing data. The first method called FLens integrates an inpainting concept to invert the shear field with possible gaps, and a multi-scale entropy denoising procedure to remove the noise contained in the final reconstruction, that arises mostly from the random intrinsic shape of the galaxies. The second and third methods are based on a model of the density field made of a multi-scale grid of radial basis functions. In one case, the model parameters are computed with a linear inversion involving a singular value decomposition (SVD). In the other case, the model parameters are estimated using a Bayesian Monte Carlo Markov Chain optimization implemented in the lensing software LENSTOOL. Methods are compared on simulated data with varying galaxy density fields. We pay particular attention to the errors estimated with resampling. We find the multi-scale grid model optimized with Monte Carlo Markov Chain to provide the best results, but at high computational cost, especially when considering resampling. The SVD method is much faster but yields noisy maps, although this can be mitigated with resampling. The FLens method is a good compromise with fast computation, high signal-to-noise ratio reconstruction, but lower resolution maps. All three methods are applied to the MACS J0717+3745 galaxy cluster field, and reveal the filamentary structure discovered in Jauzac et al. We conclude that sensitive priors can help to get high signal-to-noise ratio, and unbiased reconstructions.

  15. Regioselective photochemistry in weakly bonded complexes

    Science.gov (United States)

    Shin, S. K.; Chen, Y.; Böhmer, E.; Wittig, C.

    The measurements proposed above are made difficult mainly by the need for the right coherent sources. The experimental challenges of generating high-energy, tunable, picosecond or sub-picosecond, temporally synchronized, etc. pulses are formidable and may understandably frighten away many researchers. But there is no reason to believe that the development of the needed sources would not occur. On the contrary, there is every reason to be optimistic about future laser developments. After all, how many people would have predicted the present array of laser-based tools 25 years ago when the dye laser was first invented. So we not only thank Fritz Schaefer and Peter Sorokin for inventing the dye laser, but also for spawning the entire field that has evolved with, and consequent to, this seminal invention, and which continues to promote and inspire our scientific inquiries.

  16. Functional Characterization of a Bidirectional Plant Promoter from Cotton Leaf Curl Burewala Virus Using an Agrobacterium-Mediated Transient Assay

    Directory of Open Access Journals (Sweden)

    Muhammad Aleem Ashraf

    2014-01-01

    Full Text Available The C1 promoter expressing the AC1 gene, and V1 promoter expressing the AV1 gene are located in opposite orientations in the large intergenic region of the Cotton leaf curl Burewala virus (CLCuBuV genome. Agro-infiltration was used to transiently express putative promoter constructs in Nicotiana tabacum and Gossypium hirsutum leaves, which was monitored by a GUS reporter gene, and revealed that the bidirectional promoter of CLCuBuV transcriptionally regulates both the AC1 and AV1 genes. The CLCuBuV C1 gene promoter showed a strong, consistent transient expression of the reporter gene (GUS in N. tabacum and G. hirsutum leaves and exhibited GUS activity two- to three-fold higher than the CaMV 35S promoter. The CLCuBuV bidirectional gene promoter is a nearly constitutive promoter that contains basic conserved elements. Many cis-regulatory elements (CREs were also analyzed within the bidirectional plant promoters of CLCuBuV and closely related geminiviruses, which may be helpful in understanding the transcriptional regulation of both the virus and host plant.

  17. Molecular phylogenetic analysis of Vibrio cholerae O1 El Tor strains isolated before, during and after the O 139 outbreak based on the inter-genomic heterogeneity of the 16S-23S rRNA intergenic spacer regions.

    Science.gov (United States)

    Ghatak, Atreyi; Majumdar, Anasuya; Ghosh, Ranajit K

    2005-12-01

    We have cloned, sequenced and analysed all the five classes of the intergenic (16S-23S rRNA) spacer region (ISR) associated with the eight rrn operons (rrna-rrnh) of Vibrio cholerae serogroup O1 El Tor strains isolated before, during and after the O 139 outbreak. ISR classes 'a' and 'g' were found to be invariant, ISR-B (ISRb and ISRe) exhibited very little variation, whereas ISR-C (ISRc, ISRd, and ISRf) and ISRh showed the maximum variation. Phylogenetic analysis conducted with all three ISR classes (ISR-B, ISR-C and ISRh) showed that the pre-O 139 serogroup and post-O 139 serogroup O1 El Tor strains arose out of two independent clones, which was congruent with the observation made by earlier workers suggesting that analyses of ISR-C and ISR-h, instead of all five ISR classes, could be successfully used to study phylogeny in this organism.

  18. Ephaptic coupling rescues conduction failure in weakly coupled cardiac tissue with voltage-gated gap junctions

    Science.gov (United States)

    Weinberg, S. H.

    2017-09-01

    Electrical conduction in cardiac tissue is usually considered to be primarily facilitated by gap junctions, providing a pathway between the intracellular spaces of neighboring cells. However, recent studies have highlighted the role of coupling via extracellular electric fields, also known as ephaptic coupling, particularly in the setting of reduced gap junction expression. Further, in the setting of reduced gap junctional coupling, voltage-dependent gating of gap junctions, an oft-neglected biophysical property in computational studies, produces a positive feedback that promotes conduction failure. We hypothesized that ephaptic coupling can break the positive feedback loop and rescue conduction failure in weakly coupled cardiac tissue. In a computational tissue model incorporating voltage-gated gap junctions and ephaptic coupling, we demonstrate that ephaptic coupling can rescue conduction failure in weakly coupled tissue. Further, ephaptic coupling increased conduction velocity in weakly coupled tissue, and importantly, reduced the minimum gap junctional coupling necessary for conduction, most prominently at fast pacing rates. Finally, we find that, although neglecting gap junction voltage-gating results in negligible differences in well coupled tissue, more significant differences occur in weakly coupled tissue, greatly underestimating the minimal gap junctional coupling that can maintain conduction. Our study suggests that ephaptic coupling plays a conduction-preserving role, particularly at rapid heart rates.

  19. Evolution of the leukotoxin promoter in genus Mannheimia

    DEFF Research Database (Denmark)

    Larsen, Jesper; Pedersen, Anders Gorm; Davies, Robert L

    2009-01-01

    Background: The Mannheimia species encompass a wide variety of bacterial lifestyles, including opportunistic pathogens and commensals of the ruminant respiratory tract, commensals of the ovine rumen, and pathogens of the ruminant integument. Here we present a scenario for the evolution of the leu......Background: The Mannheimia species encompass a wide variety of bacterial lifestyles, including opportunistic pathogens and commensals of the ruminant respiratory tract, commensals of the ovine rumen, and pathogens of the ruminant integument. Here we present a scenario for the evolution...... of the leukotoxin promoter among representatives of the five species within genus Mannheimia. We also consider how the evolution of the leukotoxin operon fits with the evolution and maintenance of virulence. Results: The alignment of the intergenic regions upstream of the leukotoxin genes showed significant...... sequence and positional conservation over a 225-bp stretch immediately proximal to the transcriptional start site of the IktC gene among all Mannheimia strains. However, in the course of the Mannheimia genome evolution, the acquisition of individual noncoding regions upstream of the conserved promoter...

  20. Weak interference in the high-signal regime.

    Science.gov (United States)

    Torres, Juan P; Puentes, Graciana; Hermosa, Nathaniel; Salazar-Serrano, Luis Jose

    2012-08-13

    Weak amplification is a signal enhancement technique which is used to measure tiny changes that otherwise cannot be determined because of technical limitations. It is based on: a) the existence of a weak interaction which couples a property of a system (the system) with a separate degree of freedom (the pointer), and b) the measurement of an anomalously large mean value of the pointer state (weak mean value), after appropriate pre-and post-selection of the state of the system. Unfortunately, the weak amplification process is generally accompanied by severe losses of the detected signal, which limits its applicability. However, we will show here that since weak amplification is essentially the result of an interference phenomena, it should be possible to use the degree of interference (weak interference) to get relevant information about the physical system under study in a more general scenario, where the signal is not severely depleted (high-signal regime).