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Sample records for purely epistatic multi-locus

  1. A method for detecting epistasis in genome-wide studies using case-control multi-locus association analysis

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    Galan Jose

    2008-07-01

    Full Text Available Abstract Background The difficulty in elucidating the genetic basis of complex diseases roots in the many factors that can affect the development of a disease. Some of these genetic effects may interact in complex ways, proving undetectable by current single-locus methodology. Results We have developed an analysis tool called Hypothesis Free Clinical Cloning (HFCC to search for genome-wide epistasis in a case-control design. HFCC combines a relatively fast computing algorithm for genome-wide epistasis detection, with the flexibility to test a variety of different epistatic models in multi-locus combinations. HFCC has good power to detect multi-locus interactions simulated under a variety of genetic models and noise conditions. Most importantly, HFCC can accomplish exhaustive genome-wide epistasis search with large datasets as demonstrated with a 400,000 SNP set typed on a cohort of Parkinson's disease patients and controls. Conclusion With the current availability of genetic studies with large numbers of individuals and genetic markers, HFCC can have a great impact in the identification of epistatic effects that escape the standard single-locus association analyses.

  2. Integration of least angle regression with empirical Bayes for multi-locus genome-wide association studies

    Science.gov (United States)

    Multi-locus genome-wide association studies has become the state-of-the-art procedure to identify quantitative trait loci (QTL) associated with traits simultaneously. However, implementation of multi-locus model is still difficult. In this study, we integrated least angle regression with empirical B...

  3. Application of multi-locus analytical methods to identify interacting loci in case-control studies.

    NARCIS (Netherlands)

    Vermeulen, S.; Heijer, M. den; Sham, P.; Knight, J.

    2007-01-01

    To identify interacting loci in genetic epidemiological studies the application of multi-locus methods of analysis is warranted. Several more advanced classification methods have been developed in the past years, including multiple logistic regression, sum statistics, logic regression, and the multi

  4. Genome Wide Single Locus Single Trait, Multi-Locus and Multi-Trait Association Mapping for Some Important Agronomic Traits in Common Wheat (T. aestivum L.).

    Science.gov (United States)

    Jaiswal, Vandana; Gahlaut, Vijay; Meher, Prabina Kumar; Mir, Reyazul Rouf; Jaiswal, Jai Prakash; Rao, Atmakuri Ramakrishna; Balyan, Harindra Singh; Gupta, Pushpendra Kumar

    2016-01-01

    Genome wide association study (GWAS) was conducted for 14 agronomic traits in wheat following widely used single locus single trait (SLST) approach, and two recent approaches viz. multi locus mixed model (MLMM), and multi-trait mixed model (MTMM). Association panel consisted of 230 diverse Indian bread wheat cultivars (released during 1910-2006 for commercial cultivation in different agro-climatic regions in India). Three years phenotypic data for 14 traits and genotyping data for 250 SSR markers (distributed across all the 21 wheat chromosomes) was utilized for GWAS. Using SLST, as many as 213 MTAs (p ≤ 0.05, 129 SSRs) were identified for 14 traits, however, only 10 MTAs (~9%; 10 out of 123 MTAs) qualified FDR criteria; these MTAs did not show any linkage drag. Interestingly, these genomic regions were coincident with the genomic regions that were already known to harbor QTLs for same or related agronomic traits. Using MLMM and MTMM, many more QTLs and markers were identified; 22 MTAs (19 QTLs, 21 markers) using MLMM, and 58 MTAs (29 QTLs, 40 markers) using MTMM were identified. In addition, 63 epistatic QTLs were also identified for 13 of the 14 traits, flag leaf length (FLL) being the only exception. Clearly, the power of association mapping improved due to MLMM and MTMM analyses. The epistatic interactions detected during the present study also provided better insight into genetic architecture of the 14 traits that were examined during the present study. Following eight wheat genotypes carried desirable alleles of QTLs for one or more traits, WH542, NI345, NI170, Sharbati Sonora, A90, HW1085, HYB11, and DWR39 (Pragati). These genotypes and the markers associated with important QTLs for major traits can be used in wheat improvement programs either using marker-assisted recurrent selection (MARS) or pseudo-backcrossing method.

  5. Genome Wide Single Locus Single Trait, Multi-Locus and Multi-Trait Association Mapping for Some Important Agronomic Traits in Common Wheat (T. aestivum L..

    Directory of Open Access Journals (Sweden)

    Vandana Jaiswal

    Full Text Available Genome wide association study (GWAS was conducted for 14 agronomic traits in wheat following widely used single locus single trait (SLST approach, and two recent approaches viz. multi locus mixed model (MLMM, and multi-trait mixed model (MTMM. Association panel consisted of 230 diverse Indian bread wheat cultivars (released during 1910-2006 for commercial cultivation in different agro-climatic regions in India. Three years phenotypic data for 14 traits and genotyping data for 250 SSR markers (distributed across all the 21 wheat chromosomes was utilized for GWAS. Using SLST, as many as 213 MTAs (p ≤ 0.05, 129 SSRs were identified for 14 traits, however, only 10 MTAs (~9%; 10 out of 123 MTAs qualified FDR criteria; these MTAs did not show any linkage drag. Interestingly, these genomic regions were coincident with the genomic regions that were already known to harbor QTLs for same or related agronomic traits. Using MLMM and MTMM, many more QTLs and markers were identified; 22 MTAs (19 QTLs, 21 markers using MLMM, and 58 MTAs (29 QTLs, 40 markers using MTMM were identified. In addition, 63 epistatic QTLs were also identified for 13 of the 14 traits, flag leaf length (FLL being the only exception. Clearly, the power of association mapping improved due to MLMM and MTMM analyses. The epistatic interactions detected during the present study also provided better insight into genetic architecture of the 14 traits that were examined during the present study. Following eight wheat genotypes carried desirable alleles of QTLs for one or more traits, WH542, NI345, NI170, Sharbati Sonora, A90, HW1085, HYB11, and DWR39 (Pragati. These genotypes and the markers associated with important QTLs for major traits can be used in wheat improvement programs either using marker-assisted recurrent selection (MARS or pseudo-backcrossing method.

  6. Multi-locus association study of schizophrenia susceptibility genes with a posterior probability method

    Institute of Scientific and Technical Information of China (English)

    SUN Xiangqing; JIA Yanbin; ZHANG Xuegong; XU Qi; SHEN Yan; LI Yanda

    2005-01-01

    Schizophrenia is a serious neuropsychiatric illness affecting about 1% of the world's population. It is considered a complex inheritance disorder. A number of genes are involved in combination in the etiology of the disorder. Evidence implicates the altered dopaminergic transmission in schizophrenia. In the present study, in order to identify susceptibility genes for schizophrenia in dopaminergic metabolism, we analyzed 59 single nucleotide polymorphisms (SNPs) in 24 genes of the dopaminergic pathway among 82 unrelated patients with schizophrenia and 108 matched normal controls. Considering that traditional single-locus association studies ignore the multigenic nature of complex diseases and do not take into account possible interactions between susceptibility genes, we proposed a multi-locus analysis method, using the posterior probability of morbidity as a measure of absolute disease risk for a multi-locus genotype combination, and developed an algorithm based on perturbation and average to detect the susceptibility multi-locus genotype combinations, as well as to repress noise and avoid false positive results at our best. A three-locus SNP genotype combination involved in the interactions of COMTand ALDH3B1 genes was detected to be significantly susceptible to schizophrenia.

  7. Multi-locus estimates of population structure and migration in a fence lizard hybrid zone.

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    Adam D Leaché

    Full Text Available A hybrid zone between two species of lizards in the genus Sceloporus (S. cowlesi and S. tristichus on the Mogollon Rim in Arizona provides a unique opportunity to study the processes of lineage divergence and merging. This hybrid zone involves complex interactions between 2 morphologically and ecologically divergent subspecies, 3 chromosomal groups, and 4 mitochondrial DNA (mtDNA clades. The spatial patterns of divergence between morphology, chromosomes and mtDNA are discordant, and determining which of these character types (if any reflects the underlying population-level lineages that are of interest has remained impeded by character conflict. The focus of this study is to estimate the number of populations interacting in the hybrid zone using multi-locus nuclear data, and to then estimate the migration rates and divergence time between the inferred populations. Multi-locus estimates of population structure and gene flow were obtained from 12 anonymous nuclear loci sequenced for 93 specimens of Sceloporus. Population structure estimates support two populations, and this result is robust to changes to the prior probability distribution used in the Bayesian analysis and the use of spatially-explicit or non-spatial models. A coalescent analysis of population divergence suggests that gene flow is high between the two populations, and that the timing of divergence is restricted to the Pleistocene. The hybrid zone is more accurately described as involving two populations belonging to S. tristichus, and the presence of S. cowlesi mtDNA haplotypes in the hybrid zone is an anomaly resulting from mitochondrial introgression.

  8. Taxonomic evaluation of putative Streptomyces scabiei strains held in the ARS (NRRL) Culture Collection using multi-locus sequence analysis

    Science.gov (United States)

    Multi-locus sequence analysis has been demonstrated to be a useful tool for identification of Streptomyces species and was previously applied to phylogenetically differentiate the type strains of species pathogenic on potatoes (Solanum tuberosum L.). The ARS Culture Collection (NRRL) contains 43 str...

  9. Preparation of multi-locus DNA probe cocktail by liquid-phase reassociation.

    Science.gov (United States)

    Tamaki, Y; Fukuda, M; Kishida, T; Wang, W

    1995-08-01

    We developed a simple, rapid method for the preparation of a DNA-fingerprinting probe cocktail, and tested its usefulness in paternity testing. Exploiting the property of tandemly repetitive DNA segments to be rapidly renatured after heat denaturation, we enriched restriction fragments of a child's genomic DNA for minisatellites by liquid phase reassociation followed by capture with immobilized streptavidin. We amplified and simultaneously labeled the reassociation product by anchored PCR using a digoxigenin-labeling mixture. Using this probe cocktail, we were able to detect fingerprints of paternity case trios, and the results were corroborated by DNA fingerprinting with a commercially available probe as well as by conventional phenotyping. Our method enables one to prepare a fresh cocktail of probes from the DNA sample under study during the overnight electrophoresis and Southern transfer steps in DNA fingerprinting, and eliminates the need of having an expensive probe of limited shelf life. If one has a practical outlook on DNA fingerprinting and regard it as a preliminary test, one does not have to use a cloned DNA probe. The present study demonstrates that a multi-locus probe cocktail serves such a practical purpose.

  10. Multi-locus sequence type analysis of Shigellas pp. isolates from Tehran, Iran

    Science.gov (United States)

    Shahsavan, Shadi; Nobakht, Maliheh; Rastegar-Lari, Abdolaziz; Owlia, Parviz; Bakhshi, Bita

    2016-01-01

    Background and Objectives: Strains of Shigella spp. can cause shigellosis, or bacillary dysentery. that is a public health problem worldwide. The aim of this study was to describe the population structure and genetic relatedness of multidrug resistant S. sonnei and S. flexneri isolated during a one year period from children with diarrhea in Tehran, Iran. Materials and Methods: A total of 70 Shigella spp. were detected during the study period. Twenty MDR isolates of Shigella spp. were randomly selected and used in this study. Bacterial identification was performed by conventional biochemical and serological and confirmed by molecular method. After antimicrobial susceptibility testing, we used Multilocus sequence typing (MLST) for subtyping isolates. Results: We found 14 Shigella sonnei and 6 Shigella flexneri isolates. Results of MLST showed five sequence types (ST) (145, 152, 241, 245, 1502) and BURST analysis revealed the largest number of single locus variant (SLV) and highest frequency (FREQ) for ST152. ST 152 with nine members was predicted as the founder by BURST. Frequency for ST 1502 and ST 245 was four isolates and the least frequency was seen for ST 241 and 145 with one and two members, respectively. ST 145 and ST 245 were described as singletons in BURST. All isolates with ST145 and ST245 were identified as Shigella flexneri. Conclusion: Annual Multi locus sequence typing of MDR Shigella would help us in better understanding of dominant species and comparing our results with the same studies in other countries especially our neighbor countries in source tracking purposes.

  11. Genotyping of B. licheniformis based on a novel multi-locus sequence typing (MLST scheme

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    Madslien Elisabeth H

    2012-10-01

    Full Text Available Abstract Background Bacillus licheniformis has for many years been used in the industrial production of enzymes, antibiotics and detergents. However, as a producer of dormant heat-resistant endospores B. licheniformis might contaminate semi-preserved foods. The aim of this study was to establish a robust and novel genotyping scheme for B. licheniformis in order to reveal the evolutionary history of 53 strains of this species. Furthermore, the genotyping scheme was also investigated for its use to detect food-contaminating strains. Results A multi-locus sequence typing (MLST scheme, based on the sequence of six house-keeping genes (adk, ccpA, recF, rpoB, spo0A and sucC of 53 B. licheniformis strains from different sources was established. The result of the MLST analysis supported previous findings of two different subgroups (lineages within this species, named “A” and “B” Statistical analysis of the MLST data indicated a higher rate of recombination within group “A”. Food isolates were widely dispersed in the MLST tree and could not be distinguished from the other strains. However, the food contaminating strain B. licheniformis NVH1032, represented by a unique sequence type (ST8, was distantly related to all other strains. Conclusions In this study, a novel and robust genotyping scheme for B. licheniformis was established, separating the species into two subgroups. This scheme could be used for further studies of evolution and population genetics in B. licheniformis.

  12. Measuring Meiotic Crossovers via Multi-Locus Genotyping of Single Pollen Grains in Barley.

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    Steven Dreissig

    Full Text Available The detection of meiotic crossovers in crop plants currently relies on scoring DNA markers in a segregating population or cytological visualization. We investigated the feasibility of using flow-sorted haploid nuclei, Phi29 DNA polymerase-based whole-genome-amplification (WGA and multi-locus KASP-genotyping to measure meiotic crossovers in individual barley pollen grains. To demonstrate the proof of concept, we used 24 gene-based physically mapped single nucleotide polymorphisms to genotype the WGA products of 50 single pollen nuclei. The number of crossovers per chromosome, recombination frequencies along chromosome 3H and segregation distortion were analysed and compared to a doubled haploid (DH population of the same genotype. The number of crossovers and chromosome wide recombination frequencies show that this approach is able to produce results that resemble those obtained from other methods in a biologically meaningful way. Only the segregation distortion was found to be lower in the pollen population than in DH plants.

  13. Multi-locus sequence typing of Ehrlichia ruminantium strains from geographically diverse origins and collected in Amblyomma variegatum from Uganda

    OpenAIRE

    Jongejan Frans; Zhou Lijia; Magona Joseph W; Nakao Ryo; Sugimoto Chihiro

    2011-01-01

    Abstract Background The rickettsial bacterium Ehrlichia ruminantium is the causative agent of heartwater in ruminants. A better understanding of the population genetics of its different strains is, however, needed for the development of novel diagnostic tools, therapeutics and prevention strategies. Specifically, the development of effective vaccination policies relies on the proper genotyping and characterisation of field isolates. Although multi-locus sequence typing (MLST) has been recentl...

  14. Locally epistatic genomic relationship matrices for genomic association

    Science.gov (United States)

    In plant and animal breeding studies a distinction is made between the genetic value (additive + epistatic genetic effects) and the breeding value (additive genetic effects) of an individual since it is expected that some of the epistatic genetic effects will be lost due to recombination. In this pa...

  15. Development and evaluation of a multi-locus sequence typing scheme for Mycoplasma synoviae.

    Science.gov (United States)

    Dijkman, R; Feberwee, A; Landman, W J M

    2016-08-01

    Reproducible molecular Mycoplasma synoviae typing techniques with sufficient discriminatory power may help to expand knowledge on its epidemiology and contribute to the improvement of control and eradication programmes of this mycoplasma species. The present study describes the development and validation of a novel multi-locus sequence typing (MLST) scheme for M. synoviae. Thirteen M. synoviae isolates originating from different poultry categories, farms and lesions, were subjected to whole genome sequencing. Their sequences were compared to that of M. synoviae reference strain MS53. A high number of single nucleotide polymorphisms (SNPs) indicating considerable genetic diversity were identified. SNPs were present in over 40 putative target genes for MLST of which five target genes were selected (nanA, uvrA, lepA, ruvB and ugpA) for the MLST scheme. This scheme was evaluated analysing 209 M. synoviae samples from different countries, categories of poultry, farms and lesions. Eleven clonal clusters and 76 different sequence types (STs) were obtained. Clustering occurred following geographical origin, supporting the hypothesis of regional population evolution. M. synoviae samples obtained from epidemiologically linked outbreaks often harboured the same ST. In contrast, multiple M. synoviae lineages were found in samples originating from swollen joints or oviducts from hens that produce eggs with eggshell apex abnormalities indicating that further research is needed to identify the genetic factors of M. synoviae that may explain its variations in tissue tropism and disease inducing potential. Furthermore, MLST proved to have a higher discriminatory power compared to variable lipoprotein and haemagglutinin A typing, which generated 50 different genotypes on the same database.

  16. Multi-locus assortment (MLA for transgene dispersal and elimination in mosquito populations.

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    Jason L Rasgon

    Full Text Available BACKGROUND: Replacement of wild-type mosquito populations with genetically modified versions is being explored as a potential strategy to control vector-borne diseases. Due to lower expected relative fitness of transgenic individuals, transgenes must be driven into populations for these scenarios to be successful. Several gene drive mechanisms exist in a theoretical sense but none are currently workable in mosquitoes. Even if strategies were workable, it would be very difficult to recall released transgenes in the event of unforeseen consequences. What is needed is a way to test transgenes in the field for feasibility, efficacy and safety prior to releasing an active drive mechanism. METHODOLOGY/PRINCIPAL FINDINGS: We outline a method, termed Multi-locus assortment (MLA, to spread transgenes into vector populations by the release of genetically-modified mosquitoes carrying multiple stable transgene inserts. Simulations indicate that [1] insects do not have to carry transgenes at more than 4 loci, [2] transgenes can be maintained at high levels by sequential small releases, the frequency of which depends on the construct fitness cost, and [3] in the case of unforeseen negative non-target effects, transgenes can be eliminated from the population by halting transgenic releases and/or mass releases of wild-type insects. We also discuss potential methods to create MLA mosquito strains in the laboratory. CONCLUSIONS/SIGNIFICANCE: While not as efficient as active drive mechanisms, MLA has other advantages: [1] MLA strains can be constructed for some mosquito species with currently-available technology, [2] MLA will allow the ecological components of transgenic mosquito releases to be tested before actual gene drive mechanisms are ready to be deployed, [3] since MLA is not self-propagating, the risk of an accidental premature release into nature is minimized, and [4] in the case that active gene drive mechanisms prove impossible to develop, the MLA

  17. Multi-locus sequence type analysis of Shigellas pp. isolates from Tehran, Iran

    Directory of Open Access Journals (Sweden)

    shadi shahsavan

    2016-12-01

    Full Text Available Background and Objectives: Strains of Shigella spp. can cause shigellosis, or bacillary dysentery.that is a public health problem worldwide. The aim of this study was to describe the population structure and genetic relatedness of multidrug resistant S. sonnei and S. flexneri isolated during a one year period from children with diarrhea in Tehran, Iran.Materials and Methods: A total of 70 Shigella spp. were detected during the study period . Twenty MDR isolates of Shigella spp. were randomly selected and used in this study. Bacterial identification was performed by conventional biochemical and serological and confirmed by molecular method. After antimicrobial susceptibility testing, we used Multilocus sequence typing (MLST for subtyping isolates.Results: We found 14 Shigella sonnei and 6 Shigella flexneri isolates. Results of MLST showed five sequence types (ST (145, 152, 241, 245, 1502 and BURST analysis revealed the largest number of single locus variant (SLV and highest frequency (FREQ for ST152. ST 152 with nine members was predicted as the founder by BURST. Frequency for ST 1502 and ST 245 was four isolates and the least frequency was seen for ST 241 and 145 with one and two members, respectively. ST 145 and ST 245 were described as singletons in BURST. All isolates with ST145 and ST245 were identified as Shigella flexneri.Conclusion: Annual Multi locus sequence typing of MDR Shigella would help us in better understanding of dominant species and comparing our results with the same studies in other countries especially our neighbor countries in source tracking purposes.Keywords: Shigella, Multilocus sequence typing, Multidrug resistant

  18. Multi locus sequence typing of Chlamydia reveals an association between Chlamydia psittaci genotypes and host species.

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    Yvonne Pannekoek

    Full Text Available Chlamydia comprises a group of obligate intracellular bacterial parasites responsible for a variety of diseases in humans and animals, including several zoonoses. Chlamydia trachomatis causes diseases such as trachoma, urogenital infection and lymphogranuloma venereum with severe morbidity. Chlamydia pneumoniae is a common cause of community-acquired respiratory tract infections. Chlamydia psittaci, causing zoonotic pneumonia in humans, is usually hosted by birds, while Chlamydia abortus, causing abortion and fetal death in mammals, including humans, is mainly hosted by goats and sheep. We used multi-locus sequence typing to asses the population structure of Chlamydia. In total, 132 Chlamydia isolates were analyzed, including 60 C. trachomatis, 18 C. pneumoniae, 16 C. abortus, 34 C. psittaci and one of each of C. pecorum, C. caviae, C. muridarum and C. felis. Cluster analyses utilizing the Neighbour-Joining algorithm with the maximum composite likelihood model of concatenated sequences of 7 housekeeping fragments showed that C. psittaci 84/2334 isolated from a parrot grouped together with the C. abortus isolates from goats and sheep. Cluster analyses of the individual alleles showed that in all instances C. psittaci 84/2334 formed one group with C. abortus. Moving 84/2334 from the C. psittaci group to the C. abortus group resulted in a significant increase in the number of fixed differences and elimination of the number of shared mutations between C. psittaci and C. abortus. C. psittaci M56 from a muskrat branched separately from the main group of C. psittaci isolates. C. psittaci genotypes appeared to be associated with host species. The phylogenetic tree of C. psittaci did not follow that of its host bird species, suggesting host species jumps. In conclusion, we report for the first time an association between C. psittaci genotypes with host species.

  19. Epistatic adaptive evolution of human color vision.

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    Shozo Yokoyama

    2014-12-01

    Full Text Available Establishing genotype-phenotype relationship is the key to understand the molecular mechanism of phenotypic adaptation. This initial step may be untangled by analyzing appropriate ancestral molecules, but it is a daunting task to recapitulate the evolution of non-additive (epistatic interactions of amino acids and function of a protein separately. To adapt to the ultraviolet (UV-free retinal environment, the short wavelength-sensitive (SWS1 visual pigment in human (human S1 switched from detecting UV to absorbing blue light during the last 90 million years. Mutagenesis experiments of the UV-sensitive pigment in the Boreoeutherian ancestor show that the blue-sensitivity was achieved by seven mutations. The experimental and quantum chemical analyses show that 4,008 of all 5,040 possible evolutionary trajectories are terminated prematurely by containing a dehydrated nonfunctional pigment. Phylogenetic analysis further suggests that human ancestors achieved the blue-sensitivity gradually and almost exclusively by epistasis. When the final stage of spectral tuning of human S1 was underway 45-30 million years ago, the middle and long wavelength-sensitive (MWS/LWS pigments appeared and so-called trichromatic color vision was established by interprotein epistasis. The adaptive evolution of human S1 differs dramatically from orthologous pigments with a major mutational effect used in achieving blue-sensitivity in a fish and several mammalian species and in regaining UV vision in birds. These observations imply that the mechanisms of epistatic interactions must be understood by studying various orthologues in different species that have adapted to various ecological and physiological environments.

  20. Epistatic Adaptive Evolution of Human Color Vision

    Science.gov (United States)

    Yokoyama, Shozo; Xing, Jinyi; Liu, Yang; Faggionato, Davide; Altun, Ahmet; Starmer, William T.

    2014-01-01

    Establishing genotype-phenotype relationship is the key to understand the molecular mechanism of phenotypic adaptation. This initial step may be untangled by analyzing appropriate ancestral molecules, but it is a daunting task to recapitulate the evolution of non-additive (epistatic) interactions of amino acids and function of a protein separately. To adapt to the ultraviolet (UV)-free retinal environment, the short wavelength-sensitive (SWS1) visual pigment in human (human S1) switched from detecting UV to absorbing blue light during the last 90 million years. Mutagenesis experiments of the UV-sensitive pigment in the Boreoeutherian ancestor show that the blue-sensitivity was achieved by seven mutations. The experimental and quantum chemical analyses show that 4,008 of all 5,040 possible evolutionary trajectories are terminated prematurely by containing a dehydrated nonfunctional pigment. Phylogenetic analysis further suggests that human ancestors achieved the blue-sensitivity gradually and almost exclusively by epistasis. When the final stage of spectral tuning of human S1 was underway 45–30 million years ago, the middle and long wavelength-sensitive (MWS/LWS) pigments appeared and so-called trichromatic color vision was established by interprotein epistasis. The adaptive evolution of human S1 differs dramatically from orthologous pigments with a major mutational effect used in achieving blue-sensitivity in a fish and several mammalian species and in regaining UV vision in birds. These observations imply that the mechanisms of epistatic interactions must be understood by studying various orthologues in different species that have adapted to various ecological and physiological environments. PMID:25522367

  1. Multi locus sequence typing of Chlamydiales: clonal groupings within the obligate intracellular bacteria Chlamydia trachomatis

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    Langerak Ankie A

    2008-02-01

    Full Text Available Abstract Background The obligate intracellular growing bacterium Chlamydia trachomatis causes diseases like trachoma, urogenital infection and lymphogranuloma venereum with severe morbidity. Several serovars and genotypes have been identified, but these could not be linked to clinical disease or outcome. The related Chlamydophila pneumoniae, of which no subtypes are recognized, causes respiratory infections worldwide. We developed a multi locus sequence typing (MLST scheme to understand the population genetic structure and diversity of these species and to evaluate the association between genotype and disease. Results A collection of 26 strains of C. trachomatis of different serovars and clinical presentation and 18 strains of C. pneumoniae were included in the study. For comparison, sequences of C. abortus, C. psittaci, C. caviae, C. felis, C. pecorum (Chlamydophila, C. muridarum (Chlamydia and of Candidatus protochlamydia and Simkania negevensis were also included. Sequences of fragments (400 – 500 base pairs from seven housekeeping genes (enoA, fumC, gatA, gidA, hemN, hlfX, oppA were analysed. Analysis of allelic profiles by eBurst revealed three non-overlapping clonal complexes among the C. trachomatis strains, while the C. pneumoniae strains formed a single group. An UPGMA tree produced from the allelic profiles resulted in three groups of sequence types. The LGV strains grouped in a single cluster, while the urogenital strains were distributed over two separated groups, one consisted solely of strains with frequent occurring serovars (E, D and F. The distribution of the different serovars over the three groups was not consistent, suggesting exchange of serovar encoding ompA sequences. In one instance, exchange of fumC sequences between strains of different groups was observed. Cluster analyses of concatenated sequences of the Chlamydophila and Chlamydia species together with those of Candidatus Protochlamydia amoebophila and Simkania

  2. An information-gain approach to detecting three-way epistatic interactions in genetic association studies

    DEFF Research Database (Denmark)

    Hu, Ting; Chen, Yuanzhu; Kiralis, Jeff W;

    2013-01-01

    Background Epistasis has been historically used to describe the phenomenon that the effect of a given gene on a phenotype can be dependent on one or more other genes, and is an essential element for understanding the association between genetic and phenotypic variations. Quantifying epistasis....... In the tuberculosis data, we found a statistically significant pure three-way epistatic interaction effect that was stronger than any lower-order associations. Conclusion Our study provides a methodological basis for detecting and characterizing high-order gene-gene interactions in genetic association studies....

  3. Missing value imputation for epistatic MAPs

    LENUS (Irish Health Repository)

    Ryan, Colm

    2010-04-20

    Abstract Background Epistatic miniarray profiling (E-MAPs) is a high-throughput approach capable of quantifying aggravating or alleviating genetic interactions between gene pairs. The datasets resulting from E-MAP experiments typically take the form of a symmetric pairwise matrix of interaction scores. These datasets have a significant number of missing values - up to 35% - that can reduce the effectiveness of some data analysis techniques and prevent the use of others. An effective method for imputing interactions would therefore increase the types of possible analysis, as well as increase the potential to identify novel functional interactions between gene pairs. Several methods have been developed to handle missing values in microarray data, but it is unclear how applicable these methods are to E-MAP data because of their pairwise nature and the significantly larger number of missing values. Here we evaluate four alternative imputation strategies, three local (Nearest neighbor-based) and one global (PCA-based), that have been modified to work with symmetric pairwise data. Results We identify different categories for the missing data based on their underlying cause, and show that values from the largest category can be imputed effectively. We compare local and global imputation approaches across a variety of distinct E-MAP datasets, showing that both are competitive and preferable to filling in with zeros. In addition we show that these methods are effective in an E-MAP from a different species, suggesting that pairwise imputation techniques will be increasingly useful as analogous epistasis mapping techniques are developed in different species. We show that strongly alleviating interactions are significantly more difficult to predict than strongly aggravating interactions. Finally we show that imputed interactions, generated using nearest neighbor methods, are enriched for annotations in the same manner as measured interactions. Therefore our method potentially

  4. Taxonomic evaluation of putative Streptomyces scabiei strains held in the ARS Culture Collection (NRRL) using multi-locus sequence analysis.

    Science.gov (United States)

    Labeda, David P

    2016-03-01

    Multi-locus sequence analysis has been demonstrated to be a useful tool for identification of Streptomyces species and was previously applied to phylogenetically differentiate the type strains of species pathogenic on potatoes (Solanum tuberosum L.). The ARS Culture Collection (NRRL) contains 43 strains identified as Streptomyces scabiei deposited at various times since the 1950s and these were subjected to multi-locus sequence analysis utilising partial sequences of the house-keeping genes atpD, gyrB, recA, rpoB and trpB. Phylogenetic analyses confirmed the identity of 17 of these strains as Streptomyces scabiei, 9 of the strains as the potato-pathogenic species Streptomyces europaeiscabiei and 6 strains as potentially new phytopathogenic species. Of the 16 other strains, 12 were identified as members of previously described non-pathogenic Streptomyces species while the remaining 4 strains may represent heretofore unrecognised non-pathogenic species. This study demonstrated the value of this technique for the relatively rapid, simple and sensitive molecular identification of Streptomyces strains held in culture collections.

  5. Epistatic interactions in idiopathic pulmonary arterial hypertension

    Directory of Open Access Journals (Sweden)

    Shivani Vadapalli

    2012-01-01

    Full Text Available Background : Idiopathic pulmonary arterial hypertension (IPAH is a poorly understood complex disorder, which results in progressive remodeling of the pulmonary artery that ultimately leads to right ventricular failure. A two-hit hypothesis has been implicated in pathogenesis of IPAH, according to which the vascular abnormalities characteristic of PAH are triggered by the accumulation of genetic and/or environmental insults in an already existing genetic background. The multifactor dimensionality reduction (MDR analysis is a statistical method used to identify gene-gene interaction or epistasis and gene-environment interactions that are associated with a particular disease. The MDR method collapses high-dimensional genetic data into a single dimension, thus permitting interactions to be detected in relatively small sample sizes. Aim: To identify and characterize polymorphisms/genes that increases the susceptibility to IPAH using MDR analysis. Materials and Methods: A total of 77 IPAH patients and 100 controls were genotyped for eight polymorphisms of five genes (5HTT, EDN1, NOS3, ALK-1, and PPAR-γ2. MDR method was adopted to determine gene-gene interactions that increase the risk of IPAH. Results : With MDR method, the single-locus model of 5HTT (L/S polymorphism and the combination of 5HTT(L/S, EDN1(K198N, and NOS3(G894T polymorphisms in the three-locus model were attributed to be the best models for predicting susceptibility to IPAH, with a P value of 0.05. Conclusion: MDR method can be useful in understanding the role of epistatic and gene-environmental interactions in pathogenesis of IPAH.

  6. Multi-Locus Variable-Number Tandem Repeat Profiling of Salmonella enterica Serovar Typhi Isolates from Blood Cultures and Gallbladder Specimens from Makassar, South-Sulawesi, Indonesia

    NARCIS (Netherlands)

    Hatta, M.; Pastoor, R.; Scheelbeek, P.F.D.; Sultan, A.R.; Dwiyanti, R.; Labeda, I.; Smits, H.L.

    2011-01-01

    Multi-locus variable-number tandem repeat analysis differentiated 297 Salmonella enterica serovar Typhi blood culture isolates from Makassar in 76 genotypes and a single unique S. Typhi genotype was isolated from the cholecystectomy specimens of four patients with cholelithiasis. The high diversity

  7. Multi-Locus Variable-Number Tandem Repeat Profiling of Salmonella enterica Serovar Typhi Isolates from Blood Cultures and Gallbladder Specimens from Makassar, South-Sulawesi, Indonesia

    NARCIS (Netherlands)

    Hatta, M.; Pastoor, R.; Scheelbeek, P.F.D.; Sultan, A.R.; Dwiyanti, R.; Labeda, I.; Smits, H.L.

    2011-01-01

    Multi-locus variable-number tandem repeat analysis differentiated 297 Salmonella enterica serovar Typhi blood culture isolates from Makassar in 76 genotypes and a single unique S. Typhi genotype was isolated from the cholecystectomy specimens of four patients with cholelithiasis. The high diversity

  8. Multi-locus molecular phylogeny and allelic variation in a transcription factor gene suggest the multiple independent origins of kabuli chickpea

    Science.gov (United States)

    To examine the patterns of molecular diversity in wild crop relatives and the cultivated gene pool of chickpea we genotyped a set of 98 wild annual and 224 cultivated accessions with a 768 feature assay that monitored SNPs in low-copy orthologous loci. Analyses of the resulting multi-locus genotypin...

  9. Multi-locus sequence typing of Escherichia coli isolates with acquired ampC genes and ampC promoter mutations.

    Science.gov (United States)

    Lewis, Jonathan A; Moore, Philippa C L; Arnold, Dawn L; Lawrance, Lynne M

    2016-11-01

    Multi-locus sequence typing was used to reveal a high degree of diversity amongst the E. coli isolates with AmpC plasmid genes, and a high prevalence of the -32 mutation present. Copyright © 2016 Elsevier Inc. All rights reserved.

  10. Multi-locus sequence typing of Bartonella henselae isolates from three continents reveals hypervirulent and feline-associated clones.

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    Mardjan Arvand

    Full Text Available Bartonella henselae is a zoonotic pathogen and the causative agent of cat scratch disease and a variety of other disease manifestations in humans. Previous investigations have suggested that a limited subset of B. henselae isolates may be associated with human disease. In the present study, 182 human and feline B. henselae isolates from Europe, North America and Australia were analysed by multi-locus sequence typing (MLST to detect any associations between sequence type (ST, host species and geographical distribution of the isolates. A total of 14 sequence types were detected, but over 66% (16/24 of the isolates recovered from human disease corresponded to a single genotype, ST1, and this type was detected in all three continents. In contrast, 27.2% (43/158 of the feline isolates corresponded to ST7, but this ST was not recovered from humans and was restricted to Europe. The difference in host association of STs 1 (human and 7 (feline was statistically significant (P< or =0.001. eBURST analysis assigned the 14 STs to three clonal lineages, which contained two or more STs, and a singleton comprising ST7. These groups were broadly consistent with a neighbour-joining tree, although splits decomposition analysis was indicative of a history of recombination. These data indicate that B. henselae lineages differ in their virulence properties for humans and contribute to a better understanding of the population structure of B. henselae.

  11. Evaluation of two multi-locus sequence typing schemes for commensal Escherichia coli from dairy cattle in Washington State.

    Science.gov (United States)

    Ahmed, Sara; Besser, Thomas E; Call, Douglas R; Weissman, Scott J; Jones, Lisa P; Davis, Margaret A

    2016-05-01

    Multi-locus sequence typing (MLST) is a useful system for phylogenetic and epidemiological studies of multidrug-resistant Escherichiacoli. Most studies utilize a seven-locus MLST, but an alternate two-locus typing method (fumC and fimH; CH typing) has been proposed that may offer a similar degree of discrimination at lower cost. Herein, we compare CH typing to the standard seven-locus method for typing commensal E. coli isolates from dairy cattle. In addition, we evaluated alternative combinations of eight loci to identify combinations that maximize discrimination and congruence with standard seven-locus MLST among commensal E. coli while minimizing the cost. We also compared both methods when used for typing uropathogenic E. coli (UPEC). CH typing was less discriminatory for commensal E. coli than the standard seven-locus method (Simpson's Index of Diversity=0.933 [0.902-0.964] and 0.97 [0.96-0.979], respectively). Combining fimH with housekeeping gene loci improved discriminatory power for commensal E. coli from cattle but resulted in poor congruence with MLST. We found that a four-locus typing method including the housekeeping genes adk, purA, gyrB and recA could be used to minimize cost without sacrificing discriminatory power or congruence with Achtman seven-locus MLST when typing commensal E. coli.

  12. Lack of Spatial Subdivision for the Snapper Lutjanus purpureus (Lutjanidae - Perciformes) from Southwest Atlantic Based on Multi-Locus Analyses.

    Science.gov (United States)

    da Silva, Raimundo; Sampaio, Iracilda; Schneider, Horacio; Gomes, Grazielle

    2016-01-01

    The Caribbean snapper Lutjanus purpureus is a marine species fish commonly found associated with rocky seabeds and is widely distributed along of Western Atlantic. Data on stock delineation and stock recognition are essential for establishing conservation measures for commercially fished species. However, few studies have investigated the population genetic structure of this economically valuable species, and previous studies (based on only a portion of the mitochondrial DNA) provide an incomplete picture. The present study used a multi-locus approach (12 segments of mitochondrial and nuclear DNA) to elucidate the levels of genetic diversity and genetic connectivity of L. purpureus populations and their demographic history. L. purpureus has high levels of genetic diversity, which probably implies in high effective population sizes values for the species. The data show that this species is genetically homogeneous throughout the geographic region analyzed, most likely as a result of dispersal during larval phase. Regarding demographic history, a historical population growth event occurred, likely due to sea level changes during the Pleistocene.

  13. An integrative approach to phylogeography: Investigating the effects of ancient seaways, climate, and historical geology on multi-locus phylogeographic boundaries of the Arboreal Salamander (Aneides lugubris)

    OpenAIRE

    Reilly, SB; Corl, A; Wake, DB

    2015-01-01

    Background Phylogeography is an important tool that can be used to reveal cryptic biodiversity and to better understand the processes that promote lineage diversification. We studied the phylogeographic history of the Arboreal Salamander (Aneides lugubris), a wide-ranging species endemic to the California floristic province. We used multi-locus data to reconstruct the evolutionary history of A. lugubris and to discover the geographic location of major genetic breaks within the species. We als...

  14. Multi-locus variable-number tandem repeat profiling of Salmonella enterica serovar Typhi isolates from blood cultures and gallbladder specimens from Makassar, South-Sulawesi, Indonesia.

    Directory of Open Access Journals (Sweden)

    Mochammad Hatta

    Full Text Available Multi-locus variable-number tandem repeat analysis differentiated 297 Salmonella enterica serovar Typhi blood culture isolates from Makassar in 76 genotypes and a single unique S. Typhi genotype was isolated from the cholecystectomy specimens of four patients with cholelithiasis. The high diversity in S. Typhi genotypes circulating in Makassar indicates that the number of carriers could be very large, which may complicate disease prevention and control.

  15. Improved functional overview of protein complexes using inferred epistatic relationships

    LENUS (Irish Health Repository)

    Ryan, Colm

    2011-05-23

    Abstract Background Epistatic Miniarray Profiling(E-MAP) quantifies the net effect on growth rate of disrupting pairs of genes, often producing phenotypes that may be more (negative epistasis) or less (positive epistasis) severe than the phenotype predicted based on single gene disruptions. Epistatic interactions are important for understanding cell biology because they define relationships between individual genes, and between sets of genes involved in biochemical pathways and protein complexes. Each E-MAP screen quantifies the interactions between a logically selected subset of genes (e.g. genes whose products share a common function). Interactions that occur between genes involved in different cellular processes are not as frequently measured, yet these interactions are important for providing an overview of cellular organization. Results We introduce a method for combining overlapping E-MAP screens and inferring new interactions between them. We use this method to infer with high confidence 2,240 new strongly epistatic interactions and 34,469 weakly epistatic or neutral interactions. We show that accuracy of the predicted interactions approaches that of replicate experiments and that, like measured interactions, they are enriched for features such as shared biochemical pathways and knockout phenotypes. We constructed an expanded epistasis map for yeast cell protein complexes and show that our new interactions increase the evidence for previously proposed inter-complex connections, and predict many new links. We validated a number of these in the laboratory, including new interactions linking the SWR-C chromatin modifying complex and the nuclear transport apparatus. Conclusion Overall, our data support a modular model of yeast cell protein network organization and show how prediction methods can considerably extend the information that can be extracted from overlapping E-MAP screens.

  16. Global distribution of Bartonella infections in domestic bovine and characterization of Bartonella bovis strains using multi-locus sequence typing.

    Science.gov (United States)

    Bai, Ying; Malania, Lile; Alvarez Castillo, Danilo; Moran, David; Boonmar, Sumalee; Chanlun, Aran; Suksawat, Fanan; Maruyama, Soichi; Knobel, Darryn; Kosoy, Michael

    2013-01-01

    Bartonella bovis is commonly detected in cattle. One B. bovis strain was recently isolated from a cow with endocarditis in the USA, suggesting its role as an animal pathogen. In the present study, we investigated bartonella infections in 893 cattle from five countries (Kenya, Thailand, Japan, Georgia, and Guatemala) and 103 water buffaloes from Thailand to compare the prevalence of the infection among different regions and different bovid hosts. We developed a multi-locus sequence typing (MLST) scheme based on nine loci (16S rRNA, gltA, ftsZ, groEL, nuoG, ribC, rpoB, ssrA, and ITS) to compare genetic divergence of B. bovis strains, including 26 representatives from the present study and two previously described reference strains (one from French cows and another from a cow with endocarditis in the USA). Bartonella bacteria were cultured in 6.8% (7/103) of water buffaloes from Thailand; all were B. bovis. The prevalence of bartonella infections in cattle varied tremendously across the investigated regions. In Japan, Kenya, and the Mestia district of Georgia, cattle were free from the infection; in Thailand, Guatemala, and the Dusheti and Marneuli districts of Georgia, cattle were infected with prevalences of 10-90%. The Bartonella isolates from cattle belonged to three species: B. bovis (n=165), B. chomelii (n=9), and B. schoenbuchensis (n=1), with the latter two species found in Georgia only. MLST analysis suggested genetic variations among the 28 analyzed B. bovis strains, which fall into 3 lineages (I, II, and III). Lineages I and II were found in cattle while lineage III was restricted to water buffaloes. The majority of strains (17/28), together with the strain causing endocarditis in a cow in the USA, belonged to lineage I. Further investigations are needed to determine whether B. bovis causes disease in bovids.

  17. Global distribution of Bartonella infections in domestic bovine and characterization of Bartonella bovis strains using multi-locus sequence typing.

    Directory of Open Access Journals (Sweden)

    Ying Bai

    Full Text Available Bartonella bovis is commonly detected in cattle. One B. bovis strain was recently isolated from a cow with endocarditis in the USA, suggesting its role as an animal pathogen. In the present study, we investigated bartonella infections in 893 cattle from five countries (Kenya, Thailand, Japan, Georgia, and Guatemala and 103 water buffaloes from Thailand to compare the prevalence of the infection among different regions and different bovid hosts. We developed a multi-locus sequence typing (MLST scheme based on nine loci (16S rRNA, gltA, ftsZ, groEL, nuoG, ribC, rpoB, ssrA, and ITS to compare genetic divergence of B. bovis strains, including 26 representatives from the present study and two previously described reference strains (one from French cows and another from a cow with endocarditis in the USA. Bartonella bacteria were cultured in 6.8% (7/103 of water buffaloes from Thailand; all were B. bovis. The prevalence of bartonella infections in cattle varied tremendously across the investigated regions. In Japan, Kenya, and the Mestia district of Georgia, cattle were free from the infection; in Thailand, Guatemala, and the Dusheti and Marneuli districts of Georgia, cattle were infected with prevalences of 10-90%. The Bartonella isolates from cattle belonged to three species: B. bovis (n=165, B. chomelii (n=9, and B. schoenbuchensis (n=1, with the latter two species found in Georgia only. MLST analysis suggested genetic variations among the 28 analyzed B. bovis strains, which fall into 3 lineages (I, II, and III. Lineages I and II were found in cattle while lineage III was restricted to water buffaloes. The majority of strains (17/28, together with the strain causing endocarditis in a cow in the USA, belonged to lineage I. Further investigations are needed to determine whether B. bovis causes disease in bovids.

  18. Comparative genomic assessment of Multi-Locus Sequence Typing: rapid accumulation of genomic heterogeneity among clonal isolates of Campylobacter jejuni

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    Nash John HE

    2008-08-01

    Full Text Available Abstract Background Multi-Locus Sequence Typing (MLST has emerged as a leading molecular typing method owing to its high ability to discriminate among bacterial isolates, the relative ease with which data acquisition and analysis can be standardized, and the high portability of the resulting sequence data. While MLST has been successfully applied to the study of the population structure for a number of different bacterial species, it has also provided compelling evidence for high rates of recombination in some species. We have analyzed a set of Campylobacter jejuni strains using MLST and Comparative Genomic Hybridization (CGH on a full-genome microarray in order to determine whether recombination and high levels of genomic mosaicism adversely affect the inference of strain relationships based on the analysis of a restricted number of genetic loci. Results Our results indicate that, in general, there is significant concordance between strain relationships established by MLST and those based on shared gene content as established by CGH. While MLST has significant predictive power with respect to overall genome similarity of isolates, we also found evidence for significant differences in genomic content among strains that would otherwise appear to be highly related based on their MLST profiles. Conclusion The extensive genomic mosaicism between closely related strains has important implications in the context of establishing strain to strain relationships because it suggests that the exact gene content of strains, and by extension their phenotype, is less likely to be "predicted" based on a small number of typing loci. This in turn suggests that a greater emphasis should be placed on analyzing genes of clinical interest as we forge ahead with the next generation of molecular typing methods.

  19. Multi-locus stepwise regression: a haplotype-based algorithm for finding genetic associations applied to atopic dermatitis

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    Knüppel Sven

    2012-01-01

    Full Text Available Abstract Background Genome-wide association studies (GWAS provide an increasing number of single nucleotide polymorphisms (SNPs associated with diseases. Our aim is to exploit those closely spaced SNPs in candidate regions for a deeper analysis of association beyond single SNP analysis, combining the classical stepwise regression approach with haplotype analysis to identify risk haplotypes for complex diseases. Methods Our proposed multi-locus stepwise regression starts with an evaluation of all pair-wise SNP combinations and then extends each SNP combination stepwise by one SNP from the region, carrying out haplotype regression in each step. The best associated haplotype patterns are kept for the next step and must be corrected for multiple testing at the end. These haplotypes should also be replicated in an independent data set. We applied the method to a region of 259 SNPs from the epidermal differentiation complex (EDC on chromosome 1q21 of a German GWAS using a case control set (1,914 individuals and to 268 families with at least two affected children as replication. Results A 4-SNP haplotype pattern with high statistical significance in the case control set (p = 4.13 × 10-7 after Bonferroni correction could be identified which remained significant in the family set after Bonferroni correction (p = 0.0398. Further analysis revealed that this pattern reflects mainly the effect of the well-known FLG gene; however, a FLG-independent haplotype in case control set (OR = 1.71, 95% CI: 1.32-2.23, p = 5.6 × 10-5 and family set (OR = 1.68, 95% CI: 1.18-2.38, p = 2.19 × 10-3 could be found in addition. Conclusion Our approach is a useful tool for finding allele combinations associated with diseases beyond single SNP analysis in chromosomal candidate regions.

  20. Four genotyping schemes for phylogenetic analysis of Pseudomonas aeruginosa: comparison of their congruence with multi-locus sequence typing.

    Science.gov (United States)

    Maâtallah, Makaoui; Bakhrouf, Amina; Habeeb, Muhammed Asif; Turlej-Rogacka, Agata; Iversen, Aina; Pourcel, Christine; Sioud, Olfa; Giske, Christian G

    2013-01-01

    Several molecular typing schemes have been proposed to differentiate among isolates and clonal groups, and hence establish epidemiological or phylogenetic links. It has been widely accepted that multi-locus sequence typing (MLST) is the gold standard for phylogenetic typing/long-term epidemiological surveillance, but other recently described methods may be easier to carry out, especially in settings with limited access to DNA sequencing. Comparing the performance of such techniques to MLST is therefore of relevance. A study was therefore carried out with a collection of P. aeruginosa strains (n = 133) typed by four typing schemes: MLST, multiple-locus variable number tandem repeat analysis (MLVA), pulsed-field gel electrophoresis (PFGE) and the commercial DiversiLab microbial typing system (DL). The aim of this study was to compare the results of each typing method with MLST. The Simpson's indices of diversity were 0.989, 0.980, 0.961 and 0.906 respectively for PFGE, MLVA, DL and MLST. The congruence between techniques was measured by the adjusted Wallace index (W): this coefficient indicates the probability that a pair of isolates which is assigned to the same type by one typing method is also typed as identical by the other. In this context, the congruence between techniques was recorded as follow: MLVA-type to predict MLST-type (93%), PFGE to MLST (92%), DL to MLST (64.2%), PFGE to MLVA (63.5%) and PFGE to DL (61.7%). Conversely, for all above combinations, prediction was very poor. The congruence was increased at the clonal complex (CC) level. MLST is regarded the gold standard for phylogenetic classification of bacteria, but is rather laborious to carry out in many settings. Our data suggest that MLVA can predict the MLST-type with high accuracy, and even higher when studying the clonal complex level. Of the studied three techniques MLVA was therefore the best surrogate method to predict MLST.

  1. Multi-locus sequence typing of Laribacter hongkongensis isolates from freshwater animals, environment and diarrhea patients in southern China.

    Science.gov (United States)

    Wang, Zhiyun; Zhu, Jiangfeng; Liu, Zhihua; Liu, Youzhao; Zheng, Nancai; Feng, Mei; Chen, Qing; Yu, Weijun; Jiang, Lina; Hu, Jing

    2017-03-20

    Laribacter hongkongensis is a novel emerging bacterium associated with gastroenteritis and invasive bacteremic infections. Freshwater fish and edible frogs have been identified as major reservoirs of L. hongkongensis. Currently one of the main challenges in L. hongkongensis research is to identify their sources and possible transmission routes. The aim of this study was to determine the genetic diversity and relatedness of these L. hongkongensis isolates to their hosts in the hope of shedding light on these issues. In this study, multi-locus sequence typing (MLST) was used to determine the genetic characteristics of 114 L. hongkongensis strains, including 113 isolated from humans, fish, frogs, Amazonian snails and water sample in Guangzhou and Jiangmen, Southern China, and one reference isolate HZ242, recovered from a diarrhea patient in Hangzhou. The relationships among the STs and the relatedness among the isolates were assessed by phylogenetic and eBURST analysis. A total of 72 different sequence types (STs) from 114 isolates of L. hongkongensis were identified by MLST analysis, and ST99-ST161were novel. Significant difference of the prevalence of different STs between fish isolates (41.8%, 23/55) and frog isolates (82.4%, 42/51) was revealed (p=0.000). The most frequent ST (ST45) was identified 28 times and only found in fish isolates. In addition, 10 groups were identified by eBURST in this study. Combined the MLST data from Hong Kong and the present study, there were eight eBRUST lineages (group A-H) included the isolates (49.2%, 128/260) from either numerous hosts or multiple geographic origins, which contained 33.1% (53/160) of all the STs. Group A (n=57, STs=20) consisted exclusively of isolates from fish and 92.9% (39/42) of isolates in group B (n=42, STs=16) were only from fish. Group C-F (n=22, STs=14) were found to be associated with human, apart from other hosts. In this study, extensive genetic heterogeneity among the L. hongkongensis isolates from

  2. Evaluation of 41 candidate gene variants for obesity in the EPIC-Potsdam cohort by multi-locus stepwise regression.

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    Sven Knüppel

    Full Text Available OBJECTIVE: Obesity has become a leading preventable cause of morbidity and mortality in many parts of the world. It is thought to originate from multiple genetic and environmental determinants. The aim of the current study was to introduce haplotype-based multi-locus stepwise regression (MSR as a method to investigate combinations of unlinked single nucleotide polymorphisms (SNPs for obesity phenotypes. METHODS: In 2,122 healthy randomly selected men and women of the EPIC-Potsdam cohort, the association between 41 SNPs from 18 obesity-candidate genes and either body mass index (BMI, mean=25.9 kg/m(2, SD=4.1 or waist circumference (WC, mean=85.2 cm, SD=12.6 was assessed. Single SNP analyses were done by using linear regression adjusted for age, sex, and other covariates. Subsequently, MSR was applied to search for the 'best' SNP combinations. Combinations were selected according to specific AICc and p-value criteria. Model uncertainty was accounted for by a permutation test. RESULTS: The strongest single SNP effects on BMI were found for TBC1D1 rs637797 (β = -0.33, SE=0.13, FTO rs9939609 (β=0.28, SE=0.13, MC4R rs17700144 (β=0.41, SE=0.15, and MC4R rs10871777 (β=0.34, SE=0.14. All these SNPs showed similar effects on waist circumference. The two 'best' six-SNP combinations for BMI (global p-value= 3.45⋅10(-6 and 6.82⋅10(-6 showed effects ranging from -1.70 (SE=0.34 to 0.74 kg/m(2 (SE=0.21 per allele combination. We selected two six-SNP combinations on waist circumference (global p-value = 7.80⋅10(-6 and 9.76⋅10(-6 with an allele combination effect of -2.96 cm (SE=0.76 at maximum. Additional adjustment for BMI revealed 15 three-SNP combinations (global p-values ranged from 3.09⋅10(-4 to 1.02⋅10(-2. However, after carrying out the permutation test all SNP combinations lost significance indicating that the statistical associations might have occurred by chance. CONCLUSION: MSR provides a tool to search for risk-related SNP

  3. Multi-locus sequence typing of Ehrlichia ruminantium strains from geographically diverse origins and collected in Amblyomma variegatum from Uganda

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    Jongejan Frans

    2011-07-01

    Full Text Available Abstract Background The rickettsial bacterium Ehrlichia ruminantium is the causative agent of heartwater in ruminants. A better understanding of the population genetics of its different strains is, however, needed for the development of novel diagnostic tools, therapeutics and prevention strategies. Specifically, the development of effective vaccination policies relies on the proper genotyping and characterisation of field isolates. Although multi-locus sequence typing (MLST has been recently developed, only strains from geographically restricted collections have been analysed so far. The expansion of the MLST database to include global strains with different geographic origins is therefore essential. In this study, we used a panel of reference strains from geographically diverse origins and field samples of E. ruminantium detected from its vector, Amblyomma variegatum, in heartwater-endemic areas in Uganda. Results A total of 31 novel alleles (six, four, six, three, two, five, three, and two for gltA, groEL, lepA, lipA, lipB, secY, sodB, and sucA loci, respectively and 19 novel sequence types (STs were identified. Both neighbour-joining and minimum spanning tree analyses indicated a high degree of genetic heterogeneity among these strains. No association was observed between genotypes and geographic origins, except for four STs from West African countries. When we performed six different tests for recombination (GeneConv, Bootscan, MaxChi, Chimaera, SiScan, and 3Seq on concatenated sequences, four possible recombination events were identified in six different STs. All the recombination breakpoints were located near gene borders, indicating the occurrence of intergenic recombination. All four STs that localized to a distinct group in clustering analysis showed evidence of identical recombination events, suggesting that recombination may play a significant role in the diversification of E. ruminantium. Conclusions The compilation of MLST data set

  4. Phylogenetic relationships among clonal groups of extraintestinal pathogenic Escherichia coli as assessed by multi-locus sequence analysis.

    Science.gov (United States)

    Johnson, James R; Owens, Krista L; Clabots, Connie R; Weissman, Scott J; Cannon, Steven B

    2006-06-01

    The evolutionary origins of extraintestinal pathogenic Escherichia coli (ExPEC) remain uncertain despite these organisms' relevance to human disease. A valid understanding of ExPEC phylogeny is needed as a framework against which the observed distribution of virulence factors and clinical associations can be analyzed. Accordingly, phylogenetic relationships were defined by multi-locus sequence analysis among 44 representatives of selected ExPEC clonal groups and the E. coli Reference (ECOR) collection. Recombination, which significantly obscured the phylogenetic signal for several strains, was dealt with by excluding strains or specific sequences. Conflicting overall phylogenies, and internal phylogenies for virulence-associated phylogenetic group B2, were inferred depending on the specific dataset (i.e., how extensively purged of recombination), outgroup (Salmonella enterica and/or Escherichia fergusonii), and analysis method (neighbor joining, maximum parsimony, maximum likelihood, or Bayesian likelihood). Nonetheless, the major E. coli phylogenetic groups A, B1, and B2 were consistently well resolved, as was a major sub-component of group D and an ECOR 37-O157:H7 clade. Moreover, nine important ExPEC clonal groups within groups B2 and D, characterized by serotypes O6:K2:H1, O18:K1:H7, O6:H31, and O4:K+:H+ (from group B2), and O1:K1:H-, O7:K1:H-, O157:K+:H (non-7), O15:K52:H1, and O11/17/77:K52:H18 ("clonal group A") (from group D), were consistently well resolved, regardless of clinical background (cystitis, pyelonephritis, neonatal meningitis, sepsis, or fecal), host group, geographical origin, and virulence profile. Among the group B2-derived clonal groups the O6:K2:H1 clade appeared basal. Within group D, "clonal group A" and the O15:K52:H1 clonal group were consistently placed with ECOR 47 and ECOR 44, respectively, as nearest neighbors. These findings clarify phylogenetic relationships among key ExPEC clonal groups but also emphasize that recombination

  5. Multi-locus sequence data illuminate demographic drivers of Pleistocene speciation in semi-arid southern Australian birds (Cinclosoma spp.).

    Science.gov (United States)

    Dolman, Gaynor; Joseph, Leo

    2016-10-22

    During the Pleistocene, shifts of species distributions and their isolation in disjunct refugia led to varied outcomes in how taxa diversified. Some species diverged, others did not. Here, we begin to address another facet of the role of the Pleistocene in generating today's diversity. We ask which processes contributed to divergence in semi-arid southern Australian birds. We isolated 11 autosomal nuclear loci and one mitochondrial locus from a total of 29 specimens of the sister species pair, Chestnut Quail-thrush Cinclosoma castanotum and Copperback Quail-thrush C. clarum. A population clustering analysis confirmed the location of the current species boundary as a well-known biogeographical barrier in southern Australia, the Eyrean Barrier. Coalescent-based analyses placed the time of species divergence to the Middle Pleistocene. Gene flow between the species since divergence has been low. The analyses suggest the effective population size of the ancestor was 54 to 178 times smaller than populations since divergence. This contrasts with recent multi-locus studies in some other Australian birds (butcherbirds, ducks) where a lack of phenotypic divergence was accompanied by larger historical population sizes. Post-divergence population size histories of C. clarum and C. castanotum were inferred using the extended Bayesian skyline model. The population size of C. clarum increased substantially during the late Pleistocene and continued to increase through the Last Glacial Maximum and Holocene. The timing of this expansion across its vast range is broadly concordant with that documented in several other Australian birds. In contrast, effective population size of C. castanotum was much more constrained and may reflect its smaller range and more restricted habitat east of the Eyrean Barrier compared with that available to C. clarum to the west. Our results contribute to awareness of increased population sizes, following significant contractions, as having been important

  6. Multi-locus analysis of Giardia duodenalis from nonhuman primates kept in zoos in China: geographical segregation and host-adaptation of assemblage B isolates.

    Science.gov (United States)

    Karim, Md Robiul; Wang, Rongjun; Yu, Fuchang; Li, Tongyi; Dong, Haiju; Li, Dezhong; Zhang, Longxian; Li, Junqiang; Jian, Fuchun; Zhang, Sumei; Rume, Farzana Islam; Ning, Changshen; Xiao, Lihua

    2015-03-01

    Only a few studies based on single locus characterization have been conducted on the molecular epidemiology of Giardia duodenalis in nonhuman primates (NHPs). The present study was conducted to examine the occurrence and genotype identity of G. duodenalis in NHPs based on multi-locus analysis of the small-subunit ribosomal RNA (SSU rRNA), triose phosphate isomerase (tpi), glutamate dehydrogenase (gdh), and beta-giardin (bg) genes. Fecal specimens were collected from 496 animals of 36 NHP species kept in seven zoos in China and screened for G. duodenalis by tpi-based PCR. G. duodenalis was detected in 92 (18.6%) specimens from 18 NHP species, belonging to assemblage A (n=4) and B (n=88). In positive NHP species, the infection rates ranged from 4.8% to 100%. In tpi sequence analysis, the assemblage A included subtypes A1, A2 and one novel subtype. Multi-locus analysis of the tpi, gdh, and bg genes detected 11 (8 known and 3 new), 6 (3 known and 3 new) and 9 (2 known and 7 new) subtypes in 88, 47 and 35 isolates in assemblage B, respectively. Thirty-two assemblage B isolates with data at all three loci yielded 15 multi-locus genotypes (MLGs), including 2 known and 13 new MLGs. Phylogenetic analysis of concatenated sequences of assemblage B showed that MLGs found here were genetically different from those of humans, NHPs, rabbit and guinea pig in Italy and Sweden. It further indicated that assemblage B isolates in ring-tailed lemurs and squirrel monkeys might be genetically different from those in other NHPs. These data suggest that NHPs are mainly infected with G. duodenalis assemblage B and there might be geographical segregation and host-adaptation in assemblage B in NHPs. Copyright © 2014 Elsevier B.V. All rights reserved.

  7. Optimization of Conformational Dynamics in an Epistatic Evolutionary Trajectory.

    Science.gov (United States)

    González, Mariano M; Abriata, Luciano A; Tomatis, Pablo E; Vila, Alejandro J

    2016-07-01

    The understanding of protein evolution depends on the ability to relate the impact of mutations on molecular traits to organismal fitness. Biological activity and robustness have been regarded as important features in shaping protein evolutionary landscapes. Conformational dynamics, which is essential for protein function, has received little attention in the context of evolutionary analyses. Here we employ NMR spectroscopy, the chief experimental tool to describe protein dynamics at atomic level in solution at room temperature, to study the intrinsic dynamic features of a metallo- Β: -lactamase enzyme and three variants identified during a directed evolution experiment that led to an expanded substrate profile. We show that conformational dynamics in the catalytically relevant microsecond to millisecond timescale is optimized along the favored evolutionary trajectory. In addition, we observe that the effects of mutations on dynamics are epistatic. Mutation Gly262Ser introduces slow dynamics on several residues that surround the active site when introduced in the wild-type enzyme. Mutation Asn70Ser removes the slow dynamics observed for few residues of the wild-type enzyme, but increases the number of residues that undergo slow dynamics when introduced in the Gly262Ser mutant. These effects on dynamics correlate with the epistatic interaction between these two mutations on the bacterial phenotype. These findings indicate that conformational dynamics is an evolvable trait, and that proteins endowed with more dynamic active sites also display a larger potential for promoting evolution.

  8. Mapping Epistatic Quantitative Trait Loci With One-Dimensional Genome Searches

    NARCIS (Netherlands)

    Jannink, Jean-Luc; Jansen, Ritsert

    2001-01-01

    The discovery of epistatically interacting QTL is hampered by the intractability and low power to detect QTL in multidimensional genome searches. We describe a new method that maps epistatic QTL by identifying loci of high QTL by genetic background interaction. This approach allows detection of QTL

  9. Mapping Epistatic Quantitative Trait Loci With One-Dimensional Genome Searches

    NARCIS (Netherlands)

    Jannink, Jean-Luc; Jansen, Ritsert

    2001-01-01

    The discovery of epistatically interacting QTL is hampered by the intractability and low power to detect QTL in multidimensional genome searches. We describe a new method that maps epistatic QTL by identifying loci of high QTL by genetic background interaction. This approach allows detection of QTL

  10. Multi-Locus Variable Number of Tandem Repeat Analysis for Rapid and Accurate Typing of Virulent Multidrug Resistant Escherichia coli Clones

    Science.gov (United States)

    Naseer, Umaer; Olsson-Liljequist, Barbro E.; Woodford, Neil; Dhanji, Hiran; Cantón, Rafael; Sundsfjord, Arnfinn; Lindstedt, Bjørn-Arne

    2012-01-01

    One hundred E. coli isolates from Norway (n = 37), Sweden (n = 24), UK (n = 20) and Spain (n = 19), producing CTX-M-type - (n = 84), or SHV-12 (n = 4) extended spectrum β-lactamases, or the plasmid mediated AmpC, CMY-2 (n = 12), were typed using multi-locus sequence typing (MLST) and multi-locus variable number of tandem repeat analysis (MLVA). Isolates clustered into 33 Sequence Types (STs) and 14 Sequence Type Complexes (STCs), and 58 MLVA-Types (MTs) and 25 different MLVA-Type Complexes (MTCs). A strong agreement between the MLST profile and MLVA typing results was observed, in which all ST131-isolates (n = 39) and most of the STC-648 (n = 10), STC-38 (n = 9), STC-10 (n = 9), STC-405 (n = 8) and STC-23 (n = 6) isolates were clustered distinctly into MTC-29, -36, -20, -14, -10 and -39, respectively. MLVA is a rapid and accurate tool for genotyping isolates of globally disseminated virulent multidrug resistant E. coli lineages, including ST131. PMID:22859970

  11. Strong epistatic selection on the RNA secondary structure of HIV.

    Directory of Open Access Journals (Sweden)

    Raquel Assis

    2014-09-01

    Full Text Available A key question in evolutionary genomics is how populations navigate the adaptive landscape in the presence of epistasis, or interactions among loci. This problem can be directly addressed by studying the evolution of RNA secondary structures, for which there is constraint to maintain pairing between Watson-Crick (WC sites. Replacement of a nucleotide at one site of a WC pair reduces fitness by disrupting binding, which can be restored via a compensatory replacement at the interacting site. Here, I present the first genome-scale analysis of epistasis on the RNA secondary structure of human immunodeficiency virus type 1 (HIV-1. Comparison of polymorphism frequencies at ancestrally conserved sites reveals that selection against replacements is ∼ 2.7 times stronger at WC than at non-WC sites, such that nearly 50% of constraint can be attributed to epistasis. However, almost all epistatic constraint is due to selection against conversions of WC pairs to unpaired (UP nucleotides, whereas conversions to GU wobbles are only slightly deleterious. This disparity is also evident in pairs with second-site compensatory replacements; conversions from UP nucleotides to WC pairs increase median fitness by ∼ 4.2%, whereas conversions from GU wobbles to WC pairs only increase median fitness by ∼ 0.3%. Moreover, second-site replacements that convert UP nucleotides to GU wobbles also increase median fitness by ∼ 4%, indicating that such replacements are nearly as compensatory as those that restore WC pairing. Thus, WC peaks of the HIV-1 epistatic adaptive landscape are connected by high GU ridges, enabling the viral population to rapidly explore distant peaks without traversing deep UP valleys.

  12. Multi-locus sequence data reveal a new species of coral reef goby (Teleostei: Gobiidae: Eviota), and evidence of Pliocene vicariance across the Coral Triangle.

    Science.gov (United States)

    Tornabene, L; Valdez, S; Erdmann, M V; Pezold, F L

    2016-05-01

    Here, multi-locus sequence data are coupled with observations of live colouration to recognize a new species, Eviota punyit from the Coral Triangle, Indian Ocean and Red Sea. Relaxed molecular clock divergence time estimation indicates a Pliocene origin for the new species, and the current distribution of the new species and its sister species Eviota sebreei supports a scenario of vicariance across the Indo-Pacific Barrier, followed by subsequent range expansion and overlap in the Coral Triangle. These results are consistent with the 'centre of overlap' hypothesis, which states that the increased diversity in the Coral Triangle is due in part to the overlapping ranges of Indian Ocean and Pacific Ocean faunas. These findings are discussed in the context of other geminate pairs of coral reef fishes separated by the Indo-Pacific Barrier.

  13. A novel HURRAH protocol reveals high numbers of monomorphic MHC class II loci and two asymmetric multi-locus haplotypes in the Pere David's deer.

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    Qiu-Hong Wan

    Full Text Available The Père David's deer is a highly inbred, but recovered, species, making it interesting to consider their adaptive molecular evolution from an immunological perspective. Prior to this study, genomic sequencing was the only method for isolating all functional MHC genes within a certain species. Here, we report a novel protocol for isolating MHC class II loci from a species, and its use to investigate the adaptive evolution of this endangered deer at the level of multi-locus haplotypes. This protocol was designated "HURRAH" based on its various steps and used to estimate the total number of MHC class II loci. We confirmed the validity of this novel protocol in the giant panda and then used it to examine the Père David's deer. Our results revealed that the Père David's deer possesses nine MHC class II loci and therefore has more functional MHC class II loci than the eight genome-sequenced mammals for which full MHC data are currently available. This could potentially account at least in part for the strong survival ability of this species in the face of severe bottlenecking. The results from the HURRAH protocol also revealed that: (1 All of the identified MHC class II loci were monomorphic at their antigen-binding regions, although DRA was dimorphic at its cytoplasmic tail; and (2 these genes constituted two asymmetric functional MHC class II multi-locus haplotypes: DRA1*01 ∼ DRB1 ∼ DRB3 ∼ DQA1 ∼ DQB2 (H1 and DRA1*02 ∼ DRB2 ∼ DRB4 ∼ DQA2 ∼ DQB1 (H2. The latter finding indicates that the current members of the deer species have lost the powerful ancestral MHC class II haplotypes of nine or more loci, and have instead fixed two relatively weak haplotypes containing five genes. As a result, the Père David's deer are currently at risk for increased susceptibility to infectious pathogens.

  14. Mechanisms of global diversification in the marine species Madeiran Storm-petrel Oceanodroma castro and Monteiro's Storm-petrel O. monteiroi: Insights from a multi-locus approach.

    Science.gov (United States)

    Silva, Mauro F; Smith, Andrea L; Friesen, Vicki L; Bried, Joël; Hasegawa, Osamu; Coelho, M Manuela; Silva, Mónica C

    2016-05-01

    The evolutionary mechanisms underlying the geographic distribution of gene lineages in the marine environment are not as well understood as those affecting terrestrial groups. The continuous nature of the pelagic marine environment may limit opportunities for divergence to occur and lineages to spatially segregate, particularly in highly mobile species. Here, we studied the phylogeography and historical demography of two tropically distributed, pelagic seabirds, the Madeiran Storm-petrel Oceanodroma castro, sampled in the Azores, Madeira, Galapagos and Japan, and its sister species Monteiro's Storm-petrel O. monteiroi (endemic to the Azores), using a multi-locus dataset consisting of 12 anonymous nuclear loci and the mitochondrial locus control region. Both marker types support the existence of four significantly differentiated genetic clusters, including the sampled O. monteiroi population and three populations within O. castro, although only the mitochondrial locus suggests complete lineage sorting. Multi-locus coalescent analyses suggest that most divergence events occurred within the last 200,000years. The proximity in divergence times precluded robust inferences of the species tree, in particular of the evolutionary relationships of the Pacific populations. Despite the great potential for dispersal, divergence among populations apparently proceeded in the absence of gene flow, emphasizing the effect of non-physical barriers, such as those driven by the paleo-oceanographical environments, philopatry and local adaptation, as important mechanisms of population divergence and speciation in highly mobile marine species. In view of the predicted climate change impacts, future changes in the demography and evolutionary dynamics of marine populations might be expected.

  15. Inferring modulators of genetic interactions with epistatic nested effects models.

    Science.gov (United States)

    Pirkl, Martin; Diekmann, Madeline; van der Wees, Marlies; Beerenwinkel, Niko; Fröhlich, Holger; Markowetz, Florian

    2017-04-01

    Maps of genetic interactions can dissect functional redundancies in cellular networks. Gene expression profiles as high-dimensional molecular readouts of combinatorial perturbations provide a detailed view of genetic interactions, but can be hard to interpret if different gene sets respond in different ways (called mixed epistasis). Here we test the hypothesis that mixed epistasis between a gene pair can be explained by the action of a third gene that modulates the interaction. We have extended the framework of Nested Effects Models (NEMs), a type of graphical model specifically tailored to analyze high-dimensional gene perturbation data, to incorporate logical functions that describe interactions between regulators on downstream genes and proteins. We benchmark our approach in the controlled setting of a simulation study and show high accuracy in inferring the correct model. In an application to data from deletion mutants of kinases and phosphatases in S. cerevisiae we show that epistatic NEMs can point to modulators of genetic interactions. Our approach is implemented in the R-package 'epiNEM' available from https://github.com/cbg-ethz/epiNEM and https://bioconductor.org/packages/epiNEM/.

  16. Epistatic module detection for case-control studies: a Bayesian model with a Gibbs sampling strategy.

    Directory of Open Access Journals (Sweden)

    Wanwan Tang

    2009-05-01

    Full Text Available The detection of epistatic interactive effects of multiple genetic variants on the susceptibility of human complex diseases is a great challenge in genome-wide association studies (GWAS. Although methods have been proposed to identify such interactions, the lack of an explicit definition of epistatic effects, together with computational difficulties, makes the development of new methods indispensable. In this paper, we introduce epistatic modules to describe epistatic interactive effects of multiple loci on diseases. On the basis of this notion, we put forward a Bayesian marker partition model to explain observed case-control data, and we develop a Gibbs sampling strategy to facilitate the detection of epistatic modules. Comparisons of the proposed approach with three existing methods on seven simulated disease models demonstrate the superior performance of our approach. When applied to a genome-wide case-control data set for Age-related Macular Degeneration (AMD, the proposed approach successfully identifies two known susceptible loci and suggests that a combination of two other loci -- one in the gene SGCD and the other in SCAPER -- is associated with the disease. Further functional analysis supports the speculation that the interaction of these two genetic variants may be responsible for the susceptibility of AMD. When applied to a genome-wide case-control data set for Parkinson's disease, the proposed method identifies seven suspicious loci that may contribute independently to the disease.

  17. Lack of Spatial Subdivision for the Snapper Lutjanus purpureus (Lutjanidae – Perciformes) from Southwest Atlantic Based on Multi-Locus Analyses

    Science.gov (United States)

    Sampaio, Iracilda; Schneider, Horacio

    2016-01-01

    The Caribbean snapper Lutjanus purpureus is a marine species fish commonly found associated with rocky seabeds and is widely distributed along of Western Atlantic. Data on stock delineation and stock recognition are essential for establishing conservation measures for commercially fished species. However, few studies have investigated the population genetic structure of this economically valuable species, and previous studies (based on only a portion of the mitochondrial DNA) provide an incomplete picture. The present study used a multi-locus approach (12 segments of mitochondrial and nuclear DNA) to elucidate the levels of genetic diversity and genetic connectivity of L. purpureus populations and their demographic history. L. purpureus has high levels of genetic diversity, which probably implies in high effective population sizes values for the species. The data show that this species is genetically homogeneous throughout the geographic region analyzed, most likely as a result of dispersal during larval phase. Regarding demographic history, a historical population growth event occurred, likely due to sea level changes during the Pleistocene. PMID:27556738

  18. Multi-Locus Sequence Typing (MLST) and Repetitive Extragenic Palindromic Polymerase Chain Reaction (REP-PCR), characterization of shigella spp. over two decades in Tianjin China

    Science.gov (United States)

    Cao, Yang; Wei, Dianjun; kamara, Idrissa L; Chen, Wei

    2012-01-01

    To understand the change of the dominant serogroup of Shigella spp., their antimicrobial resistance over more than two decades in Tianjin, their phylogenetic similarity and to determine their evolutionary biology by using REP-PCR and MLST in order to study their epidemiological character. Multi-locus Sequence Typing was performed to determine their lineage and phylogenetic similarity. REP-PCR typing was used to study the homology of their genomic DNA. The isolated rate of group D Shigella in 2009 and 2010 had obviously increased. Antimicrobial susceptibility test results showed that the resistant rates of the 1981-1983 Shigella flexneri to tetracycline, streptomycin and chloramphenicol varied from 76.47 to 100%, they were all sensitive to other antibiotics. During 2009-2010, the resistance rates of the isolated Shigella flexneri to gentamicin, amikacin, third and fourth Generation Cephalosporins and quinolones had increased. MLST results produced five sequence types and two sequence type complexes. REP-PCR showed DNA band similarities between the 1981-1983 and 2009-2010 strains. The dominant serogroup of Shigella in Tianjin has changed from Shigella flexneri to Shigella sonnei. Increased drug resistance of Shigella flexneri is higher than Shigella sonnei because a great variety of antibiotics has been used. The MLST results showed that the 1981-1983 strains had the same sequence type with some of the 2009-2010 strains. Combination of MLST and REP-PCR produced better discriminatory power than using either method alone. PMID:23205184

  19. The bioinvasion of Guam: inferring geographic origin, pace, pattern and process of an invasive lizard (Carlia) in the Pacific using multi-locus genomic data

    Science.gov (United States)

    Austin, C.C.; Rittmeyer, E.N.; Oliver, L.A.; Andermann, J.O.; Zug, G.R.; Rodda, G.H.; Jackson, N.D.

    2011-01-01

    Invasive species often have dramatic negative effects that lead to the deterioration and loss of biodiversity frequently coupled with the burden of expensive biocontrol programs and subversion of socioeconomic stability. The fauna and flora of oceanic islands are particularly susceptible to invasive species and the increase of global movements of humans and their products since WW II has caused numerous anthropogenic translocations and increased the ills of human-mediated invasions. We use a multi-locus genomic dataset to identify geographic origin, pace, pattern and historical process of an invasive scincid lizard (Carlia) that has been inadvertently introduced to Guam, the Northern Marianas, and Palau. This lizard is of major importance as its introduction is thought to have assisted in the establishment of the invasive brown treesnake (Boiga irregularis) on Guam by providing a food resource. Our findings demonstrate multiple waves of introductions that appear to be concordant with movements of Allied and Imperial Japanese forces in the Pacific during World War II.

  20. Taxonomic evaluation of species in the Streptomyces hirsutus clade using multi-locus sequence analysis and proposals to reclassify several species in this clade.

    Science.gov (United States)

    Labeda, David P; Rong, Xiaoying; Huang, Ying; Doroghazi, James R; Ju, Kou-San; Metcalf, William W

    2016-06-01

    Previous phylogenetic analysis of species of the genus Streptomyces based on 16S rRNA gene sequences resulted in a statistically well-supported clade (100 % bootstrap value) containing eight species that exhibited very similar gross morphology in producing open looped (Retinaculum-Apertum) to spiral (Spira) chains of spiny- to hairysurfaced, dark green spores on their aerial mycelium. The type strains of the species in this clade, specifically Streptomyces bambergiensis, Streptomyces cyanoalbus, Streptomyces emeiensis, Streptomyces hirsutus, Streptomyces prasinopilosus and Streptomyces prasinus, were subjected to multi-locus sequence analysis (MLSA) utilizing partial sequences of the housekeeping genes atpD, gyrB, recA, rpoB and trpB to clarify their taxonomic status. The type strains of several recently described species with similar gross morphology, including Streptomyces chlorus, Streptomyces herbaceus, Streptomyces incanus, Streptomyces pratens and Streptomyces viridis, were also studied along with six unidentified green-spored Streptomyces strains from the ARS Culture Collection. The MLSAs suggest that three of the species under study (S. bambergiensis, S. cyanoalbus and S. emeiensis) represent synonyms of other previously described species (S. prasinus, S. hirsutus and S. prasinopilosus, respectively). These relationships were confirmed through determination of in silico DNA-DNA hybridization estimates based on draft genome sequences. The five recently described species appear to be phylogenetically distinct but the unidentified strains from the ARS Culture Collection could be identified as representatives of S. hirsutus, S. prasinopilosus or S. prasinus.

  1. Epistatic interactions associated with fatty acid concentrations of beef from angus sired beef cattle.

    Science.gov (United States)

    Kramer, L M; Ghaffar, M A Abdel; Koltes, J E; Fritz-Waters, E R; Mayes, M S; Sewell, A D; Weeks, N T; Garrick, D J; Fernando, R L; Ma, L; Reecy, J M

    2016-11-08

    Consumers are becoming increasingly conscientious about the nutritional value of their food. Consumption of some fatty acids has been associated with human health traits such as blood pressure and cardiovascular disease. Therefore, it is important to investigate genetic variation in content of fatty acids present in meat. Previously publications reported regions of the cattle genome that are additively associated with variation in fatty acid content. This study evaluated epistatic interactions, which could account for additional genetic variation in fatty acid content. Epistatic interactions for 44 fatty acid traits in a population of Angus beef cattle were evaluated with EpiSNPmpi. False discovery rate (FDR) was controlled at 5 % and was limited to well-represented genotypic combinations. Epistatic interactions were detected for 37 triacylglyceride (TAG), 36 phospholipid (PL) fatty acid traits, and three weight traits. A total of 6,181, 7,168, and 0 significant epistatic interactions (FDR < 0.05, 50-animals per genotype combination) were associated with Triacylglyceride fatty acids, Phospholipid fatty acids, and weight traits respectively and most were additive-by-additive interactions. A large number of interactions occurred in potential regions of regulatory control along the chromosomes where genes related to fatty acid metabolism reside. Many fatty acids were associated with epistatic interactions. Despite a large number of significant interactions, there are a limited number of genomic locations that harbored these interactions. While larger population sizes are needed to accurately validate and quantify these epistatic interactions, the current findings point towards additional genetic variance that can be accounted for within these fatty acid traits.

  2. Multi-locus genome-wide association analysis supports the role of glutamatergic synaptic transmission in the etiology of major depressive disorder.

    Science.gov (United States)

    Lee, P H; Perlis, R H; Jung, J-Y; Byrne, E M; Rueckert, E; Siburian, R; Haddad, S; Mayerfeld, C E; Heath, A C; Pergadia, M L; Madden, P A F; Boomsma, D I; Penninx, B W; Sklar, P; Martin, N G; Wray, N R; Purcell, S M; Smoller, J W

    2012-11-13

    Major depressive disorder (MDD) is a common psychiatric illness characterized by low mood and loss of interest in pleasurable activities. Despite years of effort, recent genome-wide association studies (GWAS) have identified few susceptibility variants or genes that are robustly associated with MDD. Standard single-SNP (single nucleotide polymorphism)-based GWAS analysis typically has limited power to deal with the extensive heterogeneity and substantial polygenic contribution of individually weak genetic effects underlying the pathogenesis of MDD. Here, we report an alternative, gene-set-based association analysis of MDD in an effort to identify groups of biologically related genetic variants that are involved in the same molecular function or cellular processes and exhibit a significant level of aggregated association with MDD. In particular, we used a text-mining-based data analysis to prioritize candidate gene sets implicated in MDD and conducted a multi-locus association analysis to look for enriched signals of nominally associated MDD susceptibility loci within each of the gene sets. Our primary analysis is based on the meta-analysis of three large MDD GWAS data sets (total N=4346 cases and 4430 controls). After correction for multiple testing, we found that genes involved in glutamatergic synaptic neurotransmission were significantly associated with MDD (set-based association P=6.9 × 10(-4)). This result is consistent with previous studies that support a role of the glutamatergic system in synaptic plasticity and MDD and support the potential utility of targeting glutamatergic neurotransmission in the treatment of MDD.

  3. Multi-locus genotypes of Enterocytozoon bieneusi in captive Asiatic black bears in southwestern China: High genetic diversity, broad host range, and zoonotic potential

    Science.gov (United States)

    Cao, Xuefeng; Song, Yuan; Wang, Wuyou; Huang, Xiangming; Liu, Xuehan; Hu, Yanchun; Fu, Hualin; He, Min; Wang, Ya; Zhang, Yue; Wu, Kongju; Peng, Guangneng

    2017-01-01

    Enterocytozoon bieneusi is an obligate eukaryotic intracellular parasite that infects a wide variety of vertebrate and invertebrate hosts. Although considerable research has been conducted on this organism, relatively little information is available on the occurrence of E. bieneusi in captive Asiatic black bears. The present study was performed to determine the prevalence, genetic diversity, and zoonotic potential of E. bieneusi in captive Asiatic black bears in zoos in southwestern China. Fecal specimens from Asiatic black bears in four zoos, located in four different cities, were collected and analyzed for the prevalence of E. bieneusi. The average prevalence of E. bieneusi was 27.4% (29/106), with the highest prevalence in Guiyang Zoo (36.4%, 16/44). Altogether, five genotypes of E. bieneusi were identified among the 29 E. bieneusi-positive samples, including three known genotypes (CHB1, SC02, and horse2) and two novel genotypes named ABB1 and ABB2. Multi-locus sequence typing using three microsatellites (MS1, MS3, and MS7) and one minisatellite (MS4) revealed V, III, V, and IV genotypes at these four loci, respectively. Phylogenetic analysis showed that the genotypes SC02 and ABB2 were clustered into group 1 of zoonotic potential, the genotypes CHB1 and ABB1 were clustered into a new group, and the genotype horse2 was clustered into group 6 of unclear zoonotic potential. In conclusion, this study identified two novel E. bieneusi genotypes in captive Asiatic black bears, and used microsatellite and minisatellite markers to reveal E. bieneusi genetic diversity. Moreover, our findings show that genotypes SC02 (identified in humans) and ABB2 belong to group 1 with zoonotic potential, suggesting the risk of transmission of E. bieneusi from Asiatic black bears to humans and other animals. PMID:28182656

  4. Recent speciation in three closely related sympatric specialists: inferences using multi-locus sequence, post-mating isolation and endosymbiont data.

    Directory of Open Access Journals (Sweden)

    Huai-Jun Xue

    Full Text Available Shifting between unrelated host plants is relatively rare for phytophagous insects, and distinct host specificity may play crucial roles in reproductive isolation. However, the isolation status and the relationship between parental divergence and post-mating isolation among closely related sympatric specialists are still poorly understood. Here, multi-locus sequence were used to estimate the relationship among three host plant-specific closely related flea beetles, Altica cirsicola, A. fragariae and A. viridicyanea (abbreviated as AC, AF and AV respectively. The tree topologies were inconsistent using different gene or different combinations of gene fragments. The relationship of AF+(AC+AV was supported, however, by both gene tree and species tree based on concatenated data. Post-mating reproductive data on the results of crossing these three species are best interpreted in the light of a well established phylogeny. Nuclear-induced but not Wolbachia-induced unidirectional cytoplasmic incompatibility, which was detected in AC-AF and AF-AV but not in AC-AV, may also suggest more close genetic affinity between AC and AV. Prevalence of Wolbachia in these three beetles, and the endosymbiont in most individuals of AV and AC sharing a same wsp haplotype may give another evidence of AF+(AC+AV. Our study also suggested that these three flea beetles diverged in a relative short time (0.94 My, which may be the result of shifting between unrelated host plants and distinct host specificity. Incomplete post-mating isolation while almost complete lineage sorting indicated that effective pre-mating isolation among these three species should have evolved.

  5. A multi-locus study of cryptosporidium parasites isolated from patients living in iran, Malawi, Nigeria, the United kingdom, and Vietnam.

    Directory of Open Access Journals (Sweden)

    Salman Ghaffari

    2014-03-01

    Full Text Available Cryptosporidium species are important cause of diarrheal diseases in both developing and developed countries. This study aimed to compare the performance of several molecular methods for identification of Cryptosporidium species, and to detect genetic variation among each of these species isolated from Iran, Malawi, Nigeria, Vietnam and the United Kingdom.The oocysts DNA samples were derived from 106 Cryptosporidium positive feces. Polymerase chain reaction, PCR- restriction fragment length polymorphism and DNA sequence analysis of the 18S rRNA and the Cryptosporidium oocysts wall protein genes; PCR and DNA sequence analysis of a fragment of 70 kDa heat shock protein and 60 kDa glycoprotein genes were carried out.Based on these analysis, three species of Cryptosporidium including C. hominis, C. parvum and C. meleagridis, and both C. hominis and C. parvum were found in Iranian and the UK samples, respectively. Also, three C. hominis (Ib, Ib3& Id and three C. parvum (IIa, IIc & IId subtypes were identified by sequence analysis of the GP60 gene. Of these, C. hominis Ib was predominant and interestingly, one subgenotype (C. hominis Ib A10G2 accounted for the majority of the samples.The current study demonstrates the complex subtypes of Cryptosporidium isolates in both developing and developed countries. This is the first report of C. parvum IId subgenotype and three new subtypes of C. parvum IIa in the UK, a new subtype of C. hominis Id from Malawi; and the first multi-locus study of three species of Cryptosporidium in human from Iran.

  6. Understanding Epistatic Interactions between Genes Targeted by Non-coding Regulatory Elements in Complex Diseases

    Directory of Open Access Journals (Sweden)

    Min Kyung Sung

    2014-12-01

    Full Text Available Genome-wide association studies have proven the highly polygenic architecture of complex diseases or traits; therefore, single-locus-based methods are usually unable to detect all involved loci, especially when individual loci exert small effects. Moreover, the majority of associated single-nucleotide polymorphisms resides in non-coding regions, making it difficult to understand their phenotypic contribution. In this work, we studied epistatic interactions associated with three common diseases using Korea Association Resource (KARE data: type 2 diabetes mellitus (DM, hypertension (HT, and coronary artery disease (CAD. We showed that epistatic single-nucleotide polymorphisms (SNPs were enriched in enhancers, as well as in DNase I footprints (the Encyclopedia of DNA Elements [ENCODE] Project Consortium 2012, which suggested that the disruption of the regulatory regions where transcription factors bind may be involved in the disease mechanism. Accordingly, to identify the genes affected by the SNPs, we employed whole-genome multiple-cell-type enhancer data which discovered using DNase I profiles and Cap Analysis Gene Expression (CAGE. Assigned genes were significantly enriched in known disease associated gene sets, which were explored based on the literature, suggesting that this approach is useful for detecting relevant affected genes. In our knowledge-based epistatic network, the three diseases share many associated genes and are also closely related with each other through many epistatic interactions. These findings elucidate the genetic basis of the close relationship between DM, HT, and CAD.

  7. Multi-QTL mapping for quantitative traits using epistatic distorted markers.

    Directory of Open Access Journals (Sweden)

    Shang-Qian Xie

    Full Text Available The interaction between segregation distortion loci (SDL has been often observed in all kinds of mapping populations. However, little has been known about the effect of epistatic SDL on quantitative trait locus (QTL mapping. Here we proposed a multi-QTL mapping approach using epistatic distorted markers. Using the corrected linkage groups, epistatic SDL was identified. Then, these SDL parameters were used to correct the conditional probabilities of QTL genotypes, and these corrections were further incorporated into the new QTL mapping approach. Finally, a set of simulated datasets and a real data in 304 mouse F2 individuals were used to validate the new method. As compared with the old method, the new one corrects genetic distance between distorted markers, and considers epistasis between two linked SDL. As a result, the power in the detection of QTL is higher for the new method than for the old one, and significant differences for estimates of QTL parameters between the two methods were observed, except for QTL position. Among two QTL for mouse weight, one significant difference for QTL additive effect between the above two methods was observed, because epistatic SDL between markers C66 and T93 exists (P = 2.94e-4.

  8. Genomic Scans of Zygotic Disequilibrium and Epistatic SNPs in HapMap Phase III Populations.

    Directory of Open Access Journals (Sweden)

    Xin-Sheng Hu

    Full Text Available Previous theory indicates that zygotic linkage disequilibrium (LD is more informative than gametic or composite digenic LD in revealing natural population history. Further, the difference between the composite digenic and maximum zygotic LDs can be used to detect epistatic selection for fitness. Here we corroborate the theory by investigating genome-wide zygotic LDs in HapMap phase III human populations. Results show that non-Africa populations have much more significant zygotic LDs than do Africa populations. Africa populations (ASW, LWK, MKK, and YRI possess more significant zygotic LDs for the double-homozygotes (DAABB than any other significant zygotic LDs (DAABb, DAaBB, and DAaBb, while non-Africa populations generally have more significant DAaBb's than any other significant zygotic LDs (DAABB, DAABb, and DAaBB. Average r-squares for any significant zygotic LDs increase generally in an order of populations YRI, MKK, CEU, CHB, LWK, JPT, CHD, TSI, GIH, ASW, and MEX. Average r-squares are greater for DAABB and DAaBb than for DAaBB and DAABb in each population. YRI and MKK can be separated from LWK and ASW in terms of the pattern of average r-squares. All population divergences in zygotic LDs can be interpreted with the model of Out of Africa for modern human origins. We have also detected 19735-95921 SNP pairs exhibiting strong signals of epistatic selection in different populations. Gene-gene interactions for some epistatic SNP pairs are evident from empirical findings, but many more epistatic SNP pairs await evidence. Common epistatic SNP pairs rarely exist among all populations, but exist in distinct regions (Africa, Europe, and East Asia, which helps to understand geographical genomic medicine.

  9. Classification of Bartonella strains associated with straw-colored fruit bats (Eidolon helvum) across Africa using a multi-locus sequence typing platform.

    Science.gov (United States)

    Bai, Ying; Hayman, David T S; McKee, Clifton D; Kosoy, Michael Y

    2015-01-01

    Bartonellae are facultative intracellular bacteria and are highly adapted to their mammalian host cell niches. Straw-colored fruit bats (Eidolon helvum) are commonly infected with several bartonella strains. To elucidate the genetic diversity of these bartonella strains, we analyzed 79 bartonella isolates from straw-colored fruit bats in seven countries across Africa (Cameroon, Annobon island of Equatorial Guinea, Ghana, Kenya, Nigeria, Tanzania, and Uganda) using a multi-locus sequencing typing (MLST) approach based on nucleotide sequences of eight loci (ftsZ, gltA, nuoG, ribC, rpoB, ssrA, ITS, and 16S rRNA). The analysis of each locus but ribC demonstrated clustering of the isolates into six genogroups (E1 - E5 and Ew), while ribC was absent in the isolates belonging to the genogroup Ew. In general, grouping of all isolates by each locus was mutually supportive; however, nuoG, gltA, and rpoB showed some incongruity with other loci in several strains, suggesting a possibility of recombination events, which were confirmed by network analyses and recombination/mutation rate ratio (r/m) estimations. The MLST scheme revealed 45 unique sequence types (ST1 - 45) among the analyzed bartonella isolates. Phylogenetic analysis of concatenated sequences supported the discrimination of six phylogenetic lineages (E1 - E5 and Ew) corresponding to separate and unique Bartonella species. One of the defined lineages, Ew, consisted of only two STs (ST1 and ST2), and comprised more than one-quarter of the analyzed isolates, while other lineages contained higher numbers of STs with a smaller number of isolates belonging to each lineage. The low number of allelic polymorphisms of isolates belonging to Ew suggests a more recent origin for this species. Our findings suggest that at least six Bartonella species are associated with straw-colored fruit bats, and that distinct STs can be found across the distribution of this bat species, including in populations of bats which are

  10. Classification of Bartonella strains associated with straw-colored fruit bats (Eidolon helvum across Africa using a multi-locus sequence typing platform.

    Directory of Open Access Journals (Sweden)

    Ying Bai

    2015-01-01

    Full Text Available Bartonellae are facultative intracellular bacteria and are highly adapted to their mammalian host cell niches. Straw-colored fruit bats (Eidolon helvum are commonly infected with several bartonella strains. To elucidate the genetic diversity of these bartonella strains, we analyzed 79 bartonella isolates from straw-colored fruit bats in seven countries across Africa (Cameroon, Annobon island of Equatorial Guinea, Ghana, Kenya, Nigeria, Tanzania, and Uganda using a multi-locus sequencing typing (MLST approach based on nucleotide sequences of eight loci (ftsZ, gltA, nuoG, ribC, rpoB, ssrA, ITS, and 16S rRNA. The analysis of each locus but ribC demonstrated clustering of the isolates into six genogroups (E1 - E5 and Ew, while ribC was absent in the isolates belonging to the genogroup Ew. In general, grouping of all isolates by each locus was mutually supportive; however, nuoG, gltA, and rpoB showed some incongruity with other loci in several strains, suggesting a possibility of recombination events, which were confirmed by network analyses and recombination/mutation rate ratio (r/m estimations. The MLST scheme revealed 45 unique sequence types (ST1 - 45 among the analyzed bartonella isolates. Phylogenetic analysis of concatenated sequences supported the discrimination of six phylogenetic lineages (E1 - E5 and Ew corresponding to separate and unique Bartonella species. One of the defined lineages, Ew, consisted of only two STs (ST1 and ST2, and comprised more than one-quarter of the analyzed isolates, while other lineages contained higher numbers of STs with a smaller number of isolates belonging to each lineage. The low number of allelic polymorphisms of isolates belonging to Ew suggests a more recent origin for this species. Our findings suggest that at least six Bartonella species are associated with straw-colored fruit bats, and that distinct STs can be found across the distribution of this bat species, including in populations of bats which are

  11. Multifactor dimensionality reduction reveals a three-locus epistatic interaction associated with susceptibility to pulmonary tuberculosis

    DEFF Research Database (Denmark)

    Collins, Ryan L; Hu, Ting; Wejse, Christian;

    2013-01-01

    for this problem. The goal of the present study was to apply MDR to mining high-order epistatic interactions in a population-based genetic study of tuberculosis (TB). Results The study used a previously published data set consisting of 19 candidate single-nucleotide polymorphisms (SNPs) in 321 pulmonary TB cases......Background Identifying high-order genetics associations with non-additive (i.e. epistatic) effects in population-based studies of common human diseases is a computational challenge. Multifactor dimensionality reduction (MDR) is a machine learning method that was designed specifically...... and 347 healthy controls from Guniea-Bissau in Africa. The ReliefF algorithm was applied first to generate a smaller set of the five most informative SNPs. MDR with 10-fold cross-validation was then applied to look at all possible combinations of two, three, four and five SNPs. The MDR model with the best...

  12. An exhaustive epistatic SNP association analysis on expanded Wellcome Trust data.

    Science.gov (United States)

    Lippert, Christoph; Listgarten, Jennifer; Davidson, Robert I; Baxter, Scott; Poon, Hoifung; Poong, Hoifung; Kadie, Carl M; Heckerman, David

    2013-01-01

    We present an approach for genome-wide association analysis with improved power on the Wellcome Trust data consisting of seven common phenotypes and shared controls. We achieved improved power by expanding the control set to include other disease cohorts, multiple races, and closely related individuals. Within this setting, we conducted exhaustive univariate and epistatic interaction association analyses. Use of the expanded control set identified more known associations with Crohn's disease and potential new biology, including several plausible epistatic interactions in several diseases. Our work suggests that carefully combining data from large repositories could reveal many new biological insights through increased power. As a community resource, all results have been made available through an interactive web server.

  13. Cloud computing for detecting high-order genome-wide epistatic interaction via dynamic clustering

    OpenAIRE

    Guo, Xuan; Meng, Yu; Yu, Ning; Pan, Yi

    2014-01-01

    Backgroud Taking the advan tage of high-throughput single nucleotide polymorphism (SNP) genotyping technology, large genome-wide association studies (GWASs) have been considered to hold promise for unravelling complex relationships between genotype and phenotype. At present, traditional single-locus-based methods are insufficient to detect interactions consisting of multiple-locus, which are broadly existing in complex traits. In addition, statistic tests for high order epistatic interactions...

  14. Epistatic interactions of genes influence within-individual variation of physical activity traits in mice.

    Science.gov (United States)

    Leamy, Larry J; Pomp, Daniel; Lightfoot, J Timothy

    2011-06-01

    A number of quantitative trait loci (QTLs) recently have been discovered that affect various activity traits in mice, but their collective impact does not appear to explain the consistently moderate to high heritabilities for these traits. We previously suggested interactions of genes, or epistasis, might account for additional genetic variability of activity, and tested this for the average distance, duration and speed run by mice during a 3 week period. We found abundant evidence for epistasis affecting these traits, although, recognized that epistatic effects may well vary within individuals over time. We therefore conducted a full genome scan for epistatic interactions affecting these traits in each of seven three-day intervals. Our intent was to assess the extent and trends in epistasis affecting these traits in each of the intervals. We discovered a number of epistatic interactions of QTLs that influenced the activity traits in the mice, the majority of which were not previously found and appeared to affect the activity traits (especially distance and speed) primarily in the early or in the late age intervals. The overall impact of epistasis was considerable, its contribution to the total phenotypic variance varying from an average of 22-35% in the three traits across all age intervals. It was concluded that epistasis is more important than single-locus effects of genes on activity traits at specific ages and it is therefore an essential component of the genetic architecture of physical activity.

  15. eQTL epistasis: detecting epistatic effects and inferring hierarchical relationships of genes in biological pathways.

    Science.gov (United States)

    Kang, Mingon; Zhang, Chunling; Chun, Hyung-Wook; Ding, Chris; Liu, Chunyu; Gao, Jean

    2015-03-01

    Epistasis is the interactions among multiple genetic variants. It has emerged to explain the 'missing heritability' that a marginal genetic effect does not account for by genome-wide association studies, and also to understand the hierarchical relationships between genes in the genetic pathways. The Fisher's geometric model is common in detecting the epistatic effects. However, despite the substantial successes of many studies with the model, it often fails to discover the functional dependence between genes in an epistasis study, which is an important role in inferring hierarchical relationships of genes in the biological pathway. We justify the imperfectness of Fisher's model in the simulation study and its application to the biological data. Then, we propose a novel generic epistasis model that provides a flexible solution for various biological putative epistatic models in practice. The proposed method enables one to efficiently characterize the functional dependence between genes. Moreover, we suggest a statistical strategy for determining a recessive or dominant link among epistatic expression quantitative trait locus to enable the ability to infer the hierarchical relationships. The proposed method is assessed by simulation experiments of various settings and is applied to human brain data regarding schizophrenia. The MATLAB source codes are publicly available at: http://biomecis.uta.edu/epistasis. © The Author 2014. Published by Oxford University Press. All rights reserved. For Permissions, please e-mail: journals.permissions@oup.com.

  16. Adaptive evolutionary paths from UV reception to sensing violet light by epistatic interactions

    Science.gov (United States)

    Yokoyama, Shozo; Altun, Ahmet; Jia, Huiyong; Yang, Hui; Koyama, Takashi; Faggionato, Davide; Liu, Yang; Starmer, William T.

    2015-01-01

    Ultraviolet (UV) reception is useful for such basic behaviors as mate choice, foraging, predator avoidance, communication, and navigation, whereas violet reception improves visual resolution and subtle contrast detection. UV and violet reception are mediated by the short wavelength–sensitive (SWS1) pigments that absorb light maximally (λmax) at ~360 nm and ~395 to 440 nm, respectively. Because of strong nonadditive (epistatic) interactions among amino acid changes in the pigments, the adaptive evolutionary mechanisms of these phenotypes are not well understood. Evolution of the violet pigment of the African clawed frog (Xenopus laevis, λmax = 423 nm) from the UV pigment in the amphibian ancestor (λmax = 359 nm) can be fully explained by eight mutations in transmembrane (TM) I–III segments. We show that epistatic interactions involving the remaining TM IV–VII segments provided evolutionary potential for the frog pigment to gradually achieve its violet-light reception by tuning its color sensitivity in small steps. Mutants in these segments also impair pigments that would cause drastic spectral shifts and thus eliminate them from viable evolutionary pathways. The overall effects of epistatic interactions involving TM IV–VII segments have disappeared at the last evolutionary step and thus are not detectable by studying present-day pigments. Therefore, characterizing the genotype-phenotype relationship during each evolutionary step is the key to uncover the true nature of epistasis. PMID:26601250

  17. Hybrid male sterility in rice is due to epistatic interactions with a pollen killer locus.

    Science.gov (United States)

    Kubo, Takahiko; Yoshimura, Atsushi; Kurata, Nori

    2011-11-01

    In intraspecific crosses between cultivated rice (Oryza sativa) subspecies indica and japonica, the hybrid male sterility gene S24 causes the selective abortion of male gametes carrying the japonica allele (S24-j) via an allelic interaction in the heterozygous hybrids. In this study, we first examined whether male sterility is due solely to the single locus S24. An analysis of near-isogenic lines (NIL-F(1)) showed different phenotypes for S24 in different genetic backgrounds. The S24 heterozygote with the japonica genetic background showed male semisterility, but no sterility was found in heterozygotes with the indica background. This result indicates that S24 is regulated epistatically. A QTL analysis of a BC(2)F(1) population revealed a novel sterility locus that interacts with S24 and is found on rice chromosome 2. The locus was named Epistatic Factor for S24 (EFS). Further genetic analyses revealed that S24 causes male sterility when in combination with the homozygous japonica EFS allele (efs-j). The results suggest that efs-j is a recessive sporophytic allele, while the indica allele (EFS-i) can dominantly counteract the pollen sterility caused by S24 heterozygosity. In summary, our results demonstrate that an additional epistatic locus is an essential element in the hybrid sterility caused by allelic interaction at a single locus in rice. This finding provides a significant contribution to our understanding of the complex molecular mechanisms underlying hybrid sterility and microsporogenesis.

  18. 多位点序列分型技术以及在乳酸菌分类鉴定中的应用%Multi-locus sequence typing technology and its application in Lactic acid bacteria identification

    Institute of Scientific and Technical Information of China (English)

    徐海燕; 张和平

    2013-01-01

    Multi-locus sequence typing (MLST) is a molecular typing method based on the DNA partial nucleotide sequencing of multiple housekeeping genes,the differences of alleles at each loci were defined by the allelic profile or sequence type,it is an effective tool for analysis genetic relationship among strains.MLST schemes have been developed for a variety of bacterial research,in this paper,the method of MLST and its application on classification and identification of Lactic acid bacteria are introduced.%多位点序列分型(Multi-Locus Sequence Typing,MLST)技术是通过测定同种细菌管家基因(housekeeping gene)的序列,来确定等位基因的差异,进而比较分析菌株之间进化关系的一种分子分型方法.该方法在细菌生物学基础研究方面已经发挥了重要的作用,本文主要阐述MLST技术的方法和其在乳酸菌分类鉴定中的应用.

  19. Epistatic interactions modulate the evolution of mammalian mitochondrial respiratory complex components

    Directory of Open Access Journals (Sweden)

    Moleirinho Ana

    2009-06-01

    Full Text Available Abstract Background The deleterious effect of a mutation can be reverted by a second-site interacting residue. This is an epistatic compensatory process explaining why mutations that are deleterious in some species are tolerated in phylogenetically related lineages, rendering evident that those mutations are, by all means, only deleterious in the species-specific context. Although an extensive and refined theoretical framework on compensatory evolution does exist, the supporting evidence remains limited, especially for protein models. In this current study, we focused on the molecular mechanism underlying the epistatic compensatory process in mammalian mitochondrial OXPHOS proteins using a combination of in-depth structural and sequence analyses. Results Modeled human structures were used in this study to predict the structural impairment and recovery of deleterious mutations alone and combined with an interacting compensatory partner, respectively. In two cases, COI and COIII, intramolecular interactions between spatially linked residues restore the folding pattern impaired by the deleterious mutation. In a third case, intermolecular contact between mitochondrial CYB and nuclear CYT1 encoded components of the cytochrome bc1 complex are likely to restore protein binding. Moreover, we observed different modes of compensatory evolution that have resulted in either a quasi-simultaneous occurrence of a mutation and corresponding compensatory partner, or in independent occurrences of mutations in distinct lineages that were always preceded by the compensatory site. Conclusion Epistatic interactions between individual replacements involving deleterious mutations seems to follow a parsimonious model of evolution in which genomes hold pre-compensating states that subsequently tolerate deleterious mutations. This phenomenon is likely to have been constraining the variability at coevolving sites and shaping the interaction between the mitochondrial and

  20. Strong Selection Significantly Increases Epistatic Interactions in the Long-Term Evolution of a Protein.

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    Aditi Gupta

    2016-03-01

    Full Text Available Epistatic interactions between residues determine a protein's adaptability and shape its evolutionary trajectory. When a protein experiences a changed environment, it is under strong selection to find a peak in the new fitness landscape. It has been shown that strong selection increases epistatic interactions as well as the ruggedness of the fitness landscape, but little is known about how the epistatic interactions change under selection in the long-term evolution of a protein. Here we analyze the evolution of epistasis in the protease of the human immunodeficiency virus type 1 (HIV-1 using protease sequences collected for almost a decade from both treated and untreated patients, to understand how epistasis changes and how those changes impact the long-term evolvability of a protein. We use an information-theoretic proxy for epistasis that quantifies the co-variation between sites, and show that positive information is a necessary (but not sufficient condition that detects epistasis in most cases. We analyze the "fossils" of the evolutionary trajectories of the protein contained in the sequence data, and show that epistasis continues to enrich under strong selection, but not for proteins whose environment is unchanged. The increase in epistasis compensates for the information loss due to sequence variability brought about by treatment, and facilitates adaptation in the increasingly rugged fitness landscape of treatment. While epistasis is thought to enhance evolvability via valley-crossing early-on in adaptation, it can hinder adaptation later when the landscape has turned rugged. However, we find no evidence that the HIV-1 protease has reached its potential for evolution after 9 years of adapting to a drug environment that itself is constantly changing. We suggest that the mechanism of encoding new information into pairwise interactions is central to protein evolution not just in HIV-1 protease, but for any protein adapting to a changing

  1. A strategy for extracting and analyzing large-scale quantitative epistatic interaction data

    Science.gov (United States)

    Collins, Sean R; Schuldiner, Maya; Krogan, Nevan J; Weissman, Jonathan S

    2006-01-01

    Recently, approaches have been developed for high-throughput identification of synthetic sick/lethal gene pairs. However, these are only a specific example of the broader phenomenon of epistasis, wherein the presence of one mutation modulates the phenotype of another. We present analysis techniques for generating high-confidence quantitative epistasis scores from measurements made using synthetic genetic array and epistatic miniarray profile (E-MAP) technology, as well as several tools for higher-level analysis of the resulting data that are greatly enhanced by the quantitative score and detection of alleviating interactions. PMID:16859555

  2. Sub-typing of extended-spectrum-β-lactamase-producing isolates from a nosocomial outbreak: application of a 10-loci generic Escherichia coli multi-locus variable number tandem repeat analysis.

    Directory of Open Access Journals (Sweden)

    Nahid Karami

    Full Text Available Extended-spectrum β-lactamase producing Escherichia coli (ESBL-E. coli were isolated from infants hospitalized in a neonatal, post-surgery ward during a four-month-long nosocomial outbreak and six-month follow-up period. A multi-locus variable number tandem repeat analysis (MLVA, using 10 loci (GECM-10, for 'generic' (i.e., non-STEC E. coli was applied for sub-species-level (i.e., sub-typing delineation and characterization of the bacterial isolates. Ten distinct GECM-10 types were detected among 50 isolates, correlating with the types defined by pulsed-field gel electrophoresis (PFGE, which is recognized to be the 'gold-standard' method for clinical epidemiological analyses. Multi-locus sequence typing (MLST, multiplex PCR genotyping of bla CTX-M, bla TEM, bla OXA and bla SHV genes and antibiotic resistance profiling, as well as a PCR assay specific for detecting isolates of the pandemic O25b-ST131 strain, further characterized the outbreak isolates. Two clusters of isolates with distinct GECM-10 types (G06-04 and G07-02, corresponding to two major PFGE types and the MLST-based sequence types (STs 131 and 1444, respectively, were confirmed to be responsible for the outbreak. The application of GECM-10 sub-typing provided reliable, rapid and cost-effective epidemiological characterizations of the ESBL-producing isolates from a nosocomial outbreak that correlated with and may be used to replace the laborious PFGE protocol for analyzing generic E. coli.

  3. PEPIS: A Pipeline for Estimating Epistatic Effects in Quantitative Trait Locus Mapping and Genome-Wide Association Studies.

    Directory of Open Access Journals (Sweden)

    Wenchao Zhang

    2016-05-01

    Full Text Available The term epistasis refers to interactions between multiple genetic loci. Genetic epistasis is important in regulating biological function and is considered to explain part of the 'missing heritability,' which involves marginal genetic effects that cannot be accounted for in genome-wide association studies. Thus, the study of epistasis is of great interest to geneticists. However, estimating epistatic effects for quantitative traits is challenging due to the large number of interaction effects that must be estimated, thus significantly increasing computing demands. Here, we present a new web server-based tool, the Pipeline for estimating EPIStatic genetic effects (PEPIS, for analyzing polygenic epistatic effects. The PEPIS software package is based on a new linear mixed model that has been used to predict the performance of hybrid rice. The PEPIS includes two main sub-pipelines: the first for kinship matrix calculation, and the second for polygenic component analyses and genome scanning for main and epistatic effects. To accommodate the demand for high-performance computation, the PEPIS utilizes C/C++ for mathematical matrix computing. In addition, the modules for kinship matrix calculations and main and epistatic-effect genome scanning employ parallel computing technology that effectively utilizes multiple computer nodes across our networked cluster, thus significantly improving the computational speed. For example, when analyzing the same immortalized F2 rice population genotypic data examined in a previous study, the PEPIS returned identical results at each analysis step with the original prototype R code, but the computational time was reduced from more than one month to about five minutes. These advances will help overcome the bottleneck frequently encountered in genome wide epistatic genetic effect analysis and enable accommodation of the high computational demand. The PEPIS is publically available at http://bioinfo.noble.org/PolyGenic_QTL/.

  4. PEPIS: A Pipeline for Estimating Epistatic Effects in Quantitative Trait Locus Mapping and Genome-Wide Association Studies.

    Science.gov (United States)

    Zhang, Wenchao; Dai, Xinbin; Wang, Qishan; Xu, Shizhong; Zhao, Patrick X

    2016-05-01

    The term epistasis refers to interactions between multiple genetic loci. Genetic epistasis is important in regulating biological function and is considered to explain part of the 'missing heritability,' which involves marginal genetic effects that cannot be accounted for in genome-wide association studies. Thus, the study of epistasis is of great interest to geneticists. However, estimating epistatic effects for quantitative traits is challenging due to the large number of interaction effects that must be estimated, thus significantly increasing computing demands. Here, we present a new web server-based tool, the Pipeline for estimating EPIStatic genetic effects (PEPIS), for analyzing polygenic epistatic effects. The PEPIS software package is based on a new linear mixed model that has been used to predict the performance of hybrid rice. The PEPIS includes two main sub-pipelines: the first for kinship matrix calculation, and the second for polygenic component analyses and genome scanning for main and epistatic effects. To accommodate the demand for high-performance computation, the PEPIS utilizes C/C++ for mathematical matrix computing. In addition, the modules for kinship matrix calculations and main and epistatic-effect genome scanning employ parallel computing technology that effectively utilizes multiple computer nodes across our networked cluster, thus significantly improving the computational speed. For example, when analyzing the same immortalized F2 rice population genotypic data examined in a previous study, the PEPIS returned identical results at each analysis step with the original prototype R code, but the computational time was reduced from more than one month to about five minutes. These advances will help overcome the bottleneck frequently encountered in genome wide epistatic genetic effect analysis and enable accommodation of the high computational demand. The PEPIS is publically available at http://bioinfo.noble.org/PolyGenic_QTL/.

  5. Epistatic interactions influence terrestrial-marine functional shifts in cetacean rhodopsin.

    Science.gov (United States)

    Dungan, Sarah Z; Chang, Belinda S W

    2017-03-15

    Like many aquatic vertebrates, whales have blue-shifting spectral tuning substitutions in the dim-light visual pigment, rhodopsin, that are thought to increase photosensitivity in underwater environments. We have discovered that known spectral tuning substitutions also have surprising epistatic effects on another function of rhodopsin, the kinetic rates associated with light-activated intermediates. By using absorbance spectroscopy and fluorescence-based retinal release assays on heterologously expressed rhodopsin, we assessed both spectral and kinetic differences between cetaceans (killer whale) and terrestrial outgroups (hippo, bovine). Mutation experiments revealed that killer whale rhodopsin is unusually resilient to pleiotropic effects on retinal release from key blue-shifting substitutions (D83N and A292S), largely due to a surprisingly specific epistatic interaction between D83N and the background residue, S299. Ancestral sequence reconstruction indicated that S299 is an ancestral residue that predates the evolution of blue-shifting substitutions at the origins of Cetacea. Based on these results, we hypothesize that intramolecular epistasis helped to conserve rhodopsin's kinetic properties while enabling blue-shifting spectral tuning substitutions as cetaceans adapted to aquatic environments. Trade-offs between different aspects of molecular function are rarely considered in protein evolution, but in cetacean and other vertebrate rhodopsins, may underlie multiple evolutionary scenarios for the selection of specific amino acid substitutions.

  6. Estimation of Epistatic Variance Components and Heritability in Founder Populations and Crosses

    Science.gov (United States)

    Young, Alexander I.; Durbin, Richard

    2014-01-01

    Genetic association studies have explained only a small proportion of the estimated heritability of complex traits, leaving the remaining heritability “missing.” Genetic interactions have been proposed as an explanation for this, because they lead to overestimates of the heritability and are hard to detect. Whether this explanation is true depends on the proportion of variance attributable to genetic interactions, which is difficult to measure in outbred populations. Founder populations exhibit a greater range of kinship than outbred populations, which helps in fitting the epistatic variance. We extend classic theory to founder populations, giving the covariance between individuals due to epistasis of any order. We recover the classic theory as a limit, and we derive a recently proposed estimator of the narrow sense heritability as a corollary. We extend the variance decomposition to include dominance. We show in simulations that it would be possible to estimate the variance from pairwise interactions with samples of a few thousand from strongly bottlenecked human founder populations, and we provide an analytical approximation of the standard error. Applying these methods to 46 traits measured in a yeast (Saccharomyces cerevisiae) cross, we estimate that pairwise interactions explain 10% of the phenotypic variance on average and that third- and higher-order interactions explain 14% of the phenotypic variance on average. We search for third-order interactions, discovering an interaction that is shared between two traits. Our methods will be relevant to future studies of epistatic variance in founder populations and crosses. PMID:25326236

  7. Sixth form pure mathematics

    CERN Document Server

    Plumpton, C

    1968-01-01

    Sixth Form Pure Mathematics, Volume 1, Second Edition, is the first of a series of volumes on Pure Mathematics and Theoretical Mechanics for Sixth Form students whose aim is entrance into British and Commonwealth Universities or Technical Colleges. A knowledge of Pure Mathematics up to G.C.E. O-level is assumed and the subject is developed by a concentric treatment in which each new topic is used to illustrate ideas already treated. The major topics of Algebra, Calculus, Coordinate Geometry, and Trigonometry are developed together. This volume covers most of the Pure Mathematics required for t

  8. Epistatic QTL pairs associated with meat quality and carcass composition traits in a porcine Duroc × Pietrain population

    Directory of Open Access Journals (Sweden)

    Jüngst Heinz

    2010-10-01

    Full Text Available Abstract Background Quantitative trait loci (QTL analyses in pig have revealed numerous individual QTL affecting growth, carcass composition, reproduction and meat quality, indicating a complex genetic architecture. In general, statistical QTL models consider only additive and dominance effects and identification of epistatic effects in livestock is not yet widespread. The aim of this study was to identify and characterize epistatic effects between common and novel QTL regions for carcass composition and meat quality traits in pig. Methods Five hundred and eighty five F2 pigs from a Duroc × Pietrain resource population were genotyped using 131 genetic markers (microsatellites and SNP spread over the 18 pig autosomes. Phenotypic information for 26 carcass composition and meat quality traits was available for all F2 animals. Linkage analysis was performed in a two-step procedure using a maximum likelihood approach implemented in the QxPak program. Results A number of interacting QTL was observed for different traits, leading to the identification of a variety of networks among chromosomal regions throughout the porcine genome. We distinguished 17 epistatic QTL pairs for carcass composition and 39 for meat quality traits. These interacting QTL pairs explained up to 8% of the phenotypic variance. Conclusions Our findings demonstrate the significance of epistasis in pigs. We have revealed evidence for epistatic relationships between different chromosomal regions, confirmed known QTL loci and connected regions reported in other studies. Considering interactions between loci allowed us to identify several novel QTL and trait-specific relationships of loci within and across chromosomes.

  9. Epistatic interaction between BANK1 and BLK in rheumatoid arthritis: results from a large trans-ethnic meta-analysis.

    Directory of Open Access Journals (Sweden)

    Emmanuelle Génin

    Full Text Available BACKGROUND: BANK1 and BLK belong to the pleiotropic autoimmune genes; recently, epistasis between BANK1 and BLK was detected in systemic lupus erythematosus. Although BLK has been reproducibly identified as a risk factor in rheumatoid arthritis (RA, reports are conflicting about the contribution of BANK1 to RA susceptibility. To ascertain the real impact of BANK1 on RA genetic susceptibility, we performed a large meta-analysis including our original data and tested for an epistatic interaction between BANK1 and BLK in RA susceptibility. PATIENTS AND METHODS: We investigated data for 1,915 RA patients and 1,915 ethnically matched healthy controls genotyped for BANK1 rs10516487 and rs3733197 and BLK rs13277113. The association of each SNP and RA was tested by logistic regression. Multivariate analysis was then used with an interaction term to test for an epistatic interaction between the SNPs in the 2 genes. RESULTS: None of the SNPs tested individually was significantly associated with RA in the genotyped samples. However, we detected an epistatic interaction between BANK1 rs3733197 and BLK rs13277113 (P(interaction  = 0.037. In individuals carrying the BLK rs13277113 GG genotype, presence of the BANK1 rs3733197 G allele increased the risk of RA (odds ratio 1.21 [95% confidence interval 1.04-1.41], P = 0.015. Combining our results with those of all other studies in a large trans-ethnic meta-analysis revealed an association of the BANK1 rs3733197 G allele and RA (1.11 [1.02-1.21], P = 0.012. CONCLUSION: This study confirms BANK1 as an RA susceptibility gene and for the first time provides evidence for epistasis between BANK1 and BLK in RA. Our results illustrate the concept of pleiotropic epistatic interaction, suggesting that BANK1 and BLK might play a role in RA pathogenesis.

  10. The effect of genetic drift on the variance/covariance components generated by multilocus additive x additive epistatic systems.

    Science.gov (United States)

    López-Fanjul, Carlos; Fernández, Almudena; Toro, Miguel A

    2006-03-21

    The effect of population bottlenecks on the components of the genetic variance/covariance generated by n neutral independent additive x additive loci has been studied theoretically. In its simplest version, this situation can be modelled by specifying the allele frequencies and homozygous effects at each locus, and an additional factor measuring the strength of the n-th order epistatic interaction. The variance/covariance components in an infinitely large panmictic population (ancestral components) were compared with their expected values at equilibrium over replicates randomly derived from the base population, after t bottlenecks of size N (derived components). Formulae were obtained giving the derived components (and the between-line variance) as functions of the ancestral ones (alternatively, in terms of allele frequencies and effects) and the corresponding inbreeding coefficient F(t). The n-th order derived component of the genetic variance/covariance is continuously eroded by inbreeding, but the remaining components may increase initially until a critical F(t) value is attained, which is inversely related to the order of the pertinent component, and subsequently decline to zero. These changes can be assigned to the between-line variances/covariances of gene substitution and epistatic effects induced by drift. Numerical examples indicate that: (1) the derived additive variance/covariance component will generally exceed its ancestral value unless epistasis is weak; (2) the derived epistatic variance/covariance components will generally exceed their ancestral values unless allele frequencies are extreme; (3) for systems showing equal ancestral additive and total non-additive variance/covariance components, those including a smaller number of epistatic loci may generate a larger excess in additive variance/covariance after bottlenecks than others involving a larger number of loci, provided that F(t) is low. Our results indicate that it is unlikely that the rate of

  11. Variants of the Coagulation and Inflammation Genes Are Replicably Associated with Myocardial Infarction and Epistatically Interact in Russians.

    Directory of Open Access Journals (Sweden)

    Rosa M Barsova

    Full Text Available In spite of progress in cardiovascular genetics, data on genetic background of myocardial infarction are still limited and contradictory. This applies as well to the genes involved in inflammation and coagulation processes, which play a crucial role in the disease etiopathogenesis.In this study we found genetic variants of TGFB1, FGB and CRP genes associated with myocardial infarction in discovery and replication groups of Russian descent from the Moscow region and the Republic of Bashkortostan (325/185 and 220/197 samples, correspondingly. We also found and replicated biallelic combinations of TGFB1 with FGB, TGFB1 with CRP and IFNG with PTGS1 genetic variants associated with myocardial infarction providing a detectable cumulative effect. We proposed an original two-component procedure for the analysis of nonlinear (epistatic interactions between the genes in biallelic combinations and confirmed the epistasis hypothesis for the set of alleles of IFNG with PTGS. The procedure is applicable to any pair of logical variables, e.g. carriage of two sets of alleles. The composite model that included three single gene variants and the epistatic pair has AUC of 0.66 both in discovery and replication groups.The genetic impact of TGFB1, FGB, CRP, IFNG, and PTGS and/or their biallelic combinations on myocardial infarction was found and replicated in Russians. Evidence of epistatic interactions between IFNG with PTGS genes was obtained both in discovery and replication groups.

  12. Variants of the Coagulation and Inflammation Genes Are Replicably Associated with Myocardial Infarction and Epistatically Interact in Russians.

    Science.gov (United States)

    Barsova, Rosa M; Lvovs, Dmitrijs; Titov, Boris V; Matveeva, Natalia A; Shakhnovich, Roman M; Sukhinina, Tatiana S; Kukava, Nino G; Ruda, Mikhail Ya; Karamova, Irina M; Nasibullin, Timur R; Mustafina, Olga E; Osmak, German J; Tsareva, Ekaterina Yu; Kulakova, Olga G; Favorov, Alexander V; Favorova, Olga O

    2015-01-01

    In spite of progress in cardiovascular genetics, data on genetic background of myocardial infarction are still limited and contradictory. This applies as well to the genes involved in inflammation and coagulation processes, which play a crucial role in the disease etiopathogenesis. In this study we found genetic variants of TGFB1, FGB and CRP genes associated with myocardial infarction in discovery and replication groups of Russian descent from the Moscow region and the Republic of Bashkortostan (325/185 and 220/197 samples, correspondingly). We also found and replicated biallelic combinations of TGFB1 with FGB, TGFB1 with CRP and IFNG with PTGS1 genetic variants associated with myocardial infarction providing a detectable cumulative effect. We proposed an original two-component procedure for the analysis of nonlinear (epistatic) interactions between the genes in biallelic combinations and confirmed the epistasis hypothesis for the set of alleles of IFNG with PTGS. The procedure is applicable to any pair of logical variables, e.g. carriage of two sets of alleles. The composite model that included three single gene variants and the epistatic pair has AUC of 0.66 both in discovery and replication groups. The genetic impact of TGFB1, FGB, CRP, IFNG, and PTGS and/or their biallelic combinations on myocardial infarction was found and replicated in Russians. Evidence of epistatic interactions between IFNG with PTGS genes was obtained both in discovery and replication groups.

  13. Rehabilitation of pure alexia

    DEFF Research Database (Denmark)

    Starrfelt, Randi; Ólafsdóttir, Rannveig Rós; Arendt, Ida-Marie

    2013-01-01

    Acquired reading problems caused by brain injury (alexia) are common, either as a part of an aphasic syndrome, or as an isolated symptom. In pure alexia, reading is impaired while other language functions, including writing, are spared. Being in many ways a simple syndrome, one would think...... that pure alexia was an easy target for rehabilitation efforts. We review the literature on rehabilitation of pure alexia from 1990 to the present, and find that patients differ widely on several dimensions like alexia severity, and associated deficits. Many patients reported to have pure alexia...... in the reviewed studies, have associated deficits like agraphia or aphasia and thus do not strictly conform to the diagnosis. Few studies report clear and generalisable effects of training, none report control data, and in many cases the reported findings are not supported by statistics. We can, however...

  14. Rehabilitation of pure alexia

    DEFF Research Database (Denmark)

    Starrfelt, Randi; Ólafsdóttir, Rannveig Rós; Arendt, Ida-Marie

    2013-01-01

    that pure alexia was an easy target for rehabilitation efforts. We review the literature on rehabilitation of pure alexia from 1990 to the present, and find that patients differ widely on several dimensions like alexia severity, and associated deficits. Many patients reported to have pure alexia......Acquired reading problems caused by brain injury (alexia) are common, either as a part of an aphasic syndrome, or as an isolated symptom. In pure alexia, reading is impaired while other language functions, including writing, are spared. Being in many ways a simple syndrome, one would think...... in the reviewed studies, have associated deficits like agraphia or aphasia and thus do not strictly conform to the diagnosis. Few studies report clear and generalisable effects of training, none report control data, and in many cases the reported findings are not supported by statistics. We can, however...

  15. Analysis of digenic epistatic effects and QE interaction effects QTL controlling grain weight in rice

    Institute of Scientific and Technical Information of China (English)

    高用明; 朱军; 宋佑胜; 何慈信; 石春海; 邢永忠

    2004-01-01

    Immortalized F2 population of rice (Oryza sativa L.) was developed by randomly mating F1 among recombinant inbred (RI) lines derived from (Zhenshan 97B×Minghui 63),which allowed replications within and across environments.QTL (quantitative trait loci) mapping analysis on kilo-grain weight of immortalized F2 population was performed by using newly developed software for QTL mapping,QTL Mapper 2.0. Eleven distinctly digenic epistatic loci included a total of 15 QTL were located on eight chromosomes.QTL main effects of additive,dominance,and additive×additive,additive×dominance,and dominance×dominance interactions were estimated.Interaction effects between QTL main effects and environments (QE) were predicted.Less than 40% of single effects,most of which were additive effects,for identified QTL were significant at 5% level.The directional difference for QTL main effects suggested that these QTL were distributed in parents in the repulsion phase.This should make it feasible to improve kilo-grain weight of both parents by selecting appropriate new recombinants. Only few of the QE interaction effects were significant.Application prospect for QTL mapping achievements in genetic breeding was discussed.

  16. On the Mapping of Epistatic Genetic Interactions in Natural Isolates: Combining Classical Genetics and Genomics.

    Science.gov (United States)

    Hou, Jing; Schacherer, Joseph

    2016-01-01

    Genetic variation within species is the substrate of evolution. Epistasis, which designates the non-additive interaction between loci affecting a specific phenotype, could be one of the possible outcomes of genetic diversity. Dissecting the basis of such interactions is of current interest in different fields of biology, from exploring the gene regulatory network, to complex disease genetics, to the onset of reproductive isolation and speciation. We present here a general workflow to identify epistatic interactions between independently evolving loci in natural populations of the yeast Saccharomyces cerevisiae. The idea is to exploit the genetic diversity present in the species by evaluating a large number of crosses and analyzing the phenotypic distribution in the offspring. For a cross of interest, both parental strains would have a similar phenotypic value, whereas the resulting offspring would have a bimodal distribution of the phenotype, possibly indicating the presence of epistasis. Classical segregation analysis of the tetrads uncovers the penetrance and complexity of the interaction. In addition, this segregation could serve as the guidelines for choosing appropriate mapping strategies to narrow down the genomic regions involved. Depending on the segregation patterns observed, we propose different mapping strategies based on bulk segregant analysis or consecutive backcrosses followed by high-throughput genome sequencing. Our method is generally applicable to all systems with a haplodiplobiontic life cycle and allows high resolution mapping of interacting loci that govern various DNA polymorphisms from single nucleotide mutations to large-scale structural variations.

  17. Genetic dissection of heterosis using epistatic association mapping in a partial NCII mating design.

    Science.gov (United States)

    Wen, Jia; Zhao, Xinwang; Wu, Guorong; Xiang, Dan; Liu, Qing; Bu, Su-Hong; Yi, Can; Song, Qijian; Dunwell, Jim M; Tu, Jinxing; Zhang, Tianzhen; Zhang, Yuan-Ming

    2015-12-17

    Heterosis refers to the phenomenon in which an F1 hybrid exhibits enhanced growth or agronomic performance. However, previous theoretical studies on heterosis have been based on bi-parental segregating populations instead of F1 hybrids. To understand the genetic basis of heterosis, here we used a subset of F1 hybrids, named a partial North Carolina II design, to perform association mapping for dependent variables: original trait value, general combining ability (GCA), specific combining ability (SCA) and mid-parental heterosis (MPH). Our models jointly fitted all the additive, dominance and epistatic effects. The analyses resulted in several important findings: 1) Main components are additive and additive-by-additive effects for GCA and dominance-related effects for SCA and MPH, and additive-by-dominant effect for MPH was partly identified as additive effect; 2) the ranking of factors affecting heterosis was dominance > dominance-by-dominance > over-dominance > complete dominance; and 3) increasing the proportion of F1 hybrids in the population could significantly increase the power to detect dominance-related effects, and slightly reduce the power to detect additive and additive-by-additive effects. Analyses of cotton and rapeseed datasets showed that more additive-by-additive QTL were detected from GCA than from trait phenotype, and fewer QTL were from MPH than from other dependent variables.

  18. Co-infection Weakens Selection Against Epistatic Mutations in RNA Viruses

    Science.gov (United States)

    Froissart, Rémy; Wilke, Claus O.; Montville, Rebecca; Remold, Susanna K.; Chao, Lin; Turner, Paul E.

    2004-01-01

    Co-infection may be beneficial in large populations of viruses because it permits sexual exchange between viruses that is useful in combating the mutational load. This advantage of sex should be especially substantial when mutations interact through negative epistasis. In contrast, co-infection may be detrimental because it allows virus complementation, where inferior genotypes profit from superior virus products available within the cell. The RNA bacteriophage φ6 features a genome divided into three segments. Co-infection by multiple φ6 genotypes produces hybrids containing reassorted mixtures of the parental segments. We imposed a mutational load on φ6 populations by mixing the wild-type virus with three single mutants, each harboring a deleterious mutation on a different one of the three virus segments. We then contrasted the speed at which these epistatic mutations were removed from virus populations in the presence and absence of co-infection. If sex is a stronger force, we predicted that the load should be purged faster in the presence of co-infection. In contrast, if complementation is more important we hypothesized that mutations would be eliminated faster in the absence of co-infection. We found that the load was purged faster in the absence of co-infection, which suggests that the disadvantages of complementation can outweigh the benefits of sex, even in the presence of negative epistasis. We discuss our results in light of virus disease management and the evolutionary advantage of haploidy in biological populations. PMID:15454523

  19. Deleterious epistatic interactions between electron transport system protein-coding loci in the copepod Tigriopus californicus.

    Science.gov (United States)

    Willett, Christopher S

    2006-07-01

    The nature of epistatic interactions between genes encoding interacting proteins in hybrid organisms can have important implications for the evolution of postzygotic reproductive isolation and speciation. At this point very little is known about the fitness differences caused by specific closely interacting but evolutionarily divergent proteins in hybrids between populations or species. The intertidal copepod Tigriopus californicus provides an excellent model in which to study such interactions because the species range includes numerous genetically divergent populations that are still capable of being crossed in the laboratory. Here, the effect on fitness due to the interactions of three complex III proteins of the electron transport system in F2 hybrid copepods resulting from crosses of a pair of divergent populations is examined. Significant deviations from Mendelian inheritance are observed for each of the three genes in F2 hybrid adults but not in nauplii (larvae). The two-way interactions between these genes also have a significant impact upon the viability of these hybrid copepods. Dominance appears to play an important role in mediating the interactions between these loci as deviations are caused by heterozygote/homozygote deleterious interactions. These results suggest that the fitness consequences of the interactions of these three complex III-associated genes could influence reproductive isolation in this system.

  20. Environmental influences on epistatic interactions: viabilities of cytochrome c genotypes in interpopulation crosses.

    Science.gov (United States)

    Willett, Christopher S; Burton, Ronald S

    2003-10-01

    The genetic incompatibilities that underlie F2 hybrid breakdown and reproductive isolation between allopatric populations may be susceptible to environmental interactions. Here we show that epistatic interactions between cytochrome c (CYC) alleles and mitochondrial DNA (mtDNA) variation are dramatically influenced by environmental temperature in interpopulation hybrids of the copepod Tigriopus californicus. CYC is a nuclear-encoded gene that functionally interacts with electron transport system (ETS) complexes composed in part of mtDNA-encoded proteins. Previous studies have provided evidence for functional coadaptation between CYC and ETS complex IV (cytochrome c oxidase) and for cytoplasmic effects on the fitness of CYC genotype in copepod hybrids. In this study, selection on CYC genotype is shown to continue into advanced generation hybrids (F2-F8) increasing the likelihood that CYC itself is involved in the interaction (and not a linked factor). Relative viabilities varied markedly between copepods raised in two different temperature/light regimes. These results suggest that both intrinsic coadaptation and extrinsic selection will influence the outcome of natural hybridizations between populations. Furthermore, the results indicate that the fitness of particular hybrid genotypes depends on additional non-mtDNA encoded genes that interact with CYC.

  1. Quantitative Trait Loci and Epistatic Analysis of Seed Anoxia Germinability in Rice (Oryza sativa)

    Institute of Scientific and Technical Information of China (English)

    LI Xi-ming; JIANG Ling; ZHAI Hu-qu; HOU Ming-yu; WAN Jian-min; WANG Chun-ming; MA Liang-yong; WAN Jian-min; ZHUANG Jie-yun; LIU Guang-jie; YANG Chang-deng

    2004-01-01

    Anoxia germinability (AG) of 35 rice varieties was evaluated under different temperature and water submergence conditions.The shoot (including coleoptile) length of seedlings germinating under 30℃, 0.2 m water submergence for 5 days could be used as an optimal criterion for the AG evaluation of all the varieties. Differences were observed among the AGs of 359 varieties from different regions and subspecies with the optimized method. Moreover, 81 recombinant inbred lines derived from a cross of Kinmaze(japonica)/DV85 (indica) were used to detect quantitative trait loci (QTLs) conferring AG. A total of five QTLs for AG in the recombinant inbred population were detected on chromosomes 1, 2, 5 and 7, respectively. Phenotypic variations explained by each QTL ranged from 10.5% to 19.6%. Based on the directions of the additive effects, the alleles at three loci qAG-1, qAG-2 and qAG-7from Kinmaze increased AG, while alleles at loci qAG-5a and qAG-5b from DV85 increased AG. Meanwhile, three pairs of epistatic loci were found to be located on chromosomes 2, 3, 5 and 11 with significant effects ranging from 16.7% to 48.8%, and the highest one 48.78%, was detected between C563-X182 on chromosome 3 and R830-X208 on chromosome 5.

  2. Distinct configurations of protein complexes and biochemical pathways revealed by epistatic interaction network motifs

    LENUS (Irish Health Repository)

    Casey, Fergal

    2011-08-22

    Abstract Background Gene and protein interactions are commonly represented as networks, with the genes or proteins comprising the nodes and the relationship between them as edges. Motifs, or small local configurations of edges and nodes that arise repeatedly, can be used to simplify the interpretation of networks. Results We examined triplet motifs in a network of quantitative epistatic genetic relationships, and found a non-random distribution of particular motif classes. Individual motif classes were found to be associated with different functional properties, suggestive of an underlying biological significance. These associations were apparent not only for motif classes, but for individual positions within the motifs. As expected, NNN (all negative) motifs were strongly associated with previously reported genetic (i.e. synthetic lethal) interactions, while PPP (all positive) motifs were associated with protein complexes. The two other motif classes (NNP: a positive interaction spanned by two negative interactions, and NPP: a negative spanned by two positives) showed very distinct functional associations, with physical interactions dominating for the former but alternative enrichments, typical of biochemical pathways, dominating for the latter. Conclusion We present a model showing how NNP motifs can be used to recognize supportive relationships between protein complexes, while NPP motifs often identify opposing or regulatory behaviour between a gene and an associated pathway. The ability to use motifs to point toward underlying biological organizational themes is likely to be increasingly important as more extensive epistasis mapping projects in higher organisms begin.

  3. Pure-tone Audiometer

    Science.gov (United States)

    Kapul, A. A.; Zubova, E. I.; Torgaev, S. N.; Drobchik, V. V.

    2017-08-01

    The research focuses on a pure-tone audiometer designing. The relevance of the study is proved by high incidence of an auditory analyser in older people and children. At first, the article provides information about subjective and objective audiometry methods. Secondly, we offer block-diagram and basic-circuit arrangement of device. We decided to base on STM32F407VG microcontroller and use digital pot in the function of attenuator. Third, we implemented microcontroller and PC connection. C programming language is used for microcontroller’s program and PC’s interface. Fourthly, we created the pure-tone audiometer prototype. In the future, we will implement the objective method ASSR in addition to pure-tone audiometry.

  4. Epistatic interactions among herbicide resistances in Arabidopsis thaliana: the fitness cost of multiresistance.

    Science.gov (United States)

    Roux, Fabrice; Camilleri, Christine; Giancola, Sandra; Brunel, Dominique; Reboud, Xavier

    2005-11-01

    The type of interactions among deleterious mutations is considered to be crucial in numerous areas of evolutionary biology, including the evolution of sex and recombination, the evolution of ploidy, the evolution of selfing, and the conservation of small populations. Because the herbicide resistance genes could be viewed as slightly deleterious mutations in the absence of the pesticide selection pressure, the epistatic interactions among three herbicide resistance genes (acetolactate synthase CSR, cellulose synthase IXR1, and auxin-induced AXR1 target genes) were estimated in both the homozygous and the heterozygous states, giving 27 genotype combinations in the model plant Arabidopsis thaliana. By analyzing eight quantitative traits in a segregating population for the three herbicide resistances in the absence of herbicide, we found that most interactions in both the homozygous and the heterozygous states were best explained by multiplicative effects (each additional resistance gene causes a comparable reduction in fitness) rather than by synergistic effects (each additional resistance gene causes a disproportionate fitness reduction). Dominance coefficients of the herbicide resistance cost ranged from partial dominance to underdominance, with a mean dominance coefficient of 0.07. It was suggested that the csr1-1, ixr1-2, and axr1-3 resistance alleles are nearly fully recessive for the fitness cost. More interestingly, the dominance of a specific resistance gene in the absence of herbicide varied according to, first, the presence of the other resistance genes and, second, the quantitative trait analyzed. These results and their implications for multiresistance evolution are discussed in relation to the maintenance of polymorphism at resistance loci in a heterogeneous environment.

  5. Epistatic Interactions between apolipoprotein E and hemoglobin S Genes in regulation of malaria parasitemia.

    Directory of Open Access Journals (Sweden)

    Virginie Rougeron

    Full Text Available Apolipoprotein E is a monomeric protein secreted by the liver and responsible for the transport of plasma cholesterol and triglycerides. The APOE gene encodes 3 isoforms Ɛ4, Ɛ3 and Ɛ2 with APOE Ɛ4 associated with higher plasma cholesterol levels and increased pathogenesis in several infectious diseases (HIV, HSV. Given that cholesterol is an important nutrient for malaria parasites, we examined whether APOE Ɛ4 was a risk factor for Plasmodium infection, in terms of prevalence or parasite density. A cross sectional survey was performed in 508 children aged 1 to 12 years in Gabon during the wet season. Children were screened for Plasmodium spp. infection, APOE and hemoglobin S (HbS polymorphisms. Median parasite densities were significantly higher in APOE Ɛ4 children for Plasmodium spp. densities compared to non-APOE Ɛ4 children. When stratified for HbS polymorphisms, median Plasmodium spp. densities were significantly higher in HbAA children if they had an APOE Ɛ4 allele compared to those without an APOE Ɛ4 allele. When considering non-APOE Ɛ4 children, there was no quantitative reduction of Plasmodium spp. parasite densities for HbAS compared to HbAA phenotypes. No influence of APOE Ɛ4 on successful Plasmodium liver cell invasion was detected by multiplicity of infection. These results show that the APOE Ɛ4 allele is associated with higher median malaria parasite densities in children likely due to the importance of cholesterol availability to parasite growth and replication. Results suggest an epistatic interaction between APOE and HbS genes such that sickle cell trait only had an effect on parasite density in APOE Ɛ4 children. This suggests a linked pathway of regulation of parasite density involving expression of these genes. These findings have significance for understanding host determinants of regulation of malaria parasite density, the design of clinical trials as well as studies of co-infection with Plasmodium and other

  6. A Bayesian partition method for detecting pleiotropic and epistatic eQTL modules.

    Directory of Open Access Journals (Sweden)

    Wei Zhang

    2010-01-01

    Full Text Available Studies of the relationship between DNA variation and gene expression variation, often referred to as "expression quantitative trait loci (eQTL mapping", have been conducted in many species and resulted in many significant findings. Because of the large number of genes and genetic markers in such analyses, it is extremely challenging to discover how a small number of eQTLs interact with each other to affect mRNA expression levels for a set of co-regulated genes. We present a Bayesian method to facilitate the task, in which co-expressed genes mapped to a common set of markers are treated as a module characterized by latent indicator variables. A Markov chain Monte Carlo algorithm is designed to search simultaneously for the module genes and their linked markers. We show by simulations that this method is more powerful for detecting true eQTLs and their target genes than traditional QTL mapping methods. We applied the procedure to a data set consisting of gene expression and genotypes for 112 segregants of S. cerevisiae. Our method identified modules containing genes mapped to previously reported eQTL hot spots, and dissected these large eQTL hot spots into several modules corresponding to possibly different biological functions or primary and secondary responses to regulatory perturbations. In addition, we identified nine modules associated with pairs of eQTLs, of which two have been previously reported. We demonstrated that one of the novel modules containing many daughter-cell expressed genes is regulated by AMN1 and BPH1. In conclusion, the Bayesian partition method which simultaneously considers all traits and all markers is more powerful for detecting both pleiotropic and epistatic effects based on both simulated and empirical data.

  7. Nasal bone shape is under complex epistatic genetic control in mouse interspecific recombinant congenic strains.

    Directory of Open Access Journals (Sweden)

    Gaétan Burgio

    Full Text Available BACKGROUND: Genetic determinism of cranial morphology in the mouse is still largely unknown, despite the localization of putative QTLs and the identification of genes associated with Mendelian skull malformations. To approach the dissection of this multigenic control, we have used a set of interspecific recombinant congenic strains (IRCS produced between C57BL/6 and mice of the distant species Mus spretus (SEG/Pas. Each strain has inherited 1.3% of its genome from SEG/Pas under the form of few, small-sized, chromosomal segments. RESULTS: The shape of the nasal bone was studied using outline analysis combined with Fourier descriptors, and differential features were identified between IRCS BcG-66H and C57BL/6. An F2 cross between BcG-66H and C57BL/6 revealed that, out of the three SEG/Pas-derived chromosomal regions present in BcG-66H, two were involved. Segments on chromosomes 1 (∼32 Mb and 18 (∼13 Mb showed additive effect on nasal bone shape. The three chromosomal regions present in BcG-66H were isolated in congenic strains to study their individual effect. Epistatic interactions were assessed in bicongenic strains. CONCLUSIONS: Our results show that, besides a strong individual effect, the QTL on chromosome 1 interacts with genes on chromosomes 13 and 18. This study demonstrates that nasal bone shape is under complex genetic control but can be efficiently dissected in the mouse using appropriate genetic tools and shape descriptors.

  8. Dahlbeck and Pure Ontology

    Science.gov (United States)

    Mackenzie, Jim

    2016-01-01

    This article responds to Johan Dahlbeck's "Towards a pure ontology: Children's bodies and morality" ["Educational Philosophy and Theory," vol. 46 (1), 2014, pp. 8-23 (EJ1026561)]. His arguments from Nietzsche and Spinoza do not carry the weight he supposes, and the conclusions he draws from them about pedagogy would be…

  9. Dahlbeck and Pure Ontology

    Science.gov (United States)

    Mackenzie, Jim

    2016-01-01

    This article responds to Johan Dahlbeck's "Towards a pure ontology: Children's bodies and morality" ["Educational Philosophy and Theory," vol. 46 (1), 2014, pp. 8-23 (EJ1026561)]. His arguments from Nietzsche and Spinoza do not carry the weight he supposes, and the conclusions he draws from them about pedagogy would be…

  10. Uncovering the genetic architecture of Colletotrichum lindemuthianum resistance through QTL mapping and epistatic interaction analysis in common bean

    Directory of Open Access Journals (Sweden)

    Ana M. eGonzález

    2015-03-01

    Full Text Available Colletotrichum lindemuthianum is a hemibiotrophic fungal pathogen that causes anthracnose disease in common bean. Despite the genetics of anthracnose resistance has been studied for a long time, few quantitative trait loci (QTLs studies have been conducted on this species. The present work examines the genetic basis of quantitative resistance to races 23 and 1545 of C. lindemuthianum in different organs (stem, leaf and petiole. A population of 185 recombinant inbred lines (RIL derived from the cross PMB0225 x PHA1037 was evaluated for anthracnose resistance under natural and artificial photoperiod growth conditions. Using multi-environment QTL mapping approach, 10 and 16 main effect QTLs were identified for resistance to anthracnose races 23 and 1545, respectively. The homologous genomic regions corresponding to 17 of the 26 main effect QTLs detected were positive for the presence of resistance-associated gene cluster encoding nucleotide-binding and leucine-rich repeat (NL proteins. Among them, it is worth noting that the main effect QTLs detected on linkage group 05 for resistance to race 1545 in stem, petiole and leaf were located within a 1.2 Mb region. The NL gene Phvul.005G117900 is located in this region, which can be considered an important candidate gene for the non-organ-specific QTL identified here. Furthermore, a total of 39 epistatic QTL (E-QTLs (21 for resistance to race 23 and 18 for resistance to race 1545 involved in 20 epistatic interactions (eleven and nine interactions for resistance to races 23 and 1545, respectively were identified. None of the main and epistatic QTLs detected displayed significant environment interaction effects. The present research provides essential information not only for the better understanding of the plant-pathogen interaction but also for the application of genomic assisted breeding for anthracnose resistance improvement in common bean through application of marker-assisted selection (MAS.

  11. Uncovering the genetic architecture of Colletotrichum lindemuthianum resistance through QTL mapping and epistatic interaction analysis in common bean.

    Science.gov (United States)

    González, Ana M; Yuste-Lisbona, Fernando J; Rodiño, A Paula; De Ron, Antonio M; Capel, Carmen; García-Alcázar, Manuel; Lozano, Rafael; Santalla, Marta

    2015-01-01

    Colletotrichum lindemuthianum is a hemibiotrophic fungal pathogen that causes anthracnose disease in common bean. Despite the genetics of anthracnose resistance has been studied for a long time, few quantitative trait loci (QTLs) studies have been conducted on this species. The present work examines the genetic basis of quantitative resistance to races 23 and 1545 of C. lindemuthianum in different organs (stem, leaf and petiole). A population of 185 recombinant inbred lines (RIL) derived from the cross PMB0225 × PHA1037 was evaluated for anthracnose resistance under natural and artificial photoperiod growth conditions. Using multi-environment QTL mapping approach, 10 and 16 main effect QTLs were identified for resistance to anthracnose races 23 and 1545, respectively. The homologous genomic regions corresponding to 17 of the 26 main effect QTLs detected were positive for the presence of resistance-associated gene cluster encoding nucleotide-binding and leucine-rich repeat (NL) proteins. Among them, it is worth noting that the main effect QTLs detected on linkage group 05 for resistance to race 1545 in stem, petiole and leaf were located within a 1.2 Mb region. The NL gene Phvul.005G117900 is located in this region, which can be considered an important candidate gene for the non-organ-specific QTL identified here. Furthermore, a total of 39 epistatic QTL (E-QTLs) (21 for resistance to race 23 and 18 for resistance to race 1545) involved in 20 epistatic interactions (eleven and nine interactions for resistance to races 23 and 1545, respectively) were identified. None of the main and epistatic QTLs detected displayed significant environment interaction effects. The present research provides essential information not only for the better understanding of the plant-pathogen interaction but also for the application of genomic assisted breeding for anthracnose resistance improvement in common bean through application of marker-assisted selection (MAS).

  12. Purely Functional Structured Programming

    OpenAIRE

    Obua, Steven

    2010-01-01

    The idea of functional programming has played a big role in shaping today's landscape of mainstream programming languages. Another concept that dominates the current programming style is Dijkstra's structured programming. Both concepts have been successfully married, for example in the programming language Scala. This paper proposes how the same can be achieved for structured programming and PURELY functional programming via the notion of LINEAR SCOPE. One advantage of this proposal is that m...

  13. Purely Cortical Anaplastic Ependymoma

    Directory of Open Access Journals (Sweden)

    Flávio Ramalho Romero

    2012-01-01

    Full Text Available Ependymomas are glial tumors derived from ependymal cells lining the ventricles and the central canal of the spinal cord. It may occur outside the ventricular structures, representing the extraventicular form, or without any relationship of ventricular system, called ectopic ependymona. Less than fifteen cases of ectopic ependymomas were reported and less than five were anaplastic. We report a rare case of pure cortical ectopic anaplastic ependymoma.

  14. Purely tetrahedral quadruple systems

    Institute of Scientific and Technical Information of China (English)

    JI Lijun

    2006-01-01

    An oriented tetrahedron is a set of four vertices and four cyclic triples with the property that any ordered pair of vertices is contained in exactly one of the cyclic triples. A tetrahedral quadruple system of order n (briefly TQS(n)) is a pair (X,B), where X is an nelement set and B is a set of oriented tetrahedra such that every cyclic triple on X is contained in a unique member of B. A TQS(n) (X, B) is pure if there do not exist two oriented tetrahedra with the same vertex set. In this paper, we show that there is a pure TQS(n) if and only if n≡2,4(mod 6),n>4,or n≡1,5(mod 12). One corollary is that there is a simple two-fold quadruple system of order n if and only if n≡2,4 (mod 6) and n>4, or n≡1, 5 (mod 12).Another corollary is that there is an overlarge set of pure Mendelsohn triple systems of order n for n≡1,3(mod 6),n>3, or n≡0,4 (mod 12).

  15. Analysis of epistatic interactions and fitness landscapes using a new geometric approach

    Directory of Open Access Journals (Sweden)

    Elena Santiago F

    2007-04-01

    Full Text Available Abstract Background Understanding interactions between mutations and how they affect fitness is a central problem in evolutionary biology that bears on such fundamental issues as the structure of fitness landscapes and the evolution of sex. To date, analyses of fitness landscapes have focused either on the overall directional curvature of the fitness landscape or on the distribution of pairwise interactions. In this paper, we propose and employ a new mathematical approach that allows a more complete description of multi-way interactions and provides new insights into the structure of fitness landscapes. Results We apply the mathematical theory of gene interactions developed by Beerenwinkel et al. to a fitness landscape for Escherichia coli obtained by Elena and Lenski. The genotypes were constructed by introducing nine mutations into a wild-type strain and constructing a restricted set of 27 double mutants. Despite the absence of mutants higher than second order, our analysis of this genotypic space points to previously unappreciated gene interactions, in addition to the standard pairwise epistasis. Our analysis confirms Elena and Lenski's inference that the fitness landscape is complex, so that an overall measure of curvature obscures a diversity of interaction types. We also demonstrate that some mutations contribute disproportionately to this complexity. In particular, some mutations are systematically better than others at mixing with other mutations. We also find a strong correlation between epistasis and the average fitness loss caused by deleterious mutations. In particular, the epistatic deviations from multiplicative expectations tend toward more positive values in the context of more deleterious mutations, emphasizing that pairwise epistasis is a local property of the fitness landscape. Finally, we determine the geometry of the fitness landscape, which reflects many of these biologically interesting features. Conclusion A full

  16. Lack of evidence for intermolecular epistatic interactions between adiponectin and resistin gene polymorphisms in Malaysian male subjects

    Directory of Open Access Journals (Sweden)

    Cia-Hin Lau

    2012-01-01

    Full Text Available Epistasis (gene-gene interaction is a ubiquitous component of the genetic architecture of complex traits such as susceptibility to common human diseases. Given the strong negative correlation between circulating adiponectin and resistin levels, the potential intermolecular epistatic interactions between ADIPOQ (SNP+45T > G, SNP+276G > T, SNP+639T > C and SNP+1212A > G and RETN (SNP-420C > G and SNP+299G > A gene polymorphisms in the genetic risk underlying type 2 diabetes (T2DM and metabolic syndrome (MS were assessed. The potential mutual influence of the ADIPOQ and RETN genes on their adipokine levels was also examined. The rare homozygous genotype (risk alleles of SNP-420C > G at the RETN locus tended to be co-inherited together with the common homozygous genotypes (protective alleles of SNP+639T > C and SNP+1212A > G at the ADIPOQ locus. Despite the close structural relationship between the ADIPOQ and RETN genes, there was no evidence of an intermolecular epistatic interaction between these genes. There was also no reciprocal effect of the ADIPOQ and RETN genes on their adipokine levels, i.e., ADIPOQ did not affect resistin levels nor did RETN affect adiponectin levels. The possible influence of the ADIPOQ gene on RETN expression warrants further investigation.

  17. A bi-dimensional genome scan for prolificacy traits in pigs shows the existence of multiple epistatic QTL

    Directory of Open Access Journals (Sweden)

    Bidanel Jean P

    2009-12-01

    Full Text Available Abstract Background Prolificacy is the most important trait influencing the reproductive efficiency of pig production systems. The low heritability and sex-limited expression of prolificacy have hindered to some extent the improvement of this trait through artificial selection. Moreover, the relative contributions of additive, dominant and epistatic QTL to the genetic variance of pig prolificacy remain to be defined. In this work, we have undertaken this issue by performing one-dimensional and bi-dimensional genome scans for number of piglets born alive (NBA and total number of piglets born (TNB in a three generation Iberian by Meishan F2 intercross. Results The one-dimensional genome scan for NBA and TNB revealed the existence of two genome-wide highly significant QTL located on SSC13 (P SSC17 (P P P P P Conclusions The complex inheritance of prolificacy traits in pigs has been evidenced by identifying multiple additive (SSC13 and SSC17, dominant and epistatic QTL in an Iberian × Meishan F2 intercross. Our results demonstrate that a significant fraction of the phenotypic variance of swine prolificacy traits can be attributed to first-order gene-by-gene interactions emphasizing that the phenotypic effects of alleles might be strongly modulated by the genetic background where they segregate.

  18. PURE DRIVE GT

    Institute of Scientific and Technical Information of China (English)

    2009-01-01

    在2004年奥林匹克赛事中,中国的李婷,孙甜甜取得了中国网球第一个金牌一女子双打冠军。忘记不了当时李婷挥动着她的BABOLAT(百保力)网拍Pure Drive Zylon 360°激动地拥抱着孙甜甜吵闹着,幸福地哭着的情景。

  19. Pure de Sitter Supergravity

    CERN Document Server

    Bergshoeff, Eric A; Kallosh, Renata; Van Proeyen, Antoine

    2015-01-01

    Using superconformal methods we derive an explicit de Sitter supergravity action invariant under spontaneously broken local ${\\cal N}=1$ supersymmetry. The supergravity multiplet interacts with a nilpotent goldstino multiplet. We present a complete locally supersymmetric action including the graviton and the fermionic fields, gravitino and goldstino, no scalars. In the global limit when supergravity multiplet decouples, our action reproduces the Volkov-Akulov theory. In the unitary gauge where goldstino vanishes we recover pure supergravity with the positive cosmological constant. The classical equations of motion, with all fermions vanishing, have a maximally symmetric solution: de Sitter space.

  20. Pure laparoscopic augmentation ileocystoplasty.

    Science.gov (United States)

    Rebouças, Rafael B; Monteiro, Rodrigo C; Souza, Thiago N S de; Aragão, Augusto J de; Burity, Camila R T; Nóbrega, Júlio C de A; Oliveira, Natália S C de; Abrantes, Ramon B; Dantas Júnior, Luiz B; Cartaxo Filho, Ricardo; Negromonte, Gustavo R P; Sampaio, Rafael da C R; Britto, Cesar A

    2014-01-01

    Guillain-Barre syndrome is an acute neuropathy that rarely compromises bladder function. Conservative management including clean intermittent catheterization and pharmacotherapy is the primary approach for hypocompliant contracted bladder. Surgical treatment may be used in refractory cases to improve bladder compliance and capacity in order to protect the upper urinary tract. We describe a case of pure laparoscopic augmentation ileocystoplasty in a patient affected by Guillain-Barre syndrome. A 15-year-old female, complaining of voiding dysfunction, recurrent urinary tract infection and worsening renal function for three months. A previous history of Guillain-Barre syndrome on childhood was related. A voiding cystourethrography showed a pine-cone bladder with moderate post-void residual urine. The urodynamic demonstrated a hypocompliant bladder and small bladder capacity (190 mL) with high detrusor pressure (54 cmH2O). Nonsurgical treatments were attempted, however unsuccessfully.

  1. Pure Parsimony Xor Haplotyping

    CERN Document Server

    Bonizzoni, Paola; Dondi, Riccardo; Pirola, Yuri; Rizzi, Romeo

    2010-01-01

    The haplotype resolution from xor-genotype data has been recently formulated as a new model for genetic studies. The xor-genotype data is a cheaply obtainable type of data distinguishing heterozygous from homozygous sites without identifying the homozygous alleles. In this paper we propose a formulation based on a well-known model used in haplotype inference: pure parsimony. We exhibit exact solutions of the problem by providing polynomial time algorithms for some restricted cases and a fixed-parameter algorithm for the general case. These results are based on some interesting combinatorial properties of a graph representation of the solutions. Furthermore, we show that the problem has a polynomial time k-approximation, where k is the maximum number of xor-genotypes containing a given SNP. Finally, we propose a heuristic and produce an experimental analysis showing that it scales to real-world large instances taken from the HapMap project.

  2. Pure parsimony xor haplotyping.

    Science.gov (United States)

    Bonizzoni, Paola; Della Vedova, Gianluca; Dondi, Riccardo; Pirola, Yuri; Rizzi, Romeo

    2010-01-01

    The haplotype resolution from xor-genotype data has been recently formulated as a new model for genetic studies. The xor-genotype data is a cheaply obtainable type of data distinguishing heterozygous from homozygous sites without identifying the homozygous alleles. In this paper, we propose a formulation based on a well-known model used in haplotype inference: pure parsimony. We exhibit exact solutions of the problem by providing polynomial time algorithms for some restricted cases and a fixed-parameter algorithm for the general case. These results are based on some interesting combinatorial properties of a graph representation of the solutions. Furthermore, we show that the problem has a polynomial time k-approximation, where k is the maximum number of xor-genotypes containing a given single nucleotide polymorphisms (SNP). Finally, we propose a heuristic and produce an experimental analysis showing that it scales to real-world large instances taken from the HapMap project.

  3. Random Forests approach for identifying additive and epistatic single nucleotide polymorphisms associated with residual feed intake in dairy cattle.

    Science.gov (United States)

    Yao, C; Spurlock, D M; Armentano, L E; Page, C D; VandeHaar, M J; Bickhart, D M; Weigel, K A

    2013-10-01

    Feed efficiency is an economically important trait in the beef and dairy cattle industries. Residual feed intake (RFI) is a measure of partial efficiency that is independent of production level per unit of body weight. The objective of this study was to identify significant associations between single nucleotide polymorphism (SNP) markers and RFI in dairy cattle using the Random Forests (RF) algorithm. Genomic data included 42,275 SNP genotypes for 395 Holstein cows, whereas phenotypic measurements were daily RFI from 50 to 150 d postpartum. Residual feed intake was defined as the difference between an animal's feed intake and the average intake of its cohort, after adjustment for year and season of calving, year and season of measurement, age at calving nested within parity, days in milk, milk yield, body weight, and body weight change. Random Forests is a widely used machine-learning algorithm that has been applied to classification and regression problems. By analyzing the tree structures produced within RF, the 25 most frequent pairwise SNP interactions were reported as possible epistatic interactions. The importance scores that are generated by RF take into account both main effects of variables and interactions between variables, and the most negative value of all importance scores can be used as the cutoff level for declaring SNP effects as significant. Ranking by importance scores, 188 SNP surpassed the threshold, among which 38 SNP were mapped to RFI quantitative trait loci (QTL) regions reported in a previous study in beef cattle, and 2 SNP were also detected by a genome-wide association study in beef cattle. The ratio of number of SNP located in RFI QTL to the total number of SNP in the top 188 SNP chosen by RF was significantly higher than in all 42,275 whole-genome markers. Pathway analysis indicated that many of the top 188 SNP are in genomic regions that contain annotated genes with biological functions that may influence RFI. Frequently occurring

  4. Discovery by the Epistasis Project of an epistatic interaction between the GSTM3 gene and the HHEX/IDE/KIF11 locus in the risk of Alzheimer's disease

    NARCIS (Netherlands)

    J.M. Bullock (James); C. Medway (Christopher); M. Cortina-Borja (Mario); J.C. Turton (James); J.A. Prince (Jonathan); C.A. Ibrahim-Verbaas (Carla); M. Schuur (Maaike); M.M.B. Breteler (Monique); C.M. van Duijn (Cock); P.G. Kehoe (Patrick); R. Barber (Rachel); E. Coto (Eliecer); V. Alvarez (Victoria); P. Deloukas (Panagiotis); N. Hammond (Naomi); O. Combarros (Onofre); I. Mateo (Ignacio); D.R. Warden (Donald); M.G. Lehmann (Michael); O. Belbin (Olivia); K. Brown (Kristelle); G.K. Wilcock (Gordon); R. Heun (Reinhard); H. Kölsch (Heike); A.D. Smith; D.J. Lehmann (Donald); K. Morgan (Kevin)

    2013-01-01

    textabstractDespite recent discoveries in the genetics of sporadic Alzheimer's disease, there remains substantial " hidden heritability." It is thought that some of this missing heritability may be because of gene-gene, i.e., epistatic, interactions. We examined potential epistasis between 110 candi

  5. Pure Laparoscopic Augmentation Ileocystoplasty

    Directory of Open Access Journals (Sweden)

    Rafael B. Rebouças

    2014-12-01

    Full Text Available Introduction Guillain-Barre syndrome is an acute neuropathy that rarely compromises bladder function. Conservative management including clean intermittent catheterization and pharmacotherapy is the primary approach for hypocompliant contracted bladder. Surgical treatment may be used in refractory cases to improve bladder compliance and capacity in order to protect the upper urinary tract. We describe a case of pure laparoscopic augmentation ileocystoplasty in a patient affected by Guillain-Barre syndrome. Presentation A 15-year-old female, complaining of voiding dysfunction, recurrent urinary tract infection and worsening renal function for three months. A previous history of Guillain-Barre syndrome on childhood was related. A voiding cystourethrography showed a pine-cone bladder with moderate post-void residual urine. The urodynamic demonstrated a hypocompliant bladder and small bladder capacity (190mL with high detrusor pressure (54 cmH2O. Nonsurgical treatments were attempted, however unsuccessfully. The patient was placed in the exaggerated Trendelenburg position. A four-port transperitoneal technique was used. A segment of ileum approximately 15-20cm was selected and divided with its pedicle. The ileal anastomosis and creation of ileal U-shaped plate were performed laparoscopically, without staplers. Bladder mobilization and longidutinal cystotomy were performed. Enterovesical anastomosis was done with continuous running suture. A suprapubic cystostomy was placed through a 5mm trocar. Results The total operative time was 335 min. The blood loss was minimal. The patient developed ileus in the early days, diet acceptance after the fourth day and was discharged on the seventh postoperative day. The urethral catheter was removed after 2 weeks. At 6-month follow-up, a cystogram showed a significant improvement in bladder capacity. The patient adhered well to clean intermittent self-catheterization and there was no report for febrile infections

  6. Epistatic interaction of ERAP1 and HLA-B in Behcet disease: a replication study in the Spanish population.

    Directory of Open Access Journals (Sweden)

    Marta Conde-Jaldón

    Full Text Available Behçet's disease (BD is a multifactorial disorder associated with the HLA region. Recently, the ERAP1 gene has been proposed as a susceptibility locus with a recessive model and with epistatic interaction with HLA-B51. ERAP1 trims peptides in the endoplasmic reticulum to optimize their length for MHC-I binding. Polymorphisms in this gene have been related with the susceptibility to other immune-mediated diseases associated to HLA class I. Our aim was, the replication in the Spanish population of the association described in the Turkish population between ERAP1 (rs17482078 and BD. Additionally, in order to improve the understanding of this association we analyzed four additional SNPs (rs27044, rs10050860, rs30187 and rs2287987 associated with other diseases related to HLA class I and the haplotype blocks in this gene region. According to our results, frequencies of the homozygous genotypes for the minor alleles of all the SNPs were increased among patients and the OR values were higher in the subgroup of patients with the HLA-B risk factors, although differences were not statistically significant. Moreover, the presence of the same mutation in both chromosomes increased the OR values from 4.51 to 10.72 in individuals carrying the HLA-B risk factors. Therefore, although they were not statistically significant, our data were consistent with an association between ERAP1 and BD as well as with an epistatic interaction between ERAP1 and HLA-B in the Spanish population.

  7. Additive and Over-dominant Effects Resulting from Epistatic Loci Are the Primary Genetic Basis of Heterosis in Rice

    Institute of Scientific and Technical Information of China (English)

    Xiaojin Luo; Yongcai Fu; Peijiang Zhang; Shuang Wu; Feng Tian; Jiayong Liu; Zuofeng Zhu; Jinshui Yang; Chuanqing Sun

    2009-01-01

    A set of 148 F9 recombinant inbred lines (RILs) was developed from the cross of an indica cultivar 93-11 and japonica cultivar DTT13,showing strong F1 heterosis.Subsequently,two backcross F1 (BCF1) populations were constructed by backcrossing these 148 RILs to two parents,93-11 and DT713.These three related populations (281BCF1 lines,148 RILs) were phenotyped for six yield-related traits in two locations.Significant inbreeding depression was detected in the population of RILS and a high level of heterosis was observed in the two BCF1 populations.A total of 42 main-effect quantitative trait loci (M-QTLs) and 109 epistatic effect QTL pairs (E-QTLs) were detected in the three related populations using the mixed model approach.By comparing the genetic effects of these QTLs detected in the RILs,BCF1 performance and mid-parental heterosis (HMp),we found that,in both BCF1 populations,the QTLs detected could be classified into two predominant types:additive and over-domlnant loci,which indicated that the additive and over-dominant effect were more important than complete or partially dominance for M-QTLs and E-QTLs.Further,we found that the E-QTLs detected collectively explained a larger portion of the total phenotypic variation than the M-QTLs in both RILs and BCF1 populations.All of these results suggest that additive and over-dominance resulting from epistatic loci might be the primary genetic basis of heterosis in rice.

  8. Visual processing in pure alexia

    DEFF Research Database (Denmark)

    Starrfelt, Randi; Habekost, Thomas; Gerlach, Christian

    2010-01-01

    Whether pure alexia is a selective disorder that affects reading only, or if it reflects a more general visual disturbance, is highly debated. We have investigated the selectivity of visual deficits in a pure alexic patient (NN) using a combination of psychophysical measures, mathematical modelling...

  9. Detection of Epistatic and Gene-Environment Interactions Underlying Three Quality Traits in Rice Using High-Throughput Genome-Wide Data

    Directory of Open Access Journals (Sweden)

    Haiming Xu

    2015-01-01

    Full Text Available With development of sequencing technology, dense single nucleotide polymorphisms (SNPs have been available, enabling uncovering genetic architecture of complex traits by genome-wide association study (GWAS. However, the current GWAS strategy usually ignores epistatic and gene-environment interactions due to absence of appropriate methodology and heavy computational burden. This study proposed a new GWAS strategy by combining the graphics processing unit- (GPU- based generalized multifactor dimensionality reduction (GMDR algorithm with mixed linear model approach. The reliability and efficiency of the analytical methods were verified through Monte Carlo simulations, suggesting that a population size of nearly 150 recombinant inbred lines (RILs had a reasonable resolution for the scenarios considered. Further, a GWAS was conducted with the above two-step strategy to investigate the additive, epistatic, and gene-environment associations between 701,867 SNPs and three important quality traits, gelatinization temperature, amylose content, and gel consistency, in a RIL population with 138 individuals derived from super-hybrid rice Xieyou9308 in two environments. Four significant SNPs were identified with additive, epistatic, and gene-environment interaction effects. Our study showed that the mixed linear model approach combining with the GPU-based GMDR algorithm is a feasible strategy for implementing GWAS to uncover genetic architecture of crop complex traits.

  10. Detecting short spatial scale local adaptation and epistatic selection in climate-related candidate genes in European beech (Fagus sylvatica) populations.

    Science.gov (United States)

    Csilléry, Katalin; Lalagüe, Hadrien; Vendramin, Giovanni G; González-Martínez, Santiago C; Fady, Bruno; Oddou-Muratorio, Sylvie

    2014-10-01

    Detecting signatures of selection in tree populations threatened by climate change is currently a major research priority. Here, we investigated the signature of local adaptation over a short spatial scale using 96 European beech (Fagus sylvatica L.) individuals originating from two pairs of populations on the northern and southern slopes of Mont Ventoux (south-eastern France). We performed both single and multilocus analysis of selection based on 53 climate-related candidate genes containing 546 SNPs. FST outlier methods at the SNP level revealed a weak signal of selection, with three marginally significant outliers in the northern populations. At the gene level, considering haplotypes as alleles, two additional marginally significant outliers were detected, one on each slope. To account for the uncertainty of haplotype inference, we averaged the Bayes factors over many possible phase reconstructions. Epistatic selection offers a realistic multilocus model of selection in natural populations. Here, we used a test suggested by Ohta based on the decomposition of the variance of linkage disequilibrium. Overall populations, 0.23% of the SNP pairs (haplotypes) showed evidence of epistatic selection, with nearly 80% of them being within genes. One of the between gene epistatic selection signals arose between an FST outlier and a nonsynonymous mutation in a drought response gene. Additionally, we identified haplotypes containing selectively advantageous allele combinations which were unique to high or low elevations and northern or southern populations. Several haplotypes contained nonsynonymous mutations situated in genes with known functional importance for adaptation to climatic factors.

  11. Quantitative Trait Locus Analysis of Seed Germination and Seedling Vigor in Brassica rapa Reveals QTL Hotspots and Epistatic Interactions.

    Science.gov (United States)

    Basnet, Ram K; Duwal, Anita; Tiwari, Dev N; Xiao, Dong; Monakhos, Sokrat; Bucher, Johan; Visser, Richard G F; Groot, Steven P C; Bonnema, Guusje; Maliepaard, Chris

    2015-01-01

    The genetic basis of seed germination and seedling vigor is largely unknown in Brassica species. We performed a study to evaluate the genetic basis of these important traits in a B. rapa doubled haploid population from a cross of a yellow-seeded oil-type yellow sarson and a black-seeded vegetable-type pak choi. We identified 26 QTL regions across all 10 linkage groups for traits related to seed weight, seed germination and seedling vigor under non-stress and salt stress conditions illustrating the polygenic nature of these traits. QTLs for multiple traits co-localized and we identified eight hotspots for quantitative trait loci (QTL) of seed weight, seed germination, and root and shoot lengths. A QTL hotspot for seed germination on A02 mapped at the B. rapa Flowering Locus C (BrFLC2). Another hotspot on A05 with salt stress specific QTLs co-located with the B. rapa Fatty acid desaturase 2 (BrFAD2) locus. Epistatic interactions were observed between QTL hotspots for seed germination on A02 and A10 and with a salt tolerance QTL on A05. These results contribute to the understanding of the genetics of seed quality and seeding vigor in B. rapa and can offer tools for Brassica breeding.

  12. Fine mapping of the epistatic suppressor gene (esp) of a recessive genic male sterility in rapeseed (Brassica napus L.).

    Science.gov (United States)

    Xu, Zhenghua; Xie, Yanzhou; Hong, Dengfeng; Liu, Pingwu; Yang, Guangsheng

    2009-09-01

    9012AB, a recessive genic male sterility (RGMS) line derived from spontaneous mutation in Brassica napus, has been playing an important role in rapeseed hybrid production in China. The male sterility of 9012AB is controlled by two recessive genes (ms3 and ms4) interacting with one recessive epistatic suppressor gene (esp). The objective of this study was to develop PCR-based markers tightly linked to the esp gene and construct a high-resolution map surrounding the esp gene. From the survey of 512 AFLP primer combinations, 3 tightly linked AFLP markers were obtained and successfully converted to codominant or dominant SCAR markers. Furthermore, a codominant SSR marker (Ra2G08) associated with the esp gene was identified through genetic map integration. For fine mapping of the esp gene, these PCR-based markers were analyzed in a large BC1 population of 2545 plants. The esp gene was then genetically restricted to a region of 1.03 cM, 0.35 cM from SSR marker Ra2G08 and 0.68 cM from SCAR marker WSC6. The SCAR marker WSC5 co-segregated with the target gene. These results lay a solid foundation for map-based cloning of esp and will facilitate the selection of RGMS lines and their temporary maintainers.

  13. Relativity of pure states entanglement

    CERN Document Server

    Zyczkowski, K; Zyczkowski, Karol; Bengtsson, Ingemar

    2002-01-01

    Entanglement of any pure state of an N times N bi-partite quantum system may be characterized by the vector of coefficients arising by its Schmidt decomposition. We analyze various measures of entanglement derived from the generalized entropies of the vector of Schmidt coefficients. For N >= 3 they generate different ordering in the set of pure states and for some states their ordering depends on the measure of entanglement used. This odd-looking property is acceptable, since these incomparable states cannot be transformed to each other with unit efficiency by any local operation. In analogy to special relativity the set of pure states equivalent under local unitaries has a causal structure so that at each point the set splits into three parts: the 'Future', the 'Past' and the set of noncomparable states.

  14. Epistatic interaction between beta2-adrenergic receptor and neuropeptide Y genes influences LDL-cholesterol in hypertension.

    Science.gov (United States)

    Tomaszewski, Maciej; Charchar, Fadi J; Lacka, Beata; Pesonen, Ullamari; Wang, William Y S; Zukowska-Szczechowska, Ewa; Grzeszczak, Wladyslaw; Dominiczak, Anna F

    2004-11-01

    Beta2-adrenergic receptor gene and neuropeptide Y gene may potentially influence lipid metabolism and overall energy balance. Therefore, we examined associations of these genes with lipid fractions and obesity-related phenotypes in hypertensive subjects. A total of 638 white individuals from 212 Polish families with clustering of essential hypertension were phenotyped for cardiovascular risk determinants. Each subject was genotyped for functional polymorphisms of beta2-adrenergic receptor gene (Arg16Gly and Gln27Glu) and neuropeptide Y (Leu7Pro). Of 3 common haplotypes of beta2-adrenergic receptor gene, Arg16Gln27 was overtransmitted to offspring with elevated levels of total cholesterol (Z=2.2; P=0.026) and LDL-cholesterol (Z=3.2; P=0.002). Individually, Leu7Pro was not associated with any of the metabolic phenotypes in family-based tests or case-control analyses. However, in the presence of Arg allele of Arg16Gly and Gln allele of Gln27Glu, homozygosity for Leu variant of the Leu7Pro polymorphism was associated with 2.1-increased odds ratio (confidence interval, 1.10 to 3.81; P=0.024) of elevated LDL in hypertensive subjects, independent of age, gender, body mass index, adjusted blood pressures, antihypertensive therapy, and use of nonselective beta-blockers and diuretics. Consistently, there was a significant multilocus association among variants of Arg16Gly, Gln27Glu, and Leu7Pro in hypertensive probands with elevated LDL (cases; P=0.028) but not in hypertensive subjects with normal LDL (controls). This study revealed an association of LDL-cholesterol with beta2-adrenergic receptor gene haplotype and provided evidence for epistatic interaction between beta2-adrenergic receptor gene and neuropeptide Y gene in determination of LDL-cholesterol in patients with essential hypertension.

  15. Epistatic Interaction of the Melanocortin 1 Receptor and Agouti Signaling Protein Genes Modulates Wool Color in the Brazilian Creole Sheep.

    Science.gov (United States)

    Hepp, Diego; Gonçalves, Gislene Lopes; Moreira, Gilson Rudinei Pires; de Freitas, Thales Renato Ochotorena

    2016-11-01

    Different pigmentation genes have been associated with color diversity in domestic animal species. The melanocortin 1 receptor (MC1R), agouti signaling protein (ASIP), tyrosinase-related protein 1 (TYRP1), and v-kit Hardy-Zuckerman 4 feline sarcoma viral oncogene homolog (KIT) genes are candidate genes responsible for variation in wool color among breeds of sheep. Although the influence of these genes has been described in some breeds, in many others the effect of interactions among genes underlying wool color has not been investigated. The Brazilian Creole sheep is a local breed with a wide variety of wool color, ranging from black to white with several intermediate hues. We analyzed in this study the influence of the genes MC1R, ASIP, TYRP1, and KIT on the control of wool color in this breed. A total of 410 samples were analyzed, including 148 white and 262 colored individuals. The MC1R and ASIP polymorphisms were significantly associated with the segregation of either white or colored wool. The dominant MC1R allele (E(D) p.M73K and p.D121N) was present only in colored animals. All white individuals were homozygous for the MC1R recessive allele (E(+)) and carriers of the duplicated copy of ASIP A gene expression assay showed that only the carrier of the duplicated copy of ASIP produces increased levels in skin, not detectable in the single homozygous copy. These results demonstrate that the epistatic interaction of the genotypes in the MC1R and ASIP gene is responsible for the striking color variation in the Creole breed.

  16. Directed Evolution Reveals Unexpected Epistatic Interactions That Alter Metabolic Regulation and Enable Anaerobic Xylose Use by Saccharomyces cerevisiae

    Science.gov (United States)

    Tremaine, Mary; Hebert, Alexander S.; Myers, Kevin S.; Sardi, Maria; Dickinson, Quinn; Reed, Jennifer L.; Zhang, Yaoping; Coon, Joshua J.; Hittinger, Chris Todd; Gasch, Audrey P.; Landick, Robert

    2016-01-01

    The inability of native Saccharomyces cerevisiae to convert xylose from plant biomass into biofuels remains a major challenge for the production of renewable bioenergy. Despite extensive knowledge of the regulatory networks controlling carbon metabolism in yeast, little is known about how to reprogram S. cerevisiae to ferment xylose at rates comparable to glucose. Here we combined genome sequencing, proteomic profiling, and metabolomic analyses to identify and characterize the responsible mutations in a series of evolved strains capable of metabolizing xylose aerobically or anaerobically. We report that rapid xylose conversion by engineered and evolved S. cerevisiae strains depends upon epistatic interactions among genes encoding a xylose reductase (GRE3), a component of MAP Kinase (MAPK) signaling (HOG1), a regulator of Protein Kinase A (PKA) signaling (IRA2), and a scaffolding protein for mitochondrial iron-sulfur (Fe-S) cluster biogenesis (ISU1). Interestingly, the mutation in IRA2 only impacted anaerobic xylose consumption and required the loss of ISU1 function, indicating a previously unknown connection between PKA signaling, Fe-S cluster biogenesis, and anaerobiosis. Proteomic and metabolomic comparisons revealed that the xylose-metabolizing mutant strains exhibit altered metabolic pathways relative to the parental strain when grown in xylose. Further analyses revealed that interacting mutations in HOG1 and ISU1 unexpectedly elevated mitochondrial respiratory proteins and enabled rapid aerobic respiration of xylose and other non-fermentable carbon substrates. Our findings suggest a surprising connection between Fe-S cluster biogenesis and signaling that facilitates aerobic respiration and anaerobic fermentation of xylose, underscoring how much remains unknown about the eukaryotic signaling systems that regulate carbon metabolism. PMID:27741250

  17. "Pure" cutaneous histiocytosis-X.

    Science.gov (United States)

    Wolfson, S L; Botero, F; Hurwitz, S; Pearson, H A

    1981-11-15

    The case histories of two young children who experienced skin rashes involving various areas of the body are reported. The diagnosis of pure cutaneous histiocytosis-X was established after extensive studies revealed no other organ involvement. The patients were treated with oral corticosteroids. Currently, both children are in good health, show no evidence of disease, and have been followed over a four-to-five-year period. Therapy with corticosteroids may not be indicated with pure cutaneous histiocytosis-X unless there is evidence of extracutaneous dissemination or rapid progression of the disease.

  18. Pure Spinors for General Backgrounds

    CERN Document Server

    Fre', Pietro

    2008-01-01

    We show the equivalence of the different types of pure spinor constraints geometrically derived from the Free Differential Algebras of N=2 d=10 supergravities. Firstly, we compute the general solutions of these constraints, using both a G_2 and an SO(8) covariant decomposition of the 10d chiral spinors. Secondly, we verify that the number of independent degrees of freedom is equal to that implied by the Poincare' pure spinor constraints so-far used for superstrings, namely twenty two. Thirdly, we show the equivalence between the FDA type IIA/B constraints among each other and with the Poincare' ones.

  19. Pure robotic retrocaval ureter repair

    Directory of Open Access Journals (Sweden)

    Ashok k. Hemal

    2008-12-01

    Full Text Available PURPOSE: To demonstrate the feasibility of pure robotic retrocaval ureter repair. MATERIALS AND METHODS: A 33 year old female presented with right loin pain and obstruction on intravenous urography with the classical "fish-hook" appearance. She was counseled on the various methods of repair and elected to have a robot assisted repair. The following steps are performed during a pure robotic retrocaval ureter repair. The patient is placed in a modified flank position, pneumoperitoneum created and ports inserted. The colon is mobilized to expose the retroperitoneal structures: inferior vena cava, right gonadal vein, right ureter, and duodenum. The renal pelvis and ureter are mobilized and the renal pelvis transected. The ureter is transposed anterior to the inferior vena cava and a pyelopyelostomy is performed over a JJ stent. RESULTS: This patient was discharged on postoperative day 3. The catheter and drain tube were removed on day 1. Her JJ stent was removed at 6 weeks postoperatively. The postoperative intravenous urography at 3 months confirmed normal drainage of contrast medium. CONCLUSION: Pure robotic retrocaval ureter is a feasible procedure; however, there does not appear to be any great advantage over pure laparoscopy, apart from the ergonomic ease for the surgeon as well the simpler intracorporeal suturing.

  20. QTL Location and Epistatic Effect Analysis of 100-Seed Weight Using Wild Soybean (Glycine soja Sieb. & Zucc.) Chromosome Segment Substitution Lines.

    Science.gov (United States)

    Xin, Dawei; Qi, Zhaoming; Jiang, Hongwei; Hu, Zhenbang; Zhu, Rongsheng; Hu, Jiahui; Han, Heyu; Hu, Guohua; Liu, Chunyan; Chen, Qingshan

    2016-01-01

    Increasing the yield of soybean (Glycine max L. Merrill) is a main aim of soybean breeding. The 100-seed weight is a critical factor for soybean yield. To facilitate genetic analysis of quantitative traits and to improve the accuracy of marker-assisted breeding in soybean, a valuable mapping population consisting of 194 chromosome segment substitution lines (CSSLs) was developed. In these lines, different chromosomal segments of the Chinese cultivar Suinong 14 were substituted into the genetic background of wild soybean (Glycine soja Sieb. & Zucc.) ZYD00006. Based on these CSSLs, a genetic map covering the full genome was generated using 121 simple sequence repeat (SSR) markers. In the quantitative trait loci (QTL) analysis, twelve main effect QTLs (qSW-B1-1/2/3, qSW-D1b-1/2, qSW-D2-1/2, qSW-G-1/2/3, qSW-M-2 and qSW-N-2) underlying 100-seed weight were identified in 2011 and 2012. The epistatic effects of pairwise interactions between markers were analyzed in 2011 and 2012. The results clearly demonstrated that these CSSLs could be used to identify QTLs, and that an epistatic analysis was able to detect several sites with important epistatic effects on 100-seed weight. Thus, we identified loci that will be valuable for improving soybean 100-seed weight. These results provide a valuable foundation for identifying the precise location of genes of interest, and for designing cloning and marker-assisted selection breeding strategies targeting the 100-seed weight of soybean.

  1. Functional epistatic interaction between rs6046G>A in F7 and rs5355C>T in SELE modifies systolic blood pressure levels.

    Science.gov (United States)

    El Shamieh, Said; Ndiaye, Ndeye Coumba; Stathopoulou, Maria G; Murray, Helena A; Masson, Christine; Lamont, John V; Fitzgerald, Peter; Benetos, Athanase; Visvikis-Siest, Sophie

    2012-01-01

    Although numerous genetic studies have been performed, only 0.9% of blood pressure phenotypic variance has been elucidated. This phenomenon could be partially due to epistatic interactions. Our aim was to identify epistatic interaction(s) associated with blood pressure levels in a pre-planned two-phase approach. In a discovery cohort composed of 3,600 French individuals, we found rs6046A allele in F7 associated with decreased blood pressure levels (P≤3.7×10(-3)) and rs5355T allele in SELE associated with decreased diastolic blood pressure levels (P = 5×10(-3)). Both variants interacted in order to influence blood pressure levels (P≤0.048). This interaction was replicated with systolic blood pressure in 4,620 additional European individuals (P = 0.03). Similarly, in this replication cohort, rs6046A was associated with decreased blood pressure levels (P≤8.5×10(-4)). Furthermore, in peripheral blood mononuclear cells of a subsample of 90 supposed healthy individuals, we found rs6046A positively associated with NAMPT mRNA levels (P≤9.1×10(-5)), suggesting an eventual involvement of NAMPT expression in blood pressure regulation. Confirming this hypothesis, further transcriptomic analyses showed that increased NAMPT mRNA levels were positively correlated with ICAM1, SELL, FPR1, DEFA1-3, and LL-37 genes expression (P≤5×10(-3)). The last two mRNA levels were positively associated with systolic blood pressure levels (P≤0.01) and explained 4% of its phenotypic variation. These findings reveal the importance of epistatic interactions in blood pressure genetics and give new insights for the role of inflammation in its complex regulation.

  2. Manifolds of interconvertible pure states

    OpenAIRE

    Sinolecka, Magdalena M.; Zyczkowski, Karol; Kus, Marek

    2001-01-01

    Local orbits of a pure state of an N x N bi-partite quantum system are analyzed. We compute their dimensions which depends on the degeneracy of the vector of coefficients arising by the Schmidt decomposition. In particular, the generic orbit has 2N^2 -N-1 dimensions, the set of separable states is 4(N-1) dimensional, while the manifold of maximally entangled states has N^2-1 dimensions.

  3. Manifolds of interconvertible pure states

    CERN Document Server

    Sinolecka, M M; Kus, M; Sinolecka, Magdalena M.; Zyczkowski, Karol; Kus, Marek

    2002-01-01

    Local orbits of a pure state of an N x N bi-partite quantum system are analyzed. We compute their dimensions which depends on the degeneracy of the vector of coefficients arising by the Schmidt decomposition. In particular, the generic orbit has 2N^2 -N-1 dimensions, the set of separable states is 4(N-1) dimensional, while the manifold of maximally entangled states has N^2-1 dimensions.

  4. Multimedia programming with pure data

    CERN Document Server

    Chung, Bryan

    2013-01-01

    A quick and comprehensive tutorial book for media designers to jump-start interactive multimedia production with computer graphics, digital audio, digital video, and interactivity, using the Pure Data graphical programming environment.An introductory book on multimedia programming for media artists/designers who like to work on interactivity in their projects, digital art/design students who like to learn the first multimedia programming technique, and audio-visual performers who like to customize their performance sets

  5. Additive and epistatic genome-wide association for growth and ultrasound scan measures of carcass-related traits in Brahman cattle.

    Science.gov (United States)

    Ali, A A; Khatkar, M S; Kadarmideen, H N; Thomson, P C

    2015-04-01

    Genome-wide association studies are routinely used to identify genomic regions associated with traits of interest. However, this ignores an important class of genomic associations, that of epistatic interactions. A genome-wide interaction analysis between single nucleotide polymorphisms (SNPs) using highly dense markers can detect epistatic interactions, but is a difficult task due to multiple testing and computational demand. However, It is important for revealing complex trait heredity. This study considers analytical methods that detect statistical interactions between pairs of loci. We investigated a three-stage modelling procedure: (i) a model without the SNP to estimate the variance components; (ii) a model with the SNP using variance component estimates from (i), thus avoiding iteration; and (iii) using the significant SNPs from (ii) for genome-wide epistasis analysis. We fitted these three-stage models to field data for growth and ultrasound measures for subcutaneous fat thickness in Brahman cattle. The study demonstrated the usefulness of modelling epistasis in the analysis of complex traits as it revealed extra sources of genetic variation and identified potential candidate genes affecting the concentration of insulin-like growth factor-1 and ultrasound scan measure of fat depth traits. Information about epistasis can add to our understanding of the complex genetic networks that form the fundamental basis of biological systems. © 2015 Blackwell Verlag GmbH.

  6. Using regulatory and epistatic networks to extend the findings of a genome scan: identifying the gene drivers of pigmentation in merino sheep.

    Science.gov (United States)

    García-Gámez, Elsa; Reverter, Antonio; Whan, Vicki; McWilliam, Sean M; Arranz, Juan José; Kijas, James

    2011-01-01

    Extending genome wide association analysis by the inclusion of gene expression data may assist in the dissection of complex traits. We examined piebald, a pigmentation phenotype in both human and Merino sheep, by analysing multiple data types using a systems approach. First, a case control analysis of 49,034 ovine SNP was performed which confirmed a multigenic basis for the condition. We combined these results with gene expression data from five tissue types analysed with a skin-specific microarray. Promoter sequence analysis of differentially expressed genes allowed us to reverse-engineer a regulatory network. Likewise, by testing two-loci models derived from all pair-wise comparisons across piebald-associated SNP, we generated an epistatic network. At the intersection of both networks, we identified thirteen genes with insulin-like growth factor binding protein 7 (IGFBP7), platelet-derived growth factor alpha (PDGFRA) and the tetraspanin platelet activator CD9 at the kernel of the intersection. Further, we report a number of differentially expressed genes in regions containing highly associated SNP including ATRN, DOCK7, FGFR1OP, GLI3, SILV and TBX15. The application of network theory facilitated co-analysis of genetic variation with gene expression, recapitulated aspects of the known molecular biology of skin pigmentation and provided insights into the transcription regulation and epistatic interactions involved in piebald Merino sheep.

  7. Using regulatory and epistatic networks to extend the findings of a genome scan: identifying the gene drivers of pigmentation in merino sheep.

    Directory of Open Access Journals (Sweden)

    Elsa García-Gámez

    Full Text Available Extending genome wide association analysis by the inclusion of gene expression data may assist in the dissection of complex traits. We examined piebald, a pigmentation phenotype in both human and Merino sheep, by analysing multiple data types using a systems approach. First, a case control analysis of 49,034 ovine SNP was performed which confirmed a multigenic basis for the condition. We combined these results with gene expression data from five tissue types analysed with a skin-specific microarray. Promoter sequence analysis of differentially expressed genes allowed us to reverse-engineer a regulatory network. Likewise, by testing two-loci models derived from all pair-wise comparisons across piebald-associated SNP, we generated an epistatic network. At the intersection of both networks, we identified thirteen genes with insulin-like growth factor binding protein 7 (IGFBP7, platelet-derived growth factor alpha (PDGFRA and the tetraspanin platelet activator CD9 at the kernel of the intersection. Further, we report a number of differentially expressed genes in regions containing highly associated SNP including ATRN, DOCK7, FGFR1OP, GLI3, SILV and TBX15. The application of network theory facilitated co-analysis of genetic variation with gene expression, recapitulated aspects of the known molecular biology of skin pigmentation and provided insights into the transcription regulation and epistatic interactions involved in piebald Merino sheep.

  8. Epistatic interaction between common AGT G(-6)A (rs5051) and AGTR1 A1166C (rs5186) variants contributes to variation in kidney size at birth.

    Science.gov (United States)

    Kaczmarczyk, Mariusz; Kuprjanowicz, Anna; Łoniewska, Beata; Gorący, Iwona; Taryma-Leśniak, Olga; Skonieczna-Żydecka, Karolina; Ciechanowicz, Andrzej

    2015-11-01

    Low nephron number has been recognised as an important cardiovascular risk factor and recently a strong correlation between renal mass and nephron number has been demonstrated in newborns. The aim of this study was to investigate individual, as well as combined, effects of common variants of genes which encode for major components of the renin-angiotensin system (REN G10601A, AGT G(-6)A, ACE I/D, AGTR1 A1166C) on kidney size in healthy, full-term newborns. A significant additive main effect of the ACE I/D polymorphism, as well as an additive-by-additive interaction between AGT G(-6)A and AGTR1 A1166C variants, were found. The variance attributed to the epistatic effect was 27.9 ml(2)/m(4), which accounted for 73.8% of the interaction variance (37.8 ml(2)/m(4)), 66.4% of the genetic variance (42.0 ml(2)/m(4)) and 4.4% to the total phenotypic variance (628 ml(2)/m(4)). No other statistically significant main or epistatic effects were detected. Our results highlight the importance of considering gene-gene interactions as part of the genetic architecture of congenital nephron number, even when the loci do not show significant single locus effects. Unravelling the genetic determinants of low nephron number, along with early molecular screening, may well help to identify children at risk for cardiovascular disease. Copyright © 2015 Elsevier B.V. All rights reserved.

  9. Universality in pure gravity mediation

    Energy Technology Data Exchange (ETDEWEB)

    Evans, Jason L.; Olive, Keith A. [University of Minnesota, William I. Fine Theoretical Physics Institute, School of Physics and Astronomy, Minneapolis, MN (United States); Ibe, Masahiro [University of Tokyo, ICRR, Kashiwa (Japan); University of Tokyo, Kavli IPMU, TODIAS, Kashiwa (Japan); Yanagida, Tsutomu T. [University of Tokyo, Kavli IPMU, TODIAS, Kashiwa (Japan)

    2013-07-15

    If low-energy supersymmetry is realized in nature, the apparent discovery of a Higgs boson with mass around 125 GeV suggests a supersymmetric mass spectrum in the TeV or multi-TeV range. Multi-TeV scalar masses are a necessary component of supersymmetric models with pure gravity mediation or in any model with strong moduli stabilization. Here, we show that full scalar mass universality remains viable as long as the ratio of Higgs vevs, tan{beta}, is relatively small (

  10. Toxicological evaluation of pure hydroxytyrosol.

    Science.gov (United States)

    Auñon-Calles, David; Canut, Lourdes; Visioli, Francesco

    2013-05-01

    Of all the phenolic constituents of olives and extra virgin olive oil, hydroxytyrosol is currently being actively exploited as a potential supplement or preservative to be employed in the nutraceutical, cosmeceutical, and food industry. In terms of safety profile, hydroxytyrosol has only been investigated as the predominant part of raw olive mill waste water extracts, due to the previous unavailability of appropriate quantities of the pure compound. We report the toxicological evaluation of hydroxytyrosol and, based on the results, propose a No Observed Adverse Effects Level (NOAEL) of 500mg/kg/d.

  11. Synthesis of Enantiomerically Pure Anthracyclinones

    Science.gov (United States)

    Achmatowicz, Osman; Szechner, Barbara

    The anthracycline antibiotics are among the most important clinical drugs used in the treatment of human cancer. The search for new agents with improved therapeutic efficacy and reduced cardiotoxicity stimulated considerable efforts in the synthesis of new analogues. Since the biological activity of anthracyclines depends on their natural absolute configuration, various strategies for the synthesis of enantiomerically pure anthracyclinones (aglycones) have been developed. They comprise: resolution of racemic intermediate, incorporation of a chiral fragment derived from natural and non-natural chiral pools, asymmetric synthesis with the use of a chiral auxiliary or a chiral reagent, and enantioselective catalysis. Synthetic advances towards enantiopure anthracyclinones reported over the last 17 years are reviewed.

  12. Pure dysarthria due to an insular infarction.

    Science.gov (United States)

    Hiraga, Akiyuki; Tanaka, Saiko; Kamitsukasa, Ikuo

    2010-06-01

    Cortical infarction presenting with pure dysarthria is rarely reported. Previous studies have reported pure dysarthria due to cortical stroke at the precentral gyrus or middle frontal gyrus. We report a 72-year-old man who developed pure dysarthria caused by an acute cortical infarction in the insular cortex. The role of the insula in language has been difficult to assess clinically because of the rarity of pure insular strokes. Our patient showed pure dysarthria without aphasia, indicating that pure dysarthria can be the sole manifestation of insular infarctions.

  13. ABSOLUTELY E-PURE MODULES AND E-PURE SPLIT MODULES

    Institute of Scientific and Technical Information of China (English)

    Yan Hangyu

    2011-01-01

    We first introduce the concepts of absolutely E-pure modules and Epure split modules. Then, we characterize the IF rings in terms of absolutely E-pure modules. The E-pure split modules are also characterized.

  14. Pure optical dynamical color encryption

    Science.gov (United States)

    Mosso, Fabian; Tebaldi, Myrian; Fredy Barrera, John; Bolognini, Néstor; Torroba, Roberto

    2011-07-01

    We introduce a way to encrypt-decrypt a color dynamical phenomenon using a pure optical alternative. We split the three basic chromatic channels composing the input, and then each channel is processed through a 4f encoding method and a theta modulation applied to the each encrypted frame in every channel. All frames for a single channel are multiplexed. The same phase mask is used to encode all the information. Unlike the usual procedure we do not multiplex the three chromatic channels into a single encoding media, because we want to decrypt the information in real time. Then, we send to the decoding station the phase mask and the three packages each one containing the multiplexing of a single channel. The end user synchronizes and decodes the information contained in the separate channels. Finally, the decoding information is conveyed together to bring the decoded dynamical color phenomenon in real-time. We present material that supports our concepts.

  15. 76 FR 69284 - Pure Magnesium From China

    Science.gov (United States)

    2011-11-08

    ... COMMISSION Pure Magnesium From China Determination On the basis of the record \\1\\ developed in the subject... order on pure magnesium from China would be likely to lead to continuation or recurrence of material... USITC Publication 4274 (October 2011), entitled Pure Magnesium from China: Investigation No....

  16. Dual Target Search is Neither Purely Simultaneous nor Purely Successive.

    Science.gov (United States)

    Cave, Kyle R; Menneer, Tamaryn; Nomani, Mohammad S; Stroud, Michael J; Donnelly, Nick

    2017-08-31

    Previous research shows that visual search for two different targets is less efficient than search for a single target. Stroud, Menneer, Cave and Donnelly (2012) concluded that two target colours are represented separately based on modeling the fixation patterns. Although those analyses provide evidence for two separate target representations, they do not show whether participants search simultaneously for both targets, or first search for one target and then the other. Some studies suggest that multiple target representations are simultaneously active, while others indicate that search can be voluntarily simultaneous, or switching, or a mixture of both. Stroud et al.'s participants were not explicitly instructed to use any particular strategy. These data were revisited to determine which strategy was employed. Each fixated item was categorised according to whether its colour was more similar to one target or the other. Once an item similar to one target is fixated, the next fixated item is more likely to be similar to that target than the other, showing that at a given moment during search, one target is generally favoured. However, the search for one target is not completed before search for the other begins. Instead, there are often short runs of one or two fixations to distractors similar to one target, with each run followed by a switch to the other target. Thus, the results suggest that one target is more highly weighted than the other at any given time, but not to the extent that search is purely successive.

  17. Decryption of pure-position permutation algorithms

    Institute of Scientific and Technical Information of China (English)

    赵晓宇; 陈刚; 张亶; 王肖虹; 董光昌

    2004-01-01

    Pure position permutation image encryption algorithms, commonly used as image encryption investigated in this work are unfortunately frail under known-text attack. In view of the weakness of pure position permutation algorithm,we put forward an effective decryption algorithm for all pure-position permutation algorithms. First, a summary of the pure position permutation image encryption algorithms is given by introducing the concept of ergodic matrices. Then, by using probability theory and algebraic principles, the decryption probability of pure-position permutation algorithms is verified theoretically; and then, by defining the operation system of fuzzy ergodic matrices, we improve a specific decryption al-gorithm. Finally, some simulation results are shown.

  18. A novel epistatic interaction at two loci causing hybrid male sterility in an inter-subspecific cross of rice (Oryza sativa L.).

    Science.gov (United States)

    Kubo, Takahiko; Yamagata, Yoshiyuki; Eguchi, Maki; Yoshimura, Atsushi

    2008-12-01

    Postzygotic reproductive isolation (RI) often arises in inter-subspecific crosses as well as inter-specific crosses of rice (Oryza sativa L.). To further understand the genetic architecture of the postzygotic RI, we analyzed genes causing hybrid sterility and hybrid breakdown in a rice inter-subspecific cross. Here we report hybrid male sterility caused by epistatic interaction between two novel genes, S24 and S35, which were identified on rice chromosomes 5 and 1, respectively. Genetic analysis using near-isogenic lines (NILs) carrying IR24 (ssp. indica) segments with Asominori (ssp. japonica) genetic background revealed a complicated aspect of the epistasis. Allelic interaction at the S24 locus in the heterozygous plants caused abortion of male gametes carrying the Asominori allele (S24-as) independent of the S35 genotype. On the other hand, male gametes carrying the Asominori allele at the S35 locus (S35-as) showed abortion only when the IR24 allele at the S24 locus (S24-ir) was concurrently introgressed into the S35 heterozygous plants, indicating that the sterility phenotype due to S35 was dependent on the S24 genotype through negative epistasis between S24-ir and S35-as alleles. Due to the interaction between S24 and S35, self-pollination of the double heterozygous plants produced pollen-sterile progeny carrying the S24-ir/S24-ir S35-as/S35-ir genotype in addition to the S24 heterozygous plants. This result suggests that the S35 gene might function as a modifier of S24. This study presents strong evidence for the importance of epistatic interaction as a part of the genetic architecture of hybrid sterility in rice. In addition, it suggests that diverse systems have been developed as postzygotic RI mechanisms within the rice.

  19. Epistatic Interaction of ERAP1 and HLA-B in Behçet Disease: A Replication Study in the Spanish Population

    Science.gov (United States)

    Conde-Jaldón, Marta; Montes-Cano, Marco Antonio; García-Lozano, José Raul; Ortiz-Fernández, Lourdes; Ortego-Centeno, Norberto; González-León, Rocío; Espinosa, Gerard; Graña-Gil, Genaro; Sánchez-Bursón, Juan; González-Gay, Miguel Angel; Barnosi-Marín, Ana Celia; Solans, Roser; Fanlo, Patricia; Carballeira, Mónica Rodríguez; Camps, Teresa; Castañeda, Santos; Martín, Javier; González-Escribano, María Francisca

    2014-01-01

    Behçet's disease (BD) is a multifactorial disorder associated with the HLA region. Recently, the ERAP1 gene has been proposed as a susceptibility locus with a recessive model and with epistatic interaction with HLA-B51. ERAP1 trims peptides in the endoplasmic reticulum to optimize their length for MHC-I binding. Polymorphisms in this gene have been related with the susceptibility to other immune-mediated diseases associated to HLA class I. Our aim was, the replication in the Spanish population of the association described in the Turkish population between ERAP1 (rs17482078) and BD. Additionally, in order to improve the understanding of this association we analyzed four additional SNPs (rs27044, rs10050860, rs30187 and rs2287987) associated with other diseases related to HLA class I and the haplotype blocks in this gene region. According to our results, frequencies of the homozygous genotypes for the minor alleles of all the SNPs were increased among patients and the OR values were higher in the subgroup of patients with the HLA-B risk factors, although differences were not statistically significant. Moreover, the presence of the same mutation in both chromosomes increased the OR values from 4.51 to 10.72 in individuals carrying the HLA-B risk factors. Therefore, although they were not statistically significant, our data were consistent with an association between ERAP1 and BD as well as with an epistatic interaction between ERAP1 and HLA-B in the Spanish population. PMID:25019531

  20. Bringing Planctomycetes into pure culture

    Directory of Open Access Journals (Sweden)

    Olga Maria Lage

    2012-12-01

    Full Text Available Planctomycetes have been known since the description of Planctomyces bekefii by Gimesi at the beginning of the twentieth century (1924, although the first axenic cultures were only obtained in the 1970s. Since then, eleven genera with fourteen species have been validly named and five candidatus genera belonging to the anaerobic ammonium oxidation, anammox bacteria have also been discovered. However, Planctomycetes diversity is much broader than these numbers indicate, as shown by environmental molecular studies. In recent years the authors have attempted to isolate and cultivate additional strains of Planctomycetes. This paper provides a summary of the isolation work that was carried out to obtain in pure culture Planctomycetes from several environmental sources. The following strains and planctomycetes have been successfully isolated: two freshwater strains from the sediments of an aquarium, which were described as a new genus and species, Aquisphaera giovannonii; several Rhodopirellula strains from the sediments of a water treatment recycling tank of a marine fish farm; and more than 140 planctomycetes from the biofilm community of macroalgae. This collection comprises several novel taxa that are being characterized and described. Improvements in the isolation methodology were made in order to optimize and enlarge the number of Planctomycetes isolated from the macroalgae. The existence of an intimate and an important relationship between planctomycetes and macroalgae reported before by molecular studies is therefore supported by culture dependent methods.

  1. Isomerically Pure Tetramethylrhodamine Voltage Reporters.

    Science.gov (United States)

    Deal, Parker E; Kulkarni, Rishikesh U; Al-Abdullatif, Sarah H; Miller, Evan W

    2016-07-27

    We present the design, synthesis, and application of a new family of fluorescent voltage indicators based on isomerically pure tetramethylrhodamines. These new Rhodamine Voltage Reporters, or RhoVRs, use photoinduced electron transfer (PeT) as a trigger for voltage sensing, display excitation and emission profiles in the green to orange region of the visible spectrum, demonstrate high sensitivity to membrane potential changes (up to 47% ΔF/F per 100 mV), and employ a tertiary amide derived from sarcosine, which aids in membrane localization and simultaneously simplifies the synthetic route to the voltage sensors. The most sensitive of the RhoVR dyes, RhoVR 1, features a methoxy-substituted diethylaniline donor and phenylenevinylene molecular wire at the 5'-position of the rhodamine aryl ring, exhibits the highest voltage sensitivity to date for red-shifted PeT-based voltage sensors, and is compatible with simultaneous imaging alongside green fluorescent protein-based indicators. The discoveries that sarcosine-based tertiary amides in the context of molecular-wire voltage indicators prevent dye internalization and 5'-substituted voltage indicators exhibit improved voltage sensitivity should be broadly applicable to other types of PeT-based voltage-sensitive fluorophores.

  2. Rapid multi-locus sequence typing using microfluidic biochips.

    Directory of Open Access Journals (Sweden)

    Timothy D Read

    Full Text Available BACKGROUND: Multiple locus sequence typing (MLST has become a central genotyping strategy for analysis of bacterial populations. The scheme involves de novo sequencing of 6-8 housekeeping loci to assign unique sequence types. In this work we adapted MLST to a rapid microfluidics platform in order to enhance speed and reduce laboratory labor time. METHODOLOGY/PRINCIPAL FINDINGS: Using two integrated microfluidic devices, DNA was purified from 100 Bacillus cereus soil isolates, used as a template for multiplex amplification of 7 loci and sequenced on forward and reverse strands. The time on instrument from loading genomic DNA to generation of electropherograms was only 1.5 hours. We obtained full-length sequence of all seven MLST alleles from 84 representing 46 different Sequence Types. At least one allele could be sequenced from a further 15 strains. The nucleotide diversity of B. cereus isolated in this study from one location in Rockville, Maryland (0.04 substitutions per site was found to be as great as the global collection of isolates. CONCLUSIONS/SIGNIFICANCE: Biogeographical investigation of pathogens is only one of a panoply of possible applications of microfluidics based MLST; others include microbiologic forensics, biothreat identification, and rapid characterization of human clinical samples.

  3. Inferring HIV escape rates from multi-locus genotype data

    Directory of Open Access Journals (Sweden)

    Taylor A Kessinger

    2013-09-01

    Full Text Available Cytotoxic T-lymphocytes (CTLs recognize viral protein fragments displayed by major histocompatibility complex (MHC molecules on the surface of virally infected cells and generate an anti-viral response that can kill the infected cells. Virus variants whose protein fragments are not efficiently presented on infected cells or whose fragments are presented but not recognized by CTLs therefore have a competitive advantage and spread rapidly through the population. We present a method that allows a more robust estimation of these escape rates from serially sampled sequence data. The proposed method accounts for competition between multiple escapes by explicitly modeling the accumulation of escape mutations and the stochastic effects of rare multiple mutants. Applying our method to serially sampled HIV sequence data, we estimate rates of HIV escape that are substantially larger than those previously reported. The method can be extended to complex escapes that require compensatory mutations. We expect our method to be applicable in other contexts such as cancer evolution where time series data is also available.

  4. Rapid Multi-Locus Sequence Typing Using Microfluidic Biochips

    Science.gov (United States)

    2010-05-12

    while clade 2 contains many B. thuringiensis strains harboring insecticidal toxins . Only 5 strains were in clade 1, which has the highest...and Bacillus thuringiensis –one species on the basis of genetic evidence. Appl Environ Microbiol 66: 2627–2630. 9. Jensen GB, Hansen BM, Ellenberg J... Bacillus thuringiensis / cereus populations within the phyllosphere of broad-leaved dock (Rumex obtusifolius) and surrounding habitats. FEMS Microbiol

  5. First multi-locus sequence typing scheme for Arcobacter spp.

    Directory of Open Access Journals (Sweden)

    Wang Guilin

    2009-09-01

    Full Text Available Abstract Background Arcobacter spp. are a common contaminant of food and water, and some species, primarily A. butzleri and A. cryaerophilus, have been isolated increasingly from human diarrheal stool samples. Here, we describe the first Arcobacter multilocus sequence typing (MLST method for A. butzleri, A. cryaerophilus, A. skirrowii, A. cibarius and A. thereius. Results A sample set of 374 arcobacters, including 275 A. butzleri, 72 A. cryaerophilus, 15 A. skirrowii and 8 A. cibarius isolates from a wide variety of geographic locations and sources, was typed in this study. Additionally, this sample set contained four strains representing a new Arcobacter species, A. thereius. The seven loci used in the four-species Arcobacter MLST method are the same as those employed previously in C. jejuni, C. coli, C. helveticus and C. fetus (i.e. aspA, atpA(uncA, glnA, gltA, glyA, pgm and tkt. A large number of alleles were identified at each locus with the majority of isolates containing a unique sequence type. All Arcobacter isolates typed in this study contain two glyA genes, one linked to lysS (glyA1 and the other linked to ada (glyA2. glyA1 was incorporated into the Arcobacter MLST method while glyA2 was not because it did not increase substantially the level of discrimination. Conclusion No association of MLST alleles or sequence types with host or geographical source was observed with this sample set. Nevertheless, the large number of identified alleles and sequence types indicate that this MLST method will prove useful in both Arcobacter strain discrimination and in epidemiological studies of sporadic Arcobacter-related gastroenteritis. A new Arcobacter MLST database was created http://pubmlst.org/arcobacter/; allele and ST data generated in this study were deposited in this database and are available online.

  6. Pure variation and organic stratification.

    Science.gov (United States)

    Rosanvallon, Jérôme

    2012-09-01

    The fundamental problem posed by Darwin distinguishes his theory from any transformism of the past as well as any evolutionism to come: since variation is inherent to the living, it is a question of explaining, not at all why the living varies, but instead why the living does not vary in all directions to the point of constituting a continuum of forms varying ad infinitum. What limits and stabilizes this intrinsically unlimited variation, allowing certain forms to subsist and multiply to the detriment of others, is natural selection. This double principle of intrinsic variation/extrinsic selection constitutes a vector for the unification of reality that underlies Jean-Jacques Kupiec's ontophylogenesis as well as Deleuze and Guattari's global philosophy of Nature. Therefore, everything would potentially tend to incessantly vary. The work of Kupiec and others identifies an intrinsic random variation within ontogenesis itself. For Deleuze and Guattari, it is nothing but the figure, already selected by the organic stratum, of a more fundamental or pure variation. But, in fact, nothing really varies incessantly: everything undergoes a selective pressure according to which nothing subsists as such except what manages to endure through invariance (physical stratum) or reproduction (organic stratum). Thus, organic stratification only retains from variation what ensures and augments this reproduction. In this sense, every organism stratifies, i.e. submits to its imperative of subsistence and reproduction, a body without organs that varies in itself and always tends to escape the organism, for better (intensifications of life) or worse (cancerous pathologies). Copyright © 2012 Elsevier Ltd. All rights reserved.

  7. Tame Kernels of Pure Cubic Fields

    Institute of Scientific and Technical Information of China (English)

    Xiao Yun CHENG

    2012-01-01

    In this paper,we study the p-rank of the tame kernels of pure cubic fields.In particular,we prove that for a fixed positive integer m,there exist infinitely many pure cubic fields whose 3-rank of the tame kernel equal to m.As an application,we determine the 3-rank of their tame kernels for some special pure cubic fields.

  8. Dissipation-induced pure Gaussian state

    CERN Document Server

    Koga, Kei

    2011-01-01

    This paper provides some necessary and sufficient conditions for a general Markovian Gaussian master equation to have a unique pure steady state. The conditions are described by simple matrix equations, thus they can be easily applied to the so-called environment engineering for pure Gaussian state preparation. In particular, it is shown that for any given pure Gaussian state we can actually construct a dissipative process yielding that state as the unique steady state.

  9. The Expansion Postponement in Pure Type Systems

    Institute of Scientific and Technical Information of China (English)

    宋方敏

    1997-01-01

    The expansion postponement problem in Pure Type Systems is an open problem raised by R.Pollack in 1992.In this paper,the author presents a set of necessary and sufficient conditions for this problem and a set of sufficient conditions for it.The author also gives some properties for pure typ systems without the expansion rule.

  10. Measuring the entanglement of bipartite pure states

    CERN Document Server

    Sancho, J M

    2000-01-01

    The problem of the experimental determination of the amount of entanglement of a bipartite pure state is addressed. We show that measuring a single observable does not suffice to determine the entanglement of a given unknown pure state of two particles. Possible minimal local measuring strategies are discussed and a comparison is made on the basis of their best achievable precision.

  11. Fundamentals of the pure spinor formalism

    NARCIS (Netherlands)

    Hoogeveen, J.

    2010-01-01

    This thesis presents recent developments within the pure spinor formalism, which has simplified amplitude computations in perturbative string theory, especially when spacetime fermions are involved. Firstly the worldsheet action of both the minimal and the non-minimal pure spinor formalism is derive

  12. Detection of QTLs with Additive Effects,Epistatic Effects, and QTL ×Environment Interactions for Zeleny Sedimentation Value Using a Doubled Haploid Population in Cultivated Wheat

    Institute of Scientific and Technical Information of China (English)

    ZHAO Liang; LIU Bin; ZHANG Kun-pu; TIAN Ji-chun; DENG Zhi-ying

    2009-01-01

    In order to understand thegenetic basis for Zeleny sedimentation value (ZSV) of wheat,a doubled haploid (DH) population Huapei 3×Yumai 57 (Yumai 57 is superior to Huapei 3 for ZSV),and a linkage map consisting of 323 marker loci were used to search QTLs for ZSV.This program was based on mixed linear models and allowed simultaneous mapping of additive effect QTLs,epistatic QTLs,and QTL×environment interactions (QEs).The DH population and the parents were evaluated for ZSV in three field trials.Mapping analysis produced a total of 8 QTLs and 2 QEs for ZSV with a single QTL explaining 0.64-14.39% of phenotypic variations.Four additive QTLs,4 pairs ofepistatic QTLs,and two QEs collectively explained 46.11% of the phenotypic variation (PVE).This study provided a precise location of ZSV gene within the Xwmc 93 and GluD1 interval.which was designated as Qzsv-1D.The information obtained in this study should be useful for manipulating the QTLs for ZSV by marker assisted selection (MAS) in wheat breeding programs.

  13. Familial Analysis of Epistatic and Sex-Dependent Association of Genes of the Renin-Angiotensin-Aldosterone System and Blood Pressure.

    Science.gov (United States)

    Scurrah, Katrina J; Lamantia, Angela; Ellis, Justine A; Harrap, Stephen B

    2017-06-01

    Renin-angiotensin-aldosterone system genes have been inconsistently associated with blood pressure, possibly because of unrecognized influences of sex-dependent genetic effects or gene-gene interactions (epistasis). We tested association of systolic blood pressure with single-nucleotide polymorphisms (SNPs) at renin (REN), angiotensinogen (AGT), angiotensin-converting enzyme (ACE), angiotensin II type 1 receptor (AGTR1), and aldosterone synthase (CYP11B2), including sex-SNP or SNP-SNP interactions. Eighty-eight tagSNPs were tested in 2872 white individuals in 809 pedigrees from the Victorian Family Heart Study using variance components models. Three SNPs (rs8075924 and rs4277404 at ACE and rs12721297 at AGTR1) were individually associated with lower systolic blood pressure with significant (Ppressure. Four SNP pairs were at the same gene (2 for REN, 1 for AGT, and 1 for AGTR1). The SNP rs3097 at CYP11B2 was represented in 5 separate pairs. SNPs at key renin-angiotensin-aldosterone system genes associate with systolic blood pressure individually in both sexes, individually in one sex only and only when combined with another SNP. Analyses that incorporate sex-dependent and epistatic effects could reconcile past inconsistencies and account for some of the missing heritability of blood pressure and are generally relevant to SNP association studies for any phenotype. © 2017 American Heart Association, Inc.

  14. Mapping main, epistatic and sex-specific QTL for body composition in a chicken population divergently selected for low or high growth rate

    Directory of Open Access Journals (Sweden)

    Vignal Alain

    2010-02-01

    Full Text Available Abstract Background Delineating the genetic basis of body composition is important to agriculture and medicine. In addition, the incorporation of gene-gene interactions in the statistical model provides further insight into the genetic factors that underlie body composition traits. We used Bayesian model selection to comprehensively map main, epistatic and sex-specific QTL in an F2 reciprocal intercross between two chicken lines divergently selected for high or low growth rate. Results We identified 17 QTL with main effects across 13 chromosomes and several sex-specific and sex-antagonistic QTL for breast meat yield, thigh + drumstick yield and abdominal fatness. Different sets of QTL were found for both breast muscles [Pectoralis (P major and P. minor], which suggests that they could be controlled by different regulatory mechanisms. Significant interactions of QTL by sex allowed detection of sex-specific and sex-antagonistic QTL for body composition and abdominal fat. We found several female-specific P. major QTL and sex-antagonistic P. minor and abdominal fatness QTL. Also, several QTL on different chromosomes interact with each other to affect body composition and abdominal fatness. Conclusions The detection of main effects, epistasis and sex-dimorphic QTL suggest complex genetic regulation of somatic growth. An understanding of such regulatory mechanisms is key to mapping specific genes that underlie QTL controlling somatic growth in an avian model.

  15. Epistatic and Independent Effects on Schizophrenia-Related Phenotypes Following Co-disruption of the Risk Factors Neuregulin-1 × DISC1.

    Science.gov (United States)

    O'Tuathaigh, Colm M P; Fumagalli, Fabio; Desbonnet, Lieve; Perez-Branguli, Francesc; Moloney, Gerard; Loftus, Samim; O'Leary, Claire; Petit, Emilie; Cox, Rachel; Tighe, Orna; Clarke, Gerard; Lai, Donna; Harvey, Richard P; Cryan, John F; Mitchell, Kevin J; Dinan, Timothy G; Riva, Marco A; Waddington, John L

    2017-01-01

    Few studies have addressed likely gene × gene (ie, epistatic) interactions in mediating risk for schizophrenia. Using a preclinical genetic approach, we investigated whether simultaneous disruption of the risk factors Neuregulin-1 (NRG1) and Disrupted-in-schizophrenia 1 (DISC1) would produce a disease-relevant phenotypic profile different from that observed following disruption to either gene alone. NRG1 heterozygotes exhibited hyperactivity and disruption to prepulse inhibition, both reversed by antipsychotic treatment, and accompanied by reduced striatal dopamine D2 receptor protein expression, impaired social cognition, and altered glutamatergic synaptic protein expression in selected brain areas. Single gene DISC1 mutants demonstrated a disruption in social cognition and nest-building, altered brain 5-hydroxytryptamine levels and hippocampal ErbB4 expression, and decreased cortical expression of the schizophrenia-associated microRNA miR-29b. Co-disruption of DISC1 and NRG1, indicative of epistasis, evoked an impairment in sociability and enhanced self-grooming, accompanied by changes in hypothalamic oxytocin/vasopressin gene expression. The findings indicate specific behavioral correlates and underlying cellular pathways downstream of main effects of DNA variation in the schizophrenia-associated genes NRG1 and DISC1.

  16. Epistatic mutations in PUMA BH3 drive an alternate binding mode to potently and selectively inhibit anti-apoptotic Bfl-1

    Energy Technology Data Exchange (ETDEWEB)

    Jenson, Justin M.; Ryan, Jeremy A.; Grant, Robert A.; Letai, Anthony; Keating, Amy E. (DFCI); (MIT)

    2017-06-08

    Overexpression of anti-apoptotic Bcl-2 family proteins contributes to cancer progression and confers resistance to chemotherapy. Small molecules that target Bcl-2 are used in the clinic to treat leukemia, but tight and selective inhibitors are not available for Bcl-2 paralog Bfl-1. Guided by computational analysis, we designed variants of the native BH3 motif PUMA that are > 150-fold selective for Bfl-1 binding. The designed peptides potently trigger disruption of the mitochondrial outer membrane in cells dependent on Bfl-1, but not in cells dependent on other anti-apoptotic homologs. High-resolution crystal structures show that designed peptide FS2 binds Bfl-1 in a shifted geometry, relative to PUMA and other binding partners, due to a set of epistatic mutations. FS2 modified with an electrophile reacts with a cysteine near the peptide-binding groove to augment specificity. Designed Bfl-1 binders provide reagents for cellular profiling and leads for developing enhanced and cell-permeable peptide or small-molecule inhibitors.

  17. Conformal pure radiation with parallel rays

    CERN Document Server

    Leistner, Thomas

    2011-01-01

    We define pure radiation metrics with parallel rays to be n-dimensional pseudo-Riemannian metrics that admit a parallel null line bundle K and whose Ricci tensor vanishes on vectors that are orthogonal to K. We give necessary conditions in terms of the Weyl, Cotton and Bach tensors for a pseudo-Riemannian metric to be conformal to a pure radiation metric with parallel rays. Then we derive conditions in terms of tractor calculus that are equivalent to the existence of a pure radiation metric with parallel rays in a conformal class. We also give an analogous result for n-dimensional pseudo-Riemannian pp-waves.

  18. Pure red cell aplasia and associated thymoma

    Directory of Open Access Journals (Sweden)

    Cristian Rosu

    2011-04-01

    Full Text Available Pure red cell aplasia is a rare cause of anemia, caused by an absence of red blood cell precursors in the bone marrow. It is usually a paraneoplastic syndrome, associated most commonly with large-cell granular lymphocyte leukemia but also thymoma. For patients who present both pure red cell aplasia and thymoma, thymectomy leads to an initial remission of the aplasia in 30% of cases. However, sustained remission may require the addition of medications such as corticosteroids, cyclospo­rine, or cyclophosphamide. We present a case of pure red cell aplasia associated with a thymoma in an otherwise healthy 80 year-old woman.

  19. Atomic model of liquid pure Fe

    Institute of Scientific and Technical Information of China (English)

    2001-01-01

    Using a θ-θX-ray diffractometer, the liquid structure of pure Fewas investigated and the diffraction intensity, structure factor, pair distribution function as well as the coordination number and atomic distance were obtained. The experimental results showed that there was also a pre-peak on the curve of the structure factor of liquid pure Fe. The pre-peak is a mark of medium-range order in melts. According to the characteristics of pre-peak, an atomic model of liquid pure Fe is constructed, namely, the structure of liquid pure Fe is a combination of clusters consisting of bcc cells with shared vertexes and other atoms with random dense atom distribution.

  20. Entropy product measure for multipartite pure states

    Institute of Scientific and Technical Information of China (English)

    CAO Wancang; LIU Dan; PAN Feng; LONG Guilu

    2006-01-01

    An entanglement measure for multipartite pure states is formulated using the product of the von Neumann entropy of the reduced density matrices of the constituents.Based on this new measure, all possible ways of the maximal entanglement of the triqubit pure states are studied in detail and all types of the maximal entanglement have been culate the degree of entanglement, and an improvement is given in the area near the zero entropy.

  1. Diphenylhydantoin-induced pure red cell aplasia.

    Science.gov (United States)

    Rusia, Usha; Malhotra, Purnima; Joshi, Panul

    2006-01-01

    Pure red cell aplasia is an uncommon complication of diphenylhydantoin therapy. It has not been reported in Indian literature. Awareness of the entity helps in establishing the cause of anaemia in these patients and alerts the physicians to the need of comprehensive haematological monitoring in these patients. A case of 58-year-old male who developed pure red cell aplasia following three months of diphenylhydantoin therapy is reported here.

  2. Expander Graphs in Pure and Applied Mathematics

    OpenAIRE

    Lubotzky, Alexander

    2011-01-01

    Expander graphs are highly connected sparse finite graphs. They play an important role in computer science as basic building blocks for network constructions, error correcting codes, algorithms and more. In recent years they have started to play an increasing role also in pure mathematics: number theory, group theory, geometry and more. This expository article describes their constructions and various applications in pure and applied mathematics.

  3. Dark fermentation on biohydrogen production: Pure culture.

    Science.gov (United States)

    Lee, Duu-Jong; Show, Kuan-Yeow; Su, Ay

    2011-09-01

    Biohydrogen is regarded as an attractive future clean energy carrier due to its high energy content and environmental-friendly conversion. While biohydrogen production is still in the early stage of development, there have been a variety of laboratory- and pilot-scale systems developed with promising potential. This work presents a review of literature reports on the pure hydrogen-producers under anaerobic environment. Challenges and perspective of biohydrogen production with pure cultures are also outlined.

  4. Rehabilitation of pure alexia: A review

    Science.gov (United States)

    Starrfelt, Randi; Ólafsdóttir, Rannveig Rós; Arendt, Ida-Marie

    2013-01-01

    Acquired reading problems caused by brain injury (alexia) are common, either as a part of an aphasic syndrome, or as an isolated symptom. In pure alexia, reading is impaired while other language functions, including writing, are spared. Being in many ways a simple syndrome, one would think that pure alexia was an easy target for rehabilitation efforts. We review the literature on rehabilitation of pure alexia from 1990 to the present, and find that patients differ widely on several dimensions, such as alexia severity and associated deficits. Many patients reported to have pure alexia in the reviewed studies, have associated deficits such as agraphia or aphasia and thus do not strictly conform to the diagnosis. Few studies report clear and generalisable effects of training, none report control data, and in many cases the reported findings are not supported by statistics. We can, however, tentatively conclude that Multiple Oral Re-reading techniques may have some effect in mild pure alexia where diminished reading speed is the main problem, while Tacile-Kinesthetic training may improve letter identification in more severe cases of alexia. There is, however, still a great need for well-designed and controlled studies of rehabilitation of pure alexia. PMID:23808895

  5. Nokia PureView oversampling technology

    Science.gov (United States)

    Vuori, Tero; Alakarhu, Juha; Salmelin, Eero; Partinen, Ari

    2013-03-01

    This paper describes Nokia's PureView oversampling imaging technology as well as the product, Nokia 808 PureView, featuring it. The Nokia PureView imaging technology is the combination of a large, super high resolution 41Mpix with high performance Carl Zeiss optics. Large sensor enables a pixel oversampling technique that reduces an image taken at full resolution into a lower resolution picture, thus achieving higher definition and light sensitivity. One oversampled super pixel in image file is formed by using many sensor pixels. A large sensor enables also a lossless zoom. If a user wants to use the lossless zoom, the sensor image is cropped. However, up-scaling is not needed as in traditional digital zooming usually used in mobile devices. Lossless zooming means image quality that does not have the digital zooming artifacts as well as no optical zooming artifacts like zoom lens system distortions. Zooming with PureView is also completely silent. PureView imaging technology is the result of many years of research and development and the tangible fruits of this work are exceptional image quality, lossless zoom, and superior low light performance.

  6. Structural anatomy of pure and hemianopic alexia.

    Science.gov (United States)

    Leff, A P; Spitsyna, G; Plant, G T; Wise, R J S

    2006-09-01

    The two most common types of acquired reading disorder resulting from damage to the territory of the dominant posterior cerebral artery are hemianopic and pure alexia. Patients with pronounced hemianopic alexia have a right homonymous hemianopia that encroaches into central or parafoveal vision; they read individual words well, but generate inefficient reading saccades when reading along a line of text. Patients with pure alexia also often have a hemianopia but are more disabled, making frequent errors on individual words; they have sustained damage to a brain region that supports efficient word identification. To investigate the differences in lesion site between hemianopic alexia and pure alexia groups, as rehabilitative techniques differ between the two conditions. High-resolution magnetic resonance images were obtained from seven patients with hemianopic alexia and from six patients with pure alexia caused by a left occipital stroke. The boundary of each lesion was defined and lesion volumes were then transformed into a standard stereotactic space so that regional comparisons could be made. The two patient groups did not differ in terms of damage to the medial left occipital lobe, but those with pure alexia had additional lateral damage to the posterior fusiform gyrus and adjacent tissue. Clinicians will be able to predict the type of reading disorder patients with left occipital lesions have from simple tests of reading speed and the distribution of damage to the left occipital lobe on brain imaging. This information will aid management decisions, including recommendations for reading rehabilitation.

  7. Pure plate bending in couple stress theories

    CERN Document Server

    Hadjesfandiari, Ali R; Dargush, Gary F

    2016-01-01

    In this paper, we examine the pure bending of plates within the framework of modified couple stress theory (M-CST) and consistent couple stress theory (C-CST). In this development, it is demonstrated that M-CST does not describe pure bending of a plate properly. Particularly, M-CST predicts no couple-stresses and no size effect for the pure bending of the plate into a spherical shell. This contradicts our expectation that couple stress theory should predict some size effect for such a deformation pattern. Therefore, this result clearly demonstrates another inconsistency of indeterminate symmetric modified couple stress theory (M-CST), which is based on considering the symmetric torsion tensor as the curvature tensor. On the other hand, the fully determinate skew-symmetric consistent couple stress theory (C-CST) predicts results for pure plate bending that tend to agree with mechanics intuition and experimental evidence. Particularly, C-CST predicts couple-stresses and size effects for the pure bending of the ...

  8. Mutations in Argonaute5 Illuminate Epistatic Interactions of the K1 and I Loci Leading to Saddle Seed Color Patterns in Glycine max.

    Science.gov (United States)

    Cho, Young B; Jones, Sarah I; Vodkin, Lila O

    2017-04-01

    The soybean (Glycine max) seed coat has distinctive, genetically programmed patterns of pigmentation, and the recessive k1 mutation can epistatically overcome the dominant I and i(i) alleles, which inhibit seed color by producing small interfering RNAs (siRNAs) targeting chalcone synthase (CHS) mRNAs. Small RNA sequencing of dissected regions of immature seed coats demonstrated that CHS siRNA levels cause the patterns produced by the i(i) and i(k) alleles of the I locus, which restrict pigment to the hilum or saddle region of the seed coat, respectively. To identify the K1 locus, we compared RNA-seq data from dissected regions of two Clark isolines having similar saddle phenotypes mediated by CHS siRNAs but different genotypes (homozygous i(k) K1 versus homozygous i(i) k1). By examining differentially expressed genes, mapping information, and genome resequencing, we identified a 129-bp deletion in Glyma.11G190900 encoding Argonaute5 (AGO5), a member of the Argonaute family. Amplicon sequencing of several independent saddle pattern mutants from different genetic backgrounds revealed independent lesions affecting AGO5, thus establishing Glyma.11G190900 as the K1 locus. Nonfunctional AGO5 from k1 alleles leads to altered distributions of CHS siRNAs, thus explaining how the k1 mutation reverses the phenotype of the seed coat regions from yellow to pigmented, even in the presence of the normally dominant I or i(i) alleles. © 2017 American Society of Plant Biologists. All rights reserved.

  9. Indispensable roles of OX40L-derived signal and epistatic genetic effect in immune-mediated pathogenesis of spontaneous pulmonary hypertension

    Directory of Open Access Journals (Sweden)

    Rabieyousefi Moloud

    2011-12-01

    Full Text Available Abstract Background Pulmonary hypertension (PH refers to a spectrum of diseases with elevated pulmonary artery pressure. Pulmonary arterial hypertension (PAH is a disease category that clinically presents with severe PH and that is histopathologically characterized by the occlusion of pulmonary arterioles, medial muscular hypertrophy, and/or intimal fibrosis. PAH occurs with a secondary as well as a primary onset. Secondary PAH is known to be complicated with immunological disorders. The aim of the present study is to histopathologically and genetically characterize a new animal model of PAH and clarify the role of OX40 ligand in the pathogenesis of PAH. Results Spontaneous onset of PAH was stably identified in mice with immune abnormality because of overexpression of the tumor necrosis factor (TNF family molecule OX40 ligand (OX40L. Histopathological and physical examinations revealed the onset of PAH-like disorders in the C57BL/6 (B6 strain of OX40L transgenic mice (B6.TgL. Comparative analysis performed using different strains of transgenic mice showed that this onset depends on the presence of OX40L in the B6 genetic background. Genetic analyses demonstrated a susceptibility locus of a B6 allele to this onset on chromosome 5. Immunological analyses revealed that the excessive OX40 signals in TgL mice attenuates expansion of regulatory T cells the B6 genetic background, suggesting an impact of the B6 genetic background on the differentiation of regulatory T cells. Conclusion Present findings suggest a role for the OX40L-derived immune response and epistatic genetic effect in immune-mediated pathogenesis of PAH.

  10. Epistatic and functional interactions of catechol-o-methyltransferase (COMT and AKT1 on neuregulin1-ErbB signaling in cell models.

    Directory of Open Access Journals (Sweden)

    Yoshitatsu Sei

    Full Text Available BACKGROUND: Neuregulin1 (NRG1-ErbB signaling has been implicated in the pathogenesis of cancer and schizophrenia. We have previously reported that NRG1-stimulated migration of B lymphoblasts is PI3K-AKT1dependent and impaired in patients with schizophrenia and significantly linked to the catechol-o-methyltransferase (COMT Val108/158Met functional polymorphism. METHODOLOGY/PRINCIPAL FINDINGS: We have now examined AKT1 activation in NRG1-stimulated B lymphoblasts and other cell models and explored a functional relationship between COMT and AKT1. NRG1-induced AKT1 phosphorylation was significantly diminished in Val carriers compared to Met carriers in both normal subjects and in patients. Further, there was a significant epistatic interaction between a putatively functional coding SNP in AKT1 (rs1130233 and COMT Val108/158Met genotype on AKT1 phosphorylation. NRG1 induced translocation of AKT1 to the plasma membrane also was impaired in Val carriers, while PIP(3 levels were not decreased. Interestingly, the level of COMT enzyme activity was inversely correlated with the cells' ability to synthesize phosphatidylserine (PS, a factor that attracts the pleckstrin homology domain (PHD of AKT1 to the cell membrane. Transfection of SH-SY5Y cells with a COMT Val construct increased COMT activity and significantly decreased PS levels as well as NRG1-induced AKT1 phosphorylation and migration. Administration of S-adenosylmethionine (SAM rescued all of these deficits. These data suggest that AKT1 function is influenced by COMT enzyme activity through competition with PS synthesis for SAM, which in turn dictates AKT1-dependent cellular responses to NRG1-mediated signaling. CONCLUSION/SIGNIFICANCE: Our findings implicate genetic and functional interactions between COMT and AKT1 and may provide novel insights into pathogenesis of schizophrenia and other ErbB-associated human diseases such as cancer.

  11. Epistatic and pleiotropic effects of polymorphisms in the fibrinogen and coagulation factor XIII genes on plasma fibrinogen concentration, fibrin gel structure and risk of myocardial infarction.

    Science.gov (United States)

    Mannila, Maria Nastase; Eriksson, Per; Ericsson, Carl-Göran; Hamsten, Anders; Silveira, Angela

    2006-03-01

    An intricate interplay between the genes encoding fibrinogen gamma (FGG), alpha (FGA) and beta (FGB), coagulation factor XIII (F13A1) and interleukin 6 (IL6) and environmental factors is likely to influence plasma fibrinogen concentration, fibrin clot structure and risk of myocardial infarction (MI). In the present study, the potential contribution of SNPs harboured in the fibrinogen, IL6 and F13A1 genes to these biochemical and clinical phenotypes was examined. A database and biobank based on 387 survivors of a first MI and population-based controls were used. Sixty controls were selected according to FGG 9340T > C [rs1049636] genotype for studies on fibrin clot structure using the liquid permeation method. The multifactor dimensionality reduction method was used for interaction analyses. We here report that the FGA 2224G > A [rs2070011] SNP (9.2%), plasma fibrinogen concentration (13.1%) and age (8.1%) appeared as independent determinants of fibrin gel porosity. The FGA 2224G > A SNP modulated the relation between plasma fibrinogen concentration and fibrin clot porosity. The FGG-FGA*4 haplotype, composed of the minor FGG 9340C and FGA 2224A alleles, had similar effects, supporting its reported protective role in relation to MI. Significant epistasis on plasma fibrinogen concentration was detected between the FGA 2224G > A and F13A1 Val34Leu [rs5985] SNPs (p FGG 9340T > C and FGB 1038G > A [rs1800791] SNPs appeared to interact on MI risk, explaining the association of FGG-FGB haplotypes with MI in the absence of effects of individual SNPs. Thus, epistatic and pleiotropic effects of polymorphisms contribute to the variation in plasma fibrinogen concentration, fibrin clot structure and risk of MI.

  12. Dynamic recrystallization behavior of commercial pure aluminum

    Institute of Scientific and Technical Information of China (English)

    LI Hui-zhong; ZHANG Xin-ming; CHEN Ming-an; LIU Zi-juan

    2006-01-01

    The flow stress feature and microstructure evolvement of a commercial pure aluminum were investigated by compression on Gleeble-1500 dynamic materials test machine. Optical microscopy (OM) and transmission electron microscopy (TEM) were applied to analyze the deformation microstructure of the commercial pure aluminum.The results show that the flow stress tends to be constant after a peak value and the dynamic recovery occurs when the deformation temperatures is 220 ℃ with the strain rate of 0.01 s-1; while the dynamic recrystallization occurs when the deformation temperature is higher than 380 ℃, and the flow stress exhibits a single peak at 460 ℃ with different strain rates from 0.001 s-1 to 1 s-1, and continuous dynamic recrystallization and geometric dynamic recrystallization occur during the hot compression of the commercial pure aluminum.

  13. Conclusive discrimination among N equidistant pure states

    Energy Technology Data Exchange (ETDEWEB)

    Roa, Luis; Hermann-Avigliano, Carla; Salazar, R. [Departamento de Fisica, Universidad de Concepcion, Barrio Universitario, Casilla 160-C, Concepcion (Chile); Klimov, A. B. [Departamento de Fisica, Universidad de Guadalajara, Revolucion 1500, 44420 Guadalajara, Jalisco (Mexico)

    2011-07-15

    We find the allowed complex overlaps for N equidistant pure quantum states. The accessible overlaps define a petal-shaped area on the Argand plane. Each point inside the petal represents a set of N linearly independent pure states and each point on its contour represents a set of N linearly dependent pure states. We find the optimal probabilities of success of discriminating unambiguously in which of the N equidistant states the system is. We show that the phase of the involved overlap plays an important role in the probability of success. For a fixed overlap modulus, the success probability is highest for the set of states with an overlap with phase equal to zero. In this case, if the process fails, then the information about the prepared state is lost. For states with a phase different from zero, the information could be obtained with an error-minimizing measurement protocol.

  14. Pure neuritic leprosy: Current status and relevance

    Directory of Open Access Journals (Sweden)

    P Narasimha Rao

    2016-01-01

    Full Text Available Pure neuritic leprosy has always been an enigma due to its clinical and management ambiguities. Although only the Indian Association of Leprologist's classification recognizes 'pure neuritic leprosy' as a distinct sub group of leprosy, cases nonetheless are reported from various countries of Asia, Africa, South America and Europe, indicating its global relevance. It is important to maintain pure neuritic leprosy as a subgroup as it constitutes a good percentage of leprosy cases reported from India, which contributes to more than half of global leprosy numbers. Unfortunately, a high proportion of these patients present with Grade 2 disability at the time of initial reporting itself due to the early nerve involvement. Although skin lesions are absent by definition, when skin biopsies were performed from the skin along the distribution of the affected nerve, a proportion of patients demonstrated leprosy pathology, revealing sub-clinical skin involvement. In addition on follow-up, skin lesions are noted to develop in up to 20% of pure neuritic leprosy cases, indicating its progression to manifest cutaneous disease. Over the decades, the confirmation of diagnosis of pure neuritic leprosy has been subjective, however, with the arrival and use of high-resolution ultrasonography (HRUS for nerve imaging, we have a tool not only to objectively measure and record the nerve thickening but also to assess the morphological alterations in the nerve including echo texture, fascicular pattern and vascularity. Management of pure neuritic leprosy requires multidrug therapy along with appropriate dose of systemic corticosteroids, for both acute and silent neuritis. Measures for pain relief, self-care of limbs and physiotherapy are important to prevent as well as manage disabilities in this group of patients.

  15. Pure neuritic leprosy: Current status and relevance.

    Science.gov (United States)

    Rao, P Narasimha; Suneetha, Sujai

    2016-01-01

    Pure neuritic leprosy has always been an enigma due to its clinical and management ambiguities. Although only the Indian Association of Leprologist's classification recognizes 'pure neuritic leprosy' as a distinct sub group of leprosy, cases nonetheless are reported from various countries of Asia, Africa, South America and Europe, indicating its global relevance. It is important to maintain pure neuritic leprosy as a subgroup as it constitutes a good percentage of leprosy cases reported from India, which contributes to more than half of global leprosy numbers. Unfortunately, a high proportion of these patients present with Grade 2 disability at the time of initial reporting itself due to the early nerve involvement. Although skin lesions are absent by definition, when skin biopsies were performed from the skin along the distribution of the affected nerve, a proportion of patients demonstrated leprosy pathology, revealing sub-clinical skin involvement. In addition on follow-up, skin lesions are noted to develop in up to 20% of pure neuritic leprosy cases, indicating its progression to manifest cutaneous disease. Over the decades, the confirmation of diagnosis of pure neuritic leprosy has been subjective, however, with the arrival and use of high-resolution ultrasonography (HRUS) for nerve imaging, we have a tool not only to objectively measure and record the nerve thickening but also to assess the morphological alterations in the nerve including echo texture, fascicular pattern and vascularity. Management of pure neuritic leprosy requires multidrug therapy along with appropriate dose of systemic corticosteroids, for both acute and silent neuritis. Measures for pain relief, self-care of limbs and physiotherapy are important to prevent as well as manage disabilities in this group of patients.

  16. Comparison of Diesel Engine Characteristic Using Pure Coconut Oil, Pure Palm Oil, and Pure Jatropha Oil as Fuel

    Directory of Open Access Journals (Sweden)

    Iman K. Reksowardojo

    2009-01-01

    Full Text Available Diesel engine can be operated on either pure plant oil (PPO oil or biodiesel. Biodiesel production process is expensive due to many stages of processes, while PPO has a lower cost of production, lower energy consumption, and simpler process. There are several potential biofuel resources in Indonesia such as coconut, palm, and jatropha. They are tropical plants with large amonts of their quantity. Experiment was conducted in 17 hours engine running test (endurance test with various operating cycle conditions. Test fuels are pure coconut oil (PCO, pure palm oil (PPaO, pure jatropha oil (PJO, and diesel fuel (DF as a datum. Each PPO blends with diesel fuel with composition 50%-volume. As a result, PCO has higher BSFC (10% before endurance test in comparison with diesel fuel, also PPaO (13% and PJO (27% show a similar condition. Surprisingly, all PPO have BSFC almost similar with DF after endurance test due to decreasing of engine components friction. On the other hand, PPO produces more uncompleted combustion than DF. Phosporus content has major responsibility of deposit growth. PCO, PPaO, and PJO result more engine deposits in comparison with DF, which accounts for 139,7%, 232,9%, and 288,9% respectively. Based on wear analysis, PCO has the best antiwear property among test fuels, whereas the worst is DF.

  17. Minimal covariant observables identifying all pure states

    Energy Technology Data Exchange (ETDEWEB)

    Carmeli, Claudio, E-mail: claudio.carmeli@gmail.com [D.I.M.E., Università di Genova, Via Cadorna 2, I-17100 Savona (Italy); I.N.F.N., Sezione di Genova, Via Dodecaneso 33, I-16146 Genova (Italy); Heinosaari, Teiko, E-mail: teiko.heinosaari@utu.fi [Turku Centre for Quantum Physics, Department of Physics and Astronomy, University of Turku (Finland); Toigo, Alessandro, E-mail: alessandro.toigo@polimi.it [Dipartimento di Matematica, Politecnico di Milano, Piazza Leonardo da Vinci 32, I-20133 Milano (Italy); I.N.F.N., Sezione di Milano, Via Celoria 16, I-20133 Milano (Italy)

    2013-09-02

    It has been recently shown by Heinosaari, Mazzarella and Wolf (2013) [1] that an observable that identifies all pure states of a d-dimensional quantum system has minimally 4d−4 outcomes or slightly less (the exact number depending on d). However, no simple construction of this type of minimal observable is known. We investigate covariant observables that identify all pure states and have minimal number of outcomes. It is shown that the existence of this kind of observables depends on the dimension of the Hilbert space.

  18. Pure word deafness and pure anarthria in a patient with frontotemporal dementia.

    Science.gov (United States)

    Iizuka, O; Suzuki, K; Endo, K; Fujii, T; Mori, E

    2007-04-01

    A 66-year-old right-handed man developed pure anarthria following pure word deafness. In addition to language disorders, his behavior gradually changed and finally included violence against his wife. Brain magnetic resonance imagings revealed atrophy of the left perisylvian area, which included the inferior half of the precentral gyrus and the upper portion of the superior temporal gyrus, consistent with frontotemporal dementia (FTD). It has been documented as either a disorder of expressive language or as an impaired understanding of word meaning. Unlike with pure anarthria, pure word deafness is not included in the clinical diagnostic current criteria for FTD. However, a large variety of language symptoms can appear in FTD according to the distribution of pathological changes in the frontotemporal cortices. This case suggests that pure word deafness could be a prodomal symptom of FTD.

  19. Are all maximally entangled states pure?

    CERN Document Server

    Cavalcanti, D; Terra-Cunha, M O

    2005-01-01

    In this Letter we study if all maximally entangled states are pure through several entanglement monotones. Our conclusions allow us to generalize the idea of monogamy of entanglement. Then we propose a polygamy of entanglement, which express that if a general multipartite state is maximally entangled it is necessarily factorized by any other system.

  20. Implicit Reading in Chinese Pure Alexia

    Science.gov (United States)

    Shan, Chunlei; Zhu, Renjing; Xu, Mingwei; Luo, Benyan; Weng, Xuchu

    2010-01-01

    A number of recent studies have shown that some patients with pure alexia display evidence of implicit access to lexical and semantic information about words that they cannot read explicitly. This phenomenon has not been investigated systematically in Chinese patients. We report here a case study of a Chinese patient who met the criteria for pure…

  1. Pure science and the problem of progress.

    Science.gov (United States)

    Douglas, Heather

    2014-06-01

    How should we understand scientific progress? Kuhn famously discussed science as its own internally driven venture, structured by paradigms. He also famously had a problem describing progress in science, as problem-solving ability failed to provide a clear rubric across paradigm change--paradigm changes tossed out problems as well as solving them. I argue here that much of Kuhn's inability to articulate a clear view of scientific progress stems from his focus on pure science and a neglect of applied science. I trace the history of the distinction between pure and applied science, showing how the distinction came about, the rhetorical uses to which the distinction has been put, and how pure science came to be both more valued by scientists and philosophers. I argue that the distinction between pure and applied science does not stand up to philosophical scrutiny, and that once we relinquish it, we can provide Kuhn with a clear sense of scientific progress. It is not one, though, that will ultimately prove acceptable. For that, societal evaluations of scientific work are needed.

  2. Binomial Squares in Pure Cubic Number Fields

    CERN Document Server

    Lemmermeyer, Franz

    2011-01-01

    Let K = Q(\\omega) with \\omega^3 = m be a pure cubic number field. We show that the elements\\alpha \\in K^\\times whose squares have the form a - \\omega form a group isomorphic to the group of rational points on the elliptic curve E_m: y^2= x^3 - m.

  3. Nigeria Journal of Pure and Applied Physics

    African Journals Online (AJOL)

    Nigeria Journal of Pure and Applied Physics (NJPAP) is a journal dedicated to the ... Variations of surface temparature with solar activity at two stations in the tropics ... Activation energy of psuedobinary alloy of Al-Bi-Se mixed systems · EMAIL ...

  4. Evolution of Pure States into Mixed States

    CERN Document Server

    Liu, J

    1993-01-01

    In the formulation of Banks, Peskin and Susskind, we show that one can construct evolution equations for the quantum mechanical density matrix $\\rho$ with operators which do not commute with hamiltonian which evolve pure states into mixed states, preserve the normalization and positivity of $\\rho$ and conserve energy. Furthermore, it seems to be different from a quantum mechanical system with random sources.

  5. Pure Gravitational Back-Reaction Observables

    CERN Document Server

    Tsamis, N C

    2013-01-01

    After discussing the various issues regarding and requirements on pure quantum gravitational observables in homogeneous-isotropic conditions, we construct a composite operator observable satisfying most of them. We also expand it to first order in the loop counting parameter and suggest it as a physical quantifier of gravitational back-reaction in an initially inflating cosmology.

  6. A fatal case of pure metaphyseal chondroblastoma.

    Science.gov (United States)

    Binesh, Fariba; Moghadam, Reza Nafisi; Abrisham, Jalil

    2013-08-23

    The chondroblastoma (CB) is a rare cartilaginous tumour; it represents less than 1% of all bone tumours. It is mostly localised at the level of the epiphysis of long bones. We report a fatal case of pure metaphyseal CB of the tibia in a 9-year-old boy whose pulmonary metastases developed soon after operative therapy of the primary tumour.

  7. MRI of autosomal dominant pure spastic paraplegia

    DEFF Research Database (Denmark)

    Krabbe, K; Nielsen, J E; Fallentin, E

    1997-01-01

    We examined 16 patients with autosomal dominant pure spastic paraplegia (HSP) and 15 normal controls matched for age and sex using MRI of the brain and spinal cord. Images were assessed qualitatively by two independent radiologists, blinded to the clinical diagnosis. Areas of the brain and corpus...

  8. Exploring the simplest purely baryonic decay processes

    CERN Document Server

    Geng, C Q; Rodrigues, Eduardo

    2016-01-01

    We propose to search for purely baryonic decay processes at the LHCb experiment. In particular, we concentrate on the decay $\\Lambda_b^0\\to p\\bar pn$, which is the simplest purely baryonic decay mode, with solely spin-1/2 baryons involved. We predict its decay branching ratio to be ${\\cal B}(\\Lambda_b^0\\to p\\bar pn)=(2.0^{+0.3}_{-0.2})\\times 10^{-6}$, which is sufficiently large to make the decay mode accessible to LHCb. Though not considered in general, purely baryonic decays could shed light on the puzzle of the baryon number asymmetry in the universe by means of a better understanding of the baryonic nature of our matter world. As such, they constitute a yet unexplored class of decay processes worth investigating. Our study can be extended to the purely baryonic decays of $\\Lambda_b^0\\to p\\bar p \\Lambda$, $\\Lambda_b^0\\to \\Lambda \\bar p\\Lambda$ and $\\Lambda_b^0\\to \\Lambda\\bar \\Lambda\\Lambda$, as well as other similar anti-triplet $b$-baryon decays, such as $\\Xi_b^{0,-}$.

  9. The value of rapid species identification of Mycobacterium tuberculosis by two kinds of multi-locus ;polymerase chain reaction in children%两种多位点聚合酶链反应技术在结核分枝杆菌复合群鉴定中的价值

    Institute of Scientific and Technical Information of China (English)

    李晓迎; 黄延风; 潘云; 朱朝敏; 刘芮汐; 黎梅花; 苏薇

    2014-01-01

    Objective To evaluate the clinical value of multi-locus polymerase chain reaction (PCR) for identifying Mycobacterium tuberculosis complex isolated in children. Methods The isolates were collected and were first determined by PNB/TCH medium. 7-point PCR sites including 16SrRNA, Rv0577, IS1561, Rv1510, Rv1970, Rv3877/8 and Rv3120, and 4-point PCR sites including ropB, RD1, RD8 (present), RD8 (deleted) were used to amplify them by PCR. Results Total of 204 isolates were collected, in which 199 were Mycobacterium tuberculosis, 3 were Mycobacterium bovis, and 2 were non-tuberculous mycobacteria by the PNB/TCH method. 4-point PCR analysis showed that 196 were Mycobacterium tuberculosis, 2 were Mycobacterium bovis, 3 were BCG species and 3 were non-tuberculous mycobacteria. 7-point PCR analysis showed that 191 were Mycobacterium tuberculosis, 2 were Mycobacterium bovis, 3 were BCG species, 4 were African Mycobacterium type I, 1 was Mycobacterium caprae, 1 was Mycobacterium microti and 2 were non-tuberculous mycobacteria. Conclusion Compared with the conventional method, the PCR identification in 4-point PCR method and 7-point PCR method could rapidly identify the BCG among the complex group in children tuberculosis. 7-point PCR method was able to identify all the subspecies of Mycobacterium, except Africa Mycobacterium. 4-point PCR method would be more rapid and easier in the identification of BCG strains.%目的:评价多位点聚合酶链反应(PCR)在儿童结核分枝杆菌复合群鉴定中的临床价值。方法收集经初步鉴定为结核病分支杆菌的临床分离株,分别经传统PNB/TCH鉴定,以及选择7基因位点16SrRNA、Rv0577、IS1561、Rv1510、Rv1970、Rv3877/8及Rv3120,及4基因位点ropB、RD1、RD8(present)、RD8(deleted),采用聚合酶链反应(PCR)对其进行扩增和鉴定。结果共收集204株临床分离菌株,传统PNB/TCH鉴定结果为,结核分枝杆菌199株,牛结核分枝杆菌3株,非结核分枝杆菌2

  10. Comparison of hydrogen storage properties of pure Mg and milled pure Mg

    Indian Academy of Sciences (India)

    Myoung Youp Song; Young Jun Kwak; Seong Ho Lee; Hye Ryoung Park

    2014-06-01

    Hydrogen storage properties of pure Mg were studied at 593 K under 12 bar H2. In order to increase the hydriding and dehydriding rates, pure Mg was ground under hydrogen atmosphere (reactive mechanical grinding, RMG) and its hydrogen storage properties were subsequently investigated. Pure Mg absorbed hydrogen very slowly. At the number of cycles () of 1, pure Mg absorbed 0.05 wt% H for 5 min, 0.08 wt% H for 10 min and 0.29 wt% H for 60 min at 593 K under 12 bar H2. Activation was completed at the fifth cycle. At = 6, pure Mg absorbed 1.76 wt% H for 5 min, 2.17 wt% H for 10 min and 3.40 wt% H for 60 min. The activation of pure Mg after RMG was completed at the sixth cycle. At = 7, pure Mg after RMG absorbed 2.57 wt% H for 5 min, 3.21 wt% H for 10 min and 4.15 wt% H for 60 min.

  11. Epistatic participation of REV1 and REV3 in the formation of UV-induced frameshift mutations in cell cycle-arrested yeast cells

    Energy Technology Data Exchange (ETDEWEB)

    Heidenreich, Erich [Institute of Cancer Research, Department of Medicine I, Medical University of Vienna, Borschkegasse 8a, A-1090 Vienna (Austria)]. E-mail: erich.heidenreich@meduniwien.ac.at; Eisler, Herfried [Institute of Cancer Research, Department of Medicine I, Medical University of Vienna, Borschkegasse 8a, A-1090 Vienna (Austria); Steinboeck, Ferdinand [Institute of Cancer Research, Department of Medicine I, Medical University of Vienna, Borschkegasse 8a, A-1090 Vienna (Austria)

    2006-01-29

    Mutations arising in times of cell cycle arrest may provide a selective advantage for unicellular organisms adapting to environmental changes. For multicellular organisms, however, they may pose a serious threat, in that such mutations in somatic cells contribute to carcinogenesis and ageing. The budding yeast Saccharomyces cerevisiae presents a convenient model system for studying the incidence and the mechanisms of stationary-phase mutation in a eukaryotic organism. Having studied the emergence of frameshift mutants after several days of starvation-induced cell cycle arrest, we previously reported that all (potentially error-prone) translesion synthesis (TLS) enzymes identified in S. cerevisiae did not contribute to the basal level of spontaneous stationary-phase mutations. However, we observed that an increased frequency of stationary-phase frameshift mutations, brought about by a defective nucleotide excision repair (NER) pathway or by UV irradiation, was dependent on Rev3p, the catalytic subunit of the TLS polymerase zeta (Pol {zeta}). Employing the same two conditions, we now examined the effect of deletions of the genes coding for polymerase eta (Pol {eta}) (RAD30) and Rev1p (REV1). In a NER-deficient strain background, the increased incidence of stationary-phase mutations was only moderately influenced by a lack of Pol {eta} but completely reduced to wild type level by a knockout of the REV1 gene. UV-induced stationary-phase mutations were abundant in wild type and rad30{delta} strains, but substantially reduced in a rev1{delta} as well as a rev3{delta} strain. The similarity of the rev1{delta} and the rev3{delta} phenotype and an epistatic relationship evident from experiments with a double-deficient strain suggests a participation of Rev1p and Rev3p in the same mutagenic pathway. Based on these results, we propose that the response of cell cycle-arrested cells to an excess of exo- or endogenously induced DNA damage includes a novel replication

  12. Black Hole Attractors and Pure Spinors

    Energy Technology Data Exchange (ETDEWEB)

    Hsu, Jonathan P.; Maloney, Alexander; Tomasiello, Alessandro

    2006-02-21

    We construct black hole attractor solutions for a wide class of N = 2 compactifications. The analysis is carried out in ten dimensions and makes crucial use of pure spinor techniques. This formalism can accommodate non-Kaehler manifolds as well as compactifications with flux, in addition to the usual Calabi-Yau case. At the attractor point, the charges fix the moduli according to {Sigma}f{sub k} = Im(C{Phi}), where {Phi} is a pure spinor of odd (even) chirality in IIB (A). For IIB on a Calabi-Yau, {Phi} = {Omega} and the equation reduces to the usual one. Methods in generalized complex geometry can be used to study solutions to the attractor equation.

  13. New Perspective of High-Pure Silicon

    Institute of Scientific and Technical Information of China (English)

    2000-01-01

    @@The discovery in the middle of 1950s of the semi-con ducting properties of crystalline silicon has led to the impetu ous development of electric power facilities, the sun-power industry, and particularly, the microelectronic industry. The increasing demand for the high-pure silicon requires the production of synthetic crystals. The raw material for the syn thetic crystals, the so-called technical, or metallurgical silicon, is obtained from quartzite and quartz of superior quality by means of carbon-thermal reduction of silicon using an electric arc discharge. The complexity of the technological process, high cost of the related facilities, worsening environmental pollution, and narrow-mindedness of a raw material company are attributed to the rise in price of the final product-silicon plates, resulting in the fall in the production of high-pure silicon, normally used in sun storage batteries.

  14. Performance of broiler fed pure glycerine

    Directory of Open Access Journals (Sweden)

    Dássia Daiane Oliveira

    2014-02-01

    Full Text Available Two experiments evaluated the pure glycerin in broiler chicken diets. Experiment 1 was a metabolism test using total feces sampling method with 96 male chickens aging from 17 to 25 d when animals were fed on two treatments: diet1 = no glycerin and diet2 = 60g/kg of glycerin. The apparent metabolized energy measured 4015 kcal/kg and the apparent metabolized corrected for nitrogen balance was 3911 kcal/kg. Experiment 2 evaluated weight gains, feed intake and feed conversion in 480 chicks at 6, 20 and 34 d old fed on diets with 0, 40, 80 and 120 g/kg of glycerin. The results indicate that pure glycerin in chicken diets, as a source of energy must take into consideration the age of the animals and it may be added up to 120 g/kg, from 20 to 41 d of age.

  15. Pure and doped boron nitride nanotubes

    Directory of Open Access Journals (Sweden)

    M. Terrones

    2007-05-01

    Full Text Available More than ten years ago, it was suggested theoretically that boron nitride (BN nanotubes could be produced. Soon after, various reports on their synthesis appeared and a new area of nanotube science was born. This review aims to cover the latest advances related to the synthesis of BN nanotubes. We show that these tubes can now be produced in larger amounts and, in particular, that the chemistry of BN tubes appears to be very important to the production of reinforced composites with insulating characteristics. From the theoretical standpoint, we also show that (BN-C heteronanotubes could have important implications for nanoelectronics. We believe that BN nanotubes (pure and doped could be used in the fabrication of novel devices in which pure carbon nanotubes do not perform very efficiently.

  16. The pure relationship and below replacement fertility

    Directory of Open Access Journals (Sweden)

    David R. Hall

    2003-12-01

    interest from demographers. Despite the fact that researchers have extensively modeled recent demographic changes such as skyrocketing divorce rates, rising common-law union formation, delayed childbearing, and the decline to belowreplacement fertility levels, our understanding of the causes of these trends, and the possible connections between them remains theoretically fragmented and incomplete. The goal of this paper is to advance our understanding in this area by exploring the insights on modern family formation of prominent sociologist Anthony Giddens. Specifically, this study examines whether Giddens’ “pure relationship” concept can shed light on the trend toward very low fertility. The results of this inquiry suggest that couples in both marriages and common-law unions who conform to key aspects of Giddens pure relationship are more likely to have uncertain or below-replacement fertility intentions, and less likely to embrace above-replacement fertility goals.

  17. Compact objects in pure Lovelock theory

    CERN Document Server

    Dadhich, Naresh; Chilambwe, Brian

    2016-01-01

    For static fluid interiors of compact objects in pure Lovelock gravity (involving ony one $N$th order term in the equation) we establish similarity in solutions for the critical odd and even $d=2N+1, 2N+2$ dimensions. It turns out that in critical odd $d=2N+1$ dimensions, there can exist no bound distribution with a finite radius, while in critical even $d=2N+2$ dimensions, all solutions have similar behavior. For exhibition of similarity we would compare star solutions for $N =1, 2$ in $d=4$ Einstein and $d=6$ in Gauss-Bonnet theory respectively. We also obtain the pure Lovelock analogue of the Finch-Skea model.

  18. Effective pure states for bulk quantum computation

    Energy Technology Data Exchange (ETDEWEB)

    Knill, E.; Chuang, I.; Laflamme, R.

    1997-11-01

    In bulk quantum computation one can manipulate a large number of indistinguishable quantum computers by parallel unitary operations and measure expectation values of certain observables with limited sensitivity. The initial state of each computer in the ensemble is known but not pure. Methods for obtaining effective pure input states by a series of manipulations have been described by Gershenfeld and Chuang (logical labeling) and Corey et al. (spatial averaging) for the case of quantum computation with nuclear magnetic resonance. We give a different technique called temporal averaging. This method is based on classical randomization, requires no ancilla qubits and can be implemented in nuclear magnetic resonance without using gradient fields. We introduce several temporal averaging algorithms suitable for both high temperature and low temperature bulk quantum computing and analyze the signal to noise behavior of each.

  19. Development of Soybean Highly Pure Powdered Lecithin

    Institute of Scientific and Technical Information of China (English)

    Li Guihua; Gu Keren; Liang Shaohua

    2002-01-01

    This project makes use ofCondensed Soybean Phospholipids (CSP) toproduce highly pure powdered soybean lecithin.In the production technology, the first step is tode-oil by continuous y delivered mater al, higheffective mixing CSP with acetone and circularextraction. The second step is to centrifugallyseparate the lecithin miscellaneous liquid intomiscellaneous oil and solid-state lecithin withacetone. Then the mixing oil can be separatedinto crude oil and acetone by vaporization andcondensation. If the acetone contains too muchwater, it should be rectified for use circularly.Solid state lecithin with acetone can be madeinto highly pure powdered soybean lecithin(acetone insoluble matter >95% ) under thefollowing conditions: vacuum 750mmHg,temperature 60℃, time 20 minutes. Theproduction not only reaches the domestic andoversea quality index, but also has favorablehydrophilic property, which makes it becomenatural food additive and sanitarian nurture.

  20. Photoionizaton of Pure and Doped Helium Nanodroplets

    CERN Document Server

    Mudrich, M

    2014-01-01

    Helium nanodroplets, commonly regarded as the "nearly ideal spectroscopic matrix", are being actively studied for more than two decades now. While they mostly serve as cold, weakly perturbing and transparent medium for high-resolution spectroscopy of embedded molecules, their intrinsic quantum properties such as microscopic superfluidity still are subject-matter of current research. This article reviews recent work on pure and doped He nanodroplets using PI spectroscopy, an approach which has greatly advanced in the past years. While the notion of the ideal spectroscopic matrix mostly no longer holds in this context, photoionization techniques provide detailed insights into the photo-physical properties of pure and doped He nanodroplets and their relaxation dynamics following electronic excitation. Exploiting nowadays available high laser fields, even highly ionized states of matter on the nanoscale can be formed. Our particular focus lies on recent experimental progress including fs time-resolved spectroscop...

  1. How Pure Components Control Polymer Blend Miscibility

    Science.gov (United States)

    White, Ronald; Lipson, Jane; Higgins, Julia

    2012-02-01

    We present insight into some intriguing relationships revealed by our recent studies of polymer mixture miscibility. Applying our simple lattice-based equation of state, we discuss some of the patterns observed over a sample of experimental blends. We focus on the question of how much key information can one determine from a knowledge of just the pure components only, and further, on the role of separate enthalpic and entropic contributions to the miscibility behavior. One interesting correlation connects the value of the difference in pure component energetic parameters with that of the mixed segment interactions, suggesting new possibilities for predictive modeling. We also show how in some cases these two parameter groupings act as separate controls determining the entropy and enthalpy of mixing. Also discussed are the different patterns exhibited for UCST-type and LCST-type blends, these being revealed in some cases by simple examination of the underlying microscopic parameters.

  2. Pure Sensory Stroke due to Lenticulocapsular Hemorrhage

    Institute of Scientific and Technical Information of China (English)

    杨益阶; 王国瑾; 潘松青

    2003-01-01

    @@ Pure sensory stroke (PSS) caused by lenticulo-capsular hemorrhage is rare. In this article, we re-ported 4 patients with PSS due to lenticulocapsularhemorrhage, including 3 men and 1 woman (mean age,58 years; range, 54 to 65 years), whose lesions couldbe identified by head computed tomographic (CT)scan and clinical findings correlated with the radio-logical lesions. All patients except 1 had hyperten-sion.

  3. Acquired pure red cell aplasia in children

    Directory of Open Access Journals (Sweden)

    Sujata R Dafale

    2012-01-01

    Full Text Available Acquired Pure Red Cell Aplasia (PRCA is a rare occurrence in children.This is a case of an eight year old girl child who developed acquired PRCA secondary to long term intake of sodium Valproate. This case is reported to review the causes of PRCA in children and to reconsider the use of drugs of longer duration in children and adults.

  4. Pure waterjet drilling of articular bone

    OpenAIRE

    Biskup, Christian; Dunnen, Steven den; Kraaij, Gert; Kerkhoffs, Gino M. M. J.; Tuijthof, Gabrielle J. M.

    2015-01-01

    The clinical application of waterjet technology for machining tough human tissues, such as articular bone, has advantages, as it produces clean sharp cuts without tissue heating. Additionally, water supply is possible via flexible tubing, which enables minimally invasive surgical access. This pilot study investigates whether drilling bony tissue with pure waterjets is feasible. Water pressures between 20 and 120 MPa with an orifice of 0.6 mm were used to create waterjets to drill blind boring...

  5. Les Problemes de l'alexie pure (Problems of Pure Alexia)

    Science.gov (United States)

    Kremin, Helgard

    1976-01-01

    This article reviews studies done on alexia and describes experiments designed to distinguish qualitatively between pure alexia (marked by the absence of oral and written problems) and other forms of alexia. (Text is in French.) (CLK)

  6. Global empirical potentials from purely rotational measurements

    CERN Document Server

    Dattani, Nikesh S; Sun, Ming; Johnson, Erin R; Roy, Robert J Le; Ziurys, Lucy M

    2014-01-01

    The recent advent of chirped-pulse FTMW technology has created a plethora of pure rotational spectra for molecules for which no vibrational information is known. The growing number of such spectra demands a way to build empirical potential energy surfaces for molecules, without relying on any vibrational measurements. Using ZnO as an example, we demonstrate a powerful technique for efficiently accomplishing this. We first measure eight new ultra-high precision ($\\pm2$ kHz) pure rotational transitions in the $X$-state of ZnO. Combining them with previous high-precision ($\\pm50$ kHz) pure rotational measurements of different transitions in the same system, we have data that spans the bottom 10\\% of the well. Despite not using any vibrational information, our empirical potentials are able to determine the size of the vibrational spacings and bond lengths, with precisions that are more than three and two orders of magnitude greater, respectively, than the most precise empirical values previously known, and the mo...

  7. On constructing purely affine theories with matter

    Science.gov (United States)

    Cervantes-Cota, Jorge L.; Liebscher, D.-E.

    2016-08-01

    We explore ways to obtain the very existence of a space-time metric from an action principle that does not refer to it a priori. Although there are reasons to believe that only a non-local theory can viably achieve this goal, we investigate here local theories that start with Schrödinger's purely affine theory (Schrödinger in Space-time structure. Cambridge UP, Cambridge, 1950), where he gave reasons to set the metric proportional to the Ricci curvature aposteriori. When we leave the context of unified field theory, and we couple the non-gravitational matter using some weak equivalence principle, we can show that the propagation of shock waves does not define a lightcone when the purely affine theory is local and avoids the explicit use of the Ricci tensor in realizing the weak equivalence principle. When the Ricci tensor is substituted for the metric, the equations seem to have only a very limited set of solutions. This backs the conviction that viable purely affine theories have to be non-local.

  8. On constructing purely affine theories with matter

    CERN Document Server

    Cervantes-Cota, Jorge L

    2016-01-01

    We explore ways to obtain the very existence of a space-time metric from an action principle that does not refer to it a priori. Although there are reasons to believe that only a non-local theory can viably achieve this goal, we investigate here local theories that start with Schroedinger's purely affine theory [21], where he gave reasons to set the metric proportional to the Ricci curvature aposteriori. When we leave the context of unified field theory, and we couple the non-gravitational matter using some weak equivalence principle, we can show that the propagation of shock waves does not define a lightcone when the purely affine theory is local and avoids the explicit use of the Ricci tensor in realizing the weak equivalence principle. When the Ricci tensor is substituted for the metric, the equations seem to have only a very limited set of solutions. This backs the conviction that viable purely affine theories have to be non-local.

  9. Pure transperitoneal laparoscopic correction of retrocaval ureter

    Institute of Scientific and Technical Information of China (English)

    DING Guo-qing; XU Li-wei; LI Xin-de; LI Gong-hui; YU Yan-lan; YU Da-min; ZHANG Zhi-gen

    2012-01-01

    Background Retrocaval ureter is a rare congenital abnormality.Operative repair is always suggested in cases of significant functional obstruction.Laparoscopic procedures have been employed as the minimally invasive therapeutic option for retrocaval ureter.However,the laparoscopic techniques for retrocaval ureter might be technically challenging to some surgeons.The aim of this article was to present our experience and surgical techniques of pure transperitoneal laparoscopic pyelopyelostomy and ureteroureterostomy in nine patients with retrocaval ureter.Methods A total of nine patients of retrocaval ureter underwent pure laparoscopic pyelopyelostomy or ureteroureterostomy.The operation was performed with the patients placed in the 70-degree lateral decubitus position via a three port transperitoneal approach with two 10-mm and one 5-mm ports.The distal part of the dilated renal pelvis was transected at the ureteropelvic junction and the ureter was relocated anterior to the inferior vena cava.The tension-free pyeloureteral or ureteroureteral anastomosis was completed with the intracorporal freehand suturing and in situ knot-tying techniques combined with interrupted and continuous fashion.A double J ureteral stent was inserted in an antegrade manner during laparoscopy.Intravenous urography or computerized tomography and renal ultrasonography were performed after 3 months postoperatively.Results All operations were completed laparoscopically,and no open conversion was required.The mean operative time was 135 minutes (range,70-250 minutes),with minimal blood loss (less than 60 ml).No intra-operative complications or significant bleeding occurred.All patients presented mild postoperative pain and quick convalescence.The symptoms disappeared and hydronephrosis decreased substantially after surgery.Conclusions Pure transperitoneal laparoscopic correction for retrocaval ureter was associated with an excellent outcome,minimal invasiveness and short hospital stay.It is

  10. Needleless Electrospinning of Pure and Blended Chitosan

    Science.gov (United States)

    Grimmelsmann, Nils; Homburg, Sarah Vanessa; Ehrmann, Andrea

    2017-08-01

    Chitosan is a biopolymer with bactericidal, fungicidal, hemostatic and other interesting properties. It can be used, e.g., in medical products, as a filter medium, in biotechnological purposes etc. For these possible applications, nanofiber mats with a large inner surface will be most efficient. This is why in a recent project, the electrospinning properties of pure chitosan as well as chitosan blended with poly(ethylene oxide) were investigated. Using a needleless nanospinning process, the technology under examination can be upscaled from lab to industrial scale, enabling direct transfer of the gained experiences to the intended application.

  11. Pure spinor equations to lift gauged supergravity

    Energy Technology Data Exchange (ETDEWEB)

    Rosa, Dario; Tomasiello, Alessandro [Dipartimento di Fisica, Università di Milano-Bicocca, and INFN, sezione di Milano-Bicocca,I-20126 Milano (Italy)

    2014-01-31

    We rewrite the equations for ten-dimensional supersymmetry in a way formally identical to a necessary and sufficient G-structure system in N=2 gauged supergravity, where all four-dimensional quantities are replaced by combinations of pure spinors and fluxes in the internal space. This provides a way to look for lifts of BPS solutions without having to reduce or even rewrite the ten-dimensional action. In particular this avoids the problem of consistent truncation, and the introduction of unphysical gravitino multiplets.

  12. Are all maximally entangled states pure?

    Science.gov (United States)

    Cavalcanti, D.; Brandão, F. G. S. L.; Terra Cunha, M. O.

    2005-10-01

    We study if all maximally entangled states are pure through several entanglement monotones. In the bipartite case, we find that the same conditions which lead to the uniqueness of the entropy of entanglement as a measure of entanglement exclude the existence of maximally mixed entangled states. In the multipartite scenario, our conclusions allow us to generalize the idea of the monogamy of entanglement: we establish the polygamy of entanglement, expressing that if a general state is maximally entangled with respect to some kind of multipartite entanglement, then it is necessarily factorized of any other system.

  13. Purely cubic action for string field theory

    Science.gov (United States)

    Horowitz, G. T.; Lykken, J.; Rohm, R.; Strominger, A.

    1986-01-01

    It is shown that Witten's (1986) open-bosonic-string field-theory action and a closed-string analog can be written as a purely cubic interaction term. The conventional form of the action arises by expansion around particular solutions of the classical equations of motion. The explicit background dependence of the conventional action via the Becchi-Rouet-Stora-Tyutin operator is eliminated in the cubic formulation. A closed-form expression is found for the full nonlinear gauge-transformation law.

  14. Synthesis of highly phase pure BSCCO superconductors

    Science.gov (United States)

    Dorris, S.E.; Poeppel, R.B.; Prorok, B.C.; Lanagan, M.T.; Maroni, V.A.

    1995-11-21

    An article and method of manufacture (Bi, Pb)-Sr-Ca-Cu-O superconductor are disclosed. The superconductor is manufactured by preparing a first powdered mixture of bismuth oxide, lead oxide, strontium carbonate, calcium carbonate and copper oxide. A second powdered mixture is then prepared of strontium carbonate, calcium carbonate and copper oxide. The mixtures are calcined separately with the two mixtures then combined. The resulting combined mixture is then subjected to a powder in tube deformation and thermal processing to produce a substantially phase pure (Bi, Pb)-Sr-Ca-Cu-O superconductor. 5 figs.

  15. Quantum correlations support probabilistic pure state cloning

    Energy Technology Data Exchange (ETDEWEB)

    Roa, Luis, E-mail: lroa@udec.cl [Departamento de Física, Universidad de Concepción, Casilla 160-C, Concepción (Chile); Alid-Vaccarezza, M.; Jara-Figueroa, C. [Departamento de Física, Universidad de Concepción, Casilla 160-C, Concepción (Chile); Klimov, A.B. [Departamento de Física, Universidad de Guadalajara, Avenida Revolución 1500, 44420 Guadalajara, Jalisco (Mexico)

    2014-02-01

    The probabilistic scheme for making two copies of two nonorthogonal pure states requires two auxiliary systems, one for copying and one for attempting to project onto the suitable subspace. The process is performed by means of a unitary-reduction scheme which allows having a success probability of cloning different from zero. The scheme becomes optimal when the probability of success is maximized. In this case, a bipartite state remains as a free degree which does not affect the probability. We find bipartite states for which the unitarity does not introduce entanglement, but does introduce quantum discord between some involved subsystems.

  16. Pure and Public, Popular and personal

    DEFF Research Database (Denmark)

    Eriksson, Birgit

    2013-01-01

    In the article I reexamine the traditional aesthetical and political critiques of popular culture and reevaluate the social and communicative potential of bestselling cultural artifacts such as highly popular television series. First, I sketch the alleged aesthetic and social problems of popular...... and the exclusions of the public sphere. I argue that the ideals of a pure aesthetic and a public sphere neglect issues that are crucial to the type of commonality at stake in popular cultural artifacts: personal issues, social conflicts, and what is pleasurable to the senses or has to do with emotions. Third, I...

  17. Pure seminoma: A review and update

    Science.gov (United States)

    2011-01-01

    Pure seminoma is a rare pathology of the young adult, often discovered in the early stages. Its prognosis is generally excellent and many therapeutic options are available, especially in stage I tumors. High cure rates can be achieved in several ways: standard treatment with radiotherapy is challenged by surveillance and chemotherapy. Toxicity issues and the patients' preferences should be considered when management decisions are made. This paper describes firstly the management of primary seminoma and its nodal involvement and, secondly, the various therapeutic options according to stage. PMID:21819630

  18. [XX 'pure' gonadal dysgenesis and XYY syndrome].

    Science.gov (United States)

    Itoh, Naoki; Tsukamoto, Taiji

    2004-02-01

    XX 'pure' gonadal dysgenesis is a disease related to Turner's syndrome. Patients of this disease are characterized by normal female external genitalia, bilateral streak gonads, amenorrhea and sexual infantilism. Recently, it has been reported that point mutations of the FSH receptor gene may be one of cause of this disease. The relationship between criminal behavior and XYY syndrome is still controversial. Increased incidence of disomic sperm in 47,XYY males has been reported by fluorescent in situ hybridization(FISH). Genetic counseling should be done when they undergo intracytoplasmic sperm injection.

  19. Synthesis of pure Portland cement phases

    DEFF Research Database (Denmark)

    Wesselsky, Andreas; Jensen, Ole Mejlhede

    2009-01-01

    Pure phases commonly found in Portland cement clinkers are often used to test cement hydration behaviour in simplified experimental conditions. The synthesis of these phases is covered in this paper, starting with a description of phase relations and possible polymorphs of the four main phases...... in Portland cement, i.e. tricalcium silicate, dicalcium silicate, tricalcium aluminate and tetracalcium alumino ferrite. Details of the The process of solid state synthesis are is described in general including practical advice on equipment and techniques. Finally In addition, some exemplary mix compositions...

  20. Powder injection molding of pure titanium

    Institute of Scientific and Technical Information of China (English)

    GUO Shibo; DUAN Bohua; HE Xinbo; QU Xuanhui

    2009-01-01

    An improved wax-based binder was developed for powder injection molding of pure titanium. A critical powder loading of 69 vol.% and a pseudo-plastic flow behavior were obtained by the feedstock based on the binder. The injection molding, debinding, and sintering process were studied. An ideal control of carbon and oxygen contents was achieved by thermal debinding in vacuum atmosphere (10-3 Pa). The mechanical properties of as-sintered specimens were less than those of titanium made by the conventional press-sintering process. Good shape retention and ±0.04 mm dimension deviation were achieved.

  1. Study on pure silica core optical fibers

    Institute of Scientific and Technical Information of China (English)

    2008-01-01

    An optimal refractive index profile of pure silica core optical fiber (PSCF) was designed, in combination with the characters of the modified chemical vapor deposition (MCVD) process. Techniques of preform fabrication by a new furnace round heating MCVD process and fiber drawing process were reviewed. Difficulties in doping fluorine in silica, widening the depressed-index cladding and maintaining the index of fiber core were discussed. Methods used to overcome these difficulties were given at the same time. Additionally, the optimal refractive index profiles of PSCF were presented.

  2. Purely cubic action for string field theory

    Science.gov (United States)

    Horowitz, G. T.; Lykken, J.; Rohm, R.; Strominger, A.

    1986-01-01

    It is shown that Witten's (1986) open-bosonic-string field-theory action and a closed-string analog can be written as a purely cubic interaction term. The conventional form of the action arises by expansion around particular solutions of the classical equations of motion. The explicit background dependence of the conventional action via the Becchi-Rouet-Stora-Tyutin operator is eliminated in the cubic formulation. A closed-form expression is found for the full nonlinear gauge-transformation law.

  3. The Pure Virtual Braid Group Is Quadratic

    CERN Document Server

    Lee, Peter

    2011-01-01

    If an augmented algebra K over Q is filtered by powers of its augmentation ideal I, the associated graded algebra gr_I K need not in general be quadratic: although it is generated in degree 1, its relations may not be generated by homogeneous relations of degree 2. In this paper we give a criterion which is equivalent to gr_I K being quadratic. We apply this criterion to the group algebra of the pure virtual braid group (also known as the quasi-triangular group), and show that the corresponding associated graded algebra is quadratic.

  4. Purely Four-dimensional Viable Anomaly Mediation

    CERN Document Server

    Harnik, R; Pierce, A T; Harnik, Roni; Murayama, Hitoshi; Pierce, Aaron

    2002-01-01

    Anomaly mediation of supersymmetry breaking solves the supersymmetric flavor problem thanks to its ultraviolet-insensitivity. However, it suffers from two problems: sleptons have negative masses-squared, and there are likely bulk moduli that spoil the framework. Here, we present the first fully ultraviolet-insensitive model of anomaly mediation with positive slepton masses-squared in a purely four-dimensional framework. Our model is based on the additional D-term contributions to the sparticle masses of Arkani-Hamed, Kaplan, HM, and Nomura, and the conformal sequestering mechanism of Luty and Sundrum.

  5. Measure and integral with purely ordinal scales

    CERN Document Server

    Denneberg, Dieter

    2008-01-01

    We develop a purely ordinal model for aggregation functionals for lattice valued functions, comprising as special cases quantiles, the Ky Fan metric and the Sugeno integral. For modeling findings of psychological experiments like the reflection effect in decision behaviour under risk or uncertainty, we introduce reflection lattices. These are complete linear lattices endowed with an order reversing bijection like the reflection at 0 on the real interval $[-1,1]$. Mathematically we investigate the lattice of non-void intervals in a complete linear lattice, then the class of monotone interval-valued functions and their inner product.

  6. Electrostatic Precipitation in Nearly Pure Gaseous Nitrogen

    Science.gov (United States)

    Buhler, Charles; Calle, Carlos; Clements, Sid; Cox, Bobby; Ritz, Mindy

    2008-01-01

    Electrostatic precipitation was performed in a nearly pure gaseous nitrogen system as a possible remedy for black dust contaminant from high pressure 6000 psi lines at the NASA Kennedy Space Center. The results of a prototype electrostatic precipitator that was built and tested using nitrogen gas at standard atmospheric pressures is presented. High voltage pulsed waveforms are generated using a rotating spark gap system at 30 Hz. A unique dust delivery system utilizing the Venturi effect was devised that supplies a given amount of dust per unit time for testing purposes.

  7. Defective spatial imagery with pure Gerstmann's syndrome.

    Science.gov (United States)

    Carota, Antonio; Di Pietro, Marie; Ptak, Radek; Poglia, Davide; Schnider, Armin

    2004-01-01

    Gerstmann's syndrome comprises finger agnosia, peripheral agraphia, anarithmetia, and right-left confusion. We here report a single-case study of an 85-year-old ambidextrous man who exhibited pure Gerstmann's syndrome (i.e., without aphasia) 10 weeks after a stroke involving the angular gyrus in the left parietal lobe. We hypothesize that, in this case, the main cognitive denominator of Gerstmann's tetrad was a severe dysfunction in mental rotation and translation. This report provides further evidence for the spatial nature of Gerstmann's syndrome.

  8. On the importance of PURE - Public Understanding of Renewable Energy

    Energy Technology Data Exchange (ETDEWEB)

    Broman, Lars; Kandpal, Tara C.

    2013-09-15

    Public understanding of science (PUS) is a central concept among science communicators. Public understanding of renewable energy (PURE) is proposed as an important sub-concept of PUS. The aim of this paper is to interest and invite renewable energy scientists to join a PURE research project. Four separate important questions for a PURE research project can be identified: (A) Is PURE important? (B) Which issues of PURE are the most important ones, according to renewable energy scientists? (C) What understanding of renewable energy has the general public today, worldwide? (D) How to achieve PURE?.

  9. The pure relationship and below replacement fertility

    Directory of Open Access Journals (Sweden)

    Hall, David R.

    2003-01-01

    Full Text Available Of the many changes which have characterized the second demographic transition, shifts in fertility and union formation have attracted a great deal of interest from demographers. Despite the fact that researchers have extensively modeled recent demographic changes such as skyrocketing divorce rates, rising common-law union formation, delayed childbearing, and the decline to below-replacement fertility levels, our understanding of the causes of these trends, and the possible connections between them remains theoretically fragmented and incomplete. The goal of this paper is to advance our understanding in this area by exploring the insights on modern family formation of prominent sociologist Anthony Giddens. Specifically, this study examines whether Giddens' "pure relationship" concept can shed light on the trend toward very low fertility. The results of this inquiry suggest that couples in both marriages and common-law unions who conform to key aspects of Giddens pure relationship are morel likely to have uncertain or below-replacement fertility intentions, and less likely to embrace above-replacement fertility goals.

  10. (Not so) pure Lovelock Kasner metrics

    CERN Document Server

    Camanho, Xián O; Molina, Alfred

    2016-01-01

    The gravitational interaction is expected to be modified for very short distances. This is particularly important in situations in which the curvature of spacetime is large in general, such as close to the initial cosmological singularity. The gravitational dynamics is then captured by the higher curvature terms in the action, making it difficult to reliably extrapolate any prediction of general relativity. In this note we review pure Lovelock equations for Kasner-type metrics. These equations correspond to a single $N$th order Lovelock term in the action in $d=2N+1,\\,2N+2$ dimensions, and they capture the relevant gravitational dynamics when aproaching the big-bang singularity within the Lovelock family of theories. These are classified in several isotropy types. Some of these families correspond to degenerate classes of solutions, such that their dynamics is not completely determined by the equations of pure Lovelock gravity. Instead, these Kasner solutions become sensitive to the subleading terms in the Lo...

  11. LHC Signals of Pure Gravity Mediation

    Directory of Open Access Journals (Sweden)

    Feldstein Brian

    2013-05-01

    Full Text Available Evidence is mounting that natural supersymmetry at the weak scale is not realized in nature. This evidence comes from collider searches, a lack of new flavor changing neutral current effects, and now also the size of the measured Higgs mass. On the other hand, string theory suggests that supersymmetry might be present at some energy scale, and gauge coupling unification and dark matter imply that that energy scale may be relatively low. The simplest model to address all of these hints is arguably “pure gravity mediation”, in which the scalar superpartner masses are taken to be perhaps 100 TeV, with gauginos automatically acquiring loop factor suppressed masses of order TeV. The gauginos might then be the only superpartners accessible to the LHC. Unification and LSP dark matter are maintained (with a wino LSP at the cost of a 10−5 or 10−6 fine tuning. Here I will discuss the structure and LHC phenomenology of pure gravity mediation.

  12. MRI of autosomal dominant pure spastic paraplegia

    Energy Technology Data Exchange (ETDEWEB)

    Krabbe, K.; Fallentin, E.; Herning, M. [Danish Research Center of Magnetic Resonance, Hvidovre Hospital, Kettegaard alle 30, DK-2650 Hvidovre (Denmark); Nielsen, J.E.; Fenger, K. [Institute of Medical Biochemistry and Genetics, Laboratory of Medical Genetics, Section of Neurogenetics, University of Copenhagen (Denmark)

    1997-10-01

    We examined 16 patients with autosomal dominant pure spastic paraplegia (HSP) and 15 normal controls matched for age and sex using MRI of the brain and spinal cord. Images were assessed qualitatively by two independent radiologists, blinded to the clinical diagnosis. Areas of the brain and corpus callosum on one midsagittal slice and the area of the brain on one axial slice were measured and a ``corpus-callosum index`` expressing the size of the corpus callosum relative to that of the brain was calculated. Cross-sectional areas and anteroposterior and transverse diameters of the spinal cord at the levels of C 2, C 5, T 3, T 6, T 9 and T 11 were measured. No significant differences between patients and controls were found on qualitative evaluation of the images. The patients had a significantly smaller corpus callosum and ``corpus-callosum index`` than controls. This finding, not reported previously, might indicate that the disease process in pure HSP is not confined to the spinal cord. The anteroposterior diameters of the spinal cord at T 3 and T 9 were significantly smaller in patients than in controls. This might correspond to the degeneration of the pyramidal tracts and the dorsal columns described at neuropathological examination. (orig.). With 1 fig., 3 tabs.

  13. Development of Soybean Highly Pure Powdered Lecithin

    Institute of Scientific and Technical Information of China (English)

    LiGuihua; GuKeren; LiangShaohua

    2002-01-01

    This project makes use of Condensed Soybean Phospholipids(CSP)to produce highly pure powdered soybean lecithin.In the production technology,the first step is to de-oil by continuously delivered material,high effective mixing CSP with acetone and circular extraction.The second step is to centrifugally separate the lecithin miscellaneous liquid into miscellaneous oil and solid-state lecithin with acetone.Then the mixing oil can be separated into crude oil and acetone by vaporization and condensation.If the acetone contains too much water,it shoud be rectified for use circularly.Solid state lecithin with acetone can be made into highly pure powdered soybean lecithin (acetone insoluble matter >95%)under the following conditions:vacuum 750mmHg,temperature 60℃,time 20 minutes.The production not only reaches the domestic and oversea quality index,but also has favorable hydrophilic property,which makes it become natural food additive and sanitarian nurture.

  14. Chapter 12. Pure Tap Water Hydraulic Systems and Applications

    DEFF Research Database (Denmark)

    Conrad, Finn; Adelstorp, Anders

    1997-01-01

    Presentation of developed a modern pure tap water hydraulic components (Nessie), systems and industrial applications.......Presentation of developed a modern pure tap water hydraulic components (Nessie), systems and industrial applications....

  15. Pure Red Cell Aplasia Caused by Acute Hepatitis A

    OpenAIRE

    Lee, Tae Heon; Oh, Suk Joong; Hong, Soojung; Lee, Kyu Bek; Park, Hyosoon; Woo, Hee-Yeon

    2011-01-01

    Pure red cell aplasia is characterized as a normocytic anemia associated with reticulocytopenia and the absence of erythroblasts in the bone marrow. Pure red cell aplasia can be induced by various causes such as thymoma, connective tissue disease, viral infection, lymphoma, and adverse drug reactions. There have been only a few reports of pure red cell aplasia associated with acute viral hepatitis A. In Korea, no case of pure red cell aplasia caused by acute hepatitis A has yet been reported....

  16. Hologram of a pure state black hole

    Science.gov (United States)

    Roy, Shubho R.; Sarkar, Debajyoti

    2015-12-01

    In this paper, we extend the Hamilton-Kabat-Lifschytz-Lowe (HKLL) holographic smearing function method to reconstruct (quasi)local anti-de Sitter bulk scalar observables in the background of a large anti-de Sitter black hole formed by null shell collapse (a "pure state" black hole), from the dual conformal field theory which is undergoing a sudden quench. In particular, we probe the near horizon and subhorizon bulk locality. First, we construct local bulk operators from the conformal field theory in the leading semiclassical limit, N →∞ . Then, we look at effects due to the finiteness of N , where we propose a suitable coarse-graining prescription involving early and late time cutoffs to define semiclassical bulk observables which are approximately local, their departure from locality being nonperturbatively small in N . Our results have important implications on the black hole information problem.

  17. Anomalous rectification in a purely electronic memristor

    Science.gov (United States)

    Wang, Jingrui; Pan, Ruobing; Cao, Hongtao; Wang, Yang; Liang, Lingyan; Zhang, Hongliang; Gao, Junhua; Zhuge, Fei

    2016-10-01

    An anomalous rectification was observed in a purely electronic memristive device Ti/ZnO/Pt. It could be due to (1) an Ohmic or quasi-Ohmic contact at the ZnO/Pt interface and (2) a Schottky contact at the Ti/ZnO interface. The Ohmic contact originates from the reduction of ZnO occurring in the whole film instead of only at the Ti/ZnO interface. The Schottky contact may come from moisture adsorbed in the nanoporous ZnO. The conduction in the electroformed device is controlled by the carrier trapping/detrapping of the trap sites, inducing a poor rectification and high nonlinearity. Furthermore, a complementary resistive switching was achieved.

  18. Momentum of the Pure Radiation Field

    Directory of Open Access Journals (Sweden)

    Lehnert B.

    2007-01-01

    Full Text Available The local momentum equation of the pure radiation field is considered in terms of an earlier elaborated and revised electromagnetic theory. In this equation the contribution from the volume force is found to vanish in rectangular geometry, and to become nonzero but negligible in cylindrical geometry. Consequently the radiated momentum is due to the Poynting vector only, as in conventional electrodynamics. It results in physically relevant properties of a photon model having an angular momentum (spin. The Poynting vector concept is further compared to the quantized momentum concept for a free particle, as represented by a spatial gradient operator acting on the wave function. However, this latter otherwise successful concept leads to difficulties in the physical interpretation of known and expected photon properties such as the spin, the negligible loss of transverse momentum across a bounding surface, and the Lorentz invariance.

  19. Evolving spacetimes with purely radial tension

    Directory of Open Access Journals (Sweden)

    B. Nasre Esfahani

    2000-12-01

    Full Text Available   In this study time-dependent and spherically symmetric solutions of the Einstein field equations in an anisotropic background with a purely radial tension are presented. There exist three classes of solutions,1 An open spacetime with a wormhole at its center. 2 A conical spacetime. 3 A closed spacetime. These inhomogeneous solutions are reduced to FRW spacetimes in matter-dominated era, asymptotically. Therefore, they can be used to describe local inhomogeneities that are not considered in the standard model. For the wormhole solution. it is explicity shown that the considered matter is non-exotic, that is, it does not violate the energy conditions. Also, static solutions are studied. There is only one static solution,a conical spacetime. In this case, the matter satisfies the energy condition critically.

  20. Pure White Cell Aplasia and Necrotizing Myositis

    Directory of Open Access Journals (Sweden)

    Peter Geon Kim

    2016-01-01

    Full Text Available Pure white cell aplasia (PWCA is a rare hematologic disorder characterized by the absence of neutrophil lineages in the bone marrow with intact megakaryopoiesis and erythropoiesis. PWCA has been associated with autoimmune, drug-induced, and viral exposures. Here, we report a case of a 74-year-old female who presented with severe proximal weakness without pain and was found to have PWCA with nonspecific inflammatory necrotizing myositis and acute liver injury on biopsies. These findings were associated with a recent course of azithromycin and her daily use of a statin. Myositis improved on prednisone but PWCA persisted. With intravenous immunoglobulin and granulocyte-colony stimulating factor therapies, her symptoms and neutrophil counts improved and were sustained for months.

  1. Fock expansion of multimode pure Gaussian states

    Energy Technology Data Exchange (ETDEWEB)

    Cariolaro, Gianfranco; Pierobon, Gianfranco, E-mail: gianfranco.pierobon@unipd.it [Università di Padova, Padova (Italy)

    2015-12-15

    The Fock expansion of multimode pure Gaussian states is derived starting from their representation as displaced and squeezed multimode vacuum states. The approach is new and appears to be simpler and more general than previous ones starting from the phase-space representation given by the characteristic or Wigner function. Fock expansion is performed in terms of easily evaluable two-variable Hermite–Kampé de Fériet polynomials. A relatively simple and compact expression for the joint statistical distribution of the photon numbers in the different modes is obtained. In particular, this result enables one to give a simple characterization of separable and entangled states, as shown for two-mode and three-mode Gaussian states.

  2. Hologram of a pure state black hole

    CERN Document Server

    Roy, Shubho R

    2015-01-01

    In this paper we extend the HKLL holographic smearing function method to reconstruct (quasi)local AdS bulk scalar observables in the background of a large AdS black hole formed by null shell collapse (a "pure state" black hole), from the dual CFT which is undergoing a sudden quench. In particular, we probe the near horizon and sub-horizon bulk locality. First we construct local bulk operators from the CFT in the leading semiclassical limit, $N\\rightarrow\\infty$. Then we look at effects due to the finiteness of $N$, where we propose a suitable coarse-graining prescription involving early and late time cut-offs to define semiclassical bulk observables which are approximately local; their departure from locality being non-perturbatively small in $N$. Our results have important implications on the black hole information problem.

  3. Purely antiferromagnetic magnetoelectric random access memory

    Science.gov (United States)

    Kosub, Tobias; Kopte, Martin; Hühne, Ruben; Appel, Patrick; Shields, Brendan; Maletinsky, Patrick; Hübner, René; Liedke, Maciej Oskar; Fassbender, Jürgen; Schmidt, Oliver G.; Makarov, Denys

    2017-01-01

    Magnetic random access memory schemes employing magnetoelectric coupling to write binary information promise outstanding energy efficiency. We propose and demonstrate a purely antiferromagnetic magnetoelectric random access memory (AF-MERAM) that offers a remarkable 50-fold reduction of the writing threshold compared with ferromagnet-based counterparts, is robust against magnetic disturbances and exhibits no ferromagnetic hysteresis losses. Using the magnetoelectric antiferromagnet Cr2O3, we demonstrate reliable isothermal switching via gate voltage pulses and all-electric readout at room temperature. As no ferromagnetic component is present in the system, the writing magnetic field does not need to be pulsed for readout, allowing permanent magnets to be used. Based on our prototypes, we construct a comprehensive model of the magnetoelectric selection mechanisms in thin films of magnetoelectric antiferromagnets, revealing misfit induced ferrimagnetism as an important factor. Beyond memory applications, the AF-MERAM concept introduces a general all-electric interface for antiferromagnets and should find wide applicability in antiferromagnetic spintronics.

  4. Synaptic devices based on purely electronic memristors

    Energy Technology Data Exchange (ETDEWEB)

    Pan, Ruobing [Ningbo Institute of Materials Technology and Engineering, Chinese Academy of Sciences, Ningbo 315201 (China); Institute of Materials Science, School of Materials Science and Engineering, Shanghai University, Shanghai 200072 (China); Li, Jun; Zhuge, Fei, E-mail: zhugefei@nimte.ac.cn, E-mail: h-cao@nimte.ac.cn; Zhu, Liqiang; Liang, Lingyan; Zhang, Hongliang; Gao, Junhua; Cao, Hongtao, E-mail: zhugefei@nimte.ac.cn, E-mail: h-cao@nimte.ac.cn; Fu, Bing; Li, Kang [Ningbo Institute of Materials Technology and Engineering, Chinese Academy of Sciences, Ningbo 315201 (China)

    2016-01-04

    Memristive devices have been widely employed to emulate biological synaptic behavior. In these cases, the memristive switching generally originates from electrical field induced ion migration or Joule heating induced phase change. In this letter, the Ti/ZnO/Pt structure was found to show memristive switching ascribed to a carrier trapping/detrapping of the trap sites (e.g., oxygen vacancies or zinc interstitials) in ZnO. The carrier trapping/detrapping level can be controllably adjusted by regulating the current compliance level or voltage amplitude. Multi-level conductance states can, therefore, be realized in such memristive device. The spike-timing-dependent plasticity, an important Hebbian learning rule, has been implemented in this type of synaptic device. Compared with filamentary-type memristive devices, purely electronic memristors have potential to reduce their energy consumption and work more stably and reliably, since no structural distortion occurs.

  5. Bipedal nanowalker by pure physical mechanisms

    CERN Document Server

    Cheng, Juan; Hou, Ruizheng; Efremov, Artem; Liu, Ruchuan; van der Maarel, Johan RC; Wang, Zhisong

    2013-01-01

    Artificial nanowalkers are inspired by biomolecular counterparts from living cells, but remain far from comparable to the latter in design principles. The walkers reported to date mostly rely on chemical mechanisms to gain a direction; they all produce chemical wastes. Here we report a light-powered DNA bipedal walker based on a design principle derived from cellular walkers. The walker has two identical feet and the track has equal binding sites; yet the walker gains a direction by pure physical mechanisms that autonomously amplify an intra-site asymmetry into a ratchet effect. The nanowalker is free of any chemical waste. It has a distinct thermodynamic feature that it possesses the same equilibrium before and after operation, but generates a truly non-equilibrium distribution during operation. The demonstrated design principle exploits mechanical effects and is adaptable for use in other nanomachines.

  6. 7 CFR 201.64 - Pure live seed.

    Science.gov (United States)

    2010-01-01

    ... 7 Agriculture 3 2010-01-01 2010-01-01 false Pure live seed. 201.64 Section 201.64 Agriculture..., Inspections, Marketing Practices), DEPARTMENT OF AGRICULTURE (CONTINUED) FEDERAL SEED ACT FEDERAL SEED ACT REGULATIONS Tolerances § 201.64 Pure live seed. The tolerance for pure live seed shall be determined...

  7. Tractable Quantification of Entanglement for Multipartite Pure States

    Institute of Scientific and Technical Information of China (English)

    JIANG Nian-Quan; WANG Yu-Jian; ZHENG Yi-Zhuang; CAI Gen-Chang

    2008-01-01

    We present kth-order entanglement measure and global kth-order entanglement measure for multipartite pure states, and extend Bennett's measure of partial entropy for bipartite pure states to a multipartite case. These measures are computable and can effectively classify and quantify the entanglement of multipartite pure states.

  8. Social cognition in "pure" delusional disorder.

    Science.gov (United States)

    Bömmer, Isabel; Brüne, Martin

    2006-09-01

    Introduction. Delusional disorders are characterised by monothematic, "encapsulated" and incorrigible false beliefs and misinterpretations of social signals. Due to the rarity of cases with "pure" delusional disorder (DD) in clinical settings most studies of social cognition in delusional patients have focused on patients with paranoid schizophrenia. In the present study we sought to examine emotion recognition, theory of mind abilities, and pragmatic language comprehension in patients with delusional disorder. Methods. Social cognition was assessed in 21 patients recruited over a 3-year period who were diagnosed with delusional disorder, paranoid, erotomanic, or jealous type. In addition to an emotion recognition and theory of mind test battery, we included a novel German Proverb Test, which has been found indicative of subtle theory of mind deficits in schizophrenic patients. Executive functioning was assessed using the Wisconsin Card Sorting Test (WCST). Psychopathology was measured using the Positive and Negative Symptoms Scale (PANSS). Patients' task performance was compared to a group of 22 healthy control persons paralleled for verbal intelligence, education, and age. Results. Patients with DD made significantly more perseverative errors in the WCST, they performed more poorly on the theory of mind tasks and the proverb test, but were unimpaired in basic emotion recognition abilities relative to controls. When executive functioning was co-varied out, the group differences in theory of mind disappeared, whereas the greater propensity of patients with DD to interpret proverbs literally remained significant. Conclusions. In "pure" DD the basic social cognitive abilities appear to be preserved. Difficulties in metaphorical speech comprehension and executive functioning could, however, indicate more subtle social cognitive deficits in these patients.

  9. Hole transport in pure and doped hematite

    Science.gov (United States)

    Liao, Peilin; Carter, Emily A.

    2012-07-01

    Hematite (α-Fe2O3) is a promising candidate for use in photovoltaic (PV) and photoelectrochemical devices. Its poor conductivity is one major drawback. Doping hematite either p-type or n-type greatly enhances its measured conductivity and is required for potential p-n junctions in PVs. Here, we study hole transport in pure and doped hematite using an electrostatically embedded cluster model with ab initio quantum mechanics (unrestricted Hartree-Fock theory). Consistent with previous work, the model suggests that hole hopping is via oxygen anions for pure hematite. The activation energy for hole mobility is predicted to be at least 0.1 eV higher than the activation energy for electron mobility, consistent with the trend observed in experiments. We examine four dopants—magnesium(II), nickel(II), copper(II), and manganese(II/III) in direct cation substitution sites—to gain insight into the mechanism by which conductivity is improved. The activation energies are used to assess qualitative effects of different dopants. The hole carriers are predicted to be attracted to O anions near the dopants. The magnitude of the trapping effect is similar among the four dopants in their +2 oxidation states. The multivalent character of Mn doping facilitates local hole transport around Mn centers via a low-barrier O-Mn-O pathway, which suggests that higher hole mobility can be achieved with increasing Mn doping concentration, especially when a network of these low-barrier pathways is produced. Our results suggest that the experimentally observed conductivity increase in Mg-, Ni-, and Cu-doped p-type hematite is mostly due to an increase in hole carriers rather than improved mobility, and that Mg-, Ni-, and Cu-doping perform similarly, while the conductivity of Mn-doped hematite might be significantly improved in the high doping concentration limit.

  10. Production of pure hydrogen by ethanol dehydrogenation

    Energy Technology Data Exchange (ETDEWEB)

    Santacesaria, E.; Carotenuto, G.; Tesser, R.; Di Serio, M. [Naples ' ' Federico II' ' Univ. (Italy). Dept. of Chemistry

    2010-12-30

    Hydrogen production from bio-ethanol is one of the most promising renewable processes to generate electricity using fuel cells. In this work, we have studied the production of pure hydrogen as by product of ethanol dehydrogenation reaction. This reaction is promoted by copper based catalysts and according to the catalyst used and the operative conditions gives place to acetaldehyde or ethyl acetate as main products. We studied in particular the performance of a commercial copper/copper chromite catalyst, supported on alumina and containing barium chromate as promoter that has given the best results. By operating at low pressure and temperature with short residence times, acetaldehyde is more selectively produced, while, by increasing the pressure (10-30 bars), the temperature (200-260 C) and the residence time (about 100 (grams hour/mol) of ethanol contact time) the selectivity is shifted to the production of ethyl acetate. However, in both cases pure hydrogen is obtained, as by product, that can easily be separated. Hydrogen obtained in this way is exempt of CO and can be directly fed to fuel cells without any inconvenience. In this work, runs performed in different operative conditions have been reported with the scope to individuate the best conditions. A carrier of H{sub 2} 6% in N{sub 2} has been used. The studied catalyst has also shown a good thermal stability with respect to sintering phenomena, that generally occurs during the dehydrogenation on other copper catalysts. Hydrogen productivities of 8-39 mol{sub H2} (gcat){sup -1}(h){sup -1} have been obtained for the explored temperature range 200-260 C. At last, the most accredited reaction mechanism is reported and discussed on the basis of the obtained results. (orig.)

  11. Accelerating degradation rate of pure iron by zinc ion implantation

    Science.gov (United States)

    Huang, Tao; Zheng, Yufeng; Han, Yong

    2016-01-01

    Pure iron has been considered as a promising candidate for biodegradable implant applications. However, a faster degradation rate of pure iron is needed to meet the clinical requirement. In this work, metal vapor vacuum arc technology was adopted to implant zinc ions into the surface of pure iron. Results showed that the implantation depth of zinc ions was about 60 nm. The degradation rate of pure iron was found to be accelerated after zinc ion implantation. The cytotoxicity tests revealed that the implanted zinc ions brought a slight increase on cytotoxicity of the tested cells. In terms of hemocompatibility, the hemolysis of zinc ion implanted pure iron was lower than 2%. However, zinc ions might induce more adhered and activated platelets on the surface of pure iron. Overall, zinc ion implantation can be a feasible way to accelerate the degradation rate of pure iron for biodegradable applications. PMID:27482462

  12. AgraPure Mississippi Biomass Project

    Energy Technology Data Exchange (ETDEWEB)

    Blackwell,D.A; Broadhead, L.W.; Harrell, W.J.

    2006-03-31

    The AgraPure Mississippi Biomass project was a congressionally directed project, initiated to study the utilization of Mississippi agricultural byproducts and waste products in the production of bio-energy and to determine the feasibility of commercialization of these agricultural byproducts and waste products as feedstocks in the production of energy. The final products from this project were two business plans; one for a Thermal plant, and one for a Biodiesel/Ethanol plant. Agricultural waste fired steam and electrical generating plants and biodiesel plants were deemed the best prospects for developing commercially viable industries. Additionally, oil extraction methods were studied, both traditional and two novel techniques, and incorporated into the development plans. Mississippi produced crop and animal waste biomasses were analyzed for use as raw materials for both industries. The relevant factors, availability, costs, transportation, storage, location, and energetic value criteria were considered. Since feedstock accounts for more than 70 percent of the total cost of producing biodiesel, any local advantages are considered extremely important in developing this particular industry. The same factors must be evaluated in assessing the prospects of commercial operation of a steam and electrical generation plant. Additionally, the access to the markets for electricity is more limited, regulated and tightly controlled than the liquid fuel markets. Domestically produced biofuels, both biodiesel and ethanol, are gaining more attention and popularity with the consuming public as prices rise and supplies of foreign crude become less secure. Biodiesel requires no major modifications to existing diesel engines or supply chain and offers significant environmental benefits. Currently the biodiesel industry requires Federal and State incentives to allow the industry to develop and become self-sustaining. Mississippi has available the necessary feedstocks and is

  13. Pure Culture Fermentation of Brined Cucumbers.

    Science.gov (United States)

    Etchells, J L; Costilow, R N; Anderson, T E; Bell, T A

    1964-11-01

    The relative abilities of Pediococcus cerevisiae, Lactobacillus plantarum, L. brevis, and several other species of lactic acid bacteria to grow and produce acid in brined cucumbers were evaluated in pure culture fermentations. Such fermentations were made possibly by the use of two techniques, gamma radiation (0.83 to 1.00 Mrad) and hot-water blanching (66 to 80 C for 5 min), designed first to rid the cucumbers of naturally occurring, interfering, and competitive microbial groups prior to brining, followed by inoculation with the desired lactic acid bacteria. Of the nine species tested, strains of the three common to cucumber fermentations, P. cerevisiae, L. plantarum, and L. brevis, grew to the highest populations, and produced the highest levels of brine acidity and the lowest pH values in fermentations at 5.4 to 5.6% NaCl by weight; also, their sequence of active development in fermentations, with the use of a three-species mixture for inoculation, was in the species order just named. This sequence of occurrence was similar to that estimated by others for natural fermentations. The rates of growth and acid production in fermentations with a mixture of P. cerevisiae, L. plantarum, and L. brevis increased as the incubation temperature was increased from 21 to 27 to 32 C; however, the maximal populations and acidities attained were essentially the same for fermentations at each temperature. Further, these same three species were found to be the most salt tolerant of those tested; their upper limit for appreciable growth and measurable acid production was about 8% salt, whereas thermophilic species such as L. thermophilus, L. lactis, L. helveticus, L. fermenti, and L. delbrueckii exhibited a much lower salt tolerance, ranging from about 2.5 to 4.0%. However, certain strains of L. delbrueckii grew very rapidly in cucumbers brined at 2.5 to 3.0% salt, and produced sufficient acid in about 30 hr at 48 C to reduce the brine pH from above 7.0 to below 4.0. An inexpensive

  14. Pure Land or Pure Mind?: Locus of Awakening and American Popular Religious Culture

    Directory of Open Access Journals (Sweden)

    Richard K. Payne

    2015-03-01

    Full Text Available This essay has two sections, each with its own distinct goal, forming an interrelated whole. The first introduces “locus of awakening,” and applies it to the relative success in America of Zen and Tibetan Buddhisms, compared to Pure Land Buddhism. The explanatory power of the concept is demonstrated by also considering Soka Gakkai. The difference between popular culture treatments of Zen and Tibetan Buddhisms, and Pure Land Buddhism was the problematic leading to identifying locus of awakening as an aspect of Buddhist thought. The second section locates it in the history of Buddhist thought, demonstrating that it is not a modern conceptualization of the path, not one created in response to Euro–American religio-therapeutic culture. Locus of awakening is, instead, part of the continuity of the Buddhist tradition, and does not fall on one side or the other of the sometimes overdrawn dichotomy between Asian and American Buddhisms.

  15. Hyperbolic billiards of pure D=4 supergravities

    CERN Document Server

    Henneaux, M; Henneaux, Marc; Julia, Bernard

    2003-01-01

    We compute the billiards that emerge in the Belinskii-Khalatnikov-Lifshitz (BKL) limit for all pure supergravities in D=4 spacetime dimensions, as well as for D=4, N=4 supergravities coupled to k (N=4) Maxwell supermultiplets. We find that just as for the cases N=0 and N=8 investigated previously, these billiards can be identified with the fundamental Weyl chambers of hyperbolic Kac-Moody algebras. Hence, the dynamics is chaotic in the BKL limit. A new feature arises, however, which is that the relevant Kac-Moody algebra can be the Lorentzian extension of a twisted affine Kac-Moody algebra, while the N=0 and N=8 cases are untwisted. This occurs for N=5, N=3 and N=2. An understanding of this property is provided by showing that the data relevant for determining the billiards are the restricted root system and the maximal split subalgebra of the finite-dimensional real symmetry algebra characterizing the toroidal reduction to D=3 spacetime dimensions. To summarize: split symmetry controls chaos.

  16. Purely antiferromagnetic magnetoelectric random access memory

    Science.gov (United States)

    Kosub, Tobias; Kopte, Martin; Hühne, Ruben; Appel, Patrick; Shields, Brendan; Maletinsky, Patrick; Hübner, René; Liedke, Maciej Oskar; Fassbender, Jürgen; Schmidt, Oliver G.; Makarov, Denys

    2017-01-01

    Magnetic random access memory schemes employing magnetoelectric coupling to write binary information promise outstanding energy efficiency. We propose and demonstrate a purely antiferromagnetic magnetoelectric random access memory (AF-MERAM) that offers a remarkable 50-fold reduction of the writing threshold compared with ferromagnet-based counterparts, is robust against magnetic disturbances and exhibits no ferromagnetic hysteresis losses. Using the magnetoelectric antiferromagnet Cr2O3, we demonstrate reliable isothermal switching via gate voltage pulses and all-electric readout at room temperature. As no ferromagnetic component is present in the system, the writing magnetic field does not need to be pulsed for readout, allowing permanent magnets to be used. Based on our prototypes, we construct a comprehensive model of the magnetoelectric selection mechanisms in thin films of magnetoelectric antiferromagnets, revealing misfit induced ferrimagnetism as an important factor. Beyond memory applications, the AF-MERAM concept introduces a general all-electric interface for antiferromagnets and should find wide applicability in antiferromagnetic spintronics. PMID:28045029

  17. Reexamination of pure qubit work extraction.

    Science.gov (United States)

    Frenzel, Max F; Jennings, David; Rudolph, Terry

    2014-11-01

    Many work extraction or information erasure processes in the literature involve the raising and lowering of energy levels via external fields. But even if the actual system is treated quantum mechanically, the field is assumed to be classical and of infinite strength, hence not developing any correlations with the system or experiencing back-actions. We extend these considerations to a fully quantum mechanical treatment by studying a spin-1/2 particle coupled to a finite-sized directional quantum reference frame, a spin-l system, which models an external field. With this concrete model together with a bosonic thermal bath, we analyze the back-action a finite-size field suffers during a quantum-mechanical work extraction process and the effect this has on the extractable work and highlight a range of assumptions commonly made when considering such processes. The well-known semiclassical treatment of work extraction from a pure qubit predicts a maximum extractable work W=kTlog2 for a quasistatic process, which holds as a strict upper bound in the fully quantum mechanical case and is attained only in the classical limit. We also address the problem of emergent local time dependence in a joint system with a globally fixed Hamiltonian.

  18. Crystal Structure Refinement of Synthetic Pure Gyrolite

    Directory of Open Access Journals (Sweden)

    Arūnas Baltušnikas

    2015-03-01

    Full Text Available Pure calcium silicate hydrate – gyrolite was prepared under the saturated steam pressure at 473 K temperature in rotating autoclave. The crystal structure of synthetic gyrolite was investigated by X-ray diffraction and refined using Le Bail, Rietveld and crystal structure modelling methods. Background, peak shape parameters and verification of the space group were performed by the Le Bail full pattern decomposition. Peculiarities of interlayer sheet X of gyrolite unit cell were highlighted by Rietveld refinement. Possible atomic arrangement in interlayer sheet X was solved by global optimization method. Most likelihood crystal structure model of gyrolite was calculated by final Rietveld refinement. It was crystallographically showed, that cell parameters are: a = 0.9713(2 nm, b = 0.9715(2 nm, c = 2.2442(3 nm and alfa = 95.48(2 º, beta = 91.45(2 °, gamma = l20.05(3 °.DOI: http://dx.doi.org/10.5755/j01.ms.21.1.5460

  19. Non-universalities in pure gravity mediation

    Energy Technology Data Exchange (ETDEWEB)

    Evans, Jason L.; Olive, Keith A. [University of Minnesota, William I. Fine Theoretical Physics Institute, School of Physics and Astronomy, Minneapolis, MN (United States); Ibe, Masahiro [University of Tokyo, ICRR, Kashiwa (Japan); University of Tokyo, Kavli IPMU (WPI), TODIAS, Kashiwa (Japan); Yanagida, Tsutomu T. [University of Tokyo, Kavli IPMU (WPI), TODIAS, Kashiwa (Japan)

    2013-10-15

    The simplest model of pure gravity mediation contains only two free parameters: the gravitino mass and tan{beta}. Scalar masses are universal at some high energy renormalization scale and gaugino masses are determined through anomalies and depend on the gravitino mass and the gauge couplings. This theory requires a relatively large gravitino mass (m{sub 3/2}>or similar 300 TeV) and a limited range in tan{beta}{approx_equal}1.7-2.5. Here we generalize the theory to allow for non-universality in the Higgs soft masses. This introduces zero, one or two new free parameters associated with Higgs soft masses. This generalization allows us to greatly increase the allowed range in tan{beta} and it allows one to find viable solutions with lower m{sub 3/2}. The latter is important if we hope to find a low energy signal from gluinos. Some special cases of these non-universalities are suggestive of Higgs bosons as Nambu-Goldstone bosons or a partial no-scale structure for the Higgs doublets. Thus, we probe signatures at the weak scale and structures at the GUT and/or Planck scale. (orig.)

  20. Foaming of mixtures of pure hydrocarbons

    Science.gov (United States)

    Robinson, J. V.; Woods, W. W.

    1950-01-01

    Mixtures of pure liquid hydrocarbons are capable of foaming. Nine hydrocarbons were mixed in pairs, in all possible combinations, and four proportions of each combination. These mixtures were sealed in glass tubes, and the foaming was tested by shaking. Mixtures of aliphatic with other aliphatic hydrocarbons, or of alkyl benzenes with other alkyl benzenes, did not foam. Mixtures of aliphatic hydrocarbons with alkyl benzenes did foam. The proportions of the mixtures greatly affected the foaming, the maximum foaming of 12 of 20 pairs being at the composition 20 percent aliphatic hydrocarbon, 80 percent alkyl benzene. Six seconds was the maximum foam lifetime of any of these mixtures. Aeroshell 120 lubricating oil was fractionated into 52 fractions and a residue by extraction with acetone in a fractionating extractor. The index of refraction, foam lifetime, color, and viscosity of these fractions were measured. Low viscosity and high index fractions were extracted first. The viscosity of the fractions extracted rose and the index decreased as fractionation proceeded. Foam lifetimes and color were lowest in the middle fractions. Significance is attached to the observation that none of the foam lifetimes of the fractions or residue is as high as the foam lifetime of the original Aeroshell, indicating that the foaming is not due to a particular foaming constituent, but rather to the entire mixture.

  1. Triplet Pairing in pure neutron matter

    CERN Document Server

    Srinivas, Sarath

    2016-01-01

    We study the zero temperature BCS gaps for the triplet channel in pure neutron matter using Similarity Renormalization Group (SRG) evolved interactions. We use the dependence of the results on the SRG resolution scale, as a tool to analyze medium and many-body corrections. In particular, we study the effects of including the three-body interactions at leading order, which appear at N2LO in the Chiral EFT, as well as that of the first-order self-energy corrections on the zero temperature gap. In addition we also extract the transition temperature as a function of densities and verify the BCS scaling of the zero temperature gaps to the transition temperature. We observe that the self-energy effects are very crucial in order to reduce the SRG resolution scale dependence of the results, while the three-body effects at the leading order do not change the two-body resolution scale dependence. On the other hand, the results depend strongly on the three-body cut-off, emphasizing the importance of the missing higher-o...

  2. Pure gauge spin-orbit couplings

    Science.gov (United States)

    Shikakhwa, M. S.

    2017-01-01

    Planar systems with a general linear spin-orbit interaction (SOI) that can be cast in the form of a non-Abelian pure gauge field are investigated using the language of non-Abelian gauge field theory. A special class of these fields that, though a 2×2 matrix, are Abelian are seen to emerge and their general form is given. It is shown that the unitary transformation that gauges away these fields induces at the same time a rotation on the wave function about a fixed axis but with a space-dependent angle, both of which being characteristics of the SOI involved. The experimentally important case of equal-strength Rashba and Dresselhaus SOI (R+D SOI) is shown to fall within this special class of Abelian gauge fields, and the phenomenon of persistent spin helix (PSH) that emerges in the presence of this latter SOI in a plane is shown to fit naturally within the general formalism developed. The general formalism is also extended to the case of a particle confined to a ring. It is shown that the Hamiltonian on a ring in the presence of equal-strength R+D SOI is unitarily equivalent to that of a particle subject to only a spin-independent but θ-dependent potential with the unitary transformation relating the two being again the space-dependent rotation operator characteristic of R+D SOI.

  3. Electron Acoustic Waves in Pure Ion Plasmas

    Science.gov (United States)

    Anderegg, F.; Affolter, M.; Driscoll, C. F.; O'Neil, T. M.; Valentini, F.

    2012-10-01

    Electron Acoustic Waves (EAWs) are the low-frequency branch of near-linear Langmuir (plasma) waves: the frequency is such that the complex dielectric function (Dr, Di) has Dr= 0; and ``flattening'' of f(v) near the wave phase velocity vph gives Di=0 and eliminates Landau damping. Here, we observe standing axisymmetric EAWs in a pure ion column.footnotetextF. Anderegg, et al., Phys. Rev. Lett. 102, 095001 (2009). At low excitation amplitudes, the EAWs have vph˜1.4 v, in close agreement with near-linear theory. At moderate excitation strengths, EAW waves are observed over a range of frequencies, with 1.3 v vphvph.footnotetextF. Valentini et al., arXiv:1206.3500v1. Large amplitude EAWs have strong phase-locked harmonic content, and experiments will be compared to same-geometry simulations, and to simulations of KEENfootnotetextB. Afeyan et al., Proc. Inertial Fusion Sci. and Applications 2003, A.N.S. Monterey (2004), p. 213. waves in HEDLP geometries.

  4. Photoionization Dynamics in Pure Helium Droplets

    Energy Technology Data Exchange (ETDEWEB)

    Peterka, Darcy S.; Kim, Jeong Hyun; Wang, Chia C.; Poisson,Lionel; Neumark, Daniel M.

    2007-02-04

    The photoionization and photoelectron spectroscopy of pure He droplets are investigated at photon energies between 24.6 eV (the ionization energy of He) and 28 eV. Time-of-flight mass spectra and photoelectron images were obtained at a series of molecular beam source temperatures and pressures to assess the effect of droplet size on the photoionization dynamics. At source temperatures below 16 K, the photoelectron images are dominated by fast electrons produced via direct ionization of He atoms, with a small contribution from very slow electrons with kinetic energies below 1 meV arising from an indirect mechanism. The fast photoelectrons have as much as 0.5 eV more kinetic energy than those from atomic He at the same photon energy. This result is interpreted and simulated within the context of a 'dimer model', in which one assumes vertical ionization from two nearest neighbor He atoms to the attractive region of the He2+ potential energy curve. Possible mechanism for the slow electrons, which were also seen at energies below IE(He), are discussed, including vibrational autoionizaton of Rydberg states comprising an electron weakly bound to the surface of a large HeN+ core.

  5. Shifting from preconceptions to pure wonderment.

    Science.gov (United States)

    Porr, Caroline

    2005-07-01

    The author reflects upon her role as a public health nurse striving to attain practice authenticity. Client assessment and nursing interventions were seemingly sufficient until she became curious about 'Who is this person sitting across from me?' and 'What are her experiences in the world as a lone parent living in poverty at the margins of society?' The author begins to think that she could shift from mere client investigation to pure wonderment about the Other by imagining herself as a researcher, an explorer of another's life world. Ultimately this process enables her to enhance the 'caring' in her practice with the knowledge gained of the perceptions and meanings impoverished clients assigned to their everyday lives. Jurgen Habermas' theory of communicative competence serves as the reference map guiding exploration. The author uses Habermas' theoretical principles of intersubjective mutuality--the validity claims of comprehensibility, truth, sincerity, and legitimacy. Comprehensibility embodies understanding, an attitude of unconditional acceptance, and care respect of another's individual person and self-defined reality. Intersubjective mutuality also requires that one dwell in the moment with the Other, satisfied that communication is founded on truth. Sincerity implies fostering the Other's expression of authentic self apart from oppressive distracters. Lastly, legitimacy reconciles the author's altruistic pursuit to know the Other's ontological truth with the reality of the present world.

  6. Triplet pairing in pure neutron matter

    Science.gov (United States)

    Srinivas, Sarath; Ramanan, S.

    2016-12-01

    We study the zero-temperature BCS gaps for the triplet channel in pure neutron matter using similarity renormalization group (SRG) evolved interactions. We use the dependence of the results on the SRG resolution scale as a tool to analyze medium and many-body corrections. In particular, we study the effects of including the three-body interactions at leading order, which appear at next-to-next-to leading order (N2LO) in the chiral effective field theory (EFT), as well as that of the first-order self-energy corrections on the zero-temperature gap. In addition we also extract the transition temperature as a function of densities and verify the BCS scaling of the zero-temperature gaps to the transition temperature. We observe that the self-energy effects are very crucial in order to reduce the SRG resolution scale dependence of the results, while the three-body effects at the leading order do not change the two-body resolution scale dependence. On the other hand, the results depend strongly on the three-body cutoff, emphasizing the importance of the missing higher-order three-body effects. We also observe that self-energy effects reduce the overall gap as well as shift the gap closure to lower densities.

  7. Twofold symmetries of the pure gravity action

    Science.gov (United States)

    Cheung, Clifford; Remmen, Grant N.

    2017-01-01

    We recast the action of pure gravity into a form that is invariant under a twofold Lorentz symmetry. To derive this representation, we construct a general parameterization of all theories equivalent to the Einstein-Hilbert action up to a local field redefinition and gauge fixing. We then exploit this freedom to eliminate all interactions except those exhibiting two sets of independently contracted Lorentz indices. The resulting action is local, remarkably simple, and naturally expressed in a field basis analogous to the exponential parameterization of the nonlinear sigma model. The space of twofold Lorentz invariant field redefinitions then generates an infinite class of equivalent representations. By construction, all off-shell Feynman diagrams are twofold Lorentz invariant while all on-shell tree amplitudes are automatically twofold gauge invariant. We extend our results to curved spacetime and calculate the analogue of the Einstein equations. While these twofold invariances are hidden in the canonical approach of graviton perturbation theory, they are naturally expected given the double copy relations for scattering amplitudes in gauge theory and gravity.

  8. Non-universalities in pure gravity mediation

    Science.gov (United States)

    Evans, Jason L.; Ibe, Masahiro; Olive, Keith A.; Yanagida, Tsutomu T.

    2013-10-01

    The simplest model of pure gravity mediation contains only two free parameters: the gravitino mass and tan β. Scalar masses are universal at some high energy renormalization scale and gaugino masses are determined through anomalies and depend on the gravitino mass and the gauge couplings. This theory requires a relatively large gravitino mass ( m 3/2≳300 TeV) and a limited range in tan β≃1.7-2.5. Here we generalize the theory to allow for non-universality in the Higgs soft masses. This introduces zero, one or two new free parameters associated with Higgs soft masses. This generalization allows us to greatly increase the allowed range in tan β and it allows one to find viable solutions with lower m 3/2. The latter is important if we hope to find a low energy signal from gluinos. Some special cases of these non-universalities are suggestive of Higgs bosons as Nambu-Goldstone bosons or a partial no-scale structure for the Higgs doublets. Thus, we probe signatures at the weak scale and structures at the GUT and/or Planck scale.

  9. Non-Universalities in Pure Gravity Mediation

    CERN Document Server

    Evans, Jason L; Ibe, Masahiro; Yanagida, Tsutomu T

    2013-01-01

    The simplest model of pure gravity mediation contains only two free parameters: the gravitino mass and \\tan\\beta. Scalar masses are universal at some high energy renormalization scale and gaugino masses are determined through anomalies and depend on the gravitino mass and the gauge couplings. This theory requires a relatively large gravitino mass (m_{3/2}\\gtrsim 300\\,TeV) and a limited range in \\tan \\beta \\simeq 1.7--2.5. Here we generalize the theory to allow for non-universality in the Higgs soft masses. This introduces zero, one or two new free parameters associated with Higgs soft masses. This generalization allows us to greatly increase the allowed range in \\tan \\beta and it allows one to find viable solutions with lower m_{3/2}. The latter is important if we hope to find a low energy signal from gluinos. Some special cases of these non-universalities are suggestive of Higgs bosons as Nambu-Goldstone bosons or a partial no-scale structure for the Higgs doublets. Thus, we probe signatures at the weak scal...

  10. Pure Electric and Pure Magnetic Resonances in Near-Infrared Metal Double-Triangle Metamaterial Arrays

    Institute of Scientific and Technical Information of China (English)

    CAO Zhi-Shen; PAN Jian; CHEN Zhuo; ZHAN Peng; MIN Nai-Ben; WANG Zhen-Lin

    2011-01-01

    @@ We experimentally and numerically investigate the optical properties of metamaterial arrays composed of double partially-overlapped metallic nanotriangles fabricated by an angle-resolved nanosphere lithography.We demonstrate that each double-triangle can be viewed as an artificial magnetic element analogous to the conventional metal split-ring-resonator.It is shown that under normal-incidence conditions,individual double-triangle can exhibit a strong local magnetic resonance,but the collective response of the metamaterial arrays is purely electric because magnetic resonances of the two double-triangles in a unit cell having opposite openings are out of phase.For oblique incidences the metamaterial arrays are shown to support a pure magnetic response at the same frequency band.Therefore,switchable electric and magnetic resonances are achieved in double-triangle arrays.Moreover,both the electric and magnetic resonances axe shown to allow for a tunability over a large spectral range down to near-infrared.%We experimentally and numerically investigate the optical properties of metamaterial arrays composed of double partially-overlapped metallic nanotriangles fabricated by an angle-resolved nanosphere lithography. We demonstrate that each double-triable can be viewed as an artificial magnetic element analogous to the conventional metal split-ring-resonator. It is shown that under normal-incidence conditions, individual double-triangle can exhibit a strong local magnetic resonance, but the collective response of the metamaterial arrays is purely electric because magnetic resonances of the two double-triangles in a unit cell having opposite openings are out of phase.For oblique incidences the metamaterial arrays are shown to support a pure magnetic response at the same frequency band. Therefore, switchable electric and magnetic resonances are achieved in double-triangle arrays.Moreover, both the electric and magnetic resonances are shown to allow for a tunability over

  11. Characterizing commercial pureed foods: sensory, nutritional, and textural analysis.

    Science.gov (United States)

    Ettinger, Laurel; Keller, Heather H; Duizer, Lisa M

    2014-01-01

    Dysphagia (swallowing impairment) is a common consequence of stroke and degenerative diseases such as Parkinson's and Alzheimer's. Limited research is available on pureed foods, specifically the qualities of commercial products. Because research has linked pureed foods, specifically in-house pureed products, to malnutrition due to inferior sensory and nutritional qualities, commercial purees also need to be investigated. Proprietary research on sensory attributes of commercial foods is available; however direct comparisons of commercial pureed foods have never been reported. Descriptive sensory analysis as well as nutritional and texture analysis of commercially pureed prepared products was performed using a trained descriptive analysis panel. The pureed foods tested included four brands of carrots, of turkey, and two of bread. Each commercial puree was analyzed for fat (Soxhlet), protein (Dumas), carbohydrate (proximate analysis), fiber (total fiber), and sodium content (Quantab titrator strips). The purees were also texturally compared with a line spread test and a back extrusion test. Differences were found in the purees for sensory attributes as well as nutritional and textural properties. Findings suggest that implementation of standards is required to reduce variability between products, specifically regarding the textural components of the products. This would ensure all commercial products available in Canada meet standards established as being considered safe for swallowing.

  12. Pure analgesics in a rheumatological outpatient clinic

    Directory of Open Access Journals (Sweden)

    M.A. Cimmino

    2011-09-01

    Full Text Available Objective: Pure analgesics are only rarely used by Italian clinicians and this holds true also for rheumatologists. This work is concerned with an evaluation of the use of analgesics in a rheumatological outpatient clinic during the period 1989-1999. Methods: The records of 1705 patients consecutively seen at the clinic were downloaded on a specifically built website. Results: 4469 visits were considered. In 260 of them (5.8%, analgesics were prescribed to 234 (13.7% patients. The number of patients with a prescription of analgesics steadily increased during the years 1989-1999. The diagnoses in patients assuming analgesics were: osteoarthritis (47.1%, inflammatory arthritis (24.2%, soft tissue rheumatisms (13.7%, nonspecific arthralgia/myalgia (7.5%, and connective tissue diseases (2.6%. Peripheral analgesics were used in 188 (82.5% patients and central analgesics were used in the remaining 40 patients (17.5%. Analgesic drugs were used mainly in degenerative joint conditions. The indications for analgesics in the 55 patients with inflammatory arthrits were: (a partial or total remission of arthritis; for this reason non-steroidal anti-inflammatory drugs were no longer required in 18 patients; (b to increase the analgesic effect of NSAIDs in 23 patients; (c contraindications to NSAIDs in 14 patients (renal failure in 2 patients, gastritis in 10, allergy and bleeding in the remaining two. Conclusions: About 14% of our outpatients were treated with analgesics with an increasing trend in the examined period. The main indications for analgesics are degenerative conditions but they can be used also in selected patients with arthritis.

  13. Peccei-Quinn symmetric pure gravity mediation

    Energy Technology Data Exchange (ETDEWEB)

    Evans, Jason L.; Olive, Keith A. [University of Minnesota, William I. Fine Theoretical Physics Institute, School of Physics and Astronomy, Minneapolis, MN (United States); Ibe, Masahiro [University of Tokyo, ICRR, Kashiwa (Japan); University of Tokyo, Kavli IPMU (WPI), TODIAS, Kashiwa (Japan); Yanagida, Tsutomu T. [University of Tokyo, Kavli IPMU (WPI), TODIAS, Kashiwa (Japan)

    2014-07-15

    Successful models of pure gravity mediation (PGM) with radiative electroweak symmetry breaking can be expressed with as few as two free parameters, which can be taken as the gravitinomass and tan β. These models easily support a 125-126 GeV Higgs mass at the expense of a scalar spectrum in the multi-TeV range and a much lighter wino as the lightest supersymmetric particle. In these models, it is also quite generic that the Higgs mixing mass parameter, μ, which is determined by the minimization of the Higgs potential is also in the multi-TeV range. For μ > 0, the thermal relic density of winos is too small to account for the darkmatter. The same is true for μ < 0 unless the gravitinomass is of order 500 TeV. Here, we consider the origin of a multi-TeV μ parameter arising from the breakdown of a Peccei-Quinn (PQ) symmetry. A coupling of the PQ-symmetry breaking field, P, to the MSSM Higgs doublets, naturally leads to a value of μ ∝ left angle P right angle {sup 2}/M{sub P} ∝ O(100) TeV and of the order that is required in PGM models. In this case, axions make up the dark matter or some fraction of the dark matter with the remainder made up from thermal or non-thermal winos. We also provide solutions to the problem of isocurvature fluctuations with axion dark matter in this context. (orig.)

  14. On the relation between hybrid and pure spinor string theory

    Energy Technology Data Exchange (ETDEWEB)

    Gerigk, Sebastian [ETH Zuerich (Switzerland). Inst. fuer Theoretische Physik; Kirsch, Ingo [Deutsches Elektronen-Synchrotron (DESY), Hamburg (Germany)

    2009-12-15

    In this paper we revisit Berkovits' pure spinor formalism in lower dimensions. We are particularly interested in relating a six-dimensional pure spinor action previously constructed in the literature to other superstring formalisms. In order to gain some insight into six-dimensional pure spinors, we first derive their action by gauge-fixing the classical six-dimensional Green-Schwarz action. We then consider a hybrid pure spinor construction in which the spacetime symmetries of six of the ten dimensions are described in pure spinor variables, while the remaining four dimensions are parameterized in terms of RNS variables. We relate this pure spinor formalism to the Berkovits-Vafa-Witten hybrid formalism of string theory on R{sup 6} x T{sup 4}. (orig.)

  15. Factors contributing to the rheology of tomato puree

    OpenAIRE

    Abson, Rachael

    2013-01-01

    Tomato (Solanum Iycopersicum) puree is created by homogenising the flesh of tomato fruits. The viscosity of this material and the fibrous content is of commercial interest. Tomato puree consists of suspended particles (consisting of whole cells, broken cells and cellular fragments) in an aqueous serum. The contribution of the non-soluble and soluble material to tomato puree rheology was studied with reference to the varying composition of solids and firmness of tomato fruit at four stages of ...

  16. Are all noisy quantum states obtained from pure ones?

    CERN Document Server

    Henderson, L; Popescu, S

    2001-01-01

    We ask what type of mixed quantum states can arise when a number of separated parties start by sharing a pure quantum state and then this pure state becomes contaminated by noise. We show that not all mixed states arise in this way. This is even the case if the separated parties actively try to degrade their initial pure state by arbitrary local actions and classical communication.

  17. ActionScript Developer's Guide to PureMVC

    CERN Document Server

    Hall, Cliff

    2011-01-01

    Gain hands-on experience with PureMVC, the popular open source framework for developing maintainable applications with a Model-View-Controller architecture. In this concise guide, PureMVC creator Cliff Hall teaches the fundamentals of PureMVC development by walking you through the construction of a complete non-trivial Adobe AIR application. Through clear explanations and numerous ActionScript code examples, you'll learn best practices for using the framework's classes in your day-to-day work. Discover how PureMVC enables you to focus on the purpose and scope of your application, while the f

  18. Typical pure nonequilibrium steady states and irreversibility for quantum transport.

    Science.gov (United States)

    Monnai, Takaaki; Yuasa, Kazuya

    2016-07-01

    It is known that each single typical pure state in an energy shell of a large isolated quantum system well represents a thermal equilibrium state of the system. We show that such typicality holds also for nonequilibrium steady states (NESS's). We consider a small quantum system coupled to multiple infinite reservoirs. In the long run, the total system reaches a unique NESS. We identify a large Hilbert space from which pure states of the system are to be sampled randomly and show that the typical pure states well describe the NESS. We also point out that the irreversible relaxation to the unique NESS is important to the typicality of the pure NESS's.

  19. Typical pure nonequilibrium steady states and irreversibility for quantum transport

    Science.gov (United States)

    Monnai, Takaaki; Yuasa, Kazuya

    2016-07-01

    It is known that each single typical pure state in an energy shell of a large isolated quantum system well represents a thermal equilibrium state of the system. We show that such typicality holds also for nonequilibrium steady states (NESS's). We consider a small quantum system coupled to multiple infinite reservoirs. In the long run, the total system reaches a unique NESS. We identify a large Hilbert space from which pure states of the system are to be sampled randomly and show that the typical pure states well describe the NESS. We also point out that the irreversible relaxation to the unique NESS is important to the typicality of the pure NESS's.

  20. Pure Culture Fermentation of Green Olives1

    Science.gov (United States)

    Etchells, J. L.; Borg, A. F.; Kittel, I. D.; Bell, T. A.; Fleming, H. P.

    1966-01-01

    The method previously developed by us for the pure-culture fermentation of brined cucumbers and other vegetables has been applied successfully to Manzanillo variety olives. Field-run grade fruit was processed first by conventional procedures to remove most of the bitterness. Then the relative abilities of Lactobacillus plantarum, L. brevis, Pediococcus cerevisiae, and Leuconostoc mesenteroides to become established and produce acid in both heat-shocked (74 C for 3 min) and unheated olives, brined at 4.7 to 5.9% NaCl (w/v basis), were evaluated. The heat-shock treatment not only proved effective in ridding the fruit of naturally occurring, interfering, and competitive microbial groups prior to brining and inoculation, but also made the olives highly fermentable with respect to growth and acid production by the introduced culture, particularly L. plantarum. Of the four species used as inocula, L. plantarum was by far the most vigorous in fermentation ability. It consistently produced the highest levels of brine acidity (1.0 to 1.2% calculated as lactic acid) and the lowest pH values (3.8 to 3.9) during the fermentation of heat-shocked olives. Also, L. plantarum completely dominated fermentations when used in two-species (with P. cerevisiae) and three-species (with P. cerevisiae and L. brevis) combinations as inocula. In contrast, when L. plantarum was inoculated into the brines of unheated olives it failed to become properly established; the same was true for the other species tested, but even to a more pronounced degree. L. brevis was the only species used that failed to develop in brines of both heat-shocked and unheated olives. Modification of the curing brine by the addition of lactic acid at the outset, either with or without dextrose, led to a much earlier onset of fermentation with accompanying acid development, as compared to treatments with dextrose alone or nonadditive controls. Reasons for the marked improvement of the fermentability of Manzanillo olives

  1. Auditory Repetition Priming Is Impaired in Pure Alexic Patients

    Science.gov (United States)

    Swick, Diane; Miller, Kimberly M.; Larsen, Jary

    2004-01-01

    Alexia without agraphia, or ''pure'' alexia, is an acquired impairment in reading that leaves writing skills intact. Repetition priming for visually presented words is diminished in pure alexia. However, it is not possible to verify whether this priming deficit is modality-specific or modality independent because reading abilities are compromised.…

  2. AdS pure spinor superstring in constant backgrounds

    Energy Technology Data Exchange (ETDEWEB)

    Chandia, Osvaldo [Departamento de Ciencias, Facultad de Artes Liberales, Universidad Adolfo Ibáñez,Facultad de Ingeniería y Ciencias, Universidad Adolfo Ibáñez,Diagonal Las Torres 2640, Peñalolén, Santiago (Chile); Bevilaqua, L. Ibiapina [Escola de Ciências e Tecnologia, Universidade Federal do Rio Grande do Norte,Caixa Postal 1524, 59072-970, Natal, RN (Brazil); Vallilo, Brenno Carlini [Facultad de Ciencias Exactas, Departamento de Ciencias Físicas, Universidad Andres Bello,Republica 220, Santiago (Chile)

    2014-06-05

    In this paper we study the pure spinor formulation of the superstring in AdS{sub 5}×S{sup 5} around point particle solutions of the classical equations of motion. As a particular example we quantize the pure spinor string in the BMN background.

  3. The study of antioxidant activity of multicomponent vegetable puree

    Directory of Open Access Journals (Sweden)

    A. V. Trushechkin

    2013-01-01

    Full Text Available Studied the antioxidant activity of multicomponent vegetable puree, consisting of 20 % of eggplant, 20 % of zucchini, 16 % of bell peppers, 15 % of tomatoes, 14 % of carrots, 10 % of onions and 5 % of garlic. These results showed an increase in concentration of the antioxidant activity of puree and, consequently, increase its quality.

  4. Keeping consumers safe: food providers' perspectives on pureed food.

    Science.gov (United States)

    Keller, Heather H; Duizer, Lisa M

    2014-01-01

    Twelve focus groups were conducted in five sites with 80 allied health providers to identify their perspectives on providing pureed food to consumers. Thematic care analysis was completed to summarize and interpret these data. Providers' greatest concern was keeping consumers safe, and the right texture was prioritized over sensory appeal and acceptance. Providers recognized that these foods impacted the quality of life of consumers and worked to rationalize these diets with residents/patients and their families. In addition, offering foods they knew to be poorly accepted affected their self-concept as providers. As a result of these challenges, they did whatever they could in the kitchen and tableside to promote intake of pureed foods. Those in the "food chain" of pureed food provision suggested several ways to further improve these products. Greater communication between those who assist consumers with eating and those who produce the pureed food they consume is needed to promote acceptable pureed products.

  5. Behavior of CaO and Calcium in pure Magnesium

    Institute of Scientific and Technical Information of China (English)

    HA Seong-Ho; LEE Jin-Kyu; JO Hyung-Ho; JUNG Seung-Boo; KIM Shae K.

    2006-01-01

    Mg alloys exhibit a number of good properties such as low density, good castability and high specific strength.However, molten Mg and Mg alloys are ignited without the melt protective gases during melting and casting process due to their high reactivity.The purpose of this study is to investigate effects of Ca and CaO on pure Mg through microstructure observation, ignition test and phase analysis.With increasing Ca and CaO contents, the ignition resistance of Ca or CaO added pure Mg is increased and the grains are refined.As results of XRD and EDS, CaO is reduced to Ca in CaO added pure Mg.Mg2Ca phase is formed even in 0.1 wt.%CaO added pure Mg by reduction mechanism, while Mg2Ca phase is formed over 1.35 wt.% Ca added pure Mg.

  6. Pure or Compound Dualism? Considering Afresh the Prospects of Pure Substance Dualism

    Directory of Open Access Journals (Sweden)

    Joshua Ryan Farris

    2013-06-01

    Full Text Available Substance dualism has received much attention from philosophers and theologians in contemporary literature. Whilst it may have been fashionable in the recent past to dismiss substance dualism as an unviable and academically absurd position to hold, this is no longer the case. My contention is not so much the merits of substance dualism in general, but a more specified variation of substance dualism. My specific contribution to the literature in this article is that I argue for the viability of pure substance dualism as a more satisfactory option in contrast to compound or composite varieties of substance dualism. I put forth one argument and tease out the implications that make compound dualism less than satisfactory. I conclude that, minimally, more work is required on compound variations of dualism to make it a more appealing and a philosophically satisfactory option.

  7. [The left central gyral lesion and pure anarthria].

    Science.gov (United States)

    Tabuchi, M; Odashima, K; Fujii, T; Suzuki, K; Saitou, J; Yamadori, A

    2000-05-01

    We report a very rare case of pure anarthria with lesion analysis. A 44-year-old right-handed man suffered from a cerebral infarction with a mild right hemiparesis and speech disturbance. An MRI of the brain 1.5 months post onset revealed a lesion confined to the left central gyrus. One month after the onset, his spontaneous speech was dysprosodic and laborious. It was contaminated with dysarthria and phonological paraphasias. However, language comprehension, repetition and naming abilities were normal. Most remarkably he showed no impairment in writing with his left hand. Over the following months, his difficulties in verbal output showed general amelioration, but the isolated impairment in the domain of articulation characterized by dysprosody, dysarthria, and phonological paraphasia persisted. As for the symptomatology of pure anarthria resulting from precentral gyral lesions, there have been controversies about its pureness. Some argue that the so called pure anarthria always shows some degree of writing disturbances, albeit mild in degree. Others maintain there certainly exists the pure type without any signs of agraphia. In the present case lesions were limited to the central gyrus but spared the lowest opercular portion. The previous reports of pure anarthria that had mild agraphia all had lesions involving the opercular portion. We conclude the sparing of this area is most likely related with sparing of writing capacity in pure anarthria.

  8. DEVELOPMENT OF VEGETABLE PUREES AND DRINKS BY LACTIC ACID FERMENTATION

    Directory of Open Access Journals (Sweden)

    At. Kraevska

    2014-03-01

    Full Text Available The object of this work was to investigate the possibility for development of vegetable purees and drinks by lactic acid fermentation. It was found that by the direct lactic acid fermentation of Lb.plantarum strain 226/1 the vitamin composition of vegetable purees is preserved and the biological value is increased. Drinks, prepared from fermented vegetable purees were remarkable with the pleasant lactic acid taste, the sucrose-acid composition was stable and balanced and they can be used both in the rational and in the dietary nutrition.

  9. Shunting arc plasma source for pure carbon ion beam.

    Science.gov (United States)

    Koguchi, H; Sakakita, H; Kiyama, S; Shimada, T; Sato, Y; Hirano, Y

    2012-02-01

    A plasma source is developed using a coaxial shunting arc plasma gun to extract a pure carbon ion beam. The pure carbon ion beam is a new type of deposition system for diamond and other carbon materials. Our plasma device generates pure carbon plasma from solid-state carbon material without using a hydrocarbon gas such as methane gas, and the plasma does not contain any hydrogen. The ion saturation current of the discharge measured by a double probe is about 0.2 mA∕mm(2) at the peak of the pulse.

  10. Shunting arc plasma source for pure carbon ion beama)

    Science.gov (United States)

    Koguchi, H.; Sakakita, H.; Kiyama, S.; Shimada, T.; Sato, Y.; Hirano, Y.

    2012-02-01

    A plasma source is developed using a coaxial shunting arc plasma gun to extract a pure carbon ion beam. The pure carbon ion beam is a new type of deposition system for diamond and other carbon materials. Our plasma device generates pure carbon plasma from solid-state carbon material without using a hydrocarbon gas such as methane gas, and the plasma does not contain any hydrogen. The ion saturation current of the discharge measured by a double probe is about 0.2 mA/mm2 at the peak of the pulse.

  11. Pure mechanical wear loss measurement in corrosive wear

    Indian Academy of Sciences (India)

    Yanliang Huang; Xiaoxia Jiang; Sizuo Li

    2000-12-01

    The method for the measurement of the pure mechanical wear loss for 321 stainless steel, 1045 steel and pure iron in the study of the synergy between corrosion and wear was studied. The methods studied included the measurement in distilled water, by cathodic protection and by adding inhibitor KI, and all were compared with the wear loss in air. The experiment showed that the pure mechanical wear losses and friction coefficients obtained by the three methods were close to each other and can be used to calculate the various wear components in the study of the interaction of corrosion and wear, but the measurements in distilled water for pure iron and 1045 steel are not recommended due to their corrosion.

  12. Production of fermented chestnut purees by lactic acid bacteria.

    Science.gov (United States)

    Blaiotta, G; Di Capua, M; Coppola, R; Aponte, M

    2012-09-03

    The objective of this study was to develop a new chestnut-based puree, in order to seasonally adjust the offer and use the surplus of undersized production, providing, at the same time, a response to the growing demand for healthy and environmentally friendly products. Broken dried chestnuts have been employed to prepare purees to be fermented with six different strains of Lactobacillus (Lb.) rhamnosus and Lactobacillus casei. The fermented purees were characterized by a technological and sensorial point of view, while the employed strains were tested for their probiotic potential. Conventional in vitro tests have indicated the six lactobacilli strains as promising probiotic candidates; moreover, being the strains able to grow and to survive in chestnut puree at a population level higher than 8 log₁₀ CFU/mL along 40 days of storage at 4 °C, the bases for the production of a new food, lactose-free and with reduced fat content, have been laid.

  13. Gravitation, Electromagnetism and the Cosmological Constant in Purely Affine Gravity

    Science.gov (United States)

    Popławski, Nikodem J.

    The Eddington Lagrangian in the purely affine formulation of general relativity generates the Einstein equations with the cosmological constant. The Ferraris-Kijowski purely affine Lagrangian for the electromagnetic field, which has the form of the Maxwell Lagrangian with the metric tensor replaced by the symmetrized Ricci tensor, is dynamically equivalent to the Einstein-Maxwell Lagrangian in the metric formulation. We show that the sum of the two affine Lagrangians is dynamically inequivalent to the sum of the analogous Lagrangians in the metric-affine/metric formulation. We also show that such a construction is valid only for weak electromagnetic fields. Therefore the purely affine formulation that combines gravitation, electromagnetism and the cosmological constant cannot be a simple sum of terms corresponding to separate fields. Consequently, this formulation of electromagnetism seems to be unphysical, unlike the purely metric and metric-affine pictures, unless the electromagnetic field couples to the cosmological constant.

  14. The effect of pure state structure on nonequilibrium dynamics

    Energy Technology Data Exchange (ETDEWEB)

    Newman, C M; Stein, D L [Courant Institute of Mathematical Sciences, New York University, New York, NY 10012 (United States)], E-mail: newman@cims.nyu.edu, E-mail: daniel.stein@nyu.edu

    2008-06-18

    Motivated by short-range Ising spin glasses, we review some rigorous results and their consequences for the relation between the number/nature of equilibrium pure states and nonequilibrium dynamics. Two of the consequences for spin glass dynamics following an instantaneous deep quench to a temperature with broken spin flip symmetry are: (1) almost all initial configurations lie on the boundary between the basins of attraction of multiple pure states; (2) unless there are uncountably many pure states with almost all pairs having zero overlap, there can be no equilibration to a pure state as time t {yields} {infinity}. We discuss the relevance of these results to the difficulty of equilibration of spin glasses. We also review some results concerning the 'nature versus nurture' problem of whether the large-t behavior of both ferromagnets and spin glasses following a deep quench is determined more by the initial configuration (nature) or by the dynamics realization (nurture)

  15. Pure compared with mixed serous endometrial carcinoma: two different entities?

    NARCIS (Netherlands)

    Roelofsen, T.; Ham, M.A. van; Wiersma van Tilburg, J.M.; Zomer, S.F.; Bol, M.; Massuger, L.F.A.G.; Bulten, J.

    2012-01-01

    OBJECTIVE: : To analyze whether mixed compared with pure uterine papillary serous carcinoma histology affects clinical outcome, and to assess uterine papillary serous carcinoma for its association with the precursor lesion endometrial intraepithelial carcinoma. METHODS: : A multi-institution observa

  16. Phase Semantics for a Pure Noncommutative Linear Propositional Logic

    Institute of Scientific and Technical Information of China (English)

    YING Mingsheng

    1999-01-01

    We use a many-sorted language to remove commutativity from phasesemantics of linear logic and show that pure noncommutativeintuitionistic linear propositional logic plus two classical rulesenjoys the soundness and completeness with respect to completelynoncommutative phase semantics.

  17. Partial Hermitian Conjugate Separability Criteria for Pure Quantum States

    Institute of Scientific and Technical Information of China (English)

    ZHAO Xin; WU Hua; LI Yan-Song; LONG Gui-Lu

    2009-01-01

    We propose a criterion for the separability of quantum pure states using the concept of a partial Hermitian conjugate.It is equivalent to the usual positive partial transposition criteria,with a simple physical interpretation.

  18. Production of tomato puree: an alternative to conservation of locally ...

    African Journals Online (AJOL)

    Mo

    (TSS) at which tomato puree could be preserved for at least one year. Material and methods. The vegetative material used .... The microbiological analysis was made at each stage. ... and this denotes the adaptability of packaging material and.

  19. General and Optimal Scheme for Local Conversion of Pure States

    Institute of Scientific and Technical Information of China (English)

    JIN Rui-Bo; CHEN Li-Bing; WANG Fa-Qiang; LU Yi-Qun

    2008-01-01

    We present general and optimal schemes for local conversion of pure states, via one specific example. First, we give the general solution of the doubly stochastic matrix. Then, we find the general and optimal positive-operator-valued measure (POVM) to realize the local conversion of pure states. Lastly, the physical realization of the POVM is discussed. We show that our scheme has a more general and better effect than other schemes.

  20. Acquired pure megakaryocytic aplasia successfully treated with cyclosporine

    Directory of Open Access Journals (Sweden)

    Halima El Omri

    2010-12-01

    Full Text Available Acquired pure megakaryocytic aplasia is a rare hematological disorder characterized by thrombocytopenia with absent or markedly reduced megakaryocytes in the bone marrow. We report a case of a 25-year-old male diagnosed as acquired pure megakaryocytic aplasia. Treatment with prednisone and intravenous immunoglobulin failed, but he was successfully treated with cyclosporine, with complete remission after 90 days and normal platelet count maintained thereafter.

  1. Physics of pure and non-pure positron emitters for PET: a review and a discussion.

    Science.gov (United States)

    Conti, Maurizio; Eriksson, Lars

    2016-12-01

    With the increased interest in new PET tracers, gene-targeted therapy, immunoPET, and theranostics, other radioisotopes will be increasingly used in clinical PET scanners, in addition to (18)F. Some of the most interesting radioisotopes with prospective use in the new fields are not pure short-range β(+) emitters but can be associated with gamma emissions in coincidence with the annihilation radiation (prompt gamma), gamma-gamma cascades, intense Bremsstrahlung radiation, high-energy positrons that may escape out of the patient skin, and high-energy gamma rays that result in some e (+)/e (-) pair production. The high level of sophistication in data correction and excellent quantitative accuracy that has been reached for (18)F in recent years can be questioned by these effects. In this work, we review the physics and the scientific literature and evaluate the effect of these additional phenomena on the PET data for each of a series of radioisotopes: (11)C, (13)N, (15)O, (18)F, (64)Cu, (68)Ga, (76)Br, (82)Rb, (86)Y, (89)Zr, (90)Y, and (124)I. In particular, we discuss the present complications arising from the prompt gammas, and we review the scientific literature on prompt gamma correction. For some of the radioisotopes considered in this work, prompt gamma correction is definitely needed to assure acceptable image quality, and several approaches have been proposed in recent years. Bremsstrahlung photons and (176)Lu background were also evaluated.

  2. Fracture behaviors under pure shear loading in bulk metallic glasses

    Science.gov (United States)

    Chen, Cen; Gao, Meng; Wang, Chao; Wang, Wei-Hua; Wang, Tzu-Chiang

    2016-12-01

    Pure shear fracture test, as a special mechanical means, had been carried out extensively to obtain the critical information for traditional metallic crystalline materials and rocks, such as the intrinsic deformation behavior and fracture mechanism. However, for bulk metallic glasses (BMGs), the pure shear fracture behaviors have not been investigated systematically due to the lack of a suitable test method. Here, we specially introduce a unique antisymmetrical four-point bend shear test method to realize a uniform pure shear stress field and study the pure shear fracture behaviors of two kinds of BMGs, Zr-based and La-based BMGs. All kinds of fracture behaviors, the pure shear fracture strength, fracture angle and fracture surface morphology, are systematically analyzed and compared with those of the conventional compressive and tensile fracture. Our results indicate that both the Zr-based and La-based BMGs follow the same fracture mechanism under pure shear loading, which is significantly different from the situation of some previous research results. Our results might offer new enlightenment on the intrinsic deformation and fracture mechanism of BMGs and other amorphous materials.

  3. Pure and Pseudo-pure Fluid Thermophysical Property Evaluation and the Open-Source Thermophysical Property Library CoolProp

    DEFF Research Database (Denmark)

    Bell, Ian H.; Wronski, Jorrit; Quoilin, Sylvain

    2014-01-01

    Over the last few decades, researchers have developed a number of empirical and theoretical models for the correlation and prediction of the thermophysical properties of pure fluids and mixtures treated as pseudo-pure fluids. In this paper, a survey of all the state-of-the-art formulations of the...... are included in the library, as well as properties of 40 incompressible fluids and humid air. The source code for the CoolProp library is included as an electronic annex....

  4. Extraction of distance restraints from pure shift NOE experiments

    Science.gov (United States)

    Kaltschnee, Lukas; Knoll, Kevin; Schmidts, Volker; Adams, Ralph W.; Nilsson, Mathias; Morris, Gareth A.; Thiele, Christina M.

    2016-10-01

    NMR techniques incorporating pure shift methods to improve signal resolution have recently attracted much attention, owing to their potential use in studies of increasingly complex molecular systems. Extraction of frequencies from these simplified spectra enables easier structure determination, but only a few of the methods presented provide structural parameters derived from signal integral measurements. In particular, for quantification of the nuclear Overhauser effect (NOE) it is highly desirable to utilize pure shift techniques where signal overlap normally prevents accurate signal integration, to enable measurement of a larger number of interatomic distances. However, robust methods for the measurement of interatomic distances using the recently developed pure shift techniques have not been reported to date. In this work we discuss some of the factors determining the accuracy of measurements of signal integrals in interferogram-based Zangger-Sterk (ZS) pure shift NMR experiments. The ZS broadband homodecoupling technique is used in different experiments designed for quantitative NOE determination from pure shift spectra. It is shown that the techniques studied can be used for quantitative extraction of NOE-derived distance restraints, as exemplified for the test case of strychnine.

  5. Fine Needle Aspiration Cytology in Diagnosis of Pure Neuritic Leprosy

    Directory of Open Access Journals (Sweden)

    Bipin Kumar

    2011-01-01

    Full Text Available Leprosy is a chronic infection affecting mainly the skin and peripheral nerve. Pure neuritic form of this disease manifests by involvement of the nerve in the absence of skin lesions. Therefore, it can sometimes create a diagnostic problem. It often requires a nerve biopsy for diagnosis, which is an invasive procedure and may lead to neural deficit. Fine needle aspiration cytology (FNAC of an affected nerve can be a valuable and less invasive procedure for the diagnosis of such cases. We report five suspected cases of pure neuritic Hansen's disease involving the common and superficial peroneal, ulnar, and median nerve, who underwent FNAC. Smears revealed nerve fibers infiltrated by chronic inflammatory cells in all cases, presence of epithelioid cells granulomas, and Langhans giant cells in three cases, and acid fast bacilli in two cases. In conclusion, FNAC is a safe, less invasive, and time saving procedure for the diagnosis of pure neuritic leprosy.

  6. Fast word reading in pure alexia: "fast, yet serial".

    Science.gov (United States)

    Bormann, Tobias; Wolfer, Sascha; Hachmann, Wibke; Neubauer, Claudia; Konieczny, Lars

    2015-01-01

    Pure alexia is a severe impairment of word reading in which individuals process letters serially with a pronounced length effect. Yet, there is considerable variation in the performance of alexic readers with generally very slow, but also occasionally fast responses, an observation addressed rarely in previous reports. It has been suggested that "fast" responses in pure alexia reflect residual parallel letter processing or that they may even be subserved by an independent reading system. Four experiments assessed fast and slow reading in a participant (DN) with pure alexia. Two behavioral experiments investigated frequency, neighborhood, and length effects in forced fast reading. Two further experiments measured eye movements when DN was forced to read quickly, or could respond faster because words were easier to process. Taken together, there was little support for the proposal that "qualitatively different" mechanisms or reading strategies underlie both types of responses in DN. Instead, fast responses are argued to be generated by the same serial-reading strategy.

  7. Effect of vanadium carbide on commercial pure aluminum

    Science.gov (United States)

    Sun, Hua-ping; Wu, Jun; Tang, Tian; Fan, Bo; Tang, Zheng-hua

    2017-07-01

    The effect of vanadium carbide (VC) on the grain size of commercial pure aluminum was experimentally investigated by varying the content of VC, the holding time, and casting temperature. The refining efficiencies of VC and Al5Ti1B were also compared. The refined samples of commercial pure aluminum were examined using optical microscopy, scanning electron microscopy (SEM) and energy-dispersive spectroscopy (EDS). The results suggest that VC is a good refiner of commercial pure aluminum. The addition of only 0.3wt% VC can decrease the grain size of aluminum to 102 μm, whereas the casting temperature and holding time have little effect on the grain size. The refining efficiency of VC is better than that of Al5Ti1B. The VC particles in molten aluminum act as nuclei and the grain refinement of aluminum alloys by VC particles is achieved via heterogeneous nucleation.

  8. The neuroanatomy of pure apraxia of speech in stroke.

    Science.gov (United States)

    Graff-Radford, Jonathan; Jones, David T; Strand, Edythe A; Rabinstein, Alejandro A; Duffy, Joseph R; Josephs, Keith A

    2014-02-01

    The left insula or Broca's area have been proposed as the neuroanatomical correlate for apraxia of speech (AOS) based on studies of patients with both AOS and aphasia due to stroke. Studies of neurodegenerative AOS suggest the premotor area and the supplementary motor areas as the anatomical correlates. The study objective was to determine the common infarction area in patients with pure AOS due to stroke. Patients with AOS and no or equivocal aphasia due to ischemic stroke were identified through a pre-existing database. Seven subjects were identified. Five had pure AOS, and two had equivocal aphasia. MRI lesion analysis revealed maximal overlap spanning the left premotor and motor cortices. While both neurodegenerative AOS and stroke induced pure AOS involve the premotor cortex, further studies are needed to establish whether stroke-induced AOS and neurodegenerative AOS share a common anatomic substrate.

  9. Pure gravities via color-kinematics duality for fundamental matter

    Energy Technology Data Exchange (ETDEWEB)

    Johansson, Henrik [Theory Division, Physics Department, CERN, CH-1211 Geneva 23 (Switzerland); Ochirov, Alexander [Institut de Physique Théorique, CEA-Saclay, F-91191 Gif-sur-Yvette cedex (France)

    2015-11-06

    We give a prescription for the computation of loop-level scattering amplitudes in pure Einstein gravity, and four-dimensional pure supergravities, using the color-kinematics duality. Amplitudes are constructed using double copies of pure (super-)Yang-Mills parts and additional contributions from double copies of fundamental matter, which are treated as ghosts. The opposite-statistics states cancel the unwanted dilaton and axion in the bosonic theory, as well as the extra matter supermultiplets in the supergravity theories. As a spinoff, we obtain a prescription for obtaining amplitudes in supergravities with arbitrary non-self-interacting matter. As a prerequisite, we extend the color-kinematics duality from the adjoint to the fundamental representation of the gauge group. We explain the numerator relations that the fundamental kinematic Lie algebra should satisfy. We give nontrivial evidence supporting our construction using explicit tree and loop amplitudes, as well as more general arguments.

  10. Liquid structure of pure iron by X-ray diffraction

    Institute of Scientific and Technical Information of China (English)

    Jun Luo; Qijie Zhai; Pei Zhao; Xubo Qin

    2004-01-01

    The liquid structure of pure iron at 1540, 1560 and 1580℃ was studied by X-ray diffraction. The results show that near the melting point there is a medium-range order structure that fades away with the increasing temperature. The average nearest distance of atoms is almost independent of the melts temperature, but the average coordination number, the atom cluster size and the atom number in an atom cluster all decrease with the increasing temperature of the melt. Near the melting point there area lot of atom clusters in the pure iron melt. The atom cluster of pure iron has the body-centered cubic lattices, which are kept from the solid state. And the body-centered cubic lattices connect into network by occupying a same edge. The atoms in the surrounding of the atom clusters are arranged disorderly.

  11. Acquired pure red cell aplasia in a child.

    Directory of Open Access Journals (Sweden)

    Sharma R

    2002-01-01

    Full Text Available Primary acquired pure red cell aplasia is a rare occurrence in childhood. An eleven-year old boy presented to us with pallor, which required multiple packed red cell transfusions. He did not have hepatosplenomegaly, jaundice or lymphadenopathy. Bone marrow examination revealed the diagnosis of pure red cell aplasia. All possible investigations were done to exclude secondary causes of pure red cell aplasia. No secondary cause was found on investigations. Rheumatoid factor and anti-nuclear antibodies were positive. He was started on oral steroids, to which he did not respond. He was then given cyclosporine A. Response to cyclosporine was dramatic and the child now does not require any transfusions.

  12. [Anesthetic management for a patient with pure autonomic failure].

    Science.gov (United States)

    Kida, K; Mori, M; Yoshitake, S; Sendaya, K; Iwasaka, H; Taniguchi, K

    1997-06-01

    Pure autonomic failure is characterized by orthostatic hypotension, sweating disorder, urinary incontinence, and syncope. A 64 year-old man with pure autonomia failure was scheduled for suprapubic prostatectomy. We monitoring direct arterial pressure and inserted pulmonary artery catheter prior to the induction of anesthesia. General anesthesia was induced with diazepam 10 mg, fentanyl 0.3 mg, and vecuronium 8 mg for tracheal intubation. Anesthesia was maintained with sevoflurane (0.2-1.5%), 60% nitrous oxide in oxygen supplemented with intermittent epidural anesthesia. During anesthesia, blood loss was immediately replaced with banked blood because autonomic failure could not compensate hypovolemia well. Epidural anesthesia in this patient was considered to cause less hypotension than in patients with normal autonomic function. Therefore, we think epidural anesthesia is a useful anesthesia method for patients with pure autonomic failure. The emergence from anesthesia was smooth and no complications were seen during the perioperative period.

  13. Model answers in pure mathematics for a-level students

    CERN Document Server

    Pratt, GA; Schofield, C W

    1967-01-01

    Model Answers in Pure Mathematics for A-Level Students provides a set of solutions that indicate what is required and expected in an Advanced Level examination in Pure Mathematics. This book serves as a guide to the length of answer required, layout of the solution, and methods of selecting the best approach to any particular type of math problem. This compilation intends to supplement, not replace, the normal textbook and provides a varied selection of questions for practice in addition to the worked solutions. The subjects covered in this text include algebra, trigonometry, coordinate geomet

  14. Crystal structure of pure ZrO{sub 2} nanopowders

    Energy Technology Data Exchange (ETDEWEB)

    Lamas, D.G. [CINSO - Centro de Investigaciones en Solidos, CITEFA-CONICET, J.B. de La Salle 4397 (1603) Villa Martelli, Pcia. de Buenos Aires (Argentina)]. E-mail: dlamas@citefa.gov.ar; Rosso, A.M. [CINSO - Centro de Investigaciones en Solidos, CITEFA-CONICET, J.B. de La Salle 4397 (1603) Villa Martelli, Pcia. de Buenos Aires (Argentina); Anzorena, M. Suarez [CINSO - Centro de Investigaciones en Solidos, CITEFA-CONICET, J.B. de La Salle 4397 (1603) Villa Martelli, Pcia. de Buenos Aires (Argentina); Fernandez, A. [DEICOR - Departamento de Investigaciones en Corrosion, CITEFA, J.B. de La Salle 4397 (1603) Villa Martelli, Pcia. de Buenos Aires (Argentina); Bellino, M.G. [CINSO - Centro de Investigaciones en Solidos, CITEFA-CONICET, J.B. de La Salle 4397 (1603) Villa Martelli, Pcia. de Buenos Aires (Argentina); Cabezas, M.D. [CINSO - Centro de Investigaciones en Solidos, CITEFA-CONICET, J.B. de La Salle 4397 (1603) Villa Martelli, Pcia. de Buenos Aires (Argentina); Walsoee de Reca, N.E. [CINSO - Centro de Investigaciones en Solidos, CITEFA-CONICET, J.B. de La Salle 4397 (1603) Villa Martelli, Pcia. de Buenos Aires (Argentina); Craievich, A.F. [Instituto de Fisica, FAP, USP, Travessa R da Rua do Matao, No.187, Cidade Universitaria (05508-900) Sao Paulo (Brazil)

    2006-09-15

    The crystal structure of pure (undoped) zirconia nanopowders synthesized by different wet-chemical routes has been investigated by synchrotron X-ray diffraction. Whereas some previous authors reported the retention of the cubic phase in similar materials, we demonstrate here that pure zirconia nanopowders with average crystallite sizes ranging from 5 to 10 nm exhibit the tetragonal phase. In addition, our results suggest that a tetragonal-to-cubic transition for decreasing crystallite size could eventually occur at a very small critical crystallite size.

  15. Optimization of Magnesium Metal into Commercially Pure Aluminium

    Directory of Open Access Journals (Sweden)

    Vandana J Rao

    2014-02-01

    Full Text Available The present investigation, involve development of Al-Mg systems by addition of magnesium into commercially pure aluminium. The amounts of magnesium added into commercially pure aluminium are of 1 and 2 wt%. The recoveries of magnesium are around 85-90%.Remaining Mg react with oxygen and float on the liquid aluminium. Presence of magnesium creates two phenomena. One is solid solution hardening and other is intermetallics formation. Both the phenomena checked by microstructural changes and by measuring the electrical conductivity values. By increasing the Mg, content mechanical properties (hardness and tensile strength increases and electrical conductivity decreases.

  16. Pontine tegmentum hematoma: report of a case with pure hemiplegia

    Directory of Open Access Journals (Sweden)

    MILAGRES ANTONIO CARLOS DE PÁDUA

    1998-01-01

    Full Text Available The authors report the case of a 50 year-old hypertensive male patient with a pontine hematoma. The clinical presentation was characterized by pure pyramidal deficit signs (no other signs or symptoms were present. A pure hemiplegia syndrome, although common in supratentorial lesions, is considered to be a rare event in pontine vascular lesions. The pathophysiologic mechanisms of these neurological findings are unclear. The exclusive involvement of the pyramidal tract in this case is likely due to a variation in the vascular anatomy of the pons but, in some cases, a vascular malformation may be the cause.

  17. Tailored jump operators for purely dissipative quantum magnetism

    Science.gov (United States)

    Weimer, Hendrik

    2017-01-01

    I propose an architecture for the realization of dissipative quantum many-body spin models. The dissipative processes are mediated by interactions with auxiliary particles and lead to a widely tunable class of correlated quantum jump operators. These findings enable the investigation of purely dissipative spin models, where coherent dynamics is entirely absent. I provide a detailed review of a recently introduced variational method to analyze such dissipative quantum many-body systems, and I discuss a specific example in terms of a purely dissipative Heisenberg model, for which I find an additional disordered phase that is not present in the corresponding ground state phase diagram.

  18. Tailored jump operators for purely dissipative quantum magnetism

    CERN Document Server

    Weimer, Hendrik

    2016-01-01

    I propose an archtitecture for the realization of dissipative quantum many-body spin models. The dissipative processes are mediated by interactions with auxiliary particles and lead to a widely tunable class of correlated quantum jump operators. These findings enable the investigation of purely dissipative spin models, where coherent dynamics is entirely absent. I provide a detailed review of a recently introduced variational method to analyze such dissipative quantum many-body systems, and I discuss a specific example in terms of a purely dissipative Heisenberg model, for which I find an additional disordered phase that is not present in the corresponding ground state phase diagram.

  19. Design of convex hull plate forming by pure line heating

    Institute of Scientific and Technical Information of China (English)

    ZHANG Xue-biao; JI Zhuo-shang; LIU Yu-jun

    2004-01-01

    This paper presents a ship-hull plate forming way by pure line heating. The heating lines forming the required bending angle is determined by curvature analysis method. Heating along the calculated heating lines results in bland plate with initial transverse curvature. Then, the plate with desired convex shape can be obtained by heating in the longitudinal edge. This is the whole forming process by pure line heating. This paper presents a method of plane development for ship-hull plate with B-spline surface representation, and provides the shrinkage heating lines in the forming process. This forming way would facilitate temperature control and make plate forming automatically easy.

  20. Conservation laws and evolution of pure states into mixed states

    Science.gov (United States)

    Liu, Jun

    1993-09-01

    Using the formulation of Banks, Peskin and Susskind (BPS), evolution equations are constructed for the quantum mechanical density matrix ϱ with operators which do not commute with the hamiltonian. These equations evolve pure states into mixed states, preserve the normalization and positivity of ϱ, and most importantly, conserve energy. Thus, these examples show that the conservation laws do not necessarily forbid the evolution of pure states into mixed states, in contrast to the case of a quantum mechanical system with random sources studied specifically by BPS. It remains to generalize these quantum mechanical examples to the more interesting case of quantum field theory.

  1. Scalable classification by clustering: Hybrid can be better than Pure

    Institute of Scientific and Technical Information of China (English)

    Deng Shengchun; He Zengyou; Xu Xiaofei

    2007-01-01

    The problem of scalable classification by clustering in large databases was discussed. Clustering based classification method first generates clusters using clustering algorithms . To classify new coming data points , it finds the k nearest clusters of the data point as neighbors , and assign each data point to the dominant class of these neighbors . Existing algorithms incorporated class information in making clustering decisions and produced pure clusters (each cluster associated with only one class) . We presented hybrid cluster based algorithms , which produce clusters by unsupervised clustering and allow each cluster associated with multiple classes . Experimental results show that hybrid cluster based algorithms outperform pure ones in both classification accuracy and training speed.

  2. Pure Spinors, Free Differential Algebras, and the Supermembrane

    CERN Document Server

    Fré, P; Fre', Pietro; Grassi, Pietro Antonio

    2007-01-01

    The lagrangian formalism for the supermembrane in any 11d supergravity background is constructed in the pure spinor framework. Our gauge-fixed action is manifestly BRST, supersymmetric, and 3d Lorentz invariant. The relation between the Free Differential Algebras (FDA) underlying 11d supergravity and the BRST symmetry of the membrane action is exploited. The "gauge-fixing" has a natural interpretation as the variation of the Chevalley cohomology class needed for the extension of 11d super-Poincare' superalgebra to M-theory FDA. We study the solution of the pure spinor constraints in full detail.

  3. Probabilistic teleportation of an arbitrary pure state of two atoms

    Institute of Scientific and Technical Information of China (English)

    Yang Zhen-Biao; Wu Huai-Zhi; Su Wan-Jun

    2007-01-01

    In the context of microwave cavity QED, this paper proposes a new scheme for teleportation of an arbitrary pure state of two atoms. The scheme is very different from the previous ones which achieve the integrated state measurement,it deals in a probabilistic but simplified way. In the scheme, no additional atoms are involved and thus only two atoms are required to be detected. The scheme can also be used for the teleportation of arbitrary pure states of many atoms or two-mode cavities.

  4. Shaking the Tree: Multi-locus Sequence Typing Usurps Current Onchocercid (Filarial Nematode) Phylogeny

    Science.gov (United States)

    Lefoulon, Emilie; Bourret, Jérôme; Junker, Kerstin; Guerrero, Ricardo; Cañizales, Israel; Kuzmin, Yuriy; Satoto, Tri Baskoro T.; Cardenas-Callirgos, Jorge Manuel; de Souza Lima, Sueli; Raccurt, Christian; Mutafchiev, Yasen; Gavotte, Laurent; Martin, Coralie

    2015-01-01

    During the past twenty years, a number of molecular analyses have been performed to determine the evolutionary relationships of Onchocercidae, a family of filarial nematodes encompassing several species of medical or veterinary importance. However, opportunities for broad taxonomic sampling have been scarce, and analyses were based mainly on 12S rDNA and coxI gene sequences. While being suitable for species differentiation, these mitochondrial genes cannot be used to infer phylogenetic hypotheses at higher taxonomic levels. In the present study, 48 species, representing seven of eight subfamilies within the Onchocercidae, were sampled and sequences of seven gene loci (nuclear and mitochondrial) analysed, resulting in the hitherto largest molecular phylogenetic investigation into this family. Although our data support the current hypothesis that the Oswaldofilariinae, Waltonellinae and Icosiellinae subfamilies separated early from the remaining onchocercids, Setariinae was recovered as a well separated clade. Dirofilaria, Loxodontofilaria and Onchocerca constituted a strongly supported clade despite belonging to different subfamilies (Onchocercinae and Dirofilariinae). Finally, the separation between Splendidofilariinae, Dirofilariinae and Onchocercinae will have to be reconsidered. PMID:26588229

  5. A multi locus variable number of tandem repeat analysis (MLVA scheme for Streptococcus agalactiae genotyping

    Directory of Open Access Journals (Sweden)

    Mereghetti Laurent

    2011-07-01

    Full Text Available Abstract Background Multilocus sequence typing (MLST is currently the reference method for genotyping Streptococcus agalactiae strains, the leading cause of infectious disease in newborns and a major cause of disease in immunocompromised children and adults. We describe here a genotyping method based on multiple locus variable number of tandem repeat (VNTR analysis (MLVA applied to a population of S. agalactiae strains of various origins characterized by MLST and serotyping. Results We studied a collection of 186 strains isolated from humans and cattle and three reference strains (A909, NEM316 and 2603 V/R. Among 34 VNTRs, 6 polymorphic VNTRs loci were selected for use in genotyping of the bacterial population. The MLVA profile consists of a series of allele numbers, corresponding to the number of repeats at each VNTR locus. 98 MLVA genotypes were obtained compared to 51 sequences types generated by MLST. The MLVA scheme generated clusters which corresponded well to the main clonal complexes obtained by MLST. However it provided a higher discriminatory power. The diversity index obtained with MLVA was 0.960 compared to 0.881 with MLST for this population of strains. Conclusions The MLVA scheme proposed here is a rapid, cheap and easy genotyping method generating results suitable for exchange and comparison between different laboratories and for the epidemiologic surveillance of S. agalactiae and analyses of outbreaks.

  6. Lab on a chip genotyping for Brucella spp. based on 15-loci multi locus VNTR analysis

    Directory of Open Access Journals (Sweden)

    Marianelli Cinzia

    2009-04-01

    Full Text Available Abstract Background Brucellosis is an important zoonosis caused by the genus Brucella. In addition Brucella represents potential biological warfare agents due to the high contagious rates for humans and animals. Therefore, the strain typing epidemiological tool may be crucial for tracing back source of infection in outbreaks and discriminating naturally occurring outbreaks versus bioterroristic event. A Multiple Locus Variable-number tandem repeats (VNTR Analysis (MLVA assay based on 15 polymorphic markers was previously described. The obtained MLVA band profiles may be resolved by techniques ranging from low cost manual agarose gels to the more expensive capillary electrophoresis sequencing. In this paper a rapid, accurate and reproducible system, based on the Lab on a chip technology was set up for Brucella spp. genotyping. Results Seventeen DNA samples of Brucella strains isolated in Sicily, previously genotyped, and twelve DNA samples, provided by MLVA Brucella VNTR ring trial, were analyzed by MLVA-15 on Agilent 2100. The DNA fragment sizes produced by Agilent, compared with those expected, showed discrepancies; therefore, in order to assign the correct alleles to the Agilent DNA fragment sizes, a conversion table was produced. In order to validate the system twelve unknown DNA samples were analyzed by this method obtaining a full concordance with the VNTR ring trial results. Conclusion In this paper we described a rapid and specific detection method for the characterization of Brucella isolates. The comparison of the MLVA typing data produced by Agilent system with the data obtained by standard sequencing or ethidium bromide slab gel electrophoresis showed a general concordance of the results. Therefore this platform represents a fair compromise among costs, speed and specificity compared to any conventional molecular typing technique.

  7. Multi-locus fossil-calibrated phylogeny of Atheriniformes (Teleostei, Ovalentaria).

    Science.gov (United States)

    Campanella, Daniela; Hughes, Lily C; Unmack, Peter J; Bloom, Devin D; Piller, Kyle R; Ortí, Guillermo

    2015-05-01

    Phylogenetic relationships among families within the order Atheriniformes have been difficult to resolve on the basis of morphological evidence. Molecular studies so far have been fragmentary and based on a small number taxa and loci. In this study, we provide a new phylogenetic hypothesis based on sequence data collected for eight molecular markers for a representative sample of 103 atheriniform species, covering 2/3 of the genera in this order. The phylogeny is calibrated with six carefully chosen fossil taxa to provide an explicit timeframe for the diversification of this group. Our results support the subdivision of Atheriniformes into two suborders (Atherinopsoidei and Atherinoidei), the nesting of Notocheirinae within Atherinopsidae, and the monophyly of tribe Menidiini, among others. We propose taxonomic changes for Atherinopsoidei, but a few weakly supported nodes in our phylogeny suggests that further study is necessary to support a revised taxonomy of Atherinoidei. The time-calibrated phylogeny was used to infer ancestral habitat reconstructions to explain the current distribution of marine and freshwater taxa. Based on these results, the current distribution of Atheriniformes is likely due to widespread marine dispersal along the margins of continents, infrequent trans-oceanic dispersal, and repeated invasion of freshwater habitats. This conclusion is supported by post-Gondwanan divergence times among families within the order, and a high probability of a marine ancestral habitat. Copyright © 2015 Elsevier Inc. All rights reserved.

  8. Resolving the Mortierellaceae phylogeny through Multi-Locus Sequence Typing (MLST) and phylogenomics

    Science.gov (United States)

    The Mortierellaceae (Mortierellomycotina) are a diverse family of fungi that are of evolutionary and ecological relevance. They are the closest lineage to the arbuscular mycorrhizae (Glomeromycotina) and include some of the first species to evolve fruiting body production. The Mortierellaceae are es...

  9. Multi-locus variable number tandem repeat analysis of 7th pandemic Vibrio cholerae

    Directory of Open Access Journals (Sweden)

    Lam Connie

    2012-05-01

    Full Text Available Abstract Background Seven pandemics of cholera have been recorded since 1817, with the current and ongoing pandemic affecting almost every continent. Cholera remains endemic in developing countries and is still a significant public health issue. In this study we use multilocus variable number of tandem repeats (VNTRs analysis (MLVA to discriminate between isolates of the 7th pandemic clone of Vibrio cholerae. Results MLVA of six VNTRs selected from previously published data distinguished 66 V. cholerae isolates collected between 1961–1999 into 60 unique MLVA profiles. Only 4 MLVA profiles consisted of more than 2 isolates. The discriminatory power was 0.995. Phylogenetic analysis showed that, except for the closely related profiles, the relationships derived from MLVA profiles were in conflict with that inferred from Single Nucleotide Polymorphism (SNP typing. The six SNP groups share consensus VNTR patterns and two SNP groups contained isolates which differed by only one VNTR locus. Conclusions MLVA is highly discriminatory in differentiating 7th pandemic V. cholerae isolates and MLVA data was most useful in resolving the genetic relationships among isolates within groups previously defined by SNPs. Thus MLVA is best used in conjunction with SNP typing in order to best determine the evolutionary relationships among the 7th pandemic V. cholerae isolates and for longer term epidemiological typing.

  10. Fieldable genotyping of Bacillus anthracis and Yersinia pestis based on 25-loci Multi Locus VNTR Analysis

    Directory of Open Access Journals (Sweden)

    Carattoli Alessandra

    2008-01-01

    Full Text Available Abstract Background Anthrax and plague are diseases caused by Bacillus anthracis and Yersinia pestis respectively. These bacteria are etiological agents for worldwide zoonotic diseases and are considered among the most feared potential bioterror agents. Strain differentiation is difficult for these microorganisms because of their high intraspecies genome homogeneity. Moreover, fast strain identification and comparison with known genotypes may be crucial for naturally occurring outbreaks versus bioterrorist events discrimination. Results Thirty-nine B. anthracis and ten Y. pestis strains, representative of the species genetic diversity, were genotyped by Agilent 2100 Bioanalyzer using previously described Multiple Locus VNTR Analysis assays (MLVA. Results were compared to previous data obtained by standard genotyping system (capillary electrophoresis on automatic sequencer and, when necessary, direct amplicon sequencing. A reference comparison table containing actual fragment sizes, sequencer sizes and Agilent sizes was produced. Conclusion In this report an automated DNA electrophoresis apparatus which provides a cheaper alternative compared to capillary electrophoresis approaches was applied for genotyping of B. anthracis and Y. pestis. This equipment, uses pre-cast gels and provides easy transportation, low maintenance and overall general logistic requirements and costs, is easy to set up and provides rapid analysis. This platform is a candidate for on-site MLVA genotyping of biothreat agents as well as other bacterial pathogens. It is an alternative to the more expensive and demanding capillary electrophoresis methods, and to the less expensive but more time-consuming classical gel electrophoresis approach.

  11. Multi-locus genetic risk score predicts risk for Crohn's disease in Slovenian population

    NARCIS (Netherlands)

    Zupancic, Katarina; Skok, Kristijan; Repnik, Katja; Weersma, Rinse K.; Potocnik, Uros; Skok, Pavel

    2016-01-01

    AIM: To develop a risk model for Crohn's disease (CD) based on homogeneous population. METHODS: In our study were included 160 CD patients and 209 healthy individuals from Slovenia. The association study was performed for 112 single nucleotide polymorphisms (SNPs). We generated genetic risk scores

  12. Multi-locus phylogenetic inference among New World Vultures (Aves: Cathartidae).

    Science.gov (United States)

    Johnson, Jeff A; Brown, Joseph W; Fuchs, Jérôme; Mindell, David P

    2016-12-01

    New World Vultures are large-bodied carrion feeding birds in the family Cathartidae, currently consisting of seven species from five genera with geographic distributions in North and South America. No study to date has included all cathartid species in a single phylogenetic analysis. In this study, we investigated the phylogenetic relationships among all cathartid species using five nuclear (nuc; 4060bp) and two mitochondrial (mt; 2165bp) DNA loci with fossil calibrated gene tree (27 outgroup taxa) and coalescent-based species tree (2 outgroup taxa) analyses. We also included an additional four nuclear loci (2578bp) for the species tree analysis to explore changes in nodal support values. Although the stem lineage is inferred to have originated ∼69 million years ago (Ma; 74.5-64.9 credible interval), a more recent basal split within Cathartidae was recovered at ∼14Ma (17.1-11.1 credible interval). Two primary clades were identified: (1) Black Vulture (Coragyps atratus) together with the three Cathartes species (Lesser C. burrovianus and Greater C. melambrotus Yellow-headed Vultures, and Turkey Vulture C. aura), and (2) King Vulture (Sarcoramphus papa), California (Gymnogyps californianus) and Andean (Vultur gryphus) Condors. Support for taxon relationships within the two basal clades were inconsistent between analyses with the exception of Black Vulture sister to a monophyletic Cathartes clade. Increased support for a yellow-headed vulture clade was recovered in the species tree analysis using the four additional nuclear loci. Overall, these results are in agreement with cathartid life history (e.g. olfaction ability and behavior) and contrasting habitat affinities among sister taxa with overlapping geographic distributions. More research is needed using additional molecular loci to further resolve the phylogenetic relationships within the two basal cathartid clades, as speciation appeared to have occurred in a relatively short period of time. Copyright © 2016 Elsevier Inc. All rights reserved.

  13. Adult height, coronary heart disease and stroke : a multi-locus Mendelian randomization meta-analysis

    NARCIS (Netherlands)

    Nüesch, Eveline; Dale, Caroline; Palmer, Tom M; White, Jon; Keating, Brendan J; van Iperen, Erik Pa; Goel, Anuj; Padmanabhan, Sandosh; Asselbergs, Folkert W; Verschuren, W M; Wijmenga, C; Van der Schouw, Y T; Onland-Moret, N C; Lange, Leslie A; Hovingh, G K; Sivapalaratnam, Suthesh; Morris, Richard W; Whincup, Peter H; Wannamethe, Goya S; Gaunt, Tom R; Ebrahim, Shah; Steel, Laura; Nair, Nikhil; Reiner, Alexander P; Kooperberg, Charles; Wilson, James F; Bolton, Jennifer L; McLachlan, Stela; Price, Jacqueline F; Strachan, Mark Wj; Robertson, Christine M; Kleber, Marcus E; Delgado, Graciela; März, Winfried; Melander, Olle; Dominiczak, Anna F; Farrall, Martin; Watkins, Hugh; Leusink, Maarten; Maitland-van der Zee, Anke H; de Groot, Mark Ch; Dudbridge, Frank; Hingorani, Aroon; Ben-Shlomo, Yoav; Lawlor, Debbie A; Amuzu, A; Caufield, M; Cavadino, A; Cooper, J; Davies, T L; Drenos, F; Engmann, J; Finan, C; Giambartolomei, C; Hardy, R; Humphries, S E; Hypponen, E; Kivimaki, M; Kuh, D; Kumari, M; Ong, K; Plagnol, V; Power, C; Richards, M; Shah, S; Shah, T; Sofat, R; Talmud, P J; Wareham, N; Warren, H; Whittaker, J C; Wong, A; Zabaneh, D; Davey Smith, George; Wells, Jonathan C; Leon, David A; Holmes, Michael V; Casas, Juan P

    2015-01-01

    BACKGROUND: We investigated causal effect of completed growth, measured by adult height, on coronary heart disease (CHD), stroke and cardiovascular traits, using instrumental variable (IV) Mendelian randomization meta-analysis. METHODS: We developed an allele score based on 69 single nucleotide poly

  14. Multi-locus Test and Correction for Confounding Effects in Genome-Wide Association Studies.

    Science.gov (United States)

    Chen, Donglai; Liu, Chuanhai; Xie, Jun

    2016-11-01

    Genome-wide association studies (GWAS) examine a large number of genetic variants, e. g., single nucleotide polymorphisms (SNP), and associate them with a disease of interest. Traditional statistical methods for GWASs can produce spurious associations, due to limited information from individual SNPs and confounding effects. This paper develops two statistical methods to enhance data analysis of GWASs. The first is a multiple-SNP association test, which is a weighted chi-square test derived for big contingency tables. The test assesses combinatorial effects of multiple SNPs and improves conventional methods of single SNP analysis. The second is a method that corrects for confounding effects, which may come from population stratification as well as other ambiguous (unknown) factors. The proposed method identifies a latent confounding factor, using a profile of whole genome SNPs, and eliminates confounding effects through matching or stratified statistical analysis. Simulations and a GWAS of rheumatoid arthritis demonstrate that the proposed methods dramatically remove the number of significant tests, or false positives, and outperforms other available methods.

  15. Using multi-locus allelic sequence data to estimate genetic divergence among four Lilium (Liliaceae) cultivars.

    Science.gov (United States)

    Shahin, Arwa; Smulders, Marinus J M; van Tuyl, Jaap M; Arens, Paul; Bakker, Freek T

    2014-01-01

    Next Generation Sequencing (NGS) may enable estimating relationships among genotypes using allelic variation of multiple nuclear genes simultaneously. We explored the potential and caveats of this strategy in four genetically distant Lilium cultivars to estimate their genetic divergence from transcriptome sequences using three approaches: POFAD (Phylogeny of Organisms from Allelic Data, uses allelic information of sequence data), RAxML (Randomized Accelerated Maximum Likelihood, tree building based on concatenated consensus sequences) and Consensus Network (constructing a network summarizing among gene tree conflicts). Twenty six gene contigs were chosen based on the presence of orthologous sequences in all cultivars, seven of which also had an orthologous sequence in Tulipa, used as out-group. The three approaches generated the same topology. Although the resolution offered by these approaches is high, in this case there was no extra benefit in using allelic information. We conclude that these 26 genes can be widely applied to construct a species tree for the genus Lilium.

  16. Using multi-locus allelic sequence data to estimate genetic divergence among four Lilium (Liliaceae cultivars

    Directory of Open Access Journals (Sweden)

    Arwa eShahin

    2014-10-01

    Full Text Available Next Generation Sequencing (NGS may enable estimating relationships among genotypes using allelic variation of multiple nuclear genes simultaneously. We explored the potential and caveats of this strategy in four genetically distant Lilium cultivars to estimate their genetic divergence from transcriptome sequences using three approaches: POFAD (Phylogeny of Organisms from Allelic Data, uses allelic information of sequence data, RAxML (Randomized Accelerated Maximum Likelihood, tree building based on concatenated consensus sequences and Consensus Network (constructing a network summarizing among gene tree conflicts. Twenty six gene contigs were chosen based on the presence of orthologous sequences in all cultivars, seven of which also had an orthologous sequence in Tulipa, used as out-group. The three approaches generated the same topology. Although the resolution offered by these approaches is high, in this case there was no extra benefit in using allelic information. We conclude that these 26 genes can be widely applied to construct a species tree for the genus Lilium.

  17. Using multi-locus allelic sequence data to estimate genetic divergence among four Lilium (Liliaceae) cultivars

    NARCIS (Netherlands)

    Shahin, A.; Smulders, M.J.M.; Tuyl, van J.M.; Arens, P.F.P.; Bakker, F.T.

    2014-01-01

    Next Generation Sequencing (NGS) may enable estimating relationships among genotypes using allelic variation of multiple nuclear genes simultaneously. We explored the potential and caveats of this strategy in four genetically distant Lilium cultivars to estimate their genetic divergence from transcr

  18. Multi-locus genetic risk score predicts risk for Crohn's disease in Slovenian population

    NARCIS (Netherlands)

    Zupančič, Katarina; Skok, Kristijan; Repnik, Katja; Weersma, Rinse K; Potočnik, Uroš; Skok, Pavel

    2016-01-01

    AIM: To develop a risk model for Crohn's disease (CD) based on homogeneous population. METHODS: In our study were included 160 CD patients and 209 healthy individuals from Slovenia. The association study was performed for 112 single nucleotide polymorphisms (SNPs). We generated genetic risk scores (

  19. Multi-locus phylogeny and divergence time estimates of Enallagma damselflies (Odonata: Coenagrionidae).

    Science.gov (United States)

    Callahan, Melissa S; McPeek, Mark A

    2016-01-01

    Reconstructing evolutionary patterns of species and populations provides a framework for asking questions about the impacts of climate change. Here we use a multilocus dataset to estimate gene trees under maximum likelihood and Bayesian models to obtain a robust estimate of relationships for a genus of North American damselflies, Enallagma. Using a relaxed molecular clock, we estimate the divergence times for this group. Furthermore, to account for the fact that gene tree analyses can overestimate ages of population divergences, we use a multi-population coalescent model to gain a more accurate estimate of divergence times. We also infer diversification rates using a method that allows for variation in diversification rate through time and among lineages. Our results reveal a complex evolutionary history of Enallagma, in which divergence events both predate and occur during Pleistocene climate fluctuations. There is also evidence of diversification rate heterogeneity across the tree. These divergence time estimates provide a foundation for addressing the relative significance of historical climatic events in the diversification of this genus.

  20. Typhoidal Salmonellae: Use of Multi-Locus Sequence Typing to Determine Population Structure.

    Science.gov (United States)

    Sharma, Priyanka; Dahiya, Sushila; Balaji, Veeraraghavan; Kanga, Anil; Panda, Preetilata; Das, Rashna; Dhanraju, Anbumani; Mendiratta, Deepak Kumar; Sood, Seema; Das, Bimal Kumar; Kapil, Arti

    2016-01-01

    Enteric fever is an invasive infection predominantly caused by Salmonella enterica serovars Typhi and Paratyphi A. The pathogens have evolved from other nontyphoidal salmonellaeto become invasive and host restricted. Emergence of antimicrobial resistance in typhoidal salmonellae in some countries is a major therapeutic concern as the travelers returning from endemic countries carry resistant strains to non endemic areas. In order to understand the epidemiology and to design disease control strategies molecular typing of the pathogen is very important. We performed Multilocus Sequence Typing (MLST) of 251 S. Typhi and 18 S. Paratyphi strains isolated from enteric fever patients from seven centers across India during 2010-2013to determine the population structure and prevalence of MLST sequence types in India. MLST analysis revealed the presence of five sequence types (STs) of typhoidal salmonellae in India namely ST1, ST2 and ST3 for S. Typhi and ST85 and ST129 for S. Paratyphi A.S. Typhi strains showed monophyletic lineage and clustered in to 3 Sequence Types-ST1, ST2 and ST3 and S. Paratyphi A isolates segregated in two sequence types ST85 and ST129 respectively. No association was found between antimicrobial susceptibility and sequence types. This study found ST1 as the most prevalent sequence type of S. Typhi in India followed by ST2, which is in concordance with previous studies and MLST database. In addition a rare sequence type ST3 has been found which is reported for the first time from the Indian subcontinent. Amongst S. Paratyphi A, the most common sequence type is ST129 as also reported from other parts of world. This distribution and prevalence suggest the common spread of the sequence types across the globe and these findings can help in understanding the disease distribution.

  1. Taxonomic evaluation of Streptomyces hirsutus and related species using multi-locus sequence analysis

    Science.gov (United States)

    Phylogenetic analyses of species of Streptomyces based on 16S rRNA gene sequences resulted in a statistically well-supported clade (100% bootstrap value) containing 8 species having very similar gross morphology. These species, including Streptomyces bambergiensis, Streptomyces chlorus, Streptomyces...

  2. Moroccan Leishmania infantum: genetic diversity and population structure as revealed by multi-locus microsatellite typing.

    Directory of Open Access Journals (Sweden)

    Ahmad Amro

    Full Text Available Leishmania infantum causes Visceral and cutaneous leishmaniasis in northern Morocco. It predominantly affects children under 5 years with incidence of 150 cases/year. Genetic variability and population structure have been investigated for 33 strains isolated from infected dogs and humans in Morocco. A multilocus microsatellite typing (MLMT approach was used in which a MLMtype based on size variation in 14 independent microsatellite markers was compiled for each strain. MLMT profiles of 10 Tunisian, 10 Algerian and 21 European strains which belonged to zymodeme MON-1 and non-MON-1 according to multilocus enzyme electrophoresis (MLEE were included for comparison. A Bayesian model-based approach and phylogenetic analysis inferred two L.infantum sub-populations; Sub-population A consists of 13 Moroccan strains grouped with all European strains of MON-1 type; and sub-population B consists of 15 Moroccan strains grouped with the Tunisian and Algerian MON-1 strains. Theses sub-populations were significantly different from each other and from the Tunisian, Algerian and European non MON-1 strains which constructed one separate population. The presence of these two sub-populations co-existing in Moroccan endemics suggests multiple introduction of L. infantum from/to Morocco; (1 Introduction from/to the neighboring North African countries, (2 Introduction from/to the Europe. These scenarios are supported by the presence of sub-population B and sub-population A respectively. Gene flow was noticed between sub-populations A and B. Five strains showed mixed A/B genotypes indicating possible recombination between the two populations. MLMT has proven to be a powerful tool for eco-epidemiological and population genetic investigations of Leishmania.

  3. Diversification of the silverspot butterflies (Nymphalidae) in the Neotropics inferred from multi-locus DNA sequences.

    Science.gov (United States)

    Massardo, Darli; Fornel, Rodrigo; Kronforst, Marcus; Gonçalves, Gislene Lopes; Moreira, Gilson Rudinei Pires

    2015-01-01

    The tribe Heliconiini (Lepidoptera: Nymphalidae) is a diverse group of butterflies distributed throughout the Neotropics, which has been studied extensively, in particular the genus Heliconius. However, most of the other lineages, such as Dione, which are less diverse and considered basal within the group, have received little attention. Basic information, such as species limits and geographical distributions remain uncertain for this genus. Here we used multilocus DNA sequence data and the geographical distribution analysis across the entire range of Dione in the Neotropical region in order to make inferences on the evolutionary history of this poorly explored lineage. Bayesian time-tree reconstruction allows inferring two major diversification events in this tribe around 25mya. Lineages thought to be ancient, such as Dione and Agraulis, are as recent as Heliconius. Dione formed a monophyletic clade, sister to the genus Agraulis. Dione juno, D. glycera and D. moneta were reciprocally monophyletic and formed genetic clusters, with the first two more close related than each other in relation to the third. Divergence time estimates support the hypothesis that speciation in Dione coincided with both the rise of Passifloraceae (the host plants) and the uplift of the Andes. Since the sister species D. glycera and D. moneta are specialized feeders on passion-vine lineages that are endemic to areas located either within or adjacent to the Andes, we inferred that they co-speciated with their host plants during this vicariant event. Copyright © 2014 Elsevier Inc. All rights reserved.

  4. Multi-locus genotyping of bottom fermenting yeasts by single nucleotide polymorphisms indicative of brewing characteristics.

    Science.gov (United States)

    Ikushima, Shigehito; Tateishi, Yoshiyuki; Kanai, Keiko; Shimada, Emiko; Tanaka, Misa; Ishiguro, Tatsuji; Mizutani, Satoru; Kobayashi, Osamu

    2012-04-01

    Yeast plays a capital role in brewing fermentation and has a direct impact on flavor and aroma. For the evaluation of competent brewing strains during quality control or development of novel strains it is standard practice to perform fermentation tests, which are costly and time-consuming. Here, we have categorized DNA markers which enable to distinguish and to screen brewing strains more efficiently than ever before. Sequence analysis at 289 loci in the genomes of six bottom fermenting Saccharomyces pastorianus strains revealed that 30 loci contained single nucleotide polymorphisms (SNPs). By determining the nucleotide sequences at the SNP-loci in 26 other S. pastorianus strains and 20 strains of the top fermenting yeast Saccharomyces cerevisiae, almost all these strains could be discriminated solely on the basis of the SNPs. By comparing the fermentative phenotypes of these strains we found that some DNA markers showed a strong association with brewing characteristics, such as the production of ethyl acetate and hydrogen sulphide (H2S). Therefore, the DNA markers we identified will facilitate quality control and the efficient development of brewing yeast strains.

  5. Multi Locus Sequence Typing of Chlamydia Reveals an Association between Chlamydia psittaci Genotypes and Host Species

    NARCIS (Netherlands)

    Pannekoek, Y.; Dickx, V.; Beeckman, D.S.A.; Jolley, K.A.; Keijzers, W.C.; Vretou, E.; Maiden, M.C.J.; Vanrompay, D.; van den Ende, A.

    2010-01-01

    Chlamydia comprises a group of obligate intracellular bacterial parasites responsible for a variety of diseases in humans and animals, including several zoonoses. Chlamydia trachomatis causes diseases such as trachoma, urogenital infection and lymphogranuloma venereum with severe morbidity.

  6. Calculation of interfacial tensions with gradient theory. I. Pure and Pseudo-Pure Fluids. II. Binary Systems

    DEFF Research Database (Denmark)

    Zuo, You-Xiang; Stenby, Erling Halfdan

    1997-01-01

    In this research work, the gradient theory (GT) of inhomogeneous fluids was used to calculate interfacial tensions (IFTs). The correlations of the influence parameter are presented for pure hydrocarbons, which can improve the scaling behavior of pure fluids under near-critical conditions. The ove...... the agreement is reasonably accurate in the near-critical region as the models reveal classical scaling behavior. To predict low IFTs accurately ((sigma)....... The overall average absolute deviations (ADDs) of the calculated IFTs from the GT model with the SRK, PR and PT equations of state (EOS´s) for 86 non-polar and weakly polar pure substances are 2.34%, 2.10% and 2.29%, respectively. At low pressure, the lumping method proposed by Leibovici [Leibovici, C.F, 1993...

  7. Dissipation and memory effects in pure glue deconfinement

    CERN Document Server

    Fraga, E S; Krein, G; Mizher, A J; Palhares, L F

    2007-01-01

    We investigate the effects of dissipation in the deconfining transition for a pure SU(2) gauge theory. Using an effective model for the order parameter, we study its Langevin evolution numerically, and compare results from local additive noise dynamics to those obtained considering an exponential non-local kernel for early times.

  8. A pure-sampling quantum Monte Carlo algorithm.

    Science.gov (United States)

    Ospadov, Egor; Rothstein, Stuart M

    2015-01-14

    The objective of pure-sampling quantum Monte Carlo is to calculate physical properties that are independent of the importance sampling function being employed in the calculation, save for the mismatch of its nodal hypersurface with that of the exact wave function. To achieve this objective, we report a pure-sampling algorithm that combines features of forward walking methods of pure-sampling and reptation quantum Monte Carlo (RQMC). The new algorithm accurately samples properties from the mixed and pure distributions simultaneously in runs performed at a single set of time-steps, over which extrapolation to zero time-step is performed. In a detailed comparison, we found RQMC to be less efficient. It requires different sets of time-steps to accurately determine the energy and other properties, such as the dipole moment. We implement our algorithm by systematically increasing an algorithmic parameter until the properties converge to statistically equivalent values. As a proof in principle, we calculated the fixed-node energy, static α polarizability, and other one-electron expectation values for the ground-states of LiH and water molecules. These quantities are free from importance sampling bias, population control bias, time-step bias, extrapolation-model bias, and the finite-field approximation. We found excellent agreement with the accepted values for the energy and a variety of other properties for those systems.

  9. Determination of Impurity Elements in Pure Cerium Oxide Product

    Institute of Scientific and Technical Information of China (English)

    Li Peizhong; Chen Limin; Li Jie

    2004-01-01

    Determination of the rare earth impurity in pure cerium oxide is done by ICP-MS.The interference and other factors which affect analytical results were discussed.The accuracy are between 0.81% ~ 11.98% and the recoveries of standard addition are 96% ~ 112.5%.This method can meet the demand for product inspection.

  10. PURE progress in innovative IPM in pome fruit in Europe

    NARCIS (Netherlands)

    Heijne, B.; Helsen, H.H.M.; Caffi, T.; Köhl, J.; Riemens, M.M.; Simon, S.; Buurma, J.S.; Hennen, W.H.G.J.

    2015-01-01

    Research on innovative Integrated Pest Management (IPM) tools is done onstation and on-farm in the PURE project. The idea is that IPM tools are tested under well-defined conditions in experimental orchards. Subsequently, they are tested in commercial orchards as part of a total IPM system where d

  11. Low Temperature PureB Technology for CMOS Compatible Photodetectors

    NARCIS (Netherlands)

    Mohammadi, V.

    2015-01-01

    In this thesis, conventional high temperature (HT, 700 °C) PureB technology is optimized in order to fabricate detectors with improved key parameters such as the spatial uniformity of the responsivity. A novel technology for low temperature (LT, 400 °C) boron deposition is developed providing a unif

  12. Complex windmill transformation producing new purely magnetic fluids

    NARCIS (Netherlands)

    Lozanovski, L.; Wylleman, L.

    2011-01-01

    Minimal complex windmill transformations of G2IB(ii) spacetimes (admitting a two-dimensional Abelian group of motions of the so-called Wainwright B(ii) class) are defined and the compatibility with a purely magnetic Weyl tensor is investigated. It is shown that the transformed spacetimes cannot be p

  13. Ambitwistor pure spinor string in a type II supergravity background

    Energy Technology Data Exchange (ETDEWEB)

    Chandia, Osvaldo [Departamento de Ciencias, Facultad de Artes Liberales, Universidad Adolfo Ibáñez,Facultad de Ingeniería y Ciencias, Universidad Adolfo Ibáñez,Diagonal Las Torres 2640, Peñalolén, Santiago (Chile); Vallilo, Brenno Carlini [Departamento de Ciencias Físicas, Facultad de Ciencias Exactas, Universidad Andres Bello,República 220, Santiago (Chile)

    2015-06-30

    We construct the ambitwistor pure spinor string in a general type II supergravity background in the semi-classical regime. Almost all supergravity constraints are obtained from nilpotency of the BRST charge and further consistency conditions from additional world-sheet the case of AdS{sub 5}×S{sup 5} background.

  14. Alkali suppression for pure Radioactive Ion Beam (RIB) production

    CERN Document Server

    E. Bouquerel, R. Catherall, M. Eller, J. Lettry, S. Marzari, T. Stora and the ISOLDE

    The ISOLDE facility at CERN has constantly developed new ion beams with betterpurity and improved yields over the last decades. Chemical selectivity for the productionof pure RIBs can be achieved by condensation of less volatile species in the transferline between the target and the ion source and by selective ionisation schemes such asthat provided by Resonance Ionization Laser Ion Source (RILIS)...

  15. Demonstration of Kirchhoff's First Law for Pure Spin Currents

    Science.gov (United States)

    Batley, Joseph; Rosamond, M. C.; Ali, M.; Linfield, E. H.; Burnell, G.; Hickey, B. J.

    In conventional electronics a fundamental component of circuit design is the principle of fan-out, which allows multiple operations to be performed in order to build up complex logical procedures. A fan-out device relies on the condition that electrical currents obey Kirchoff's laws and in order for spin-logic to be viable, the same must be shown for pure spin currents. Both fan-out and fan-in experiments have been performed to observe how spin currents behave in a multi-terminal circuit. The development of a 3-dimensional nonlocal IV and matrix fitting method provides information about each spin current, along with the thermal current generated at the injection point, and how they interact with each other. The fan-out geometry demonstrates that a pure spin current will divide between the different branches in a circuit, with a magnitude determined through the spin resistances of each arm. The fan-in measurements demonstrate that two pure spin currents will add and subtract with each other in a conventional manner expected from Kirchhoff's first law. These experiments have demonstrated the symmetry of pure spin currents with respect to the injection current and shown that they obey Kirchhoff's current law.

  16. A Hybrid Sensing Approach for Pure and Adulterated Honey Classification

    Directory of Open Access Journals (Sweden)

    Ammar Zakaria

    2012-10-01

    Full Text Available This paper presents a comparison between data from single modality and fusion methods to classify Tualang honey as pure or adulterated using Linear Discriminant Analysis (LDA and Principal Component Analysis (PCA statistical classification approaches. Ten different brands of certified pure Tualang honey were obtained throughout peninsular Malaysia and Sumatera, Indonesia. Various concentrations of two types of sugar solution (beet and cane sugar were used in this investigation to create honey samples of 20%, 40%, 60% and 80% adulteration concentrations. Honey data extracted from an electronic nose (e-nose and Fourier Transform Infrared Spectroscopy (FTIR were gathered, analyzed and compared based on fusion methods. Visual observation of classification plots revealed that the PCA approach able to distinct pure and adulterated honey samples better than the LDA technique. Overall, the validated classification results based on FTIR data (88.0% gave higher classification accuracy than e-nose data (76.5% using the LDA technique. Honey classification based on normalized low-level and intermediate-level FTIR and e-nose fusion data scored classification accuracies of 92.2% and 88.7%, respectively using the Stepwise LDA method. The results suggested that pure and adulterated honey samples were better classified using FTIR and e-nose fusion data than single modality data.

  17. About the Role of Visual Field Defects in Pure Alexia

    Science.gov (United States)

    Pflugshaupt, Tobias; Gutbrod, Klemens; Wurtz, Pascal; von Wartburg, Roman; Nyffeler, Thomas; de Haan, Bianca; Karnath, Hans-Otto; Mueri, Rene M.

    2009-01-01

    Pure alexia is an acquired reading disorder characterized by a disproportionate prolongation of reading time as a function of word length. Although the vast majority of cases reported in the literature show a right-sided visual defect, little is known about the contribution of this low-level visual impairment to their reading difficulties. The…

  18. Number Reading in Pure Alexia--A Review

    Science.gov (United States)

    Starrfelt, Randi; Behrmann, Marlene

    2011-01-01

    It is commonly assumed that number reading can be intact in patients with pure alexia, and that this dissociation between letter/word recognition and number reading strongly constrains theories of visual word processing. A truly selective deficit in letter/word processing would strongly support the hypothesis that there is a specialized system or…

  19. Classical Solutions of SU(3) Pure Yang-Mills Theory

    OpenAIRE

    2002-01-01

    Regular classical solutions of pure SU(3) gauge theories, in Minkowsky spacetime, are computed in the Landau gauge. The classical fields have an intrinsic energy scale and produce quark confinement if interpreted in the sense of a nonrelativistic potential. Moreover, the quark propagator in the background of these fields vanishes at large positive and negative time and space separations.

  20. Cyclic Pure Greedy Algorithms for Recovering Compressively Sampled Sparse Signals

    DEFF Research Database (Denmark)

    Sturm, Bob L.; Christensen, Mads Græsbøll; Gribonval, Remi

    2011-01-01

    The pure greedy algorithms matching pursuit (MP) and complementary MP (CompMP) are extremely computationally simple, but can perform poorly in solving the linear inverse problems posed by the recovery of compressively sampled sparse signals. We show that by applying a cyclic minimization principl...

  1. Non-thermal production of pure hydrogen from biomass : HYVOLUTION

    NARCIS (Netherlands)

    Claassen, P.A.M.; Vrije, de G.J.

    2006-01-01

    HYVOLUTION is the acronym of an Integrated Project ¿Non-thermal production of pure hydrogen from biomass¿ which has been granted in the Sixth EU Framework Programme on Research, Technological Development and Demonstration, Priority 6.1.ii, Sustainable Energy Systems. The aim of HYVOLUTION: ¿Developm

  2. Physical, chemical and electrochemical properties of pure and doped ceria

    DEFF Research Database (Denmark)

    Mogensen, Mogens Bjerg; Sammes, N.M.; Tompsett, G.A.

    2000-01-01

    This paper gives an extract of available data on the physical, chemical, electrochemical and mechanical properties of pure and doped ceria, predominantly in the temperature range from 200 to 1000 degrees C. Several areas are pointed out where further research is needed in order to make a better...

  3. On the pure Gauss-Bonnet vacuum solution

    CERN Document Server

    Dadhich, Naresh

    2010-01-01

    For the matter fields remaining confined to the usual four dimensional spacetime, if the gravitational dynamics in higher dimensions is purely governed by the Gauss-Bonnet vacuum equation, it turns out that it has non flat solution for spherically symmetric spacetime only in five dimensions. Does it indicate that the gravity cannot go beyond five dimensions?

  4. Surface Initiated Polymerizations via e-ATRP in Pure Water

    NARCIS (Netherlands)

    Hosseiny, Seyed Schwan; van Rijn, Patrick

    2013-01-01

    Here we describe the combined process of surface modification with electrochemical atom transfer radical polymerization (e-ATRP) initiated from the surface of a modified gold-electrode in a pure aqueous solution without any additional supporting electrolyte. This approach allows for a very controlle

  5. Equal channel angular pressing of pure aluminium—an analysis

    Indian Academy of Sciences (India)

    M Saravanan; R M Pillai; B C Pai; M Brahmakumar; K R Ravi

    2006-12-01

    Equal channel angular pressing (ECAP) is a novel technique for producing ultra fine grain structures in submicron level by introducing a large amount of shear strain into the materials without changing the billet shape or dimensions. This process is well suited for aluminium alloys and is capable of producing ultra fine grain structures with grain sizes falling between 200 and 500 nm. The present study attempts to apply ECAP technique to 99.5% pure aluminium and characterize the resulting aluminium by optical metallography, atomic force microscopy (AFM) and hardness measurement. ECAP of 99.5% pure aluminium produces ultrafine grain structure of about 620 nm after 8 passes. Despite an increase in the hardness from 23 to 47 BHN up to 6 passes, it decreases slightly for seventh and eighth passes. The results are compared with the already existing results available on pure aluminium. Analysis of the results of this investigation with those available in the literature has revealed that the number of passes essential to achieve a homogeneous microstructure in pure Al increases, while the ultimate equilibrium grain size obtained becomes finer with decreasing purity.

  6. pupyMPI - MPI implemented in pure Python

    DEFF Research Database (Denmark)

    Bromer, Rune; Hantho, Frederik; Vinter, Brian

    2011-01-01

    As distributed memory systems have become common, the de facto standard for communication is still the Message Passing Interface (MPI). pupyMPI is a pure Python implementation of a broad subset of the MPI 1.3 specifications that allows Python programmers to utilize multiple CPUs with datatypes...

  7. History and theology of Korean pentecostalism: Sunbogeum (pure gospel) Pentecostalism

    NARCIS (Netherlands)

    Kim, Ig-Jin

    2003-01-01

    The object of this study is to investigate the context and texture of Korean Pentecostalism - Sunbogeum (pure Gospel) Pentecostalism. This study shows that Sunbogeum Pentecostalism is the complex product of four factors: first, Korean religio-social circumstances; second, the doctrine of classical

  8. ALMOST PERIODICITY FOR AN IMPULSIVE PURE DELAY LOGISTIC EQUATION

    Institute of Scientific and Technical Information of China (English)

    2009-01-01

    By employing a fixed point theorem in cones,we investigate the existence of almost periodic solutions to an impulsive pure delay Logistic equation. A set of suffcient conditions for the existence of almost periodic solutions to the equation are obtained.

  9. Non-thermal production of pure hydrogen from biomass : HYVOLUTION

    NARCIS (Netherlands)

    Claassen, P.A.M.; Vrije, de G.J.

    2006-01-01

    HYVOLUTION is the acronym of an Integrated Project ¿Non-thermal production of pure hydrogen from biomass¿ which has been granted in the Sixth EU Framework Programme on Research, Technological Development and Demonstration, Priority 6.1.ii, Sustainable Energy Systems. The aim of HYVOLUTION:

  10. Three Variations on a Theme: The Power of Pure Empathy.

    Science.gov (United States)

    Kottler, Jeffrey A.; Montgomery, Marilyn J.; Marbley, Aretha Faye

    1998-01-01

    With the counseling profession's increased emphasis on developing brief therapies, applying innovative techniques, and measuring outcomes, helping someone feel understood is sometimes neglected. Three narratives by humanistic practitioners illustrate the value of pure empathy in our work with clients, students, and others in our diverse…

  11. Controlled synthesis and optical properties of pure gold nanoparticles

    NARCIS (Netherlands)

    Singh, A.K.; Rai, A.K.; Bicanic, D.D.

    2009-01-01

    Gold nanoparticles were synthesized by laser ablation of a gold metallic disc at wavelengths of 532 nm and 355 nm with 7 ns pulse duration in the pure water. The colloidal gold nanoparticles were characterized by ultraviolet-visible absorption spectroscopy, transmission electron microscopy, and

  12. 77 FR 59979 - Pure Magnesium (Granular) From China

    Science.gov (United States)

    2012-10-01

    ... this five-year review. Background The Commission instituted this review on February 1, 2012 (77 FR 5049) and determined on May 7, 2012 that it would conduct an expedited review (77 FR 32668, June 1, 2012... COMMISSION Pure Magnesium (Granular) From China Determination On the basis of the record \\1\\ developed in...

  13. The scroll of Pure Brightness on the River

    Institute of Scientific and Technical Information of China (English)

    2004-01-01

    <正>The scroll of Pure Brightness on the River drawn by the Chinese tradi tional painting master Zeduan Zhang depicts a well-off scene of Dongjing (present city of Kaifeng), which was the capital of the Northern Song dynasty a thousand year ago and was the top-ranking metropolis at that time. The scroll

  14. GGI Lectures on the Pure Spinor Formalism of the Superstring

    CERN Document Server

    Bedoya, Oscar A

    2009-01-01

    Notes taken by Oscar A. Bedoya of lectures of Nathan Berkovits in June 2009 at the Galileo Galilei Institute School "New Perspectives in String Theory". Topics include the pure spinor superparticle and superstring, tree and loop amplitudes, Ramond-Ramond backgrounds, and open problems.

  15. On the minimization of Hamiltonians over pure Gaussian states

    DEFF Research Database (Denmark)

    Derezinski, Jan; Napiorkowski, Marcin; Solovej, Jan Philip

    2013-01-01

    A Hamiltonian defined as a polynomial in creation and annihilation operators is considered. After a minimization of its expectation value over pure Gaussian states, the Hamiltonian is Wick-ordered in creation and annihillation operators adapted to the minimizing state. It is shown...

  16. Pure iron and other magnetic minerals in meteorites

    Science.gov (United States)

    Pechersky, D. M.; Markov, G. P.; Tsel'movich, V. A.

    2015-01-01

    The results of thermomagnetic and microprobe analyses of 37 samples from 25 different types of meteorite are analyzed with the focus on the presence of pure (nickel-free) iron in them. It is established that the metallic particles in the studied meteorites cluster in three isolated groups: (1) pure iron, (2) kamacite with mode 3-6% Ni, and (3) taenite with mode ˜50% Ni. The hiatuses in the Fe-Ni alloy compositions between these groups of magnetic grains contradict the Fe-Ni phase diagram, which predicts a continuous series of solid solutions in this system. This isolated distribution of the compositions of the metallic particles in the meteorites is reasonably accounted for by the specific properties of the melt (melts) and the processes of their crystallization and decomposition in space. It is suggested that pure iron in the meteorites could have been formed by either of two scenarios. According to the "primary," pure iron crystallizes from the melt, and according to the "secondary" scenario, it is produced by the decomposition of the solid solution.

  17. Controlled synthesis and optical properties of pure gold nanoparticles

    NARCIS (Netherlands)

    Singh, A.K.; Rai, A.K.; Bicanic, D.D.

    2009-01-01

    Gold nanoparticles were synthesized by laser ablation of a gold metallic disc at wavelengths of 532 nm and 355 nm with 7 ns pulse duration in the pure water. The colloidal gold nanoparticles were characterized by ultraviolet-visible absorption spectroscopy, transmission electron microscopy, and fluo

  18. Optimization of Jatropha curcas pure plant oil production

    NARCIS (Netherlands)

    Subroto, Erna

    2015-01-01

    The use of pure plant oils as fuel, either directly or after conversion of the oil to bio-diesel, is considered to be one of the potential contributions to the transformation of the current fossil oil based economy to a sustainable bio-based one. The production of oil producing seeds using plants

  19. Light-Induced Absorption in Nominally Pure Bismuth Silicon Oxide

    Institute of Scientific and Technical Information of China (English)

    李飞飞; 许京军; 孔勇发; 黄辉; 张光寅; 杨春晖; 徐玉恒

    2001-01-01

    Light-induced absorption in the nominally pure bismuth silicon oxide is investigated experimentally and the result shows that it consists of transient and persistent parts. The experimental evidence is analysed based on the model of three groups of trap (donor) centres.

  20. History and theology of Korean pentecostalism: Sunbogeum (pure gospel) Pentecostalism

    NARCIS (Netherlands)

    Kim, Ig-Jin

    2003-01-01

    The object of this study is to investigate the context and texture of Korean Pentecostalism - Sunbogeum (pure Gospel) Pentecostalism. This study shows that Sunbogeum Pentecostalism is the complex product of four factors: first, Korean religio-social circumstances; second, the doctrine of classical P

  1. Pure E and B polarization maps via Wiener filtering

    CERN Document Server

    Bunn, Emory F

    2016-01-01

    In order to draw scientific conclusions from observations of cosmic microwave background (CMB) polarization, it is necessary to separate the contributions of the E and B components of the data. For data with incomplete sky coverage, there are ambiguous modes, which can be sourced by either E or B signals. Techniques exist for producing "pure" E and B maps, which are guaranteed to be free of cross-contamination, although the standard method, which involves constructing an eigenbasis, has a high computational cost. We show that such pure maps can be thought of as resulting from the application of a Wiener filter to the data. This perspective leads to far more efficient methods of producing pure maps. Moreover, by expressing the idea of purification in the general framework of Wiener filtering (i.e., maximization of a posterior probability), it leads to a variety of generalizations of the notion of pure E and B maps, e.g., accounting for noise or other contaminants in the data as well as correlations with temper...

  2. Simple reaction time for broadband sounds compared to pure tones.

    Science.gov (United States)

    Schlittenlacher, Josef; Ellermeier, Wolfgang; Avci, Gül

    2017-02-01

    Although many studies have explored the relation between reaction time (RT) and loudness, including effects of intensity, frequency, and binaural summation, comparable work on spectral summation is rare. However, most real-world sounds are not pure tones and typically have bandwidths covering several critical bands. Since comparing to a 1-kHz pure tone, the reference tone, is important for loudness measurement and standardization, the present work focuses on comparing RTs for broadband noise to those for 1-kHz pure tones in three experiments using different spectral and binaural configurations. The results of Experiments 1 and 2 yield good quantitative agreement with spectral loudness summation models for moderate and high sound pressure levels, measured using both pink noise covering almost the entire hearing range and bandpass-filtered pink noise with different center frequencies. However, at lower levels, the RT measurements yield an interaction of level and bandwidth, which is not in line with loudness scaling data. In Experiment 3, which investigated the binaural summation of broadband sounds, the binaural gain for white noise was determined to be 9 dB, which is somewhat larger than what had been found in previous RT measurements using 1-kHz pure tones.

  3. About the Role of Visual Field Defects in Pure Alexia

    Science.gov (United States)

    Pflugshaupt, Tobias; Gutbrod, Klemens; Wurtz, Pascal; von Wartburg, Roman; Nyffeler, Thomas; de Haan, Bianca; Karnath, Hans-Otto; Mueri, Rene M.

    2009-01-01

    Pure alexia is an acquired reading disorder characterized by a disproportionate prolongation of reading time as a function of word length. Although the vast majority of cases reported in the literature show a right-sided visual defect, little is known about the contribution of this low-level visual impairment to their reading difficulties. The…

  4. A Pure Object-Oriented Embedding of Attribute Grammars

    NARCIS (Netherlands)

    Sloane, A.M.; Kats, L.C.L.; Visser, E.

    2009-01-01

    This paper is a pre-print of: Anthony M. Sloane, Lennart C. L. Kats, Eelco Visser. A Pure Object-Oriented Embedding of Attribute Grammars. In T. Ekman and J. Vinju, editors, Proceedings of the Ninth Workshop on Language Descriptions, Tools, and Applications (LDTA’09), Electronic Notes in Theoretical

  5. ONE CASE REPORT OF PURE SENSORY GUILLAIN-BARRE SYNDROME

    Institute of Scientific and Technical Information of China (English)

    杨咏梅; 夏中信; 魏岗之

    2004-01-01

    @@ The existence of purely sensory form of GuillianBarre syndrome is still subject to controversy. We report the case of patient who was admitted in our hospital in October, 1999 and had acute sensory neuropathy which, due to its clinicial, cerebrospinal fluid and electrophysiological characteristics, may be considered a sensory form of Guillain-Barre syndrome.

  6. The matrix type of purely infinite simple Leavitt path algebras

    CERN Document Server

    Abrams, Gene

    2009-01-01

    Let $R$ denote the purely infinite simple unital Leavitt path algebra $L(E)$. We completely determine the pairs of positive integers $(c,d)$ for which there is an isomorphism of matrix rings $M_c(R)\\cong M_d(R)$, in terms of the order of $[1_R]$ in the Grothendieck group $K_0(R)$.

  7. Extracting pure endmembers using symmetric sparse representation for hyperspectral imagery

    Science.gov (United States)

    Sun, Weiwei; Liu, Chun; Sun, Yanwei; Li, Weiyue; Li, Jialin

    2016-10-01

    This article proposes a symmetric sparse representation (SSR) method to extract pure endmembers from hyperspectral imagery (HSI). The SSR combines the features of the linear unmixing model and the sparse subspace clustering model of endmembers, and it assumes that the desired endmembers and all the HSI pixel points can be sparsely represented by each other. It formulates the endmember extraction problem into a famous program of archetypal analysis, and accordingly, extracting pure endmembers can be transformed as finding the archetypes in the minimal convex hull containing all the HSI pixel points. The vector quantization scheme is adopted to help in carefully choosing the initial pure endmembers, and the archetypal analysis program is solved using the simple projected gradient algorithm. Seven state-of-the-art methods are implemented to make comparisons with the SSR on both synthetic and real hyperspectral images. Experimental results show that the SSR outperforms all the seven methods in spectral angle distance and root-mean-square error, and it can be a good alternative choice for extracting pure endmembers from HSI data.

  8. Pure Mediated Priming: A Retrospective Semantic Matching Model

    Science.gov (United States)

    Jones, Lara L.

    2010-01-01

    Mediated priming refers to the activation of a target (e.g., "stripes") by a prime (e.g., "lion") that is related indirectly via a connecting mediator (e.g., tiger). In previous mediated priming studies (e.g., McNamara & Altarriba, 1988), the mediator was associatively related to the prime. In contrast, pure mediated…

  9. Pure Redistribution and the Provision of Public Goods

    DEFF Research Database (Denmark)

    Sausgruber, Rupert; Tyran, Jean-Robert

    We study pure redistribution as a device to increase cooperation and efficiency in the provision of public goods. Experimental subjects play a two-stage game. The first stage is the standard linear public goods game. In the second stage, subjects can redistribute payoffs among other subjects...... cooperation in the provision of public goods...

  10. Pure E and B polarization maps via Wiener filtering

    Science.gov (United States)

    Bunn, Emory F.; Wandelt, Benjamin

    2017-08-01

    In order to draw scientific conclusions from observations of cosmic microwave background (CMB) polarization, it is necessary to separate the contributions of the E and B components of the data. For data with incomplete sky coverage, there are ambiguous modes, which can be sourced by either E or B signals. Techniques exist for producing "pure" E and B maps, which are guaranteed to be free of cross-contamination, although the standard method, which involves constructing an eigenbasis, has a high computational cost. We show that such pure maps can be thought of as resulting from the application of a Wiener filter to the data. This perspective leads to far more efficient methods of producing pure maps. Moreover, by expressing the idea of purification in the general framework of Wiener filtering (i.e., maximization of a posterior probability), it leads to a variety of generalizations of the notion of pure E and B maps, e.g., accounting for noise or other contaminants in the data as well as correlations with temperature anisotropy.

  11. Pure dephasing of single Mn spin in semiconductor quantum dots

    Science.gov (United States)

    Liu, Dingyang; Lai, Wenxi; Yang, Wen

    2017-08-01

    We present comprehensive analytical and numerical studies on the pure dephasing of a single Mn spin in a semiconductor quantum dot due to (i) its sp-d exchange interaction with an electronic environment, and (ii) its hyperfine interaction with the nuclear spin environment. For (i), by modeling the electronic environment by an open two-level system, we provide exact analytical expressions and present detailed analysis for the Mn spin pure dephasing in both the Markovian and non-Markovian regimes. This provides a clear physical picture and a general theoretical framework based on which we estimate the Mn spin pure dephasing due to various fluctuations (such as thermal excitation, optical pumping, tunneling, or electron/hole spin relaxation) of the electronic environment and reveals a series of interesting behaviors, such as thermal, optical, and electrical control of the crossover between the Markov and non-Markov regimes. In particular, we find rapid Mn spin pure dephasing on a nanosecond time scale by the thermal fluctuation and optical pumping, but these mechanisms can be strongly suppressed by shifting the electron envelope function relative to the Mn atom with an external electric field through the quantum-confined Stark effect. The thermal fluctuation mechanism is also exponentially suppressed at low temperature. For (ii), we find that the Mn spin dephasing time is limited by the thermal fluctuation of the nuclear spins to a few microseconds even at low temperature and its value varies from sample to sample, depending on the distribution of spinful isotopes on the nearest-neighbor sites surrounding the substitutional Mn atom. Our findings may be useful to understand and suppress the Mn spin pure dephasing for its applications in quantum information processing.

  12. Pure drug nanoparticles in tablets: what are the dissolution limitations?

    Energy Technology Data Exchange (ETDEWEB)

    Heng, Desmond [Institute of Chemical and Engineering Sciences (Singapore); Ogawa, Keiko [Nitto Denko Co. Ltd., Medical Division (Japan); Cutler, David J.; Chan, Hak-Kim, E-mail: kimc@pharm.usyd.edu.a [University of Sydney, Advanced Drug Delivery Group, Faculty of Pharmacy, A15 (Australia); Raper, Judy A. [University of Wollongong, Vice Chancellor' s Unit (Australia); Ye Lin [University of Sydney, School of Aerospace, Mechanical and Mechatronic Engineering (Australia); Yun, Jimmy [Nanomaterials Technology Pty. Ltd. (Singapore)

    2010-06-15

    There has been increasing interests for drug companies to incorporate drug nanoparticles into their existing formulations. However, technical knowledge in this area is still in its infancy and more study needs to be done to stimulate growth in this fledging field. There is a need to scrutinize the performance of pure drug nanoparticles in tablets, particularly relating formulation variables to their dissolution performance. Application of the pure form, synthesized without the use of surfactants or stabilizers, is often preferred to maximize drug loading and also to minimize toxicity. Cefuroxime axetil, a poorly water-soluble cephalosporin antibiotic, was used as the model drug in the formulation development. Drug release rate, tablet disintegration time, tensile strength and energy of failure were predominantly influenced by the amount of super-disintegrant, amount of surfactant, compression force and diluent species, respectively. The compression rate had minimal impact on the responses. The main hurdle confronting the effective use of pure drug nanoparticles in tablets is the difficulty in controlling aggregation in solution, which could potentially be aggravated by the tabletting process. Through the use of elevated levels of surfactants (8 w/w% sodium dodecyl sulphate), drug release from the nanoparticle preparation was enhanced from 58.0 {+-} 2.7% to 72.3 {+-} 0.7% in 10 min. Hence, it is recommended that physical formulations for pure drug nanoparticles be focused on the particle de-aggregation step in solution, if much higher rates are to be desired. In conclusion, even though pure drug nanoparticles could be easily synthesized, limitations from aggregation may need to be overcome, before successful application in tablets can be fully realized.

  13. Similarities and differences between learning abilities, "pure" learning disabilities, "pure" ADHD and comorbid ADHD with learning disabilities.

    Science.gov (United States)

    Mangina, Constantine A; Beuzeron-Mangina, Helen

    2009-08-01

    This research pursues the crucial question of the differentiation of preadolescents with "Pure" ADHD, comorbid ADHD with learning disabilities, "Pure" learning disabilities and age-matched normal controls. For this purpose, Topographic Mapping of Event-Related Brain Potentials (ERPs) to a Memory Workload Paradigm with visually presented words, Bilateral Electrodermal Activity during cognitive workload and Mangina-Test performance were used. The analysis of Topographic distribution of amplitudes revealed that normal preadolescents were significantly different from "Pure" ADHD (Plearning disabilities (Plearning disabilities (Plearning disabilities have shown a marked reduction of prefrontal and frontal negativities (N450). As for the "Pure" Learning Disabled preadolescents, very small positivities (P450) in prefrontal and frontal regions were obtained as compared to the other pathological groups. Bilateral Electrodermal Activity during cognitive workload revealed a significant main effect for groups (P<0.00001), Left versus Right (P=0.0029) and sessions (P=0.0136). A significant main effect for the Mangina-Test performance which separated the four groups was found (P<0.000001). Overall, these data support the existence of clear differences and similarities between the pathological preadolescent groups as opposed to age-matched normal controls. The psychophysiological differentiation of these groups, provides distinct biological markers which integrate central, autonomic and neuropsychometric variables by targeting the key features of these pathologies for diagnosis and intervention strategies and by providing knowledge for the understanding of normal neurocognitive processes and functions.

  14. Epistatic interactions in idiopathic pulmonary arterial hypertension

    OpenAIRE

    Shivani Vadapalli; M.L Satyanarayana; Chaitra, K.L.; H Surekh Rani; Sastry, B.K.S.; Pratibha Nallari

    2012-01-01

    Background : Idiopathic pulmonary arterial hypertension (IPAH) is a poorly understood complex disorder, which results in progressive remodeling of the pulmonary artery that ultimately leads to right ventricular failure. A two-hit hypothesis has been implicated in pathogenesis of IPAH, according to which the vascular abnormalities characteristic of PAH are triggered by the accumulation of genetic and/or environmental insults in an already existing genetic background. The multifactor dimensiona...

  15. Five Measurement Bases Determine Pure Quantum States on Any Dimension.

    Science.gov (United States)

    Goyeneche, D; Cañas, G; Etcheverry, S; Gómez, E S; Xavier, G B; Lima, G; Delgado, A

    2015-08-28

    A long-standing problem in quantum mechanics is the minimum number of observables required for the characterization of unknown pure quantum states. The solution to this problem is especially important for the developing field of high-dimensional quantum information processing. In this work we demonstrate that any pure d-dimensional state is unambiguously reconstructed by measuring five observables, that is, via projective measurements onto the states of five orthonormal bases. Thus, in our method the total number of different measurement outcomes (5d) scales linearly with d. The state reconstruction is robust against experimental errors and requires simple postprocessing, regardless of d. We experimentally demonstrate the feasibility of our scheme through the reconstruction of eight-dimensional quantum states, encoded in the momentum of single photons.

  16. A case of pure autotopagnosia following Creutzfeldt-Jakob disease.

    Science.gov (United States)

    Tamura, Itaru; Hamada, Shinsuke; Soma, Hiroyuki; Moriwaka, Fumio; Tashiro, Kunio

    2016-12-02

    A 69-year-old male (N.A.) with Creutzfeldt-Jakob disease showed pure autotopagnosia. We administered tests evaluating his ability to name his own body parts, to point to body parts (his own and examiner's), and to recognize positional relationships between his body parts by verbal questions and responses. We found impaired localization of the patient's own body parts by pointing and impaired recognition of positional relationships between his body parts. However, there was no impairment in naming his own body parts or in localizing the examiner's body parts. The results suggest a pure autotopagnosia in N.A. leading to an impairment of recognition of the spatial position of his body parts in a three-dimensional body representation within the egocentric reference frame. We were able to rule out the possibility that his pattern of performance could have been due to a disability in programming reaching movements of the arm.

  17. Bootstrapping Pure Quantum Gravity in AdS3

    CERN Document Server

    Bae, Jin-Beom; Lee, Sungjay

    2016-01-01

    The three-dimensional pure quantum gravity with negative cosmological constant is supposed to be dual to the extremal conformal field theory of central charge $c=24k$ in two dimensions. We employ the conformal bootstrap method to analyze the extremal CFTs, and find numerical evidence for the non-existence of the extremal CFTs for sufficiently large central charge ($k \\ge 20$). We also explore near-extremal CFTs, a small modification of extremal ones, and find similar evidence for their non-existence for large central charge. This indicates, under the assumption of holomorphic factorization, the pure gravity in the weakly curved AdS$_3$ do not exist as a consistent quantum theory.

  18. Electronic structures and physical properties of pure aluminum metal

    Institute of Scientific and Technical Information of China (English)

    谢佑卿; 刘心笔

    1999-01-01

    By one-atom theory, the electronic structure of pure Al metal with f.c.c, structure has been determined to be [Ne](3sc)1.8790(3pc)0.4982(3sf+3pf)0.6228. According to this electronic structure, the potential curve, lattice constant, cohesive energy, elastisity, and the temperature dependence of the linear thermal expansion coefficients have been calculated. The electronic structures and characteristic properties of Al metals with b. c. c., h.c.p. structures and liquid have been studied. It is argued that the pure Al metal with f. c.c. structure can exist naturally, but with b. c. c.and h. c.p. structures cannot.##属性不符

  19. Abnormal austenite-ferrite transformation behavior in pure iron

    Institute of Scientific and Technical Information of China (English)

    LIU Yongchang; F.Sommer; E.J. Mittemeijer

    2004-01-01

    The austenite → ferrite transformation is the most important reaction route in the manufacture of Fe-based materials. Here the austenite (γ) → ferrite (α)transformation of pure iron was systematically explored by high-resolution dilatometry. Abnormal transformation kinetics, multi-peak discontinuous reaction, was recognized in pure iron according to the variation of the ferrite-formation rate. The occurrence the one or the other type of γ→α trans formation strongly depends on the grain size: the transformation type changes from abnormal to normal (single-peak continuous reaction) with decreasing grain size. The inherent reason for the occurrence of abnormal transformation could be attributed to the repeated nucleation in front of the moving γ/α interface induced by the accumulation of elastic and plastic accommodation energy.

  20. Modes of the Kerr geometry with purely imaginary frequencies

    CERN Document Server

    Cook, Gregory B

    2016-01-01

    In this paper, we examine the behavior of modes of the Kerr geometry when the mode's frequency is purely imaginary. We demonstrate that quasinormal modes must be polynomial in nature if their frequency is purely imaginary, and present a method for computing such modes. The nature of these modes, however, is not always easy to determine. Some of the polynomial modes we compute are quasinormal modes. However, some are simultaneously quasinormal modes and total transmission modes, while others fail to satisfy the requisite boundary conditions for either. This analysis is, in part, an extension of the results known for Schwarzschild black holes, but clarifies misconceptions for the behavior of modes when the black hole has angular momentum. We also show that the algebraically special modes of Kerr with m=0 have an additional branch of solutions not seen before in the literature. All of these results are in precise agreement with new numerical solutions for sequences of gravitational quasinormal modes of Kerr. How...

  1. Muon motion in pure and weakly doped aluminium

    CERN Document Server

    Niinikoski, T O; Karlsson, E; Kehr, K W; Norlin, L O; Richter, D; Welter, J M

    1981-01-01

    The authors have studied the diffusion and localization of positive muons in pure and weakly doped aluminium, in the temperature range 30 mK-100K, by measuring the damping parameter of the muon spin rotation ( mu SR) signal. In this paper they discuss some of their recent results and draw the following conclusions: i) in pure Al, positive muons are delocalized in band states (coherent motion); ii) in Al doped with 5-70 ppm Mn, the temperature, concentration and field dependences of the damping parameter suggest diffusion or capture limited trapping to octahedral interstitial sites in the aluminium lattice below 1K; iii) above 2K a two-state diffusion-trapping model explains well the peak in the damping parameter, which appears at 15-50K for the dopants Mn, Mg, Li and Ag so far studied. (11 refs).

  2. BSP的纯Java实现%Pure Java Implementation of BSP

    Institute of Scientific and Technical Information of China (English)

    孟睿; 李国平; 董景毅; 童维勤

    2001-01-01

    With the wide acceptance of the computing concept of cluster-based or cluster-of-clusters computing, network-based high performance computing is gaining increasing popularity among parallel computing community. Current parallel environments such as MPI (Message Passing Interface) or BSP (Bulk Synchronous Parallel) can not apply readily to heterogeneous computing platform. In order to exploit the maximum performance potential that a heterogeneous environment brings, we have made some experiments on implementing BSP in pure Java, a fully platform-independent language. The experimental results show that implementation of parallel libraries in Java is feasible and the performance is moderately acceptable. The paper describes our experiences in implementation of BSP in pure Java. Implementation and efficiency issues such as data transport, network communication, support thread, barrier synchronization and dynamic class loading mechanism are discussed in detail.

  3. BSP的纯Java实现%Pure Java Implementation of BSP

    Institute of Scientific and Technical Information of China (English)

    孟睿; 李国平; 董景毅; 童维勤

    2000-01-01

    With the wide acceptance of the computing concept of cluster-based or cluster-of-clusters computing, network-based high performance computing is gaining increasing popularity among parallel computing community. Current parallel environments such as MPI (Message Passing Interface) or BSP (Bulk Synchronous Parallel) can not apply readily to heterogeneous computing platform. In order to exploit the maximum performance potential that a heterogeneous environment brings, we have made some experiments on implementing BSP in pure Java, a fully platform-independent language. The experimental results show that implementation of parallel libraries in Java is feasible and the performance is moderately acceptable. The paper describes our experiences in implementation of BSP in pure Java. Implementation and efficiency issues such as data transport, network communication, support thread, barrier synchronization and dynamic class loading mechanism are discussed in detail.

  4. Rational numbers with purely periodic $\\beta$-expansion

    CERN Document Server

    Adamczewski, Boris; Siegel, Anne; Steiner, Wolfgang

    2009-01-01

    We study real numbers $\\beta$ with the curious property that the $\\beta$-expansion of all sufficiently small positive rational numbers is purely periodic. It is known that such real numbers have to be Pisot numbers which are units of the number field they generate. We complete known results due to Akiyama to characterize algebraic numbers of degree 3 that enjoy this property. This extends results previously obtained in the case of degree 2 by K. Schmidt, Hama and Imahashi. Let $\\gamma(\\beta)$ denote the supremum of the real numbers $c$ in $(0,1)$ such that all positive rational numbers less than $c$ have a purely periodic $\\beta$-expansion. We prove that $\\gamma(\\beta)$ is irrational for a class of cubic Pisot units that contains the smallest Pisot number $\\eta$. This result is motivated by the observation of Akiyama and Scheicher that $\\gamma(\\eta)=0.666 666 666 086 ...$ is surprisingly close to 2/3.

  5. Experimental investigations on the first Townsend coefficient in pure isobutane

    Energy Technology Data Exchange (ETDEWEB)

    Lima, I.B. [Instituto de Pesquisas Energeticas e Nucleares, 05508-000 Cidade Universitaria, Sao Paulo (Brazil); Mangiarotti, A. [Laboratorio de Instrumentacao e Fisica Experimental de Particulas, Departamento de Fisica da Universidade de Coimbra, 3004-516 Coimbra (Portugal); Departamento de Fisica, Faculdade de Ciencias e Tecnologia, Universidade de Coimbra, 3004-516 Coimbra (Portugal); Vivaldini, T.C. [Instituto de Pesquisas Energeticas e Nucleares, 05508-000 Cidade Universitaria, Sao Paulo (Brazil); Goncalves, J.A.C. [Instituto de Pesquisas Energeticas e Nucleares, 05508-000 Cidade Universitaria, Sao Paulo (Brazil); Departamento de Fisica, Pontificia Universidade Catolica de Sao Paulo, 01303-050 Sao Paulo (Brazil); Botelho, S. [Departamento de Fisica, Pontificia Universidade Catolica de Sao Paulo, 01303-050 Sao Paulo (Brazil); and others

    2012-04-01

    In this work we present results of the first Townsend coefficient ({alpha}) in pure isobutane by measuring the current growth as a function of the electric field strength in a pulsed irradiation regime. A Resistive Plate Chamber (RPC)-like configuration was used. To validate this method, as well as to crosscheck the experimental apparatus, measurements of the {alpha} parameter were firstly carried out with pure nitrogen and the results compared to the accurate data available in the literature. The data obtained with isobutane in a field range from 145 Td up to 200 Td were well-matched to those calculated with Magboltz versions 2.7.1 and 2.8.6. The experimental consistency of these results with other published data in the range of 550-1300 Td was very good, as demonstrated by the use of the Korff parameterization.

  6. Control aspects of quantum computing using pure and mixed states.

    Science.gov (United States)

    Schulte-Herbrüggen, Thomas; Marx, Raimund; Fahmy, Amr; Kauffman, Louis; Lomonaco, Samuel; Khaneja, Navin; Glaser, Steffen J

    2012-10-13

    Steering quantum dynamics such that the target states solve classically hard problems is paramount to quantum simulation and computation. And beyond, quantum control is also essential to pave the way to quantum technologies. Here, important control techniques are reviewed and presented in a unified frame covering quantum computational gate synthesis and spectroscopic state transfer alike. We emphasize that it does not matter whether the quantum states of interest are pure or not. While pure states underly the design of quantum circuits, ensemble mixtures of quantum states can be exploited in a more recent class of algorithms: it is illustrated by characterizing the Jones polynomial in order to distinguish between different (classes of) knots. Further applications include Josephson elements, cavity grids, ion traps and nitrogen vacancy centres in scenarios of closed as well as open quantum systems.

  7. Entanglement dynamics of a pure bipartite system in dissipative environments

    Energy Technology Data Exchange (ETDEWEB)

    Tahira, Rabia; Ikram, Manzoor; Azim, Tasnim; Suhail Zubairy, M [Centre for Quantum Physics, COMSATS Institute of Information Technology, Islamabad (Pakistan)

    2008-10-28

    We investigate the phenomenon of sudden death of entanglement in a bipartite system subjected to dissipative environments with arbitrary initial pure entangled state between two atoms. We find that in a vacuum reservoir the presence of the state where both atoms are in excited states is a necessary condition for the sudden death of entanglement. Otherwise entanglement remains for an infinite time and decays asymptotically with the decay of individual qubits. For pure 2-qubit entangled states in a thermal environment, we observe that the sudden death of entanglement always happens. The sudden death time of the entangled states is related to the temperature of the reservoir and the initial preparation of the entangled states.

  8. Direct Observation of High Photoresponsivity in Pure Graphene Photodetectors

    Science.gov (United States)

    Liu, Yanping; Xia, Qinglin; He, Jun; Liu, Zongwen

    2017-02-01

    Ultrafast and broad spectral bandwidth photodetectors are desirable attributable to their unique bandstructures. Photodetectors based on graphene have great potential due to graphene's outstanding optical and electrical properties. However, the highest reported values of the photoresponsivity of pure graphene are less than 10 mA/W at room temperature, which significantly limits its potential applications. Here, we report a photoresponsivity of 32 A/W in pure monolayer graphene photodetectors, an improvement of over one order of magnitude for functional graphene nanostructures (devices can be attributed to the high sensitivity of graphene's resistivity to a local change of the electric field induced by photo-excited carriers generated in the light-doping substrate. This dramatically increases the feasibility of using graphene for the next generation of photodetectors.

  9. Theoretical Constraint on Purely Kinetic k-Essence

    Institute of Scientific and Technical Information of China (English)

    YANG Rong-Jia; ZHANG Shuang-Nan

    2008-01-01

    Purely kinetic κ-essence models in which the Lagrangian contains only a kinetic factor and does not depend explicitly on the field itself are considered.and a theoretical constraint is obtained:Fx=F0α-3.Under this theoretical constraint,we discuss a kind of purely k-essence with form F(X)=-(1+2Xn)1/2n,which can be considered as the generalized tachyon field,and find that this kind of κ-essence is not likely a candidate of dark energy to describe the present accelerated expansion of the Universe.This is contrary to a previous suggestion that κ-essence with such a form may be used to describe phantom cosmologies.

  10. An IR study of pure and ion irradiated frozen formamide

    CERN Document Server

    Brucato, J R; Strazzulla, G; Baratta, Giuseppa A.; Brucato, John R.; Strazzulla, Giovanni

    2006-01-01

    Context. The chemical evolution of formamide (HCONH2), a molecule of astrobiological interest that has been tentatively identified in interstellar ices and in cometary coma, has been studied in laboratory under simulated astrophysical conditions such as ion irradiation at low temperature. Aims. To evaluate the abundances of formamide observed in space or in laboratory, the integrated absorbances for all the principal IR features of frozen amorphous pure formamide deposited at 20 K were measured. Further evidence that energetic processing of ices occurring in space is extremely relevant both to astrochemistry and to astrobiology has been found, showing that new molecular species are synthesized by ion irradiation at a low temperature. Methods. Pure formamide were deposited at 20 K and IR transmission spectra measured for different ice thicknesses. The ice thickness was derived by looking at the interference pattern (intensity versus time) of a He-Ne laser beam reflected at an angle of 45 deg by the vacuum-film...

  11. Clifford Algebras, Pure Spinors and the Physics of Fermions

    CERN Document Server

    Budinich, P

    2002-01-01

    The equations defining pure spinors are interpreted as equations of motion formulated on the lightcone of a ten-dimensional, lorentzian, momentum space. Most of the equations for fermion multiplets, usually adopted by particle physics, are then naturally obtained and their properties like internal symmetries, charges, families appear to be due to the correlation of the associated Clifford algebras, with the 3 complex division algebras: complex numbers at the origin of U(1) and charges; quaternions at the origin of SU(2); families and octonions at the origin of SU(3). Pure spinors instead could be relevant not only because the underlying momentum space results compact, but also because it may throw light on some aspects of particle physics, like: masses, charges, constraint relations, supersymmetry and epistemology.

  12. Pure Spinor Superstrings on Generic type IIA Supergravity Backgrounds

    CERN Document Server

    D'Auria, R; Grassi, P A; Trigiante, M

    2008-01-01

    We derive the Free Differential Algebra for type IIA supergravity in 10 dimensions in the string frame. We provide all fermionic terms for all curvatures. We derive the Green-Schwarz sigma model for type IIA superstring based on the FDA construction and we check its invariance under kappa-symmetry. Finally, we derive the pure spinor sigma model and we check the BRST invariance. The present derivation has the advantage that the resulting sigma model is constructed in terms of the superfields appearing in the FDA and therefore one can directly relate a supergravity background with the corresponding sigma model. The complete explicit form of the BRST transformations is given and some new pure spinor constraints are obtained. Finally, the explicit form of the action is given.

  13. Biomedical effects of mushrooms with emphasis on pure compounds

    Directory of Open Access Journals (Sweden)

    R. Russell M Paterson

    2014-12-01

    Full Text Available Medicinal mushrooms show great promise for disease treatments. They have been employed in the Orient and Occident for thousands of years, although the practice has persisted in the East. They remain highly valuable. Authentic human trials and pure compounds are emphasized in this review of the most current literature. Polysaccharides from the fungi appear effective in cancer treatments and low-molecular-weight compounds also attract much interest. However, reports of toxicity must be taken seriously. Prescriptions for mushrooms and preparations need to be given by qualified medical practitioners. The reason why these preparations are not more widely used in the West is related to problems of (A intellectual property rights, (B mass production, and (C obtaining pure compounds that retain activity. Mushroom compounds require testing against infectious diseases such as those caused by bacteria, because the current antibiotics are failing from resistances. Overall, the future is assured for medicinal mushrooms.

  14. Biomedical effects of mushrooms with emphasis on pure compounds.

    Science.gov (United States)

    Paterson, R Russell M; Lima, Nelson

    2014-01-01

    Medicinal mushrooms show great promise for disease treatments. They have been employed in the Orient and Occident for thousands of years, although the practice has persisted in the East. They remain highly valuable. Authentic human trials and pure compounds are emphasized in this review of the most current literature. Polysaccharides from the fungi appear effective in cancer treatments and low-molecular-weight compounds also attract much interest. However, reports of toxicity must be taken seriously. Prescriptions for mushrooms and preparations need to be given by qualified medical practitioners. The reason why these preparations are not more widely used in the West is related to problems of (A) intellectual property rights, (B) mass production, and (C) obtaining pure compounds that retain activity. Mushroom compounds require testing against infectious diseases such as those caused by bacteria, because the current antibiotics are failing from resistances. Overall, the future is assured for medicinal mushrooms.

  15. Study of cultured bovine capsular bag in pure ocular tissue

    Institute of Scientific and Technical Information of China (English)

    WANG Yan-qing; LI Qiu-ming

    2006-01-01

    @@ The proliferation, differentiation and fibrosis of lens epithelia cells (LECs) is mainly responsible for posterior capsular opacification (PCO). From the primary culture of LECs to the culture of lens capsular bag, the models of posterior capsular opacification have been developed. At present, the most commonly used model is cell culture in medium with serum. But the culture in pure ocular tissue has not been reported. Therefore, we established a new model of posterior capsular opacification-culturing bovine lens capsular bag in pure ocular tissue to exclude the role of serum. Our study established a new culture method to investigate the proliferation,differentiation and apoptosis of lens epithelia cells in the aqueous humor with or without lens cortex and vitreous humor. The purpose of the study is to model posterior capsular opacification in vivo as closely as possible and to discuss the influence of ocular tissue on posterior capsular opacification.

  16. Exact and Asymptotic Measures of Multipartite Pure State Entanglement

    CERN Document Server

    Bennett, C H; Rohrlich, D E; Smolin, J A; Thapliyal, A V; Bennett, Charles H.; Popescu, Sandu; Rohrlich, Daniel; Smolin, John A.; Thapliyal, Ashish V.

    1999-01-01

    In an effort to simplify the classification of pure entangled states of multi (m) -partite quantum systems, we study exactly and asymptotically (in n) reversible transformations among n'th tensor powers of such states (ie n copies of the state shared among the same m parties) under local quantum operations and classical communication (LOCC). With regard to exact transformations, we show that two states whose 1-party entropies agree are either locally-unitarily (LU) equivalent or else LOCC-incomparable. Asymptotic transformations result in a simpler classification than exact transformations. We show that m-partite pure states having an m-way Schmidt decomposition are simply parameterizable, with the partial entropy across any nontrivial partition representing the number of standard ``Cat'' states (|0^m>+|1^m>) asymptotically interconvertible to the state in question. For general m-partite states, partial entropies across different partitions need not be equal, and since partial entropies are conserved by asymp...

  17. Tensor Rank and Stochastic Entanglement Catalysis for Multipartite Pure States

    CERN Document Server

    Chen, Lin; Duan, Runyao; Ji, Zhengfeng; Winter, Andreas

    2010-01-01

    The tensor rank (aka generalized Schmidt rank) of multipartite pure states plays an important role in the study of entanglement classifications and transformations. We employ powerful tools from the theory of homogeneous polynomials to investigate the tensor rank of symmetric states such as the tripartite state $\\ket{W_3}=\\tfrac{1}{\\sqrt{3}}(\\ket{100}+\\ket{010}+\\ket{001})$ and its $N$-partite generalization $\\ket{W_N}$. Previous tensor rank estimates are dramatically improved and we show that (i) three copies of $\\ket{W_3}$ has rank either 15 or 16, (ii) two copies of $\\ket{W_N}$ has rank $3N-2$, and (iii) $n$ copies of $\\ket{W_N}$ has rank O(N). A remarkable consequence of these results is that certain multipartite transformations, impossible even probabilistically, can become possible when performed in multiple copy bunches or when assisted by some catalyzing state. This novel effect is impossible for bipartite pure states.

  18. Langevin dynamics of the deconfinement transition for pure gauge theory

    CERN Document Server

    Fraga, E S; Krein, G; Fraga, Eduardo S.; Mizher, Ana J\\'ulia; Krein, Gast\\~ao

    2007-01-01

    We investigate the effects of dissipation in the deconfinement transition for pure SU(2) and SU(3) gauge theories. Using an effective theory for the order parameter, we study its Langevin evolution numerically. Noise effects are included for the case of SU(2). We find that both dissipation and noise have dramatic effects on the spinodal decomposition of the order parameter and delay considerably its thermalization. For SU(3) the effects of dissipation are even larger than for SU(2).

  19. Langevin dynamics of the deconfinement transition for pure gauge theory

    OpenAIRE

    Mizher, Ana Júlia; Fraga, Eduardo S.; Krein, Gastão Inácio [UNESP

    2006-01-01

    We investigate the effects of dissipation in the deconfinement transition for pure SU(2) and SU(3) gauge theories. Using an effective theory for the order parameter, we study its Langevin evolution numerically. Noise effects are included for the case of SU(2). We find that both dissipation and noise have dramatic effects on the spinodal decomposition of the order parameter and delay considerably its thermalization. For SU(3) the effects of dissipation are even larger than for SU(2).

  20. Langevin dynamics of the deconfinement transition for pure gauge theory

    Energy Technology Data Exchange (ETDEWEB)

    Mizher, Ana Julia; Fraga, Eduardo S. [Universidade Federal do Rio de Janeiro (UFRJ), RJ (Brazil). Inst. de Fisica; Krein, Gastao [Universidade Estadual Paulista (UNESP), Sao Paulo, SP (Brazil). Inst. de Fisica Teorica

    2007-06-15

    We investigate the effects of dissipation in the deconfinement transition for pure SU(2) and SU(3) gauge theories. Using an effective theory for the order parameter, we study its Langevin evolution numerically. Noise effects are included for the case of SU(2). We find that both dissipation and noise have dramatic effects on the spinodal decomposition of the order parameter and delay considerably its thermalization. For SU(3) the effects of dissipation are even larger than for SU(2). (author)

  1. Physicochemical composition of pure and adulterated royal jelly

    Directory of Open Access Journals (Sweden)

    Luis Henrique Garcia-Amoedo

    2007-04-01

    Full Text Available The physicochemical composition of pure royal jelly as well as of some adulterated samples was analyzed by determining moisture, ash, lipids, nitrogen/proteins, carbohydrates, starch and 10- HDA (10-hydroxy-2-decenoic acid. The solubility in alkaline medium was used to detect the main frauds for adulterating royal jelly which comprise addition of yogurt, water, egg white, sweet condensed milk mixed with propolis, unripe banana and corn starch slurry.

  2. Does "pure" phonemic awareness training affect reading comprehension?

    Science.gov (United States)

    Krashen, S

    2001-10-01

    The six studies found concerning the effect of pure phonemic awareness training (without phonics) on reading comprehension gave a positive but modest overall effect size in favor of phonemic awareness training. Four studies had small samples, two showed no or very small effect sizes, and one inconsistent results. Three involved languages other than English. Such results do not support the popular movement for universal phonemic awareness training.

  3. Pure quantitative characterization of linear groups over the binary field

    Institute of Scientific and Technical Information of China (English)

    SHI Wu-jie; WANG Lin-hong; WANG Shao-heng

    2006-01-01

    The purpose of this paper is to discuss the pure scalar characterization of the automorphism group Aut(L5(2)) and the linear group L6(2).It is proved that Aut(L5(2)) and L6(2) can be characterized quantitatively by the set of element orders.The main results are obtained by using William's work on prime graph components of finite groups and Brauer characters in trivializing the possible 2-subgroups.

  4. Gravitation, Electromagnetism and Cosmological Constant in Purely Affine Gravity

    Science.gov (United States)

    Popławski, Nikodem J.

    2009-03-01

    The Ferraris-Kijowski purely affine Lagrangian for the electromagnetic field, that has the form of the Maxwell Lagrangian with the metric tensor replaced by the symmetrized Ricci tensor, is dynamically equivalent to the metric Einstein-Maxwell Lagrangian, except the zero-field limit, for which the metric tensor is not well-defined. This feature indicates that, for the Ferraris-Kijowski model to be physical, there must exist a background field that depends on the Ricci tensor. The simplest possibility, supported by recent astronomical observations, is the cosmological constant, generated in the purely affine formulation of gravity by the Eddington Lagrangian. In this paper we combine the electromagnetic field and the cosmological constant in the purely affine formulation. We show that the sum of the two affine (Eddington and Ferraris-Kijowski) Lagrangians is dynamically inequivalent to the sum of the analogous ( ΛCDM and Einstein-Maxwell) Lagrangians in the metric-affine/metric formulation. We also show that such a construction is valid, like the affine Einstein-Born-Infeld formulation, only for weak electromagnetic fields, on the order of the magnetic field in outer space of the Solar System. Therefore the purely affine formulation that combines gravity, electromagnetism and cosmological constant cannot be a simple sum of affine terms corresponding separately to these fields. A quite complicated form of the affine equivalent of the metric Einstein-Maxwell- Λ Lagrangian suggests that Nature can be described by a simpler affine Lagrangian, leading to modifications of the Einstein-Maxwell- ΛCDM theory for electromagnetic fields that contribute to the spacetime curvature on the same order as the cosmological constant.

  5. Luminescence from Tube-Arrest Bubbles in Pure Glycerin

    Institute of Scientific and Technical Information of China (English)

    陈岐岱; 王龙

    2004-01-01

    Single transient cavitation bubble with luminescence has been generated in pure glycerin by using the ‘tube arrest'method. The analyses of high-speed photograph and light emission data suggest that the light emission would be a single bubble sonoluminescence. The luminescence pulse width is observed to wry from sub-nanosecond to about 30 ns. The width and intensity of luminescence pulses increases with the height of the liquid column height and decreases with the liquid temperature.

  6. History and theology of Korean pentecostalism: Sunbogeum (pure gospel) Pentecostalism

    OpenAIRE

    2003-01-01

    The object of this study is to investigate the context and texture of Korean Pentecostalism - Sunbogeum (pure Gospel) Pentecostalism. This study shows that Sunbogeum Pentecostalism is the complex product of four factors: first, Korean religio-social circumstances; second, the doctrine of classical Pentecostalism; third, the influence of the American Assemblies of God; and fourth, the person Yonggi Cho. Accordingly, it is a dynamic indigenized spiritual movement/theology which has been develop...

  7. Decomposition of pure states of a quantum register

    OpenAIRE

    Raptis, Ioannis; Zapatrin, Roman R.

    2000-01-01

    Using the leading vector method, we show that any vector $h\\in(C^2)^{\\otimes l}$ can be decomposed as a sum of at most (and at least in the generic case) $2^l-l$ product vectors using local bitwise unitary transformations. The method is based on representing the vectors by chains of appropriate simplicial complex. This generalizes the Scmidt decomposition of pure states of a 2-bit register to registers of arbitrary length $l$.

  8. Physicochemical composition of pure and adulterated royal jelly

    OpenAIRE

    Luis Henrique Garcia-Amoedo; Ligia Bicudo de Almeida-Muradian

    2007-01-01

    The physicochemical composition of pure royal jelly as well as of some adulterated samples was analyzed by determining moisture, ash, lipids, nitrogen/proteins, carbohydrates, starch and 10- HDA (10-hydroxy-2-decenoic acid). The solubility in alkaline medium was used to detect the main frauds for adulterating royal jelly which comprise addition of yogurt, water, egg white, sweet condensed milk mixed with propolis, unripe banana and corn starch slurry.

  9. Surface modification of pure titanium by pulsed electron beam

    Energy Technology Data Exchange (ETDEWEB)

    Zhang, X.D. [Key Laboratory of Materials Modification and School of Materials Science and Engineering, Dalian University of Technology, Dalian 116024 (China); Laboratoired' Etude des Microstructures et de Mecanique des Materiaux (LEM3), CNRS UMR 7239, Universite Paul Verlaine - Metz, Ile du Saulcy, 57045 Metz (France); Hao, S.Z., E-mail: ebeam@dlut.edu.cn [Key Laboratory of Materials Modification and School of Materials Science and Engineering, Dalian University of Technology, Dalian 116024 (China); Li, X.N. [Key Laboratory of Materials Modification and School of Materials Science and Engineering, Dalian University of Technology, Dalian 116024 (China); Dong, C., E-mail: dong@dlut.edu.cn [Key Laboratory of Materials Modification and School of Materials Science and Engineering, Dalian University of Technology, Dalian 116024 (China); Grosdidier, T., E-mail: Thierry.grosdidier@univ-metz.fr [Laboratoired' Etude des Microstructures et de Mecanique des Materiaux (LEM3), CNRS UMR 7239, Universite Paul Verlaine - Metz, Ile du Saulcy, 57045 Metz (France)

    2011-04-15

    The microstructure, hardness and corrosion resistance of commercially pure Ti treated by low energy high current pulsed electron beam (LEHCPEB) have been investigated. The thin near-surface melted layer rapidly solidified into {beta} and subsequently transformed into ultrafine {alpha}' martensite. This has led to a drastic improvement of the corrosion properties and a significant increase (more than 60%) in hardness of the top surface.

  10. Emergent symmetry in a thermal pure state path integral

    CERN Document Server

    Sasa, Shin-ichi; Yokokura, Yuki

    2016-01-01

    We study a thermally isolated quantum many-body system with an external control represented by a time-dependent parameter. By formulating a thermal pure state path integral, we derive an effective action for trajectories in a thermodynamic state space, where the entropy appears with its conjugate variable. In particular, when operations are quasi-static, the symmetry for the uniform translation of the conjugate variable emerges in the path integral. This leads to the entropy as a Noether invariant.

  11. Measurements of electron drift velocity in pure isobutane

    Energy Technology Data Exchange (ETDEWEB)

    Vivaldini, Tulio C.; Lima, Iara B.; Goncalves, Josemary A.C.; Botelho, Suzana; Tobias, Carmen C.B., E-mail: ccbueno@ipen.b [Instituto de Pesquisas Energeticas e Nucleares (IPEN/CNEN-SP), Sao Paulo, SP (Brazil); Ridenti, Marco A.; Pascholati, Paulo R. [Universidade de Sao Paulo (USP), SP (Brazil). Inst. de Fisica. Lab. do Acelerador Linear; Fonte, Paulo; Mangiarotti, Alessio [Universidade de Coimbra (Portugal). Dept de Fisica. Lab. de Instrumentacao e Fisica Experimental de Particulas

    2009-07-01

    In this work we report on preliminary results related to the dependence of the electron drift velocity for pure isobutane as a function of reduced electric field (E/N) in the range from 100 Td up to 216 Td. The measurements of electron drift velocity were based on the Pulsed Townsend technique. In order to validate the technique and analyzing non-uniformity effects, results for nitrogen are also presented and compared with a numerical simulation of the Bolsig+ code. (author)

  12. Pure versus hybrid: performance implications of Porter's generic strategies.

    Science.gov (United States)

    Kumar, K; Subramanian, R; Yauger, C

    1997-01-01

    This article identifies the strategic types in the hospital industry based on the hospital's use of Porter's generic strategies in their pure and hybrid forms. The article also examines differences in performance of hospitals across strategic types. Results indicate that hospitals that follow a focussed cost leadership strategy, in general, have superior performance on a variety of performance measures, while hospitals that use a combination of cost leadership and differentiation perform the poorest. Implications of findings for hospital administrators are also discussed.

  13. Multiscale Monte Carlo equilibration: pure Yang-Mills theory

    CERN Document Server

    Endres, Michael G; Detmold, William; Orginos, Kostas; Pochinsky, Andrew V

    2015-01-01

    We present a multiscale thermalization algorithm for lattice gauge theory, which enables efficient parallel generation of uncorrelated gauge field configurations. The algorithm combines standard Monte Carlo techniques with ideas drawn from real space renormalization group and multigrid methods. We demonstrate the viability of the algorithm for pure Yang-Mills gauge theory for both heat bath and hybrid Monte Carlo evolution, and show that it ameliorates the problem of topological freezing up to controllable lattice spacing artifacts.

  14. On conformally flat and type N pure radiation metrics

    CERN Document Server

    Podolsky, Jiri

    2009-01-01

    We study pure radiation spacetimes of algebraic types O and N with a possible cosmological constant. In particular, we present explicit transformations which put these metrics, that were recently re-derived by Edgar, Vickers and Machado Ramos, into a general Ozsvath-Robinson-Rozga form. By putting all such metrics into the unified coordinate system we confirm that their derivation based on the GIF formalism is correct. We identify only few trivial differences.

  15. Exact fluctuation-entanglement relation for bipartite pure states

    CERN Document Server

    Villaruel, Aura Mae B

    2015-01-01

    We identify a subsystem fluctuation (variance) that measures entanglement in an arbitrary bipartite pure state. This fluctuation is of an observable that generalizes the notion of polarization to an arbitrary N-level subsystem. We express this polarization fluctuation in terms of the order-2 Renyi entanglement entropy and a generalized concurrence. The fluctuation-entanglement relation presented here establishes a framework for experimentally measuring entanglement using Stern-Gerlach-type state selectors.

  16. Studies on kinetics and thermodynamics of biomachining pure copper

    Institute of Scientific and Technical Information of China (English)

    张德远; 李雅芹

    1999-01-01

    The kinetics and thermodynamics of biomachining pure copper by Thiobacillus ferrooxidans were quantitatively analyzed. The kinetic effect of bacteria on the ion-cycle between Fe2+ and Fe3+ and the thermodynamic effect of hydrolysis on the changes of pH in biomachining processes were expounded through six series of experiment. Finally a model of ion-cycle in the biomachining processes was proposed, and the measures for maintaining the stable equilibrium of the ion-cycle were also discussed.

  17. Pure Red Cell Aplasia with Adult Onset Still's Disease

    OpenAIRE

    Nicholas Robillard; Paul Nguyen; Robert Wistaff; Mikhael Laskine

    2013-01-01

    Adult Onset Still’s Disease (AOSD) is a rare inflammatory syndrome mostly seen in young adults. Known for its wide range of clinical manifestations, AOSD often presents with nonremitting systemic signs and symptoms. Many rare case associations have been described with AOSD, but only few with pure red cell aplasia (PRCA). We are presenting a fourth known case of a young female adult with AOSD and PRCA in the literature.

  18. A Simple Method for Grain Refinement of Pure Aluminium

    Institute of Scientific and Technical Information of China (English)

    2003-01-01

    In order to produce the fully equiaxed and fine grained pure Al, a simple casting process that used cooling slope was examined and compared with conventional casting process under same casting conditions. By using cooling slope,grains over the whole section of castings were suddenly refined and ability of grain refinement kept up at very high mold temperature up to 550℃ in examined casting conditions.

  19. New solutions in pure gravity with degenerate tetrads

    CERN Document Server

    Kaul, Romesh K

    2016-01-01

    In first order formulation of pure gravity, we find a new class of solutions to the equations of motion represented by degenerate four-geometries. These configurations are described by non- invertible tetrads with two zero eigenvalues and admit non-vanishing torsion. The homogeneous ones among these infinitely many degenerate solutions admit a geometric classification provided by the three fundamental geometries that a closed two-surface can accomodate, namely, E^2 , S^2 and H^2.

  20. CCN activation of pure and coated carbon black particles.

    Science.gov (United States)

    Dusek, U; Reischl, G P; Hitzenberger, R

    2006-02-15

    The CCN (cloud condensation nucleus) activation of pure and coated carbon black particles was investigated using the University of Vienna cloud condensation nuclei counter (Giebl, H.; Berner, A.; Reischl, G.; Puxbaum, H.; Kasper-Giebl, A.; Hitzenberger, R. J. Aerosol Sci. 2002, 33, 1623-1634). The particles were produced by nebulizing an aqueous suspension of carbon black in a Collison atomizer. The activation of pure carbon black particles was found to require higher supersaturations than predicted by calculations representing the particles as insoluble, wettable spheres with mobility equivalent diameter. To test whether this effect is an artifact due to heating of the light-absorbing carbon black particles in the laser beam, experiments at different laser powers were conducted. No systematic dependence of the activation of pure carbon black particles on laser power was observed. The observations could be modeled using spherical particles and an effective contact angle of 4-6 degrees of water at their surface. The addition of a small amount of NaCl to the carbon black particles (by adding 5% by mass NaCl to the carbon black suspension) greatly enhanced their CCN efficiency. The measured CCN efficiencies were consistent with Kohler theory for particles consisting of insoluble and hygroscopic material. However, coating the carbon black particles with hexadecanol (a typical film-forming compound with one hydrophobic and one hydrophilic end) efficiently suppressed the CCN activation of the carbon black particles.

  1. Bioleaching of chalcopyrite by pure and mixed culture

    Institute of Scientific and Technical Information of China (English)

    ZHANG Yan-sheng; QIN Wen-qing; WANG Jun; ZHEN Shi-jie; YANG Cong-ren; ZHANG Jian-wen; NAI Shao-shi; QIU Guan-zhou

    2008-01-01

    The bioleaching of chalcopyrite in shake flasks was investigated by using pure Acidithiobacillus ferrooxidans and mixed culture isolated from the acid mine drainage in Yushui and Dabaoshan Copper Mine in China,marked as YS and DB,respectively.The mixed culture consisted mainly of Acidithiobacillus ferrooxidans,Acidithiobacillus thiooxidans,and Leptospirillum spp.(Leptospirillum ferriphilum and Leptospirillum ferrooxians).The results show that the mixed culture is more efficient than the pure Acidithiobacillus ferrooxidans because of the presence of the sulfur-oxidizing cultures that positively increase the dissolution rate and the recovery of copper from chalcopyrite.The pH value decreases with the decrease of chalcopyrite leaching rate,because of the formation of jarosite as a passivation layer on the mineral surface during bioleaching.In the bioleaching using the mixed culture,low pH is got from the sulfur oxidizing inhibiting,the formation of jarosite.The copper extraction reaches 46.27% in mixed culture and 30.37% in pure Acidithiobacillus ferrooxidans after leaching for 75 d.

  2. Idealization in Chemistry: Pure Substance and Laboratory Product

    Science.gov (United States)

    Fernández-González, Manuel

    2013-07-01

    This article analyzes the concept of idealization in chemistry and the role played by pure substance and laboratory product. This topic has evident repercussions in the educational contexts that are applied to the science classroom, which are highlighted throughout the text. A common structure for knowledge construction is proposed for both physics and chemistry with particular emphasis on the relations between two of the levels: the ideal level and the quasi-ideal level. The ideal level is crucial for operations related to theoretical constructions and explanations, whereas the quasi-ideal level is of special importance in the verification of propositions. In chemistry, the ideal level and the quasi-ideal level include the entities, pure substance and laboratory product, respectively. This article provides an in-depth discussion of the concept of pure substance, an idealized entity whose empirical correlate is laboratory product. The study of the link between the two is a very significant part of the problem of the relations between theory and reality in chemistry. These entities are used to analyze and interpret different situations and contexts in research as well as teaching. The article concludes by using classroom examples to illustrate the didactic implications of the issues addressed.

  3. Magnetization oscillations and waves driven by pure spin currents

    Science.gov (United States)

    Demidov, V. E.; Urazhdin, S.; de Loubens, G.; Klein, O.; Cros, V.; Anane, A.; Demokritov, S. O.

    2017-02-01

    Recent advances in the studies of pure spin currents-flows of angular momentum (spin) not accompanied by the electric currents-have opened new horizons for the emerging technologies based on the electron's spin degree of freedom, such as spintronics and magnonics. The main advantage of pure spin current, as compared to the spin-polarized electric current, is the possibility to exert spin transfer torque on the magnetization in thin magnetic films without the electrical current flow through the material. In addition to minimizing Joule heating and electromigration effects, this enables the implementation of spin torque devices based on the low-loss insulating magnetic materials, and offers an unprecedented geometric flexibility. Here we review the recent experimental achievements in investigations of magnetization oscillations excited by pure spin currents in different nanomagnetic systems based on metallic and insulating magnetic materials. We discuss the spectral properties of spin-current nano-oscillators, and relate them to the spatial characteristics of the excited dynamic magnetic modes determined by the spatially-resolved measurements. We also show that these systems support locking of the oscillations to external microwave signals, as well as their mutual synchronization, and can be used as efficient nanoscale sources of propagating spin waves.

  4. Laser-induced generation of pure tensile stresses

    Energy Technology Data Exchange (ETDEWEB)

    Niemz, M.H.; Lin, C.P.; Pitsillides, C.; Cui, J.; Doukas, A.G.; Deutsch, T.F. [Wellman Laboratories of Photomedicine, Harvard University, Massachusetts General Hospital, Boston, Massachusetts 02114 (United States)

    1997-05-01

    While short compressive stresses can readily be produced by laser ablation, the generation of pure tensile stresses is more difficult. We demonstrate that a 90{degree} prism made of polyethylene can serve to produce short and pure tensile stresses. A compressive wave is generated by ablating a thin layer of strongly absorbing ink on one surface of the prism with a Q-switched frequency-doubled Nd:YAG laser. The compressive wave driven into the prism is reflected as a tensile wave by the polyethylene-air interface at its long surface. The low acoustic impedance of polyethylene makes it ideal for coupling tensile stresses into liquids. In water, tensile stresses up to {minus}200bars with a rise time of the order of 20 ns and a duration of 100 ns are achieved. The tensile strength of water is determined for pure tensile stresses lasting for 100 ns only. The technique has potential application in studying the initiation of cavitation in liquids and in comparing the effect of compressive and tensile stress transients on biological media. {copyright} {ital 1997 American Institute of Physics.}

  5. Angels and demons are among us: assessing individual differences in belief in pure evil and belief in pure good.

    Science.gov (United States)

    Webster, Russell J; Saucier, Donald A

    2013-11-01

    We conducted five studies to demonstrate that individuals' beliefs in pure evil (BPE) and in pure good (BPG) are valid and important psychological constructs. First, these studies together demonstrated that BPE and BPG are reliable, unitary, and stable constructs each composed of eight theoretically interdependent dimensions. Second, these studies showed that across a wide variety of different measures, higher BPE consistently related to greater intergroup aggression (e.g., supporting the death penalty and preemptive military aggression) and less intergroup prosociality (e.g., opposing criminal rehabilitation, proracial policies, and beneficial social programs), while higher BPG consistently related to less intergroup aggression (e.g., opposing proviolent foreign relations and torture) and greater intergroup prosociality (e.g., supporting criminal rehabilitation and support for diplomacy). In sum, these studies evidence that BPE and BPG relate to aggressive and prosocial orientations toward others and have strong potential to advance current theories on prejudice, aggression, and prosociality.

  6. Assessment of semen quality in pure and crossbred Jersey bulls

    Directory of Open Access Journals (Sweden)

    Umesh Kumar

    2015-10-01

    Full Text Available Aim: To compare the seminal attributes of neat, pre-freeze (at equilibration, and post-freeze (24 h after freezing semen in pure and crossbred Jersey bulls. Materials and Methods: Total 36 ejaculates (3 ejaculates from each bull were collected from 6 pure Jersey and 6 crossbred Jersey bulls and evaluated for various seminal attributes during neat, pre-freeze, and post-freeze semen. Results: The mean (±standard error [SE] values of neat semen characteristics in pure and crossbred Jersey bulls were recorded such as volume (ml, color, consistency, mass activity (scale: 0-5, and sperm concentration (millions/ml. The extended semen was further investigated at pre-freeze and post-freeze stages and the mean (±SE values recorded at neat, pre-freeze, and post-freeze semen were compared between pure and crossbred Jersey bulls; sperm motility (80.55±1.70%, 62.77±1.35%, 46.11±1.43% vs. 80.00±1.80%, 65.00±1.66%, 47.22±1.08%, live sperm count (83.63±1.08%, 71.72±1.09%, 58.67±1.02% vs. 80.00±1.08%, 67.91±1.20%, 51.63±0.97%, total abnormal sperm count (8.38±0.32%, 12.30±0.39%, 16.75±0.42% vs. 9.00±0.45%, 12.19±0.48%, 18.11±0.64%, hypo-osmotic swelling (HOS reacted spermatozoa (71.88±0.77%, 62.05±0.80%, 47.27±1.05% vs. 72.77±1.02%, 62.11±0.89%, 45.94±1.33%, acrosome integrity (89.05±0.83%, 81.33±0.71%, 71.94±0.86% vs. 86.55±0.57%, 78.66±0.42%, 69.38±0.53%, and DNA integrity (99.88±0.07%, 100, 99.66±0.11% vs. 99.94±0.05%, 100, 99.44±0.18%,. The volume, color, consistency, sperm concentration, and initial motility in pure and crossbred Jersey bulls did not differ significantly (p>0.05. The mass activity was significantly (p0.05 was observed in abnormal sperm; HOS reacted spermatozoa and DNA integrity percentage among breeds. Conclusion: It may be concluded that the quality of pure Jersey bull semen was comparatively better than the crossbred Jersey bulls.

  7. PURE CULTURE METHOD: GIARDIA LAMBLIA FROM DIFFERENT STOOL SAMPLES

    Directory of Open Access Journals (Sweden)

    H.A YOUSEFI

    2000-03-01

    Full Text Available Introduction. Giardiasis is one of the health problems in the world including Iran. To determine the biochemical and biological problems and also identification of various strains, it is essential to obtain pure culture and then mass production of Giardia lamblia. The goal of this study was to isolate this protozoa purely.
    Methods. Giardia lamblia cysts were isolated from 50 stool samples by use of floating of a four - layer of sucrose method. The cysts were transfered to an inducing solution. Subsequently, they were cultured in a modified culture medium (TYIS-33. Following excystation of trophozoite and its multiplication, the parasite was caltured and purified.
    Findings. Excitation of trophozoite was observed in 40 samples (80 percent from which 22 samples (55 percent yielded pure culture. The doubling time was approximately 13hr and the peak of parasite was observed between third and fourth days.
    Conclusion. The proliferation and growth rate of Giardia lamblia have enabled us to use this method widely. Cystein and ascorbic acid which are present in the induction solution, have a key role in excystation of trophozoite. Purification and passage of samples has facilitated the culture of this parasite in vitro. Therefore this method has yielded better results in comparison with other studies. This is probably due to a decrease in the amount of bovine bile or using different strains of Giardia lamblia in the present study.

  8. Super-Maxwellian helium evaporation from pure and salty water.

    Science.gov (United States)

    Hahn, Christine; Kann, Zachary R; Faust, Jennifer A; Skinner, J L; Nathanson, Gilbert M

    2016-01-28

    Helium atoms evaporate from pure water and salty solutions in super-Maxwellian speed distributions, as observed experimentally and modeled theoretically. The experiments are performed by monitoring the velocities of dissolved He atoms that evaporate from microjets of pure water at 252 K and 4-8.5 molal LiCl and LiBr at 232-252 K. The average He atom energies exceed the flux-weighted Maxwell-Boltzmann average of 2RT by 30% for pure water and 70% for 8.5m LiBr. Classical molecular dynamics simulations closely reproduce the observed speed distributions and provide microscopic insight into the forces that eject the He atoms from solution. Comparisons of the density profile and He kinetic energies across the water-vacuum interface indicate that the He atoms are accelerated by He-water collisions within the top 1-2 layers of the liquid. We also find that the average He atom kinetic energy scales with the free energy of solvation of this sparingly soluble gas. This free-energy difference reflects the steeply decreasing potential of mean force on the He atoms in the interfacial region, whose gradient is the repulsive force that tends to expel the atoms. The accompanying sharp decrease in water density suppresses the He-water collisions that would otherwise maintain a Maxwell-Boltzmann distribution, allowing the He atom to escape at high energies. Helium is especially affected by this reduction in collisions because its weak interactions make energy transfer inefficient.

  9. Super-Maxwellian helium evaporation from pure and salty water

    Energy Technology Data Exchange (ETDEWEB)

    Hahn, Christine; Kann, Zachary R.; Faust, Jennifer A.; Skinner, J. L., E-mail: skinner@chem.wisc.edu, E-mail: nathanson@chem.wisc.edu; Nathanson, Gilbert M., E-mail: skinner@chem.wisc.edu, E-mail: nathanson@chem.wisc.edu [Department of Chemistry, University of Wisconsin-Madison, 1101 University Avenue, Madison, Wisconsin 53706 (United States)

    2016-01-28

    Helium atoms evaporate from pure water and salty solutions in super-Maxwellian speed distributions, as observed experimentally and modeled theoretically. The experiments are performed by monitoring the velocities of dissolved He atoms that evaporate from microjets of pure water at 252 K and 4–8.5 molal LiCl and LiBr at 232–252 K. The average He atom energies exceed the flux-weighted Maxwell-Boltzmann average of 2RT by 30% for pure water and 70% for 8.5m LiBr. Classical molecular dynamics simulations closely reproduce the observed speed distributions and provide microscopic insight into the forces that eject the He atoms from solution. Comparisons of the density profile and He kinetic energies across the water-vacuum interface indicate that the He atoms are accelerated by He–water collisions within the top 1-2 layers of the liquid. We also find that the average He atom kinetic energy scales with the free energy of solvation of this sparingly soluble gas. This free-energy difference reflects the steeply decreasing potential of mean force on the He atoms in the interfacial region, whose gradient is the repulsive force that tends to expel the atoms. The accompanying sharp decrease in water density suppresses the He–water collisions that would otherwise maintain a Maxwell-Boltzmann distribution, allowing the He atom to escape at high energies. Helium is especially affected by this reduction in collisions because its weak interactions make energy transfer inefficient.

  10. Urodynamic study in women with pure stress urinary incontinence.

    Science.gov (United States)

    Valdevenito, J P; Águila, F; Naser, M; Manríquez, V; Wenzel, C; Díaz, J P

    2015-03-01

    To describe the results of urodynamic study in women with pure stress urinary incontinence symptoms, including the characteristics of the overactive detrusor. No other clinical assessments were taken into account. A retrospective study in women with urinary incontinence consecutively evaluated by urodynamic study. From a total of 710 women, only 108 (15%) with pure stress urinary incontinence symptoms were selected. Women with prior urinary incontinence surgery, pelvic organ prolapse (stage ≥iii), pelvic radiotherapy, using medication active on the lower urinary tract and neurological diseases were excluded. Infusion rate was 70 ml/min. Detrusor overactivity was induced only by cough. A standardized cough stress test with progressive cough intensity was carried out. Reference urodynamic values for stress incontinent women are described. Urodynamic stress incontinence was observed in 79 women (73.1%), detrusor overactivity in 4 (3.7%) and mixed urodynamic diagnosis in 15 (13.8%). Test was inconclusive in 10 patients (9.2%). Two women had detrusor overactivity incontinence (1.9%). One patient had detrusor overactivity induced by cough without urodynamic stress incontinence (0.9%). There was an association between detrusor overactivity and nocturia ≥2 (P=.002; odds ratio: 3.74; 95% confidence interval: 1.22-11.39). One woman had a bladder outlet obstruction (0.9%). In women with pure stress urinary incontinence, without knowing the outcome of other clinical assessments, urodynamic study can provide useful information to define the proper therapy. Copyright © 2014 AEU. Publicado por Elsevier España, S.L.U. All rights reserved.

  11. Conformation of alkanes in the gas phase and pure liquids.

    Science.gov (United States)

    Thomas, Laura L; Christakis, Theodore J; Jorgensen, William L

    2006-10-26

    Monte Carlo (MC) statistical mechanics simulations have been carried out for the homologous alkane series of n-butane through n-dodecane in the gas phase and for the pure liquids at 298 K and 1 atm using the OPLS-AA force field. The study addresses potential cumulative deviations of computed properties and potential conformational differences between the gas phase and pure liquids, for example, from self-solvation in the gas phase. The average errors in comparison with experimental data for the computed densities and heats of vaporization are modest at 0.7% and 6.9%, respectively. Also, the invariant gas and liquid-phase results for average end-to-end distances and percentages of trans conformations for each nonterminal C-C bond assert that the conformer populations are not altered upon transfer from the gas phase to the pure liquid for the n-alkanes in this size range. Average end-to-end distances were also computed from the results of conformational searches and corroborated the MC findings. Quantitatively, the OPLS-AA result for the trans population of the C3-C4 bond in n-undecane is in close agreement with the findings from (13)C NMR experiments. Finally, previous work on determining the shortest n-alkane that does not have an all-trans global energy minimum has been extended. The smallest n-alkane with a hairpin geometry that is lower in energy than the all-trans conformer occurs for C(22)H(46) with OPLS-AA, though with a correction for GG sequences, the true turning point is likely in the C(16)-C(18) range.

  12. Pure zeolite synthesis from silica extracted from coal fly ashes

    Energy Technology Data Exchange (ETDEWEB)

    Moreno, N.; Querol, X.; Plana, F.; Andres, J.M.; Janssen, M.; Nugteren, H. [CSIC, Barcelona (Spain). Inst. Earth Science ' Jaume Almera'

    2002-07-01

    Pure zeolites can be synthesised from silica extracted from fly ash by alkaline leaching. If the process is optimised the solid residue arising from this extraction may also contain a relatively high content of zeolitic material mixed with residual fly ash components. Both the pure and the impure zeolitic material have a high potential for application in waste-water and flue gas-cleaning technologies. The silica extraction potential of 23 European coal fly ashes covering most of the possible fly ash types is investigated in this study. Optimisation of leaching processes, by varying temperature, time and alkali/fly ash rates, permitted extraction yields up to 140 g of SiO{sub 2} per kg using a single step process, but the extraction yields may reach up to 210 g kg{sup -1} by applying thermal pre-treatments prior to the extraction. The solid residue arising from the silica extraction experiments shows a high NaP1 zeolite content. A high Si/Al ratio of the glass matrix, the occurrence of easily soluble silica phases in the original fly ash and a high reactive surface area were found to be the major parameters influencing silica extraction. High purity 4A and X zeolitic material was obtained by combining the silica extracts from the Meirama fly ash and a waste solution from the Al-anodising industry. The results allowed conversion of the silica extraction yields to an equivalent 630 g of pure 4A-X zeolite per kg of fly ash with a cation exchange capacity of 4.7 meq g{sup -1}.

  13. Langevin dynamics of the pure SU(2) deconfining transition

    CERN Document Server

    Fraga, E S; Mizher, A J

    2007-01-01

    We investigate the dissipative real-time evolution of the order parameter for the deconfining transition in the pure SU(2) gauge theory. The approach to equilibrium after a quench to temperatures well above the critical one is described by a Langevin equation. To fix completely the markovian Langevin dynamics we choose the dissipation coefficient, that is a function of the temperature, guided by preliminary Monte Carlo simulations for various temperatures. Assuming a relationship between Monte Carlo time and real time, we estimate the delay in thermalization brought about by dissipation and noise.

  14. Dense Pure Tungsten Fabricated by Selective Laser Melting

    Directory of Open Access Journals (Sweden)

    Dianzheng Wang

    2017-04-01

    Full Text Available Additive manufacturing using tungsten, a brittle material, is difficult because of its high melting point, thermal conductivity, and oxidation tendency. In this study, pure tungsten parts with densities of up to 18.53 g/cm3 (i.e., 96.0% of the theoretical density were fabricated by selective laser melting. In order to minimize balling effects, the raw polyhedral tungsten powders underwent a spheroidization process before laser consolidation. Compared with polyhedral powders, the spherical powders showed increased laser absorptivity and packing density, which helped in the formation of a continuous molten track and promoted densification.

  15. On the minimization of Hamiltonians over pure Gaussian states

    DEFF Research Database (Denmark)

    Derezinski, Jan; Napiorkowski, Marcin; Solovej, Jan Philip

    2013-01-01

    A Hamiltonian defined as a polynomial in creation and annihilation operators is considered. After a minimization of its expectation value over pure Gaussian states, the Hamiltonian is Wick-ordered in creation and annihillation operators adapted to the minimizing state. It is shown...... that this procedure eliminates from the Hamiltonian terms of degree 1 and 2 that do not preserve the particle number, and leaves only terms that can be interpreted as quasiparticles excitations. We propose to call this fact Beliaev's Theorem, since to our knowledge it was mentioned for the first time in a paper...

  16. Giant Seebeck effect in pure fullerene thin films

    Science.gov (United States)

    Kojima, Hirotaka; Abe, Ryo; Ito, Mitsuhiro; Tomatsu, Yasuyuki; Fujiwara, Fumiya; Matsubara, Ryosuke; Yoshimoto, Noriyuki; Nakamura, Masakazu

    2015-12-01

    The small thermal conductivity of molecular solids is beneficial for their thermoelectric applications. If Seebeck coefficients were sufficiently large to compensate for the relatively small electrical conductivity, these materials would be promising candidates for thermoelectric devices. In this work, the thermoelectric properties of C60 were studied by in situ measurements under ultrahigh vacuum after the deposition of a pure C60 thin film. An exceptionally large Seebeck coefficient of more than 150 mV/K was observed as a steady-state thermoelectromotive force. Even considering several extreme but realistic conditions, conventional semiclassical thermoelectric theories cannot explain this giant Seebeck effect.

  17. Deformation and recrystallization textures in commercially pure aluminum

    DEFF Research Database (Denmark)

    Hansen, Niels; Juul Jensen, Dorte

    1986-01-01

    The deformation and recrystallization textures of commercially pure aluminum (99.6 pct) containing large intermetallic particles (FeAl3) are measured by neutron diffraction, and the orientation distribution functions (ODF’s) are calculated. Sample parameters are the initial grain size (50 and 350....... Thereby the particles can have a randomizing effect on the textural development during recrystallization. In specimens deformed at medium degrees of deformation the randomizing effect of particles is maximum. At lower and higher degrees of deformation the effect of particles is less as other nucleation...

  18. Entanglement-fluctuation relation for bipartite pure states

    Science.gov (United States)

    Villaruel, Aura Mae B.; Paraan, Francis N. C.

    2016-08-01

    We identify subsystem fluctuations (variances) that measure entanglement in an arbitrary bipartite pure state. These fluctuations are of observables that generalize the notion of polarization to an arbitrary N -level subsystem. We express this polarization fluctuation in terms of subsystem purity and other entanglement measures. The derived entanglement-fluctuation relation is evaluated for the ground states of a one-dimensional free-fermion gas and the Affleck-Kennedy-Lieb-Tasaki spin chain. Our results provide a framework for experimentally measuring entanglement using Stern-Gerlach-type state selectors.

  19. The lightest Higgs boson mass in pure gravity mediation model

    Energy Technology Data Exchange (ETDEWEB)

    Ibe, Masahiro, E-mail: ibe@icrr.u-tokyo.ac.jp [ICRR, University of Tokyo, Kashiwa 277-8582 (Japan); IPMU, TODIAS, University of Tokyo, Kashiwa 277-8583 (Japan); Yanagida, Tsutomu T. [ICRR, University of Tokyo, Kashiwa 277-8582 (Japan)

    2012-03-23

    We discuss the lightest Higgs boson mass in the minimal supersymmetric Standard Model with 'pure gravity mediation'. By requiring that the model provides the observed dark matter density, we find that the lightest Higgs boson is predicted to be below 132 GeV. We also find that the upper limit on the lightest Higgs boson mass becomes 128 GeV, if we further assume thermal leptogenesis mechanism as the origin of baryon asymmetry of universe. The interrelations between the Higgs boson mass and the gaugino masses are also discussed.

  20. Gas solid techniques for preparation of pure lanthanum hexaboride

    Institute of Scientific and Technical Information of China (English)

    Mukherjee; A.; Gulnar; A.K.; Sahoo; D.K.; Krishnamurthy; N.

    2012-01-01

    The processes reported for the preparation of lanthanum hexaboride (LaB6) from lanthanum oxide involve the use of carbon either elemental or in the form of boron carbide or elemental boron itself as reducing agents, fused salts at high temperatures or reactions which require the product boride to be leached out. Each of these techniques either increases the process costs and/or increases chances of contamination in fi-nal product. Pure LaB6 can best be prepared by a reaction which produces a gaseous byprodu...

  1. Purely imaginary quasinomal modes of the Kerr geometry

    CERN Document Server

    Cook, Gregory B

    2016-01-01

    We present a method for determining the purely imaginary quasinormal modes of the Kerr geometry. Such modes have previously been explored, but we show that prior results are incorrect. The method we present, based on the theory of Heun polynomials, is very general and can be applied to a broad class of problems, making it potentially useful to all branches of physics. Furthermore, our application provides an example where the method of matched asymptotic expansions seems to have failed. A deeper understanding of why it fails in this case may provide useful insights for other situations.

  2. Pure Azimuthal Shear of an Elastic Dielectric Material

    Directory of Open Access Journals (Sweden)

    Kuldeep Kumar

    2010-03-01

    Full Text Available The purpose of this research is to examine the effect of polarization for the problem of pure azimuthal shear of an elastic dielectric material. The present problem is investigated in context of finite deformation theory. In this paper, the author studied the effect of polarization on the stresses for Neoprene rubber and compare the results with elastic material (Mooney-Rivlin material graphically. Twisting of a rigid cylinder in an infinite elastic medium is considered as a special case in this research.

  3. Substitutive Arnoux-Rauzy sequences have pure discrete spectrum

    CERN Document Server

    Berthé, Valérie; Siegel, Anne

    2011-01-01

    We prove that the symbolic dynamical system generated by a purely substitutive Arnoux-Rauzy sequence is measurably conjugate to a toral translation. The proof is based on an explicit construction of a fundamental domain with fractal boundary (a Rauzy fractal) for this toral translation. Such a fractal is obtained as the Hausdorff limit of a sequence of compact planar sets, where each set is the projection of a finite union of faces of unit cubes generated by a multidimensional version of the underlying Arnoux-Rauzy substitution.

  4. Proving Nontrivial Topology of Pure Bismuth by Quantum Confinement

    Science.gov (United States)

    Ito, S.; Feng, B.; Arita, M.; Takayama, A.; Liu, R.-Y.; Someya, T.; Chen, W.-C.; Iimori, T.; Namatame, H.; Taniguchi, M.; Cheng, C.-M.; Tang, S.-J.; Komori, F.; Kobayashi, K.; Chiang, T.-C.; Matsuda, I.

    2016-12-01

    The topology of pure Bi is controversial because of its very small (˜10 meV ) band gap. Here we perform high-resolution angle-resolved photoelectron spectroscopy measurements systematically on 14-202 bilayer Bi films. Using high-quality films, we succeed in observing quantized bulk bands with energy separations down to ˜10 meV . Detailed analyses on the phase shift of the confined wave functions precisely determine the surface and bulk electronic structures, which unambiguously show nontrivial topology. The present results not only prove the fundamental property of Bi but also introduce a capability of the quantum-confinement approach.

  5. On the Nonrelativistic 2D Purely Magnetic Supersymmetric Pauli Operator

    OpenAIRE

    Grinevich, P.; Mironov, A.(Lebedev Physics Institute; ITEP, Moscow, Russia); Novikov, S.

    2011-01-01

    The Complete Manifold of Ground State Eigenfunctions for the Purely Magnetic 2D Pauli Operator is considered as a by-product of the new reduction found by the present authors few years ago for the Algebrogeometric Inverse Spectral Data (i.e. Riemann Surfaces and Divisors). This reduction is associated with the (2+1) Soliton Hierarhy containing a 2D analog of the famous "Burgers System". This article contains also exposition of the previous works made since 1980 including the first topological...

  6. Characteristics of a pure-state ambiguity function

    Energy Technology Data Exchange (ETDEWEB)

    Praxmeyer, Ludmila; Vitanov, Nikolay [Department of Physics, Sofia University, James Bourchier 5 blvd, 1164 Sofia (Bulgaria); Stenholm, Stig [Physics Department, Royal Institute of Technology, KTH, Stockholm Sweden (Sweden)

    2009-12-11

    We present the necessary and sufficient condition for a square integrable function on R{sup 2N} to be an ambiguity function corresponding to a square integrable function on R{sup N}. This condition has the form of an integral equation. We also list some easier to check necessary conditions that must be fulfilled by a function that is an ambiguity function of a pure state. We show how to construct a wavefunction corresponding to a given ambiguity function and we present examples of how our formal results can be used in practice.

  7. Purely infinite C*-algebras arising from crossed products

    DEFF Research Database (Denmark)

    Rørdam, Mikael; Sierakowski, Adam

    2012-01-01

    We study conditions that will ensure that a crossed product of a C-algebra by a discrete exact group is purely innite (simple or non-simple). We are particularly interested in the case of a discrete nonamenable exact group acting on a commutative C-algebra, where our sucient conditions can...... be phrased in terms of paradoxicality of subsets of the spectrum of the abelian C-algebra. As an application of our results we show that every discrete countable non-amenable exact group admits a free amenable minimal action on the Cantor set such that the corresponding crossed product C...

  8. Distribution of G-concurrence of random pure states

    CERN Document Server

    Cappellini, V; Zyczkowski, K; Cappellini, Valerio; Sommers, Hans-Juergen; Zyczkowski, Karol

    2006-01-01

    Average entanglement of random pure states of an N x N composite system is analyzed. We compute the average value of the determinant D of the reduced state, which forms an entanglement monotone. Calculating the higher moments of the determinant we characterize the probability distribution P(D). Similar results are obtained for the rescaled N-th root of the determinant, called G concurrence. We show that in the limit $N\\to\\infty$ this quantity becomes concentrated at a single point G=1/e.

  9. Preparation for Ultra High Pure Indium Metal for Optoelectronic Applications

    Directory of Open Access Journals (Sweden)

    Shashwat V. Joshi

    2014-11-01

    Full Text Available Ultra high pure Indium metal is extensively used in optoelectronic devices. Indium and its alloys become potential candidates in aerospace, defense and communication sectors. Purification of Indium has been done by Instrolec-200 Refiner followed by Directional Melting/ Freezing and Solidification Systems. Major targeted impurities are Metallic impurities Ag, Al, As, Bi, Ca, Cu, Fe, Ga, Ge, Mg, Pb, Sb, Si, Sn, and Zn. Purified Indium is characterized by analytical techniques Inductively Coupled Plasma- Optical Emission Spectrophotometry and Inductively Coupled Plasma- Mass Spectrometry.

  10. Optimal reconstruction of a pure qubit state with local measurements

    CERN Document Server

    Bagán, E; Monras, A; Muñoz-Tàpia, R

    2003-01-01

    We analyse the reconstruction of an unknown pure qubit state. We derive the optimal guess that can be inferred from any set of measurements on N identical copies of the system with the fidelity as a figure of merit. We study in detail the estimation process with individual von Neumann measurements and demonstrate that they are very competitive as compared to (complicated) collective measurements. We compute the expressions of the fidelity for large $N$ and show that individual measurement schemes can perform optimally in the asymptotic regime.

  11. Proving Nontrivial Topology of Pure Bismuth by Quantum Confinement.

    Science.gov (United States)

    Ito, S; Feng, B; Arita, M; Takayama, A; Liu, R-Y; Someya, T; Chen, W-C; Iimori, T; Namatame, H; Taniguchi, M; Cheng, C-M; Tang, S-J; Komori, F; Kobayashi, K; Chiang, T-C; Matsuda, I

    2016-12-02

    The topology of pure Bi is controversial because of its very small (∼10  meV) band gap. Here we perform high-resolution angle-resolved photoelectron spectroscopy measurements systematically on 14-202 bilayer Bi films. Using high-quality films, we succeed in observing quantized bulk bands with energy separations down to ∼10  meV. Detailed analyses on the phase shift of the confined wave functions precisely determine the surface and bulk electronic structures, which unambiguously show nontrivial topology. The present results not only prove the fundamental property of Bi but also introduce a capability of the quantum-confinement approach.

  12. Damage Analysis of Rectangular Section Composite Beam under Pure Bending

    Science.gov (United States)

    Liu, Yiping; Xiao, Fan; Liu, Zejia; Tang, Liqun; Fang, Daining

    2013-02-01

    Laminated composite beams are commonly used in engineering applications involving macro to nano structures. Based on the assumption that plain sections remain plain after deformation, this paper analyzes stress distributions in cross-ply laminated composite beams with rectangular cross-sections, and formulates the basic damage equations through Kachanov's damage definition and Janson's failure criterion. The location of the neutral axis and the ultimate bending moment are obtained for pure bending cases. The effect of the elastic modulus of the two layers on the damage evolution is analyzed; a reasonable damage composite beam model is proposed to predict the ultimate bending moment.

  13. Purely optical navigation with model-based state prediction

    Science.gov (United States)

    Sendobry, Alexander; Graber, Thorsten; Klingauf, Uwe

    2010-10-01

    State-of-the-art Inertial Navigation Systems (INS) based on Micro-Electro-Mechanical Systems (MEMS) have a lack of precision especially in GPS denied environments like urban canyons or in pure indoor missions. The proposed Optical Navigation System (ONS) provides bias free ego-motion estimates using triple redundant sensor information. In combination with a model based state prediction our system is able to estimate velocity, position and attitude of an arbitrary aircraft. Simulating a high performance flow-field estimator the algorithm can compete with conventional low-cost INS. By using measured velocities instead of accelerations the system states drift behavior is not as distinctive as for an INS.

  14. Prediction of a pure-carbon planar covalent metal

    Energy Technology Data Exchange (ETDEWEB)

    Crespi, V.H.; Benedict, L.X.; Cohen, M.L.; Louie, S.G. [Department of Physics, University of California at Berkeley, and Materials Sciences Division, Lawrence Berkeley Laboratory, Berkeley, California 94720 (United States)

    1996-05-01

    Carbon is well-known as an insulator, a semimetal, a molecular solid, and a one-dimensional semiconductor or low-density-of-states metal. We propose a pure-carbon planar structure composed of pentagons and heptagons that is metallic with a density of states at the Fermi level of {approximately}0.1 state per eV per atom. This structure, planar carbon pentaheptite, is metastable with a total energy per carbon atom comparable to that of C{sub 60}. The structure can be rolled into tubes in a manner similar to graphite. Possible synthetic pathways are discussed. {copyright}{ital 1996 The American Physical Society.}

  15. Purely hydrodynamic origin for swarming of swimming particles

    Science.gov (United States)

    Oyama, Norihiro; Molina, John Jairo; Yamamoto, Ryoichi

    2016-04-01

    Three-dimensional simulations with fully resolved hydrodynamics are performed to study the collective motion of model swimmers in bulk and confinement. Calculating the dynamic structure factor, we clarified that the swarming in bulk systems can be understood as a pseudoacoustic mode. Under confinement between flat parallel walls, this pseudoacoustic mode leads to a traveling wavelike motion. This swarming behavior is due purely to the hydrodynamic interactions between the swimmers and depends strongly on the type and strength of swimming (i.e., pusher or puller).

  16. CO2 laser-driven reactions in pure acetylene flow

    CERN Document Server

    Pikhitsa, Peter V; Choi, Mansoo

    2011-01-01

    We show that multiple-photon absorption of radiation from a 10.56 {\\mu}m cw CO2 laser by intermediates (ethylene, vinylidene) generated in pure acetylene flow makes them decompose to carbon dimers and excited hydrogen. The latter associates with downstream acetylene to feedback those laser absorbing intermediates thus making the reactions self-sustained in the absence of oxygen. This process is different from acetylene self-decomposition that may occur at higher temperature and pressure. The results of our work may be useful for understanding the generation of various carbon allotropes and interstellar dust from acetylene.

  17. Aerobic granulation of pure bacterial strain Bacillus thuringiensis

    Institute of Scientific and Technical Information of China (English)

    Sunil S ADAV; Duu-Jong LEE

    2008-01-01

    The objective of this study is to cultivate aer-obic granules by pure bacterial strain, Bacillus thuringien-sis, in a sequencing batch reactor. Stable granules sized 2.0-2.2 mm were formed in the reactor after a five-week cultivation. These granules exhibited excellent settling attributes, and degraded phenol at rates of 1.49 and concentration, respectively. Confocal laser scanning microscopic test results show that Bacillus thuringiensis was distributed over the initial small aggregates, and the outer edge of the granule was away from the core regime in the following stage.

  18. A pure mind and a healthy body: an Islamic perspective

    Directory of Open Access Journals (Sweden)

    Nina Björkman

    2012-01-01

    Full Text Available In today’s Egypt we see the Muslim Brotherhood supporting hospitals, healthcare centres and other charities, but where does this focus on promoting good health and providing the necessary services stem from? Why do movements such as the Muslim Brotherhood engage in charitable activities to the extent that they do? Is it just a question of doing good for others, or are there other reasons? The purpose of this article is to look at some of the factors behind a trend within the Muslim Brotherhood, which is characterised by seeing the connection between a healthy body and a pure soul as being something vital for a practising Muslim.

  19. THE PURE RED BLOOD CELL APLASIA IN RENAL TRANSPLANT RECIPIENT

    Directory of Open Access Journals (Sweden)

    B. T. Dzumabaeva

    2011-01-01

    Full Text Available The pure red blood cell aplasia of renal transplant recipients caused by parvovirus B19 (PB19 is characterized by persistent anemia which resistant to erythropoietin therapy, lack of reticulocytes, bone marrow hypoplasia, and clinically accompanied by severe recurrent bacterial, fungal and viral infection. In case of reactivation PB19 it is necessarv, first of all, eliminate the causes activation of this virus and to cancel or reduce the dose of drugs which depressed the normal hematopoiesis germs, thus to reduce the pancytopenia associating complications in this population. 

  20. Probabilistically Perfect Cloning of Two Pure States: Geometric Approach

    Science.gov (United States)

    Yerokhin, V.; Shehu, A.; Feldman, E.; Bagan, E.; Bergou, J. A.

    2016-05-01

    We solve the long-standing problem of making n perfect clones from m copies of one of two known pure states with minimum failure probability in the general case where the known states have arbitrary a priori probabilities. The solution emerges from a geometric formulation of the problem. This formulation reveals that cloning converges to state discrimination followed by state preparation as the number of clones goes to infinity. The convergence exhibits a phenomenon analogous to a second-order symmetry-breaking phase transition.