WorldWideScience

Sample records for gene pool

  1. [Gene pool and gene geography of the USSR population].

    Science.gov (United States)

    Rychkov, Iu G; Balanovskaia, E V

    1992-01-01

    Gene pool and gene geography are discussed from the point of view of their conceptual history beginning from the original concept of A.S. Serebrovskiĭ (1928). Difference between the present-day gene geography and gene geography of gene pool is accentuated: the former only represents a portion of the latter. Historical and territorial integrity of the USSR population gene pool, in conjunction with its huge diversity, is the main problem being analysed by various means of computerized genetic cartography. Coupled with the gene frequency mapping, following methods were also used: mapping of average heterozygosity, of interpopulation differentiation, of principal component scores and mapping of geographical trend for each mapped genetic parameter. The work is based on 100 allelic genes and haplotypes from 30 independent loci studied on the average in 225 local populations. Statistical analysis of gene geographical maps is based on 3975 nodes of regular cartographic net for the USSR territory. The wind rose of systematic changes in the USSR gene pool has three main geographic orientations: W-E, SW-NE and S-N. At the same time, there are only two main systematic forces of gene pool evolution: the force of social history with predominant W-E orientation and the force of natural history with predominant S-N orientation of their actions. The heterozygosity level of gene pool declines strictly in accordance with the resultant in the SW-NE direction.

  2. The flexible gene pool of Propionibacterium acnes

    DEFF Research Database (Denmark)

    Brüggemann, Holger; Lomholt, Hans B; Kilian, Mogens

    2012-01-01

    Propionibacterium acnes is a Gram-positive bacterium that is intimately associated with humans. The nature and consequences of this symbiosis are poorly understood; it might comprise both mutualistic and parasitic properties. Recent advances in distinguishing phylotypes of P. acnes have revealed...... that certain type I lineages are predominantly associated with acne vulgaris. Genome analyses revealed a highly conserved core genome and the existence of island-like genomic regions and possible mobile genetic elements as part of the flexible gene pool. The analysis of clustered regularly interspaced short...... palindromic repeats (CRISPR), found exclusively in type II P. acnes, recently revealed the presence of CRISPR spacers that derived from mobile genetic elements. These elements are present in a subset of P. acnes type I lineages. Their significance for type-specific host-interacting properties...

  3. Conjugative plasmids: Vessels of the communal gene pool

    DEFF Research Database (Denmark)

    Norman, Anders; Hansen, Lars H.; Sørensen, Søren Johannes

    2009-01-01

    Comparative whole-genome analyses have demonstrated that horizontal gene transfer (HGT) provides a significant contribution to prokaryotic genome innovation. The evolution of specific prokaryotes is therefore tightly linked to the environment in which they live and the communal pool of genes avai...... mechanistic framework for obtaining adaptability and functional diversity that alleviates the need for large genomes of specialized ‘private genes'....

  4. Multi-objective gene-pool optimal mixing evolutionary algorithms

    NARCIS (Netherlands)

    Luong, N.H.; La Poutré, J.A.; Bosman, P.A.N.; Igel, C.

    2014-01-01

    The recently introduced Gene-pool Optimal Mixing Evolutionary Algorithm (GOMEA), with a lean, but sufficient, linkage model and an efficient variation operator, has been shown to be a robust and efficient methodology for solving single objective (SO) optimization problems with superior performance c

  5. The care and handling of the forest gene pool

    Science.gov (United States)

    Roy R. Silen; Ivan Doig

    1976-01-01

    What must be the world's most magnificent pool of forest genes has timbered our Pacific slopes.Why else do the tallest firs, pines, spruces, hemlocks, redwoods, and larches all rise along the Pacific Coast of North America? Does their hugeness simply thrust up from our deep soils and mild, rainy climate? From a vantage point of three...

  6. A Gene-Pool Based Genetic Algorithm for TSP

    Institute of Scientific and Technical Information of China (English)

    Yang Hui; Kang Li-shan; Chen Yu-ping

    2003-01-01

    Based on the analysis of previous genetic algo rithms (GAs) for TSP, a novel method called Ge GA is proposed. It combines gene pool and GA so as to direct the evo lution of the whole population. The core of Ge GA is the construction of gene pool and how to apply it to GA. Different from standard GAs, Ge-GA aims to enhance the ability of exploration and exploitation by incorporating global search with local search. On one hand a local search called Ge LocalSearch operator is proposed to improve the solution quality, on the other hand the modified Inver-Over operator called Ge InverOver is considered as a global search mechanism to expand solution space of local minimal. Both of these operators are based on the gene pool. Our algorithm is applied to 11 well-known traveling salesman problems whose numbers of cities are from 70 to 1577 cities. The experiments results indicate that Ge GA has great robustness for TSP. For each test instance, the average value of solution quality, found in accepted time, stays within 0. 001 % from the optimum.

  7. Gene pool conservation and tree improvement in Serbia

    Directory of Open Access Journals (Sweden)

    Isajev Vasilije

    2009-01-01

    Full Text Available This paper presents the concepts applied in the gene pool conservation and tree improvement in Serbia. Gene pool conservation of tree species in Serbia includes a series of activities aiming at the sustainability and protection of genetic and species variability. This implies the investigation of genetic resources and their identification through the research of the genetic structure and the breeding system of individual species. Paper also includes the study of intra- and inter-population variability in experiments - provenance tests, progeny tests, half- and full-sib lines, etc. The increased use of the genetic potential in tree improvement in Serbia should be intensified by the following activities: improvement of production of normal forest seed, application of the concept of new selections directed primarily to the improvement of only one character, because in that case the result would be certain, establishment and management of seed orchards as specialized plantations for long-term production of genetically good-quality forest seeds, and the shortening of the improvement process by introducing new techniques and methods (molecular markers, somaclonal variation, genetic engineering, protoplast fusion, micropropagation, etc..

  8. Combinatorial pooling enables selective sequencing of the barley gene space.

    Directory of Open Access Journals (Sweden)

    Stefano Lonardi

    2013-04-01

    Full Text Available For the vast majority of species - including many economically or ecologically important organisms, progress in biological research is hampered due to the lack of a reference genome sequence. Despite recent advances in sequencing technologies, several factors still limit the availability of such a critical resource. At the same time, many research groups and international consortia have already produced BAC libraries and physical maps and now are in a position to proceed with the development of whole-genome sequences organized around a physical map anchored to a genetic map. We propose a BAC-by-BAC sequencing protocol that combines combinatorial pooling design and second-generation sequencing technology to efficiently approach denovo selective genome sequencing. We show that combinatorial pooling is a cost-effective and practical alternative to exhaustive DNA barcoding when preparing sequencing libraries for hundreds or thousands of DNA samples, such as in this case gene-bearing minimum-tiling-path BAC clones. The novelty of the protocol hinges on the computational ability to efficiently compare hundred millions of short reads and assign them to the correct BAC clones (deconvolution so that the assembly can be carried out clone-by-clone. Experimental results on simulated data for the rice genome show that the deconvolution is very accurate, and the resulting BAC assemblies have high quality. Results on real data for a gene-rich subset of the barley genome confirm that the deconvolution is accurate and the BAC assemblies have good quality. While our method cannot provide the level of completeness that one would achieve with a comprehensive whole-genome sequencing project, we show that it is quite successful in reconstructing the gene sequences within BACs. In the case of plants such as barley, this level of sequence knowledge is sufficient to support critical end-point objectives such as map-based cloning and marker-assisted breeding.

  9. [The gene pool of native inhabitants of the Samburg tundra].

    Science.gov (United States)

    Osipova, L P; Posukh, O L; Ivakin, E A; Kriukov, Iu A; Karafet, T M

    1996-06-01

    This study continues a series of investigations of the gene pool of native Siberian ethnic groups. In a population of Tundra Nentsi (Northern Samoyeds) and a group of Komi-Zyryans (Finno-Ugrian) (Samburg settlement, Tyumenskaya oblast, Yamalo-Nenetskii Autonomous okrug), gene markers of the following genetic systems were studied: blood groups (ABO, MNSs, Rhesus, Kell, Duffy, and P), erythrocyte acid phosphatase (AcP), phosphoglucomutase 1 (PGM 1), haptoglobin (Hp), and transferrin (Tf). The population of Samburg Tundra Nentsi was shown to have a close genetic relationship with the "core" of the Forest Nentsi population. In Northern Samoyeds, three carriers of the rare allele K (blood group Kell) were found for the first time. It is suggested that this allele was transferred into the population of Tundra Nentsi from Komi. Samburg Tundra Nentsi are found to have the maximum frequency of the allele PGM 1 (Posphoglucomutase 1) among aboriginal populations of northern Asia. Analysis of original data and the literature revealed a significant genetic distance between the Komi and Northern Samoyed populations. It was shown that Samburg Komi occupy an intermediate position between the clusters of Nenets populations and Finno-Ugrians (Komi) living in Komi Republic.

  10. Decrypting the mitochondrial gene pool of modern Panamanians.

    Science.gov (United States)

    Perego, Ugo A; Lancioni, Hovirag; Tribaldos, Maribel; Angerhofer, Norman; Ekins, Jayne E; Olivieri, Anna; Woodward, Scott R; Pascale, Juan Miguel; Cooke, Richard; Motta, Jorge; Achilli, Alessandro

    2012-01-01

    The Isthmus of Panama--the narrow neck of land connecting the northern and southern American landmasses--was an obligatory corridor for the Paleo-Indians as they moved into South America. Archaeological evidence suggests an unbroken link between modern natives and their Paleo-Indian ancestors in some areas of Panama, even if the surviving indigenous groups account for only 12.3% of the total population. To evaluate if modern Panamanians have retained a larger fraction of the native pre-Columbian gene pool in their maternally-inherited mitochondrial genome, DNA samples and historical records were collected from more than 1500 volunteer participants living in the nine provinces and four indigenous territories of the Republic. Due to recent gene-flow, we detected ~14% African mitochondrial lineages, confirming the demographic impact of the Atlantic slave trade and subsequent African immigration into Panama from Caribbean islands, and a small European (~2%) component, indicating only a minor influence of colonialism on the maternal side. The majority (~83%) of Panamanian mtDNAs clustered into native pan-American lineages, mostly represented by haplogroup A2 (51%). These findings reveal an overwhelming native maternal legacy in today's Panama, which is in contrast with the overall concept of personal identity shared by many Panamanians. Moreover, the A2 sub-clades A2ad and A2af (with the previously named 6 bp Huetar deletion), when analyzed at the maximum level of resolution (26 entire mitochondrial genomes), confirm the major role of the Pacific coastal path in the peopling of North, Central and South America, and testify to the antiquity of native mitochondrial genomes in Panama.

  11. Decrypting the mitochondrial gene pool of modern Panamanians.

    Directory of Open Access Journals (Sweden)

    Ugo A Perego

    Full Text Available The Isthmus of Panama--the narrow neck of land connecting the northern and southern American landmasses--was an obligatory corridor for the Paleo-Indians as they moved into South America. Archaeological evidence suggests an unbroken link between modern natives and their Paleo-Indian ancestors in some areas of Panama, even if the surviving indigenous groups account for only 12.3% of the total population. To evaluate if modern Panamanians have retained a larger fraction of the native pre-Columbian gene pool in their maternally-inherited mitochondrial genome, DNA samples and historical records were collected from more than 1500 volunteer participants living in the nine provinces and four indigenous territories of the Republic. Due to recent gene-flow, we detected ~14% African mitochondrial lineages, confirming the demographic impact of the Atlantic slave trade and subsequent African immigration into Panama from Caribbean islands, and a small European (~2% component, indicating only a minor influence of colonialism on the maternal side. The majority (~83% of Panamanian mtDNAs clustered into native pan-American lineages, mostly represented by haplogroup A2 (51%. These findings reveal an overwhelming native maternal legacy in today's Panama, which is in contrast with the overall concept of personal identity shared by many Panamanians. Moreover, the A2 sub-clades A2ad and A2af (with the previously named 6 bp Huetar deletion, when analyzed at the maximum level of resolution (26 entire mitochondrial genomes, confirm the major role of the Pacific coastal path in the peopling of North, Central and South America, and testify to the antiquity of native mitochondrial genomes in Panama.

  12. Simultaneous mapping of multiple gene loci with pooled segregants.

    Directory of Open Access Journals (Sweden)

    Jürgen Claesen

    Full Text Available The analysis of polygenic, phenotypic characteristics such as quantitative traits or inheritable diseases remains an important challenge. It requires reliable scoring of many genetic markers covering the entire genome. The advent of high-throughput sequencing technologies provides a new way to evaluate large numbers of single nucleotide polymorphisms (SNPs as genetic markers. Combining the technologies with pooling of segregants, as performed in bulked segregant analysis (BSA, should, in principle, allow the simultaneous mapping of multiple genetic loci present throughout the genome. The gene mapping process, applied here, consists of three steps: First, a controlled crossing of parents with and without a trait. Second, selection based on phenotypic screening of the offspring, followed by the mapping of short offspring sequences against the parental reference. The final step aims at detecting genetic markers such as SNPs, insertions and deletions with next generation sequencing (NGS. Markers in close proximity of genomic loci that are associated to the trait have a higher probability to be inherited together. Hence, these markers are very useful for discovering the loci and the genetic mechanism underlying the characteristic of interest. Within this context, NGS produces binomial counts along the genome, i.e., the number of sequenced reads that matches with the SNP of the parental reference strain, which is a proxy for the number of individuals in the offspring that share the SNP with the parent. Genomic loci associated with the trait can thus be discovered by analyzing trends in the counts along the genome. We exploit the link between smoothing splines and generalized mixed models for estimating the underlying structure present in the SNP scatterplots.

  13. [Some features of mitochondrial gene pool of Maeotis in light of their relation to Cis-Asov nomads].

    Science.gov (United States)

    Morozova, I Iu; Batieva, E F; Grosheva, A N; Kovalevskaia, V B; Rychkov, S Iu

    2013-09-01

    New data on mitochondrial gene pool polymorphism of Maeotis (1st-3rd centuries CE) in the light of their relation with Sarmatian nomads are presented. Maeotis are more genetically various, compared to Sarmatians; both the age of Maeotian gene pool and their close interactions with neighboring tribes can be reasons for this. The study of relationships of Maeotis and Sarmatians suggests an intensive gene interchange between them, which influences significantly on the formation of the Maeotian gene pool.

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

    Science.gov (United States)

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

    2016-02-26

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

  15. Deinococcus geothermalis: the pool of extreme radiation resistance genes shrinks.

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    Kira S Makarova

    Full Text Available Bacteria of the genus Deinococcus are extremely resistant to ionizing radiation (IR, ultraviolet light (UV and desiccation. The mesophile Deinococcus radiodurans was the first member of this group whose genome was completely sequenced. Analysis of the genome sequence of D. radiodurans, however, failed to identify unique DNA repair systems. To further delineate the genes underlying the resistance phenotypes, we report the whole-genome sequence of a second Deinococcus species, the thermophile Deinococcus geothermalis, which at its optimal growth temperature is as resistant to IR, UV and desiccation as D. radiodurans, and a comparative analysis of the two Deinococcus genomes. Many D. radiodurans genes previously implicated in resistance, but for which no sensitive phenotype was observed upon disruption, are absent in D. geothermalis. In contrast, most D. radiodurans genes whose mutants displayed a radiation-sensitive phenotype in D. radiodurans are conserved in D. geothermalis. Supporting the existence of a Deinococcus radiation response regulon, a common palindromic DNA motif was identified in a conserved set of genes associated with resistance, and a dedicated transcriptional regulator was predicted. We present the case that these two species evolved essentially the same diverse set of gene families, and that the extreme stress-resistance phenotypes of the Deinococcus lineage emerged progressively by amassing cell-cleaning systems from different sources, but not by acquisition of novel DNA repair systems. Our reconstruction of the genomic evolution of the Deinococcus-Thermus phylum indicates that the corresponding set of enzymes proliferated mainly in the common ancestor of Deinococcus. Results of the comparative analysis weaken the arguments for a role of higher-order chromosome alignment structures in resistance; more clearly define and substantially revise downward the number of uncharacterized genes that might participate in DNA repair and

  16. Deinococcus geothermalis: The Pool of Extreme Radiation Resistance Genes Shrinks

    Energy Technology Data Exchange (ETDEWEB)

    Makarova, Kira S. [National Center for Biotechnology Information; Omelchenko, Marina [National Center for Biotechnology Information; Gaidamakova, Elena [Uniformed Services University of the Health Sciences (USUHS); Matrosova, Vera [Uniformed Services University of the Health Sciences (USUHS); Vasilenko, Alexander [Uniformed Services University of the Health Sciences (USUHS); Zhai, Min [Uniformed Services University of the Health Sciences (USUHS); Lapidus, Alla L. [U.S. Department of Energy, Joint Genome Institute; Copeland, A [U.S. Department of Energy, Joint Genome Institute; Kim, Edwin [U.S. Department of Energy, Joint Genome Institute; Land, Miriam L [ORNL; Mavromatis, K [U.S. Department of Energy, Joint Genome Institute; Pitluck, Samual [U.S. Department of Energy, Joint Genome Institute; Richardson, P M [U.S. Department of Energy, Joint Genome Institute; Detter, J. Chris [U.S. Department of Energy, Joint Genome Institute; Brettin, Tom [Los Alamos National Laboratory (LANL); Saunders, Elizabeth H [Los Alamos National Laboratory (LANL); Lai, Barry [Argonne National Laboratory (ANL); Ravel, Bruce [Argonne National Laboratory (ANL); Kemner, Kenneth M [Argonne National Laboratory (ANL); Wolf, Yuri [National Center for Biotechnology Information; Sorokin, Alexei [Genetique Microbienne; Gerasimova, Anna [Research Institute of Genetics and Selection of Industrial Microorganisms, Mosco; Gelfand, Mikhail [Moscow State University; Fredrickson, James K [Pacific Northwest National Laboratory (PNNL); Koonin, Eugene [National Center for Biotechnology Information; Daly, Michael [Uniformed Services University of the Health Sciences (USUHS)

    2007-01-01

    Bacteria of the genus Deinococcus are extremely resistant to ionizing radiation (IR), ultraviolet light (UV) and desiccation. The mesophile Deinococcus radiodurans was the first member of this group whose genome was completely sequenced. Analysis of the genome sequence of D. radiodurans, however, failed to identify unique DNA repair systems. To further delineate the genes underlying the resistance phenotypes, we report the whole-genome sequence of a second Deinococcus species, the thermophile Deinococcus geothermalis, which at its optimal growth temperature is as resistant to IR, UV and desiccation as D. radiodurans, and a comparative analysis of the two Deinococcus genomes. Many D. radiodurans genes previously implicated in resistance, but for which no sensitive phenotype was observed upon disruption, are absent in D. geothermalis. In contrast, most D. radiodurans genes whose mutants displayed a radiation-sensitive phenotype in D. radiodurans are conserved in D. geothermalis. Supporting the existence of a Deinococcus radiation response regulon, a common palindromic DNA motif was identified in a conserved set of genes associated with resistance, and a dedicated transcriptional regulator was predicted. We present the case that these two species evolved essentially the same diverse set of gene families, and that the extreme stress-resistance phenotypes of the Deinococcus lineage emerged progressively by amassing cell-cleaning systems from different sources, but not by acquisition of novel DNA repair systems. Our reconstruction of the genomic evolution of the Deinococcus-Thermus phylum indicates that the corresponding set of enzymes proliferated mainly in the common ancestor of Deinococcus. Results of the comparative analysis weaken the arguments for a role of higher-order chromosome alignment structures in resistance; more clearly define and substantially revise downward the number of uncharacterized genes that might participate in DNA repair and contribute to

  17. Deinococcus geothermalis: The Pool of Extreme Radiation Resistance Genes Shrinks

    Energy Technology Data Exchange (ETDEWEB)

    Makarova, Kira S.; Omelchenko, Marina V.; Gaidamakova, Elena K.; Matrosova, Vera Y.; Vasilenko, Alexander; Zhai, Min; Lapidus, Alla; Copeland, Alex; Kim, Edwin; Land, Miriam; Mavrommatis, Konstantinos; Pitluck, Samuel; Richardson, Paul M.; Detter, Chris; Brettin, Thomas; Saunders, Elizabeth; Lai, Barry; Ravel, Bruce; Kemner, Kenneth M.; Wolf, Yuri I.; Sorokin, Alexander; Gerasimova, Anna V.; Gelfand, Mikhail S.; Fredrickson, James K.; Koonin, Eugene V.; Daly, Michael J.

    2007-07-24

    Bacteria of the genus Deinococcus are extremely resistant to ionizing radiation (IR), ultraviolet light (UV) and desiccation. The mesophile Deinococcus radiodurans was the first member of this group whose genome was completely sequenced. Analysis of the genome sequence of D. radiodurans, however, failed to identify unique DNA repair systems. To further delineate the genes underlying the resistance phenotypes, we report the whole-genome sequence of a second Deinococcus species, the thermophile Deinococcus geothermalis, which at itsoptimal growth temperature is as resistant to IR, UV and desiccation as D. radiodurans, and a comparative analysis of the two Deinococcus genomes. Many D. radiodurans genes previously implicated in resistance, but for which no sensitive phenotype was observed upon disruption, are absent in D. geothermalis. In contrast, most D. radiodurans genes whose mutants displayed a radiation-sensitive phenotype in D. radiodurans are conserved in D. geothermalis. Supporting the existence of a Deinococcus radiation response regulon, a common palindromic DNA motif was identified in a conserved set of genes associated with resistance, and a dedicated transcriptional regulator was predicted. We present the case that these two species evolved essentially the same diverse set of gene families, and that the extreme stress-resistance phenotypes of the Deinococcus lineage emerged progressively by amassing cell-cleaning systems from different sources, but not by acquisition of novel DNA repair systems. Our reconstruction of the genomic evolution of the Deinococcus-Thermus phylum indicates that the corresponding set of enzymes proliferated mainly in the common ancestor of Deinococcus. Results of the comparative analysis weaken the arguments for a role of higher-order chromosome alignment structures in resistance; more clearly define and substantially revise downward the number of uncharacterized genes that might participate in DNA repair and contribute to

  18. The diverse origins of the human gene pool.

    Science.gov (United States)

    Pääbo, Svante

    2015-06-01

    Analyses of the genomes of Neanderthals and Denisovans, the closest evolutionary relatives of present-day humans, suggest that our ancestors were part of a web of now-extinct populations linked by limited, but intermittent or sometimes perhaps even persistent, gene flow.

  19. Parts & pools: a framework for modular design of synthetic gene circuits.

    Science.gov (United States)

    Marchisio, Mario Andrea

    2014-01-01

    Published in 2008, Parts & Pools represents one of the first attempts to conceptualize the modular design of bacterial synthetic gene circuits with Standard Biological Parts (DNA segments) and Pools of molecules referred to as common signal carriers (e.g., RNA polymerases and ribosomes). The original framework for modeling bacterial components and designing prokaryotic circuits evolved over the last years and brought, first, to the development of an algorithm for the automatic design of Boolean gene circuits. This is a remarkable achievement since gene digital circuits have a broad range of applications that goes from biosensors for health and environment care to computational devices. More recently, Parts & Pools was enabled to give a proper formal description of eukaryotic biological circuit components. This was possible by employing a rule-based modeling approach, a technique that permits a faithful calculation of all the species and reactions involved in complex systems such as eukaryotic cells and compartments. In this way, Parts & Pools is currently suitable for the visual and modular design of synthetic gene circuits in yeast and mammalian cells too.

  20. Computer technology of genogeographic analysis of a gene pool: II. Statistical transformation of maps

    Energy Technology Data Exchange (ETDEWEB)

    Balanovskaya, E.V.; Nurbaev, S.D.; Rychkov, Yu.G. [Vavilov Institute of General Genetics, Moscow (Russian Federation)

    1994-11-01

    Transformations of computer maps of geographic distribution of gene frequencies using basic mathematical statistical procedures are considered. These transformations are designated as statistical transformation of maps. Two transformation groups are considered: of one map separately and of a group of maps. Transformations possess a value beyond their use as intermediate stages of more complicated cartographical analysis: the resulting maps carry entirely new information on the geography of genes or a gene pool. This article considers three examples of obtaining new genetic profiles using statistical transformation algorithms. These profiles are of: (1) heterozygosity (of HLA-A, B, C loci in northeastern Eurasia); (2) disease risk (Rh-incompatibility of mother and child with simultaneous registration of Rh and ABO blood groups in Eastern Europe); (3) genetic distances (from own mean ethnic values for Belarus and from mean Russian values for the gene pool of Eastern Europe). 15 refs., 9 figs., 1 tab.

  1. From single-cell to cell-pool transcriptomes: stochasticity in gene expression and RNA splicing.

    Science.gov (United States)

    Marinov, Georgi K; Williams, Brian A; McCue, Ken; Schroth, Gary P; Gertz, Jason; Myers, Richard M; Wold, Barbara J

    2014-03-01

    Single-cell RNA-seq mammalian transcriptome studies are at an early stage in uncovering cell-to-cell variation in gene expression, transcript processing and editing, and regulatory module activity. Despite great progress recently, substantial challenges remain, including discriminating biological variation from technical noise. Here we apply the SMART-seq single-cell RNA-seq protocol to study the reference lymphoblastoid cell line GM12878. By using spike-in quantification standards, we estimate the absolute number of RNA molecules per cell for each gene and find significant variation in total mRNA content: between 50,000 and 300,000 transcripts per cell. We directly measure technical stochasticity by a pool/split design and find that there are significant differences in expression between individual cells, over and above technical variation. Specific gene coexpression modules were preferentially expressed in subsets of individual cells, including one enriched for mRNA processing and splicing factors. We assess cell-to-cell variation in alternative splicing and allelic bias and report evidence of significant differences in splice site usage that exceed splice variation in the pool/split comparison. Finally, we show that transcriptomes from small pools of 30-100 cells approach the information content and reproducibility of contemporary RNA-seq from large amounts of input material. Together, our results define an experimental and computational path forward for analyzing gene expression in rare cell types and cell states.

  2. Gene expression changes in blood RNA after swimming in a chlorinated pool.

    Science.gov (United States)

    Salas, Lucas A; Font-Ribera, Laia; Bustamante, Mariona; Sumoy, Lauro; Grimalt, Joan O; Bonnin, Sarah; Aguilar, Maria; Mattlin, Heidi; Hummel, Manuela; Ferrer, Anna; Kogevinas, Manolis; Villanueva, Cristina M

    2017-08-01

    Exposure to disinfection by-products (DBP) such as trihalomethanes (THM) in swimming pools has been linked to adverse health effects in humans, but their biological mechanisms are unclear. We evaluated short-term changes in blood gene expression of adult recreational swimmers after swimming in a chlorinated pool. Volunteers swam 40min in an indoor chlorinated pool. Blood samples were drawn and four THM (chloroform, bromodichloromethane, dibromochloromethane and bromoform) were measured in exhaled breath before and after swimming. Intensity of physical activity was measured as metabolic equivalents (METs). Gene expression in whole blood mRNA was evaluated using IlluminaHumanHT-12v3 Expression-BeadChip. Linear mixed models were used to evaluate the relationship between gene expression changes and THM exposure. Thirty-seven before-after pairs were analyzed. The median increase from baseline to after swimming were: 0.7 to 2.3 for MET, and 1.4 to 7.1μg/m(3) for exhaled total THM (sum of the four THM). Exhaled THM increased on average 0.94μg/m(3) per 1 MET. While 1643 probes were differentially expressed post-exposure. Of them, 189 were also associated with exhaled levels of individual/total THM or MET after False Discovery Rate. The observed associations with the exhaled THM were low to moderate (Log-fold change range: -0.17 to 0.15). In conclusion, we identified short-term gene expression changes associated with swimming in a pool that were minor in magnitude and their biological meaning was unspecific. The high collinearity between exhaled THM levels and intensity of physical activity precluded mutually adjusted models with both covariates. These exploratory results should be validated in future studies. Copyright © 2017. Published by Elsevier B.V.

  3. Scalable gene synthesis by selective amplification of DNA pools from high-fidelity microchips.

    Science.gov (United States)

    Kosuri, Sriram; Eroshenko, Nikolai; Leproust, Emily M; Super, Michael; Way, Jeffrey; Li, Jin Billy; Church, George M

    2010-12-01

    Development of cheap, high-throughput and reliable gene synthesis methods will broadly stimulate progress in biology and biotechnology. Currently, the reliance on column-synthesized oligonucleotides as a source of DNA limits further cost reductions in gene synthesis. Oligonucleotides from DNA microchips can reduce costs by at least an order of magnitude, yet efforts to scale their use have been largely unsuccessful owing to the high error rates and complexity of the oligonucleotide mixtures. Here we use high-fidelity DNA microchips, selective oligonucleotide pool amplification, optimized gene assembly protocols and enzymatic error correction to develop a method for highly parallel gene synthesis. We tested our approach by assembling 47 genes, including 42 challenging therapeutic antibody sequences, encoding a total of ∼35 kilobase pairs of DNA. These assemblies were performed from a complex background containing 13,000 oligonucleotides encoding ∼2.5 megabases of DNA, which is at least 50 times larger than in previously published attempts.

  4. On gene pool divergence of the brown hare (Lepus europaeus, Pallas in Vojvodina

    Directory of Open Access Journals (Sweden)

    Đan Mihajla R.

    2004-01-01

    Full Text Available Today it is widely accepted that a conservation of genetic diversity increases chances of animal survival. The aim of this study was investigation of gene pool divergence of the brown hare (Lepus europaeus in Vojvodina. Allozymic diversity of 60 brown hares from different localities in Vojvodina was studied by polyacrylamide and starch gel electrophoresis at 31 putative structural gene loci. Only five loci: Idh-2, Pgd, Pgm, Es-1 and Es-D were polymorphic, possessing 2 to 6 different alleles. The value of average heterozygosity (Ho was 0.0427, while polymorphism (P99% was 8.4%. Nei's values of genetic distance (ranged from 0.000 to 0.029 and modified Roger's distance (ranged from 0.030 to 0.181 were calculated among hare populations. Apart from the relatively high values of heterozygosity and polymorphism, the nuclear gene pool diversity of brown hare population in Vojvodina based on allozyme variation is low and corresponds to the data obtained for the populations in Austria and Central Europe.

  5. [Gene pool differentiation between Altaic and trotting horse breeds inferred from ISSR-PCR marker data].

    Science.gov (United States)

    Feofilov, A V; Bardukov, N V; Glazko, V I

    2011-09-01

    Using ISSR-PCR marker data, comparative analysis of the gene pools of Altaic and trotting horse breeds was carried out. Horse groups of different origin demonstrated differences in amplification spectra of DNA fragments flanked by inverted repeats of four microsatellites. Combinations of certain DNA fragments present in these profiles reproducibly distinguished genomes of the Altaic breed from the trotting breeds. Genetic differentiation between some trotting breeds, based on Nei genetic distance values, was found to be comparable to that between the groups of horses of Altaic breed from two different farms.

  6. First microbiota assessments of children's paddling pool waters evaluated using 16S rRNA gene-based metagenome analysis.

    Science.gov (United States)

    Sawabe, Toko; Suda, Wataru; Ohshima, Kenshiro; Hattori, Masahira; Sawabe, Tomoo

    2016-01-01

    Insufficient chloric sterilization of children's paddling pool waters increases the risk of diarrheal illness. Therefore, we investigated the microbiota changes after children use pools. First, we applied 16S rRNA gene-based metagenome analysis to understand the dynamics of microbiota in pool water, especially with respect to the bio-contamination by potential pathogens. Proteobacteria were major taxa detected in every pool water sample after children spent time in the pool. In more detail, Gammaproteobacteria comprised the dominant class, which was followed by Betaproteobacteria. Five phyla, Bacteroidetes, Firmicutes, Actinobacteria and Deinococcus-Thermus phyla were minor groups. The pool water microbiota are likely to be a consortium of intestinal and skin microbiota from humans. Interestingly, the ratio of Gammaproteobacteria and Betaproteobacteria differed according to the age of the children who used the pool, which means the pool water was additionally contaminated by soil microbiota as a result of the children's behavior. Furthermore, potential pathogens, such as Campylobacter spp., Comamonas testosteroni and Burkholderia pseudomallei, were also found. Considering the standard plate counts, the abundances of these human pathogens are unlikely to be a sufficiently infectious dose. We suggest the importance of sanitary measures in paddling pool waters to reduce bio-contamination from both humans and the environment.

  7. Genomics of crop wild relatives: expanding the gene pool for crop improvement.

    Science.gov (United States)

    Brozynska, Marta; Furtado, Agnelo; Henry, Robert J

    2016-04-01

    Plant breeders require access to new genetic diversity to satisfy the demands of a growing human population for more food that can be produced in a variable or changing climate and to deliver the high-quality food with nutritional and health benefits demanded by consumers. The close relatives of domesticated plants, crop wild relatives (CWRs), represent a practical gene pool for use by plant breeders. Genomics of CWR generates data that support the use of CWR to expand the genetic diversity of crop plants. Advances in DNA sequencing technology are enabling the efficient sequencing of CWR and their increased use in crop improvement. As the sequencing of genomes of major crop species is completed, attention has shifted to analysis of the wider gene pool of major crops including CWR. A combination of de novo sequencing and resequencing is required to efficiently explore useful genetic variation in CWR. Analysis of the nuclear genome, transcriptome and maternal (chloroplast and mitochondrial) genome of CWR is facilitating their use in crop improvement. Genome analysis results in discovery of useful alleles in CWR and identification of regions of the genome in which diversity has been lost in domestication bottlenecks. Targeting of high priority CWR for sequencing will maximize the contribution of genome sequencing of CWR. Coordination of global efforts to apply genomics has the potential to accelerate access to and conservation of the biodiversity essential to the sustainability of agriculture and food production.

  8. The Polynesian gene pool: an early contribution by Amerindians to Easter Island.

    Science.gov (United States)

    Thorsby, Erik

    2012-03-19

    It is now generally accepted that Polynesia was first settled by peoples from southeast Asia. An alternative that eastern parts of Polynesia were first inhabited by Amerindians has found little support. There are, however, many indications of a 'prehistoric' (i.e. before Polynesia was discovered by Europeans) contact between Polynesia and the Americas, but genetic evidence of a prehistoric Amerindian contribution to the Polynesian gene pool has been lacking. We recently carried out genomic HLA (human leucocyte antigen) typing as well as typing for mitochondrial DNA (mtDNA) and Y chromosome markers of blood samples collected in 1971 and 2008 from reputedly non-admixed Easter Islanders. All individuals carried HLA alleles and mtDNA types previously found in Polynesia, and most of the males carried Y chromosome markers of Polynesian origin (a few had European Y chromosome markers), further supporting an initial Polynesian population on Easter Island. The HLA investigations revealed, however, that some individuals also carried HLA alleles which have previously almost only been found in Amerindians. We could trace the introduction of these Amerindian alleles to before the Peruvian slave trades, i.e. before the 1860s, and provide suggestive evidence that they were introduced already in prehistoric time. Our results demonstrate an early Amerindian contribution to the Polynesian gene pool on Easter Island, and illustrate the usefulness of typing for immunogenetic markers such as HLA to complement mtDNA and Y chromosome analyses in anthropological investigations.

  9. Subgenomic Diversity Patterns Caused by Directional Selection in Bread Wheat Gene Pools

    Directory of Open Access Journals (Sweden)

    Kai Voss-Fels

    2015-07-01

    Full Text Available Genetic diversity represents the fundamental key to breeding success, providing the basis for breeders to select varieties with constantly improving yield performance. On the other hand, strong selection during domestication and breeding have eliminated considerable genetic diversity in the breeding pools of major crops, causing erosion of genetic potential for adaptation to emerging challenges like climate change. High-throughput genomic technologies can address this dilemma by providing detailed knowledge to characterize and replenish genetic diversity in breeding programs. In hexaploid bread wheat ( L., the staple food for 35% of the world’s population, bottlenecks during allopolyploidisation followed by strong artificial selection have considerably narrowed diversity to the extent that yields in many regions appear to be unexpectedly stagnating. In this study, we used a 90,000 single nucleotide polymorphism (SNP wheat genotyping array to assay high-frequency, polymorphic SNP markers in 460 accessions representing different phenological diversity groups from Asian, Australian, European, and North American bread wheat breeding materials. Detailed analysis of subgroup diversity at the chromosome and subgenome scale revealed highly distinct patterns of conserved linkage disequilibrium between different gene pools. The data enable identification of genome regions in most need of rejuvenation with novel diversity and provide a high-resolution molecular basis for genomic-assisted introgression of new variation into chromosome segments surrounding directionally selected metaloci conferring important adaptation and quality traits.

  10. Rapid mutation of endogenous zebrafish genes using zinc finger nucleases made by Oligomerized Pool ENgineering (OPEN.

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    Jonathan E Foley

    Full Text Available BACKGROUND: Customized zinc finger nucleases (ZFNs form the basis of a broadly applicable tool for highly efficient genome modification. ZFNs are artificial restriction endonucleases consisting of a non-specific nuclease domain fused to a zinc finger array which can be engineered to recognize specific DNA sequences of interest. Recent proof-of-principle experiments have shown that targeted knockout mutations can be efficiently generated in endogenous zebrafish genes via non-homologous end-joining-mediated repair of ZFN-induced DNA double-stranded breaks. The Zinc Finger Consortium, a group of academic laboratories committed to the development of engineered zinc finger technology, recently described the first rapid, highly effective, and publicly available method for engineering zinc finger arrays. The Consortium has previously used this new method (known as OPEN for Oligomerized Pool ENgineering to generate high quality ZFN pairs that function in human and plant cells. METHODOLOGY/PRINCIPAL FINDINGS: Here we show that OPEN can also be used to generate ZFNs that function efficiently in zebrafish. Using OPEN, we successfully engineered ZFN pairs for five endogenous zebrafish genes: tfr2, dopamine transporter, telomerase, hif1aa, and gridlock. Each of these ZFN pairs induces targeted insertions and deletions with high efficiency at its endogenous gene target in somatic zebrafish cells. In addition, these mutations are transmitted through the germline with sufficiently high frequency such that only a small number of fish need to be screened to identify founders. Finally, in silico analysis demonstrates that one or more potential OPEN ZFN sites can be found within the first three coding exons of more than 25,000 different endogenous zebrafish gene transcripts. CONCLUSIONS AND SIGNIFICANCE: In summary, our study nearly triples the total number of endogenous zebrafish genes successfully modified using ZFNs (from three to eight and suggests that OPEN

  11. Further evidence of an Amerindian contribution to the Polynesian gene pool on Easter Island.

    Science.gov (United States)

    Thorsby, E; Flåm, S T; Woldseth, B; Dupuy, B M; Sanchez-Mazas, A; Fernandez-Vina, M A

    2009-06-01

    Available evidence suggests a Polynesian origin of the Easter Island population. We recently found that some native Easter Islanders also carried some common American Indian (Amerindian) human leukocyte antigen (HLA) alleles, which probably were introduced before Europeans discovered the island in 1722. In this study, we report molecular genetic investigations of 21 other selected native Easter Islanders. Analysis of mitochondrial DNA and Y chromosome markers showed no traces of an Amerindian contribution. However, high-resolution genomic HLA typing showed that two individuals carried some other common Amerindian HLA alleles, different from those found in our previous investigations. The new data support our previous evidence of an Amerindian contribution to the gene pool on Easter Island.

  12. From QTL to candidate gene: Genetical genomics of simple and complex traits in potato using a pooling strategy

    Directory of Open Access Journals (Sweden)

    de Vos Ric

    2010-03-01

    Full Text Available Abstract Background Utilization of the natural genetic variation in traditional breeding programs remains a major challenge in crop plants. The identification of candidate genes underlying, or associated with, phenotypic trait QTLs is desired for effective marker assisted breeding. With the advent of high throughput -omics technologies, screening of entire populations for association of gene expression with targeted traits is becoming feasible but remains costly. Here we present the identification of novel candidate genes for different potato tuber quality traits by employing a pooling approach reducing the number of hybridizations needed. Extreme genotypes for a quantitative trait are collected and the RNA from contrasting bulks is then profiled with the aim of finding differentially expressed genes. Results We have successfully implemented the pooling strategy for potato quality traits and identified candidate genes associated with potato tuber flesh color and tuber cooking type. Elevated expression level of a dominant allele of the β-carotene hydroxylase (bch gene was associated with yellow flesh color through mapping of the gene under a major QTL for flesh color on chromosome 3. For a second trait, a candidate gene with homology to a tyrosine-lysine rich protein (TLRP was identified based on allele specificity of the probe on the microarray. TLRP was mapped on chromosome 9 in close proximity to a QTL for potato cooking type strengthening its significance as a candidate gene. Furthermore, we have performed a profiling experiment targeting a polygenic trait, by pooling individual genotypes based both on phenotypic and marker data, allowing the identification of candidate genes associated with the two different linkage groups. Conclusions A pooling approach for RNA-profiling with the aim of identifying novel candidate genes associated with tuber quality traits was successfully implemented. The identified candidate genes for tuber flesh color

  13. Development of specific chromosomal DNA pool for rice field eel and their application to gene mapping

    Institute of Scientific and Technical Information of China (English)

    2002-01-01

    The chromosomes 1, 3, 5, 6, 7, 10 and 12 of rice field eel (Monopterus albus Zuiew) have been microdissected successfully from meiosis I diakinesis spreads by using glass microneedle under an inverted microscope. And the DOP-PCR products of the single chromosome dotted on the nylon membrane as "specific chromosomal DNA pool", have been hybridized with 6 probes to map these genes. The mapping results show that Zfa has been mapped to chromosome 1, rDNA to chromosomes 3 and 7, both Gh and Pdeg to chromosome 10, Hsl to chromosome 5 and Hox genes have been detected on chromosomes 1, 3, 6 and 10 meantime. It has initiatively been suggested that chromosome 10 of rice field eel might possess the commom conserved synteny to that on chromosome 17 of human, chromosome 11 of mouse,chromosome 12 of pig and chromosome 19 of bovine. And so chromosome 3 of rice field eel might also contain the commom conserved synteny to that on chromosome 2 of zebrafish. Our study is an attempt to establish a new and feasible method to advance the study of gene mapping and chromosome evolution in fish, and also to provide a new idea to distinguish each chromosome on the base of molecular markers for fish.

  14. Geographical Distribution of Wild Relatives of Mesoamerican Gene Pool of Lima Bean (Phaseolus lunatus L. in Mexico

    Directory of Open Access Journals (Sweden)

    Rubén H. Andueza-Noh

    2016-03-01

    Full Text Available The Mesoamerican gene pool of wild Lima bean (Phaseolus lunatus L., Fabaceae is an important source of genes for genetic improvement of the species. Is widely distributed from northern Mexico to northern Argentina. Reports in Mexico indicate that this gene pool is distributed from Sinaloa to Chiapas on the Pacific Coast and southern Tamaulipas to the Yucatan Peninsula on the Coast of Gulf of Mexico, as well as, in the Isthmus of Tehuantepec. However, despite the knowledge we have about the distribution of this gene pool, in Mexico there are still collecting gaps and unexplored regions. The objective of this study was to collect wild populations of Lima bean in Mexico to know its current distribution and establish management and conservation strategies. To do this, we collected within the natural distribution range of the Mesoamerican gene pool of Lima bean in Mexico, with the passport data was designed a geographical distribution map and assessed the conservation status of populations. Results indicated that wild populations of Lima bean have a wide geographical distribution localized mainly in tropical deciduous forest and semideciduous and elevations from zero to 2, 292 meters. In most wild population collected a low conservation status was observed, in consequence was proposed the development of strategies for in situ and ex situ conservation for wild populations with higher degree of erosion.

  15. Changes in gravity affect gene expression, protein modulation and metabolite pools of arabidopsis

    Science.gov (United States)

    Hampp, R.; Martzivanou, M.; Maier, R. M.; Magel, E.

    ), we investigated samples from sounding rocket experiments (5 min μ g) and show increased transcript levels for signalling proteins. By means of 2-dimensional SDS polyacrylamide gelelectrophoresis, coupled to spot identification after tryptic digest (MALDI-TOF), we further show that metabolic short-term responses can be adjusted by protein phosphorylation/dephosphorylation. Changes in gene expression / protein modulation are mirrored by respective alterations in metabolite pools. (Supported by a grant from the Deutsches Zentrum für Luft- und Raumfahrt (DLR, 50WB0143)).

  16. Wheat Landraces Are Better Qualified as Potential Gene Pools at Ultraspaced rather than Densely Grown Conditions

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    Elissavet G. Ninou

    2014-01-01

    Full Text Available The negative relationship between the yield potential of a genotype and its competitive ability may constitute an obstacle to recognize outstanding genotypes within heterogeneous populations. This issue was investigated by growing six heterogeneous wheat landraces along with a pure-line commercial cultivar under both dense and widely spaced conditions. The performance of two landraces showed a perfect match to the above relationship. Although they lagged behind the cultivar by 64 and 38% at the dense stand, the reverse was true with spaced plants where they succeeded in out-yielding the cultivar by 58 and 73%, respectively. It was concluded that dense stand might undervalue a landrace as potential gene pool in order to apply single-plant selection targeting pure-line cultivars, attributable to inability of plants representing high yielding genotypes to exhibit their capacity due to competitive disadvantage. On the other side, the yield expression of individuals is optimized when density is low enough to preclude interplant competition. Therefore, the latter condition appears ideal to identify the most promising landrace for breeding and subsequently recognize the individuals representing the most outstanding genotypes.

  17. Analysis of pools of targeted Salmonella deletion mutants identifies novel genes affecting fitness during competitive infection in mice.

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    Carlos A Santiviago

    2009-07-01

    Full Text Available Pools of mutants of minimal complexity but maximal coverage of genes of interest facilitate screening for genes under selection in a particular environment. We constructed individual deletion mutants in 1,023 Salmonella enterica serovar Typhimurium genes, including almost all genes found in Salmonella but not in related genera. All mutations were confirmed simultaneously using a novel amplification strategy to produce labeled RNA from a T7 RNA polymerase promoter, introduced during the construction of each mutant, followed by hybridization of this labeled RNA to a Typhimurium genome tiling array. To demonstrate the ability to identify fitness phenotypes using our pool of mutants, the pool was subjected to selection by intraperitoneal injection into BALB/c mice and subsequent recovery from spleens. Changes in the representation of each mutant were monitored using T7 transcripts hybridized to a novel inexpensive minimal microarray. Among the top 120 statistically significant spleen colonization phenotypes, more than 40 were mutations in genes with no previously known role in this model. Fifteen phenotypes were tested using individual mutants in competitive assays of intraperitoneal infection in mice and eleven were confirmed, including the first two examples of attenuation for sRNA mutants in Salmonella. We refer to the method as Array-based analysis of cistrons under selection (ABACUS.

  18. Analysis of pools of targeted Salmonella deletion mutants identifies novel genes affecting fitness during competitive infection in mice.

    Directory of Open Access Journals (Sweden)

    Carlos A Santiviago

    2009-07-01

    Full Text Available Pools of mutants of minimal complexity but maximal coverage of genes of interest facilitate screening for genes under selection in a particular environment. We constructed individual deletion mutants in 1,023 Salmonella enterica serovar Typhimurium genes, including almost all genes found in Salmonella but not in related genera. All mutations were confirmed simultaneously using a novel amplification strategy to produce labeled RNA from a T7 RNA polymerase promoter, introduced during the construction of each mutant, followed by hybridization of this labeled RNA to a Typhimurium genome tiling array. To demonstrate the ability to identify fitness phenotypes using our pool of mutants, the pool was subjected to selection by intraperitoneal injection into BALB/c mice and subsequent recovery from spleens. Changes in the representation of each mutant were monitored using T7 transcripts hybridized to a novel inexpensive minimal microarray. Among the top 120 statistically significant spleen colonization phenotypes, more than 40 were mutations in genes with no previously known role in this model. Fifteen phenotypes were tested using individual mutants in competitive assays of intraperitoneal infection in mice and eleven were confirmed, including the first two examples of attenuation for sRNA mutants in Salmonella. We refer to the method as Array-based analysis of cistrons under selection (ABACUS.

  19. The current state of Pinus sylvestris L. gene pool in Karelia

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    А. А. Ilyinov

    2016-10-01

    Full Text Available Three native populations of P. sylvestris, ssp. lapponica (Alakurtti, Gridino, Pjaozero and six native populations of P. s., ssp. sylvestris (Voinitsa, Maslozero, Vodlozero, Zaonezshye, Kivach, Sortavala along with one artificial population – Petrozavodsk seed orchard have been studied using four nuclear microsatellite primers (Spac11.8, Spac12.5, PtTX2123, PtTX2146 to find out the peculiarities of Scotch pine intraspecific diversity in Karelia. In total, 66 alleles were found. All four loci turned out to be polymorphic in all populations. The observed heterozigocity level of all studied Karelian populations was lower than expected, which is evidence of heterozygotes deficiency in Karelian pine populations. Overall, the investigated P. sylvestris populations can be described as having a high level of the genetic variability especially compared to results obtained earlier by isozyme analyses. The Petrozavodsk seed orchard ought to be mentioned as having one of the highest levels of the genetic variability, which gives evidences in favor of good state regarding representativeness of Scotch pine gene pool here. No substantial differences in genetic structure and diversity levels have been found for ss. lapponica populations vs. ss. sylvestris ones. AMOVA analysis showed that despite the significant differences between pine populations, considering both the allele composition and the genetic diversity, the major part of the variety (90 % was allocated inside group. The investigated populations were subdivided into two clusters using UPGMA technique characterized by substantial Nei distance (DN = 0.273. The former one included the majority of Karelian pine populations (DN = 0.030–0.082 along with the Alakurtti population from Murmansk region. The latter cluster consisted ofthe most isolated «Kivach» and «Zaonezshye» populations, which had the lowest levels of genetic diversity, and the «Petrozavodsk seed orchard».

  20. Adding to Yersinia enterocolitica Gene Pool Diversity: Two Cryptic Plasmids from a Biotype 1A Isolate

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    Daniela Lepka

    2009-01-01

    Full Text Available We report the nucleotide sequence of two novel cryptic plasmids (4357 and 14 662 base pairs carried by a Yersinia enterocolitica biotype 1A strain isolated from pork. As distinguished from most biotype 1A strains, this isolate, designated 07-04449, exhibited adherence to eukaryotic cells. The smaller plasmid pYe4449-1 carries five attributable open reading frames (ORFs encoding the first CcdA/CcdB-like antitoxin/toxin system described for a Yersinia plasmid, a RepA-like replication initiation protein, and mobilizing factors MobA and MobC. The deduced amino acid sequences showed highest similarity to proteins described in Salmonella (CcdA/B, Klebsiella (RepA, and Plesiomonas (MobA/C indicating genomic fluidity among members of the Enterobacteriaceae. One additional ORF with unknown function, termed ORF5, was identified with an ancestry distinct from the rest of the plasmid. While the C+G content of ORF5 is 38.3%, the rest of pYe4449-1 shows a C+G content of 55.7%. The C+G content of the larger plasmid pYe4449-2 (54.9% was similar to that of pYe4449-1 (53.7% and differed from that of the Y. enterocolitica genome (47.3%. Of the 14 ORFs identified on pYe4449-2, only six ORFs showed significant similarity to database entries. For three of these ORFs likely functions could be ascribed: a TnpR-like resolvase and a phage replication protein, localized each on a low C+G island, and DNA primase TraC. Two ORFs of pYe4449-2, ORF3 and ORF7, seem to encode secretable proteins. Epitope-tagging of ORF3 revealed protein expression at 4°C but not at or above 27°C suggesting adaptation to a habitat outside swine. The hypothetical protein encoded by ORF7 is the member of a novel repeat protein family sharing the DxxGN(xnDxxGN motif. Our findings illustrate the exceptional gene pool diversity within the species Y. enterocolitica driven by horizontal gene transfer events.

  1. Genetic variation and risks of introgression in the wild Coffea arabica gene pool in south-western Ethiopian montane rainforests

    OpenAIRE

    Aerts, Raf; Berecha, Gezahegn; Gijbels, Pieter; Hundera, Kitessa; Vandepitte,Katrien; Van Glabeke, Sabine; Muys, Bart; Roldan-Ruiz, Isabel; Honnay, Olivier

    2012-01-01

    The montane rainforests of SW Ethiopia are the primary centre of diversity of Coffea arabica and the origin of all Arabica coffee cultivated worldwide. This wild gene pool is potentially threatened by forest fragmentation and degradation, and by introgressive hybridisation with locally improved coffee varieties. We genotyped 703 coffee shrubs from unmanaged and managed coffee populations, using 24 microsatellite loci. Additionally, we genotyped 90 individuals representing 23 Ethiopian cult...

  2. Deletion of the zupT gene for a zinc importer influences zinc pools in Cupriavidus metallidurans CH34.

    Science.gov (United States)

    Herzberg, M; Bauer, L; Nies, D H

    2014-03-01

    Cupriavidus metallidurans strain CH34 accomplishes a high level of transition metal resistance by a combination of rather unspecific transition metal import and controlled efflux of surplus metals. Using the plasmid-free mutant strain AE104 that possesses only a limited number of metal efflux systems, cellular metal pools were identified as counterparts of these transport reactions. At low zinc concentrations strain AE104 took up Zn(II) until the zinc content reached an optimum level of 70,000 Zn(II) per cell in the exponential phase of growth, whereas a ΔzupT mutant lacking the zinc importer ZupT contained only 20,000 Zn(II)/cell, possibly the minimum zinc content. Mutant and parent cells accumulated up to 125,000 Zn(II) per cell at high (100 μM) external zinc concentrations (optimum zinc content). When the mutant strain Δe4, which has all the known genes for zinc efflux systems deleted, was cultivated in the presence of zinc concentrations close to its upper tolerance level (10 μM), these cells contained 250,000 Zn(II) per cell, probably the maximum zinc content. Instead of zinc, 120,000 cobalt or cadmium ions could also fill-up parts of this zinc pool, showing that it is in fact an undefined pool of divalent transition metal cations bound with low substrate specificity. Even when the cells contained sufficient numbers of total zinc, the zinc importer ZupT was required for important cellular processes, indicating the presence of a pool of tightly bound zinc ions, which depends on ZupT for efficient replenishment. The absence of ZupT led to the formation of inclusion bodies, perturbed oxidative stress resistance and decreased efficiency in the synthesis of the zinc-dependent subunit RpoC of the RNA polymerase, leading to RpoC accumulation. Moreover, when a czc allele for a zinc-exporting transenvelope efflux system CzcCBA was constitutively expressed in a ΔzupT mutant, this led to the disappearance of the CzcA protein and the central subunit of the protein

  3. [Pooled Analysis of RET/PTC Gene Rearrangement Rate in Sporadic and Radiogenic Thyroid Papillary Carcinoma].

    Science.gov (United States)

    Ushenkova, L N; Koterov, A N; Biryukov, A P

    2015-01-01

    The database of publications on molecular epidemiology of RET/PTC rearrangements in sporadic and radiogenic thyroid papillary carcinoma has been formed (197 sources at the end of 2014; coverage of 100%). Based on this database a pooled analysis of data on the rates of RET/PTC1, RET/PTC3 and RET/PTC in total was conducted. Statistical approach involves a simple pooling, as well as calculations on the models of random and fixed effects. Since almost all the strata were characterized by heterogeneity, simple pooling and random effect models were adequate. Calculations using both models led to almost identical results. For rates of RET/PTC1, RET/PTC3 and RET/PTC in total with respect to formed carcinoma striations the following values (pooling, in %) were obtained: sporadic, total--13.2; 8.9; 21.2; sporadic, adults--13.3; 9.9; 21.1; sporadic, children--22.4; 17.5; 44.5; radiogenic, total--20.9; 20.3; 40.4; radiotherapy (exposure in childhood)--31.1; 11.8; 42.5; children affected after the Chernobyl accident--19.9; 23.6; 46.1; radiological incidents (exposure in adulthood)--19.9; 7.7; 18.4. Statistically proven is the reliability of differences of carcinoma indicators for children compared with adults (both sporadic and radiogenic tumors) and for radiogenic cancer compared with sporadic. The greatest increase in rate after irradiation was found for RET/PTC1, previously characterized in vitro as one of radiogenic types of RET/PTC.

  4. Bacterial intra-species gene loss occurs in a largely clocklike manner mostly within a pool of less conserved and constrained genes.

    Science.gov (United States)

    Bolotin, Evgeni; Hershberg, Ruth

    2016-10-13

    Gene loss is a major contributor to the evolution of bacterial gene content. Gene loss may occur as a result of shifts in environment leading to changes in the intensity and/or directionality of selection applied for the maintenance of specific genes. Gene loss may also occur in a more neutral manner, when gene functions are lost that were not subject to strong selection to be maintained, irrespective of changes to environment. Here, we used a pangenome-based approach to investigate patterns of gene loss across 15 bacterial species. We demonstrate that gene loss tends to occur mostly within a pool of genes that are less constrained within species, even in those strains from which they are not lost, and less conserved across bacterial species. Our results indicate that shifts in selection, resulting from shifts in environment are not required to explain the majority of gene loss events occurring within a diverse collection of bacterial species. Caution should therefore be taken when attributing differences in gene content to differences in environment.

  5. High temperature inhibits ascorbate recycling and light stimulation of the ascorbate pool in tomato despite increased expression of biosynthesis genes.

    Directory of Open Access Journals (Sweden)

    Capucine Massot

    Full Text Available Understanding how the fruit microclimate affects ascorbate (AsA biosynthesis, oxidation and recycling is a great challenge in improving fruit nutritional quality. For this purpose, tomatoes at breaker stage were harvested and placed in controlled environment conditions at different temperatures (12, 17, 23, 27 and 31 °C and irradiance regimes (darkness or 150 µmol m(-2 s(-1. Fruit pericarp tissue was used to assay ascorbate, glutathione, enzymes related to oxidative stress and the AsA/glutathione cycle and follow the expression of genes coding for 5 enzymes of the AsA biosynthesis pathway (GME, VTC2, GPP, L-GalDH, GLDH. The AsA pool size in pericarp tissue was significantly higher under light at temperatures below 27 °C. In addition, light promoted glutathione accumulation at low and high temperatures. At 12 °C, increased AsA content was correlated with the enhanced expression of all genes of the biosynthesis pathway studied, combined with higher DHAR and MDHAR activities and increased enzymatic activities related to oxidative stress (CAT and APX. In contrast, at 31 °C, MDHAR and GR activities were significantly reduced under light indicating that enzymes of the AsA/glutathione cycle may limit AsA recycling and pool size in fruit pericarp, despite enhanced expression of genes coding for AsA biosynthesis enzymes. In conclusion, this study confirms the important role of fruit microclimate in the regulation of fruit pericarp AsA content, as under oxidative conditions (12 °C, light total fruit pericarp AsA content increased up to 71%. Moreover, it reveals that light and temperature interact to regulate both AsA biosynthesis gene expression in tomato fruits and AsA oxidation and recycling.

  6. Infection of rhesus macaques with a pool of simian immunodeficiency virus with the envelope genes from acute HIV-1 infections.

    Science.gov (United States)

    Krebs, Kendall C; Tian, Meijuan; Asmal, Mohammed; Ling, Binhua; Nelson, Kenneth; Henry, Kenneth; Gibson, Richard; Li, Yuejin; Han, Weining; Shattock, Robin J; Veazey, Ronald S; Letvin, Norman; Arts, Eric J; Gao, Yong

    2016-11-25

    New simian-human immunodeficiency chimeric viruses with an HIV-1 env (SHIVenv) are critical for studies on HIV pathogenesis, vaccine development, and microbicide testing. Macaques are typically exposed to single CCR5-using SHIVenv which in most instances does not reflect the conditions during acute/early HIV infection (AHI) in humans. Instead of individual and serial testing new SHIV constructs, a pool of SHIVenv_B derived from 16 acute HIV-1 infections were constructed using a novel yeast-based SHIV cloning approach and then used to infect macaques. Even though none of the 16 SHIVenvs contained the recently reported mutations in env genes that could significantly enhance their binding affinity to RhCD4, one SHIVenv (i.e. SHIVenv_B3-PRB926) established infection in macaques exposed to this pool. AHI SHIVenv_B viruses as well as their HIVenv_B counterparts were analyzed for viral protein content, function, and fitness to identify possible difference between SHIVenv_B3-PRB926 and the other 15 SHIVenvs in the pool. All of the constructs produced SHIV or HIV chimeric with wild type levels of capsid (p27 and p24) content, reverse transcriptase (RT) activity, and expressed envelope glycoproteins that could bind to cell receptors CD4/CCR5 and mediate virus entry. HIV-1env_B chimeric viruses were propagated in susceptible cell lines but the 16 SHIVenv_B variants showed only limited replication in macaque peripheral blood mononuclear cells (PBMCs) and 174×CEM.CCR5 cell line. AHI chimeric viruses including HIVenv_B3 showed only minor variations in cell entry efficiency and kinetics as well as replicative fitness in human PBMCs. Reduced number of N-link glycosylation sites and slightly greater CCR5 affinity/avidity was the only distinguishing feature of env_B3 versus other AHI env's in the pool, a feature also observed in the HIV establishing new infections in humans. Despite the inability to propagate in primary cells and cell lines, a pool of 16 SHIVenv viruses could

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

    Science.gov (United States)

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

    2010-07-01

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

  8. Gene expression profiling to predict the risk of locoregional recurrence in breast cancer: a pooled analysis.

    Science.gov (United States)

    Drukker, C A; Elias, S G; Nijenhuis, M V; Wesseling, J; Bartelink, H; Elkhuizen, P; Fowble, B; Whitworth, P W; Patel, R R; de Snoo, F A; van 't Veer, L J; Beitsch, P D; Rutgers, E J Th

    2014-12-01

    The 70-gene signature (MammaPrint) has been developed to predict the risk of distant metastases in breast cancer and select those patients who may benefit from adjuvant treatment. Given the strong association between locoregional and distant recurrence, we hypothesize that the 70-gene signature will also be able to predict the risk of locoregional recurrence (LRR). 1,053 breast cancer patients primarily treated with breast-conserving treatment or mastectomy at the Netherlands Cancer Institute between 1984 and 2006 were included. Adjuvant treatment consisted of radiotherapy, chemotherapy, and/or endocrine therapy as indicated by guidelines used at the time. All patients were included in various 70-gene signature validation studies. After a median follow-up of 8.96 years with 87 LRRs, patients with a high-risk 70-gene signature (n = 492) had an LRR risk of 12.6% (95% CI 9.7-15.8) at 10 years, compared to 6.1% (95% CI 4.1-8.5) for low-risk patients (n = 561; P risk model for the clinicopathological factors such as age, tumour size, grade, hormone receptor status, LVI, axillary lymph node involvement, surgical treatment, endocrine treatment, and chemotherapy resulted in a multivariable HR of 1.73 (95% CI 1.02-2.93; P = 0.042). Adding the signature to the model based on clinicopathological factors improved the discrimination, albeit non-significantly [C-index through 10 years changed from 0.731 (95% CI 0.682-0.782) to 0.741 (95% CI 0.693-0.790)]. Calibration of the prognostic models was excellent. The 70-gene signature is an independent prognostic factor for LRR. A significantly lower local recurrence risk was seen in patients with a low-risk 70-gene signature compared to those with high-risk 70-gene signature.

  9. Demographic history of Canary Islands male gene-pool: replacement of native lineages by European

    Directory of Open Access Journals (Sweden)

    Amorim António

    2009-08-01

    Full Text Available Abstract Background The origin and prevalence of the prehispanic settlers of the Canary Islands has attracted great multidisciplinary interest. However, direct ancient DNA genetic studies on indigenous and historical 17th–18th century remains, using mitochondrial DNA as a female marker, have only recently been possible. In the present work, the analysis of Y-chromosome polymorphisms in the same samples, has shed light on the way the European colonization affected male and female Canary Island indigenous genetic pools, from the conquest to present-day times. Results Autochthonous (E-M81 and prominent (E-M78 and J-M267 Berber Y-chromosome lineages were detected in the indigenous remains, confirming a North West African origin for their ancestors which confirms previous mitochondrial DNA results. However, in contrast with their female lineages, which have survived in the present-day population since the conquest with only a moderate decline, the male indigenous lineages have dropped constantly being substituted by European lineages. Male and female sub-Saharan African genetic inputs were also detected in the Canary population, but their frequencies were higher during the 17th–18th centuries than today. Conclusion The European colonization of the Canary Islands introduced a strong sex-biased change in the indigenous population in such a way that indigenous female lineages survived in the extant population in a significantly higher proportion than their male counterparts.

  10. Effect of UTP and GTP pools on attenuation at the pyrE gene of Escherichia coli

    DEFF Research Database (Denmark)

    Poulsen, Peter; Jensen, Kaj Frank

    1987-01-01

    exponential growth. It was found that the greater part of pyrE gene regulation by the nucleotides takes place at the intercistronic attenuator and that promoter control contributes only little, ca. twofold. When pools of both UTP and GTP were high only 5%–6% of the mRNA chains were continued into the pyr......We have used the galK gene, minus its promoter, to quantitate transcription of the orfE-pyrE operon of Escherichia coli in front of and after the intercistronic attenuator. Expression of the hybrid genes was studied in a bacterium with mutations that permit changes in the UTP and GTP pools during...... that an RNA polymerase mutant with reduced RNA chain growth rate transcribed past the pyrE attenuator at a high frequency in the presence of a high UTP pool, but only when coupling of translation to transcription was allowed at the end of orfE....

  11. Rb1 gene inactivation expands satellite cell and postnatal myoblast pools.

    Science.gov (United States)

    Hosoyama, Tohru; Nishijo, Koichi; Prajapati, Suresh I; Li, Guangheng; Keller, Charles

    2011-06-03

    Satellite cells are well known as a postnatal skeletal muscle stem cell reservoir that under injury conditions participate in repair. However, mechanisms controlling satellite cell quiescence and activation are the topic of ongoing inquiry by many laboratories. In this study, we investigated whether loss of the cell cycle regulatory factor, pRb, is associated with the re-entry of quiescent satellite cells into replication and subsequent stem cell expansion. By ablation of Rb1 using a Pax7CreER,Rb1 conditional mouse line, satellite cell number was increased 5-fold over 6 months. Furthermore, myoblasts originating from satellite cells lacking Rb1 were also increased 3-fold over 6 months, while terminal differentiation was greatly diminished. Similarly, Pax7CreER,Rb1 mice exhibited muscle fiber hypotrophy in vivo under steady state conditions as well as a delay of muscle regeneration following cardiotoxin-mediated injury. These results suggest that cell cycle re-entry of quiescent satellite cells is accelerated by lack of Rb1, resulting in the expansion of both satellite cells and their progeny in adolescent muscle. Conversely, that sustained Rb1 loss in the satellite cell lineage causes a deficit of muscle fiber formation. However, we also show that pharmacological inhibition of protein phosphatase 1 activity, which will result in pRb inactivation accelerates satellite cell activation and/or expansion in a transient manner. Together, our results raise the possibility that reversible pRb inactivation in satellite cells and inhibition of protein phosphorylation may provide a new therapeutic tool for muscle atrophy by short term expansion of the muscle stem cells and myoblast pool.

  12. Light intensity regulation of cab gene transcription is signaled by the redox state of the plastoquinone pool

    Energy Technology Data Exchange (ETDEWEB)

    Escoubas, J.M.; Lomas, M.; LaRoche, J. [Brookhaven National Lab., Upton, NY (United States)] [and others

    1995-10-24

    The eukaryotic green alga Dunaliella tertiolecta acclimates to decreased growth irradiance by increasing cellular levels of light-harvesting chlorophyll protein complex apoproteins associated with photosystem II (LHCIIs), whereas increased growth irradiance elicits the opposite response. Nuclear run-on transcription assays and measurements of cab mRNA stability established that light intensity-dependent changes in LHCII are controlled at the level of transcription. cab gene transcription in high-intensity light was partially enhanced by reducing plastoquinone with 3-(3,4-dichlorophenyl)-1,1-dimethyl urea (DCMU), whereas it was repressed in low-intensity light by partially inhibiting the oxidation of plastoquinol with 2,5-dibromo-3-methyl-6-isopropyl-p-benzoquinone (DBMIB). Uncouplers of photosynthetic electron transport and inhibition of water splitting had no effect on LHCII levels. These results strongly implicate the redox state of the plastoquinone pool in the chloroplast as a photon-sensing system that is coupled to the light-intensity regulation of nuclear-encoded cab gene transcription. The accumulation of cellular chlorophyll at low-intensity light can be blocked by cytoplasmically directed phosphatase inhibitors, such as okadaic acid, microcystin L-R, and tautomycin. Gel mobility-shift assays revealed that cells grown in high-intensity light contained proteins that bind to the promoter region of a cab gene carrying sequences homologous to higher plant light-responsive elements. On the basis of these experimental results, we propose a model for a light intensity signaling system where cab gene expression is reversibly repressed by a phosphorylated factor coupled to the redox status of plastoquinone through a chloroplast protein kinase. 54 refs., 5 figs.

  13. Broad-sense sexual selection, sex gene pool evolution, and speciation.

    Science.gov (United States)

    Civetta, A; Singh, R S

    1999-12-01

    Studies of sexual selection have traditionally focused on explaining the extreme sexual dimorphism in male secondary sexual traits and elaborate mating behaviors displayed by males during courtship. In recent years, two aspects of sexual selection have received considerable attention in the literature: an extension of the sexual selection concept to other traits (i.e., postcopulatory behaviors, external and internal genital morphology, gametes, molecules), and alternative mechanistic explanations of the sexual selection process (i.e., coevolutionary runaway, good-genes, sexual conflicts). This article focuses on the need for an extension of sexual selection as a mechanism of change for courtship and (or) mating male characters (i.e., narrow-sense sexual selection) to all components of sexuality not necessarily related to courtship or mating (i.e., broad-sense sexual selection). We bring together evidence from a wide variety of organisms to show that sex-related genes evolve at a fast rate, and discuss the potential role of broad-sense sexual selection as an alternative to models that limit speciation to strict demographic conditions or treat it simply as an epiphenomenon of adaptive evolution.

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

    Science.gov (United States)

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

    2013-01-01

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

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

    Directory of Open Access Journals (Sweden)

    Tania Gioia

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

  16. Prevalence of diabetes in Mexican Americans. Relationship to percent of gene pool derived from native American sources.

    Science.gov (United States)

    Gardner, L I; Stern, M P; Haffner, S M; Gaskill, S P; Hazuda, H P; Relethford, J H; Eifler, C W

    1984-01-01

    We have estimated the prevalence of non-insulin-dependent diabetes mellitus (NIDDM) in Mexican Americans and Anglos in three San Antonio neighborhoods. The age-adjusted NIDDM rates (both sexes pooled) for Mexican Americans were 14.5%, 10%, and 5% for residents of a low-income barrio, a middle-income transitional neighborhood, and a high-income suburb, respectively. In Mexican American women, though not in men, obesity also declined from barrio to suburbs. We have previously shown, however, that, although obesity is an important cause of NIDDM in Mexican Americans, there is a two- to fourfold excess in the rate of NIDDM in this ethnic group over and above that which can be attributed to obesity. We therefore speculated that genetic factors might also contribute to excess NIDDM in this ethnic group. The percent native American admixture of Mexican Americans as estimated from skin color measurements was 46% in the barrio, 27% in the transitional neighborhood, and 18% in the suburbs. The NIDDM rates in Mexican Americans thus paralleled the proportion of native American genes. Furthermore, the San Antonio Mexican American rates were intermediate between the NIDDM rates of "full-blooded" Pima Indians (49.9%), who presumably have close to 100% native American genes, and the San Antonio Anglo population (3.0%) and the predominantly Anglo HANES II population (3.1%), both of which presumably have few if any native American genes. The association of genetic admixture with NIDDM rates suggests that much of the epidemic of NIDDM in Mexican Americans is confined to that part of the population with a substantial native American heritage.

  17. Swimming in the deep end of the gene pool: global population structure of an oceanic giant.

    Science.gov (United States)

    Bradshaw, Corey J A

    2007-12-01

    Despite the impression held by some that few biological mysteries remain, even evocative species such as humpback whales (Megaptera novaeangliae), white sharks (Carcharodon carcharias) and green turtles (Chelonia mydas) have poorly documented movement patterns, reproductive strategies and population dynamics despite years of dedicated research. This is largely due to the difficulty of observing wide-ranging marine species over the majority of their life cycle. The advent of powerful tracking devices has certainly improved our understanding, but it is usually only with molecular tools that the nature of population structure becomes apparent. In this issue of Molecular Ecology, Castro and colleagues have provided the first global-scale assessment of population structure for the largest fish--whale sharks (Rhincodon typus). Whale sharks can reach lengths > 12 m and are a popular tourist attraction at places where they aggregate, yet for most of their life cycle, we know little indeed of where they go and how they interact with other populations. Previous tracking studies imply a high dispersal capacity, but only now have Castro and colleagues demonstrated high gene flow and haplotype diversity among the major ocean basins where they are found.

  18. Ethiopian genetic diversity reveals linguistic stratification and complex influences on the Ethiopian gene pool.

    Science.gov (United States)

    Pagani, Luca; Kivisild, Toomas; Tarekegn, Ayele; Ekong, Rosemary; Plaster, Chris; Gallego Romero, Irene; Ayub, Qasim; Mehdi, S Qasim; Thomas, Mark G; Luiselli, Donata; Bekele, Endashaw; Bradman, Neil; Balding, David J; Tyler-Smith, Chris

    2012-07-13

    Humans and their ancestors have traversed the Ethiopian landscape for millions of years, and present-day Ethiopians show great cultural, linguistic, and historical diversity, which makes them essential for understanding African variability and human origins. We genotyped 235 individuals from ten Ethiopian and two neighboring (South Sudanese and Somali) populations on an Illumina Omni 1M chip. Genotypes were compared with published data from several African and non-African populations. Principal-component and STRUCTURE-like analyses confirmed substantial genetic diversity both within and between populations, and revealed a match between genetic data and linguistic affiliation. Using comparisons with African and non-African reference samples in 40-SNP genomic windows, we identified "African" and "non-African" haplotypic components for each Ethiopian individual. The non-African component, which includes the SLC24A5 allele associated with light skin pigmentation in Europeans, may represent gene flow into Africa, which we estimate to have occurred ~3 thousand years ago (kya). The non-African component was found to be more similar to populations inhabiting the Levant rather than the Arabian Peninsula, but the principal route for the expansion out of Africa ~60 kya remains unresolved. Linkage-disequilibrium decay with genomic distance was less rapid in both the whole genome and the African component than in southern African samples, suggesting a less ancient history for Ethiopian populations.

  19. Evaluation of pooled ocular and vaginal swabs by the Cepheid GeneXpert CT/NG assay for the detection of Chlamydia trachomatis and Neisseria gonorrhoeae compared to the GenProbe Aptima Combo 2 Assay

    Science.gov (United States)

    Dize, L.; West, S.K.; Mkocha, H.; Quinn, T.C.; Gaydos, C.A.

    2015-01-01

    Ocular swabs from Tanzania were tested for Chlamydia trachomatis (CT), and self-collected vaginal swabs collected through a home collection program, iwantthekit.org, were tested for Neisseria gonorrhoeae and CT to evaluate Cepheid GeneXpert for the use of pooling multiple specimens before testing. GeneXpert shows to be a promising test for pooling. PMID:25497459

  20. Comparison of individual and pooled samples for quantification of antimicrobial resistance genes in swine feces by high-throughput qPCR

    DEFF Research Database (Denmark)

    Clasen, Julie; Mellerup, Anders; Olsen, John Elmerdahl

    2015-01-01

    There is a considerable societal interest in the careful monitoring of antimicrobial resistance (AMR) levels in human and animal populations. Sampling and data analysis can be both costly and time consuming. Optimization of sample pooling procedures is therefore important to reduce costs and anal......There is a considerable societal interest in the careful monitoring of antimicrobial resistance (AMR) levels in human and animal populations. Sampling and data analysis can be both costly and time consuming. Optimization of sample pooling procedures is therefore important to reduce costs...... samples were taken from each pen with respect to the number of pigs in the pen. A total of 48 pools were made of increasing number of individual samples. The levels of 9 different AMR-genes were quantified using dynamic qPCR arrays on the BioMark HD system(Fluidigm®).DNA was extracted using the Maxwell...

  1. Analysis of variance, normal quantile-quantile correlation and effective expression support of pooled expression ratio of reference genes for defining expression stability.

    Science.gov (United States)

    Priyadarshi, Himanshu; Das, Rekha; Kumar, Shivendra; Kishore, Pankaj; Kumar, Sujit

    2017-01-01

    Identification of a reference gene unaffected by the experimental conditions is obligatory for accurate measurement of gene expression through relative quantification. Most existing methods directly analyze variability in crossing point (Cp) values of reference genes and fail to account for template-independent factors that affect Cp values in their estimates. We describe the use of three simple statistical methods namely analysis of variance (ANOVA), normal quantile-quantile correlation (NQQC) and effective expression support (EES), on pooled expression ratios of reference genes in a panel to overcome this issue. The pooling of expression ratios across the genes in the panel nullify the sample specific effects uniformly affecting all genes that are falsely reflected as instability. Our methods also offer the flexibility to include sample specific PCR efficiencies in estimations, when available, for improved accuracy. Additionally, we describe a correction factor from the ANOVA method to correct the relative fold change of a target gene if no truly stable reference gene could be found in the analyzed panel. The analysis is described on a synthetic data set to simplify the explanation of the statistical treatment of data.

  2. Analysis of variance, normal quantile-quantile correlation and effective expression support of pooled expression ratio of reference genes for defining expression stability

    Directory of Open Access Journals (Sweden)

    Himanshu Priyadarshi

    2017-01-01

    Full Text Available Identification of a reference gene unaffected by the experimental conditions is obligatory for accurate measurement of gene expression through relative quantification. Most existing methods directly analyze variability in crossing point (Cp values of reference genes and fail to account for template-independent factors that affect Cp values in their estimates. We describe the use of three simple statistical methods namely analysis of variance (ANOVA, normal quantile-quantile correlation (NQQC and effective expression support (EES, on pooled expression ratios of reference genes in a panel to overcome this issue. The pooling of expression ratios across the genes in the panel nullify the sample specific effects uniformly affecting all genes that are falsely reflected as instability. Our methods also offer the flexibility to include sample specific PCR efficiencies in estimations, when available, for improved accuracy. Additionally, we describe a correction factor from the ANOVA method to correct the relative fold change of a target gene if no truly stable reference gene could be found in the analyzed panel. The analysis is described on a synthetic data set to simplify the explanation of the statistical treatment of data.

  3. Identification of novel causative genes determining the complex trait of high ethanol tolerance in yeast using pooled-segregant whole-genome sequence analysis

    Science.gov (United States)

    Swinnen, Steve; Schaerlaekens, Kristien; Pais, Thiago; Claesen, Jürgen; Hubmann, Georg; Yang, Yudi; Demeke, Mekonnen; Foulquié-Moreno, María R.; Goovaerts, Annelies; Souvereyns, Kris; Clement, Lieven; Dumortier, Françoise; Thevelein, Johan M.

    2012-01-01

    High ethanol tolerance is an exquisite characteristic of the yeast Saccharomyces cerevisiae, which enables this microorganism to dominate in natural and industrial fermentations. Up to now, ethanol tolerance has only been analyzed in laboratory yeast strains with moderate ethanol tolerance. The genetic basis of the much higher ethanol tolerance in natural and industrial yeast strains is unknown. We have applied pooled-segregant whole-genome sequence analysis to map all quantitative trait loci (QTL) determining high ethanol tolerance. We crossed a highly ethanol-tolerant segregant of a Brazilian bioethanol production strain with a laboratory strain with moderate ethanol tolerance. Out of 5974 segregants, we pooled 136 segregants tolerant to at least 16% ethanol and 31 segregants tolerant to at least 17%. Scoring of SNPs using whole-genome sequence analysis of DNA from the two pools and parents revealed three major loci and additional minor loci. The latter were more pronounced or only present in the 17% pool compared to the 16% pool. In the locus with the strongest linkage, we identified three closely located genes affecting ethanol tolerance: MKT1, SWS2, and APJ1, with SWS2 being a negative allele located in between two positive alleles. SWS2 and APJ1 probably contained significant polymorphisms only outside the ORF, and lower expression of APJ1 may be linked to higher ethanol tolerance. This work has identified the first causative genes involved in high ethanol tolerance of yeast. It also reveals the strong potential of pooled-segregant sequence analysis using relatively small numbers of selected segregants for identifying QTL on a genome-wide scale. PMID:22399573

  4. Pooled sequencing of 531 genes in inflammatory bowel disease identifies an associated rare variant in BTNL2 and implicates other immune related genes.

    Science.gov (United States)

    Prescott, Natalie J; Lehne, Benjamin; Stone, Kristina; Lee, James C; Taylor, Kirstin; Knight, Jo; Papouli, Efterpi; Mirza, Muddassar M; Simpson, Michael A; Spain, Sarah L; Lu, Grace; Fraternali, Franca; Bumpstead, Suzannah J; Gray, Emma; Amar, Ariella; Bye, Hannah; Green, Peter; Chung-Faye, Guy; Hayee, Bu'Hussain; Pollok, Richard; Satsangi, Jack; Parkes, Miles; Barrett, Jeffrey C; Mansfield, John C; Sanderson, Jeremy; Lewis, Cathryn M; Weale, Michael E; Schlitt, Thomas; Mathew, Christopher G

    2015-02-01

    The contribution of rare coding sequence variants to genetic susceptibility in complex disorders is an important but unresolved question. Most studies thus far have investigated a limited number of genes from regions which contain common disease associated variants. Here we investigate this in inflammatory bowel disease by sequencing the exons and proximal promoters of 531 genes selected from both genome-wide association studies and pathway analysis in pooled DNA panels from 474 cases of Crohn's disease and 480 controls. 80 variants with evidence of association in the sequencing experiment or with potential functional significance were selected for follow up genotyping in 6,507 IBD cases and 3,064 population controls. The top 5 disease associated variants were genotyped in an extension panel of 3,662 IBD cases and 3,639 controls, and tested for association in a combined analysis of 10,147 IBD cases and 7,008 controls. A rare coding variant p.G454C in the BTNL2 gene within the major histocompatibility complex was significantly associated with increased risk for IBD (p = 9.65x10-10, OR = 2.3[95% CI = 1.75-3.04]), but was independent of the known common associated CD and UC variants at this locus. Rare (genes showed suggestive association (pT) or decreased risk (IL12B p.V298F, and NICN p.H191R) of IBD. These results provide additional insights into the involvement of the inhibition of T cell activation in the development of both sub-phenotypes of inflammatory bowel disease. We suggest that although rare coding variants may make a modest overall contribution to complex disease susceptibility, they can inform our understanding of the molecular pathways that contribute to pathogenesis.

  5. Pooled Sequencing of Candidate Genes Implicates Rare Variants in the Development of Asthma Following Severe RSV Bronchiolitis in Infancy

    Science.gov (United States)

    Torgerson, Dara G.; Giri, Tusar; Druley, Todd E.; Zheng, Jie; Huntsman, Scott; Seibold, Max A.; Young, Andrew L.; Schweiger, Toni; Yin-Declue, Huiqing; Sajol, Geneline D.; Schechtman, Kenneth B; Hernandez, Ryan D.; Randolph, Adrienne G.; Bacharier, Leonard B.; Castro, Mario

    2015-01-01

    Severe infection with respiratory syncytial virus (RSV) during infancy is strongly associated with the development of asthma. To identify genetic variation that contributes to asthma following severe RSV bronchiolitis during infancy, we sequenced the coding exons of 131 asthma candidate genes in 182 European and African American children with severe RSV bronchiolitis in infancy using anonymous pools for variant discovery, and then directly genotyped a set of 190 nonsynonymous variants. Association testing was performed for physician-diagnosed asthma before the 7th birthday (asthma) using genotypes from 6,500 individuals from the Exome Sequencing Project (ESP) as controls to gain statistical power. In addition, among patients with severe RSV bronchiolitis during infancy, we examined genetic associations with asthma, active asthma, persistent wheeze, and bronchial hyperreactivity (methacholine PC20) at age 6 years. We identified four rare nonsynonymous variants that were significantly associated with asthma following severe RSV bronchiolitis, including single variants in ADRB2, FLG and NCAM1 in European Americans (p = 4.6x10-4, 1.9x10-13 and 5.0x10-5, respectively), and NOS1 in African Americans (p = 2.3x10-11). One of the variants was a highly functional nonsynonymous variant in ADRB2 (rs1800888), which was also nominally associated with asthma (p = 0.027) and active asthma (p = 0.013) among European Americans with severe RSV bronchiolitis without including the ESP. Our results suggest that rare nonsynonymous variants contribute to the development of asthma following severe RSV bronchiolitis in infancy, notably in ADRB2. Additional studies are required to explore the role of rare variants in the etiology of asthma and asthma-related traits following severe RSV bronchiolitis. PMID:26587832

  6. Pooled Sequencing of Candidate Genes Implicates Rare Variants in the Development of Asthma Following Severe RSV Bronchiolitis in Infancy.

    Directory of Open Access Journals (Sweden)

    Dara G Torgerson

    Full Text Available Severe infection with respiratory syncytial virus (RSV during infancy is strongly associated with the development of asthma. To identify genetic variation that contributes to asthma following severe RSV bronchiolitis during infancy, we sequenced the coding exons of 131 asthma candidate genes in 182 European and African American children with severe RSV bronchiolitis in infancy using anonymous pools for variant discovery, and then directly genotyped a set of 190 nonsynonymous variants. Association testing was performed for physician-diagnosed asthma before the 7th birthday (asthma using genotypes from 6,500 individuals from the Exome Sequencing Project (ESP as controls to gain statistical power. In addition, among patients with severe RSV bronchiolitis during infancy, we examined genetic associations with asthma, active asthma, persistent wheeze, and bronchial hyperreactivity (methacholine PC20 at age 6 years. We identified four rare nonsynonymous variants that were significantly associated with asthma following severe RSV bronchiolitis, including single variants in ADRB2, FLG and NCAM1 in European Americans (p = 4.6x10-4, 1.9x10-13 and 5.0x10-5, respectively, and NOS1 in African Americans (p = 2.3x10-11. One of the variants was a highly functional nonsynonymous variant in ADRB2 (rs1800888, which was also nominally associated with asthma (p = 0.027 and active asthma (p = 0.013 among European Americans with severe RSV bronchiolitis without including the ESP. Our results suggest that rare nonsynonymous variants contribute to the development of asthma following severe RSV bronchiolitis in infancy, notably in ADRB2. Additional studies are required to explore the role of rare variants in the etiology of asthma and asthma-related traits following severe RSV bronchiolitis.

  7. Domestication of the neotropical tree Chrysophyllum cainito from a geographically limited yet genetically diverse gene pool in Panama.

    Science.gov (United States)

    Petersen, Jennifer J; Parker, Ingrid M; Potter, Daniel

    2014-03-01

    Species in the early stages of domestication, in which wild and cultivated forms co-occur, provide important opportunities to develop and test hypotheses about the origins of crop species. Chrysophyllum cainito (Sapotaceae), the star apple or caimito, is a semidomesticated tree widely cultivated for its edible fruits; it is known to be native to the neotropics, but its precise geographic origins have not been firmly established. Here, we report results of microsatellite marker analyses supporting the hypothesis that the center of domestication for caimito was the Isthmus of Panama, a region in which few crop species are believed to have originated, despite its importance as a crossroads for the dispersal of domesticated plants between North and South America. Our data suggest that caimito was domesticated in a geographically restricted area while incorporating a diverse gene pool. These results refute the generally accepted Antillean origin of caimito, as well as alternative hypotheses that the species was domesticated independently in the two areas or over a broad geographic range including both. Human-mediated dispersal from Panama to the north and east was accompanied by strong reductions in both genotypic and phenotypic diversity. Within Panama, cultivated and wild trees show little neutral genetic divergence, in contrast to striking phenotypic differentiation in fruit and seed traits. In addition to providing a rare example of data that support the hypothesis of a narrow geographic origin on the Isthmus of Panama for a now widespread cultivated plant species, this study is one of the first investigations of the origins of an edible species of the large pantropical family Sapotaceae.

  8. Pilus gene pool variation and the virulence of Corynebacterium diphtheriae clinical isolates during infection of a nematode.

    Science.gov (United States)

    Broadway, Melissa M; Rogers, Elizabeth A; Chang, Chungyu; Huang, I-Hsiu; Dwivedi, Prabhat; Yildirim, Suleyman; Schmitt, Michael P; Das, Asis; Ton-That, Hung

    2013-08-01

    Toxigenic Corynebacterium diphtheriae strains cause diphtheria in humans. The toxigenic C. diphtheriae isolate NCTC13129 produces three distinct heterotrimeric pili that contain SpaA, SpaD, and SpaH, making up the shaft structure. The SpaA pili are known to mediate bacterial adherence to pharyngeal epithelial cells. However, to date little is known about the expression of different pili in various clinical isolates and their importance in bacterial pathogenesis. Here, we characterized a large collection of C. diphtheriae clinical isolates for their pilin gene pool by PCR and for the expression of the respective pilins by immunoblotting with antibodies against Spa pilins. Consistent with the role of a virulence factor, the SpaA-type pili were found to be prevalent among the isolates, and most significantly, corynebacterial adherence to pharyngeal epithelial cells was strictly correlated with isolates that were positive for the SpaA pili. By comparison, the isolates were heterogeneous for the presence of SpaD- and SpaH-type pili. Importantly, using Caenorhabditis elegans as a model host for infection, we show here that strain NCTC13129 rapidly killed the nematodes, the phenotype similar to isolates that were positive for toxin and all pilus types. In contrast, isogenic mutants of NCTC13129 lacking SpaA-type pili or devoid of toxin and SpaA pili exhibited delayed killing of nematodes with similar kinetics. Consistently, nontoxigenic or toxigenic isolates that lack one, two, or all three pilus types were also attenuated in virulence. This work signifies the important role of pili in corynebacterial pathogenesis and provides a simple host model to identify additional virulence factors.

  9. Vernal Pools

    Data.gov (United States)

    California Department of Resources — This is a polygon layer representing existing vernal pool complexes in California's Central Valley, as identified and mapped by Dr. Robert F. Holland. The purpose of...

  10. Identification of a common variant affecting human episodic memory performance using a pooled genome-wide association approach: a case study of disease gene identification.

    Science.gov (United States)

    Pawlowski, Traci L; Huentelman, Matthew J

    2011-01-01

    Genome-wide association studies (GWAS) are an important tool for discovering novel genes associated with disease or traits. Careful design of case-control groups greatly facilitates the efficacy of these studies. Here we describe a pooled GWAS study undertaken to find novel genes associated with human episodic memory performance. A genomic locus for the WW and C2 domain-containing 1 protein, KIBRA (also known as WWC1), was found to be associated with memory performance in three cognitively normal cohorts from Switzerland and the USA. This result was further supported by correlation of KIBRA genotype and differences in hippocampal activation as measured by functional magnetic resonance imaging (fMRI). These findings provide an excellent example of the application of GWAS using a pooled genomic DNA approach to successfully identify a locus with strong effects on human memory.

  11. Pooled sequencing of 531 genes in inflammatory bowel disease identifies an associated rare variant in BTNL2 and implicates other immune related genes.

    Directory of Open Access Journals (Sweden)

    Natalie J Prescott

    2015-02-01

    Full Text Available The contribution of rare coding sequence variants to genetic susceptibility in complex disorders is an important but unresolved question. Most studies thus far have investigated a limited number of genes from regions which contain common disease associated variants. Here we investigate this in inflammatory bowel disease by sequencing the exons and proximal promoters of 531 genes selected from both genome-wide association studies and pathway analysis in pooled DNA panels from 474 cases of Crohn's disease and 480 controls. 80 variants with evidence of association in the sequencing experiment or with potential functional significance were selected for follow up genotyping in 6,507 IBD cases and 3,064 population controls. The top 5 disease associated variants were genotyped in an extension panel of 3,662 IBD cases and 3,639 controls, and tested for association in a combined analysis of 10,147 IBD cases and 7,008 controls. A rare coding variant p.G454C in the BTNL2 gene within the major histocompatibility complex was significantly associated with increased risk for IBD (p = 9.65x10-10, OR = 2.3[95% CI = 1.75-3.04], but was independent of the known common associated CD and UC variants at this locus. Rare (T or decreased risk (IL12B p.V298F, and NICN p.H191R of IBD. These results provide additional insights into the involvement of the inhibition of T cell activation in the development of both sub-phenotypes of inflammatory bowel disease. We suggest that although rare coding variants may make a modest overall contribution to complex disease susceptibility, they can inform our understanding of the molecular pathways that contribute to pathogenesis.

  12. PDA: Pooled DNA analyzer

    Directory of Open Access Journals (Sweden)

    Lin Chin-Yu

    2006-04-01

    Full Text Available Abstract Background Association mapping using abundant single nucleotide polymorphisms is a powerful tool for identifying disease susceptibility genes for complex traits and exploring possible genetic diversity. Genotyping large numbers of SNPs individually is performed routinely but is cost prohibitive for large-scale genetic studies. DNA pooling is a reliable and cost-saving alternative genotyping method. However, no software has been developed for complete pooled-DNA analyses, including data standardization, allele frequency estimation, and single/multipoint DNA pooling association tests. This motivated the development of the software, 'PDA' (Pooled DNA Analyzer, to analyze pooled DNA data. Results We develop the software, PDA, for the analysis of pooled-DNA data. PDA is originally implemented with the MATLAB® language, but it can also be executed on a Windows system without installing the MATLAB®. PDA provides estimates of the coefficient of preferential amplification and allele frequency. PDA considers an extended single-point association test, which can compare allele frequencies between two DNA pools constructed under different experimental conditions. Moreover, PDA also provides novel chromosome-wide multipoint association tests based on p-value combinations and a sliding-window concept. This new multipoint testing procedure overcomes a computational bottleneck of conventional haplotype-oriented multipoint methods in DNA pooling analyses and can handle data sets having a large pool size and/or large numbers of polymorphic markers. All of the PDA functions are illustrated in the four bona fide examples. Conclusion PDA is simple to operate and does not require that users have a strong statistical background. The software is available at http://www.ibms.sinica.edu.tw/%7Ecsjfann/first%20flow/pda.htm.

  13. Molecular analysis of a large subtelomeric nucleotide-binding-site-leucine-rich-repeat family in two representative genotypes of the major gene pools of Phaseolus vulgaris.

    Science.gov (United States)

    Geffroy, Valérie; Macadré, Catherine; David, Perrine; Pedrosa-Harand, Andrea; Sévignac, Mireille; Dauga, Catherine; Langin, Thierry

    2009-02-01

    In common bean, the B4 disease resistance gene cluster is a complex cluster localized at the end of linkage group (LG) B4, containing at least three R specificities to the fungus Colletotrichum lindemuthianum. To investigate the evolution of this R cluster since the divergence of Andean and Mesoamerican gene pools, DNA sequences were characterized from two representative genotypes of the two major gene pools of common bean (BAT93: Mesoamerican; JaloEEP558: Andean). Sequences encoding 29 B4-CC nucleotide-binding-site-leucine-rich-repeat (B4-CNL) genes were determined-12 from JaloEEP558 and 17 from BAT93. Although sequence exchange events were identified, phylogenetic analyses revealed that they were not frequent enough to lead to homogenization of B4-CNL sequences within a haplotype. Genetic mapping based on pulsed-field gel electrophoresis separation confirmed that the B4-CNL family is a large family specific to one end of LG B4 and is present at two distinct blocks separated by 26 cM. Fluorescent in situ hybridization on meiotic pachytene chromosomes revealed that two B4-CNL blocks are located in the subtelomeric region of the short arm of chromosome 4 on both sides of a heterochromatic block (knob), suggesting that this peculiar genomic environment may favor the proliferation of a large R gene cluster.

  14. Molecular Analysis of a Large Subtelomeric Nucleotide-Binding-Site–Leucine-Rich-Repeat Family in Two Representative Genotypes of the Major Gene Pools of Phaseolus vulgaris

    Science.gov (United States)

    Geffroy, Valérie; Macadré, Catherine; David, Perrine; Pedrosa-Harand, Andrea; Sévignac, Mireille; Dauga, Catherine; Langin, Thierry

    2009-01-01

    In common bean, the B4 disease resistance (R) gene cluster is a complex cluster localized at the end of linkage group (LG) B4, containing at least three R specificities to the fungus Colletotrichum lindemuthianum. To investigate the evolution of this R cluster since the divergence of Andean and Mesoamerican gene pools, DNA sequences were characterized from two representative genotypes of the two major gene pools of common bean (BAT93: Mesoamerican; JaloEEP558: Andean). Sequences encoding 29 B4-CC nucleotide-binding-site–leucine-rich-repeat (B4-CNL) genes were determined—12 from JaloEEP558 and 17 from BAT93. Although sequence exchange events were identified, phylogenetic analyses revealed that they were not frequent enough to lead to homogenization of B4-CNL sequences within a haplotype. Genetic mapping based on pulsed-field gel electrophoresis separation confirmed that the B4-CNL family is a large family specific to one end of LG B4 and is present at two distinct blocks separated by 26 cM. Fluorescent in situ hybridization on meiotic pachytene chromosomes revealed that two B4-CNL blocks are located in the subtelomeric region of the short arm of chromosome 4 on both sides of a heterochromatic block (knob), suggesting that this peculiar genomic environment may favor the proliferation of a large R gene cluster. PMID:19087965

  15. Mining a database of single amplified genomes from Red Sea brine pool extremophiles – Improving reliability of gene function prediction using a profile and pattern matching algorithm (PPMA

    Directory of Open Access Journals (Sweden)

    Stefan Wolfgang Grötzinger

    2014-04-01

    Full Text Available Reliable functional annotation of genomic data is the key-step in the discovery of novel enzymes. Intrinsic sequencing data quality problems of single amplified genomes (SAGs and poor homology of novel extremophile’s genomes pose significant challenges for the attribution of functions to the coding sequences identified. The anoxic deep-sea brine pools of the Red Sea are a promising source of novel enzymes with unique evolutionary adaptation. Sequencing data from Red Sea brine pool cultures and SAGs are annotated and stored in the INDIGO data warehouse. Low sequence homology of annotated genes (no similarity for 35% of these genes may translate into false positives when searching for specific functions. The Profile & Pattern Matching (PPM strategy described here was developed to eliminate false positive annotations of enzyme function before progressing to labor-intensive hyper-saline gene expression and characterization. It utilizes InterPro-derived Gene Ontology (GO-terms (which represent enzyme function profiles and annotated relevant PROSITE IDs (which are linked to an amino acid consensus pattern. The PPM algorithm was tested on 15 protein families, which were selected based on scientific and commercial potential. An initial list of 2,577 E.C. numbers was translated into 171 GO-terms and 49 consensus patterns. A subset of INDIGO-sequences consisting of 58 SAGs from six different taxons of bacteria and archaea were selected from 6 different brine pool environments. Those SAGs code for 74,516 genes, which were independently scanned for the GO-terms (profile filter and PROSITE IDs (pattern filter. Following stringent reliability filtering, the non-redundant hits (106 profile hits and 147 pattern hits are classified as reliable, if at least two relevant descriptors (GO-terms and/or consensus patterns are present. Scripts for annotation, as well as for the PPM algorithm, are available through the INDIGO website.

  16. Mining a database of single amplified genomes from Red Sea brine pool extremophiles-improving reliability of gene function prediction using a profile and pattern matching algorithm (PPMA).

    KAUST Repository

    Grötzinger, Stefan W.

    2014-04-07

    Reliable functional annotation of genomic data is the key-step in the discovery of novel enzymes. Intrinsic sequencing data quality problems of single amplified genomes (SAGs) and poor homology of novel extremophile\\'s genomes pose significant challenges for the attribution of functions to the coding sequences identified. The anoxic deep-sea brine pools of the Red Sea are a promising source of novel enzymes with unique evolutionary adaptation. Sequencing data from Red Sea brine pool cultures and SAGs are annotated and stored in the Integrated Data Warehouse of Microbial Genomes (INDIGO) data warehouse. Low sequence homology of annotated genes (no similarity for 35% of these genes) may translate into false positives when searching for specific functions. The Profile and Pattern Matching (PPM) strategy described here was developed to eliminate false positive annotations of enzyme function before progressing to labor-intensive hyper-saline gene expression and characterization. It utilizes InterPro-derived Gene Ontology (GO)-terms (which represent enzyme function profiles) and annotated relevant PROSITE IDs (which are linked to an amino acid consensus pattern). The PPM algorithm was tested on 15 protein families, which were selected based on scientific and commercial potential. An initial list of 2577 enzyme commission (E.C.) numbers was translated into 171 GO-terms and 49 consensus patterns. A subset of INDIGO-sequences consisting of 58 SAGs from six different taxons of bacteria and archaea were selected from six different brine pool environments. Those SAGs code for 74,516 genes, which were independently scanned for the GO-terms (profile filter) and PROSITE IDs (pattern filter). Following stringent reliability filtering, the non-redundant hits (106 profile hits and 147 pattern hits) are classified as reliable, if at least two relevant descriptors (GO-terms and/or consensus patterns) are present. Scripts for annotation, as well as for the PPM algorithm, are available

  17. Mining a database of single amplified genomes from Red Sea brine pool extremophiles-improving reliability of gene function prediction using a profile and pattern matching algorithm (PPMA).

    Science.gov (United States)

    Grötzinger, Stefan W; Alam, Intikhab; Ba Alawi, Wail; Bajic, Vladimir B; Stingl, Ulrich; Eppinger, Jörg

    2014-01-01

    Reliable functional annotation of genomic data is the key-step in the discovery of novel enzymes. Intrinsic sequencing data quality problems of single amplified genomes (SAGs) and poor homology of novel extremophile's genomes pose significant challenges for the attribution of functions to the coding sequences identified. The anoxic deep-sea brine pools of the Red Sea are a promising source of novel enzymes with unique evolutionary adaptation. Sequencing data from Red Sea brine pool cultures and SAGs are annotated and stored in the Integrated Data Warehouse of Microbial Genomes (INDIGO) data warehouse. Low sequence homology of annotated genes (no similarity for 35% of these genes) may translate into false positives when searching for specific functions. The Profile and Pattern Matching (PPM) strategy described here was developed to eliminate false positive annotations of enzyme function before progressing to labor-intensive hyper-saline gene expression and characterization. It utilizes InterPro-derived Gene Ontology (GO)-terms (which represent enzyme function profiles) and annotated relevant PROSITE IDs (which are linked to an amino acid consensus pattern). The PPM algorithm was tested on 15 protein families, which were selected based on scientific and commercial potential. An initial list of 2577 enzyme commission (E.C.) numbers was translated into 171 GO-terms and 49 consensus patterns. A subset of INDIGO-sequences consisting of 58 SAGs from six different taxons of bacteria and archaea were selected from six different brine pool environments. Those SAGs code for 74,516 genes, which were independently scanned for the GO-terms (profile filter) and PROSITE IDs (pattern filter). Following stringent reliability filtering, the non-redundant hits (106 profile hits and 147 pattern hits) are classified as reliable, if at least two relevant descriptors (GO-terms and/or consensus patterns) are present. Scripts for annotation, as well as for the PPM algorithm, are available

  18. Espacio Pool

    OpenAIRE

    2013-01-01

    Espacio Pool es un grupo abierto de usuarios vinculados a la Facultad de Bellas Artes UCM que actúa sobre los márgenes que la circundan. Toma su nombre de los estanques vacíos ubicados en los jardines de la cafetería, y elige el término anglosajón por sus connotaciones relativas a lo participativo y autogestionado. Su objetivo es habitar los espacios de “vacuidad” para que sean efectivos y permutadores. Espacio Pool organiza la celebración de encuentros a partir de la construcción de disposit...

  19. Development of a pooled probe method for locating small gene families in a physical map of soybean using stress related paralogues and a BAC minimum tile path

    Directory of Open Access Journals (Sweden)

    Shultz Jeffry L

    2006-12-01

    Full Text Available Abstract Background Genome analysis of soybean (Glycine max L. has been complicated by its paleo-autopolyploid nature and conserved homeologous regions. Landmarks of expressed sequence tags (ESTs located within a minimum tile path (MTP of contiguous (contig bacterial artificial chromosome (BAC clones or radiation hybrid set can identify stress and defense related gene rich regions in the genome. A physical map of about 2,800 contigs and MTPs of 8,064 BAC clones encompass the soybean genome. That genome is being sequenced by whole genome shotgun methods so that reliable estimates of gene family size and gene locations will provide a useful tool for finishing. The aims here were to develop methods to anchor plant defense- and stress-related gene paralogues on the MTP derived from the soybean physical map, to identify gene rich regions and to correlate those with QTL for disease resistance. Results The probes included 143 ESTs from a root library selected by subtractive hybridization from a multiply disease resistant soybean cultivar 'Forrest' 14 days after inoculation with Fusarium solani f. sp. glycines (F. virguliforme. Another 166 probes were chosen from a root EST library (Gm-r1021 prepared from a non-inoculated soybean cultivar 'Williams 82' based on their homology to the known defense and stress related genes. Twelve and thirteen pooled EST probes were hybridized to high-density colony arrays of MTP BAC clones from the cv. 'Forrest' genome. The EST pools located 613 paralogues for 201 of the 309 probes used (range 1–13 per functional probe. One hundred BAC clones contained more than one kind of paralogue. Many more BACs (246 contained a single paralogue of one of the 201 probes detectable gene families. ESTs were anchored on soybean linkage groups A1, B1, C2, E, D1a+Q, G, I, M, H, and O. Conclusion Estimates of gene family sizes were more similar to those made by Southern hybridization than by bioinformatics inferences from EST collections

  20. Pooled Resequencing of 122 Ulcerative Colitis Genes in a Large Dutch Cohort Suggests Population-Specific Associations of Rare Variants in MUC2

    Science.gov (United States)

    Visschedijk, Marijn C.; Alberts, Rudi; Mucha, Soren; Deelen, Patrick; de Jong, Dirk J.; Pierik, Marieke; Spekhorst, Lieke M.; Imhann, Floris; van der Meulen-de Jong, Andrea E.; van der Woude, C. Janneke; van Bodegraven, Adriaan A.; Oldenburg, Bas; Löwenberg, Mark; Dijkstra, Gerard; Ellinghaus, David; Schreiber, Stefan; Wijmenga, Cisca; Rivas, Manuel A.; Franke, Andre

    2016-01-01

    Genome-wide association studies have revealed several common genetic risk variants for ulcerative colitis (UC). However, little is known about the contribution of rare, large effect genetic variants to UC susceptibility. In this study, we performed a deep targeted re-sequencing of 122 genes in Dutch UC patients in order to investigate the contribution of rare variants to the genetic susceptibility to UC. The selection of genes consists of 111 established human UC susceptibility genes and 11 genes that lead to spontaneous colitis when knocked-out in mice. In addition, we sequenced the promoter regions of 45 genes where known variants exert cis-eQTL-effects. Targeted pooled re-sequencing was performed on DNA of 790 Dutch UC cases. The Genome of the Netherlands project provided sequence data of 500 healthy controls. After quality control and prioritization based on allele frequency and pathogenicity probability, follow-up genotyping of 171 rare variants was performed on 1021 Dutch UC cases and 1166 Dutch controls. Single-variant association and gene-based analyses identified an association of rare variants in the MUC2 gene with UC. The associated variants in the Dutch population could not be replicated in a German replication cohort (1026 UC cases, 3532 controls). In conclusion, this study has identified a putative role for MUC2 on UC susceptibility in the Dutch population and suggests a population-specific contribution of rare variants to UC. PMID:27490946

  1. Sequencing of a QTL-rich region of the Theobroma cacao genome using pooled BACs and the identification of trait specific candidate genes

    Directory of Open Access Journals (Sweden)

    Blackmon Barbara P

    2011-07-01

    Full Text Available Abstract Background BAC-based physical maps provide for sequencing across an entire genome or a selected sub-genomic region of biological interest. Such a region can be approached with next-generation whole-genome sequencing and assembly as if it were an independent small genome. Using the minimum tiling path as a guide, specific BAC clones representing the prioritized genomic interval are selected, pooled, and used to prepare a sequencing library. Results This pooled BAC approach was taken to sequence and assemble a QTL-rich region, of ~3 Mbp and represented by twenty-seven BACs, on linkage group 5 of the Theobroma cacao cv. Matina 1-6 genome. Using various mixtures of read coverages from paired-end and linear 454 libraries, multiple assemblies of varied quality were generated. Quality was assessed by comparing the assembly of 454 reads with a subset of ten BACs individually sequenced and assembled using Sanger reads. A mixture of reads optimal for assembly was identified. We found, furthermore, that a quality assembly suitable for serving as a reference genome template could be obtained even with a reduced depth of sequencing coverage. Annotation of the resulting assembly revealed several genes potentially responsible for three T. cacao traits: black pod disease resistance, bean shape index, and pod weight. Conclusions Our results, as with other pooled BAC sequencing reports, suggest that pooling portions of a minimum tiling path derived from a BAC-based physical map is an effective method to target sub-genomic regions for sequencing. While we focused on a single QTL region, other QTL regions of importance could be similarly sequenced allowing for biological discovery to take place before a high quality whole-genome assembly is completed.

  2. Saturation of an intra-gene pool linkage map: towards a unified consensus linkage map for fine mapping and synteny analysis in common bean.

    Science.gov (United States)

    Galeano, Carlos H; Fernandez, Andrea C; Franco-Herrera, Natalia; Cichy, Karen A; McClean, Phillip E; Vanderleyden, Jos; Blair, Matthew W

    2011-01-01

    Map-based cloning and fine mapping to find genes of interest and marker assisted selection (MAS) requires good genetic maps with reproducible markers. In this study, we saturated the linkage map of the intra-gene pool population of common bean DOR364 × BAT477 (DB) by evaluating 2,706 molecular markers including SSR, SNP, and gene-based markers. On average the polymorphism rate was 7.7% due to the narrow genetic base between the parents. The DB linkage map consisted of 291 markers with a total map length of 1,788 cM. A consensus map was built using the core mapping populations derived from inter-gene pool crosses: DOR364 × G19833 (DG) and BAT93 × JALO EEP558 (BJ). The consensus map consisted of a total of 1,010 markers mapped, with a total map length of 2,041 cM across 11 linkage groups. On average, each linkage group on the consensus map contained 91 markers of which 83% were single copy markers. Finally, a synteny analysis was carried out using our highly saturated consensus maps compared with the soybean pseudo-chromosome assembly. A total of 772 marker sequences were compared with the soybean genome. A total of 44 syntenic blocks were identified. The linkage group Pv6 presented the most diverse pattern of synteny with seven syntenic blocks, and Pv9 showed the most consistent relations with soybean with just two syntenic blocks. Additionally, a co-linear analysis using common bean transcript map information against soybean coding sequences (CDS) revealed the relationship with 787 soybean genes. The common bean consensus map has allowed us to map a larger number of markers, to obtain a more complete coverage of the common bean genome. Our results, combined with synteny relationships provide tools to increase marker density in selected genomic regions to identify closely linked polymorphic markers for indirect selection, fine mapping or for positional cloning.

  3. Next generation semiconductor based sequencing of bitter taste receptor genes in different pig populations and association analysis using a selective DNA pool-seq approach.

    Science.gov (United States)

    Ribani, A; Bertolini, F; Schiavo, G; Scotti, E; Utzeri, V J; Dall'Olio, S; Trevisi, P; Bosi, P; Fontanesi, L

    2017-02-01

    Taste perception in animals affects feed intake and may influence production traits. In particular, bitter is sensed by receptors encoded by the family of TAS2R genes. In this research, using a DNA pool-seq approach coupled with next generation semiconductor based target resequencing, we analysed nine porcine TAS2R genes (TAS2R1, TAS2R3, TAS2R4, TAS2R7, TAS2R9, TAS2R10, TAS2R16, TAS2R38 and TAS2R39) to identify variability and, at the same time, estimate single nucleotide polymorphism (SNP) allele frequencies in several populations and testing differences in an association analysis. Equimolar DNA pools were prepared for five pig breeds (Italian Duroc, Italian Landrace, Pietrain, Meishan and Casertana) and wild boars (5-10 individuals each) and for two groups of Italian Large White pigs with extreme and divergent back fat thickness (50 + 50 pigs). About 1.8 million reads were obtained by sequencing amplicons generated from these pools. A total of 125 SNPs were identified, of which 37 were missense mutations. Three of them (p.Ile53Phe and p.Trp85Leu in TAS2R4; p.Leu37Ser in TAS2R39) could have important effects on the function of these bitter taste receptors, based on in silico predictions. Variability in wild boars seems lower than that in domestic breeds potentially as a result of selective pressure in the wild towards defensive bitter taste perception. Three SNPs in TAS2R38 and TAS2R39 were significantly associated with back fat thickness. These results may be important to understand the complexity of taste perception and their associated effects that could be useful to develop nutrigenetic approaches in pig breeding and nutrition. © 2016 Stichting International Foundation for Animal Genetics.

  4. High-density SNP screen of sodium channel genes by haplotype tagging and DNA pooling for association with idiopathic generalized epilepsy.

    Science.gov (United States)

    Makoff, Andrew; Lai, Teck; Barratt, Catherine; Valentin, Antonio; Moran, Nick; Asherson, Philip; Nashef, Lina

    2010-04-01

    We have investigated seven voltage-gated sodium channel genes for association with idiopathic generalized epilepsy (IGE). Probands and control DNA were grouped into pools and used to screen 85 single-nucleotide polymorphisms (SNPs), mostly HapMap SNPs tagging the common variation in these genes. Twelve SNPs exhibiting an allele frequency difference between pools were genotyped individually in our sample of 232 probands, 313 controls, and 95 parent-proband trios. Two SNPs, in SCN1A and SCN8A, were associated by allele and genotype at nominal level of significance, but were not significant after Bonferroni correction. Two SCN2A SNPs (rs3943809 and rs16850331) were associated by case-control with a subgroup with IGE and history of febrile seizures and also by transmission disequilibrium test (TDT) in parent-proband trios. Both SNPs are part of a linkage disequilibrium (LD) cluster of 38 SNPs, but none are obvious functional variants. The association of rs3943809 with the febrile seizure subgroup (p = 0.0004) remains significant after the conservative Bonferroni correction for multiple testing.

  5. Identification of Mycobacterium marinum 65 kD heat shock protein gene by polymerase chain reaction restriction analysis from lesions of swimming pool granuloma

    Institute of Scientific and Technical Information of China (English)

    2006-01-01

    Background Nontuberculous mycobacterium (NTM) had been reported to cause cutaneous infections which are difficult to interpret due to the variability of the clinical manifestations. Among NTM infections, Mycobacterium marinum (M. marinum) are mostly seen to cause skin infection. It is therefore important to establish a rapid approach for detection and identification of M. marinum from lesions of patients with suspected M. marinum infections. Methods Specimens were obtained from 5 patients with swimming pool granuloma. DNA was extracted and polymerase chain reaction (PCR) was performed. PCR products were digested with Hae III and BstE II, then analysed by pattern restriction analysis to detect heat shock protein (hsp) 65 kD gene. Results The 65 kD hsp gene was found in all specimens from patients with swimming pool granuloma. PCR restriction analysis (PRA) identified all 5 samples to be M. marinum infections, and the result was consistent with that of routine bacteriological identification. The lesions subsided or markedly improved upon treatment. Conclusions PRA is a sensitive, specific and rapid method in identification of mycobacteria. Application of this method will be helpful for early diagnosis of mycobacterial skin infections.

  6. Molecular genetic studies of natives on Easter Island: evidence of an early European and Amerindian contribution to the Polynesian gene pool.

    Science.gov (United States)

    Lie, B A; Dupuy, B M; Spurkland, A; Fernández-Viña, M A; Hagelberg, E; Thorsby, E

    2007-01-01

    Most archaeological and linguistic evidence suggest a Polynesian origin of the population of Easter Island (Rapanui), and this view has been supported by the identification of Polynesian mitochondrial DNA (mtDNA) polymorphisms in prehistoric skeletal remains. However, some evidence of an early South American contact also exists (the sweet potato, bottle gourd etc.), but genetic studies have so far failed to show an early Amerindian contribution to the gene pool on Easter Island. To address this issue, we analyzed mtDNA and Y chromosome markers and performed high-resolution human leukocyte antigen (HLA) genotyping of DNA harvested from previously collected sera of 48 reputedly nonadmixed native Easter Islanders. All individuals carried mtDNA types and HLA alleles previously found in Polynesia, and most men carried Y chromosome markers of Polynesian origin, providing further evidence of a Polynesian origin of the population of Easter Island. A few individuals carried HLA alleles and/or Y chromosome markers of European origin. More interestingly, some individuals carried the HLA alleles A*0212 and B*3905, which are of typical Amerindian origin. The genealogy of some of the individuals carrying these non-Polynesian HLA alleles and their haplotypic backgrounds suggest an introduction into Easter Island in the early 1800s, or earlier. Thus, there may have been an early European and Amerindian contribution to the Polynesian gene pool of Easter Island.

  7. Polymorphisms in Genes of Relevance for Oestrogen and Oxytocin Pathways and Risk of Barrett's Oesophagus and Oesophageal Adenocarcinoma: A Pooled Analysis from the BEACON Consortium.

    Directory of Open Access Journals (Sweden)

    Katarina Lagergren

    Full Text Available The strong male predominance in oesophageal adenocarcinoma (OAC and Barrett's oesophagus (BO continues to puzzle. Hormonal influence, e.g. oestrogen or oxytocin, might contribute.This genetic-epidemiological study pooled 14 studies from three continents, Australia, Europe, and North America. Polymorphisms in 3 key genes coding for the oestrogen pathway (receptor alpha (ESR1, receptor beta (ESR2, and aromatase (CYP19A1, and 3 key genes of the oxytocin pathway (the oxytocin receptor (OXTR, oxytocin protein (OXT, and cyclic ADP ribose hydrolase glycoprotein (CD38, were analysed using a gene-based approach, versatile gene-based test association study (VEGAS.Among 1508 OAC patients, 2383 BO patients, and 2170 controls, genetic variants within ESR1 were associated with BO in males (p = 0.0058 and an increased risk of OAC and BO combined in males (p = 0.0023. Genetic variants within OXTR were associated with an increased risk of BO in both sexes combined (p = 0.0035 and in males (p = 0.0012. We followed up these suggestive findings in a further smaller data set, but found no replication. There were no significant associations between the other 4 genes studied and risk of OAC, BO, separately on in combination, in males and females combined or in males only.Genetic variants in the oestrogen receptor alpha and the oxytocin receptor may be associated with an increased risk of BO or OAC, but replication in other large samples are needed.

  8. Diversity of nitrogenase (nifH) genes pool in soybean field soil after continuous and rotational cropping.

    Science.gov (United States)

    Xiao, C H; Tang, H; Pu, L J; Sun, D M; Ma, J Z; Yu, M; Duan, R S

    2010-08-01

    Diazotrophs diversity in soybean is a topic requiring thorough investigation since the previous researches have focused on only rice, forest, grass, water, etc. In this research, iron-only nitrogenase nifH gene was as genetic marker. PCR-RFLP was used to investigate the difference of diazotrophs community diversity in the soil from the continuous cropping (CC) (the 5-yr tilling of soybean) and the rotational cropping (RC) (soybean-corn) soils in the northeast of China. A total of 36 isolates were genetically characterized. Most of the isolates closely related to Azospirillum and Azotobacter. Eighty-six unique nifH gene sequences were obtained by cloning of the respective PCR products in two soil samples. It was found that the diversity of nifH genes in CC changed obviously compared with RC. Phylogenetic analysis indicated that most of the clones clustered together in a high homogeneity with some sequence retrieved from environmental representatives. The sequence diversity of nifH genes was high and the members of the Alphaproteobacteria were predominant in both samples. The experimental study also revealed the two non-proteobacterial diazotrophs, firmicutes and euryarchaeota. Through this study, it can be assumed that different tillage perhaps affected the nifH gene-containing population diversity. Copyright 2010 WILEY-VCH Verlag GmbH & Co. KGaA, Weinheim

  9. Genetic diversity within and between broodstocks of the white shrimp Litopenaeus vannamei (Boone, 1931 (Decapoda, Penaeidae and its implication for the gene pool conservation

    Directory of Open Access Journals (Sweden)

    PD. Freitas

    Full Text Available Genetic variation within and between fifteen closed broodstock lines of the Pacific white shrimp Litopenaeus vannamei, reared at different hatcheries in the Brazilian coast, was assessed by RAPD analysis. Fifty two polymorphic loci were identified when a set of five decamer primers was used in PCR. The genetic diversity analysis within lines evidenced genetic variation loss probably related to bottleneck effects and inbreeding. In addition, the genetic divergence values between the different samples appear to reflect the initial founder composition of such stocks, in some cases, sharing a common origin, suggesting a putative importance of interbreeding for the establishment of genetic improvement programs for these broodstocks. The genetic variation monitoring appears to be helpful to the gene pool conservation of this aquaculture species, mainly if considered its exotic status in Brazil and the current impossibility of new introduction of wild individuals.

  10. Genetic diversity of the black gram [Vigna mungo (L.) Hepper] gene pool as revealed by SSR markers.

    Science.gov (United States)

    Kaewwongwal, Anochar; Kongjaimun, Alisa; Somta, Prakit; Chankaew, Sompong; Yimram, Tarikar; Srinives, Peerasak

    2015-03-01

    In this study, 520 cultivated and 14 wild accessions of black gram (Vigna mungo (L.) Hepper) were assessed for diversity using 22 SSR markers. Totally, 199 alleles were detected with a mean of 9.05 alleles per locus. Wild black gram showed higher gene diversity than cultivated black gram. Gene diversity of cultivated accessions among regions was comparable, while allelic richness of South Asia was higher than that of other regions. 78.67% of the wild gene diversity presented in cultivated accessions, indicating that the domestication bottleneck effect in black gram is relatively low. Genetic distance analysis revealed that cultivated black gram was more closely related to wild black gram from South Asia than that from Southeast Asia. STRUCTURE, principal coordinate and neighbor-joining analyses consistently revealed that 534 black gram accessions were grouped into three major subpopulations. The analyses also revealed that cultivated black gram from South Asia was genetically distinct from that from West Asia. Comparison by SSR analysis with other closely related Vigna species, including mungbean, azuki bean, and rice bean, revealed that level of gene diversity of black gram is comparable to that of mungbean and rice bean but lower than that of azuki bean.

  11. Expression of the pyrG gene determines the pool sizes of CTP and dCTP in Lactococcus lactis

    DEFF Research Database (Denmark)

    Jørgensen, C.M.; Hammer, Karin; Jensen, Peter Ruhdal;

    2004-01-01

    The pyrG gene from Lactococcus lactis encodes CTP synthase (EC 6.4.3.2), an enzyme converting UTP to CTP. A series of strains were constructed with different levels of pyrG expression by insertion of synthetic constitutive promoters with different strengths in front of pyrG. These strains expressed...

  12. De novo 454 sequencing of barcoded BAC pools for comprehensive gene survey and genome analysis in the complex genome of barley

    Directory of Open Access Journals (Sweden)

    Scholz Uwe

    2009-11-01

    Full Text Available Abstract Background De novo sequencing the entire genome of a large complex plant genome like the one of barley (Hordeum vulgare L. is a major challenge both in terms of experimental feasibility and costs. The emergence and breathtaking progress of next generation sequencing technologies has put this goal into focus and a clone based strategy combined with the 454/Roche technology is conceivable. Results To test the feasibility, we sequenced 91 barcoded, pooled, gene containing barley BACs using the GS FLX platform and assembled the sequences under iterative change of parameters. The BAC assemblies were characterized by N50 of ~50 kb (N80 ~31 kb, N90 ~21 kb and a Q40 of 94%. For ~80% of the clones, the best assemblies consisted of less than 10 contigs at 24-fold mean sequence coverage. Moreover we show that gene containing regions seem to assemble completely and uninterrupted thus making the approach suitable for detecting complete and positionally anchored genes. By comparing the assemblies of four clones to their complete reference sequences generated by the Sanger method, we evaluated the distribution, quality and representativeness of the 454 sequences as well as the consistency and reliability of the assemblies. Conclusion The described multiplex 454 sequencing of barcoded BACs leads to sequence consensi highly representative for the clones. Assemblies are correct for the majority of contigs. Though the resolution of complex repetitive structures requires additional experimental efforts, our approach paves the way for a clone based strategy of sequencing the barley genome.

  13. Collaborative pooled analysis of data on C-reactive protein gene variants and coronary disease: judging causality by Mendelian randomisation

    DEFF Research Database (Denmark)

    Danesh, J.; Hingorani, A.; Wensley, F.

    2008-01-01

    Many prospective studies have reported associations between circulating C-reactive protein (CRP) levels and risk of coronary heart disease (CHD), but causality remains uncertain. Studies of CHD are being conducted that involve measurement of common polymorphisms of the CRP gene known to be associ...... of low-grade inflammation to CHD and indicate whether or not CRP itself is involved in long-term pathogenesis Udgivelsesdato: 2008...

  14. Genetic diversity and structure of the zombi pea (Vigna vexillata (L.) A. Rich) gene pool based on SSR marker analysis.

    Science.gov (United States)

    Dachapak, Sujinna; Somta, Prakit; Poonchaivilaisak, Supalak; Yimram, Tarika; Srinives, Peerasak

    2017-04-01

    Zombi pea (Vigna vexillata (L.) A. Rich) is an underutilized legume species and a useful gene source for resistance to biotic and abiotic stresses, although there is little understanding on its genetic diversity and structure. In this study, 422 (408 wild and 14 cultivated) accessions of zombi pea from diverse origins (201 from Africa, 126 from America, 85 from Australia, 5 from Asia and 5 from unknown origin) were analyzed with 20 simple sequence repeat (SSR) markers to determine its genetic diversity and genetic structure. The SSR markers detected 273 alleles in total with a mean of 13.6 alleles per locus. Polymorphism information content values of the markers varied from 0.58 to 0.90 with an average of 0.76. Overall gene diversity was 0.715. Gene diversity and average allelic richness was highest in Africa (0.749 and 8.08, respectively) and lowest in America (0.435 and 4.10, respectively). Nei's genetic distance analysis revealed that the highest distance was between wild Australia and cultivated Africa (0.559), followed by wild West Africa and wild Australia (0.415). STRUCTURE, neighbor-joining (NJ), and principal coordinate analyses consistently showed that these zombi pea accessions were clustered into three major groups, viz. America, Africa and Asia, and Australia. NJ tree also suggested that American and Australian accessions are originated from East African zombi peas, and that the cultivated accessions from Africa and Asia were genetically distinct, while those from America were clustered with some cultivated accessions from Africa. These results suggest that Africa is the center of origin and diversity of zombi pea, and that domestication of this pea took place more than once in different regions.

  15. Hawaii ESI: POOLS (Anchialine Pool Points)

    Data.gov (United States)

    National Oceanic and Atmospheric Administration, Department of Commerce — This data set contains sensitive biological resource data for anchialine pools in Hawaii. Anchialine pools are small, relatively shallow coastal ponds that occur...

  16. Harnessing microbial gene pools to remediate persistent organic pollutants using genetically modified plants--a viable technology?

    Science.gov (United States)

    Rylott, Elizabeth L; Johnston, Emily J; Bruce, Neil C

    2015-11-01

    It has been 14 years since the international community came together to legislate the Stockholm Convention on Persistent Organic Pollutants (POPs), restricting the production and use of specific chemicals that were found to be environmentally stable, often bioaccumulating, with long-term toxic effects. Efforts are continuing to remove these pollutants from the environment. While incineration and chemical treatment can be successful, these methods require the removal of tonnes of soil, at high cost, and are damaging to soil structure and microbial communities. The engineering of plants for in situ POP remediation has had highly promising results, and could be a more environmentally-friendly alternative. This review discusses the characterization of POP-degrading bacterial pathways, and how the genes responsible have been harnessed using genetic modification (GM) to introduce these same abilities into plants. Recent advances in multi-gene cloning, genome editing technologies and expression in monocot species are accelerating progress with remediation-applicable species. Examples include plants developed to degrade 2,4,6-trinitrotoluene (TNT), hexahydro-1,3,5-trinitro-1,3,5-triazine (RDX), trichloroethylene (TCE), and polychlorinated biphenyls (PCBs). However, the costs and timescales needed to gain regulatory approval, along with continued public opposition, are considerable. The benefits and challenges in this rapidly developing and promising field are discussed. © The Author 2015. Published by Oxford University Press on behalf of the Society for Experimental Biology. All rights reserved. For permissions, please email: journals.permissions@oup.com.

  17. Gene expression deregulation in postnatal skeletal muscle of TK2 deficient mice reveals a lower pool of proliferating myogenic progenitor cells.

    Directory of Open Access Journals (Sweden)

    João A Paredes

    Full Text Available Loss of thymidine kinase 2 (TK2 causes a heterogeneous myopathic form of mitochondrial DNA (mtDNA depletion syndrome (MDS in humans that predominantly affects skeletal muscle tissue. In mice, TK2 deficiency also affects several tissues in addition to skeletal muscle, including brain, heart, adipose tissue, kidneys and causes death about 3 weeks after birth. We analysed skeletal muscle and heart muscle tissues of Tk2 knockout mice at postnatal development phase and observed that TK2 deficient pups grew slower and their skeletal muscles appeared significantly underdeveloped, whereas heart was close to normal in size. Both tissues showed mtDNA depletion and mitochondria with altered ultrastructure, as revealed by transmission electron microscopy. Gene expression microarray analysis showed a strong down-regulation of genes involved in cell cycle and cell proliferation in both tissues, suggesting a lower pool of undifferentiated proliferating cells. Analysis of isolated primary myoblasts from Tk2 knockout mice showed slow proliferation, less ability to differentiate and signs of premature senescence, even in absence of mtDNA depletion. Our data demonstrate that TK2 deficiency disturbs myogenic progenitor cells function in postnatal skeletal muscle and we propose this as one of the causes of underdeveloped phenotype and myopathic characteristic of the TK2 deficient mice, in addition to the progressive mtDNA depletion, mitochondrial damage and respiratory chain deficiency in post-mitotic differentiated tissue.

  18. Shallow gene pools in the high intertidal: extreme loss of genetic diversity in viviparous sea stars (Parvulastra).

    Science.gov (United States)

    Keever, Carson C; Puritz, Jonathan B; Addison, Jason A; Byrne, Maria; Grosberg, Richard K; Toonen, Robert J; Hart, Michael W

    2013-10-23

    We document an extreme example of reproductive trait evolution that affects population genetic structure in sister species of Parvulastra cushion stars from Australia. Self-fertilization by hermaphroditic adults and brood protection of benthic larvae causes strong inbreeding and range-wide genetic poverty. Most samples were fixed for a single allele at nearly all nuclear loci; heterozygotes were extremely rare (0.18%); mitochondrial DNA sequences were more variable, but few populations shared haplotypes in common. Isolation-with-migration models suggest that these patterns are caused by population bottlenecks (relative to ancestral population size) and low gene flow. Loss of genetic diversity and low potential for dispersal between high-intertidal habitats may have dire consequences for extinction risk and potential for future adaptive evolution in response to climate and other selective agents.

  19. Allele mining in the gene pool of wild Solanum species for homologues of late blight resistance gene RB/Rpi-blb1

    Science.gov (United States)

    Solanum bulbocastanum comprising a CC-NBS-LRR gene RB/Rpi-blb1 confers broad-spectrum resistance to Phytophthora infestans and is currently employed in potato breeding for durable late blight (LB) resistance. Genomes of several Solanum species were reported to contain RB homologues with confirmed b...

  20. Diversification of primary gene pool through introgression of resistance to foliar diseases from synthetic amphidiploids to cultivated groundnut (Arachis hypogaea L.

    Directory of Open Access Journals (Sweden)

    Varsha Kumari

    2014-04-01

    Full Text Available Groundnut (Arachis hypogaea L. is widely grown and consumed around the world and is considered to have originated from a single hybridization event between two wild diploids. The utilization of wild germplasm in breeding programs has been restricted by reproductive barriers between wild and cultivated species and technical difficulties in making large numbers of crosses. Efforts to overcome these hurdles have resulted in the development of synthetic amphidiploids, namely ISATGR 278-18 (Arachis duranesis × Arachis batizocoi and ISATGR 5B (Arachis magna × A. batizocoi, which possess several desirable traits, including resistance to foliar diseases that generally cause huge yield losses annually in groundnut growing areas of Asia, America, and Africa. With an objective to improve foliar disease resistance, the primary gene pool was diversified by introgressing foliar disease resistance in five cultivated genotypes (ICGV 91114, ICGS 76, ICGV 91278, JL 24, and DH 86 from synthetic amphidiploids using a backcross breeding approach. Several introgression lines with resistance to two foliar diseases (rust and late leaf spot were identified with levels of resistance equal to the donors. These backcross derived lines have shown a wide range of variation for several morphological and agronomic traits. These lines, after further evaluation and selection, can serve as donors in future breeding programs aimed at developing improved cultivars with desirable agronomic traits, high resilience to biotic/abiotic stresses and a broadened genetic base.

  1. Diversification of primary gene pool through introgression of resistance to foliar diseases from synthetic amphidiploids to cultivated groundnut(Arachis hypogaea L.)

    Institute of Scientific and Technical Information of China (English)

    Varsha; Kumari; M.V.C.Gowda; Vinod; Tasiwal; Manish; K.Pandey; Ramesh; S.Bhat; Nalini; Mallikarjuna; Hari; D.Upadhyaya; Rajeev; K.Varshney

    2014-01-01

    Groundnut(Arachis hypogaea L.)is widely grown and consumed around the world and is considered to have originated from a single hybridization event between two wild diploids.The utilization of wild germplasm in breeding programs has been restricted by reproductive barriers between wild and cultivated species and technical difficulties in making large numbers of crosses.Efforts to overcome these hurdles have resulted in the development of synthetic amphidiploids,namely ISATGR 278-18(Arachis duranesis×Arachis batizocoi)and ISATGR 5B(Arachis magna×A.batizocoi),which possess several desirable traits,including resistance to foliar diseases that generally cause huge yield losses annually in groundnut growing areas of Asia,America,and Africa.With an objective to improve foliar disease resistance,the primary gene pool was diversified by introgressing foliar disease resistance in five cultivated genotypes(ICGV 91114,ICGS 76,ICGV 91278,JL 24,and DH 86)from synthetic amphidiploids using a backcross breeding approach.Several introgression lines with resistance to two foliar diseases(rust and late leaf spot)were identified with levels of resistance equal to the donors.These backcross derived lines have shown a wide range of variation for several morphological and agronomic traits.These lines,after further evaluation and selection,can serve as donors in future breeding programs aimed atdeveloping improved cultivars with desirable agronomic traits,high resilience to biotic/abiotic stresses and a broadened genetic base.

  2. Determining the optimal number of individual samples to pool for quantification of average herd levels of antimicrobial resistance genes in Danish pig herds using high-throughput qPCR

    DEFF Research Database (Denmark)

    Clasen, Julie; Mellerup, Anders; Olsen, John Elmerdahl

    2016-01-01

    The primary objective of this study was to determine the minimum number of individual fecal samples to pool together in order to obtain a representative sample for herd level quantification of antimicrobial resistance (AMR) genes in a Danish pig herd, using a novel high-throughput qPCR assay....... The secondary objective was to assess the agreement between different methods of sample pooling. Quantification of AMR was achieved using a high-throughput qPCR method to quantify the levels of seven AMR genes (ermB, ermF, sulI, sulII, tet(M), tet(O) and tet(W)). A large variation in the levels of AMR genes...

  3. Linking the sub-Saharan and West Eurasian gene pools: maternal and paternal heritage of the Tuareg nomads from the African Sahel.

    Science.gov (United States)

    Pereira, Luísa; Cerný, Viktor; Cerezo, María; Silva, Nuno M; Hájek, Martin; Vasíková, Alzbeta; Kujanová, Martina; Brdicka, Radim; Salas, Antonio

    2010-08-01

    The Tuareg presently live in the Sahara and the Sahel. Their ancestors are commonly believed to be the Garamantes of the Libyan Fezzan, ever since it was suggested by authors of antiquity. Biological evidence, based on classical genetic markers, however, indicates kinship with the Beja of Eastern Sudan. Our study of mitochondrial DNA (mtDNA) sequences and Y chromosome SNPs of three different southern Tuareg groups from Mali, Burkina Faso and the Republic of Niger reveals a West Eurasian-North African composition of their gene pool. The data show that certain genetic lineages could not have been introduced into this population earlier than approximately 9000 years ago whereas local expansions establish a minimal date at around 3000 years ago. Some of the mtDNA haplogroups observed in the Tuareg population were involved in the post-Last Glacial Maximum human expansion from Iberian refugia towards both Europe and North Africa. Interestingly, no Near Eastern mtDNA lineages connected with the Neolithic expansion have been observed in our population sample. On the other hand, the Y chromosome SNPs data show that the paternal lineages can very probably be traced to the Near Eastern Neolithic demic expansion towards North Africa, a period that is otherwise concordant with the above-mentioned mtDNA expansion. The time frame for the migration of the Tuareg towards the African Sahel belt overlaps that of early Holocene climatic changes across the Sahara (from the optimal greening approximately 10 000 YBP to the extant aridity beginning at approximately 6000 YBP) and the migrations of other African nomadic peoples in the area.

  4. Female gene pools of Berber and Arab neighboring communities in central Tunisia: microstructure of mtDNA variation in North Africa.

    Science.gov (United States)

    Cherni, Lotfi; Loueslati, Besma Yaacoubi; Pereira, Luísa; Ennafaâ, Hajer; Amorim, António; El Gaaied, Amel Ben Ammar

    2005-02-01

    North African populations are considered genetically closer to Eurasians than to sub-Saharans. However, they display a considerably high mtDNA heterogeneity among them, namely in the frequencies of the U6, East African, and sub-Saharan haplogroups. In this study, we describe and compare the female gene pools of two neighboring Tunisian populations, Kesra (Berber) and Zriba (non-Berber), which have contrasting historical backgrounds. Both populations presented lower diversity values than those observed for other North African populations, and they were the only populations not showing significant negative Fu's F(S) values. Kesra displayed a much higher proportion of typical sub-Saharan haplotypes (49%, including 4.2% of M1 haplogroup) than Zriba (8%). With respect to U6 sequences, frequencies were low (2% in Kesra and 8% in Zriba), and all belonged to the subhaplogroup U6a. An analysis of these data in the context of North Africa reveals that the emerging picture is complex, because Zriba would match the profile of a Berber Moroccan population, whereas Kesra, which shows twice the frequency of sub-Saharan lineages normally observed in northern coastal populations, would match a western Saharan population except for the low U6 frequency. The North African patchy mtDNA landscape has no parallel in other regions of the world and increasing the number of sampled populations has not been accompanied by any substantial increase in our understanding of its phylogeography. Available data up to now rely on sampling small, scattered populations, although they are carefully characterized in terms of their ethnic, linguistic, and historical backgrounds. It is therefore doubtful that this picture truly represents the complex historical demography of the region rather than being just the result of the type of samplings performed so far.

  5. Poole High Street study

    OpenAIRE

    Kilburn, David

    2007-01-01

    A presentation given to key decision makers within Poole to improve the retail offer in Poole High Street and leverage the benefit of improved town planning and the introduction of quality retail companies.

  6. Swimming pool cleaner poisoning

    Science.gov (United States)

    Swimming pool cleaner poisoning occurs when someone swallows this type of cleaner, touches it, or breathes in ... The harmful substances in swimming pool cleaner are: Bromine ... copper Chlorine Soda ash Sodium bicarbonate Various mild acids

  7. Swimming Pool Safety

    Science.gov (United States)

    ... Prevention Listen Español Text Size Email Print Share Swimming Pool Safety Page Content ​What is the best way to keep my child safe around swimming pools? An adult should actively watch children at ...

  8. Swimming pool granuloma

    Science.gov (United States)

    ... this page: //medlineplus.gov/ency/article/001357.htm Swimming pool granuloma To use the sharing features on this page, please enable JavaScript. A swimming pool granuloma is a long-term (chronic) skin ...

  9. The science of pooling

    Energy Technology Data Exchange (ETDEWEB)

    Gilbert, E.

    1995-10-01

    The pooling of data from radon studies is described. Pooling refers to the analysis of original data from several studies, not meta-analysis in which summary measures from published data are analyzed. A main objective for pooling is to reduce uncertainty and to obtain more precise estimates of risk than would be available from any single study.

  10. Oxygen control of nif gene expression in Klebsiella pneumoniae depends on NifL reduction at the cytoplasmic membrane by electrons derived from the reduced quinone pool.

    Science.gov (United States)

    Grabbe, Roman; Schmitz, Ruth A

    2003-04-01

    In Klebsiella pneumoniae, the flavoprotein, NifL regulates NifA mediated transcriptional activation of the N2-fixation (nif) genes in response to molecular O2 and ammonium. We investigated the influence of membrane-bound oxidoreductases on nif-regulation by biochemical analysis of purified NifL and by monitoring NifA-mediated expression of nifH'-'lacZ reporter fusions in different mutant backgrounds. NifL-bound FAD-cofactor was reduced by NADH only in the presence of a redox-mediator or inside-out vesicles derived from anaerobically grown K. pneumoniae cells, indicating that in vivo NifL is reduced by electrons derived from membrane-bound oxidoreductases of the anaerobic respiratory chain. This mechanism is further supported by three lines of evidence: First, K. pneumoniae strains carrying null mutations of fdnG or nuoCD showed significantly reduced nif-induction under derepressing conditions, indicating that NifL inhibition of NifA was not relieved in the absence of formate dehydrogenase-N or NADH:ubiquinone oxidoreductase. The same effect was observed in a heterologous Escherichia coli system carrying a ndh null allele (coding for NADH dehydrogenaseII). Second, studying nif-induction in K. pneumoniae revealed that during anaerobic growth in glycerol, under nitrogen-limitation, the presence of the terminal electron acceptor nitrate resulted in a significant decrease of nif-induction. The final line of evidence is that reduced quinone derivatives, dimethylnaphthoquinol and menadiol, are able to transfer electrons to the FAD-moiety of purified NifL. On the basis of these data, we postulate that under anaerobic and nitrogen-limited conditions, NifL inhibition of NifA activity is relieved by reduction of the FAD-cofactor by electrons derived from the reduced quinone pool, generated by anaerobic respiration, that favours membrane association of NifL. We further hypothesize that the quinol/quinone ratio is important for providing the signal to NifL.

  11. poolMC: Smart pooling of mRNA samples in microarray experiments

    Directory of Open Access Journals (Sweden)

    Schiefelbein John

    2010-06-01

    Full Text Available Abstract Background Typically, pooling of mRNA samples in microarray experiments implies mixing mRNA from several biological-replicate samples before hybridization onto a microarray chip. Here we describe an alternative smart pooling strategy in which different samples, not necessarily biological replicates, are pooled in an information theoretic efficient way. Further, each sample is tested on multiple chips, but always in pools made up of different samples. The end goal is to exploit the compressibility of microarray data to reduce the number of chips used and increase the robustness to noise in measurements. Results A theoretical framework to perform smart pooling of mRNA samples in microarray experiments was established and the software implementation of the pooling and decoding algorithms was developed in MATLAB. A proof-of-concept smart pooled experiment was performed using validated biological samples on commercially available gene chips. Differential-expression analysis of the smart pooled data was performed and compared against the unpooled control experiment. Conclusions The theoretical developments and experimental demonstration in this paper provide a useful starting point to investigate smart pooling of mRNA samples in microarray experiments. Although the smart pooled experiment did not compare favorably with the control, the experiment highlighted important conditions for the successful implementation of smart pooling - linearity of measurements, sparsity in data, and large experiment size.

  12. Pool spacing in forest channels

    Science.gov (United States)

    David R. Montgomery; John M. Buffington; Richard D. Smith; Kevin M. Schmidt; George Pess

    1995-01-01

    Field surveys of stream channels in forested mountain drainage basins in southeast Alaska and Washington reveal that pool spacing depends on large woody debris (LWD) loading and channel type, slope, and width. Mean pool spacing in pool-riffle, plane-bed, and forced pool-riffle channels systematically decreases from greater than 13 channel widths per pool to less than 1...

  13. Reverse genetics in the tide pool: knock-down of target gene expression via RNA interference in the copepod Tigriopus californicus.

    Science.gov (United States)

    Barreto, Felipe S; Schoville, Sean D; Burton, Ronald S

    2015-07-01

    Reverse genetic tools are essential for characterizing phenotypes of novel genes and testing functional hypotheses generated from next-generation sequencing studies. RNA interference (RNAi) has been a widely used technique for describing or quantifying physiological, developmental or behavioural roles of target genes by suppressing their expression. The marine intertidal copepod Tigriopus californicus has become an emerging model for evolutionary and physiological studies, but this species is not amenable to most genetic manipulation approaches. As crustaceans are susceptible to RNAi-mediated gene knock-down, we developed a simple method for delivery of gene-specific double-stranded RNA that results in significant suppression of target gene transcription levels. The protocol was examined on five genes of interest, and for each, at least 50% knock-down in expression was achieved. While knock-down levels did not reach 100% in any trial, a well-controlled experiment with one heat-shock gene showed unambiguously that such partial gene suppression may cause dramatic changes in phenotype. Copepods with suppressed expression of heat-shock protein beta 1 (hspb1) exhibited dramatically decreased tolerance to high temperatures, validating the importance of this gene during thermal stress, as proposed by a previous study. The application of this RNAi protocol in T. californicus will be invaluable for examining the role of genes putatively involved in reproductive isolation, mitochondrial function and local adaptation.

  14. Vitamin D Pooling Project

    Science.gov (United States)

    The Vitamin D Pooling Project of Rarer Cancers brought together investigators from 10 cohorts to conduct a large prospective epidemiologic study of the association between vitamin D status and seven rarer cancers.

  15. Longitudinal Pooled Deep Sequencing of the Plasmodium vivax K12 Kelch Gene in Cambodia Reveals a Lack of Selection by Artemisinin.

    Science.gov (United States)

    Brazeau, Nicholas F; Hathaway, Nicholas; Parobek, Christian M; Lin, Jessica T; Bailey, Jeffrey A; Lon, Chanthap; Saunders, David L; Juliano, Jonathan J

    2016-12-07

    The emergence of artemisinin resistance among Plasmodium falciparum in the Greater Mekong subregion threatens malaria control interventions and is associated with multiple unique mutations in K13 (PF3D7_1343700). The aim of this study was to survey Cambodian Plasmodium vivax for mutations in the K13 ortholog (K12, PVX_083080) that might similarly confer artemisinin resistance. Extracted DNA from Cambodian isolates collected between 2009 and 2012 was pooled by province and year and submitted for next-generation sequencing. Single-nucleotide polymorphisms (SNPs) were identified using a pile-up approach that detected minority SNPs. Among the 14 pools, we found six unique SNPs, including three nonsynonymous SNPs, across six codons in K12 However, none of the SNPs were orthologous to artemisinin resistance-conferring mutations in PF3D7_1343700, and nonsynonymous changes did not persist through time within populations. These results suggest a lack of selection in the P. vivax population in Cambodia due to artemisinin drug pressure. © The American Society of Tropical Medicine and Hygiene.

  16. Comparative De Novo Transcriptome Analysis of Fertilized Ovules in Xanthoceras sorbifolium Uncovered a Pool of Genes Expressed Specifically or Preferentially in the Selfed Ovule That Are Potentially Involved in Late-Acting Self-Incompatibility.

    Directory of Open Access Journals (Sweden)

    Qingyuan Zhou

    ovules of an LSI species. The availability of a pool of specifically or preferentially expressed genes from selfed ovules for X. sorbifolium will be a valuable resource for future genetic analyses of candidate genes involved in the LSI response.

  17. The Future of Pooling.

    Science.gov (United States)

    Young, Peter C.; Fone, Martin

    1997-01-01

    Discusses seven propositions underlying the strategies that insurance pools can, will, and must pursue: (1) risk management versus risk financing; (2) elimination of windfall advantages; (3) the maintenance of market-dominant status; (4) cost leadership; (5) client focus; (6) innovation and diversification; and (7) leadership challenges. A sidebar…

  18. Income pooling within families

    DEFF Research Database (Denmark)

    Bonke, Jens; Uldall-Poulsen, Hans

    This paper analyses the phenomenon of income-pooling by applying the Danish household expenditure survey, merged with authoritative register information. Responses to additional questions on income sharing among 1696 couples also allows us to analyses whether the intra-household distribution of r...

  19. MC1R gene variants and non-melanoma skin cancer: A pooled-analysis from the M-SKIP project

    NARCIS (Netherlands)

    E. Tagliabue; M.C. Fargnoli (Maria Concetta); S. Gandini (Sara); P. Maisonneuve (Patrick); F. Liu; M. Kayser; T.E.C. Nijsten (Tamar); J. Han; R. Kumar; N.A. Gruis (Nelleke); L. Ferrucci; W. Branicki (Wojciech); T. Dwyer; L. Blizzard; P. Helsing; P.J.M. Autier (Philippe); J.C. García-Borrón (José C); P.A. Kanetsky; M.T. Landi; J. Little; J. Newton-Bishop; J.P. de Sera; S. Raimondi (Susana); S. Raimondi (Sara); P. Autier (Philippe); M.C. Fargnoli (Maria Concetta); J. Han (Jiali); P.A. Kanetsky (Peter A.); M.T. Landi (Maria Teresa); J. Little (Julian); J. Little (Julian); J.A. Newton Bishop (Julia); S. Caini (Saverio); S. Gandini (Sara); P. Maisonneuve (Patrick); A. Hofman (Albert); M.H. Kayser (Manfred); F. Liu (Fan); T.E.C. Nijsten (Tamar); A.G. Uitterlinden (André); R. Kumar (Rajiv); R. Kumar (Rajiv); E. Nagore (Eduardo); J. Hansson (Johan); V. Höiom (Veronica); P. Ghiorzo (Paola); L. Pastorino (Lorenza); N.A. Gruis (Nelleke A.); J.N.B. Bavinck (Jan Nico Bouwes); P. Aguilera (Paula); C. Badenas (Celia); C. Carrera (Cristina); J. Malvehy (Josep); M.P. Mateu (Miriam Potrony); S. Puig (Susana); J.A. Puig-Butille (Joan Anton); G. Tell (Gemma); T. Dwyer (Terence); T. Dwyer (Terry); J. Cochrane (Jennifer); R. Fernandez-De-Misa (Ricardo); W. Branicki (Wojciech); T. Debniak (Tadeusz); N. Morling (Niels); P. Johansen (Peter); S. Mayne (Susan); A. Bale (Allen); B. Cartmel (Brenda); L. Ferrucci (Leah); R. Pfeiffer (Ruth); G. Palmieri (Giuseppe); G. Ribas (Gloria); A. Stratigos (Alexander); K. Kypreou (Katerina); A. Bowcock (Anne); L. Cornelius (Lynn); M.L. Council (M. Laurin); T. Motokawa (Tomonori); S. Anno (Sumiko); H. Anno (Hirofumi); P.A. Andresen (Per Arne); T.H. Wong (Terence H.); M. Berwick (Marianne); M. Berwick (Marianne); I. Orlow (Irene); U. Mujumdar (Urvi); A. Hummer (Amanda); K. Busam (Klaus); P. Roy (Pampa); R. Canchola (Rebecca); B. Clas (Brian); J. Cotignola (Javiar); Y. Monroe (Yvette); B. Armstrong (Bruce); A. Kricker (Anne); M. Litchfield (Melisa); T. Dwye (Terence); P. Tucker (Paul); N. Stephens (Nicola); R. Gallagher (Richard); T. Switzer (Teresa); L. Marrett (Loraine); B. Theis (Beth); L. From (Lynn); N. Chowdhury (Noori); L. Vanasse (Louise); M. Purdue (Mark); D. Northrup (David); R. Zanetti (Roberto); S.M. Rosso (Sonia); C. Sacerdote (Carlotta); H. Anton-Culver (Hoda); N. Leighton (Nancy); M. Gildea (Maureen); S.B. Gruber (Stephen); J. Bonner (Joe); J. Jeter (Joanne); J. Klotz (Judith); H. Wilcox (Homer); H. Weiss (Helen); R.M. Millikan (Robert); N. Thomas (Nancy); D. Mattingly (Dianne); J. Player (Jon); C.-K. Tse (Chiu-Kit); R. Rebbeck (Timothy); P.P. Kanetsky (Peter P.); A. Walker (Amy); S. Panossian (Saarene); H.W. Mohrenweiser (Harvey); R. Setlow (Richard)

    2015-01-01

    textabstractBackground:The melanocortin-1-receptor (MC1R) gene regulates human pigmentation and is highly polymorphic in populations of European origins. The aims of this study were to evaluate the association between MC1R variants and the risk of non-melanoma skin cancer (NMSC), and to investigate

  20. MC1R gene variants and non-melanoma skin cancer: A pooled-analysis from the M-SKIP project

    NARCIS (Netherlands)

    E. Tagliabue; M.C. Fargnoli (Maria Concetta); S. Gandini (Sara); P. Maisonneuve (Patrick); F. Liu; M. Kayser; T.E.C. Nijsten (Tamar); J. Han; R. Kumar; N.A. Gruis (Nelleke); L. Ferrucci; W. Branicki (Wojciech); T. Dwyer; L. Blizzard; P. Helsing; P.J.M. Autier (Philippe); J.C. García-Borrón (José C); P.A. Kanetsky; M.T. Landi; J. Little; J. Newton-Bishop; J.P. de Sera; S. Raimondi (Susana); S. Raimondi (Sara); P. Autier (Philippe); M.C. Fargnoli (Maria Concetta); J. Han (Jiali); P.A. Kanetsky (Peter A.); M.T. Landi (Maria Teresa); J. Little (Julian); J. Little (Julian); J.A. Newton Bishop (Julia); S. Caini (Saverio); S. Gandini (Sara); P. Maisonneuve (Patrick); A. Hofman (Albert); M.H. Kayser (Manfred); F. Liu (Fan); T.E.C. Nijsten (Tamar); A.G. Uitterlinden (André); R. Kumar (Rajiv); R. Kumar (Rajiv); E. Nagore (Eduardo); J. Hansson (Johan); V. Höiom (Veronica); P. Ghiorzo (Paola); L. Pastorino (Lorenza); N.A. Gruis (Nelleke A.); J.N.B. Bavinck (Jan Nico Bouwes); P. Aguilera (Paula); C. Badenas (Celia); C. Carrera (Cristina); J. Malvehy (Josep); M.P. Mateu (Miriam Potrony); S. Puig (Susana); J.A. Puig-Butille (Joan Anton); G. Tell (Gemma); T. Dwyer (Terence); T. Dwyer (Terry); J. Cochrane (Jennifer); R. Fernandez-De-Misa (Ricardo); W. Branicki (Wojciech); T. Debniak (Tadeusz); N. Morling (Niels); P. Johansen (Peter); S. Mayne (Susan); A. Bale (Allen); B. Cartmel (Brenda); L. Ferrucci (Leah); R. Pfeiffer (Ruth); G. Palmieri (Giuseppe); G. Ribas (Gloria); A. Stratigos (Alexander); K. Kypreou (Katerina); A. Bowcock (Anne); L. Cornelius (Lynn); M.L. Council (M. Laurin); T. Motokawa (Tomonori); S. Anno (Sumiko); H. Anno (Hirofumi); P.A. Andresen (Per Arne); T.H. Wong (Terence H.); M. Berwick (Marianne); M. Berwick (Marianne); I. Orlow (Irene); U. Mujumdar (Urvi); A. Hummer (Amanda); K. Busam (Klaus); P. Roy (Pampa); R. Canchola (Rebecca); B. Clas (Brian); J. Cotignola (Javiar); Y. Monroe (Yvette); B. Armstrong (Bruce); A. Kricker (Anne); M. Litchfield (Melisa); T. Dwye (Terence); P. Tucker (Paul); N. Stephens (Nicola); R. Gallagher (Richard); T. Switzer (Teresa); L. Marrett (Loraine); B. Theis (Beth); L. From (Lynn); N. Chowdhury (Noori); L. Vanasse (Louise); M. Purdue (Mark); D. Northrup (David); R. Zanetti (Roberto); S.M. Rosso (Sonia); C. Sacerdote (Carlotta); H. Anton-Culver (Hoda); N. Leighton (Nancy); M. Gildea (Maureen); S.B. Gruber (Stephen); J. Bonner (Joe); J. Jeter (Joanne); J. Klotz (Judith); H. Wilcox (Homer); H. Weiss (Helen); R.M. Millikan (Robert); N. Thomas (Nancy); D. Mattingly (Dianne); J. Player (Jon); C.-K. Tse (Chiu-Kit); R. Rebbeck (Timothy); P.P. Kanetsky (Peter P.); A. Walker (Amy); S. Panossian (Saarene); H.W. Mohrenweiser (Harvey); R. Setlow (Richard)

    2015-01-01

    textabstractBackground:The melanocortin-1-receptor (MC1R) gene regulates human pigmentation and is highly polymorphic in populations of European origins. The aims of this study were to evaluate the association between MC1R variants and the risk of non-melanoma skin cancer (NMSC), and to investigate

  1. Diversity of nifH gene pools in the rhizosphere of two cultivars of sorghum (Sorghum bicolor) treated with contrasting levels of nitrogen fertilizer

    NARCIS (Netherlands)

    Coelho, M.R.R.; Vos, de M.; Carneiro, N.P.; Marriel, I.E.; Paiva, E.; Seldin, L.

    2008-01-01

    The diversity of nitrogen-fixing bacteria was assessed in the rhizospheres of two cultivars of sorghum (IS 5322-C and IPA 1011) sown in Cerrado soil amended with two levels of nitrogen fertilizer (12 and 120 kg ha(-1)). The nifH gene was amplified directly from DNA extracted from the rhizospheres, a

  2. Diversity of nifH gene pools in the rhizosphere of two cultivars of sorghum (Sorghum bicolor) treated with contrasting levels of nitrogen fertilizer

    NARCIS (Netherlands)

    Coelho, M.R.R.; Vos, de M.; Carneiro, N.P.; Marriel, I.E.; Paiva, E.; Seldin, L.

    2008-01-01

    The diversity of nitrogen-fixing bacteria was assessed in the rhizospheres of two cultivars of sorghum (IS 5322-C and IPA 1011) sown in Cerrado soil amended with two levels of nitrogen fertilizer (12 and 120 kg ha(-1)). The nifH gene was amplified directly from DNA extracted from the rhizospheres,

  3. Pooled Resequencing of 122 Ulcerative Colitis Genes in a Large Dutch Cohort Suggests Population-Specific Associations of Rare Variants in MUC2

    NARCIS (Netherlands)

    Visschedijk, Marijn C; Alberts, Rudi; Mucha, Soren; Deelen, Patrick; de Jong, Dirk J; Pierik, Marieke; Spekhorst, Lieke M; Imhann, Floris; van der Meulen-de Jong, Andrea E; van der Woude, C Janneke; van Bodegraven, Adriaan A; Oldenburg, Bas; Löwenberg, Mark; Dijkstra, Gerard; Ellinghaus, David; Schreiber, Stefan; Wijmenga, Cisca; Rivas, Manuel A; Franke, Andre; van Diemen, Cleo C; Weersma, Rinse K

    2016-01-01

    Genome-wide association studies have revealed several common genetic risk variants for ulcerative colitis (UC). However, little is known about the contribution of rare, large effect genetic variants to UC susceptibility. In this study, we performed a deep targeted re-sequencing of 122 genes in Dutch

  4. Statistical implications of pooling RNA samples for microarray experiments

    Directory of Open Access Journals (Sweden)

    Landfield Philip W

    2003-06-01

    Full Text Available Abstract Background Microarray technology has become a very important tool for studying gene expression profiles under various conditions. Biologists often pool RNA samples extracted from different subjects onto a single microarray chip to help defray the cost of microarray experiments as well as to correct for the technical difficulty in getting sufficient RNA from a single subject. However, the statistical, technical and financial implications of pooling have not been explicitly investigated. Results Modeling the resulting gene expression from sample pooling as a mixture of individual responses, we derived expressions for the experimental error and provided both upper and lower bounds for its value in terms of the variability among individuals and the number of RNA samples pooled. Using "virtual" pooling of data from real experiments and computer simulations, we investigated the statistical properties of RNA sample pooling. Our study reveals that pooling biological samples appropriately is statistically valid and efficient for microarray experiments. Furthermore, optimal pooling design(s can be found to meet statistical requirements while minimizing total cost. Conclusions Appropriate RNA pooling can provide equivalent power and improve efficiency and cost-effectiveness for microarray experiments with a modest increase in total number of subjects. Pooling schemes in terms of replicates of subjects and arrays can be compared before experiments are conducted.

  5. [Dose-Response Dependences for Frequency of RET/PTC Gene Rearrangements in Papillary Thyroid Carcinoma after Irradiation. Simple Pooling Analysis of Molecular Epidemiological Data].

    Science.gov (United States)

    Koterov, A N; Ushenkova, L N; Biryukov, A P

    2016-01-01

    On the basis of all possible publications on the theme included in the previously formed base of sources on molecular epidemiology of RET/PTC rearrangements in thyroid papillary carcinoma a pooled analysis ("simple pooling data") on determination of the dose-effect dependences for RET/PTC frequency in radiogenic carcinomas of various irradiated groups was performed. (They are groups subjected to radiotherapeutic exposure, residents near the Chernobyl nuclear power plant (CNPP) and victims of nuclear bombing). The tendency to Pearson linear correlation (r = 0.746; p = 0.148) between the frequency of RET/PTC and the estimated dose on thyroid in the regions affected by the CNPP accident was revealed. But this tendency was recognized to be random owing to abnormally low values of the indicator for the most contaminated Gomel region. The method tentatively called "case-control" showed reliable differences in thyroid dose values for carcinomas with RET/PTC and without those. The versatility of changes was found: the lack of RET/PTC for radiotherapeutic impacts was associated with higher doses, whereas in case of the CNPP accident and for nuclear bombing victims it was the opposite. Probably, in the first case the "cellular cleaning" phenomenon after exposure to very high doses took place. Search of direct Pearson correlations between average/median thyroid doses on groups and RET/PTC frequency in carcinomas of these groups showed a high reliability for the dose-effect dependences- at the continuous dose scale (for RET/PTC in total and RET/PTC1 respectively: r = 0.830; p = 0.002 and r = 0.906; p = 0.0003); while there was no significant correlation received for RET/PTC3. When using the weighting least square regression analysis (proceeding from the number of carcinomas in samples), the specified regularities remained. Attempts to influence the strength of correlation by exception ofthe data of all the samples connected with the accident on the CNPP did not significantly

  6. Metschnikowia Species Share a Pool of Diverse rRNA Genes Differing in Regions That Determine Hairpin-Loop Structures and Evolve by Reticulation.

    Directory of Open Access Journals (Sweden)

    Matthias Sipiczki

    Full Text Available Modern taxonomy of yeasts is mainly based on phylogenetic analysis of conserved DNA and protein sequences. By far the most frequently used sequences are those of the repeats of the chromosomal rDNA array. It is generally accepted that the rDNA repeats of a genome have identical sequences due to the phenomenon of sequence homogenisation and can thus be used for identification and barcoding of species. Here we show that the rDNA arrays of the type strains of Metschnikowia andauensis and M. fructicola are not homogenised. Both have arrays consisting of diverse repeats that differ from each other in the D1/D2 domains by up to 18 and 25 substitutions. The variable sites are concentrated in two regions that correspond to back-folding stretches of hairpin loops in the predicted secondary structure of the RNA molecules. The substitutions do not alter significantly the overall hairpin-loop structure due to wobble base pairing at sites of C-T transitions and compensatory mutations in the complementary strand of the hairpin stem. The phylogenetic and network analyses of the cloned sequences revealed that the repeats had not evolved in a vertical tree-like way but reticulation might have shaped the rDNA arrays of both strains. The neighbour-net analysis of all cloned sequences of the type strains and the database sequences of different strains further showed that these species share a continuous pool of diverse repeats that appear to evolve by reticulate evolution.

  7. CERN Electronics Pool presentations

    CERN Multimedia

    2011-01-01

    The CERN Electronics Pool has organised a series of presentations in collaboration with oscilloscope manufacturers. The last one will take place according to the schedule below.   Time will be available at the end of the presentation to discuss your personal needs. The Agilent presentation had to be postponed and will be organised later. -     Lecroy: Thursday, 24 November 2011, in 530-R-030, 14:00 to 16:30.

  8. Swimming Pools and Molluscum Contagiosum

    Science.gov (United States)

    ... Travelers’ Health: Smallpox & Other Orthopoxvirus-Associated Infections Poxvirus Swimming Pools Recommend on Facebook Tweet Share Compartir The ... often ask if molluscum virus can spread in swimming pools. There is also concern that it can ...

  9. Introgression of Helicoverpa armigera Resistance from Cajanus acutifolius-a Wild Relative from Secondary Gene Pool of Pigeon Pea (Cajanus cajan

    Directory of Open Access Journals (Sweden)

    Deepak R. Jadhav

    2012-07-01

    Full Text Available The aim of the study was to introgress Helicoverpa armigera resistance from wild relative Cajanus acutifolius into pigeonpea, (Cajanus cajan L., an important grain legume in South Asia, East Africa and the West Indies. Pigeonpea grain yields on farmer’s fields are quite low, largely because of damage by insect pests, of which legume pod borer Helicoverpa armigera (Hübner (Lepidoptera: Noctuidae is the important pest worldwide. Pod borer has developed high levels of resistance to chemical insecticides. Currently, there are no cultivars of pigeonpea with high levels of resistance to H. armigera. Therefore, there is a need to identify and introgress resistance genes from the wild relatives of this crop. Wild relative of pigeonpea, Cajanus acutifolius (ICPW 15613 and the interspecific derivatives C. acutifolius x C. cajan have shown resistance to H. armigera. The results showed that all the test lines and C. acutifolius had high levels of flavonoids such as chlorogenic acid, quercetin and rutin in the flowers and buds, which may have resulted in less damage due to H. armigera larvae. Most of the test lines had more than 15.00 g of seed weight (100 seed weight and beige seed color. These lines can be used for pigeonpea improvement for resistance to H. armigera.

  10. The Productive Ligurian Pool

    CERN Document Server

    Casella, E; Couvelard, X; Caldeira, R M A

    2011-01-01

    In contrast with the behavior of the eddies in the open-ocean, the sub-mesoscale eddies generated in the constricted Ligurian Basin (NW Mediterranean), are unproductive but their combined effect, arranged in a rim-like fashion, contributes to the containment of a Productive Ligurian Pool (PLP). Data de- rived from MODIS satellite sensor showed persistent higher chlorophyll con- centrations in the centre of the basin, concurrent with high EKE values in its surroundings, derived from AVISO altimetry merged products. This sug- gested that this 'productive pool' is maintained by the intense (sub)mesoscale eddy activity in the rim. Numerical realistic experiments, using a Regional Ocean Model System, forced by MERCATOR and by a high-resolution COSMO- l7 atmospheric model, also showed that most of the sub-mesoscale eddies, during 2009 and 2010, are concentrated in the rim surrounding the basin, contributing to the formation of a basin-scale cyclonic gyre. We hypothesized that the interaction between eddies in the r...

  11. Pooled screening for synergistic interactions subject to blocking and noise.

    Directory of Open Access Journals (Sweden)

    Kyle Li

    Full Text Available The complex molecular networks in the cell can give rise to surprising interactions: gene deletions that are synthetically lethal, gene overexpressions that promote stemness or differentiation, synergistic drug interactions that heighten potency. Yet, the number of actual interactions is dwarfed by the number of potential interactions, and discovering them remains a major problem. Pooled screening, in which multiple factors are simultaneously tested for possible interactions, has the potential to increase the efficiency of searching for interactions among a large set of factors. However, pooling also carries with it the risk of masking genuine interactions due to antagonistic influence from other factors in the pool. Here, we explore several theoretical models of pooled screening, allowing for synergy and antagonism between factors, noisy measurements, and other forms of uncertainty. We investigate randomized sequential designs, deriving formulae for the expected number of tests that need to be performed to discover a synergistic interaction, and the optimal size of pools to test. We find that even in the presence of significant antagonistic interactions and testing noise, randomized pooled designs can significantly outperform exhaustive testing of all possible combinations. We also find that testing noise does not affect optimal pool size, and that mitigating noise by a selective approach to retesting outperforms naive replication of all tests. Finally, we show that a Bayesian approach can be used to handle uncertainty in problem parameters, such as the extent of synergistic and antagonistic interactions, resulting in schedules for adapting pool size during the course of testing.

  12. Morphology of drying blood pools

    Science.gov (United States)

    Laan, Nick; Smith, Fiona; Nicloux, Celine; Brutin, David; D-Blood project Collaboration

    2016-11-01

    Often blood pools are found on crime scenes providing information concerning the events and sequence of events that took place on the scene. However, there is a lack of knowledge concerning the drying dynamics of blood pools. This study focuses on the drying process of blood pools to determine what relevant information can be obtained for the forensic application. We recorded the drying process of blood pools with a camera and measured the weight. We found that the drying process can be separated into five different: coagulation, gelation, rim desiccation, centre desiccation, and final desiccation. Moreover, we found that the weight of the blood pool diminishes similarly and in a reproducible way for blood pools created in various conditions. In addition, we verify that the size of the blood pools is directly related to its volume and the wettability of the surface. Our study clearly shows that blood pools dry in a reproducible fashion. This preliminary work highlights the difficult task that represents blood pool analysis in forensic investigations, and how internal and external parameters influence its dynamics. We conclude that understanding the drying process dynamics would be advancement in timeline reconstitution of events. ANR funded project: D-Blood Project.

  13. Chromonoodles: Jump into the Gene Pool

    Science.gov (United States)

    Farrar, Jennifer; Barnhart, Kelsi

    2011-01-01

    Chromosomes, alleles, chromatids, genotype, phenotype, mitosis, meiosis, fertilization--this vocabulary can be overwhelming, confusing, and difficult for students to tie together. However, since these terms are commonplace in the high school biology classroom, and are the basis for understanding both DNA and heredity, students must understand…

  14. Project charts Estonia's gene pool / Tricia Cornell

    Index Scriptorium Estoniae

    Cornell, Tricia

    1999-01-01

    Sihtasutuse Geenikeskus rajajad tuli välja ideega luua Eesti Geenivaramu, mis koosneks kahest andmekogust - inimese tervisliku seisundi kirjeldusest (fenotüüp) ja tema geenikombinatsiooni kirjeldusest (genotüüp)

  15. Project charts Estonia's gene pool / Tricia Cornell

    Index Scriptorium Estoniae

    Cornell, Tricia

    1999-01-01

    Sihtasutuse Geenikeskus rajajad tuli välja ideega luua Eesti Geenivaramu, mis koosneks kahest andmekogust - inimese tervisliku seisundi kirjeldusest (fenotüüp) ja tema geenikombinatsiooni kirjeldusest (genotüüp)

  16. Ulk4 Regulates Neural Stem Cell Pool.

    Science.gov (United States)

    Liu, Min; Guan, Zhenlong; Shen, Qin; Flinter, Frances; Domínguez, Laura; Ahn, Joo Wook; Collier, David A; O'Brien, Timothy; Shen, Sanbing

    2016-09-01

    The size of neural stem cell (NSC) pool at birth determines the starting point of adult neurogenesis. Aberrant neurogenesis is associated with major mental illness, in which ULK4 is proposed as a rare risk factor. Little is known about factors regulating the NSC pool, or function of the ULK4. Here, we showed that Ulk4(tm1a/tm1a) mice displayed a dramatically reduced NSC pool at birth. Ulk4 was expressed in a cell cycle-dependent manner and peaked in G2/M phases. Targeted disruption of the Ulk4 perturbed mid-neurogenesis and significantly reduced cerebral cortex in postnatal mice. Pathway analyses of dysregulated genes in Ulk4(tm1a/tm1a) mice revealed Ulk4 as a key regulator of cell cycle and NSC proliferation, partially through regulation of the Wnt signaling. In addition, we identified hemizygous deletion of ULK4 gene in 1.2/1,000 patients with pleiotropic symptoms including severe language delay and learning difficulties. ULK4, therefore, may significantly contribute to neurodevelopmental, neuropsychiatric, and neurodegenerative disorders. Stem Cells 2016;34:2318-2331.

  17. Rank Pooling for Action Recognition.

    Science.gov (United States)

    Fernando, Basura; Gavves, Efstratios; Oramas M, Jose Oramas; Ghodrati, Amir; Tuytelaars, Tinne

    2017-04-01

    We propose a function-based temporal pooling method that captures the latent structure of the video sequence data - e.g., how frame-level features evolve over time in a video. We show how the parameters of a function that has been fit to the video data can serve as a robust new video representation. As a specific example, we learn a pooling function via ranking machines. By learning to rank the frame-level features of a video in chronological order, we obtain a new representation that captures the video-wide temporal dynamics of a video, suitable for action recognition. Other than ranking functions, we explore different parametric models that could also explain the temporal changes in videos. The proposed functional pooling methods, and rank pooling in particular, is easy to interpret and implement, fast to compute and effective in recognizing a wide variety of actions. We evaluate our method on various benchmarks for generic action, fine-grained action and gesture recognition. Results show that rank pooling brings an absolute improvement of 7-10 average pooling baseline. At the same time, rank pooling is compatible with and complementary to several appearance and local motion based methods and features, such as improved trajectories and deep learning features.

  18. Grundfoss: Chlorination of Swimming Pools

    DEFF Research Database (Denmark)

    Hjorth, Poul G.; Hogan, John; Andreassen, Viggo

    1998-01-01

    Grundfos asked for a model, describing the problem of mixing chemicals, being dosed into water systems, to be developed. The application of the model should be dedicated to dosing aqueous solution of chlorine into swimming pools.......Grundfos asked for a model, describing the problem of mixing chemicals, being dosed into water systems, to be developed. The application of the model should be dedicated to dosing aqueous solution of chlorine into swimming pools....

  19. Grundfoss: Chlorination of Swimming Pools

    DEFF Research Database (Denmark)

    Hjorth, Poul G.; Hogan, John; Andreassen, Viggo

    1998-01-01

    Grundfos asked for a model, describing the problem of mixing chemicals, being dosed into water systems, to be developed. The application of the model should be dedicated to dosing aqueous solution of chlorine into swimming pools.......Grundfos asked for a model, describing the problem of mixing chemicals, being dosed into water systems, to be developed. The application of the model should be dedicated to dosing aqueous solution of chlorine into swimming pools....

  20. Estabilidade de produção de híbridos simples e duplos de milho oriundos de um mesmo conjunto gênico Yield stability in single and double crosses of maize originated from the same gene pool

    Directory of Open Access Journals (Sweden)

    Juarez Campolina Machado

    2008-01-01

    Full Text Available O presente trabalho foi realizado com o objetivo de comparar a estabilidade de híbridos simples e híbridos duplos de milho oriundos de um mesmo conjunto gênico. Foram avaliados 55 tratamentos, sendo dez híbridos simples comerciais, utilizados como parentais e 45 híbridos duplos resultantes de um dialelo completo. As sementes dos híbridos duplos foram obtidas na área experimental do Departamento de Biologia da Universidade Federal de Lavras (DBI/UFLA. Os experimentos foram desenvolvidos em 15 ambientes, no ano agrícola de 2005/2006, em propriedades de agricultores e estações experimentais. O delineamento experimental utilizado foi o de blocos casualizados com três repetições e o caráter avaliado foi a produtividade de espigas despalhadas (kg ha-1, corrigida para 13% de umidade. Obteve-se a contribuição de cada híbrido para a interação genótipos x ambientes e o desvio em relação ao desempenho máximo em cada ambiente utilizando a estatística não-paramétrica por meio da soma de postos. Os híbridos duplos foram, em média, mais estáveis, contudo, identificaram-se híbridos simples tão estáveis quanto os duplos.The objective of the present work was to study the adaptability and stability of single and double-crosses of maize originated from the same gene pool. Ten commercial single-crosses and all possible double-crosses, obtained from a complete diallel, were evaluated. Seeds of the double-crosses were obtained in an experimental area of the Biology Department at Universidade Federal de Lavras (DBI/UFLA. The experiments were conducted in 15 environments in the 2005/06 growing season, on farms and in experimental stations. The cultural practices were the ones normally used by farmers or experimental stations for maize. The entries were evaluated in randomized complete blocks design with three replications per environment. The trait under study was husked ears yield (kg ha-1, corrected to 13% of moisture content

  1. 13 CFR 120.1706 - Pool Originator's retained interest in Pool.

    Science.gov (United States)

    2010-01-01

    ... 13 Business Credit and Assistance 1 2010-01-01 2010-01-01 false Pool Originator's retained interest in Pool. 120.1706 Section 120.1706 Business Credit and Assistance SMALL BUSINESS ADMINISTRATION... Pools § 120.1706 Pool Originator's retained interest in Pool. The Pool Originator must retain...

  2. Synaptic vesicle pools and dynamics.

    Science.gov (United States)

    Alabi, AbdulRasheed A; Tsien, Richard W

    2012-08-01

    Synaptic vesicles release neurotransmitter at chemical synapses, thus initiating the flow of information in neural networks. To achieve this, vesicles undergo a dynamic cycle of fusion and retrieval to maintain the structural and functional integrity of the presynaptic terminals in which they reside. Moreover, compelling evidence indicates these vesicles differ in their availability for release and mobilization in response to stimuli, prompting classification into at least three different functional pools. Ongoing studies of the molecular and cellular bases for this heterogeneity attempt to link structure to physiology and clarify how regulation of vesicle pools influences synaptic strength and presynaptic plasticity. We discuss prevailing perspectives on vesicle pools, the role they play in shaping synaptic transmission, and the open questions that challenge current understanding.

  3. Patent pools: Intellectual property rights and competition

    NARCIS (Netherlands)

    Rodriguez, V.

    2010-01-01

    Patent pools do not correct all problems associated with patent thickets. In this respect, patent pools might not stop the outsider problem from striking pools. Moreover, patent pools can be expensive to negotiate, can exclude patent holders with smaller numbers of patents or enable a group of major

  4. Patent pools: Intellectual property rights and competition

    NARCIS (Netherlands)

    Rodriguez, V.

    2010-01-01

    Patent pools do not correct all problems associated with patent thickets. In this respect, patent pools might not stop the outsider problem from striking pools. Moreover, patent pools can be expensive to negotiate, can exclude patent holders with smaller numbers of patents or enable a group of major

  5. Patent pools: Intellectual property rights and competition.

    NARCIS (Netherlands)

    Rodriguez, V.F.

    2010-01-01

    Patent pools do not correct all problems associated with patent thickets. In this respect, patent pools might not stop the outsider problem from striking pools. Moreover, patent pools can be expensive to negotiate, can exclude patent holders with smaller numbers of patents or enable a group of major

  6. 21 CFR 1250.89 - Swimming pools.

    Science.gov (United States)

    2010-04-01

    ... 21 Food and Drugs 8 2010-04-01 2010-04-01 false Swimming pools. 1250.89 Section 1250.89 Food and... SANITATION Sanitation Facilities and Conditions on Vessels § 1250.89 Swimming pools. (a) Fill and draw swimming pools shall not be installed or used. (b) Swimming pools of the recirculation type shall be...

  7. EP BICYCLE POOL - VIGNETTES 2002

    CERN Multimedia

    EP-SMI Help Desk

    2002-01-01

    The vignettes (insurance certificates) for 2002 become obligatory from 1 June. If you have a bicycle from the EP Pool, please bring it to the EP-SMI Help Desk (Building 124) on any working day up to 31 May between 8h.30 - 12h.00 or 13h.30 - 17h.30. EP-SMI Help Desk

  8. [Infections transmitted in swimming pools].

    Science.gov (United States)

    von Suzani, C; Hazeghi, P

    1976-01-01

    Public swimmingpools can be the source of infections due to micro-organism such as mycobacterium balnei, adeno and enteroviruses, the virus of plantar warts and molluscum contagiosum, the TRIC-Agent of swimmingpool-conjonctivitis and pathogenic fungi. The transmission of trichomonas vaginalis is considered unlikely-Water of pools, supposed to present satisfactory qualities by standard controls, was found to contain pathogenic staphylococci and pseudomonas aeruginosa. Effective preventive measures include the continuous recording of the redox-potential of the water, limiting the number of visitors to pool design specifications, better desinfection of sanitary installations, regular maintenance of technical equipment including frequent backwashing of filters and exclusion of visitors with communicable disease.

  9. A Consensual Linear Opinion Pool

    CERN Document Server

    Carvalho, Arthur

    2012-01-01

    We propose a pooling method to aggregate expert opinions. Intuitively, it works as if the experts were continuously updating their opinions in order to accommodate the expertise of others. Each updated opinion takes the form of a linear opinion pool, where the weight that an expert assigns to a peer's opinion is inversely related to the distance between their opinions. In other words, experts are assumed to prefer opinions that are close to their own opinions. We prove that such an updating process leads to consensus, i.e., the experts all converge towards the same opinion. Further, we show that if experts are rewarded using the quadratic scoring rule, then the above mentioned assumption follows naturally. We empirically demonstrate the efficacy of our method using real-world data.

  10. Sustainability of common pool resources

    Science.gov (United States)

    Timilsina, Raja Rajendra; Kamijo, Yoshio

    2017-01-01

    Sustainability has become a key issue in managing natural resources together with growing concerns for capitalism, environmental and resource problems. We hypothesize that the ongoing modernization of competitive societies, which we refer to as “capitalism,” affects human nature for utilizing common pool resources, thus compromising sustainability. To test this hypothesis, we design and implement a set of dynamic common pool resource games and experiments in the following two types of Nepalese areas: (i) rural (non-capitalistic) and (ii) urban (capitalistic) areas. We find that a proportion of prosocial individuals in urban areas is lower than that in rural areas, and urban residents deplete resources more quickly than rural residents. The composition of proself and prosocial individuals in a group and the degree of capitalism are crucial in that an increase in prosocial members in a group and the rural dummy positively affect resource sustainability by 65% and 63%, respectively. Overall, this paper shows that when societies move toward more capitalistic environments, the sustainability of common pool resources tends to decrease with the changes in individual preferences, social norms, customs and views to others through human interactions. This result implies that individuals may be losing their coordination abilities for social dilemmas of resource sustainability in capitalistic societies. PMID:28212426

  11. Sustainability of common pool resources.

    Science.gov (United States)

    Timilsina, Raja Rajendra; Kotani, Koji; Kamijo, Yoshio

    2017-01-01

    Sustainability has become a key issue in managing natural resources together with growing concerns for capitalism, environmental and resource problems. We hypothesize that the ongoing modernization of competitive societies, which we refer to as "capitalism," affects human nature for utilizing common pool resources, thus compromising sustainability. To test this hypothesis, we design and implement a set of dynamic common pool resource games and experiments in the following two types of Nepalese areas: (i) rural (non-capitalistic) and (ii) urban (capitalistic) areas. We find that a proportion of prosocial individuals in urban areas is lower than that in rural areas, and urban residents deplete resources more quickly than rural residents. The composition of proself and prosocial individuals in a group and the degree of capitalism are crucial in that an increase in prosocial members in a group and the rural dummy positively affect resource sustainability by 65% and 63%, respectively. Overall, this paper shows that when societies move toward more capitalistic environments, the sustainability of common pool resources tends to decrease with the changes in individual preferences, social norms, customs and views to others through human interactions. This result implies that individuals may be losing their coordination abilities for social dilemmas of resource sustainability in capitalistic societies.

  12. UPDG: Utilities package for data analysis of Pooled DNA GWAS

    Directory of Open Access Journals (Sweden)

    Ho Daniel WH

    2012-01-01

    Full Text Available Abstract Background Despite being a well-established strategy for cost reduction in disease gene mapping, pooled DNA association study is much less popular than the individual DNA approach. This situation is especially true for pooled DNA genomewide association study (GWAS, for which very few computer resources have been developed for its data analysis. This motivates the development of UPDG (Utilities package for data analysis of Pooled DNA GWAS. Results UPDG represents a generalized framework for data analysis of pooled DNA GWAS with the integration of Unix/Linux shell operations, Perl programs and R scripts. With the input of raw intensity data from GWAS, UPDG performs the following tasks in a stepwise manner: raw data manipulation, correction for allelic preferential amplification, normalization, nested analysis of variance for genetic association testing, and summarization of analysis results. Detailed instructions, procedures and commands are provided in the comprehensive user manual describing the whole process from preliminary preparation of software installation to final outcome acquisition. An example dataset (input files and sample output files is also included in the package so that users can easily familiarize themselves with the data file formats, working procedures and expected output. Therefore, UPDG is especially useful for users with some computer knowledge, but without a sophisticated programming background. Conclusions UPDG provides a free, simple and platform-independent one-stop service to scientists working on pooled DNA GWAS data analysis, but with less advanced programming knowledge. It is our vision and mission to reduce the hindrance for performing data analysis of pooled DNA GWAS through our contribution of UPDG. More importantly, we hope to promote the popularity of pooled DNA GWAS, which is a very useful research strategy.

  13. Essential vernal pool habitat action plan

    Data.gov (United States)

    US Fish and Wildlife Service, Department of the Interior — Vernal pool ecosystem conservation and recovery requires the recovery team to develop methods to determine the distribution of vernal pool types throughout the Great...

  14. Pool power control in remelting systems

    Science.gov (United States)

    Williamson, Rodney L.; Melgaard, David K.; Beaman, Joseph J.

    2011-12-13

    An apparatus for and method of controlling a remelting furnace comprising adjusting current supplied to an electrode based upon a predetermined pool power reference value and adjusting the electrode drive speed based upon the predetermined pool power reference value.

  15. CDC Study Finds Fecal Contamination in Pools

    Science.gov (United States)

    ... Communication (404) 639-3286 CDC study finds fecal contamination in pools A study of public pools done ... The E. coli is a marker for fecal contamination. Finding a high percentage of E. coli-positive ...

  16. Identification of homogeneous and heterogeneous variables in pooled cohort studies.

    Science.gov (United States)

    Cheng, Xin; Lu, Wenbin; Liu, Mengling

    2015-06-01

    Pooled analyses integrate data from multiple studies and achieve a larger sample size for enhanced statistical power. When heterogeneity exists in variables' effects on the outcome across studies, the simple pooling strategy fails to present a fair and complete picture of the effects of heterogeneous variables. Thus, it is important to investigate the homogeneous and heterogeneous structure of variables in pooled studies. In this article, we consider the pooled cohort studies with time-to-event outcomes and propose a penalized Cox partial likelihood approach with adaptively weighted composite penalties on variables' homogeneous and heterogeneous effects. We show that our method can characterize the variables as having heterogeneous, homogeneous, or null effects, and estimate non-zero effects. The results are readily extended to high-dimensional applications where the number of parameters is larger than the sample size. The proposed selection and estimation procedure can be implemented using the iterative shooting algorithm. We conduct extensive numerical studies to evaluate the performance of our proposed method and demonstrate it using a pooled analysis of gene expression in patients with ovarian cancer. © 2015, The International Biometric Society.

  17. 28 CFR 540.64 - Press pools.

    Science.gov (United States)

    2010-07-01

    ... 28 Judicial Administration 2 2010-07-01 2010-07-01 false Press pools. 540.64 Section 540.64... PERSONS IN THE COMMUNITY Contact With News Media § 540.64 Press pools. (a) The Warden may establish a press pool whenever he or she determines that the frequency of requests for interviews and...

  18. 7 CFR 1032.7 - Pool plant.

    Science.gov (United States)

    2010-01-01

    ... 7 Agriculture 9 2010-01-01 2009-01-01 true Pool plant. 1032.7 Section 1032.7 Agriculture... Handling Definitions § 1032.7 Pool plant. Pool plant means a plant, unit of plants, or system of plants as specified in paragraphs (a) through (f) of this section, or a plant specified in paragraph (i) of...

  19. 7 CFR 1033.7 - Pool plant.

    Science.gov (United States)

    2010-01-01

    ... 7 Agriculture 9 2010-01-01 2009-01-01 true Pool plant. 1033.7 Section 1033.7 Agriculture... Handling Definitions § 1033.7 Pool plant. Pool plant means a plant, unit of plants, or system of plants as specified in paragraphs (a) through (f) of this section, or a plant specified in paragraph (j) of...

  20. 7 CFR 1124.7 - Pool plant.

    Science.gov (United States)

    2010-01-01

    ... 7 Agriculture 9 2010-01-01 2009-01-01 true Pool plant. 1124.7 Section 1124.7 Agriculture... Regulating Handling Definitions § 1124.7 Pool plant. Pool plant means a plant, unit of plants, or a system of plants as specified in paragraphs (a) through (f) of this section, but excluding a plant specified...

  1. 7 CFR 1126.7 - Pool plant.

    Science.gov (United States)

    2010-01-01

    ... 7 Agriculture 9 2010-01-01 2009-01-01 true Pool plant. 1126.7 Section 1126.7 Agriculture... Handling Definitions § 1126.7 Pool plant. Pool plant means a plant specified in paragraphs (a) through (d) of this section, a unit of plants as specified in paragraph (e) of this section, or a plant...

  2. 7 CFR 1131.7 - Pool plant.

    Science.gov (United States)

    2010-01-01

    ... 7 Agriculture 9 2010-01-01 2009-01-01 true Pool plant. 1131.7 Section 1131.7 Agriculture... Handling Definitions § 1131.7 Pool plant. Pool Plant means a plant or unit of plants specified in paragraphs (a) through (e) of this section, but excluding a plant specified in paragraph (g) of this...

  3. 7 CFR 1007.7 - Pool plant.

    Science.gov (United States)

    2010-01-01

    ... 7 Agriculture 9 2010-01-01 2009-01-01 true Pool plant. 1007.7 Section 1007.7 Agriculture... Handling Definitions § 1007.7 Pool plant. Pool plant means a plant specified in paragraphs (a) through (d) of this section, a unit of plants as specified in paragraph (e) of this section, or a plant...

  4. 7 CFR 1005.7 - Pool plant.

    Science.gov (United States)

    2010-01-01

    ... 7 Agriculture 9 2010-01-01 2009-01-01 true Pool plant. 1005.7 Section 1005.7 Agriculture... Handling Definitions § 1005.7 Pool plant. Pool plant means a plant specified in paragraphs (a) through (d) of this section, a unit of plants as specified in paragraph (e) of this section, or a plant...

  5. 7 CFR 1001.7 - Pool plant.

    Science.gov (United States)

    2010-01-01

    ... 7 Agriculture 9 2010-01-01 2009-01-01 true Pool plant. 1001.7 Section 1001.7 Agriculture... Handling Definitions § 1001.7 Pool plant. Pool plant means a plant, unit of plants, or system of plants as specified in paragraphs (a) through (f) of this section, but excluding a plant described in paragraph (h)...

  6. 7 CFR 1006.7 - Pool plant.

    Science.gov (United States)

    2010-01-01

    ... 7 Agriculture 9 2010-01-01 2009-01-01 true Pool plant. 1006.7 Section 1006.7 Agriculture... Handling Definitions § 1006.7 Pool plant. Pool plant means a plant specified in paragraphs (a) through (d) of this section, a unit of plants as specified in paragraph (e) of this section, or a plant...

  7. 7 CFR 1030.7 - Pool plant.

    Science.gov (United States)

    2010-01-01

    ... 7 Agriculture 9 2010-01-01 2009-01-01 true Pool plant. 1030.7 Section 1030.7 Agriculture... Handling Definitions § 1030.7 Pool plant. Pool plant means a plant, unit of plants, or system of plants as specified in paragraphs (a) through (f) of this section, but excluding a plant specified in paragraph (h)...

  8. POOL development status and production experience

    CERN Document Server

    Chytracek, R; Frank, M; Girone, M; Govi, G; Moscicki, J T; Papadopoulos, I; Schmücker, H; Karr, K; Malon, D; Vaniachine, A; Tanenbaum, W; Xie, Z; Barrass, T; Cioffi, C; IT

    2005-01-01

    The pool of persistent objects for LHC (POOL) project, part of the large Hadron collider (LHC) computing grid (LCG), is now entering its third year of active development. POOL provides the baseline persistency framework for three LHC experiments. It is based on a strict component model, insulating experiment software from a variety of storage technologies. This paper gives a brief overview of the POOL architecture, its main design principles and the experience gained with integration into LHC experiment frameworks. It also presents recent developments in the POOL works areas of relational database abstraction and object storage into relational database management systems (RDBMS) systems.

  9. Patent Pools: Intellectual Property Rights and Competition

    Science.gov (United States)

    Rodriguez, Victor

    2010-01-01

    Patent pools do not correct all problems associated with patent thickets. In this respect, patent pools might not stop the outsider problem from striking pools. Moreover, patent pools can be expensive to negotiate, can exclude patent holders with smaller numbers of patents or enable a group of major players to form a cartel that excludes new competitors. For all the above reasons, patent pools are subject to regulatory clearance because they could result in a monopoly. The aim of this article is to present the relationship between patents and competition in a broad context. PMID:20200607

  10. Large-scale pool fires

    Directory of Open Access Journals (Sweden)

    Steinhaus Thomas

    2007-01-01

    Full Text Available A review of research into the burning behavior of large pool fires and fuel spill fires is presented. The features which distinguish such fires from smaller pool fires are mainly associated with the fire dynamics at low source Froude numbers and the radiative interaction with the fire source. In hydrocarbon fires, higher soot levels at increased diameters result in radiation blockage effects around the perimeter of large fire plumes; this yields lower emissive powers and a drastic reduction in the radiative loss fraction; whilst there are simplifying factors with these phenomena, arising from the fact that soot yield can saturate, there are other complications deriving from the intermittency of the behavior, with luminous regions of efficient combustion appearing randomly in the outer surface of the fire according the turbulent fluctuations in the fire plume. Knowledge of the fluid flow instabilities, which lead to the formation of large eddies, is also key to understanding the behavior of large-scale fires. Here modeling tools can be effectively exploited in order to investigate the fluid flow phenomena, including RANS- and LES-based computational fluid dynamics codes. The latter are well-suited to representation of the turbulent motions, but a number of challenges remain with their practical application. Massively-parallel computational resources are likely to be necessary in order to be able to adequately address the complex coupled phenomena to the level of detail that is necessary.

  11. Bioreactor scale up and protein product quality characterization of piggyBac transposon derived CHO pools.

    Science.gov (United States)

    Rajendra, Yashas; Balasubramanian, Sowmya; Peery, Robert B; Swartling, James R; McCracken, Neil A; Norris, Dawn L; Frye, Christopher C; Barnard, Gavin C

    2017-03-01

    Chinese hamster ovary (CHO) cells remain the most popular host for the production of biopharmaceutical drugs, particularly monoclonal antibodies (mAbs), bispecific antibodies, and Fc-fusion proteins. Creating and characterizing the stable CHO clonally-derived cell lines (CDCLs) needed to manufacture these therapeutic proteins is a lengthy and laborious process. Therefore, CHO pools have increasingly been used to rapidly produce protein to support and enable preclinical drug development. We recently described the generation of CHO pools yielding mAb titers as high as 7.6 g/L in a 16 day bioprocess using piggyBac transposon-mediated gene integration. In this study, we wanted to understand why the piggyBac pool titers were significantly higher (2-10 fold) than the control CHO pools. Higher titers were the result of a combination of increased average gene copy number, significantly higher messenger RNA levels and the homogeneity (i.e. less diverse population distribution) of the piggyBac pools, relative to the control pools. In order to validate the use of piggyBac pools to support preclinical drug development, we then performed an in-depth product quality analysis of purified protein. The product quality of protein obtained from the piggyBac pools was very similar to the product quality profile of protein obtained from the control pools. Finally, we demonstrated the scalability of these pools from shake flasks to 36L bioreactors. Overall, these results suggest that gram quantities of therapeutic protein can be rapidly obtained from piggyBac CHO pools without significantly changing product quality attributes. © 2017 American Institute of Chemical Engineers Biotechnol. Prog., 33:534-540, 2017. © 2017 American Institute of Chemical Engineers.

  12. Genetic variation in the immunosuppression pathway genes and breast cancer susceptibility: a pooled analysis of 42,510 cases and 40,577 controls from the Breast Cancer Association Consortium.

    Science.gov (United States)

    Lei, Jieping; Rudolph, Anja; Moysich, Kirsten B; Behrens, Sabine; Goode, Ellen L; Bolla, Manjeet K; Dennis, Joe; Dunning, Alison M; Easton, Douglas F; Wang, Qin; Benitez, Javier; Hopper, John L; Southey, Melissa C; Schmidt, Marjanka K; Broeks, Annegien; Fasching, Peter A; Haeberle, Lothar; Peto, Julian; Dos-Santos-Silva, Isabel; Sawyer, Elinor J; Tomlinson, Ian; Burwinkel, Barbara; Marmé, Frederik; Guénel, Pascal; Truong, Thérèse; Bojesen, Stig E; Flyger, Henrik; Nielsen, Sune F; Nordestgaard, Børge G; González-Neira, Anna; Menéndez, Primitiva; Anton-Culver, Hoda; Neuhausen, Susan L; Brenner, Hermann; Arndt, Volker; Meindl, Alfons; Schmutzler, Rita K; Brauch, Hiltrud; Hamann, Ute; Nevanlinna, Heli; Fagerholm, Rainer; Dörk, Thilo; Bogdanova, Natalia V; Mannermaa, Arto; Hartikainen, Jaana M; Van Dijck, Laurien; Smeets, Ann; Flesch-Janys, Dieter; Eilber, Ursula; Radice, Paolo; Peterlongo, Paolo; Couch, Fergus J; Hallberg, Emily; Giles, Graham G; Milne, Roger L; Haiman, Christopher A; Schumacher, Fredrick; Simard, Jacques; Goldberg, Mark S; Kristensen, Vessela; Borresen-Dale, Anne-Lise; Zheng, Wei; Beeghly-Fadiel, Alicia; Winqvist, Robert; Grip, Mervi; Andrulis, Irene L; Glendon, Gord; García-Closas, Montserrat; Figueroa, Jonine; Czene, Kamila; Brand, Judith S; Darabi, Hatef; Eriksson, Mikael; Hall, Per; Li, Jingmei; Cox, Angela; Cross, Simon S; Pharoah, Paul D P; Shah, Mitul; Kabisch, Maria; Torres, Diana; Jakubowska, Anna; Lubinski, Jan; Ademuyiwa, Foluso; Ambrosone, Christine B; Swerdlow, Anthony; Jones, Michael; Chang-Claude, Jenny

    2016-01-01

    Immunosuppression plays a pivotal role in assisting tumors to evade immune destruction and promoting tumor development. We hypothesized that genetic variation in the immunosuppression pathway genes may be implicated in breast cancer tumorigenesis. We included 42,510 female breast cancer cases and 40,577 controls of European ancestry from 37 studies in the Breast Cancer Association Consortium (2015) with available genotype data for 3595 single nucleotide polymorphisms (SNPs) in 133 candidate genes. Associations between genotyped SNPs and overall breast cancer risk, and secondarily according to estrogen receptor (ER) status, were assessed using multiple logistic regression models. Gene-level associations were assessed based on principal component analysis. Gene expression analyses were conducted using RNA sequencing level 3 data from The Cancer Genome Atlas for 989 breast tumor samples and 113 matched normal tissue samples. SNP rs1905339 (A>G) in the STAT3 region was associated with an increased breast cancer risk (per allele odds ratio 1.05, 95 % confidence interval 1.03-1.08; p value = 1.4 × 10(-6)). The association did not differ significantly by ER status. On the gene level, in addition to TGFBR2 and CCND1, IL5 and GM-CSF showed the strongest associations with overall breast cancer risk (p value = 1.0 × 10(-3) and 7.0 × 10(-3), respectively). Furthermore, STAT3 and IL5 but not GM-CSF were differentially expressed between breast tumor tissue and normal tissue (p value = 2.5 × 10(-3), 4.5 × 10(-4) and 0.63, respectively). Our data provide evidence that the immunosuppression pathway genes STAT3, IL5, and GM-CSF may be novel susceptibility loci for breast cancer in women of European ancestry.

  13. Radioisotope Power System Pool Concept

    Science.gov (United States)

    Rusick, Jeffrey J.; Bolotin, Gary S.

    2015-01-01

    Advanced Radioisotope Power Systems (RPS) for NASA deep space science missions have historically used static thermoelectric-based designs because they are highly reliable, and their radioisotope heat sources can be passively cooled throughout the mission life cycle. Recently, a significant effort to develop a dynamic RPS, the Advanced Stirling Radioisotope Generator (ASRG), was conducted by NASA and the Department of Energy, because Stirling based designs offer energy conversion efficiencies four times higher than heritage thermoelectric designs; and the efficiency would proportionately reduce the amount of radioisotope fuel needed for the same power output. However, the long term reliability of a Stirling based design is a concern compared to thermoelectric designs, because for certain Stirling system architectures the radioisotope heat sources must be actively cooled via the dynamic operation of Stirling converters throughout the mission life cycle. To address this reliability concern, a new dynamic Stirling cycle RPS architecture is proposed called the RPS Pool Concept.

  14. A sulphur deficiency-induced gene, sdi1, involved in the utilization of stored sulphate pools under sulphur-limiting conditions has potential as a diagnostic indicator of sulphur nutritional status.

    Science.gov (United States)

    Howarth, Jonathan R; Parmar, Saroj; Barraclough, Peter B; Hawkesford, Malcolm J

    2009-02-01

    A sulphate deficiency-induced gene, sdi1, has been identified by cDNA-amplified fragment length polymorphism (AFLP) analysis utilizing field-grown, nutrient-deficient wheat (Triticum aestivum var. Hereward). The expression of sdi1 was specifically induced in leaf and root tissues in response to sulphate deficiency, but was not induced by nitrogen, phosphorus, potassium or magnesium deficiency. Expression was also shown to increase in plant tissues as the external sulphate concentration in hydroponically grown plants was reduced from 1.0 to 0.0 mm. On this basis, sdi1 gene expression has potential as a sensitive indicator of sulphur nutritional status in wheat. Genome-walking techniques were used to clone the 2.7-kb region upstream of sdi1 from genomic DNA, revealing several cis-element motifs previously identified as being associated with sulphur responses in plants. The Arabidopsis thaliana gene most highly homologous to sdi1 is At5g48850, which was also demonstrated to be induced by sulphur deficiency, an observation confirmed by the analysis of microarray data available in the public domain. The expression of Atsdi1 was induced more rapidly than previously characterized sulphur-responsive genes in the period immediately following the transfer of plants to sulphur-deficient medium. Atsdi1 T-DNA 'knockout' mutants were shown to maintain higher tissue sulphate concentrations than wild-type plants under sulphur-limiting conditions, indicating a role in the utilization of stored sulphate under sulphur-deficient conditions. The structural features of the sdi1 gene and its application in the genetic determination of the sulphur nutritional status of wheat crops are discussed.

  15. Comparative Genomics of Four Isosphaeraceae Planctomycetes: A Common Pool of Plasmids and Glycoside Hydrolase Genes Shared by Paludisphaera borealis PX4T, Isosphaera pallida IS1BT, Singulisphaera acidiphila DSM 18658T, and Strain SH-PL62

    Science.gov (United States)

    Ivanova, Anastasia A.; Naumoff, Daniil G.; Miroshnikov, Kirill K.; Liesack, Werner; Dedysh, Svetlana N.

    2017-01-01

    The family Isosphaeraceae accommodates stalk-free planctomycetes with spherical cells, which can be assembled in short chains, long filaments, or aggregates. These bacteria inhabit a wide variety of terrestrial environments, among those the recently described Paludisphaera borealis PX4T that was isolated from acidic boreal wetlands. Here, we analyzed its finished genome in comparison to those of three other members of the Isosphaeraceae: Isosphaera pallida IS1BT, Singulisphaera acidiphila DSM 18658T, and the uncharacterized planctomycete strain SH-PL62. The complete genome of P. borealis PX4T consists of a 7.5 Mb chromosome and two plasmids, 112 and 43 kb in size. Annotation of the genome sequence revealed 5802 potential protein-coding genes of which 2775 could be functionally assigned. The genes encoding metabolic pathways common for chemo-organotrophic bacteria, such as glycolysis, citrate cycle, pentose-phosphate pathway, and oxidative phosphorylation were identified. Several genes involved in the synthesis of peptidoglycan as well as N-methylated ornithine lipids were present in the genome of P. borealis PX4T. A total of 26 giant genes with a size >5 kb were detected. The genome encodes a wide repertoire of carbohydrate-active enzymes (CAZymes) including 44 glycoside hydrolases (GH) and 83 glycosyltransferases (GT) affiliated with 21 and 13 CAZy families, respectively. The most-represented families are GH5, GH13, GH57, GT2, GT4, and GT83. The experimentally determined carbohydrate utilization pattern agrees well with the genome-predicted capabilities. The CAZyme repertoire in P. borealis PX4T is highly similar to that in the uncharacterized planctomycete SH-PL62 and S. acidiphila DSM 18658T, but different to that in the thermophile I. pallida IS1BT. The latter strain has a strongly reduced CAZyme content. In P. borealis PX4T, many of its CAZyme genes are organized in clusters. Contrary to most other members of the order Planctomycetales, all four analyzed

  16. Comparative Genomics of Four Isosphaeraceae Planctomycetes: A Common Pool of Plasmids and Glycoside Hydrolase Genes Shared by Paludisphaera borealis PX4(T), Isosphaera pallida IS1B(T), Singulisphaera acidiphila DSM 18658(T), and Strain SH-PL62.

    Science.gov (United States)

    Ivanova, Anastasia A; Naumoff, Daniil G; Miroshnikov, Kirill K; Liesack, Werner; Dedysh, Svetlana N

    2017-01-01

    The family Isosphaeraceae accommodates stalk-free planctomycetes with spherical cells, which can be assembled in short chains, long filaments, or aggregates. These bacteria inhabit a wide variety of terrestrial environments, among those the recently described Paludisphaera borealis PX4(T) that was isolated from acidic boreal wetlands. Here, we analyzed its finished genome in comparison to those of three other members of the Isosphaeraceae: Isosphaera pallida IS1B(T), Singulisphaera acidiphila DSM 18658(T), and the uncharacterized planctomycete strain SH-PL62. The complete genome of P. borealis PX4(T) consists of a 7.5 Mb chromosome and two plasmids, 112 and 43 kb in size. Annotation of the genome sequence revealed 5802 potential protein-coding genes of which 2775 could be functionally assigned. The genes encoding metabolic pathways common for chemo-organotrophic bacteria, such as glycolysis, citrate cycle, pentose-phosphate pathway, and oxidative phosphorylation were identified. Several genes involved in the synthesis of peptidoglycan as well as N-methylated ornithine lipids were present in the genome of P. borealis PX4(T). A total of 26 giant genes with a size >5 kb were detected. The genome encodes a wide repertoire of carbohydrate-active enzymes (CAZymes) including 44 glycoside hydrolases (GH) and 83 glycosyltransferases (GT) affiliated with 21 and 13 CAZy families, respectively. The most-represented families are GH5, GH13, GH57, GT2, GT4, and GT83. The experimentally determined carbohydrate utilization pattern agrees well with the genome-predicted capabilities. The CAZyme repertoire in P. borealis PX4(T) is highly similar to that in the uncharacterized planctomycete SH-PL62 and S. acidiphila DSM 18658(T), but different to that in the thermophile I. pallida IS1B(T). The latter strain has a strongly reduced CAZyme content. In P. borealis PX4(T), many of its CAZyme genes are organized in clusters. Contrary to most other members of the order Planctomycetales, all

  17. GIPP: Geophysical Instrument Pool Potsdam

    Directory of Open Access Journals (Sweden)

    Christian Haberland

    2016-04-01

    Full Text Available The Geophysical Instrument Pool Potsdam (GIPP consists of field instruments, sensors and equipment for temporary seismological studies (both controlled source and earthquake seismology as well as for magnetotelluric (electromagnetic experiments. These instruments are mainly mobile digital recorders, broadband seis­mometers and short period sensors, and they are used to reveal the subsurface structure and to investigate earth­quakes. Sensors for magnetotellurics include induction coil and fluxgate magnetometers and non-polarizing silver / silver-chloride electrodes. It is operated by the Helmholtz Centre Potsdam GFZ German Research Centre for Geosciences. The instru­ment facility is open to all academic applicants, both national and international. Instrument applications are evalu­ated and ranked by an external steering board. Currently, for seismological applications >850 geophysical recorders, >170 broadband seis­mo­meters and >1300 short period geophones are available (among others. Available for magnetotelluric experiments are > 50 real-time data-loggers, >150 induction coils, and >500 electrodes. User guidelines and data policy are in force and data archives are provided (standard exchange formats.

  18. Microbiological analysis in three diverse natural geothermal bathing pools in Iceland.

    Science.gov (United States)

    Thorolfsdottir, Berglind Osk Th; Marteinsson, Viggo Thor

    2013-03-14

    Natural thermal bathing pools contain geothermal water that is very popular to bathe in but the water is not sterilized, irradiated or treated in any way. Increasing tourism in Iceland will lead to increasing numbers of bath guests, which can in turn affect the microbial flora in the pools and therefore user safety. Today, there is no legislation that applies to natural geothermal pools in Iceland, as the water is not used for consumption and the pools are not defined as public swimming pools. In this study, we conducted a microbiological analysis on three popular but different natural pools in Iceland, located at Lýsuhóll, Hveravellir and Landmannalaugar. Total bacterial counts were performed by flow cytometry, and with plate count at 22 °C, 37 °C and 50 °C. The presence of viable coliforms, Enterococcus spp. and pseudomonads were investigated by growth experiments on selective media. All samples were screened for noroviruses by real time PCR. The results indicate higher fecal contamination in the geothermal pools where the geothermal water flow was low and bathing guest count was high during the day. The number of cultivated Pseudomonas spp. was high (13,000-40,000 cfu/100 mL) in the natural pools, and several strains were isolated and classified as opportunistic pathogens. Norovirus was not detected in the three pools. DNA was extracted from one-liter samples in each pool and analyzed by partial 16S rRNA gene sequencing. Microbial diversity analysis revealed different microbial communities between the pools and they were primarily composed of alpha-, beta- and gammaproteobacteria.

  19. Microbiological Analysis in Three Diverse Natural Geothermal Bathing Pools in Iceland

    Directory of Open Access Journals (Sweden)

    Berglind Osk Th. Thorolfsdottir

    2013-03-01

    Full Text Available Natural thermal bathing pools contain geothermal water that is very popular to bathe in but the water is not sterilized, irradiated or treated in any way. Increasing tourism in Iceland will lead to increasing numbers of bath guests, which can in turn affect the microbial flora in the pools and therefore user safety. Today, there is no legislation that applies to natural geothermal pools in Iceland, as the water is not used for consumption and the pools are not defined as public swimming pools. In this study, we conducted a microbiological analysis on three popular but different natural pools in Iceland, located at Lýsuhóll, Hveravellir and Landmannalaugar. Total bacterial counts were performed by flow cytometry, and with plate count at 22 °C, 37 °C and 50 °C. The presence of viable coliforms, Enterococcus spp. and pseudomonads were investigated by growth experiments on selective media. All samples were screened for noroviruses by real time PCR. The results indicate higher fecal contamination in the geothermal pools where the geothermal water flow was low and bathing guest count was high during the day. The number of cultivated Pseudomonas spp. was high (13,000–40,000 cfu/100 mL in the natural pools, and several strains were isolated and classified as opportunistic pathogens. Norovirus was not detected in the three pools. DNA was extracted from one-liter samples in each pool and analyzed by partial 16S rRNA gene sequencing. Microbial diversity analysis revealed different microbial communities between the pools and they were primarily composed of alpha-, beta- and gammaproteobacteria.

  20. Multigene expression in stable CHO cell pools generated with the piggyBac transposon system.

    Science.gov (United States)

    Balasubramanian, Sowmya; Wurm, Florian M; Hacker, David L

    2016-09-01

    Heterogenous populations of recombinant cells (cell pools) stably expressing 1-4 transgenes were generated from Chinese hamster overy (CHO) cells with the piggyBac (PB) transposon system. The cell pools produced different combinations of three model proteins-enhanced green fluorescent protein (EGFP), secreted alkaline phosphatase (SEAP), and a monoclonal IgG1 antibody. Each transgene was present on a separate PB donor plasmid with either the same or a different selection gene. In both cases, we obtained PB-derived cell pools with higher recombinant protein yields than from cell pools generated by conventional gene delivery. In PB-derived cell pools generated using a single selection agent, both protein production and the number of integrated copies of each transgene declined as the number of transfected transgenes increased. However, the total number of integrated transgenes was similar regardless of the number of different transgenes transfected. For PB-derived cell pools generated by selection of each transgene with a different selection agent, the total number of integrated transgenes increased with the number of transfected transgenes. The results suggest that the generation of cell pools producing multiple recombinant proteins is feasible and that the method is more efficient when each individual transgene is selected with a different marker. © 2016 American Institute of Chemical Engineers Biotechnol. Prog., 32:1308-1317, 2016.

  1. Sulfur cycling in two Dutch moorland pools

    NARCIS (Netherlands)

    Marnette, E.C.L.

    1993-01-01

    Due to atmospheric acid deposition, the chemistry of many moorland pools has changed, resulting in changes in their fauna and flora. Most moorland pools are sensitive to acid loading because underlying and surrounding soils are low in chemical buffering capacity. Biological processes in the

  2. 10 CFR 36.33 - Irradiator pools.

    Science.gov (United States)

    2010-01-01

    ... 10 Energy 1 2010-01-01 2010-01-01 false Irradiator pools. 36.33 Section 36.33 Energy NUCLEAR REGULATORY COMMISSION LICENSES AND RADIATION SAFETY REQUIREMENTS FOR IRRADIATORS Design and Performance... indicator must be provided in a clearly visible location to indicate if the pool water level is below the...

  3. Sulfur cycling in two Dutch moorland pools.

    NARCIS (Netherlands)

    Marnette, E.C.L.

    1993-01-01

    Due to atmospheric acid deposition, the chemistry of many moorland pools has changed, resulting in changes in their fauna and flora. Most moorland pools are sensitive to acid loading because underlying and surrounding soils are low in chemical buffering capacity. Biological processes in the sediment

  4. Pool scrubbing models for iodine components

    Energy Technology Data Exchange (ETDEWEB)

    Fischer, K. [Battelle Ingenieurtechnik GmbH, Eschborn (Germany)

    1996-12-01

    Pool scrubbing is an important mechanism to retain radioactive fission products from being carried into the containment atmosphere or into the secondary piping system. A number of models and computer codes has been developed to predict the retention of aerosols and fission product vapours that are released from the core and injected into water pools of BWR and PWR type reactors during severe accidents. Important codes in this field are BUSCA, SPARC and SUPRA. The present paper summarizes the models for scrubbing of gaseous Iodine components in these codes, discusses the experimental validation, and gives an assessment of the state of knowledge reached and the open questions which persist. The retention of gaseous Iodine components is modelled by the various codes in a very heterogeneous manner. Differences show up in the chemical species considered, the treatment of mass transfer boundary layers on the gaseous and liquid sides, the gas-liquid interface geometry, calculation of equilibrium concentrations and numerical procedures. Especially important is the determination of the pool water pH value. This value is affected by basic aerosols deposited in the water, e.g. Cesium and Rubidium compounds. A consistent model requires a mass balance of these compounds in the pool, thus effectively coupling the pool scrubbing phenomena of aerosols and gaseous Iodine species. Since the water pool conditions are also affected by drainage flow of condensate water from different regions in the containment, and desorption of dissolved gases on the pool surface is determined by the gas concentrations above the pool, some basic limitations of specialized pool scrubbing codes are given. The paper draws conclusions about the necessity of coupling between containment thermal-hydraulics and pool scrubbing models, and proposes ways of further simulation model development in order to improve source term predictions. (author) 2 tabs., refs.

  5. Gene

    Data.gov (United States)

    U.S. Department of Health & Human Services — Gene integrates information from a wide range of species. A record may include nomenclature, Reference Sequences (RefSeqs), maps, pathways, variations, phenotypes,...

  6. SAFETY AND MANAGEMENT OF SWIMING POOLS

    Directory of Open Access Journals (Sweden)

    Cemal GÜNDOĞDU

    2008-04-01

    Full Text Available In this study,it was investigated the situation related to the safety and management of swimming pools belongs to municipality This study was planned to determine the present situation related to the safety and management of open,half-olympic and closed swimming pools which are especially used for sports activities,to find out the deficiencies in practise and to overcome these.Our study included totally 80 open,closed,olympic, half-olympic public swimming pools(the pools that belongs to municipality,private administration and university,the colleges connected to the ministry of education, Military schools and police college.In our research,search,natural observation and meeting methods were used.In accordance with this aim the checklist questions,which were prepared for health and safety controls in swimming pools, were tested on the people by face-to-face meeting method. While the statistical evaluation of the available results were being done,frequency and percentage dispersion obtained from checklist was found.It was found that the 52 % of the training and lifeguard choise of the pools in Turkey,64 % of the emergency action equipment,71 % of the signs and signboards for the safety of the pool,75 % of the pool edge and its surroundings are not suitable for the standards and that these threaten the swimmers health importantly.Consequently,we are in the opinion that the pool staff should receive the periodical training about the first aid and using emergency situation equipment.And it is necessary that the Ministry Responsible for sports,Ministry of Interior,Ministry of Health,Ministry of Tourism be cooperate with water sports federations and the related civil society organizationsKey Words: .

  7. LCG POOL development status and production experience

    CERN Document Server

    Chytracek, Radovan; Cioffi, Carmine; Düllmann, Dirk; Frank, Markus; Girone, Maria; Govi, Giacomo; Karr, Kristo; Malon, David; Moscicki, Jakub T; Papadopoulos, Ioannis M; Schmücker, H; Tanenbaum, William; Vaniachine, A; Xie Zhen

    2004-01-01

    The POOL project, as a part of the LHC Computing Grid (LCG), is now entering its third year of active development POOL provides the baseline persistency framework for three LHC experiment and is based on a strict component model, insulating experiment software from a variety of storage technology choices. This paper gives a brief overview of the POOL architecture, its main design principles and the experience gained with integration into LHC experiment frameworks. In also presents recent developments in the area of relational database abstraction and object storage into RDBMS systems.

  8. Airways disorders and the swimming pool.

    Science.gov (United States)

    Bougault, Valérie; Boulet, Louis-Philippe

    2013-08-01

    Concerns have been expressed about the possible detrimental effects of chlorine derivatives in indoor swimming pool environments. Indeed, a controversy has arisen regarding the possibility that chlorine commonly used worldwide as a disinfectant favors the development of asthma and allergic diseases. The effects of swimming in indoor chlorinated pools on the airways in recreational and elite swimmers are presented. Recent studies on the influence of swimming on airway inflammation and remodeling in competitive swimmers, and the phenotypic characteristics of asthma in this population are reviewed. Preventative measures that could potentially reduce the untoward effects of pool environment on airways of swimmers are discussed. Copyright © 2013 Elsevier Inc. All rights reserved.

  9. Spectrum pooling in MnWave Networks

    DEFF Research Database (Denmark)

    Boccardi, Federico; Shokri-Ghadikolaei, Hossein; Fodor, Gabor

    2016-01-01

    the benefit of coordination among networks of different operators, study the impact of beamforming at both base stations and user terminals, and analyze the pooling performance at different frequency carriers. We also discuss the enabling spectrum mechanisms, architectures, and protocols required to make...... spectrum pooling work in real networks. Our initial results show that, from a technical perspective, spectrum pooling at mmWave has the potential to use the resources more efficiently than traditional exclusive spectrum allocation to a single operator. However, further studies are needed in order to reach...... a thorough understanding of this matter, and we hope that this article will help stimulate further research in this area....

  10. Weld pool visual sensing without external illumination

    DEFF Research Database (Denmark)

    Liu, Jinchao; Fan, Zhun; Olsen, Soren Ingvor

    2011-01-01

    Visual sensing in arc welding has become more and more important, but still remains challenging because of the harsh environment with extremely strong illumination from the arc. This paper presents a low-cost camera-based sensor system, without using external Illumination, but nevertheless able...... to sense and model the weld pool. Central is a carefully selected optical filtering as well as an active contour-based tracking of the weld pool boundary. The system is able to extract the 2D shape of the weld pool in real time. The reported experiments show the feasibility of this approach....

  11. 10 CFR 36.63 - Pool water purity.

    Science.gov (United States)

    2010-01-01

    ... § 36.63 Pool water purity. (a) Pool water purification system must be run sufficiently to maintain the conductivity of the pool water below 20 microsiemens per centimeter under normal circumstances. If pool water... 10 Energy 1 2010-01-01 2010-01-01 false Pool water purity. 36.63 Section 36.63 Energy...

  12. MMAPPR: mutation mapping analysis pipeline for pooled RNA-seq.

    Science.gov (United States)

    Hill, Jonathon T; Demarest, Bradley L; Bisgrove, Brent W; Gorsi, Bushra; Su, Yi-Chu; Yost, H Joseph

    2013-04-01

    Forward genetic screens in model organisms are vital for identifying novel genes essential for developmental or disease processes. One drawback of these screens is the labor-intensive and sometimes inconclusive process of mapping the causative mutation. To leverage high-throughput techniques to improve this mapping process, we have developed a Mutation Mapping Analysis Pipeline for Pooled RNA-seq (MMAPPR) that works without parental strain information or requiring a preexisting SNP map of the organism, and adapts to differential recombination frequencies across the genome. MMAPPR accommodates the considerable amount of noise in RNA-seq data sets, calculates allelic frequency by Euclidean distance followed by Loess regression analysis, identifies the region where the mutation lies, and generates a list of putative coding region mutations in the linked genomic segment. MMAPPR can exploit RNA-seq data sets from isolated tissues or whole organisms that are used for gene expression and transcriptome analysis in novel mutants. We tested MMAPPR on two known mutant lines in zebrafish, nkx2.5 and tbx1, and used it to map two novel ENU-induced cardiovascular mutants, with mutations found in the ctr9 and cds2 genes. MMAPPR can be directly applied to other model organisms, such as Drosophila and Caenorhabditis elegans, that are amenable to both forward genetic screens and pooled RNA-seq experiments. Thus, MMAPPR is a rapid, cost-efficient, and highly automated pipeline, available to perform mutant mapping in any organism with a well-assembled genome.

  13. Identification of susceptibility genes for aortic dissection using pooling-based genomewide association scans%DNA混合池技术全基因组关联研究筛查主动脉夹层易感基因的研究

    Institute of Scientific and Technical Information of China (English)

    陈逸飞; 钟诗龙; 罗建方; 薛凌; 黎明; 胡孜阳

    2012-01-01

    Objective To identify novel susceptibility loci for aortic dissection. Methods 150 patients with aortic dissection were involved as case group and 250 volunteers as control group. Illumina Human660W-Quad v1.0 DNA Analysis BeadChip Kit with DNA pooling was used in the screening stage, and 5 high-ranked single nucleotide polymorphisms (SNPs) were included in this panel. Results Results showed that the number of women in the control group was significantly more than that in the case group (P0.05). Variants SNPs rs2970873 in the PPARGC1A gene, rs 12678080 in the SGCZ gene, rs489526 in the UNC13C gene, rs6928665 in the TRAM2 gene and rs 17837003 in the ACCN1 gene may be related to the incidence of aortic dissection. Conclusions Pooling-based genome-wide association scans has been shown to be a cost-efficient way to select candidate susceptibility loci. Variants SNPs rs2970873, rsl2678080, rs489526, rs6928665 and rsl7837003 were found having increased susceptibility with aortic dissection.%目的 筛选主动脉夹层发病机制相关的遗传易感基因.方法 选取主动脉夹层患者为病例组(150例),按照性别、年龄、是否吸烟、合并高血压、糖尿病情况与病例组匹配的原则入选排除主动脉夹层、重大心血管疾病及肿瘤的志愿者为对照组(250例),均从外周血提取基因组DNA,采用DNA混合池技术为基础的Illumina Human660W-Quad芯片扫描,筛选主动脉夹层发病相关的遗传易感基因.结果 对照组女性数量明显多于病例组(P<0.01);在年龄、吸烟、高血压、糖尿病人数方面差异均无统计学意义(P>0.05).根据芯片扫描结果,挑选silhouette width计算值大于0.7,最小等位基因频率(MAF)大于0.05,且SNPs位于已知名称基因上的前5个SNPs位点.结果发现,遗传变异位点SNP rs2970873(位于PPARGC1A基因)、SNPrs12678080(位于SGCZ基因)、SNP rs489526(位于UNC13C基因)、SNP rs6928665(位于TRAM2基因)和SNP rs17837003(位于ACCN1基因

  14. Genotyping common and rare variation using overlapping pool sequencing

    Directory of Open Access Journals (Sweden)

    Pasaniuc Bogdan

    2011-07-01

    Full Text Available Abstract Background Recent advances in sequencing technologies set the stage for large, population based studies, in which the ANA or RNA of thousands of individuals will be sequenced. Currently, however, such studies are still infeasible using a straightforward sequencing approach; as a result, recently a few multiplexing schemes have been suggested, in which a small number of ANA pools are sequenced, and the results are then deconvoluted using compressed sensing or similar approaches. These methods, however, are limited to the detection of rare variants. Results In this paper we provide a new algorithm for the deconvolution of DNA pools multiplexing schemes. The presented algorithm utilizes a likelihood model and linear programming. The approach allows for the addition of external data, particularly imputation data, resulting in a flexible environment that is suitable for different applications. Conclusions Particularly, we demonstrate that both low and high allele frequency SNPs can be accurately genotyped when the DNA pooling scheme is performed in conjunction with microarray genotyping and imputation. Additionally, we demonstrate the use of our framework for the detection of cancer fusion genes from RNA sequences.

  15. Microbial quality of a marine tidal pool

    CSIR Research Space (South Africa)

    Genthe, Bettina

    1995-01-01

    Full Text Available In this study the source of microbial pollution to a tidal pool was investigated. Both adjacent seawater which could contribute to possible faecal pollution and potential direct bather pollution were studied. The microbial quality of the marine...

  16. Ingestion of swimming pool water by recreational

    Data.gov (United States)

    U.S. Environmental Protection Agency — Swimming pool water ingestion data. This dataset is associated with the following publication: Dufour, A., L. Wymer, M. Magnuson, T. Behymer, and R. Cantu. Ingestion...

  17. Tehas teisel pool Kuud / Gert Kiiler

    Index Scriptorium Estoniae

    Kiiler, Gert

    2009-01-01

    Tartu Ülikooli Viljandi kultuuriakadeemia teatrikunsti tudengite seitsmendast lennust kõneleva saate "Tehas teisel pool Kuud" tegemisest. Saade Eesti Televisioonis 3. juunil. Produtsent Kadi Katarina Priske, režissöör Elo Selirand

  18. AE/VCE Confirmed Vernal Pools

    Data.gov (United States)

    Vermont Center for Geographic Information — This dataset is derived from a project by the Vermont Center for Ecostudies(VCE) and Arrowwood Environmental(AE) to map vernal pools throughout the state of Vermont....

  19. Robotic cleaning of a spent fuel pool

    Energy Technology Data Exchange (ETDEWEB)

    Roman, H.T.; Marian, F.A. (PSE and G Research Corp., Newark, NJ (US)); Silverman, E.B.; Barkley, V.P. (ARD Corp., Columbia, MD (US))

    1987-05-01

    Spent fuel pools at nuclear power plants are not cleaned routinely, other than by purifying the water that they contain. Yet, debris can collect on the bottom of a pool and should be removed prior to fuel transfer. At Public Service Electric and Gas Company's Hope Creek Nuclear Power Plant, a submersible mobile robot - ARD Corporation's SCAVENGER - was used to clean the bottom of the spent fuel pool prior to initial fuel loading. The robotic device was operated remotely (as opposed to autonomously) with a simple forward/reverse control, and it cleaned 70-80% of the pool bottom. This paper reports that a simple cost-benefit analysis shows that the robotic device would be less expensive, on a per mission basis, than other cleaning alternatives, especially if it were used for other similar cleaning operations throughout the plant.

  20. Analysis of Bitcoin Pooled Mining Reward Systems

    CERN Document Server

    Rosenfeld, Meni

    2011-01-01

    In this paper we describe the various scoring systems used to calculate rewards of participants in Bitcoin pooled mining, explain the problems each were designed to solve and analyze their respective advantages and disadvantages.

  1. How to map your industry's profit pool.

    Science.gov (United States)

    Gadiesh, O; Gilbert, J L

    1998-01-01

    Many managers chart strategy without a full understanding of the sources and distribution of profits in their industry. Sometimes they focus their sights on revenues instead of profits, mistakenly assuming that revenue growth will eventually translate into profit growth. In other cases, they simply lack the data or the analytical tools required to isolate and measure variations in profitability. In this Manager's Tool Kit, the authors present a way to think clearly about where the money's being made in any industry. They describe a framework for analyzing how profits are distributed among the activities that form an industry's value chain. Such an analysis can provide a company's managers with a rich understanding of their industry's profit structure--what the authors call its profit pool--enabling them to identify which activities are generating disproportionately large or small shares of profits. Even more important, a profit-pool map opens a window onto the underlying structure of the industry, helping managers see the various forces that are determining the distribution of profits. As such, a profit-pool map provides a solid basis for strategic thinking. Mapping a profit pool involves four steps: defining the boundaries of the pool, estimating the pool's overall size, estimating the size of each value-chain activity in the pool, and checking and reconciling the calculations. The authors briefly describe each step and then apply the process by providing a detailed example of a hypothetical retail bank. They conclude by looking at ways of organizing the data in chart form as a first step toward plotting a profit-pool strategy.

  2. Pooling strategies for St Petersburg gamblers

    OpenAIRE

    Csörgö, Sandor; Simons, Gordon

    2006-01-01

    Peter offers to play exactly one St Petersburg game with each of [math] players, Paul [math] , [math] , Paul [math] , whose conceivable pooling strategies are described by all possible probability distributions [math] . Comparing infinite expectations, we characterize among all [math] those admissible strategies for which the pooled winnings, each distributed as [math] , yield a finite added value for each and every one of Paul [math] , [math] , Paul [math] in comparison with their individual...

  3. Performance Study of Swimming Pool Heaters

    Energy Technology Data Exchange (ETDEWEB)

    McDonald, R.J.

    2009-01-01

    The objective of this report is to perform a controlled laboratory study on the efficiency and emissions of swimming pool heaters based on a limited field investigation into the range of expected variations in operational parameters. Swimming pool heater sales trends have indicated a significant decline in the number of conventional natural gas-fired swimming pool heaters (NGPH). On Long Island the decline has been quite sharp, on the order of 50%, in new installations since 2001. The major portion of the decline has been offset by a significant increase in the sales of electric powered heat pump pool heaters (HPPH) that have been gaining market favor. National Grid contracted with Brookhaven National Laboratory (BNL) to measure performance factors in order to compare the relative energy, environmental and economic consequences of using one technology versus the other. A field study was deemed inappropriate because of the wide range of differences in actual load variations (pool size), geographic orientations, ground plantings and shading variations, number of hours of use, seasonal use variations, occupancy patterns, hour of the day use patterns, temperature selection, etc. A decision was made to perform a controlled laboratory study based on a limited field investigation into the range of expected operational variations in parameters. Critical to this are the frequency of use, temperature selection, and sizing of the heater to the associated pool heating loads. This would be accomplished by installing a limited amount of relatively simple compact field data acquisition units on selected pool installations. This data included gas usage when available and alternately heater power or gas consumption rates were inferred from the manufacturer's specifications when direct metering was not available in the field. Figure 1 illustrates a typical pool heater installation layout.

  4. Profit pools: a fresh look at strategy.

    Science.gov (United States)

    Gadiesh, O; Gilbert, J L

    1998-01-01

    In charting strategy, many managers focus on revenue growth, assuming that profits will follow. But that approach is dangerous: today's deep revenue pool may become tomorrow's dry hole. To create strategies that result in profitable growth, managers need to look beyond revenues to see the shape of their industry's profit pool. The authors define an industry's profit pool as the total profits earned at all points along the industry's value chain. Although the concept is simple, the structure of a profit pool is usually quite complex. The pool will be deeper in some segments of the value chain than in others, and depths will vary within an individual segment as well. Segment profitability may, for example, vary widely by customer group, product category, geographic market, and distribution channel. Moreover, the pattern of profit concentration in an industry will often be very different from the pattern of revenue concentration. The authors describe how successful companies have gained competitive advantage by developing sophisticated profit-pool strategies. They explain how U-Haul identified new sources of profit in the consumer-truck-rental industry; how Merck reached beyond its traditional value-chain role to protect its profits in the pharmaceuticals industry; how Dell rebounded from a misguided channel decision by refocusing on its traditional source of profit; and how Anheuser-Busch made a series of astute product, pricing, and operating decisions to dominate the beer industry's profit pool. The companies with the best understanding of their industry's profit pool, the authors argue, will be in the best position to thrive over the long term.

  5. Pooling strategies for St Petersburg gamblers

    OpenAIRE

    Csörgö, Sandor; Simons, Gordon

    2006-01-01

    Peter offers to play exactly one St Petersburg game with each of [math] players, Paul [math] , [math] , Paul [math] , whose conceivable pooling strategies are described by all possible probability distributions [math] . Comparing infinite expectations, we characterize among all [math] those admissible strategies for which the pooled winnings, each distributed as [math] , yield a finite added value for each and every one of Paul [math] , [math] , Paul [math] in comparison with their individual...

  6. Welding pool measurement using thermal array sensor

    Science.gov (United States)

    Cho, Chia-Hung; Hsieh, Yi-Chen; Chen, Hsin-Yi

    2015-08-01

    Selective laser melting (SLM) is an additive manufacturing (AM) technology that uses a high-power laser beam to melt metal powder in chamber of inert gas. The process starts by slicing the 3D CAD data as a digital information source into layers to create a 2D image of each layer. Melting pool was formed by using laser irradiation on metal powders which then solidified to consolidated structure. In a selective laser melting process, the variation of melt pool affects the yield of a printed three-dimensional product. For three dimensional parts, the border conditions of the conductive heat transport have a very large influence on the melt pool dimensions. Therefore, melting pool is an important behavior that affects the final quality of the 3D object. To meet the temperature and geometry of the melting pool for monitoring in additive manufacturing technology. In this paper, we proposed the temperature sensing system which is composed of infrared photodiode, high speed camera, band-pass filter, dichroic beam splitter and focus lens. Since the infrared photodiode and high speed camera look at the process through the 2D galvanometer scanner and f-theta lens, the temperature sensing system can be used to observe the melting pool at any time, regardless of the movement of the laser spot. In order to obtain a wide temperature detecting range, 500 °C to 2500 °C, the radiation from the melting pool to be measured is filtered into a plurality of radiation portions, and since the intensity ratio distribution of the radiation portions is calculated by using black-body radiation. The experimental result shows that the system is suitable for melting pool to measure temperature.

  7. Recent advances in probabilistic species pool delineations

    Directory of Open Access Journals (Sweden)

    Dirk Nikolaus Karger

    2016-07-01

    Full Text Available A species pool is the set of species that could potentially colonize and establish within a community. It has been a commonly used concept in biogeography since the early days of MacArthur and Wilson’s work on Island Biogeography. Despite their simple and appealing definition, an operational application of species pools is bundled with a multitude of problems, which have often resulted in arbitrary decisions and workarounds when defining species pools. Two recently published papers address the operational problems of species pool delineations, and show ways of delineating them in a probabilistic fashion. In both papers, species pools were delineated using a process-based, mechanistical approach, which opens the door for a multitude of new applications in biogeography. Such applications include detecting the hidden signature of biotic interactions, disentangling the geographical structure of community assembly processes, and incorporating a temporal extent into species pools. Although similar in their conclusions, both ‘probabilistic approaches’ differ in their implementation and definitions. Here I give a brief overview of the differences and similarities of both approaches, and identify the challenges and advantages in their application.

  8. Registry in a tube: multiplexed pools of retrievable parts for genetic design space exploration.

    Science.gov (United States)

    Woodruff, Lauren B A; Gorochowski, Thomas E; Roehner, Nicholas; Mikkelsen, Tarjei S; Densmore, Douglas; Gordon, D Benjamin; Nicol, Robert; Voigt, Christopher A

    2016-12-21

    Genetic designs can consist of dozens of genes and hundreds of genetic parts. After evaluating a design, it is desirable to implement changes without the cost and burden of starting the construction process from scratch. Here, we report a two-step process where a large design space is divided into deep pools of composite parts, from which individuals are retrieved and assembled to build a final construct. The pools are built via multiplexed assembly and sequenced using next-generation sequencing. Each pool consists of ∼20 Mb of up to 5000 unique and sequence-verified composite parts that are barcoded for retrieval by PCR. This approach is applied to a 16-gene nitrogen fixation pathway, which is broken into pools containing a total of 55 848 composite parts (71.0 Mb). The pools encompass an enormous design space (10(43) possible 23 kb constructs), from which an algorithm-guided 192-member 4.5 Mb library is built. Next, all 10(30) possible genetic circuits based on 10 repressors (NOR/NOT gates) are encoded in pools where each repressor is fused to all permutations of input promoters. These demonstrate that multiplexing can be applied to encompass entire design spaces from which individuals can be accessed and evaluated.

  9. Pyrimidine pool imbalance induced by BLM helicase deficiency contributes to genetic instability in Bloom syndrome.

    Science.gov (United States)

    Chabosseau, Pauline; Buhagiar-Labarchède, Géraldine; Onclercq-Delic, Rosine; Lambert, Sarah; Debatisse, Michelle; Brison, Olivier; Amor-Guéret, Mounira

    2011-06-28

    Defects in DNA replication are associated with genetic instability and cancer development, as illustrated in Bloom syndrome. Features of this syndrome include a slowdown in replication speed, defective fork reactivation and high rates of sister chromatid exchange, with a general predisposition to cancer. Bloom syndrome is caused by mutations in the BLM gene encoding a RecQ helicase. Here we report that BLM deficiency is associated with a strong cytidine deaminase defect, leading to pyrimidine pool disequilibrium. In BLM-deficient cells, pyrimidine pool normalization leads to reduction of sister chromatid exchange frequency and is sufficient for full restoration of replication fork velocity but not the fork restart defect, thus identifying the part of the Bloom syndrome phenotype because of pyrimidine pool imbalance. This study provides new insights into the molecular basis of control of replication speed and the genetic instability associated with Bloom syndrome. Nucleotide pool disequilibrium could be a general phenomenon in a large spectrum of precancerous and cancer cells.

  10. A Review of Selected International Aircraft Spares Pooling Programs: Lessons Learned for F-35 Spares Pooling

    Science.gov (United States)

    2016-01-01

    international military aircraft support program using true spares pooling for which we have any detailed and reliable data, and it is the closest current...for all F77 spares . The remaining non-C-17 unique spares are managed by the Defense Logistics Agency and the Air Force Air Logistics Centers .50...C O R P O R A T I O N Research Report A Review of Selected International Aircraft Spares Pooling Programs Lessons Learned for F-35 Spares Pooling

  11. Stade NPP. Dismantling of the reactor pool

    Energy Technology Data Exchange (ETDEWEB)

    Scharf, Daniel; Dziwis, Joachim [E.ON Anlagenservice GmbH Nukleartechnik, Gelsenkirchen (Germany); Kemp, Lutz-Hagen [KKW Stade GmbH und Co. oHG, Stade (Germany)

    2012-11-01

    Within the scope of the 4{sup th} partial decommissioning permission of Stade NPP the activated and contaminated structures of the reactor pool had to be dismantled in order to gain a completely non-radioactive reactor pool area for the subsequent clearance measurement of the reactor building. In order to achieve the aim it was intended to remove the activated pool liner sheets, its activated framework and several contaminated ventilation channels made of stainless steel, the concrete walls of the reactor pool entirely or in parts depending on their activation level, as well as the remaining activated carbon steel structures of the reactor pool bottom. Embedded in the concrete walls there were several highly contaminated excore tubes and the contaminated pool top edge, which were intended to be removed to its full extent. The contract of the Stade NPP initiated reactor pool dismantling project had been awarded to E.ON Anlagenservice GmbH (EAS) and its subsupplier sat. Kerntechnik GmbH for the concrete dismantling works and was performed as follows. In order to minimize the radiation level in the main working area in accordance with the ALARA principle, the liner sheets and middle parts of its framework were removed by means of angle grinders first, as they were the most dose rate relevant parts. As a result the primary average radiation level in the reactor pool (measured in a distance of 500 mm from the walls) was lowered from 40 {mu}Sv/h to less than 2 {mu}Sv/h. After the minimization of the radiation level in the working area the main dismantling step started with the cutting of the reactor pool walls in blocks by means of diamond rope cutters. Once a concrete block was cut out, it was transported into the fuel pool by means of a crane and crane fork, examined radiologically, marked area by area and segmented to debris by means of an electrical excavator with a hydraulic chisel. Afterwards the debris and carbon steel parts were fractioned and packed for further

  12. Vernal Pool Distribution - Central Valley, 2005 [ds650

    Data.gov (United States)

    California Department of Resources — "Great Valley Vernal Pool Distribution", originally mapped by Bob Holland, 2005. This dataset contains vernal pool areas mapped over Califorina's Central Valley,...

  13. Fecal Carriage of Extended-Spectrum β-Lactamases in Healthy Humans, Poultry, and Wild Birds in León, Nicaragua-A Shared Pool of blaCTX-M Genes and Possible Interspecies Clonal Spread of Extended-Spectrum β-Lactamases-Producing Escherichia coli.

    Science.gov (United States)

    Hasan, Badrul; Laurell, Karl; Rakib, Mufti Mahmud; Ahlstedt, Erik; Hernandez, Jorge; Caceres, Mercedes; Järhult, Josef D

    2016-12-01

    Antibiotic-resistant bacteria are a major concern in the healthcare of today, especially the increasing number of gram-negative bacteria producing β-lactamases such as extended-spectrum β-lactamases (ESBLs). However, little is known about the relationship of ESBL producers in humans and domestic and wild birds, especially in a low-income setting. Therefore, we studied the fecal carriage of ESBL-producing Escherichia coli and Klebsiella pneumoniae in healthy humans, poultry, and wild birds in the vicinity of León, Nicaragua. Three hundred fecal samples were collected during December 2012 from humans (n = 100), poultry (n = 100) and wild birds (n = 100). The samples were examined for ESBL-producing E. coli and K. pneumoniae, revealing the prevalence of 27% in humans, 13% in poultry, and 8% in wild birds. Further characterization of the ESBL-producing isolates was performed through polymerase chain reaction (PCR) (NDM, CTX-M), epidemiological typing (ERIC2-PCR), multilocus sequence typing, and sequencing. ESBL producers harbored blaCTX-M-2, blaCTX-M-15, blaCTX-M-22, and blaCTX-M-3 genotypes. The blaCTX-M-15 constituted the absolute majority of ESBL genes among all samples. ERIC-PCR demonstrated highly related E. coli clones among humans, poultry, and wild birds. Clinically relevant E. coli clone ST648 was found in humans and poultry. There is a shared pool of blaCTX-M genes between humans and domesticated and wild birds in Nicaragua, and the results suggest shared clones of ESBL-producing E. coli. The study adds to the notion that wild birds and poultry can pick up antibiotic-resistant bacteria of human origin and function as a melting pot of resistance. Structured surveillance programs of antimicrobial resistance and a more regulated prescription of antibiotics are warranted in Nicaragua.

  14. Swimming pool use and birth defect risk.

    Science.gov (United States)

    Agopian, A J; Lupo, Philip J; Canfield, Mark A; Mitchell, Laura E

    2013-09-01

    Swimming during pregnancy is recommended. However, the use of swimming pools is also associated with infection by water-borne pathogens and exposure to water disinfection byproducts, which are 2 mechanisms that are suspected to increase risk for birth defects. Thus, we evaluated the relationship between maternal swimming pool use during early pregnancy and risk for select birth defects in offspring. Data were evaluated for nonsyndromic cases with 1 of 16 types of birth defects (n = 191-1829) and controls (n = 6826) from the National Birth Defects Prevention Study delivered during 2000-2006. Logistic regression analyses were conducted separately for each birth defect type. Separate analyses were conducted to assess any pool use (yes vs no) and frequent use (5 or more occasions in 1 month) during the month before pregnancy through the third month of pregnancy. There was no significant positive association between any or frequent pool use and any of the types of birth defects, even after adjustment for several potential confounders (maternal race/ethnicity, age at delivery, education, body mass index, folic acid use, nulliparity, smoking, annual household income, surveillance center, and season of conception). Frequent pool use was significantly negatively associated with spina bifida (adjusted odds ratio, 0.68; 95% confidence interval, 0.47-0.99). Among offspring of women 20 years old or older, pool use was associated with gastroschisis (adjusted odds ratio, 1.3; 95% confidence interval, 1.0-1.8), although not significantly so. We observed little evidence suggesting teratogenic effects of swimming pool use. Because swimming is a common and suggested form of exercise during pregnancy, these results are reassuring. Copyright © 2013 Mosby, Inc. All rights reserved.

  15. HIV-1 Modulates the tRNA Pool to Improve Translation Efficiency

    Science.gov (United States)

    van Weringh, Anna; Ragonnet-Cronin, Manon; Pranckeviciene, Erinija; Pavon-Eternod, Mariana; Kleiman, Lawrence; Xia, Xuhua

    2011-01-01

    Despite its poorly adapted codon usage, HIV-1 replicates and is expressed extremely well in human host cells. HIV-1 has recently been shown to package non-lysyl transfer RNAs (tRNAs) in addition to the tRNALys needed for priming reverse transcription and integration of the HIV-1 genome. By comparing the codon usage of HIV-1 genes with that of its human host, we found that tRNAs decoding codons that are highly used by HIV-1 but avoided by its host are overrepresented in HIV-1 virions. In particular, tRNAs decoding A-ending codons, required for the expression of HIV's A-rich genome, are highly enriched. Because the affinity of Gag-Pol for all tRNAs is nonspecific, HIV packaging is most likely passive and reflects the tRNA pool at the time of viral particle formation. Codon usage of HIV-1 early genes is similar to that of highly expressed host genes, but codon usage of HIV-1 late genes was better adapted to the selectively enriched tRNA pool, suggesting that alterations in the tRNA pool are induced late in viral infection. If HIV-1 genes are adapting to an altered tRNA pool, codon adaptation of HIV-1 may be better than previously thought. PMID:21216840

  16. Use of pooled samples for the detection of Salmonella in feces by polymerase chain reaction.

    Science.gov (United States)

    Singer, Randall S; Cooke, Cara L; Maddox, Carol W; Isaacson, Richard E; Wallace, Richard L

    2006-07-01

    Many epidemiological studies of Salmonella rely on conventional bacteriological culture methods to detect Salmonella in fecal samples. These culture-based methods are inefficient for epidemiological studies in populations with a low prevalence of Salmonella. The objective of this study was to optimize a protocol that uses pooled Salmonella enrichment broth cultures of bovine feces and polymerase chain reaction (PCR) for the detection of the invA gene of Salmonella in feces. In one field trial, 196 animals were sampled, and all samples were tested by culture, invA PCR on individual samples, invA PCR on pools of 5 samples, and BAX PCR on individual samples. All assays showed a high agreement on individual samples (kappa > or = 0.75). The invA PCR was run on each of 40 pools and detected 19 of 22 culture-positive pools. In another field trial, 152 samples were taken from 4 dairies, and the invA PCR was performed on pools of 5 samples in addition to bacteriological culture of individual samples. Salmonella was detected in 5 of the 32 pools (7 total positive samples) by both PCR and culture. One pool was PCR-positive but culture-negative. Pooling did not dramatically affect the performance of the invA PCR; most of the culture-positive samples were detected, including all of the samples when there were 4 or more Salmonella colonies on the agar plate. Based on these field trials, invA PCR on pooled samples appears to be an efficient method of Salmonella detection as long as Salmonella loads are not extremely low.

  17. Self-formed waterfall plunge pools in homogeneous rock

    Science.gov (United States)

    Scheingross, Joel S.; Lo, Daniel Y.; Lamb, Michael P.

    2017-01-01

    Waterfalls are ubiquitous, and their upstream propagation can set the pace of landscape evolution, yet no experimental studies have examined waterfall plunge pool erosion in homogeneous rock. We performed laboratory experiments, using synthetic foam as a bedrock simulant, to produce self-formed waterfall plunge pools via particle impact abrasion. Plunge pool vertical incision exceeded lateral erosion by approximately tenfold until pools deepened to the point that the supplied sediment could not be evacuated and deposition armored the pool bedrock floor. Lateral erosion of plunge pool sidewalls continued after sediment deposition, but primarily at the downstream pool wall, which might lead to undermining of the plunge pool lip, sediment evacuation, and continued vertical pool floor incision in natural streams. Undercutting of the upstream pool wall was absent, and our results suggest that vertical drilling of successive plunge pools is a more efficient waterfall retreat mechanism than the classic model of headwall undercutting and collapse in homogeneous rock.

  18. Recombinant protein production from stable mammalian cell lines and pools.

    Science.gov (United States)

    Hacker, David L; Balasubramanian, Sowmya

    2016-06-01

    We highlight recent developments for the production of recombinant proteins from suspension-adapted mammalian cell lines. We discuss the generation of stable cell lines using transposons and lentivirus vectors (non-targeted transgene integration) and site-specific recombinases (targeted transgene integration). Each of these methods results in the generation of cell lines with protein yields that are generally superior to those achievable through classical plasmid transfection that depends on the integration of the transfected DNA by non-homologous DNA end-joining. This is the main reason why these techniques can also be used for the generation of stable cell pools, heterogenous populations of recombinant cells generated by gene delivery and genetic selection without resorting to single cell cloning. This allows the time line from gene transfer to protein production to be reduced.

  19. Reserve Growth of Alberta Oil Pools

    Science.gov (United States)

    Verma, Mahendra K.; Cook, Troy

    2008-01-01

    This Open-File Report is based on a presentation delivered at the Fourth U.S. Geological Survey Workshop on Reserve Growth on March 10-11, 2008. It summarizes the results of a study of reserve growth of oil pools in Alberta Province, Canada. The study is part of a larger effort involving similar studies of fields in other important petroleum provinces around the world, with the overall objective of gaining a better understanding of reserve growth in fields with different geologic/reservoir parameters and different operating environments. The goals of the study were to: 1. Evaluate historical oil reserve data and assess reserve growth. 2. Develop reserve growth models/functions to help forecast hydrocarbon volumes. 3. Study reserve growth sensitivity to various parameters ? for example, pool size, porosity, oil gravity, and lithology. 4. Compare reserve growth in oil pools/fields of Alberta provinces with those from other large petroleum provinces.

  20. SNP calling by sequencing pooled samples

    Directory of Open Access Journals (Sweden)

    Raineri Emanuele

    2012-09-01

    Full Text Available Abstract Background Performing high throughput sequencing on samples pooled from different individuals is a strategy to characterize genetic variability at a small fraction of the cost required for individual sequencing. In certain circumstances some variability estimators have even lower variance than those obtained with individual sequencing. SNP calling and estimating the frequency of the minor allele from pooled samples, though, is a subtle exercise for at least three reasons. First, sequencing errors may have a much larger relevance than in individual SNP calling: while their impact in individual sequencing can be reduced by setting a restriction on a minimum number of reads per allele, this would have a strong and undesired effect in pools because it is unlikely that alleles at low frequency in the pool will be read many times. Second, the prior allele frequency for heterozygous sites in individuals is usually 0.5 (assuming one is not analyzing sequences coming from, e.g. cancer tissues, but this is not true in pools: in fact, under the standard neutral model, singletons (i.e. alleles of minimum frequency are the most common class of variants because P(f ∝ 1/f and they occur more often as the sample size increases. Third, an allele appearing only once in the reads from a pool does not necessarily correspond to a singleton in the set of individuals making up the pool, and vice versa, there can be more than one read – or, more likely, none – from a true singleton. Results To improve upon existing theory and software packages, we have developed a Bayesian approach for minor allele frequency (MAF computation and SNP calling in pools (and implemented it in a program called snape: the approach takes into account sequencing errors and allows users to choose different priors. We also set up a pipeline which can simulate the coalescence process giving rise to the SNPs, the pooling procedure and the sequencing. We used it to compare the

  1. Mechanisms for convection triggering by cold pools

    CERN Document Server

    Torri, Giuseppe; Tian, Yang

    2015-01-01

    Cold pools are fundamental ingredients of deep convection. They contribute to organizing the sub-cloud layer and are considered key elements in triggering convective cells. It was long known that this could happen mechanically, through lifting by the cold pools' fronts. More recently, it has been suggested that convection could also be triggered thermodynamically, by accumulation of moisture around the edges of cold pools. A method based on Lagrangian tracking is here proposed to disentangle the signatures of both forcings and quantify their importance in a given environment. Results from a simulation of radiative-convective equilibrium over the ocean show that parcels reach their level of free convection through a combination of both forcings, each being dominant at different stages of the ascent. Mechanical forcing is an important player in lifting parcels from the surface, whereas thermodynamic forcing reduces the inhibition encountered by parcels before they reach their level of free convection.

  2. Effects of indoor swimming pools on the nasal cytology of pool workers.

    Science.gov (United States)

    Erkul, E; Yaz, A; Cıngı, C; İnançli, H M; San, T; Bal, C

    2014-05-01

    We aimed to evaluate the relationship between swimming pool pollutants and allergic rhinitis in swimming pool workers. Twenty-seven indoor pool workers (group 1) and 49 control subjects (group 2) were enrolled in the study. A skin prick test was performed and a nasal smear was obtained from each subject to evaluate rhinitis. When the groups were compared in terms of epithelial cells, group 1 had significantly more epithelial cells than group 2. When the groups were compared with regard to eosinophils, group 1 had significantly more eosinophils than group 2. The skin prick test results for both groups were not significantly different. Indoor pool workers showed severe symptoms of rhinitis and eosinophilic nasal cytology, likely due to chlorine. Nasal cytology is an easy-to-administer diagnostic test and can be used to follow up rhinitis in indoor pool workers, along with nasal endoscopy, a detailed clinical history and a skin prick test.

  3. 47 CFR 90.35 - Industrial/Business Pool.

    Science.gov (United States)

    2010-10-01

    ... 47 Telecommunication 5 2010-10-01 2010-10-01 false Industrial/Business Pool. 90.35 Section 90.35... MOBILE RADIO SERVICES Industrial/Business Radio Pool § 90.35 Industrial/Business Pool. (a) Eligibility... Industrial/Business Pool to provide commercial mobile radio service as defined in part 20 of this chapter...

  4. 48 CFR 232.470 - Advance payment pool.

    Science.gov (United States)

    2010-10-01

    ... 48 Federal Acquisition Regulations System 3 2010-10-01 2010-10-01 false Advance payment pool. 232... Items 232.470 Advance payment pool. (a) An advance payment pool agreement— (1) Is a means of financing... addition to any other advance payment pool agreement at a single contractor location when it is...

  5. 47 CFR 90.20 - Public Safety Pool.

    Science.gov (United States)

    2010-10-01

    ... 47 Telecommunication 5 2010-10-01 2010-10-01 false Public Safety Pool. 90.20 Section 90.20... MOBILE RADIO SERVICES Public Safety Radio Pool § 90.20 Public Safety Pool. (a) Eligibility. The following are eligible to hold authorizations in the Public Safety Pool. (1) Any territory, possession,...

  6. Adrian Poole. Shakespeare and the Victorians

    Directory of Open Access Journals (Sweden)

    Béatrice LAURENT

    2006-06-01

    Full Text Available Dr Adrian Poole of Trinity College, Cambridge offers in this new study a comprehensive panorama of Shakespeare’s influence on the Victorians. Dr Poole investigates the interpretation and appropriation of the plays and, to a lesser extent, of the poems by Shakespeare with a view to demonstrate that they provided a major source of inspiration to Victorian actors, novelists and visual artists.The point of view is that of a distinguished Victorianist, and the reader is supposed to have a sound kn...

  7. Zooplankton at deep Red Sea brine pools

    KAUST Repository

    Kaartvedt, Stein

    2016-03-02

    The deep-sea anoxic brines of the Red Sea comprise unique, complex and extreme habitats. These environments are too harsh for metazoans, while the brine–seawater interface harbors dense microbial populations. We investigated the adjacent pelagic fauna at two brine pools using net tows, video records from a remotely operated vehicle and submerged echosounders. Waters just above the brine pool of Atlantis II Deep (2000 m depth) appeared depleted of macrofauna. In contrast, the fauna appeared to be enriched at the Kebrit Deep brine–seawater interface (1466 m).

  8. The new pooled cohort equations risk calculator

    DEFF Research Database (Denmark)

    Preiss, David; Kristensen, Søren L

    2015-01-01

    total cardiovascular risk score. During development of joint guidelines released in 2013 by the American College of Cardiology (ACC) and American Heart Association (AHA), the decision was taken to develop a new risk score. This resulted in the ACC/AHA Pooled Cohort Equations Risk Calculator. This risk...... disease and any measure of social deprivation. An early criticism of the Pooled Cohort Equations Risk Calculator has been its alleged overestimation of ASCVD risk which, if confirmed in the general population, is likely to result in statin therapy being prescribed to many individuals at lower risk than...

  9. Censored Exploration and the Dark Pool Problem

    CERN Document Server

    Ganchev, Kuzman; Nevmyvaka, Yuriy; Vaughan, Jennifer Wortman

    2012-01-01

    We introduce and analyze a natural algorithm for multi-venue exploration from censored data, which is motivated by the Dark Pool Problem of modern quantitative finance. We prove that our algorithm converges in polynomial time to a near-optimal allocation policy; prior results for similar problems in stochastic inventory control guaranteed only asymptotic convergence and examined variants in which each venue could be treated independently. Our analysis bears a strong resemblance to that of efficient exploration/ exploitation schemes in the reinforcement learning literature. We describe an extensive experimental evaluation of our algorithm on the Dark Pool Problem using real trading data.

  10. A Meltwater Pool Discovered in Tianshan Mountains

    Institute of Scientific and Technical Information of China (English)

    2005-01-01

    @@ On an expedition to northwest China's Glacier 1 in the TianshanMountains, a research team led by Prof. Li Zhongqin from the CAS Cold and Arid Regions Environmental and Engineering Research Institute found a 15-meter-long, 4-meterhigh ice cliff in the northwest of the source area on the glacier top. To their surprise, the south-facing ice cliff overlooked an approximately 30-m2 pool sprawling on the glacial sheet. The experts say the pool is at least 1.5 m deep and formed by the summer melt.

  11. [Pool exercise therapy of rheumatoid arthritis].

    Science.gov (United States)

    Bartels, E M; Lund, H; Danneskiold-Samsøe, B

    2001-10-01

    Aquatic therapy is a subgroup of balneotherapy and consists of exercises in a hot water pool. It uses the physical properties of water to achieve better mobility for patients whose pain, lack of muscle strength, and joint deformities are inhibiting factors when exercising on land. Pool therapy shows positive effects as part of the treatment of rheumatoid arthritis patients, but too few studies with an acceptable design and a well-defined patient group have been carried out. The documentation available on aquatic therapy indicates that more large clinical, controlled, and randomised studies must be conducted.

  12. Viruses-to-mobile genetic elements skew in the deep Atlantis II brine pool sediments

    KAUST Repository

    Adel, Mustafa

    2016-09-06

    The central rift of the Red Sea has 25 brine pools with different physical and geochemical characteristics. Atlantis II (ATIID), Discovery Deeps (DD) and Chain Deep (CD) are characterized by high salinity, temperature and metal content. Several studies reported microbial communities in these brine pools, but few studies addressed the brine pool sediments. Therefore, sediment cores were collected from ATIID, DD, CD brine pools and an adjacent brine-influenced site. Sixteen different lithologic sediment sections were subjected to shotgun DNA pyrosequencing to generate 1.47 billion base pairs (1.47 × 109 bp). We generated sediment-specific reads and attempted to annotate all reads. We report the phylogenetic and biochemical uniqueness of the deepest ATIID sulfur-rich brine pool sediments. In contrary to all other sediment sections, bacteria dominate the deepest ATIID sulfur-rich brine pool sediments. This decrease in virus-to-bacteria ratio in selected sections and depth coincided with an overrepresentation of mobile genetic elements. Skewing in the composition of viruses-to-mobile genetic elements may uniquely contribute to the distinct microbial consortium in sediments in proximity to hydrothermally active vents of the Red Sea and possibly in their surroundings, through differential horizontal gene transfer.

  13. Viruses-to-mobile genetic elements skew in the deep Atlantis II brine pool sediments.

    Science.gov (United States)

    Adel, Mustafa; Elbehery, Ali H A; Aziz, Sherry K; Aziz, Ramy K; Grossart, Hans-Peter; Siam, Rania

    2016-09-06

    The central rift of the Red Sea has 25 brine pools with different physical and geochemical characteristics. Atlantis II (ATIID), Discovery Deeps (DD) and Chain Deep (CD) are characterized by high salinity, temperature and metal content. Several studies reported microbial communities in these brine pools, but few studies addressed the brine pool sediments. Therefore, sediment cores were collected from ATIID, DD, CD brine pools and an adjacent brine-influenced site. Sixteen different lithologic sediment sections were subjected to shotgun DNA pyrosequencing to generate 1.47 billion base pairs (1.47 × 10(9) bp). We generated sediment-specific reads and attempted to annotate all reads. We report the phylogenetic and biochemical uniqueness of the deepest ATIID sulfur-rich brine pool sediments. In contrary to all other sediment sections, bacteria dominate the deepest ATIID sulfur-rich brine pool sediments. This decrease in virus-to-bacteria ratio in selected sections and depth coincided with an overrepresentation of mobile genetic elements. Skewing in the composition of viruses-to-mobile genetic elements may uniquely contribute to the distinct microbial consortium in sediments in proximity to hydrothermally active vents of the Red Sea and possibly in their surroundings, through differential horizontal gene transfer.

  14. Mass effects meet species sorting: transformations of microbial assemblages in epiphreatic subsurface karst water pools.

    Science.gov (United States)

    Shabarova, Tanja; Widmer, Franco; Pernthaler, Jakob

    2013-09-01

    We investigated the transformations of the microbial communities in epiphreatic karst cave pools with different flooding frequencies. Fingerprinting of 16S rRNA genes was combined with microscopic and sequence analysis to examine if source water would transport comparable microbial inocula into the pools at consecutive flood events, and to assess possible effects of residence time on the microbial assemblages during stagnant periods. Variability in the concentrations of dissolved organic carbon and conductivity indicated differences between floods and changes of pool water over time. High numbers of Betaproteobacteria affiliated with Methylophilaceae and Comamonadaceae were introduced into the pools during floodings. While the former persisted in the pools, the latter exhibited considerable microdiversification. These Betaproteobacteria might thus represent core microbial groups in karst water. A decrease in the estimated total diversity of the remaining bacterial taxa was apparent after a few weeks of residence: Some were favoured by stagnant conditions, whereas the majority was rapidly outcompeted. Thus, the microbial communities consisted of different components governed by complementary assembly mechanisms (dispersal versus environmental filtering) upon introduction into the pools. High overlap of temporary and persistent community members between samplings from two winters, moreover, reflected the seasonal recurrence of the studied microbial assemblages. © 2013 John Wiley & Sons Ltd and Society for Applied Microbiology.

  15. Viruses-to-mobile genetic elements skew in the deep Atlantis II brine pool sediments

    Science.gov (United States)

    Adel, Mustafa; Elbehery, Ali H. A.; Aziz, Sherry K.; Aziz, Ramy K.; Grossart, Hans-Peter; Siam, Rania

    2016-09-01

    The central rift of the Red Sea has 25 brine pools with different physical and geochemical characteristics. Atlantis II (ATIID), Discovery Deeps (DD) and Chain Deep (CD) are characterized by high salinity, temperature and metal content. Several studies reported microbial communities in these brine pools, but few studies addressed the brine pool sediments. Therefore, sediment cores were collected from ATIID, DD, CD brine pools and an adjacent brine-influenced site. Sixteen different lithologic sediment sections were subjected to shotgun DNA pyrosequencing to generate 1.47 billion base pairs (1.47 × 109 bp). We generated sediment-specific reads and attempted to annotate all reads. We report the phylogenetic and biochemical uniqueness of the deepest ATIID sulfur-rich brine pool sediments. In contrary to all other sediment sections, bacteria dominate the deepest ATIID sulfur-rich brine pool sediments. This decrease in virus-to-bacteria ratio in selected sections and depth coincided with an overrepresentation of mobile genetic elements. Skewing in the composition of viruses-to-mobile genetic elements may uniquely contribute to the distinct microbial consortium in sediments in proximity to hydrothermally active vents of the Red Sea and possibly in their surroundings, through differential horizontal gene transfer.

  16. Vision-based detection of MAG weld pool

    Institute of Scientific and Technical Information of China (English)

    Gao Jinqiang; Wu Chuansong; Zhang Min; Zhao Yanhua

    2007-01-01

    Weld pool contains significant information about the welding process. The weld pool images of MAG welding are detected by LaserStrobe system. An algorithm for extracting weld pool edge is proposed according to the characteristics of MAG weld pool images. The maximum weld pool length and width are calculated. The measurement data can be used to verify the results of welding process simulation and to provide a good foundation for automatic control of MAG welding process.

  17. Pooling ASR data for closely related languages

    CSIR Research Space (South Africa)

    Van Heerden, C

    2010-05-01

    Full Text Available We describe several experiments that were conducted to assess the viability of data pooling as a means to improve speech-recognition performance for under-resourced languages. Two groups of closely related languages from the Southern Bantu language...

  18. Transferring Goods or Splitting a Resource Pool

    Science.gov (United States)

    Dijkstra, Jacob; Van Assen, Marcel A. L. M.

    2008-01-01

    We investigated the consequences for exchange outcomes of the violation of an assumption underlying most social psychological research on exchange. This assumption is that the negotiated direct exchange of commodities between two actors (pure exchange) can be validly represented as two actors splitting a fixed pool of resources (split pool…

  19. The Pool with the Movable Bottom

    Science.gov (United States)

    American School and University, 1977

    1977-01-01

    A major diagnostic, therapeutic, educational, and training center for the handicapped has under construction a swimming pool with a floor that will rise to deck level to enable handicapped persons to roll their wheel chairs on and then float free as the floor is lowered. (Author/MLF)

  20. Enhanced heat transfer in confined pool boiling

    NARCIS (Netherlands)

    Rops, C.M.; Lindken, R.; Velthuis, J.F.M.; Westerweel, J.

    2009-01-01

    We report the results of an experimental investigation of the heat transfer during nucleate boiling on a spatially confined boiling surface. The heat flux as a function of the boiling surface temperature was measured in pool boiling pots with diameters ranging from 15 mm down to 4.5 mm. It was found

  1. Enhanced heat transfer in confined pool boiling

    Energy Technology Data Exchange (ETDEWEB)

    Rops, C.M. [TNO Science and Industry, P.O. Box 155, 2600 AD Delft (Netherlands)], E-mail: cor.rops@tno.nl; Lindken, R. [Laboratory for Aero and Hydrodynamics, Delft University of Technology (Netherlands); Velthuis, J.F.M. [TNO Science and Industry, P.O. Box 155, 2600 AD Delft (Netherlands); Westerweel, J. [Laboratory for Aero and Hydrodynamics, Delft University of Technology (Netherlands)

    2009-08-15

    We report the results of an experimental investigation of the heat transfer during nucleate boiling on a spatially confined boiling surface. The heat flux as a function of the boiling surface temperature was measured in pool boiling pots with diameters ranging from 15 mm down to 4.5 mm. It was found that a reduction of the pool diameter leads to an enhancement of the nucleate boiling heat flux for most of the boiling curve. Our experimental results indicate that this enhancement is not affected by the depth of the boiling pot, the material of the bounding wall, or the diameter of the inlet water supply. High-speed camera imaging shows that the heat transfer enhancement for the spatially confined pool boiling occurs in conjunction with a stable circulating flow, which is in contrast to the chaotic and mainly upward motion for boiling in larger pool diameters. An explanation for the enhancement of the heat transfer and the associated change in flow pattern is found in the singularisation of the nucleate boiling process.

  2. "Teisele poole" Agambeniga ja Agambenita / Ragne Nukk

    Index Scriptorium Estoniae

    Nukk, Ragne, 1984-

    2012-01-01

    Tallinna Fotokuu rahvusvahelise fotonäituse "Teisele poole" ideeliste lähtekohtade tõlgendamisest. Autor kõrvutab Adam Budaki kuraatornäituse aluseks olnud Giorgio Agambeni esseed „Viimne kohtupäev“ näitusel eksponeeritud piltidega

  3. 24 CFR 320.9 - Pool administration.

    Science.gov (United States)

    2010-04-01

    ...) GOVERNMENT NATIONAL MORTGAGE ASSOCIATION, DEPARTMENT OF HOUSING AND URBAN DEVELOPMENT GUARANTY OF MORTGAGE-BACKED SECURITIES Pass-Through Type Securities § 320.9 Pool administration. The Association will only guarantee securities if the issuer executes a guaranty agreement or contractual agreement in the form...

  4. Pricing Electricity in Pools With Wind Producers

    DEFF Research Database (Denmark)

    Morales González, Juan Miguel; Conejo, A. J.; Kai Liu

    2012-01-01

    This paper considers an electricity pool that includes a significant number of wind producers and is cleared through a network-constrained auction, one day in advance and on an hourly basis. The hourly auction is formulated as a two-stage stochastic programming problem, where the first stage repr...

  5. Pooling Problems with Polynomial-Time Algorithms

    NARCIS (Netherlands)

    Haugland, Dag; Hendrix, Eligius M.T.

    2016-01-01

    The computational challenge offered by many traditional network flow models is modest, and large-scale instances can be solved fast. When the composition of the flow is part of the model, the required computation time may increase substantially. This is in particular true for the pooling problem,

  6. Enhanced heat transfer in confined pool boiling

    NARCIS (Netherlands)

    Rops, C.M.; Lindken, R.; Velthuis, J.F.M.; Westerweel, J.

    2009-01-01

    We report the results of an experimental investigation of the heat transfer during nucleate boiling on a spatially confined boiling surface. The heat flux as a function of the boiling surface temperature was measured in pool boiling pots with diameters ranging from 15 mm down to 4.5 mm. It was found

  7. Carbon Residence Times in Pedogenic Carbonate Pools

    Science.gov (United States)

    Monger, H.; Feng, Y.; Karnjanapiboonwang, A.

    2013-12-01

    Soil carbonate is a huge pool of terrestrial carbon that contains at least 930 to 940 Pg C and has influx rates on the order of 1 to 12 g CaCO3/m2/yr. Such large mass to flux ratios yield long mean residence times for carbon (e.g., 85,000 years)--assuming steady state. Like other global carbon pools, the soil carbonate pool has smaller sub-pools with higher influx rates and shorter mean residence times. For example, pedogenic carbonate in coppice dunes known to have formed since 1858 and carbonate formed on lithic artifacts in soils at archaeology sites suggests mean residence times can be as short as 120 years--again assuming steady state. Harder to assess are efflux rates as CO2 emissions or bicarbonate leaching. Some Bowen-ratio studies have nevertheless found evidence for CO2 emissions resulting from carbonate dissolution, and other studies have found evidence for bicarbonate leaching based on dissolution pipes through calcic horizons using soil morphology studies. Since an understanding of mean residence times are prerequisite for a better understanding of soil carbonate in the global carbon cycle, especially in a scenario of an expanding Aridosphere, more influx and efflux measurements are needed to evaluate the possibility of carbon sequestration by soil carbonate in hyperarid, arid, semiarid, or subhumid soils.

  8. The Pool Is Not Just for Swimming

    Science.gov (United States)

    Metzker, Andrea

    2004-01-01

    Participating in water fitness workouts is one way to benefit one's health at very little cost. If the pool at a school is used only for swimming, then the benefits of having one barely causes a ripple. When the properties of water and how humans react to water are understood and applied to water activity programs, health benefits and enjoyment…

  9. Strategies for chemically healthy public swimming pools

    DEFF Research Database (Denmark)

    Hansen, Kamilla Marie Speht

    of the strategies which can be used to achieve microbiological safe water with low levels of DBPs to ensure healthy environment for bathers. There are different approaches to achieve healthy environment in public swimming pools which in this thesis are divided into three strategies: alternatives to chlorination...

  10. The warm pool in the Indian Ocean

    Digital Repository Service at National Institute of Oceanography (India)

    Vinayachandran, P.N.; Shetye, S.R.

    ) a single maximum/minimum (northern and southern part of the Pacific warm pool and the south Indian Ocean), (iii) two maxima/minima (Arabian Sea, western equatorial Indian Ocean and Southern Bay of Bengal), and (iv) a rapid rise, a steady phase and a...

  11. "Teisele poole" Agambeniga ja Agambenita / Ragne Nukk

    Index Scriptorium Estoniae

    Nukk, Ragne, 1984-

    2012-01-01

    Tallinna Fotokuu rahvusvahelise fotonäituse "Teisele poole" ideeliste lähtekohtade tõlgendamisest. Autor kõrvutab Adam Budaki kuraatornäituse aluseks olnud Giorgio Agambeni esseed „Viimne kohtupäev“ näitusel eksponeeritud piltidega

  12. Suncatcher and cool pool. Project report

    Energy Technology Data Exchange (ETDEWEB)

    Hammond, J.

    1981-03-01

    The Suncatcher is a simple, conical solar concentrating device that captures light entering clerestory windows and directs it onto thermal storage elements at the back of a south facing living space. The cone shape and inclination are designed to capture low angle winter sunlight and to reflect away higher angle summer sunlight. It is found that winter radiation through a Suncatcher window is 40 to 50% higher than through an ordinary window, and that the average solar fraction is 59%. Water-filled steal culvert pipes used for thermal storage are found to undergo less stratification, and thus to be more effective, when located where sunlight strikes the bottom rather than the top. Five Suncatcher buildings are described. Designs are considered for 32/sup 0/, 40/sup 0/ and 48/sup 0/ north latitude, and as the latitude increases, the inclination angle of the cone should be lowered. The Cool Pool is an evaporating, shaded roof pond which thermosiphons cool water into water-filled columns within a building. Preliminary experiments indicate that the best shade design has unimpeded north sky view, good ventilation, complete summer shading, a low architectural profile, and low cost attic vent lowers work. Another series of experiments established the satisfactory performance of the Cool Pool on a test building using four water-filled cylinders, two cylinders, and two cylinders connected to the Cool Pool through a heat exchanger. Although an unshaded pool cools better at night than a shaded one, daytime heat gain far offsets this advantage. A vinyl waterbag heat exchanger was developed for use with the Cool Pool. (LEW)

  13. The Tropical Western Hemisphere Warm Pool

    Science.gov (United States)

    Wang, C.; Enfield, D. B.

    2002-12-01

    The paper describes and examines variability of the tropical Western Hemisphere warm pool (WHWP) of water warmer than 28.5oC. The WHWP is the second-largest tropical warm pool on Earth. Unlike the Eastern Hemisphere warm pool in the western Pacific, which straddles the equator, the WHWP is entirely north of the equator. At various stages of development the WHWP extends over parts of the eastern North Pacific, the Gulf of Mexico, the Caribbean, and the western tropical North Atlantic. It has a large seasonal cycle and its interannual fluctuations of area and intensity are significant. Surface heat fluxes warm the WHWP through the boreal spring to an annual maximum of SST and WHWP area in the late summer/early fall, associated with eastern North Pacific and Atlantic hurricane activities and rainfall from northern South America to the southern tier of the United States. Observations suggest that a positive ocean-atmosphere feedback operating through longwave radiation and associated cloudiness seems to operate in the WHWP. During winter preceding large warm pool, there is an alteration of the Walker and Hadley circulation cells that serves as a "tropospheric bridge" for transferring Pacific ENSO effects to the Atlantic sector and inducing initial warming of warm pool. Associated with the warm SST anomalies is a decrease in sea level pressure anomalies and an anomalous increase in atmospheric convection and cloudiness. The increase in convective activity and cloudiness results in less net longwave radiation loss from the sea surface, which then reinforces SST anomalies.

  14. Pooling breast cancer datasets has a synergetic effect on classification performance and improves signature stability

    Directory of Open Access Journals (Sweden)

    van de Vijver Marc J

    2008-08-01

    Full Text Available Abstract Background Michiels et al. (Lancet 2005; 365: 488–92 employed a resampling strategy to show that the genes identified as predictors of prognosis from resamplings of a single gene expression dataset are highly variable. The genes most frequently identified in the separate resamplings were put forward as a 'gold standard'. On a higher level, breast cancer datasets collected by different institutions can be considered as resamplings from the underlying breast cancer population. The limited overlap between published prognostic signatures confirms the trend of signature instability identified by the resampling strategy. Six breast cancer datasets, totaling 947 samples, all measured on the Affymetrix platform, are currently available. This provides a unique opportunity to employ a substantial dataset to investigate the effects of pooling datasets on classifier accuracy, signature stability and enrichment of functional categories. Results We show that the resampling strategy produces a suboptimal ranking of genes, which can not be considered to be a 'gold standard'. When pooling breast cancer datasets, we observed a synergetic effect on the classification performance in 73% of the cases. We also observe a significant positive correlation between the number of datasets that is pooled, the validation performance, the number of genes selected, and the enrichment of specific functional categories. In addition, we have evaluated the support for five explanations that have been postulated for the limited overlap of signatures. Conclusion The limited overlap of current signature genes can be attributed to small sample size. Pooling datasets results in more accurate classification and a convergence of signature genes. We therefore advocate the analysis of new data within the context of a compendium, rather than analysis in isolation.

  15. A homogenous nature of native Chinese duck matrilineal pool

    Directory of Open Access Journals (Sweden)

    Liu Yi-Ping

    2008-10-01

    Full Text Available Abstract Background China, with around 30 unique breeds, has a diverse duck genetic pool. Currently, there is no systematic report which investigates the genetic diversity, phylogenetic relationship, and matrilineal genetic structure of these domestic breeds and wild mallards (Anas platyrhynchos. Results In this study, we sequenced the mitochondrial DNA (mtDNA control region segments in 278 domestic ducks (Anas platyrhynchos domestica from 19 indigenous breeds/populations and 70 wild mallard samples and analyzed them together with the 101 control region sequences from published sources. Fifty-two samples were then sequenced for a cytochrome b (Cyt b gene fragment to solidify the pattern emerged from the control region sequences. All domestic duck and wild mallard haplotypes were essentially indistinguishable and were clustered together in the phylogenetic tree. There was no geographic differentiation and breed/population-specific distribution of duck lineages. Conclusion Our results showed that unlike other domesticated farm animals in China such as chicken, cattle, goat, and yak with multiple matrilineal components, the matrilineal pool of Chinese ducks was homogenous.

  16. A primer on using pooled shRNA libraries for functional genomic screens

    Institute of Scientific and Technical Information of China (English)

    Guang Hu; Ji Luo

    2012-01-01

    The discovery of RNA interference (RNAi) has revolutionized genetic analysis in mammalian cells.Loss-of-function RNAi screens enable rapid,functional annotation of the genome.Of the various RNAi approaches,pooled shRNA libraries have received considerable attention because of their versatility.A number of genome-wide shRNA libraries have been constructed against the human and mouse genomes,and these libraries can be readily applied to a variety of screens to interrogate the function of human and mouse genes in an unbiased fashion.We provide an introduction to the technical aspects of using pooled shRNA libraries for genetic screens.

  17. Alternative heating of a municipal swimming pool

    Energy Technology Data Exchange (ETDEWEB)

    Lazzarin, R.

    1982-03-01

    Swimming pools require great amounts of energy at low temperature levels. Therefore the application of alternative heating systems is very suitable. Four different systems are taken into account: compression heat pump, absorption heat pump, motor driven heat pump with thermal recovery, and a combined system. A short thermodynamic analysis is carried out in order to evaluate operating savings. Initial cost estimates demonstrate the advantages of each proposed solution over the conventional system.

  18. Health risks of early swimming pool attendance.

    Science.gov (United States)

    Schoefer, Yvonne; Zutavern, Anne; Brockow, Inken; Schäfer, Torsten; Krämer, Ursula; Schaaf, Beate; Herbarth, Olf; von Berg, Andrea; Wichmann, H-Erich; Heinrich, Joachim

    2008-07-01

    Swimming pool attendance and exposure to chlorination by-products showed adverse health effects on children. We assessed whether early swimming pool attendance, especially baby swimming, is related to higher rates of early infections and to the development of allergic diseases. In 2003-2005, 2192 children were analysed for the 6-year follow-up of a prospective birth cohort study. Data on early swimming pool attendance, other lifestyle factors and medical history were collected by parental-administered questionnaire. Bivariate and multivariate logistic regression analyses were used to evaluate associations. Babies who did not participate in baby swimming had lower rates of infection in the 1st year of life (i) diarrhoea: OR 0.68 CI 95% 0.54-0.85; (ii) otitis media: OR 0.81 CI 95% 0.62-1.05; (iii) airway infections: OR 0.85 CI 95% 0.67-1.09. No clear association could be found between late or non-swimmers and atopic dermatitis or hay fever until the age of 6 years, while higher rates of asthma were found (OR 2.15 95% CI 1.16-3.99), however, potentially due to reverse causation. The study indicates that, in terms of infections, baby swimming might not be as harmless as commonly thought. Further evidence is needed to make conclusions if the current regulations on chlorine in Germany might not protect swimming pool attendees from an increased risk of gastrointestinal infections. In terms of developing atopic diseases there is no verifiable detrimental effect of early swimming.

  19. Labor market pooling and occupational agglomeration

    OpenAIRE

    Gabe, Todd M.; Jaison R. Abel

    2009-01-01

    This paper examines the micro-foundations of occupational agglomeration in U.S. metropolitan areas, with an emphasis on labor market pooling. Controlling for a wide range of occupational attributes, including proxies for the use of specialized machinery and for the importance of knowledge spillovers, we find that jobs characterized by a unique knowledge base exhibit higher levels of geographic concentration than do occupations with generic knowledge requirements. Further, by analyzing co-aggl...

  20. Poole-frenkel piezoconductive element and sensor

    Science.gov (United States)

    Habermehl, Scott D.

    2004-08-03

    A new class of highly sensitive piezoconductive strain sensor elements and sensors has been invented. The new elements function under conditions such that electrical conductivity is dominated by Poole-Frenkel transport. A substantial piezoconductive effect appears in this regime, allowing the new sensors to exhibit sensitivity to applied strain as much as two orders of magnitude in excess of prior art sensors based on doped silicon.

  1. Metagenome Skimming of Insect Specimen Pools: Potential for Comparative Genomics.

    Science.gov (United States)

    Linard, Benjamin; Crampton-Platt, Alex; Gillett, Conrad P D T; Timmermans, Martijn J T N; Vogler, Alfried P

    2015-05-14

    Metagenomic analyses are challenging in metazoans, but high-copy number and repeat regions can be assembled from low-coverage sequencing by "genome skimming," which is applied here as a new way of characterizing metagenomes obtained in an ecological or taxonomic context. Illumina shotgun sequencing on two pools of Coleoptera (beetles) of approximately 200 species each were assembled into tens of thousands of scaffolds. Repeated low-coverage sequencing recovered similar scaffold sets consistently, although approximately 70% of scaffolds could not be identified against existing genome databases. Identifiable scaffolds included mitochondrial DNA, conserved sequences with hits to expressed sequence tag and protein databases, and known repeat elements of high and low complexity, including numerous copies of rRNA and histone genes. Assemblies of histones captured a diversity of gene order and primary sequence in Coleoptera. Scaffolds with similarity to multiple sites in available coleopteran genome sequences for Dendroctonus and Tribolium revealed high specificity of scaffolds to either of these genomes, in particular for high-copy number repeats. Numerous "clusters" of scaffolds mapped to the same genomic site revealed intra- and/or intergenomic variation within a metagenome pool. In addition to effect of taxonomic composition of the metagenomes, the number of mapped scaffolds also revealed structural differences between the two reference genomes, although the significance of this striking finding remains unclear. Finally, apparently exogenous sequences were recovered, including potential food plants, fungal pathogens, and bacterial symbionts. The "metagenome skimming" approach is useful for capturing the genomic diversity of poorly studied, species-rich lineages and opens new prospects in environmental genomics.

  2. Forced pooling and mediation: the odd couple

    Energy Technology Data Exchange (ETDEWEB)

    Pascoe, D.

    2001-07-01

    The mandate and activities of the office of the Ontario Mining and Lands Commissioner is explained. The office has jurisdiction under the Mining Act, the Conservation Authorities Act, the Assessment Act, the Aggregates Resources Act , the Lakes and Rivers Improvement Act, and most importantly, under the Oil, Gas and Salt Resources Act. Under the Oil, Gas and Salt Resources Act, the Commissioner may under clause (a) order the joining of interest within a spacing unit for the purpose of drilling and operating a well and apportioning the associated costs and benefits. Under clause (b) the Commissioner may, by order, require and regulate the joining of interests within a field or a pool for the purpose of drilling or operating wells and may order also the designation of management and apportioning of costs. Pooling (matters relating to spacing units) and unitization (matters relating to joining interests in a field or pool) are legislated departures from the old rule of capture which essentially allowed any landowner to sink a well on his land and remove the resource without consideration of the interest of surrounding landowners. In essence, the Mining and Land Commissioner protects the interest of all landowners within a spacing unit, while ensuring that the resource extraction can proceed under the economically and technically most favorable conditions.

  3. Vesicle Pools: Lessons from Adrenal Chromaffin Cells

    Directory of Open Access Journals (Sweden)

    David R Stevens

    2011-02-01

    Full Text Available The adrenal chromaffin cell serves as a model system to study fast Ca2+-dependent exocytosis. Membrane capacitance measurements in combination with Ca2+ uncaging offers a temporal resolution in the millisecond range and reveals that catecholamine release occurs in three distinct phases. Release of a readily releasable (RRP and a slowly releasable (SRP pool are followed by sustained release, due to maturation and release of vesicles which were not release-ready at the start of the stimulus. Trains of depolarizations, a more physiological stimulus, induce release from a small immediately releasable pool of vesicles residing adjacent to calcium channels, as well as from the RRP. The SRP is poorly activated by depolarization. A sequential model, in which non-releasable docked vesicles are primed to a slowly releasable state, and then further mature to the readily releasable state, has been proposed. The docked state, dependent on membrane proximity, requires SNAP-25, synaptotagmin and syntaxin. The ablation or modification of SNAP-25 and syntaxin, components of the SNARE complex, as well as of synaptotagmin, the calcium sensor, and modulators such complexins and Snapin alter the properties and/or magnitudes of different phases of release, and in particular can ablate the RRP. These results indicate that the composition of the SNARE complex and its interaction with modulatory molecules drives priming and provides a molecular basis for different pools of releasable vesicles.

  4. POOL WATER TREATMENT AND COOLING SYSTEM DESCRIPTION DOCUMENT

    Energy Technology Data Exchange (ETDEWEB)

    V. King

    2000-06-19

    The Pool Water Treatment and Cooling System is located in the Waste Handling Building (WHB), and is comprised of various process subsystems designed to support waste handling operations. This system maintains the pool water temperature within an acceptable range, maintains water quality standards that support remote underwater operations and prevent corrosion, detects leakage from the pool liner, provides the capability to remove debris from the pool, controls the pool water level, and helps limit radiological exposure to personnel. The pool structure and liner, pool lighting, and the fuel staging racks in the pool are not within the scope of the Pool Water Treatment and Cooling System. Pool water temperature control is accomplished by circulating the pool water through heat exchangers. Adequate circulation and mixing of the pool water is provided to prevent localized thermal hotspots in the pool. Treatment of the pool water is accomplished by a water treatment system that circulates the pool water through filters, and ion exchange units. These water treatment units remove radioactive and non-radioactive particulate and dissolved solids from the water, thereby providing the water clarity needed to conduct waste handling operations. The system also controls pool water chemistry to prevent advanced corrosion of the pool liner, pool components, and fuel assemblies. Removal of radioactivity from the pool water contributes to the project ALARA (as low as is reasonably achievable) goals. A leak detection system is provided to detect and alarm leaks through the pool liner. The pool level control system monitors the water level to ensure that the minimum water level required for adequate radiological shielding is maintained. Through interface with a demineralized water system, adequate makeup is provided to compensate for loss of water inventory through evaporation and waste handling operations. Interface with the Site Radiological Monitoring System provides continuous

  5. Assessing pooled BAC and whole genome shotgun strategies for assembly of complex genomes

    Directory of Open Access Journals (Sweden)

    Feltus F

    2011-04-01

    Full Text Available Abstract Background We investigate if pooling BAC clones and sequencing the pools can provide for more accurate assembly of genome sequences than the "whole genome shotgun" (WGS approach. Furthermore, we quantify this accuracy increase. We compare the pooled BAC and WGS approaches using in silico simulations. Standard measures of assembly quality focus on assembly size and fragmentation, which are desirable for large whole genome assemblies. We propose additional measures enabling easy and visual comparison of assembly quality, such as rearrangements and redundant sequence content, relative to the known target sequence. Results The best assembly quality scores were obtained using 454 coverage of 15× linear and 5× paired (3kb insert size reads (15L-5P on Arabidopsis. This regime gave similarly good results on four additional plant genomes of very different GC and repeat contents. BAC pooling improved assembly scores over WGS assembly, coverage and redundancy scores improving the most. Conclusions BAC pooling works better than WGS, however, both require a physical map to order the scaffolds. Pool sizes up to 12Mbp work well, suggesting this pooling density to be effective in medium-scale re-sequencing applications such as targeted sequencing of QTL intervals for candidate gene discovery. Assuming the current Roche/454 Titanium sequencing limitations, a 12 Mbp region could be re-sequenced with a full plate of linear reads and a half plate of paired-end reads, yielding 15L-5P coverage after read pre-processing. Our simulation suggests that massively over-sequencing may not improve accuracy. Our scoring measures can be used generally to evaluate and compare results of simulated genome assemblies.

  6. Application of pooled genotyping to scan candidate regions for association with HDL cholesterol levels

    Directory of Open Access Journals (Sweden)

    Hinds David A

    2004-11-01

    Full Text Available Abstract Association studies are used to identify genetic determinants of complex human traits of medical interest. With the large number of validated single nucleotide polymorphisms (SNPs currently available, two limiting factors in association studies are genotyping capability and costs. Pooled DNA genotyping has been proposed as an efficient means of screening SNPs for allele frequency differences in case-control studies and for prioritising them for subsequent individual genotyping analysis. Here, we apply quantitative pooled genotyping followed by individual genotyping and replication to identify associations with human serum high-density lipoprotein (HDL cholesterol levels. The DNA from individuals with low and high HDL cholesterol levels was pooled separately, each pool was amplified by polymerase chain reaction in triplicate and each amplified product was separately hybridised to a high-density oligonucleotide array. Allele frequency differences between case and control groups with low and high HDL cholesterol levels were estimated for 7,283 SNPs distributed across 71 candidate gene regions spanning a total of 17.1 megabases. A novel method was developed to take advantage of independently derived haplotype map information to improve the pooled estimates of allele frequency differences. A subset of SNPs with the largest estimated allele frequency differences between low and high HDL cholesterol groups was chosen for individual genotyping in the study population, as well as in a separate replication population. Four SNPs in a single haplotype block within the cholesteryl ester transfer protein (CETP gene interval were significantly associated with HDL cholesterol levels in both populations. Our study is among the first to demonstrate the application of pooled genotyping followed by confirmation with individual genotyping to identify genetic determinants of a complex trait.

  7. UMRS LTRMP 2010/11 LCU Mapping -- Pool 21

    Data.gov (United States)

    U.S. Geological Survey, Department of the Interior — Aerial photographs for Pools 1-13 Upper Mississippi River System and Pools, Alton-Marseilles, Illinois River were collected in color infrared (CIR) in August of...

  8. UMRS LTRMP 2010/11 LCU Mapping -- Pool 3

    Data.gov (United States)

    U.S. Geological Survey, Department of the Interior — Aerial photographs for Pools 1-13 Upper Mississippi River System and Pools, Alton-Marseilles, Illinois River were collected in color infrared (CIR) in August of...

  9. UMRS LTRMP 2010/11 LCU Mapping -- Pool 6

    Data.gov (United States)

    U.S. Geological Survey, Department of the Interior — Aerial photographs for Pools 1-13 Upper Mississippi River System and Pools, Alton-Marseilles, Illinois River were collected in color infrared (CIR) in August of...

  10. UMRS LTRMP 2010/11 LCU Mapping -- Pool 14

    Data.gov (United States)

    U.S. Geological Survey, Department of the Interior — Aerial photographs for Pools 1-13 Upper Mississippi River System and Pools, Alton-Marseilles, Illinois River were collected in color infrared (CIR) in August of 2010...

  11. UMRS LTRMP 2010/11 LCU Mapping -- Pool 7

    Data.gov (United States)

    U.S. Geological Survey, Department of the Interior — Aerial photographs for Pools 1-13 Upper Mississippi River System and Pools, Alton-Marseilles, Illinois River were collected in color infrared (CIR) in August of 2010...

  12. UMRS LTRMP 2010/11 LCU Mapping -- Pool 6

    Data.gov (United States)

    U.S. Geological Survey, Department of the Interior — Aerial photographs for Pools 1-13 Upper Mississippi River System and Pools, Alton-Marseilles, Illinois River were collected in color infrared (CIR) in August of 2010...

  13. UMRS LTRMP 2010/11 LCU Mapping -- Pool 10

    Data.gov (United States)

    U.S. Geological Survey, Department of the Interior — Aerial photographs for Pools 1-13 Upper Mississippi River System and Pools, Alton-Marseilles, Illinois River were collected in color infrared (CIR) in August of 2010...

  14. UMRS LTRMP 2010/11 LCU Mapping -- Pool 4

    Data.gov (United States)

    U.S. Geological Survey, Department of the Interior — Aerial photographs for Pools 1-13 Upper Mississippi River System and Pools, Alton-Marseilles, Illinois River were collected in color infrared (CIR) in August of 2010...

  15. UMRS LTRMP 2010/11 LCU Mapping -- Pool 13

    Data.gov (United States)

    U.S. Geological Survey, Department of the Interior — Aerial photographs for Pools 1-13 Upper Mississippi River System and Pools, Alton-Marseilles, Illinois River were collected in color infrared (CIR) in August of 2010...

  16. UMRS LTRMP 2010/11 LCU Mapping -- Pool 22

    Data.gov (United States)

    U.S. Geological Survey, Department of the Interior — Aerial photographs for Pools 1-13 Upper Mississippi River System and Pools, Alton-Marseilles, Illinois River were collected in color infrared (CIR) in August of 2010...

  17. UMRS LTRMP 2010/11 LCU Mapping -- Pool 18

    Data.gov (United States)

    U.S. Geological Survey, Department of the Interior — Aerial photographs for Pools 1-13 Upper Mississippi River System and Pools, Alton-Marseilles, Illinois River were collected in color infrared (CIR) in August of 2010...

  18. UMRS LTRMP 2010/11 LCU Mapping -- Pool 5a

    Data.gov (United States)

    U.S. Geological Survey, Department of the Interior — Aerial photographs for Pools 1-13 Upper Mississippi River System and Pools, Alton-Marseilles, Illinois River were collected in color infrared (CIR) in August of 2010...

  19. UMRS LTRMP 2010/11 LCU Mapping -- Pool 3

    Data.gov (United States)

    U.S. Geological Survey, Department of the Interior — Aerial photographs for Pools 1-13 Upper Mississippi River System and Pools, Alton-Marseilles, Illinois River were collected in color infrared (CIR) in August of 2010...

  20. UMRS LTRMP 2010/11 LCU Mapping -- Pool 8

    Data.gov (United States)

    U.S. Geological Survey, Department of the Interior — Aerial photographs for Pools 1-13 Upper Mississippi River System and Pools, Alton-Marseilles, Illinois River were collected in color infrared (CIR) in August of 2010...

  1. UMRS LTRMP 2010/11 LCU Mapping -- Pool 24

    Data.gov (United States)

    U.S. Geological Survey, Department of the Interior — Aerial photographs for Pools 1-13 Upper Mississippi River System and Pools, Alton-Marseilles, Illinois River were collected in color infrared (CIR) in August of 2010...

  2. UMRS LTRMP 2010/11 LCU Mapping -- Pool 19

    Data.gov (United States)

    U.S. Geological Survey, Department of the Interior — Aerial photographs for Pools 1-13 Upper Mississippi River System and Pools, Alton-Marseilles, Illinois River were collected in color infrared (CIR) in August of 2010...

  3. UMRS LTRMP 2010/11 LCU Mapping -- Pool 20

    Data.gov (United States)

    U.S. Geological Survey, Department of the Interior — Aerial photographs for Pools 1-13 Upper Mississippi River System and Pools, Alton-Marseilles, Illinois River were collected in color infrared (CIR) in August of 2010...

  4. UMRS LTRMP 2010/11 LCU Mapping -- Pool 26

    Data.gov (United States)

    U.S. Geological Survey, Department of the Interior — Aerial photographs for Pools 1-13 Upper Mississippi River System and Pools, Alton-Marseilles, Illinois River were collected in color infrared (CIR) in August of 2010...

  5. UMRS LTRMP 2010/11 LCU Mapping -- Pool 09

    Data.gov (United States)

    U.S. Geological Survey, Department of the Interior — Aerial photographs for Pools 1-13 Upper Mississippi River System and Pools, Alton-Marseilles, Illinois River were collected in color infrared (CIR) in August of 2010...

  6. UMRS LTRMP 2010/11 LCU Mapping -- Pool 25

    Data.gov (United States)

    U.S. Geological Survey, Department of the Interior — Aerial photographs for Pools 1-13 Upper Mississippi River System and Pools, Alton-Marseilles, Illinois River were collected in color infrared (CIR) in August of 2010...

  7. UMRS LTRMP 2010/11 LCU Mapping -- Pool 21

    Data.gov (United States)

    U.S. Geological Survey, Department of the Interior — Aerial photographs for Pools 1-13 Upper Mississippi River System and Pools, Alton-Marseilles, Illinois River were collected in color infrared (CIR) in August of 2010...

  8. UMRS LTRMP 2010/11 LCU Mapping -- Pool 12

    Data.gov (United States)

    U.S. Geological Survey, Department of the Interior — Aerial photographs for Pools 1-13 Upper Mississippi River System and Pools, Alton-Marseilles, Illinois River were collected in color infrared (CIR) in August of 2010...

  9. UMRS LTRMP 2010/11 LCU Mapping -- Pool 5

    Data.gov (United States)

    U.S. Geological Survey, Department of the Interior — Aerial photographs for Pools 1-13 Upper Mississippi River System and Pools, Alton-Marseilles, Illinois River were collected in color infrared (CIR) in August of 2010...

  10. UMRS LTRMP 2010/11 LCU Mapping -- Pool 25

    Data.gov (United States)

    U.S. Geological Survey, Department of the Interior — Aerial photographs for Pools 1-13 Upper Mississippi River System and Pools, Alton-Marseilles, Illinois River were collected in color infrared (CIR) in August of...

  11. Performance Study and Dynamic Optimization Design for Thread Pool Systems

    Energy Technology Data Exchange (ETDEWEB)

    Xu, Dongping [Iowa State Univ., Ames, IA (United States)

    2004-12-19

    Thread pools have been widely used by many multithreaded applications. However, the determination of the pool size according to the application behavior still remains problematic. To automate this process, in this thesis we have developed a set of performance metrics for quantitatively analyzing thread pool performance. For our experiments, we built a thread pool system which provides a general framework for thread pool research. Based on this simulation environment, we studied the performance impact brought by the thread pool on different multithreaded applications. Additionally, the correlations between internal characterizations of thread pools and their throughput were also examined. We then proposed and evaluated a heuristic algorithm to dynamically determine the optimal thread pool size. The simulation results show that this approach is effective in improving overall application performance.

  12. [Tiit Hennoste loengusarjast 'Hüpped modernismi poole'] / Hasso Krull

    Index Scriptorium Estoniae

    Krull, Hasso, 1964-

    1997-01-01

    Tiit Hennoste loengusarjast 'Hüpped modernismi poole : Eesti 20. sajandi kirjandusest Euroopa modernismi taustal' (1993, nr. 10 - 1997, nr. 10/11).Vastukaja: Hüpped modernismi poole: kajad ja vastukajad // Vikerkaar (1998) nr. 6, lk. 99-111

  13. [Tiit Hennoste loengusarjast 'Hüpped modernismi poole'] / Hasso Krull

    Index Scriptorium Estoniae

    Krull, Hasso, 1964-

    1997-01-01

    Tiit Hennoste loengusarjast 'Hüpped modernismi poole : Eesti 20. sajandi kirjandusest Euroopa modernismi taustal' (1993, nr. 10 - 1997, nr. 10/11).Vastukaja: Hüpped modernismi poole: kajad ja vastukajad // Vikerkaar (1998) nr. 6, lk. 99-111

  14. Genomic Characterization and Comparison of Multi-Regional and Pooled Tumor Biopsy Specimens.

    Science.gov (United States)

    Joung, Je-Gun; Bae, Joon Seol; Kim, Sang Cheol; Jung, HyunChul; Park, Woong-Yang; Song, Sang-Yong

    2016-01-01

    A single tumor biopsy specimen is typically used in cancer genome studies. However, it may represent incompletely the underlying mutational and transcriptional profiles of tumor biology. Multi-regional biopsies have the advantage of increased sensitivity for genomic profiling, but they are not cost-effective. The concept of an alternative method such as the pooling of multiple biopsies is a challenge. In order to determine if the pooling of distinct regions is representative at the genomic and transcriptome level, we performed sequencing of four regional samples and pooled samples for four cancer types including colon, stomach, kidney and liver cancer. Subsequently, a comparative analysis was conducted to explore differences in mutations and gene expression profiles between multiple regional biopsies and pooled biopsy for each tumor. Our analysis revealed a marginal level of regional difference in detected variants, but in those with low allele frequency, considerable discrepancies were observed. In conclusion, sequencing pooled samples has the benefit of detecting many variants with moderate allele frequency that occur in partial regions, but it is not applicable for detecting low-frequency mutations that require deep sequencing.

  15. Biomass production and energy source of thermophiles in a Japanese alkaline geothermal pool.

    Science.gov (United States)

    Kimura, Hiroyuki; Mori, Kousuke; Nashimoto, Hiroaki; Hattori, Shohei; Yamada, Keita; Koba, Keisuke; Yoshida, Naohiro; Kato, Kenji

    2010-02-01

    Microbial biomass production has been measured to investigate the contribution of planktonic bacteria to fluxations in dissolved organic matter in marine and freshwater environments, but little is known about biomass production of thermophiles inhabiting geothermal and hydrothermal regions. The biomass production of thermophiles inhabiting an 85 degrees C geothermal pool was measured by in situ cultivation using diffusion chambers. The thermophiles' growth rates ranged from 0.43 to 0.82 day(-1), similar to those of planktonic bacteria in marine and freshwater habitats. Biomass production was estimated based on cellular carbon content measured directly from the thermophiles inhabiting the geothermal pool, which ranged from 5.0 to 6.1 microg C l(-1) h(-1). This production was 2-75 times higher than that of planktonic bacteria in other habitats, because the cellular carbon content of the thermophiles was much higher. Quantitative PCR and phylogenetic analysis targeting 16S rRNA genes revealed that thermophilic H2-oxidizing bacteria closely related to Calderobacterium and Geothermobacterium were dominant in the geothermal pool. Chemical analysis showed the presence of H2 in gases bubbling from the bottom of the geothermal pool. These results strongly suggested that H2 plays an important role as a primary energy source of thermophiles in the geothermal pool.

  16. Development of pooled suppression subtractive hybridization to analyze the pangenome of Staphylococcus aureus.

    Science.gov (United States)

    Gerrish, Robert S; Gill, Ann L; Fowler, Vance G; Gill, Steven R

    2010-04-01

    We describe the development and application of a Pooled Suppression Subtractive Hybridization (PSSH) method to describe differences between the genomic content of a pool of clinical Staphylococcus aureus isolates and a sequenced reference strain. In comparative bacterial genomics, Suppression Subtractive Hybridization (SSH) is normally utilized to compare genomic features or expression profiles of one strain versus another, which limits its ability to analyze communities of isolates. However, a PSSH approach theoretically enables the user to characterize the entirety of gene content unique to a related group of isolates in a single reaction. These unique fragments may then be linked to individual isolates through standard PCR. This method was applied to examine the genomic diversity found in pools of S.aureus isolates associated with complicated bacteremia infections leading to endocarditis and osteomyelitis. Across four pools of 10 isolates each, four hundred and twenty seven fragments not found in or significantly divergent from the S. aureus NCTC 8325 reference genome were detected. These fragments could be linked to individual strains within its pool by PCR. This is the first use of PSSH to examine the S. aureus pangenome. We propose that PSSH is a powerful tool for researchers interested in rapidly comparing the genomic content of multiple unstudied isolates.

  17. Understanding the Impacts of Dark Pools on Price Discovery

    OpenAIRE

    Ye, Linlin

    2016-01-01

    This paper investigates the impact of dark pools on price discovery (the efficiency of prices on stock exchanges to aggregate information). Assets are traded in either an exchange or a dark pool, with the dark pool offering better prices but lower execution rates. Informed traders receive noisy and heterogeneous signals about an asset's fundamental. We find that informed traders use dark pools to mitigate their information risk and there is a sorting effect: in equilibrium, traders with stron...

  18. A three-pool model dissecting readily releasable pool replenishment at the calyx of held.

    Science.gov (United States)

    Guo, Jun; Ge, Jian-long; Hao, Mei; Sun, Zhi-cheng; Wu, Xin-sheng; Zhu, Jian-bing; Wang, Wei; Yao, Pan-tong; Lin, Wei; Xue, Lei

    2015-03-31

    Although vesicle replenishment is critical in maintaining exo-endocytosis recycling, the underlying mechanisms are not well understood. Previous studies have shown that both rapid and slow endocytosis recycle into a very large recycling pool instead of within the readily releasable pool (RRP), and the time course of RRP replenishment is slowed down by more intense stimulation. This finding contradicts the calcium/calmodulin-dependence of RRP replenishment. Here we address this issue and report a three-pool model for RRP replenishment at a central synapse. Both rapid and slow endocytosis provide vesicles to a large reserve pool (RP) ~42.3 times the RRP size. When moving from the RP to the RRP, vesicles entered an intermediate pool (IP) ~2.7 times the RRP size with slow RP-IP kinetics and fast IP-RRP kinetics, which was responsible for the well-established slow and rapid components of RRP replenishment. Depletion of the IP caused the slower RRP replenishment observed after intense stimulation. These results establish, for the first time, a realistic cycling model with all parameters measured, revealing the contribution of each cycling step in synaptic transmission. The results call for modification of the current view of the vesicle recycling steps and their roles.

  19. 40 CFR 97.143 - Compliance supplement pool.

    Science.gov (United States)

    2010-07-01

    ... 40 Protection of Environment 20 2010-07-01 2010-07-01 false Compliance supplement pool. 97.143... Allocations § 97.143 Compliance supplement pool. (a) In addition to the CAIR NOX allowances allocated under... CAIR NOX allowances to CAIR NOX units in the respective State: State Compliancesupplement pool...

  20. 40 CFR 96.143 - Compliance supplement pool.

    Science.gov (United States)

    2010-07-01

    ... 40 Protection of Environment 20 2010-07-01 2010-07-01 false Compliance supplement pool. 96.143... CAIR NOX Allowance Allocations § 96.143 Compliance supplement pool. (a) In addition to the CAIR NOX... Compliancesupplement pool Alabama 10,166 Delaware 843 District Of Columbia 0 Florida 8,335 Georgia 12,397 Illinois...

  1. 40 CFR 97.43 - Compliance Supplement Pool.

    Science.gov (United States)

    2010-07-01

    ... 40 Protection of Environment 20 2010-07-01 2010-07-01 false Compliance Supplement Pool. 97.43... Allocations § 97.43 Compliance Supplement Pool. (a) For any NOX Budget unit that reduces its NOX emission rate... State's compliance supplement pool set forth in appendix D of this part has a number of NOX...

  2. 48 CFR 873.114 - Best value pool.

    Science.gov (United States)

    2010-10-01

    ... 48 Federal Acquisition Regulations System 5 2010-10-01 2010-10-01 false Best value pool. 873.114... SUPPLEMENTARY REGULATIONS SIMPLIFIED ACQUISITION PROCEDURES FOR HEALTH-CARE RESOURCES 873.114 Best value pool... solicitation. These vendors constitute the best value pool. This determination is within the sole discretion...

  3. 48 CFR 252.232-7000 - Advance payment pool.

    Science.gov (United States)

    2010-10-01

    ... 48 Federal Acquisition Regulations System 3 2010-10-01 2010-10-01 false Advance payment pool. 252... Provisions And Clauses 252.232-7000 Advance payment pool. As prescribed in 232.412-70(a), use the following clause: Advance Payment Pool (DEC 1991) (a) Notwithstanding any other provision of this contract,...

  4. New algebraic constructions for pooling design in DNA library screening.

    Science.gov (United States)

    Li, Zengti; Gao, Suogang; Du, Hongjie; Shi, Yan

    2010-01-01

    Pooling design is an important mathematical tool in DNA library screening. It has been showed that using pooling design, the number of tests in DNA library screening can be greatly reduced. In this paper, we present some new algebraic constructions for pooling design.

  5. Spatial and temporal variation in ephemeral pool crustacean communities

    Science.gov (United States)

    Janette Holtz; Marie A. Simovich; Thomas Philippi

    2005-01-01

    Vernal pool habitat losses in San Diego County, California, are estimated at 95 percent and will increase as development continues. The majority of San Diego’s remaining pools are located at the Marine Corps Air Station, Miramar. Crustacean communities in eight vernal pools in San Diego County were sampled over 3 years that differed in rainfall amount and pattern. In...

  6. 7 CFR 985.57 - Reserve pool requirements.

    Science.gov (United States)

    2010-01-01

    ... 7 Agriculture 8 2010-01-01 2010-01-01 false Reserve pool requirements. 985.57 Section 985.57... Reserve pool requirements. (a) On November 1, or such other date as the Committee, with the approval of the Secretary may establish, the Committee shall pool identified excess oil as reserve oil in...

  7. Soil organic carbon pools in the northern circumpolar permafrost region

    Science.gov (United States)

    C. Tarnocai; J.G. Canadell; E.A.G. Schuur; P. Kuhry; G. Mazhitova; S. Zimov

    2009-01-01

    The Northern Circumpolar Soil Carbon Database was developed to determine carbon pools in soils of the northern circumpolar permafrost region. Here we report a new estimate of the carbon pools in soils of the northern permafrost region, including deeper layers and pools not accounted for in previous analyses.

  8. A Skeleton for Distributed Work Pools in Eden

    DEFF Research Database (Denmark)

    Dieterle, Mischa; Berthold, Jost; Loogen, Rita

    2010-01-01

    We present a flexible skeleton for implementing distributed work pools in our parallel functional language Eden. The skeleton manages a pool of tasks (work pool) in a distributed manner using a demand-driven work stealing approach for load balancing. All coordination is done locally within...

  9. NACUBO's Guide to Unitizing Investment Pools. Second Edition

    Science.gov (United States)

    Wheeler, Mary S.

    2011-01-01

    The National Association of College and University Business Officers' (NACUBO's) "Guide to Unitizing Investment Pools" addresses the principles and concepts for administering a consolidated investment pool. Unitization is the mechanism by which investment funds are pooled to maximize investment efficiencies and provide information for donors,…

  10. Swimming Pools, Swimming pools, licensed - name, address, contact, volume, Published in 2006, Iowa Dept. of Public Health.

    Data.gov (United States)

    NSGIC GIS Inventory (aka Ramona) — This Swimming Pools dataset, was produced all or in part from Published Reports/Deeds information as of 2006. It is described as 'Swimming pools, licensed - name,...

  11. Dominant factors in controlling marine gas pools in South China

    Science.gov (United States)

    Xu, S.; Watney, W.L.

    2007-01-01

    In marine strata from Sinian to Middle Triassic in South China, there develop four sets of regional and six sets of local source rocks, and ten sets of reservoir rocks. The occurrence of four main formation periods in association with five main reconstruction periods, results in a secondary origin for the most marine gas pools in South China. To improve the understanding of marine gas pools in South China with severely deformed geological background, the dominant control factors are discussed in this paper. The fluid sources, including the gas cracked from crude oil, the gas dissolved in water, the gas of inorganic origin, hydrocarbons generated during the second phase, and the mixed pool fluid source, were the most significant control factors of the types and the development stage of pools. The period of the pool formation and the reconstruction controlled the pool evolution and the distribution on a regional scale. Owing to the multiple periods of the pool formation and the reconstruction, the distribution of marine gas pools was complex both in space and in time, and the gas in the pools is heterogeneous. Pool elements, such as preservation conditions, traps and migration paths, and reservoir rocks and facies, also served as important control factors to marine gas pools in South China. Especially, the preservation conditions played a key role in maintaining marine oil and gas accumulations on a regional or local scale. According to several dominant control factors of a pool, the pool-controlling model can be constructed. As an example, the pool-controlling model of Sinian gas pool in Weiyuan gas field in Sichuan basin was summed up. ?? Higher Education Press and Springer-Verlag 2007.

  12. Cold Pool and Surface Flux Interactions in Different Environments

    Science.gov (United States)

    Grant, L. D.; van den Heever, S. C.

    2015-12-01

    Cold pools play important roles in tropical and midlatitude deep convective initiation and organization through their influence on near-surface kinematic and thermodynamic fields. Because temperature, moisture, and winds are perturbed within cold pools, cold pools can also impact surface sensible and latent heat fluxes. In turn, surface fluxes both within the cold pool and in the environment can modify the characteristics of cold pools and their evolution, with subsequent implications for convective initiation and organization. The two-way interaction between cold pools and surface energy fluxes has not been well studied and is likely to vary according to the environment and surface type. The goal of this study is therefore to investigate the mechanisms by which surface fluxes and cold pools interact in environmental conditions ranging from tropical oceanic to dry continental. This goal will be accomplished using high-resolution (grid spacings as fine as 10 m), idealized, 2D simulations of isolated cold pools; such modeling experiments have proven useful for investigating cold pools and their dynamics in many previous studies. In the proposed experiments, the surface flux formulation, surface type, and environmental conditions will be systematically varied. The impact of surface fluxes on various cold pool characteristics and their evolution, including the buoyancy, maximum vertical velocity, and moisture distribution, will be analyzed and presented. Results suggest that the mechanisms by which surface fluxes and cold pools interact vary substantially with the environment. Additionally, the indirect effects of surface fluxes on turbulent entrainment rates into the cold pool are found to play an important role in cold pool evolution. These results suggest that surface fluxes can impact the timing and manner in which cold pools initiate convection, and that their effects may be important to incorporate into cold pool parameterizations for climate simulations.

  13. Dominant factors in controlling marine gas pools in South China

    Institute of Scientific and Technical Information of China (English)

    XU Sihuang; W.Lynn Watney

    2007-01-01

    In marine strata from Sinian to Middle Triassic in South China,there develop four sets of regional and six sets of local source rocks,and ten sets of reservoir rocks.The occurrence of four main formation periods in association with five main reconstruction periods,results in a secondary origin for the most marine gas pools in South China.To improve the understanding of marine gas pools in South China with severely deformed geological background,the dominant control factors are discussed in this paper.The fluid sources,including the gas cracked from crude oil,the gas dissolved in water,the gas of inorganic origin,hydrocarbons generated during the second phase,and the mixed pool fluid source,were the most significant control factors of the types and the development stage of pools.The period of the pool formation and the reconstruction controlled the pool evolution and the distribution on a regional scale.Owing to the multiple periods of the pool formation and the reconstruction,the distribution of marine gas pools was complex both in space and in time,and the gas in the pools is heterogeneous.Pool elements,such as preservation conditions,traps and migration paths,and reservoir rocks and facies,also served as important control factors to marine gas pools in South China.Especially,the preservation conditions played a key role in maintaining marine oil and gas accumulations on a regional or local scale.According to several dominant control factors of a pool,the pool-controlling model can be constructed.As an example,the pool-controlling model of Sinian gas pool in Weiyuan gas field in Sichuan basin was summed up.

  14. An introduction to mid-Atlantic seasonal pools

    Science.gov (United States)

    Brown, L.J.; Jung, R.E.

    2005-01-01

    Seasonal pools, also known as vernal ponds, provide important ecological services to the mid-Atlantic region. This publication serves as an introduction to seasonal pool ecology and management; it also provides tools for exploring seasonal pools, including a full-color field guide to wildlife. Seasonal pools are defined as having four distinctive features: surface water isolation, periodic drying, small size and shallow depth, and support of a characteristic biological community. Seasonal pools experience regular drying that excludes populations of predatory fish. Thus, pools in the mid-Atlantic region provide critical breeding habitat for amphibian and invertebrate species (e.g., spotted salamander (Ambystoma maculatum), wood frog (Rana sylvatica), and fairy shrimp (Order Anostraca)) that would be at increased risk of predation in more permanent waters. The distinctive features of seasonal pools also make them vulnerable to human disturbance. In the mid-Atlantic region, land-use changes pose the greatest challenges to seasonal pool conservation. Seasonal pools are threatened by direct loss (e.g., filling or draining of the pool) as well as by destruction and fragmentation of adjoining terrestrial habitat. Many of the species that depend on seasonal pools for breeding spend the majority of their lives in the surrounding lands that extend a radius of 1000 feet or more from the pools; these vital habitats are being transected by roads and converted to other land uses. Other threats to seasonal pools include biological introductions and removals, mosquito control practices, amphibian diseases, atmospheric deposition, and climate change. The authors recommend a three-pronged strategy for seasonal pool conservation and management in the mid-Atlantic region: education and research, inventory and monitoring of seasonal pools, and landscape-level planning and management.

  15. Pool boiling visualization on open microchannel surfaces

    Directory of Open Access Journals (Sweden)

    Kaniowski Robert

    2017-01-01

    Full Text Available The paper presents visualization investigations into pool boiling heat transfer for open minichannel surfaces. The experiments were carried out wih saturated water at atmospheric pressure. Parallel microchannels fabricated by machining were about 0.3 mm wide and 0.2 to 0.4 mm deep. High-speed videos were used as an aid to understanding the heat transfer mechanism. The visualization study aimed at identifying nucleation sites of the departing bubbles and determining their diameters and frequency at various superheats.

  16. Subcooled pool boiling CHF in ethanol

    OpenAIRE

    Park, Jongdoc; Fukuda, Katsuya; Liu, Qiusheng

    2006-01-01

    Steady-state and transient critical heat fluxes (CHFs) were measured using a 1.0 mm diameter horizontal cylinder in a pool of highly wetting liquid, such as ethanol, due to steady and transient heat generation rate for wide range of subcoolings and pressures. Boiling CHF was assumed to happen based on a kind of hydrodynamic instability (HI) at CHF, and the model is supposed that the increase in vapor generation from the cylinder surface causes a limit of the steady-state vapor escape flow whe...

  17. EDITORIAL: In vitro experiments with primary mammalian cells: To Pool or not to Pool?

    Directory of Open Access Journals (Sweden)

    MJ Stoddart

    2012-11-01

    Full Text Available There are various strategies that can be adopted when performing in vitro experiments with primary cells such as mesenchymal stem cells. It is generally accepted that multiple donors need to be investigated to take into account donor to donor variability; this is especially critical when investigating primary human cells. However, increasingly it is being seen that studies are pooling the cells from multiple donors prior to performing the experiment. This has obvious advantages but also many disadvantages, the greatest being loss of statistical power. This loss of statistical power is the reason why the pooling of primary cells for experiments is not to be recommended.

  18. Weld pool vision sensing and image processing for GMAW

    Institute of Scientific and Technical Information of China (English)

    YUE Jianfeng; LI Liangyu; FAN Fanglei; WU Baolin

    2009-01-01

    It is difficult to acquire satisfied weld pool image by CCD sensor during gas metal arc welding(GMAW), for arc disturbs violently, welding current is great and working frequeacy is high. By using CMOS vision sensor to GMA W process, the vivid weld pool image is collected at any time, furthermore, whose gray compression ratio is controllable by sensor hardware circuit developed. Acquired weld pool image is firstly pre-processed by using Wiener filter and Ostu threshold segmentation algorithm. Subsequently separation between weld pool intage and cathode mist region is conducted by means of mathematical morphological algorithm, and the edge of weld pool image is extracted by using Prewitt algorithm.

  19. RECONSTRUCTION OF WELD POOL SURFACE BASED ON SHAPE FROM SHADING

    Institute of Scientific and Technical Information of China (English)

    DU Quanying; CHEN Shanben; LIN Tao

    2006-01-01

    A valid image-processing algorithm of weld pool surface reconstruction according to an input image of weld pool based on shape from shading (SFS) in computer vision is presented. The weld pool surface information is related to the backside weld width, which is crucial to the quality of weldjoint. The image of weld pool is recorded with an optical sensing method. Firstly, the reflectance map model, which specifies the imaging process, is estimated. Then, the algorithm of weld pool surface reconstruction based on SFS is implemented by iteration scheme and speeded by hierarchical structure. The results indicate the accuracy and effectiveness of the approach.

  20. THE CLIMATE FEATURES OF THE SOUTH CHINA SEA WARM POOL

    Institute of Scientific and Technical Information of China (English)

    2000-01-01

    There exists a warm pool in the South China Sea (SCS). The temporal and spatial distribution and evolution of SCS warm pool is investigated using water temperatures at a depth of 20 m in the sea. The formation of the warm pool is discussed by combining water temperatures with geostrophic currents and simulated oceanic circulation. It is found that there are significant seasonal and interannual changes in the warm pool and in association with the general circulation of the atmosphere. The development of SCS warm pool is also closely related to the gyre activities in the sea and imported warm water from Indian Ocean (Java Sea) besides radiative warming.

  1. Plant diversity associated with pools in natural and restored peatlands

    Directory of Open Access Journals (Sweden)

    N. Fontaine

    2007-06-01

    Full Text Available This study describes plant assemblages associated with the edges of peatland pools. We conducted inventories in six natural peatlands in the province of Québec (Canada in order to measure the contribution of pools to species diversity in climatic regions where peatlands are used for peat extraction. We also carried out vegetation surveys in a peatland that has been restored after peat extraction/harvesting to determine whether pool vegetation establishes along the edges of created pools when dry surface restoration techniques only are used. Pools enhanced plant species richness in natural peatlands. Around created pools, species associated with natural pools were still absent, and non-bog species were present, six years after restoration. On this basis, we emphasise the importance of preserving natural peatlands with pools. In order to restore fully the plant diversity associated with peatlands at harvested sites, it may be necessary to modify pool excavation techniques so that created pools resemble more closely those in natural peatlands. Active introduction of the plant species or communities associated with natural pools may also be needed; candidate species for North America include Andromeda glaucophylla, Cladopodiella fluitans, Carex limosa, Eriophorum virginicum, Rhynchospora alba and Sphagnum cuspidatum.

  2. Opportunities and challenges when pooling milk samples using ELISA

    DEFF Research Database (Denmark)

    Græsbøll, Kaare; Andresen, Lars Ole; Hisham Beshara Halasa, Tariq

    2017-01-01

    to standard pooling. Their efficiency and the potential savings were determined as a function of prevalence and the number of pooled samples. The potential benefit of pooling samples is dependent upon the changes in the analytical sensitivity and specificity of the test used when diluting test......-positive samples by pooling. To illustrate this, the sensitivity of antibody ELISA on pooled samples of bovine milk for Salmonella Dublin, Mycobacterium avium spp. paratuberculosis, and bovine virus diarrhea was tested. For these milk assays, the analytical sensitivity decreased rapidly with increasing pool sizes...... of samples, the two-stage non-hierarchical test may be more efficient, both in terms of number of tests and overall cost. In order to apply these results in different laboratory settings, a free Shiny WebApp was developed, to compare several pooling schemes with different cost parameters....

  3. Design of inventory pools in spare part support operation systems

    Science.gov (United States)

    Mo, Daniel Y.; Tseng, Mitchell M.; Cheung, Raymond K.

    2014-06-01

    The objective of a spare part support operation is to fulfill the part request order with different service contracts in the agreed response time. With this objective to achieve different service targets for multiple service contracts and the considerations of inventory investment, it is not only important to determine the inventory policy but also to design the structure of inventory pools and the order fulfilment strategies. In this research, we focused on two types of inventory pools: multiple inventory pool (MIP) and consolidated inventory pool (CIP). The idea of MIP is to maintain separated inventory pools based on the types of service contract, while CIP solely maintains a single inventory pool regardless of service contract. Our research aims to design the inventory pool analytically and propose reserve strategies to manage the order fulfilment risks in CIP. Mathematical models and simulation experiments would be applied for analysis and evaluation.

  4. Vision detection of weld pool shape parameters and numerical simulation

    Science.gov (United States)

    Yuan, Youzhi; Liu, Nansheng; Wang, Yanfeng; Luo, Wei; Liu, Xiaorui

    2008-12-01

    An active vision sensing system which established by low power laser and common CCD is used to shoot GTAW welding pool images. Based on choose the appropriate LASER and filters, projected angle of laser and shoot angle of CCD, we avoid the disturbance of arc effectively and obtain clear images of the welding pool. The shape parameters of welding pool can obtain by demarcated and calculated. And then a three-dimentional numerical model of GTAW welding pool is established based on the theories of fluid dynamics and heat transfer. It considered the convection heat transfer of liquid metal and heat conduction of solid metal. And FLUENT software is used for simulate the GTAW welding pool. Extract the weld pool shape parameters and done comparative study with the vision detection of pool. This will be beneficial to avoid repeat experiments and improve work efficiency.

  5. Aspects of DNA repair and nucleotide pool imbalance

    Energy Technology Data Exchange (ETDEWEB)

    Holliday, R.

    1985-01-01

    Evidence that optimum repair depends on adequate pools of deoxynucleotide triphosphates (dNTPs) comes from the study of pyrimidine auxotrophs of Ustilago maydis. These strains are sensitive to UV light and X-rays, and for pyr1-1 it has been shown that the intracellular concentration of dTTP is reduced about 7-fold. The survival curve of pyr1-1 after UV-treatment, and split dose experiments with wild-type cells, provide evidence for an inducible repair mechanism, which probably depends on genetic recombination. Although inducible repair saves cellular resources, it has the disadvantage of becoming ineffective at doses which are high enough to inactivate the repressed structural gene(s) for repair enzymes. It is clear that a wide variety of repair mechanisms have evolved to remove lesions which arise either spontaneously or as a result of damage from external agents. Nevertheless, it would be incorrect to assume that all species require all possible pathways of repair. It is now well established that the accuracy of DNA and protein synthesis depends on proof-reading or editing mechanisms. Optimum accuracy levels will evolve from the balance between error avoidance in macromolecular synthesis and physiological efficiency in growth and propagation.

  6. Molecular underpinnings of synaptic vesicle pool heterogeneity.

    Science.gov (United States)

    Crawford, Devon C; Kavalali, Ege T

    2015-04-01

    Neuronal communication relies on chemical synaptic transmission for information transfer and processing. Chemical neurotransmission is initiated by synaptic vesicle fusion with the presynaptic active zone resulting in release of neurotransmitters. Classical models have assumed that all synaptic vesicles within a synapse have the same potential to fuse under different functional contexts. In this model, functional differences among synaptic vesicle populations are ascribed to their spatial distribution in the synapse with respect to the active zone. Emerging evidence suggests, however, that synaptic vesicles are not a homogenous population of organelles, and they possess intrinsic molecular differences and differential interaction partners. Recent studies have reported a diverse array of synaptic molecules that selectively regulate synaptic vesicles' ability to fuse synchronously and asynchronously in response to action potentials or spontaneously irrespective of action potentials. Here we discuss these molecular mediators of vesicle pool heterogeneity that are found on the synaptic vesicle membrane, on the presynaptic plasma membrane, or within the cytosol and consider some of the functional consequences of this diversity. This emerging molecular framework presents novel avenues to probe synaptic function and uncover how synaptic vesicle pools impact neuronal signaling.

  7. Visual attention and flexible normalization pools

    Science.gov (United States)

    Schwartz, Odelia; Coen-Cagli, Ruben

    2013-01-01

    Attention to a spatial location or feature in a visual scene can modulate the responses of cortical neurons and affect perceptual biases in illusions. We add attention to a cortical model of spatial context based on a well-founded account of natural scene statistics. The cortical model amounts to a generalized form of divisive normalization, in which the surround is in the normalization pool of the center target only if they are considered statistically dependent. Here we propose that attention influences this computation by accentuating the neural unit activations at the attended location, and that the amount of attentional influence of the surround on the center thus depends on whether center and surround are deemed in the same normalization pool. The resulting form of model extends a recent divisive normalization model of attention (Reynolds & Heeger, 2009). We simulate cortical surround orientation experiments with attention and show that the flexible model is suitable for capturing additional data and makes nontrivial testable predictions. PMID:23345413

  8. Hardening Stratum, the Bitcoin Pool Mining Protocol

    Directory of Open Access Journals (Sweden)

    Recabarren Ruben

    2017-07-01

    Full Text Available Stratum, the de-facto mining communication protocol used by blockchain based cryptocurrency systems, enables miners to reliably and efficiently fetch jobs from mining pool servers. In this paper we exploit Stratum’s lack of encryption to develop passive and active attacks on Bitcoin’s mining protocol, with important implications on the privacy, security and even safety of mining equipment owners. We introduce StraTap and ISP Log attacks, that infer miner earnings if given access to miner communications, or even their logs. We develop BiteCoin, an active attack that hijacks shares submitted by miners, and their associated payouts. We build BiteCoin on WireGhost, a tool we developed to hijack and surreptitiously maintain Stratum connections. Our attacks reveal that securing Stratum through pervasive encryption is not only undesirable (due to large overheads, but also ineffective: an adversary can predict miner earnings even when given access to only packet timestamps. Instead, we devise Bedrock, a minimalistic Stratum extension that protects the privacy and security of mining participants. We introduce and leverage the mining cookie concept, a secret that each miner shares with the pool and includes in its puzzle computations, and that prevents attackers from reconstructing or hijacking the puzzles.

  9. Munc18-1 expression levels control synapse recovery by regulating readily releasable pool size

    Science.gov (United States)

    Toonen, Ruud F. G.; Wierda, Keimpe; Sons, Michèle S.; de Wit, Heidi; Cornelisse, L. Niels; Brussaard, Arjen; Plomp, Jaap J.; Verhage, Matthijs

    2006-01-01

    Prompt recovery after intense activity is an essential feature of most mammalian synapses. Here we show that synapses with reduced expression of the presynaptic gene munc18-1 suffer from increased depression during intense stimulation at glutamatergic, GABAergic, and neuromuscular synapses. Conversely, munc18-1 overexpression makes these synapses recover faster. Concomitant changes in the readily releasable vesicle pool and its refill kinetics were found. The number of vesicles docked at the active zone and the total number of vesicles per terminal correlated with both munc18-1 expression levels and the size of the releasable vesicle pool. These data show that varying expression of a single gene controls synaptic recovery by modulating the number of docked, release-ready vesicles and thereby replenishment of the secretion capacity. PMID:17110441

  10. Sampling and Pooling Methods for Capturing Herd Level Antibiotic Resistance in Swine Feces using qPCR and CFU Approaches.

    Directory of Open Access Journals (Sweden)

    Gunilla Veslemøy Schmidt

    Full Text Available The aim of this article was to define the sampling level and method combination that captures antibiotic resistance at pig herd level utilizing qPCR antibiotic resistance gene quantification and culture-based quantification of antibiotic resistant coliform indicator bacteria. Fourteen qPCR assays for commonly detected antibiotic resistance genes were developed, and used to quantify antibiotic resistance genes in total DNA from swine fecal samples that were obtained using different sampling and pooling methods. In parallel, the number of antibiotic resistant coliform indicator bacteria was determined in the same swine fecal samples. The results showed that the qPCR assays were capable of detecting differences in antibiotic resistance levels in individual animals that the coliform bacteria colony forming units (CFU could not. Also, the qPCR assays more accurately quantified antibiotic resistance genes when comparing individual sampling and pooling methods. qPCR on pooled samples was found to be a good representative for the general resistance level in a pig herd compared to the coliform CFU counts. It had significantly reduced relative standard deviations compared to coliform CFU counts in the same samples, and therefore differences in antibiotic resistance levels between samples were more readily detected. To our knowledge, this is the first study to describe sampling and pooling methods for qPCR quantification of antibiotic resistance genes in total DNA extracted from swine feces.

  11. Sampling and Pooling Methods for Capturing Herd Level Antibiotic Resistance in Swine Feces using qPCR and CFU Approaches

    Science.gov (United States)

    Mellerup, Anders; Ståhl, Marie

    2015-01-01

    The aim of this article was to define the sampling level and method combination that captures antibiotic resistance at pig herd level utilizing qPCR antibiotic resistance gene quantification and culture-based quantification of antibiotic resistant coliform indicator bacteria. Fourteen qPCR assays for commonly detected antibiotic resistance genes were developed, and used to quantify antibiotic resistance genes in total DNA from swine fecal samples that were obtained using different sampling and pooling methods. In parallel, the number of antibiotic resistant coliform indicator bacteria was determined in the same swine fecal samples. The results showed that the qPCR assays were capable of detecting differences in antibiotic resistance levels in individual animals that the coliform bacteria colony forming units (CFU) could not. Also, the qPCR assays more accurately quantified antibiotic resistance genes when comparing individual sampling and pooling methods. qPCR on pooled samples was found to be a good representative for the general resistance level in a pig herd compared to the coliform CFU counts. It had significantly reduced relative standard deviations compared to coliform CFU counts in the same samples, and therefore differences in antibiotic resistance levels between samples were more readily detected. To our knowledge, this is the first study to describe sampling and pooling methods for qPCR quantification of antibiotic resistance genes in total DNA extracted from swine feces. PMID:26114765

  12. Sampling and Pooling Methods for Capturing Herd Level Antibiotic Resistance in Swine Feces using qPCR and CFU Approaches.

    Science.gov (United States)

    Schmidt, Gunilla Veslemøy; Mellerup, Anders; Christiansen, Lasse Engbo; Ståhl, Marie; Olsen, John Elmerdahl; Angen, Øystein

    2015-01-01

    The aim of this article was to define the sampling level and method combination that captures antibiotic resistance at pig herd level utilizing qPCR antibiotic resistance gene quantification and culture-based quantification of antibiotic resistant coliform indicator bacteria. Fourteen qPCR assays for commonly detected antibiotic resistance genes were developed, and used to quantify antibiotic resistance genes in total DNA from swine fecal samples that were obtained using different sampling and pooling methods. In parallel, the number of antibiotic resistant coliform indicator bacteria was determined in the same swine fecal samples. The results showed that the qPCR assays were capable of detecting differences in antibiotic resistance levels in individual animals that the coliform bacteria colony forming units (CFU) could not. Also, the qPCR assays more accurately quantified antibiotic resistance genes when comparing individual sampling and pooling methods. qPCR on pooled samples was found to be a good representative for the general resistance level in a pig herd compared to the coliform CFU counts. It had significantly reduced relative standard deviations compared to coliform CFU counts in the same samples, and therefore differences in antibiotic resistance levels between samples were more readily detected. To our knowledge, this is the first study to describe sampling and pooling methods for qPCR quantification of antibiotic resistance genes in total DNA extracted from swine feces.

  13. Expanding the live kidney donor pool: ethical considerations regarding altruistic donors, paired and pooled programs.

    Science.gov (United States)

    Patel, Shaneel Rajendra; Chadha, Priyanka; Papalois, Vassilios

    2011-06-01

    In renal transplant, there is a well-known deficiency in organ supply relative to demand. Live donation provides superior results when compared with deceased donation including a better rate of graft success and fewer immunologic complications. This deficiency in organs leads to significant morbidity and mortality rates. Alternative avenues have been extensively explored that may expand the live donor pool. They include altruistic donation as well as paired and pooled exchange programs. Altruistic donation is a truly selfless act from a donor unknown to the recipient. Kidney paired donation involves 2 incompatible donor-recipient pairs swapping donors to produce compatibility. Pooled donation involves at least 2 pairs, and can take the form of domino chains in which altruistic input sets up a chain of transplants, in which each recipient's incompatible donor makes a donation for the next recipient. Despite application of these various methods, there lie extensive ethical issues surrounding them. Misconceptions frequently occur; for instance, the perceived benefit that donating an organ to a loved one is greater for a related donor than for an altruistic one. Additionally, it is frequently believed that immunologic incompatibility offers coerced donors liberation from surgery, and that overcoming these barriers by introducing exchange programs provides vulnerable donors less protection. This article explores these and other complex ethical issues surrounding the various methods of expanding the donor pool. The authors offer opinions that challenge the ethical issues and attempt to overcome those views that hinder progress in the field.

  14. 454 sequencing of pooled BAC clones on chromosome 3H of barley

    Directory of Open Access Journals (Sweden)

    Yamaji Nami

    2011-05-01

    Full Text Available Abstract Background Genome sequencing of barley has been delayed due to its large genome size (ca. 5,000Mbp. Among the fast sequencing systems, 454 liquid phase pyrosequencing provides the longest reads and is the most promising method for BAC clones. Here we report the results of pooled sequencing of BAC clones selected with ESTs genetically mapped to chromosome 3H. Results We sequenced pooled barley BAC clones using a 454 parallel genome sequencer. A PCR screening system based on primer sets derived from genetically mapped ESTs on chromosome 3H was used for clone selection in a BAC library developed from cultivar "Haruna Nijo". The DNA samples of 10 or 20 BAC clones were pooled and used for shotgun library development. The homology between contig sequences generated in each pooled library and mapped EST sequences was studied. The number of contigs assigned on chromosome 3H was 372. Their lengths ranged from 1,230 bp to 58,322 bp with an average 14,891 bp. Of these contigs, 240 showed homology and colinearity with the genome sequence of rice chromosome 1. A contig annotation browser supplemented with query search by unique sequence or genetic map position was developed. The identified contigs can be annotated with barley cDNAs and reference sequences on the browser. Homology analysis of these contigs with rice genes indicated that 1,239 rice genes can be assigned to barley contigs by the simple comparison of sequence lengths in both species. Of these genes, 492 are assigned to rice chromosome 1. Conclusions We demonstrate the efficiency of sequencing gene rich regions from barley chromosome 3H, with special reference to syntenic relationships with rice chromosome 1.

  15. Intracellular Metabolite Pool Changes in Response to Nutrient Depletion Induced Metabolic Switching in Streptomyces coelicolor

    Directory of Open Access Journals (Sweden)

    Alexander Wentzel

    2012-02-01

    Full Text Available A metabolite profiling study of the antibiotic producing bacterium Streptomyces coelicolor A3(2 has been performed. The aim of this study was to monitor intracellular metabolite pool changes occurring as strains of S. coelicolor react to nutrient depletion with metabolic re-modeling, so-called metabolic switching, and transition from growth to secondary metabolite production phase. Two different culture media were applied, providing depletion of the key nutrients phosphate and L-glutamate, respectively, as the triggers for metabolic switching. Targeted GC-MS and LC-MS methods were employed to quantify important primary metabolite groups like amino acids, organic acids, sugar phosphates and other phosphorylated metabolites, and nucleotides in time-course samples withdrawn from fully-controlled batch fermentations. A general decline, starting already in the early growth phase, was observed for nucleotide pools and phosphorylated metabolite pools for both the phosphate and glutamate limited cultures. The change in amino acid and organic acid pools were more scattered, especially in the phosphate limited situation while a general decrease in amino acid and non-amino organic acid pools was observed in the L-glutamate limited situation. A phoP deletion mutant showed basically the same metabolite pool changes as the wild-type strain M145 when cultivated on phosphate limited medium. This implies that the inactivation of the phoP gene has only little effect on the detected metabolite levels in the cell. The energy charge was found to be relatively constant during growth, transition and secondary metabolite production phase. The results of this study and the employed targeted metabolite profiling methodology are directly relevant for the evaluation of precursor metabolite and energy supply for both natural and heterologous production of secondary metabolites in S. coelicolor.

  16. DNA--a molecule in search of additional functions: recipient of pool wave emissions? A hypothesis.

    Science.gov (United States)

    Doerfler, Walter

    2010-09-01

    Almost the entire nucleotide sequence of human DNA is functionally unaccounted for, although large parts of the human genome are transcribed. The genes, as defined by current molecular biology, comprise about 1.5-2% of the DNA molecule. It is proposed that DNA encodes additional, hitherto unrecognized functions. In this discussion, the total information inside and outside the universe we live in is termed the pool or the sum total, known or unknown, of all laws, matter, energy, concepts and events. In a hypothetical model, a Gedankenexperiment, it is suggested that the total of all information emits pool waves of an unknown physical nature. They could be related to black energy or have completely different qualities. The designation pool waves should not imply any similarity to electromagnetism. Further, DNA is suggested to have the capability of interacting with the pool waves and thus permit humans - to some partly genetically determined and yet very limited extent - to perceive information from the pool. Pool emissions might be one of the forces that have been instrumental in and are still driving evolution from simple oligonucleotides to DNA with ever more complex recipient capacities. It will be a major challenge for researchers in the field to unravel these and less hypothetical undetected coding principles in DNA. It is uncertain whether the current trend to search the available DNA sequences with ever more refined computer technology on the basis of our present understanding of biology will detect unknown coding systems. For molecular medicine, research into the genetics of the most common human diseases could profit from the elucidation of presently still ephemeral codes in human DNA. Young scientists with a proven record of original research deserve support for the pursuit of unconventional ideas. This concept of granting priorities will be of the utmost importance in advancing the field beyond current concepts in molecular biology.

  17. Genotoxic Effects in Swimmers Exposed to Disinfection By-products in Indoor Swimming Pools

    Science.gov (United States)

    Kogevinas, Manolis; Villanueva, Cristina M.; Font-Ribera, Laia; Liviac, Danae; Bustamante, Mariona; Espinoza, Felicidad; Nieuwenhuijsen, Mark J.; Espinosa, Aina; Fernandez, Pilar; DeMarini, David M.; Grimalt, Joan O.; Grummt, Tamara; Marcos, Ricard

    2010-01-01

    Background Exposure to disinfection by-products (DBPs) in drinking water has been associated with cancer risk. A recent study (Villanueva et al. 2007; Am J Epidemiol 165:148–156) found an increased bladder cancer risk among subjects attending swimming pools relative to those not attending. Objectives We evaluated adults who swam in chlorinated pools to determine whether exposure to DBPs in pool water is associated with biomarkers of genotoxicity. Methods We collected blood, urine, and exhaled air samples from 49 nonsmoking adult volunteers before and after they swam for 40 min in an indoor chlorinated pool. We estimated associations between the concentrations of four trihalomethanes (THMs) in exhaled breath and changes in micronuclei (MN) and DNA damage (comet assay) in peripheral blood lymphocytes before and 1 hr after swimming; urine mutagenicity (Ames assay) before and 2 hr after swimming; and MN in exfoliated urothelial cells before and 2 weeks after swimming. We also estimated associations and interactions with polymorphisms in genes related to DNA repair or to DBP metabolism. Results After swimming, the total concentration of the four THMs in exhaled breath was seven times higher than before swimming. The change in the frequency of micronucleated lymphocytes after swimming increased in association with higher exhaled concentrations of the brominated THMs (p = 0.03 for bromodichloromethane, p = 0.05 for chlorodibromomethane, p = 0.01 for bromoform) but not chloroform. Swimming was not associated with DNA damage detectable by the comet assay. Urine mutagenicity increased significantly after swimming, in association with the higher concentration of exhaled bromoform (p = 0.004). We found no significant associations with changes in micronucleated urothelial cells. Conclusions Our findings support potential genotoxic effects of exposure to DBPs from swimming pools. The positive health effects gained by swimming could be increased by reducing the potential health

  18. Applicability of DNA pools on 500 K SNP microarrays for cost-effective initial screens in genomewide association studies

    Directory of Open Access Journals (Sweden)

    Schalkwyk Leonard C

    2007-07-01

    Full Text Available Abstract Background Genetic influences underpinning complex traits are thought to involve multiple quantitative trait loci (QTLs of small effect size. Detection of such QTL associations requires systematic screening of large numbers of DNA markers within large sample populations. Using pooled DNA on SNP microarrays to screen for allelic frequency differences between groups such as cases and controls (called SNP Microarray and Pooling, or SNP-MaP has been validated as an efficient solution on both 10 k and 100 k platforms. We demonstrate that this approach can be effectively applied to the truly genomewide Affymetrix GeneChip® Mapping 500 K Array. Results In comparisons between five independent DNA pools (N ~200 per pool on separate Affymetrix GeneChip® Mapping 500 K Array sets, we show that, for SNPs with minor allele frequencies > 0.05, the reliability of the rank order of estimated allele frequencies, assessed as the average correlation between allele frequency estimates across the DNA pools, was 0.948 (average mean difference across the five pools = 0.069. Similarly, validity of the SNP-MaP approach was demonstrated by a rank-order correlation of 0.937 (average mean difference = 0.095 between the average DNA pool allele frequency estimates and the allele frequencies of an independent (CEPH sample of 60 unrelated individually genotyped subjects. Conclusion We conclude that SNP-MaP can be extended for use on the Affymetrix GeneChip® Mapping 500 K Array, providing a cost-effective, reliable and valid initial screen of 500 K SNP microarrays in genomewide association scans.

  19. To pool or not to pool? Impact of the use of individual and pooled fecal samples for in vitro fermentation studies

    NARCIS (Netherlands)

    Aguirre, M.; Ramiro Garcia, J.; Koenen, M.E.; Venema, K.

    2014-01-01

    This study investigated the stability and the activity of the microbiota from a single and a pool of donors in the TNO in vitro model of the colon (TIM-2 system). Our findings demonstrate the suitability of the preparation of a pool of fecal sample to be used for fermentation experiments.

  20. To pool or not to pool? Impact of the use of individual and pooled fecal samples for in vitro fermentation studies

    NARCIS (Netherlands)

    Aguirre, M.; Ramiro-Garcia, J.; Koenen, M.E.; Venema, K.

    2014-01-01

    This study investigated the stability and the activity of the microbiota from a single and a pool of donors in the TNO in vitro model of the colon (TIM-2 system). Our findings demonstrate the suitability of the preparation of a pool of fecal sample to be used for fermentation experiments. Chemicals/

  1. Next Generation Sequencing of Pooled Samples: Guideline for Variants’ Filtering

    Science.gov (United States)

    Anand, Santosh; Mangano, Eleonora; Barizzone, Nadia; Bordoni, Roberta; Sorosina, Melissa; Clarelli, Ferdinando; Corrado, Lucia; Martinelli Boneschi, Filippo; D’Alfonso, Sandra; De Bellis, Gianluca

    2016-01-01

    Sequencing large number of individuals, which is often needed for population genetics studies, is still economically challenging despite falling costs of Next Generation Sequencing (NGS). Pool-seq is an alternative cost- and time-effective option in which DNA from several individuals is pooled for sequencing. However, pooling of DNA creates new problems and challenges for accurate variant call and allele frequency (AF) estimation. In particular, sequencing errors confound with the alleles present at low frequency in the pools possibly giving rise to false positive variants. We sequenced 996 individuals in 83 pools (12 individuals/pool) in a targeted re-sequencing experiment. We show that Pool-seq AFs are robust and reliable by comparing them with public variant databases and in-house SNP-genotyping data of individual subjects of pools. Furthermore, we propose a simple filtering guideline for the removal of spurious variants based on the Kolmogorov-Smirnov statistical test. We experimentally validated our filters by comparing Pool-seq to individual sequencing data showing that the filters remove most of the false variants while retaining majority of true variants. The proposed guideline is fairly generic in nature and could be easily applied in other Pool-seq experiments. PMID:27670852

  2. Storage pool diseases illuminate platelet dense granule biogenesis.

    Science.gov (United States)

    Ambrosio, Andrea L; Di Pietro, Santiago M

    2016-11-16

    Platelet dense granules (DGs) are membrane bound compartments that store polyphosphate and small molecules such as ADP, ATP, Ca(2+), and serotonin. The release of DG contents plays a central role in platelet aggregation to form a hemostatic plug. Accordingly, congenital deficiencies in the biogenesis of platelet DGs underlie human genetic disorders that cause storage pool disease and manifest with prolonged bleeding. DGs belong to a family of lysosome-related organelles, which also includes melanosomes, the compartments where the melanin pigments are synthesized. These organelles share several characteristics including an acidic lumen and, at least in part, the molecular machinery involved in their biogenesis. As a result, many genes affect both DG and melanosome biogenesis and the corresponding patients present not only with bleeding but also with oculocutaneous albinism. The identification and characterization of such genes has been instrumental in dissecting the pathways responsible for organelle biogenesis. Because the study of melanosome biogenesis has advanced more rapidly, this knowledge has been extrapolated to explain how DGs are produced. However, some progress has recently been made in studying platelet DG biogenesis directly in megakaryocytes and megakaryocytoid cells. DGs originate from an endosomal intermediate compartment, the multivesicular body. Maturation and differentiation into a DG begins when newly synthesized DG-specific proteins are delivered from early/recycling endosomal compartments. The machinery that orchestrates this vesicular trafficking is composed of a combination of both ubiquitous and cell type-specific proteins. Here, we review the current knowledge on DG biogenesis. In particular, we focus on the individual human and murine genes encoding the molecular machinery involved in this process and how their deficiencies result in disease.

  3. One knowledge base or many knowledge pools?

    DEFF Research Database (Denmark)

    Lundvall, Bengt-Åke

    It is increasingly realized that knowledge is the most important resource and that learning is the most important process in the economy. Sometimes this is expressed by coining the current era as characterised by a ‘knowledge based economy'. But this concept might be misleading by indicating...... that there is one common knowledge base on which economic activities can be built. In this paper we argue that it is more appropriate to see the economy as connecting to different ‘pools of knowledge'. The argument is built upon a conceptual framework where we make distinctions between private/public, local....../global, individual/collective and tacit/codified knowledge. The purpose is both ‘academic' and practical. Our analysis demonstrates the limits of a narrowly economic perspective on knowledge and we show that these distinctions have important implications both for innovation policy and for management of innovation....

  4. Drop Impact on to Moving Liquid Pools

    Science.gov (United States)

    Muñoz-Sánchez, Beatriz Natividad; Castrejón-Pita, José Rafael; Castrejón-Pita, Alfonso Arturo; Hutchings, Ian M.

    2014-11-01

    The deposition of droplets on to moving liquid substrates is an omnipresent situation both in nature and industry. A diverse spectrum of phenomena emerges from this simple process. In this work we present a parametric experimental study that discerns the dynamics of the impact in terms of the physical properties of the fluid and the relative velocity between the impacting drop and the moving liquid pool. The behaviour ranges from smooth coalescence (characterized by little mixing) to violent splashing (generation of multiple satellite droplets and interfacial vorticity). In addition, transitional regimes such as bouncing and surfing are also found. We classify the system dynamics and show a parametric diagram for the conditions of each regime. This work was supported by the EPSRC (Grant EP/H018913/1), the Royal Society, Becas Santander Universidades and the International Relationships Office of the University of Extremadura.

  5. Pool Boiling Heat Transfer on structured Surfaces

    Science.gov (United States)

    Addy, J.; Olbricht, M.; Müller, B.; Luke, A.

    2016-09-01

    The development in the process and energy sector shows the importance of efficient utilization of available resources to improve thermal devices. To achieve this goal, all thermal components have to be optimized continuously. Various applications of multi-phase heat and mass transfer have to be improved. Therefore, the heat transfer and the influence of surface roughness in nucleate boiling with the working fluid propane is experimentally investigated on structured mild steel tubes, because only few data are available in the literature. The mild steel tube is sandblasted to obtain different surface roughness. The measurements are carried out over wide ranges of heat flux and pressure. The experimental results are compared with correlations from literature and the effect of surface roughness on the heat transfer is discussed. It is shown that the heat transfer coefficient increases with increasing surface roughness, heat flux and reduced pressure at nucleate pool boiling.

  6. High Velocity Droplet Rebound On Liquid Pools

    Science.gov (United States)

    Doak, William; Laiacona, Danielle; Chiarot, Paul; German, Guy

    2015-11-01

    Rebound of high velocity, periodic droplet streams off viscous liquid pools is studied experimentally. Droplets, approximately 60 micrometers in diameter, impact the oil surface at velocities up to 13 m/s and at angles between 2-25 degrees. The oil surface does not degrade or lose its ability to provide rebound even after millions of droplet impacts. The oil was varied to examine the effect that surface tension and viscosity had on droplet rebound. Stable rebound is achievable on oils varying in dynamic viscosity in the range 13-970 Pa.s and surface tensions in the range 19-28 mN/m. When rebound occurs, a consistent 29% loss of droplet kinetic energy is observed. This is a surprising relationship due to the fact that it holds true for all cases of stable rebound regardless of the oil used. We further observe an upper inertial limit where droplets no longer provide stable rebound and instead become fully entrained in the oil pool. This limit is governed by the Rayleigh-Plateau instability and can be characterized and predicted using a modified version of the Weber number. The droplet rebound presented in this study is unique due to the size, velocity, and frequency of the droplets used. Another unique feature is that the rebound manifests itself as an effectively static phenomenon. No motion of the interface - oscillations, waves, or otherwise - was observed during rebound. The quasi-static nature of rebound enabled distinctions to be made regarding energy dissipation and the transition from droplet rebound to entrainment.

  7. Estimates of array and pool-construction variance for planning efficient DNA-pooling genome wide association studies

    Directory of Open Access Journals (Sweden)

    Earp Madalene A

    2011-11-01

    Full Text Available Abstract Background Until recently, genome-wide association studies (GWAS have been restricted to research groups with the budget necessary to genotype hundreds, if not thousands, of samples. Replacing individual genotyping with genotyping of DNA pools in Phase I of a GWAS has proven successful, and dramatically altered the financial feasibility of this approach. When conducting a pool-based GWAS, how well SNP allele frequency is estimated from a DNA pool will influence a study's power to detect associations. Here we address how to control the variance in allele frequency estimation when DNAs are pooled, and how to plan and conduct the most efficient well-powered pool-based GWAS. Methods By examining the variation in allele frequency estimation on SNP arrays between and within DNA pools we determine how array variance [var(earray] and pool-construction variance [var(econstruction] contribute to the total variance of allele frequency estimation. This information is useful in deciding whether replicate arrays or replicate pools are most useful in reducing variance. Our analysis is based on 27 DNA pools ranging in size from 74 to 446 individual samples, genotyped on a collective total of 128 Illumina beadarrays: 24 1M-Single, 32 1M-Duo, and 72 660-Quad. Results For all three Illumina SNP array types our estimates of var(earray were similar, between 3-4 × 10-4 for normalized data. Var(econstruction accounted for between 20-40% of pooling variance across 27 pools in normalized data. Conclusions We conclude that relative to var(earray, var(econstruction is of less importance in reducing the variance in allele frequency estimation from DNA pools; however, our data suggests that on average it may be more important than previously thought. We have prepared a simple online tool, PoolingPlanner (available at http://www.kchew.ca/PoolingPlanner/, which calculates the effective sample size (ESS of a DNA pool given a range of replicate array values. ESS can

  8. A genome-wide association study for late-onset Alzheimer's disease using DNA pooling

    Directory of Open Access Journals (Sweden)

    Hillmer Axel M

    2008-09-01

    Full Text Available Abstract Background Late-onset Alzheimer's disease (LOAD is an age related neurodegenerative disease with a high prevalence that places major demands on healthcare resources in societies with increasingly aged populations. The only extensively replicable genetic risk factor for LOAD is the apolipoprotein E gene. In order to identify additional genetic risk loci we have conducted a genome-wide association (GWA study in a large LOAD case – control sample, reducing costs through the use of DNA pooling. Methods DNA samples were collected from 1,082 individuals with LOAD and 1,239 control subjects. Age at onset ranged from 60 to 95 and Controls were matched for age (mean = 76.53 years, SD = 33, gender and ethnicity. Equimolar amounts of each DNA sample were added to either a case or control pool. The pools were genotyped using Illumina HumanHap300 and Illumina Sentrix HumanHap240S arrays testing 561,494 SNPs. 114 of our best hit SNPs from the pooling data were identified and then individually genotyped in the case – control sample used to construct the pools. Results Highly significant association with LOAD was observed at the APOE locus confirming the validity of the pooled genotyping approach. For 109 SNPs outside the APOE locus, we obtained uncorrected p-values ≤ 0.05 for 74 after individual genotyping. To further test these associations, we added control data from 1400 subjects from the 1958 Birth Cohort with the evidence for association increasing to 3.4 × 10-6 for our strongest finding, rs727153. rs727153 lies 13 kb from the start of transcription of lecithin retinol acyltransferase (phosphatidylcholine – retinol O-acyltransferase, LRAT. Five of seven tag SNPs chosen to cover LRAT showed significant association with LOAD with a SNP in intron 2 of LRAT, showing greatest evidence of association (rs201825, p-value = 6.1 × 10-7. Conclusion We have validated the pooling method for GWA studies by both identifying the APOE locus and by

  9. Sharing as risk pooling in a social dilemma experiment

    Directory of Open Access Journals (Sweden)

    Todd L. Cherry

    2015-03-01

    Full Text Available In rural economies with missing or incomplete markets, idiosyncratic risk is frequently pooled through informal networks. Idiosyncratic shocks, however, are not limited to private goods but can also restrict an individual from partaking in or benefiting from a collective activity. In these situations, a group must decide whether to provide insurance to the affected member. We describe results of a laboratory experiment designed to test whether a simple sharing institution can sustain risk pooling in a social dilemma with idiosyncratic risk. We tested whether risk could be pooled without a commitment device and, separately, whether effective risk pooling induced greater cooperation in the social dilemma. We found that even in the absence of a commitment device or reputational considerations, subjects voluntarily pooled risk, thereby reducing variance in individual earnings. In spite of effective risk pooling, however, cooperation in the social dilemma was unaffected.

  10. Load balancing in distributed framework for frequency based thread pools

    Directory of Open Access Journals (Sweden)

    Sheraz Ahmad

    2016-12-01

    Full Text Available The consequence of load balancing algorithms on a thread pool framework name is distributed load balancing frequency based optimization scheme (LDFBOS to increase its execution. Load balancing in distributed frequency based thread pool scheme is residential towards the ground of synchronizing overhead crude named LDFBOS in Java that slows down its execution due to framework exchange and synchronizing overhead in nodes, we are demonstrating the contrive and execution of load balancing in distributed frequency based thread pool LDFBOS to does usage from distributed in frequency based thread pool (DFBOS, synchronizing primitives that propose benefits of significant scalable moreover, dynamism. We have got resembled the execution of some schemes by Thread Pool Tester which is a Java application simulator and the consequence have demonstrated that load balancing in distributed frequency based thread pool LDFBOS exceeds preceding DFBOS scheme.

  11. The Kallisti Limnes, carbon dioxide-accumulating subsea pools

    Science.gov (United States)

    2015-07-01

    Natural CO2 releases from shallow marine hydrothermal vents are assumed to mix into the water column, and not accumulate into stratified seafloor pools. We present newly discovered shallow subsea pools located within the Santorini volcanic caldera of the Southern Aegean Sea, Greece, that accumulate CO2 emissions from geologic reservoirs. This type of hydrothermal seafloor pool, containing highly concentrated CO2, provides direct evidence of shallow benthic CO2 accumulations originating from sub-seafloor releases. Samples taken from within these acidic pools are devoid of calcifying organisms, and channel structures among the pools indicate gravity driven flow, suggesting that seafloor release of CO2 at this site may preferentially impact benthic ecosystems. These naturally occurring seafloor pools may provide a diagnostic indicator of incipient volcanic activity and can serve as an analog for studying CO2 leakage and benthic accumulations from subsea carbon capture and storage sites.

  12. Case-control association testing of common variants from sequencing of DNA pools.

    Directory of Open Access Journals (Sweden)

    Allan F McRae

    Full Text Available While genome-wide association studies (GWAS have been successful in identifying a large number of variants associated with disease, the challenge of locating the underlying causal loci remains. Sequencing of case and control DNA pools provides an inexpensive method for assessing all variation in a genomic region surrounding a significant GWAS result. However, individual variants need to be ranked in terms of the strength of their association to disease in order to prioritise follow-up by individual genotyping. A simple method for testing for case-control association in sequence data from DNA pools is presented that allows the partitioning of the variance in allele frequency estimates into components due to the sampling of chromosomes from the pool during sequencing, sampling individuals from the population and unequal contribution from individuals during pool construction. The utility of this method is demonstrated on a sequence from the alcohol dehydrogenase (ADH gene cluster on a case-control sample for heavy alcohol consumption.

  13. Aircraft observations of cold pools under marine stratocumulus

    Directory of Open Access Journals (Sweden)

    C. R. Terai

    2013-04-01

    Full Text Available Although typically associated with precipitating cumuli, cold pools also form under shallower stratocumulus. The NSF/NCAR C-130 made cloud and boundary layer measurements over the southeast Pacific stratocumulus region at an altitude of approximately 150 m during the VOCALS Regional Experiment. Ninety edges of cold pools are found in the C-130 measurements by identifying step-like decreases in the potential temperature. Examination of their mesoscale environment shows that the observed cold pools tend to form under heavier precipitation, thicker clouds, and in cleaner environments. Cold pools are also found to form under clouds with high LWP values over the night of or before sampling. When they form, cold pools often form in clusters or on top of each other, rather than as separate, individual entities. Their sizes range from 2 km to 16 km (middle 50th percentile, where the largest of cold pools are associated with the greatest drops in temperature. Composites of various observed thermodynamic and chemical variables along the cold pool edges indicate increased humidity, equivalent potential temperature, coarse-mode aerosol, and dimethyl sulfide concentration inside cold pools. The enhancements inside cold pools are consistent with increased static stability that traps fluxes from the ocean surface in the lowest levels of the boundary layer. By using pressure perturbations, the average cold pool is estimated to be approximately 300 m deep. The temperature depression in cold pools leads to density-driven flows that drive convergence of horizontal winds and measurable, mechanically-driven vertical wind velocity at the edges of cold pools.

  14. The atmospheric wet pool: definition and comparison with the oceanic warm pool

    Institute of Scientific and Technical Information of China (English)

    ZHANG Caiyun; CHEN Ge

    2008-01-01

    The oceanic warm pool (OWP) defined by sea surface temperature (SST) is known as the "heat reservoir" in the ocean. The warmest portion in the ocean mirrors the fact that the wettest region with the largest accumulation of water vapor (WV) in the atmosphere, termed atmospheric wet pool (AWP), should be identified because of the well-known Clausius-Clapeyron relationship between SST and WV. In this study, we used 14-year simultaneous observations of WV and SST from January 1988 to December 2001 to define the AWP and investigate its coupling and co-variations with the OWP. The joint examination of the area variations, centroid locations, and zonal migrations of the AWP and OWP lead to a number of interesting findings. The results hopefully can contribute to our understanding of the air-sea interaction in general and characterization of El Nifio/La Nina events in particular.

  15. The atmospheric wet pool: definition and comparison with the oceanic warm pool

    Science.gov (United States)

    Zhang, Caiyun; Chen, Ge

    2008-11-01

    The oceanic warm pool (OWP) defined by sea surface temperature (SST) is known as the “heat reservoir” in the ocean. The warmest portion in the ocean mirrors the fact that the wettest region with the largest accumulation of water vapor (WV) in the atmosphere, termed atmospheric wet pool (AWP), should be identified because of the well-known Clausius-Clapeyron relationship between SST and WV. In this study, we used 14-year simultaneous observations of WV and SST from January 1988 to December 2001 to define the AWP and investigate its coupling and co-variations with the OWP. The joint examination of the area variations, centroid locations, and zonal migrations of the AWP and OWP lead to a number of interesting findings. The results hopefully can contribute to our understanding of the air-sea interaction in general and characterization of El Niño/La Niña events in particular.

  16. Mercury bioaccumulation in wood frogs developing in seasonal pools

    Science.gov (United States)

    Loftin, Cynthia S.; Calhoun, Aram J. K.; Nelson, Sarah J.; Elskus, Adria; Simon, Kevin S.

    2012-01-01

    Seasonal woodland pools contribute significant biomass to terrestrial ecosystems through production of pool-breeding amphibians. The movement of amphibian metamorphs potentially transports toxins bioaccumulated during larval development in the natal pool into the surrounding terrestrial environment. We documented total mercury (THg) in seasonal woodland pool water, sediment, litter, and Lithobates sylvaticus LeConte (Wood Frog) in Acadia National Park, ME. THg concentrations in pool water varied over the study season, increasing during April—June and remaining high in 2 of 4 pools upon October refill. Water in pools surrounded by softwoods had lower pH, greater dissolved organic carbon, and greater THg concentrations than pools surrounded by hardwoods, with seasonal patterns in sediment THg but not litter THg. THg increased rapidly from near or below detection in 1–2 week old embryos (<0.2 ng; 0–0.49 ppb wet weight) to 17.1–54.2 ppb in tadpoles within 6 weeks; 7.2–42.0% of THg was methyl Hg in tadpoles near metamorphosis. Metamorphs emigrating from seasonal pools may transfer mercury into terrestrial food webs.

  17. Crust formation and its effect on the molten pool coolability

    Energy Technology Data Exchange (ETDEWEB)

    Park, R.J.; Lee, S.J.; Sim, S.K. [Korea Atomic Energy Research Institute, Taejon (Korea, Republic of)

    1995-09-01

    Experimental and analytical studies of the crust formation and its effect on the molten pool coolability have been performed to examine the crust formation process as a function of boundary temperatures as well as to investigate heat transfer characteristics between molten pool and overlying water in order to evaluate coolability of the molten pool. The experimental test results have shown that the surface temperature of the bottom plate is a dominant parameter in the crust formation process of the molten pool. It is also found that the crust thickness of the case with direct coolant injection into the molten pool is greater than that of the case with a heat exchanger. Increasing mass flow rate of direct coolant injection to the molten pool does not affect the temperature of molten pool after the crust has been formed in the molten pool because the crust behaves as a thermal barrier. The Nusselt number between the molten pool and the coolant of the case with no crust formation is greater than that of the case with crust formation. The results of FLOW-3D analyses have shown that the temperature distribution contributes to the crust formation process due to Rayleigh-Benard natural convection flow.

  18. Development of two-dimensional hot pool model

    Energy Technology Data Exchange (ETDEWEB)

    Lee, Yong Bum; Hahn, H. D

    2000-05-01

    During a normal reactor scram, the heat generation is reduced almost instantaneously while the coolant flow rate follows the pump coast-down. This mismatch between power and flow results in a situation where the core flow entering the hot pool is at a lower temperature than the temperature of the bulk pool sodium. This temperature difference leads to thermal stratification. Thermal stratification can occur in the hot pool region if the entering coolant is colder than the existing hot pool coolant and the flow momentum is not large enough to overcome the negative buoyancy force. Since the fluid of hot pool enters IHX{sub s}, the temperature distribution of hot pool can alter the overall system response. Hence, it is necessary to predict the pool coolant temperature distribution with sufficient accuracy to determine the inlet temperature conditions for the IHX{sub s} and its contribution to the net buoyancy head. Therefore, in this study two-dimensional hot pool model is developed instead of existing one-dimensional model to predict the hot pool coolant temperature and velocity distribution more accurately and is applied to the SSC-K code.

  19. Disinfection byproducts in swimming pool: occurrences, implications and future needs.

    Science.gov (United States)

    Chowdhury, Shakhawat; Alhooshani, Khalid; Karanfil, Tanju

    2014-04-15

    Disinfection of swimming pool water is essential to deactivate pathogenic microorganisms. Many swimming pools apply chlorine or bromine based disinfectants to prevent microbial growth. The chlorinated swimming pool water contains higher chlorine residual and is maintained at a higher temperature than a typical drinking water distribution system. It constitutes environments with high levels of disinfection by-products (DBPs) in water and air as a consequence of continuous disinfection and constant organic loading from the bathers. Exposure to those DBPs is inevitable for any bather or trainer, while such exposures can have elevated risks to human health. To date, over 70 peer-reviewed publications have reported various aspects of swimming pool, including types and quantities of DBPs, organic loads from bathers, factors affecting DBPs formation in swimming pool, human exposure and their potential risks. This paper aims to review the state of research on swimming pool including with the focus of DBPs in swimming pools, understand their types and variability, possible health effects and analyze the factors responsible for the formation of various DBPs in a swimming pool. The study identifies the current challenges and future research needs to minimize DBPs formation in a swimming pool and their consequent negative effects to bathers and trainers.

  20. Marginal granilocytic pool in the treatment of malignant tumors

    Energy Technology Data Exchange (ETDEWEB)

    Angelova, I.; Bakalov, M.; Zografov, D. (Meditsinska Akademiya, Sofia (Bulgaria). Nauchen Inst. po Rentgenologiya i Radiobiologiya)

    1982-01-01

    Using the adrenaline test in 57 patients with malignant tumors, the authors examined the marginal granulocytic pool at different time in the course of treatment. The state of the pool was correlated with that of the neutrophilic cells in the circulating blood and with its state before treatment was started. It is concluded that in the course of treatment the neutrophilic cell counts in the marginal cells pool undergo changes similar to those in the circulation pool. It is therefore unjustifiable to include the adrenaline test in the control examination of patients with leucopenia.

  1. Automated management of engineering infrastructure of pools of different purpose

    Directory of Open Access Journals (Sweden)

    Shirokov Lev Alekseevich

    2016-10-01

    Full Text Available Pools play an important role in people’s life. They answer people’s demand in rest and improve their health. At the same time pools are rather important for industrial use, for example in construction industry. In order to solve different construction problems it is essential to investigate the influence of microclimatic parameters on construction materials and structures. For this aim pools are in demand as special test sites for construction materials and structures in different environmental conditions including the case of a direct water impact. The efficient use of pools presupposes the necessity of constant hydroclimatic contro: air humidity and temperature, water temperature, chemical composition of water and air. Classification of pools of different purposes is presented in the article. The author considers the main problems of operation of pools as objects with complicated air-and-water environment. The questions of maintaining optimal microclimatic parameters in a pool are considered. The necessity of use of the control system of a microclimate, its efficiency, profitability and social effect of its implementation is described. A mathematical model of the thermal mode of a pool area is constructed. The process of indoor temperature regulation in the pool is considered.

  2. A Pooled Genome-Wide Association Study of Asperger Syndrome.

    Directory of Open Access Journals (Sweden)

    Varun Warrier

    Full Text Available Asperger Syndrome (AS is a neurodevelopmental condition characterized by impairments in social interaction and communication, alongside the presence of unusually repetitive, restricted interests and stereotyped behaviour. Individuals with AS have no delay in cognitive and language development. It is a subset of Autism Spectrum Conditions (ASC, which are highly heritable and has a population prevalence of approximately 1%. Few studies have investigated the genetic basis of AS. To address this gap in the literature, we performed a genome-wide pooled DNA association study to identify candidate loci in 612 individuals (294 cases and 318 controls of Caucasian ancestry, using the Affymetrix GeneChip Human Mapping version 6.0 array. We identified 11 SNPs that had a p-value below 1x10-5. These SNPs were independently genotyped in the same sample. Three of the SNPs (rs1268055, rs7785891 and rs2782448 were nominally significant, though none remained significant after Bonferroni correction. Two of our top three SNPs (rs7785891 and rs2782448 lie in loci previously implicated in ASC. However, investigation of the three SNPs in the ASC genome-wide association dataset from the Psychiatric Genomics Consortium indicated that these three SNPs were not significantly associated with ASC. The effect sizes of the variants were modest, indicating that our study was not sufficiently powered to identify causal variants with precision.

  3. DNA Probe Pooling for Rapid Delineation of Chromosomal Breakpoints

    Energy Technology Data Exchange (ETDEWEB)

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

    2009-01-30

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

  4. A Pooled Genome-Wide Association Study of Asperger Syndrome.

    Science.gov (United States)

    Warrier, Varun; Chakrabarti, Bhismadev; Murphy, Laura; Chan, Allen; Craig, Ian; Mallya, Uma; Lakatošová, Silvia; Rehnstrom, Karola; Peltonen, Leena; Wheelwright, Sally; Allison, Carrie; Fisher, Simon E; Baron-Cohen, Simon

    2015-01-01

    Asperger Syndrome (AS) is a neurodevelopmental condition characterized by impairments in social interaction and communication, alongside the presence of unusually repetitive, restricted interests and stereotyped behaviour. Individuals with AS have no delay in cognitive and language development. It is a subset of Autism Spectrum Conditions (ASC), which are highly heritable and has a population prevalence of approximately 1%. Few studies have investigated the genetic basis of AS. To address this gap in the literature, we performed a genome-wide pooled DNA association study to identify candidate loci in 612 individuals (294 cases and 318 controls) of Caucasian ancestry, using the Affymetrix GeneChip Human Mapping version 6.0 array. We identified 11 SNPs that had a p-value below 1x10-5. These SNPs were independently genotyped in the same sample. Three of the SNPs (rs1268055, rs7785891 and rs2782448) were nominally significant, though none remained significant after Bonferroni correction. Two of our top three SNPs (rs7785891 and rs2782448) lie in loci previously implicated in ASC. However, investigation of the three SNPs in the ASC genome-wide association dataset from the Psychiatric Genomics Consortium indicated that these three SNPs were not significantly associated with ASC. The effect sizes of the variants were modest, indicating that our study was not sufficiently powered to identify causal variants with precision.

  5. Macroinvertebrate community assembly in pools created during peatland restoration.

    Science.gov (United States)

    Brown, Lee E; Ramchunder, Sorain J; Beadle, Jeannie M; Holden, Joseph

    2016-11-01

    Many degraded ecosystems are subject to restoration attempts, providing new opportunities to unravel the processes of ecological community assembly. Restoration of previously drained northern peatlands, primarily to promote peat and carbon accumulation, has created hundreds of thousands of new open water pools. We assessed the potential benefits of this wetland restoration for aquatic biodiversity, and how communities reassemble, by comparing pool ecosystems in regions of the UK Pennines on intact (never drained) versus restored (blocked drainage-ditches) peatland. We also evaluated the conceptual idea that comparing reference ecosystems in terms of their compositional similarity to null assemblages (and thus the relative importance of stochastic versus deterministic assembly) can guide evaluations of restoration success better than analyses of community composition or diversity. Community composition data highlighted some differences in the macroinvertebrate composition of restored pools compared to undisturbed peatland pools, which could be used to suggest that alternative end-points to restoration were influenced by stochastic processes. However, widely used diversity metrics indicated no differences between undisturbed and restored pools. Novel evaluations of restoration using null models confirmed the similarity of deterministic assembly processes from the national species pool across all pools. Stochastic elements were important drivers of between-pool differences at the regional-scale but the scale of these effects was also similar across most of the pools studied. The amalgamation of assembly theory into ecosystem restoration monitoring allows us to conclude with more certainty that restoration has been successful from an ecological perspective in these systems. Evaluation of these UK findings compared to those from peatlands across Europe and North America further suggests that restoring peatland pools delivers significant benefits for aquatic fauna by

  6. Biodiversity of 52 chicken populations assessed by microsatellite typing of DNA pools

    Directory of Open Access Journals (Sweden)

    Thomson Pippa

    2003-09-01

    Full Text Available Abstract In a project on the biodiversity of chickens funded by the European Commission (EC, eight laboratories collaborated to assess the genetic variation within and between 52 populations from a wide range of chicken types. Twenty-two di-nucleotide microsatellite markers were used to genotype DNA pools of 50 birds from each population. The polymorphism measures for the average, the least polymorphic population (inbred C line and the most polymorphic population (Gallus gallus spadiceus were, respectively, as follows: number of alleles per locus, per population: 3.5, 1.3 and 5.2; average gene diversity across markers: 0.47, 0.05 and 0.64; and proportion of polymorphic markers: 0.91, 0.25 and 1.0. These were in good agreement with the breeding history of the populations. For instance, unselected populations were found to be more polymorphic than selected breeds such as layers. Thus DNA pools are effective in the preliminary assessment of genetic variation of populations and markers. Mean genetic distance indicates the extent to which a given population shares its genetic diversity with that of the whole tested gene pool and is a useful criterion for conservation of diversity. The distribution of population-specific (private alleles and the amount of genetic variation shared among populations supports the hypothesis that the red jungle fowl is the main progenitor of the domesticated chicken.

  7. Leidenfrost drops on a heated liquid pool

    CERN Document Server

    Maquet, Laurent; Darbois-Texier, Baptiste; Brandenbourger, Martin; Rednikov, Alexey; Colinet, Pierre; Dorbolo, Stéphane

    2016-01-01

    We show that a volatile liquid drop placed at the surface of a non-volatile liquid pool warmer than the boiling point of the drop can experience a Leidenfrost effect even for vanishingly small superheats. Such an observation points to the importance of the substrate roughness, negligible in the case considered here, in determining the threshold Leidenfrost temperature. A theoretical model based on the one proposed by Sobac et al. [Phys. Rev. E 90, 053011 (2014)] is developed in order to rationalize the experimental data. The shapes of the drop and of the substrate are analyzed. The model notably provides scalings for the vapor film thickness. For small drops, these scalings appear to be identical to the case of a Leidenfrost drop on a solid substrate. For large drops, in contrast, they are different and no evidence of chimney formation has been observed either experimentally or theoretically in the range of drop sizes considered in this study. Concerning the evaporation dynamics, the radius is shown to decrea...

  8. Leidenfrost drops on a heated liquid pool

    Science.gov (United States)

    Maquet, L.; Sobac, B.; Darbois-Texier, B.; Duchesne, A.; Brandenbourger, M.; Rednikov, A.; Colinet, P.; Dorbolo, S.

    2016-09-01

    We show that a volatile liquid drop placed at the surface of a nonvolatile liquid pool warmer than the boiling point of the drop can be held in a Leidenfrost state even for vanishingly small superheats. Such an observation points to the importance of the substrate roughness, negligible in the case considered here, in determining the threshold Leidenfrost temperature. A theoretical model based on the one proposed by Sobac et al. [Phys. Rev. E 90, 053011 (2014), 10.1103/PhysRevE.90.053011] is developed in order to rationalize the experimental data. The shapes of the drop and of the liquid substrate are analyzed. The model notably provides scalings for the vapor film thickness profile. For small drops, these scalings appear to be identical to the case of a Leidenfrost drop on a solid substrate. For large drops, in contrast, they are different, and no evidence of chimney formation has been observed either experimentally or theoretically in the range of drop sizes considered in this study. Concerning the evaporation dynamics, the radius is shown to decrease linearly with time whatever the drop size, which differs from the case of a Leidenfrost drop on a solid substrate. For high superheats, the characteristic lifetime of the drops versus the superheat follows a scaling law that is derived from the model, but, at low superheats, it deviates from this scaling by rather saturating.

  9. Steady State Vapor Bubble in Pool Boiling

    Science.gov (United States)

    Zou, An; Chanana, Ashish; Agrawal, Amit; Wayner, Peter C.; Maroo, Shalabh C.

    2016-02-01

    Boiling, a dynamic and multiscale process, has been studied for several decades; however, a comprehensive understanding of the process is still lacking. The bubble ebullition cycle, which occurs over millisecond time-span, makes it extremely challenging to study near-surface interfacial characteristics of a single bubble. Here, we create a steady-state vapor bubble that can remain stable for hours in a pool of sub-cooled water using a femtosecond laser source. The stability of the bubble allows us to measure the contact-angle and perform in-situ imaging of the contact-line region and the microlayer, on hydrophilic and hydrophobic surfaces and in both degassed and regular (with dissolved air) water. The early growth stage of vapor bubble in degassed water shows a completely wetted bubble base with the microlayer, and the bubble does not depart from the surface due to reduced liquid pressure in the microlayer. Using experimental data and numerical simulations, we obtain permissible range of maximum heat transfer coefficient possible in nucleate boiling and the width of the evaporating layer in the contact-line region. This technique of creating and measuring fundamental characteristics of a stable vapor bubble will facilitate rational design of nanostructures for boiling enhancement and advance thermal management in electronics.

  10. Steady State Vapor Bubble in Pool Boiling.

    Science.gov (United States)

    Zou, An; Chanana, Ashish; Agrawal, Amit; Wayner, Peter C; Maroo, Shalabh C

    2016-02-03

    Boiling, a dynamic and multiscale process, has been studied for several decades; however, a comprehensive understanding of the process is still lacking. The bubble ebullition cycle, which occurs over millisecond time-span, makes it extremely challenging to study near-surface interfacial characteristics of a single bubble. Here, we create a steady-state vapor bubble that can remain stable for hours in a pool of sub-cooled water using a femtosecond laser source. The stability of the bubble allows us to measure the contact-angle and perform in-situ imaging of the contact-line region and the microlayer, on hydrophilic and hydrophobic surfaces and in both degassed and regular (with dissolved air) water. The early growth stage of vapor bubble in degassed water shows a completely wetted bubble base with the microlayer, and the bubble does not depart from the surface due to reduced liquid pressure in the microlayer. Using experimental data and numerical simulations, we obtain permissible range of maximum heat transfer coefficient possible in nucleate boiling and the width of the evaporating layer in the contact-line region. This technique of creating and measuring fundamental characteristics of a stable vapor bubble will facilitate rational design of nanostructures for boiling enhancement and advance thermal management in electronics.

  11. Sanitary Conditions of Public Swimming Pools in Amman, Jordan

    Directory of Open Access Journals (Sweden)

    Ashraf Abu Aqoulah

    2008-09-01

    Full Text Available This study was carried out in the summer of 2005 and investigated all of active public swimming pools (85 out of 93 in Amman, the capital of Jordan. The aim of this study was to find out if these swimming pools are in compliance with Jordanian Standards for Swimming Pools Water (JS 1562/2004. The pools were surveyed against the water microbial quality and other physicochemical parameters indicated in the standards. Two samples from each pool were collected for microbial analysis and pools monitoring were carried out during the afternoon of the weekends when the pools are most heavily used. The results indicated overall poor compliance with the standards. Compliance of the pools water to the microbial parameters was 56.5%, for residual chlorine 49.4%, for pH 87.7%, water temperature 48.8%, and bathing load 70.6%. The results also indicated that water microbial quality deteriorated with time. Multivariate analysis showed significant association of water contamination with time of sample collection, residual chlorine, water temperature and load of swimmers. The poor compliance was attributed to lack of proper disinfection, staff training, proper maintenance, and timely inspection.

  12. Sanitary Conditions of Public Swimming Pools in Amman, Jordan

    Directory of Open Access Journals (Sweden)

    Ashraf Abu Aqoulah

    2007-12-01

    Full Text Available This study was carried out in the summer of 2005 and investigated all of active public swimming pools (85 out of 93 in Amman, the capital of Jordan. The aim of this study was to find out if these swimming pools are in compliance with Jordanian Standards for Swimming Pools Water (JS 1562/2004. The pools were surveyed against the water microbial quality and other physicochemical parameters indicated in the standards. Two samples from each pool were collected for microbial analysis and pools monitoring were carried out during the afternoon of the weekends when the pools are most heavily used. The results indicated overall poor compliance with the standards. Compliance of the pools water to the microbial parameters was 56.5%, for residual chlorine 49.4%, for pH 87.7%, water temperature 48.8%, and bathing load 70.6%. The results also indicated that water microbial quality deteriorated with time. Multivariate analysis showed significant association of water contamination with time of sample collection, residual chlorine, water temperature and load of swimmers. The poor compliance was attributed to lack of proper disinfection, staff training, proper maintenance, and timely inspection.

  13. Mathematical-programming approaches to test item pool design

    NARCIS (Netherlands)

    Veldkamp, Bernard P.; van der Linden, Willem J.; Ariel, A.

    2002-01-01

    This paper presents an approach to item pool design that has the potential to improve on the quality of current item pools in educational and psychological testing andhence to increase both measurement precision and validity. The approach consists of the application of mathematical programming

  14. 41 CFR 109-27.5106 - Precious metals pool.

    Science.gov (United States)

    2010-07-01

    ... 41 Public Contracts and Property Management 3 2010-07-01 2010-07-01 false Precious metals pool. 109-27.5106 Section 109-27.5106 Public Contracts and Property Management Federal Property Management...-INVENTORY MANAGEMENT 27.51-Management of Precious Metals § 109-27.5106 Precious metals pool....

  15. The Solitude of Relevant Documents in the Pool

    NARCIS (Netherlands)

    Lipani, A.; Lupu, M.; Kanoulas, E.; Hanbury, A.

    2016-01-01

    Pool bias is a well understood problem of test-collection based benchmarking in information retrieval. The pooling method itself is designed to identify all relevant documents. In practice, 'all' translates to `as many as possible given some budgetary constraints' and the problem persists, albeit

  16. [Green hair caused by frequent swimming pool use].

    Science.gov (United States)

    Biel, K; Kretzschmar, L; Müller, C; Metze, D; Traupe, H

    1997-08-01

    Three patients presented with an acquired green discoloration of their scalp hair. History revealed that all of them swam regularly in private swimming pools. Examination of the hair by atomic emission spectroscopy showed that the green discoloration was caused by an excessively high copper content of the hair. This exogeneous discoloration is characteristically related to the uptake of copper from private swimming pools.

  17. 17 CFR 275.206(4)-8 - Pooled investment vehicles.

    Science.gov (United States)

    2010-04-01

    ... 17 Commodity and Securities Exchanges 3 2010-04-01 2010-04-01 false Pooled investment vehicles... COMMISSION (CONTINUED) RULES AND REGULATIONS, INVESTMENT ADVISERS ACT OF 1940 § 275.206(4)-8 Pooled investment vehicles. (a) Prohibition. It shall constitute a fraudulent, deceptive, or manipulative...

  18. Odonata (Insecta at a wadi Pool near Nizwa, northern Oman

    Directory of Open Access Journals (Sweden)

    Elaine M. Cowan

    2015-07-01

    Full Text Available Fourteen damselfly and dragonfly species were recorded in 68 visits to a wadi pool in northern Oman, March 2012 to June 2014.  All identifications were based on photographs.  Apparently the pool has a core community of eight resident species.  Paragomphus sinaiticus, globally Near Threatened, was regularly  recorded. 

  19. IRT Item Parameter Scaling for Developing New Item Pools

    Science.gov (United States)

    Kang, Hyeon-Ah; Lu, Ying; Chang, Hua-Hua

    2017-01-01

    Increasing use of item pools in large-scale educational assessments calls for an appropriate scaling procedure to achieve a common metric among field-tested items. The present study examines scaling procedures for developing a new item pool under a spiraled block linking design. The three scaling procedures are considered: (a) concurrent…

  20. Odonata (Insecta at a wadi Pool near Nizwa, northern Oman

    Directory of Open Access Journals (Sweden)

    Elaine M. Cowan

    2015-07-01

    Full Text Available Fourteen damselfly and dragonfly species were recorded in 68 visits to a wadi pool in northern Oman, March 2012 to June 2014.  All identifications were based on photographs.  Apparently the pool has a core community of eight resident species.  Paragomphus sinaiticus, globally Near Threatened, was regularly  recorded. 

  1. (Average-) convexity of common pool and oligopoly TU-games

    NARCIS (Netherlands)

    Driessen, T.S.H.; Meinhardt, H.

    2000-01-01

    The paper studies both the convexity and average-convexity properties for a particular class of cooperative TU-games called common pool games. The common pool situation involves a cost function as well as a (weakly decreasing) average joint production function. Firstly, it is shown that, if the rele

  2. MISSION LentiPlex pooled shRNA library screening in mammalian cells.

    Science.gov (United States)

    Coussens, Matthew J; Corman, Courtney; Fischer, Ashley L; Sago, Jack; Swarthout, John

    2011-12-21

    RNA interference (RNAi) is an intrinsic cellular mechanism for the regulation of gene expression. Harnessing the innate power of this system enables us to knockdown gene expression levels in loss of gene function studies. There are two main methods for performing RNAi. The first is the use of small interfering RNAs (siRNAs) that are chemically synthesized, and the second utilizes short-hairpin RNAs (shRNAs) encoded within plasmids. The latter can be transfected into cells directly or packaged into replication incompetent lentiviral particles. The main advantages of using lentiviral shRNAs is the ease of introduction into a wide variety of cell types, their ability to stably integrate into the genome for long term gene knockdown and selection, and their efficacy in conducting high-throughput loss of function screens. To facilitate this we have created the LentiPlex pooled shRNA library. The MISSION LentiPlex Human shRNA Pooled Library is a genome-wide lentiviral pool produced using a proprietary process. The library consists of over 75,000 shRNA constructs from the TRC collection targeting 15,000+ human genes. Each library is tested for shRNA representation before product release to ensure robust library coverage. The library is provided in a ready-to-use lentiviral format at titers of at least 5 x 10(8) TU/ml via p24 assay and is pre-divided into ten subpools of approximately 8,000 shRNA constructs each. Amplification and sequencing primers are also provided for downstream target identification. Previous studies established a synergistic antitumor activity of TRAIL when combined with Paclitaxel in A549 cells, a human lung carcinoma cell line. In this study we demonstrate the application of a pooled LentiPlex shRNA library to rapidly conduct a positive selection screen for genes involved in the cytotoxicity of A549 cells when exposed to TRAIL and Paclitaxel. One barrier often encountered with high-throughput screens is the cost and difficulty in deconvolution; we

  3. Improved statistical analysis of budding yeast TAG microarrays revealed by defined spike-in pools.

    Science.gov (United States)

    Peyser, Brian D; Irizarry, Rafael A; Tiffany, Carol W; Chen, Ou; Yuan, Daniel S; Boeke, Jef D; Spencer, Forrest A

    2005-09-15

    Saccharomyces cerevisiae knockout collection TAG microarrays are an emergent platform for rapid, genome-wide functional characterization of yeast genes. TAG arrays report abundance of unique oligonucleotide 'TAG' sequences incorporated into each deletion mutation of the yeast knockout collection, allowing measurement of relative strain representation across experimental conditions for all knockout mutants simultaneously. One application of TAG arrays is to perform genome-wide synthetic lethality screens, known as synthetic lethality analyzed by microarray (SLAM). We designed a fully defined spike-in pool to resemble typical SLAM experiments and performed TAG microarray hybridizations. We describe a method for analyzing two-color array data to efficiently measure the differential knockout strain representation across two experimental conditions, and use the spike-in pool to show that the sensitivity and specificity of this method exceed typical current approaches.

  4. DNA methylation profiling using bisulfite-based epityping of pooled genomic DNA.

    Science.gov (United States)

    Docherty, Sophia J; Davis, Oliver S P; Haworth, Claire M A; Plomin, Robert; Mill, Jonathan

    2010-11-01

    DNA methylation plays a vital role in normal cellular function, with aberrant methylation signatures being implicated in a growing number of human pathologies and complex human traits. Methods based on the modification of genomic DNA with sodium bisulfite are considered the 'gold-standard' for DNA methylation profiling on genomic DNA; however they require large amounts of DNA and may be prohibitively expensive when used on the large sample sizes necessary to detect small effects. DNA pooling approaches are already widely used in large-scale studies of DNA sequence and gene expression. In this paper, we describe the application of this economical DNA pooling technique to the study of DNA methylation profiles. This method generates accurate quantitative assessments of group DNA methylation averages, reducing the time, cost and amount of DNA starting material required for large-scale epigenetic investigation of disease phenotypes.

  5. Sampling and Pooling Methods for Capturing Herd Level Antibiotic Resistance in Swine Feces using qPCR and CFU Approaches

    DEFF Research Database (Denmark)

    Schmidt, Gunilla Veslemøy; Mellerup, Anders; Christiansen, Lasse Engbo;

    2015-01-01

    in the same swine fecal samples. The results showed that the qPCR assays were capable of detecting differences in antibiotic resistance levels in individual animals that the coliform bacteria colony forming units (CFU) could not. Also, the qPCR assays more accurately quantified antibiotic resistance genes...... when comparing individual sampling and pooling methods. qPCR on pooled samples was found to be a good representative for the general resistance level in a pig herd compared to the coliform CFU counts. It had significantly reduced relative standard deviations compared to coliform CFU counts in the same...

  6. Pooling birth cohorts in allergy and asthma

    DEFF Research Database (Denmark)

    Bousquet, Jean; Anto, Josep; Sunyer, Jordi

    2013-01-01

    Long-term birth cohort studies are essential to understanding the life course and childhood predictors of allergy and the complex interplay between genes and the environment (including lifestyle and socioeconomic determinants). Over 100 cohorts focusing on asthma and allergy have been initiated...

  7. Reserve growth in oil pools of Alberta: Model and forecast

    Science.gov (United States)

    Verma, M.; Cook, T.

    2010-01-01

    Reserve growth is recognized as a major component of additions to reserves in most oil provinces around the world, particularly in mature provinces. It takes place as a result of the discovery of new pools/reservoirs and extensions of known pools within existing fields, improved knowledge of reservoirs over time leading to a change in estimates of original oil-in-place, and improvement in recovery factor through the application of new technology, such as enhanced oil recovery methods, horizontal/multilateral drilling, and 4D seismic. A reserve growth study was conducted on oil pools in Alberta, Canada, with the following objectives: 1) evaluate historical oil reserve data in order to assess the potential for future reserve growth; 2) develop reserve growth models/ functions to help forecast hydrocarbon volumes; 3) study reserve growth sensitivity to various parameters (for example, pool size, porosity, and oil gravity); and 4) compare reserve growth in oil pools and fields in Alberta with those from other large petroleum provinces around the world. The reported known recoverable oil exclusive of Athabasca oil sands in Alberta increased from 4.5 billion barrels of oil (BBO) in 1960 to 17 BBO in 2005. Some of the pools that were included in the existing database were excluded from the present study for lack of adequate data. Therefore, the known recoverable oil increased from 4.2 to 13.9 BBO over the period from 1960 through 2005, with new discoveries contributing 3.7 BBO and reserve growth adding 6 BBO. This reserve growth took place mostly in pools with more than 125,000 barrels of known recoverable oil. Pools with light oil accounted for most of the total known oil volume, therefore reflecting the overall pool growth. Smaller pools, in contrast, shrank in their total recoverable volumes over the years. Pools with heavy oil (gravity less than 20o API) make up only a small share (3.8 percent) of the total recoverable oil; they showed a 23-fold growth compared to

  8. HYDRODYNAMIC UPLIFT FORCE AND STABILITY OF ARCIFORM LUNGE POOL

    Institute of Scientific and Technical Information of China (English)

    2002-01-01

    Compared with general trapeziform plunge pools, an arciform plunge pool has its advantages, e.g. Less excavate quantity, higher stability, etc. In this paper, the hy-drodynamic pressure distribution on the soleplate of the arci-form plunge pool is measured under a relatively dangerous condition of operation. The result is helpful to the design of the arciform plunge pool. The result also shows that the difference between the maximum and the minimum pressures on the upward surface of the soleplate may cause an additional uplift force on the soleplate under certain condition and should be taken into consideration in the uplift force calculation of the soleplate. The scour experiment verifies the higher stability of the arciform plunge pool.

  9. Controlling pool depth during VAR of Alloy 718

    Science.gov (United States)

    Lopez, F.; Beaman, J.; Williamson, R.; Evans, D.

    2016-07-01

    A longtime goal of superalloy producers has been to control the geometry of the liquid pool in solidifying ingots. Accurate pool depth control at appropriate values is expected to result in ingots free of segregation defects. This article describes an industrial VAR experiment in which a 430mm (17 in) diameter Alloy 718 electrode was melted into a 510mm (20 in) ingot. In the experiment, the depth of the liquid pool at the mid-radius was controlled to three different set-points: 137 mm (nominal), 193 mm (deep) and 118 mm (shallow). At each level, the pool depth was marked by a power cutback of several minutes. The ingot was sectioned and longitudinal slices were cut out. Analysis of the photographed ingot revealed that accurate control was obtained for both the nominal and deep pool cases, while the third one was not conclusive.

  10. Health impact of disinfection by-products in swimming pools.

    Science.gov (United States)

    Villanueva, Cristina M; Font-Ribera, Laia

    2012-01-01

    This article is focused on the epidemiological evidence on the health impacts related to disinfection by-products (DBPs) in swimming pools, which is a chemical hazard generated as an undesired consequence to reduce the microbial pathogens. Specific DBPs are carcinogenic, fetotoxic and/or irritant to the airways according to experimental studies. Epidemiological evidence shows that swimming in pools during pregnancy is not associated with an increased risk of reproductive outcomes. An epidemiological study suggested an increased risk of bladder cancer with swimming pool attendance, although evidence is inconclusive. A higher prevalence of respiratory symptoms including asthma is found among swimming pool workers and elite swimmers, although the causality of this association is unclear. The body of evidence in children indicates that asthma is not increased by swimming pool attendance. Overall, the available knowledge suggests that the health benefits of swimming outweigh the potential health risks of chemical contamination. However, the positive effects of swimming should be enhanced by minimising potential risks.

  11. Formation of the southern Bay of Bengal cold pool

    Science.gov (United States)

    Das, Umasankar; Vinayachandran, P. N.; Behara, Ambica

    2016-09-01

    A pool of relatively cooler water, called here as the southern Bay of Bengal cold pool, exists around Sri Lanka and southern tip of India during the summer monsoon. This cold pool is enveloped by the larger Indian Ocean warm pool and is believed to affect the intraseasonal variations of summer monsoon rainfall. In this study, we have investigated the mechanisms responsible for the formation of the cold pool using a combination of both satellite data sets and a general circulation model of the Indian Ocean. Sea surface temperature (SST) within the cold pool, after the steady increase during the February-April period, decreases first during a pre-monsoon spell in April and then with the monsoon onset during May. The onset cooling is stronger (~1.8°C) than the pre-monsoon cooling (~0.8°C) and culminates in the formation of the cold pool. Analysis of the model temperature equation shows that SST decrease during both events is primarily due to a decrease in incoming solar radiation and an increase in latent heat loss. These changes in the net heat flux are brought about by the arrival of cloud bands above the cold pool during both periods. During the pre-monsoon period, a cloud band originates in the western equatorial Indian Ocean and subsequently arrives above the cold pool. Similarly, during the monsoon onset, a band of clouds originating in the eastern equatorial Indian Ocean comes over the cold pool region. A lead-lag correlation calculation between daily SST and rainfall anomalies suggest that cooling in SST occurs in response to rainfall events with a lag of 5 days. These sequence of events occur every year with certain amount of interannual variability.

  12. Chemical contaminants in swimming pools: Occurrence, implications and control.

    Science.gov (United States)

    Teo, Tiffany L L; Coleman, Heather M; Khan, Stuart J

    2015-03-01

    A range of trace chemical contaminants have been reported to occur in swimming pools. Current disinfection practices and monitoring of swimming pool water quality are aimed at preventing the spread of microbial infections and diseases. However, disinfection by-products (DBPs) are formed when the disinfectants used react with organic and inorganic matter in the pool. Additional chemicals may be present in swimming pools originating from anthropogenic sources (bodily excretions, lotions, cosmetics, etc.) or from the source water used where trace chemicals may already be present. DBPs have been the most widely investigated trace chemical contaminants, including trihalomethanes (THMs), haloacetic acids (HAAs), halobenzoquinones (HBQs), haloacetonitriles (HANs), halonitromethanes (HNMs), N-nitrosamines, nitrite, nitrates and chloramines. The presence and concentrations of these chemical contaminants are dependent upon several factors including the types of pools, types of disinfectants used, disinfectant dosages, bather loads, temperature and pH of swimming pool waters. Chemical constituents of personal care products (PCPs) such as parabens and ultraviolet (UV) filters from sunscreens have also been reported. By-products from reactions of these chemicals with disinfectants and UV irradiation have been reported and some may be more toxic than their parent compounds. There is evidence to suggest that exposure to some of these chemicals may lead to health risks. This paper provides a detailed review of various chemical contaminants reported in swimming pools. The concentrations of chemicals present in swimming pools may also provide an alternative indicator to swimming pool water quality, providing insights to contamination sources. Alternative treatment methods such as activated carbon filtration and advanced oxidation processes may be beneficial in improving swimming pool water quality.

  13. poolHiTS: A Shifted Transversal Design based pooling strategy for high-throughput drug screening

    Directory of Open Access Journals (Sweden)

    Woolf Peter J

    2008-05-01

    Full Text Available Abstract Background A key goal of drug discovery is to increase the throughput of small molecule screens without sacrificing screening accuracy. High-throughput screening (HTS in drug discovery involves testing a large number of compounds in a biological assay to identify active compounds. Normally, molecules from a large compound library are tested individually to identify the activity of each molecule. Usually a small number of compounds are found to be active, however the presence of false positive and negative testing errors suggests that this one-drug one-assay screening strategy can be significantly improved. Pooling designs are testing schemes that test mixtures of compounds in each assay, thereby generating a screen of the whole compound library in fewer tests. By repeatedly testing compounds in different combinations, pooling designs also allow for error-correction. These pooled designs, for specific experiment parameters, can be simply and efficiently created using the Shifted Transversal Design (STD pooling algorithm. However, drug screening contains a number of key constraints that require specific modifications if this pooling approach is to be useful for practical screen designs. Results In this paper, we introduce a pooling strategy called poolHiTS (Pooled High-Throughput Screening which is based on the STD algorithm. In poolHiTS, we implement a limit on the number of compounds that can be mixed in a single assay. In addition, we show that the STD-based pooling strategy is limited in the error-correction that it can achieve. Due to the mixing constraint, we show that it is more efficient to split a large library into smaller blocks of compounds, which are then tested using an optimized strategy repeated for each block. We package the optimal block selection algorithm into poolHiTS. The MATLAB codes for the poolHiTS algorithm and the corresponding decoding strategy are also provided. Conclusion We have produced a practical version

  14. Microbial contributions to coupled arsenic and sulfur cycling in the acid-sulfide hot spring Champagne Pool, New Zealand

    Directory of Open Access Journals (Sweden)

    Katrin eHug

    2014-11-01

    Full Text Available Acid-sulfide hot springs are analogs of early Earth geothermal systems where microbial metal(loid resistance likely first evolved. Arsenic is a metalloid enriched in the acid-sulfide hot spring Champagne Pool (Waiotapu, New Zealand. Arsenic speciation in Champagne Pool follows reaction paths not yet fully understood with respect to biotic contributions and coupling to biogeochemical sulfur cycling. Here we present quantitative arsenic speciation from Champagne Pool, finding arsenite dominant in the pool, rim and outflow channel (55-75% total arsenic, and dithio- and trithioarsenates ubiquitously present as 18-25% total arsenic. In the outflow channel, dimethylmonothioarsenate comprised ≤9% total arsenic, while on the outflow terrace thioarsenates were present at 55% total arsenic. We also quantified sulfide, thiosulfate, sulfate and elemental sulfur, finding sulfide and sulfate as major species in the pool and outflow terrace, respectively. Elemental sulfur reached a maximum at the terrace. Phylogenetic analysis of 16S rRNA genes from metagenomic sequencing revealed the dominance of Sulfurihydrogenibium at all sites and an increased archaeal population at the rim and outflow channel. Several phylotypes were found closely related to known sulfur- and sulfide-oxidizers, as well as sulfur- and sulfate-reducers. Bioinformatic analysis revealed genes underpinning sulfur redox transformations, consistent with sulfur speciation data, and illustrating a microbial role in sulfur-dependent transformation of arsenite to thioarsenate. Metagenomic analysis also revealed genes encoding for arsenate reductase at all sites, reflecting the ubiquity of thioarsenate and a need for microbial arsenate resistance despite anoxic conditions. Absence of the arsenite oxidase gene, aio, at all sites suggests prioritization of arsenite detoxification over coupling to energy conservation. Finally, detection of methyl arsenic in the outflow channel, in conjunction with

  15. Expression profiling of apoptosis-related genes in enterocytes isolated from patients with ulcerative colitis

    DEFF Research Database (Denmark)

    Seidelin, Jakob B; Nielsen, Ole H

    2013-01-01

    in normal and inflamed colonic epithelial cells. An apoptosis-specific gene array expression profiling system of 96 genes was used to determine the expression profile of apoptosis-related genes. Epithelial cells isolated from three patients with active ulcerative colitis were pooled and compared to pooled...

  16. Preliminary Calculation on a Spent Fuel Pool Accident using GOTHIC

    Energy Technology Data Exchange (ETDEWEB)

    Park, Jaehwan; Choi, Yu Jung; Hong, Tae Hyub; Kim, Hyeong-Taek [KHNP-CRI, Daejeon (Korea, Republic of)

    2015-10-15

    The probability of an accident happening at the spent fuel pool was believed to be quite low until the 2011 Fukushima accident occurred. Notably, large amount of spent fuel are normally stored in the spent fuel pool for a long time compared to the amount of fuel in the reactor core and the total heat released from the spent fuel is high enough to boil the water of the spent fuel pool when the cooling system does not operate. In addition, the enrichment and the burnup of the fuel have both increased in the past decade and heat generation from the spent fuel thereby has also increased. The failure of the cooling system at the spent fuel pool (hereafter, a loss-of-cooling accident) is one of the principal hypothetical causes of an accident that could occur at the spent fuel pool. In this paper, the preliminary calculation of a loss-of-cooling accident was performed. In this paper, the preliminary calculation of a loss-of cooling accident was performed with GOTHIC. The calculation results show boiling away of water in the spent fuel pool due to the loss-of-cooling accident and similar thermal performance of the spent fuel pool with previous research results.

  17. Performance Aware Service Pool in Dependable Service Oriented Architecture

    Institute of Scientific and Technical Information of China (English)

    Gang Huang; Li Zhou; Xuan-Zhe Liu; Hong Mei; Shing-Chi Cheung

    2006-01-01

    As a popular approach to dependable service oriented architecture (SOA), a service pool collects a set of services that provide the same functionality by different service providers for achieving desired reliability. However, if the tradeoff between reliability and other important qualities, e.g., performance, has to be considered, the construction and management of a service pool become much more complex. In this paper, an automated approach to this problem is presented. Based on the investigation of service pools in the typical triangle SOA model, two challenges critical to the effectiveness and efficiency of service pools are identified, including which services should be held by a pool and what order these services are invoked in. A set of algorithms are designed to address the two challenges and then a service pool can be automatically constructed and managed for given reliability and performance requirements in polynomial time. The approach is demonstrated on a J2EE based service platform and the comparison results between different pooling algorithms are evaluated.

  18. Addressing data privacy in matched studies via virtual pooling.

    Science.gov (United States)

    Saha-Chaudhuri, P; Weinberg, C R

    2017-09-07

    Data confidentiality and shared use of research data are two desirable but sometimes conflicting goals in research with multi-center studies and distributed data. While ideal for straightforward analysis, confidentiality restrictions forbid creation of a single dataset that includes covariate information of all participants. Current approaches such as aggregate data sharing, distributed regression, meta-analysis and score-based methods can have important limitations. We propose a novel application of an existing epidemiologic tool, specimen pooling, to enable confidentiality-preserving analysis of data arising from a matched case-control, multi-center design. Instead of pooling specimens prior to assay, we apply the methodology to virtually pool (aggregate) covariates within nodes. Such virtual pooling retains most of the information used in an analysis with individual data and since individual participant data is not shared externally, within-node virtual pooling preserves data confidentiality. We show that aggregated covariate levels can be used in a conditional logistic regression model to estimate individual-level odds ratios of interest. The parameter estimates from the standard conditional logistic regression are compared to the estimates based on a conditional logistic regression model with aggregated data. The parameter estimates are shown to be similar to those without pooling and to have comparable standard errors and confidence interval coverage. Virtual data pooling can be used to maintain confidentiality of data from multi-center study and can be particularly useful in research with large-scale distributed data.

  19. Hepatitis E viral loads in plasma pools for fractionation.

    Science.gov (United States)

    Baylis, Sally A; Corman, Victor M; Ong, Edgar; Linnen, Jeffrey M; Nübling, C Micha; Blümel, Johannes

    2016-10-01

    It is now recognized that blood donors may be silently infected with hepatitis E virus (HEV) and that plasma pools used in the manufacture of plasma-derived medicinal products may also contain detectable virus RNA. The occurrence of HEV-infected blood and plasma donors can vary considerably depending on local epidemiology. Manufacturing plasma pools from North America, Europe, the Middle East, and Asia were examined for the presence of HEV using transcription-mediated amplification of HEV RNA; confirmatory testing was performed using real-time reverse transcription polymerase chain reaction and sequencing. A total of 484 pools were tested. Asian pools were most frequently positive for HEV RNA and had higher viral loads, although none exceeding 300 IU/mL, and the sequenced strains (n = 5) clustered with Genotype 4, including one significantly divergent sequence. Only HEV Genotype 3 was identified in North American (n = 5) and European (n = 5) pools. There was no evidence of HEV in any pools tested from the Middle East. HEV was detected in manufacturing plasma pools from three different continents; viral loads were low-consistent with large pool sizes and moderate levels of HEV viremia at the individual donation level-but are nevertheless informative for risk assessment of plasma-derived medicinal products. Where sequencing was possible, analysis confirmed the presence of viruses consistent with locally circulating genotypes in the respective regions. The absence of HEV in Middle Eastern pools is consistent with the low prevalence of HEV in this region, likely due to low pork consumption. © 2016 AABB.

  20. Pooled DNA genotyping on Affymetrix SNP genotyping arrays

    Directory of Open Access Journals (Sweden)

    Owen Michael J

    2006-02-01

    Full Text Available Abstract Background Genotyping technology has advanced such that genome-wide association studies of complex diseases based upon dense marker maps are now technically feasible. However, the cost of such projects remains high. Pooled DNA genotyping offers the possibility of applying the same technologies at a fraction of the cost, and there is some evidence that certain ultra-high throughput platforms also perform with an acceptable accuracy. However, thus far, this conclusion is based upon published data concerning only a small number of SNPs. Results In the current study we prepared DNA pools from the parents and from the offspring of 30 parent-child trios that have been extensively genotyped by the HapMap project. We analysed the two pools with Affymetrix 10 K Xba 142 2.0 Arrays. The availability of the HapMap data allowed us to validate the performance of 6843 SNPs for which we had both complete individual and pooled genotyping data. Pooled analyses averaged over 5–6 microarrays resulted in highly reproducible results. Moreover, the accuracy of estimating differences in allele frequency between pools using this ultra-high throughput system was comparable with previous reports of pooling based upon lower throughput platforms, with an average error for the predicted allelic frequencies differences between the two pools of 1.37% and with 95% of SNPs showing an error of Conclusion Genotyping thousands of SNPs with DNA pooling using Affymetrix microarrays produces highly accurate results and can be used for genome-wide association studies.

  1. A simplified model of decontamination by BWR steam suppression pools

    Energy Technology Data Exchange (ETDEWEB)

    Powers, D.A.

    1997-05-01

    Phenomena that can decontaminate aerosol-laden gases sparging through steam suppression pools of boiling water reactors during reactor accidents are described. Uncertainties in aerosol properties, aerosol behavior within gas bubbles, and bubble behavior in plumes affect predictions of decontamination by steam suppression pools. Uncertainties in the boundary and initial conditions that are dictated by the progression of severe reactor accidents and that will affect predictions of decontamination by steam suppression pools are discussed. Ten parameters that characterize boundary and initial condition uncertainties, nine parameters that characterize aerosol property and behavior uncertainties, and eleven parameters that characterize uncertainties in the behavior of bubbles in steam suppression pools are identified. Ranges for the values of these parameters and subjective probability distributions for parametric values within the ranges are defined. These uncertain parameters are used in Monte Carlo uncertainty analyses to develop uncertainty distributions for the decontamination that can be achieved by steam suppression pools and the size distribution of aerosols that do emerge from such pools. A simplified model of decontamination by steam suppression pools is developed by correlating features of the uncertainty distributions for total decontamination factor, DF(total), mean size of emerging aerosol particles, d{sub p}, and the standard deviation of the emerging aerosol size distribution, {sigma}, with pool depth, H. Correlations of the median values of the uncertainty distributions are suggested as the best estimate of decontamination by suppression pools. Correlations of the 10 percentile and 90 percentile values of the uncertainty distributions characterize the uncertainty in the best estimates. 295 refs., 121 figs., 113 tabs.

  2. Sample pooling for real-time PCR detection and virulence determination of the footrot pathogen Dichelobacter nodosus.

    Science.gov (United States)

    Frosth, Sara; König, Ulrika; Nyman, Ann-Kristin; Aspán, Anna

    2017-09-01

    Dichelobacter nodosus is the principal cause of ovine footrot and strain virulence is an important factor in disease severity. Therefore, detection and virulence determination of D. nodosus is important for proper diagnosis of the disease. Today this is possible by real-time PCR analysis. Analysis of large numbers of samples is costly and laborious; therefore, pooling of individual samples is common in surveillance programs. However, pooling can reduce the sensitivity of the method. The aim of this study was to develop a pooling method for real-time PCR analysis that would allow sensitive detection and simultaneous virulence determination of D. nodosus. A total of 225 sheep from 17 flocks were sampled using ESwabs within the Swedish Footrot Control Program in 2014. Samples were first analysed individually and then in pools of five by real-time PCR assays targeting the 16S rRNA and aprV2/B2 genes of D. nodosus. Each pool consisted of four negative and one positive D. nodosus samples with varying amounts of the bacterium. In the individual analysis, 61 (27.1%) samples were positive in the 16S rRNA and the aprV2/B2 PCR assays and 164 (72.9%) samples were negative. All samples positive in the aprV2/B2 PCR-assay were of aprB2 variant. The pooled analysis showed that all 41 pools were also positive for D. nodosus 16S rRNA and the aprB2 variant. The diagnostic sensitivity for pooled and individual samples was therefore similar. Our method includes concentration of the bacteria before DNA-extraction. This may account for the maintenance of diagnostic sensitivity. Diagnostic sensitivity in the real-time PCR assays of the pooled samples were comparable to the sensitivity obtained for individually analysed samples. Even sub-clinical infections were able to be detected in the pooled PCR samples which is important for control of the disease. This method may therefore be implemented in footrot control programs where it can replace analysis of individual samples.

  3. Pool scrubbing and hydrodynamic experiment on jet injection regime

    Energy Technology Data Exchange (ETDEWEB)

    Peyres, V.; Espigares, M.M.; Polo, J.; Escudero, M.J.; Herranz, L.E.; Lopez, J.

    1995-07-01

    Plant analyses nave shown that pool scrubbing can play an important role in source term during PWR risk dominant sequences. An examination of boundary conditions governing fission products and aerosols transport through aqueous beds revealed that most of radioactivity is discharged into the pool under jet injection regime. This fact and the lack of experimental data under such conditions pointed the need of setting out an experimental programme which provided reliable experimental data to validate code models. In this report the major results of a pool scrubbing experimental programme carried out in PECA facility are presented. One of the major findings was that a remarkable fraction of particle absorption was not a function of the residence time of bubbles rising through the pool. Such a contribution was assumed to be associated to aerosol removal mechanism acting at the pool entrance. As a consequence. a hydrodynamic experimental plan was launched to examine the gas behaviour during the initial stages in the pool. Size and shape of gas nuclei in the pool were measured and fitted to a lognormal distribution. Particularly, size was found to be quite sensitive to inlet gas flow and at minor extent to gas composition and pool temperature. SPARC90 and BUSCA-AUG92 were used to simulate the retention tests. Whereas SPARC90 showed a pretty good agreement with experimental data, BUSCA-AUG92 results were far away from measurements in all the cases. SPARC90 consistency apparently pointed out the important role of fission products and aerosols retention at the injection zone; nonetheless, a peer examination of pool scrubbing phenomenology at the pool entrance should be carried out to test both hydrodynamic and removal models. Hence, one of the major high lights drawn from this work was the need of further research under representative severe accident conditions (i.e., saturated pools, jet injection regimes, etc.), as well as separate effect tests to validate, improve and

  4. Proposal for a mutual insurance pool for transplant organs.

    Science.gov (United States)

    Schwindt, R; Vining, A

    1998-10-01

    Over the past decade there have been numerous proposals to use market system incentives to attenuate the persistent shortage of transplantable human organs. While shortages have grown, opposition to market-based solutions has remained adamant. Much of the opposition has focused on monetary incentives. This article explores an alternative--a mutual insurance pool to increase the supply of organs. In the process, criticisms of earlier proposals (specifically the future delivery scheme) are addressed, the operation of an insurance pool is described, and problems associated with insurance markets are identified and addressed. The article concludes that an insurance pool could overcome public and political resistance to more explicit market-based solutions.

  5. Steam-air mixture condensation in a subcooled water pool

    Science.gov (United States)

    Norman, Timothy Linhurst

    2007-12-01

    In any conceptual reactor design under postulated accidental conditions, one parameter that is considered as being highly ranked in determining the thermal-hydraulic conditions of the reactor safety components is the system pressure. To obtain a satisfactory prediction of steam partial pressure, within reasonable uncertainty in the gas space of a confined SP (suppression pool) bounded to the steam source of the break flow, one must establish a means by which local phenomena associated with steam direct contact condensation in the subcooled water pool can be fully addressed to predict the global component thermal response. For this purpose a scaled down, reduced pressure, suppression pool was designed and built to study condensation and mixing phenomena. The scaled test facility represented an idealized trapezoidal cross section, 1/10 sector of the SP with scaled height ratio of 1/4.5 and volume ratio of 1/400. The design and test conditions were based on a hierarchical scaling principle that preserves the transfer of mass, momentum, energy and condensation phenomena. Distributed thermocouples within the pool provided a means to quantify the pool thermal response. The test loop was not only instrumented with thermocouples for monitoring pool stratification but also with high speed photography for flow visualization from which to build a comprehensive database to identify the regions of the pool that were thermally stratified or mixed. Data were obtained for different pool initial subcooling and steam/air mixture flow rates. Dimensionless boundary maps were plotted from several experimental runs of pure steam injection to determine conditions when the pool transits from being homogeneously mixed to being thermally stratified. Steam-air mixture injection cases for single horizontal venting indicated that above a pool temperature of 40°C with airmass flow rates below 0.1 g/s the pool can attain thermal stratification. Models of a single phase liquid

  6. Mechanism of Silurian Hydrocarbon Pool Formation in the Tarim Basin

    Institute of Scientific and Technical Information of China (English)

    Liu Luofu; Guo Yongqiang; Zhao Yande; Li Yan; Chen Yuanzhuang; Chen Lixin; Pang Xiongqi; Xie Qilai; Huo Hong; Zhao Suping; Li Chao; Li Shuangwen

    2007-01-01

    There are three formation stages of Silurian hydrocarbon pools in the Tarim Basin. The widely distributed asphaltic sandstones in the Tazhong (central Tarim) and Tabei (northern Tarim) areas are the results of destruction of hydrocarbon pools formed in the first-stage, and the asphaltic sandstones around the Awati Sag were formed in the second-stage. The hydrocarbon migration characteristics reflected by the residual dry asphalts could represent the migration characteristics of hydrocarbons in the Silurian paleo-pools, while the present movable oil in the Silurian reservoirs is related to the later-stage (the third-stage) hydrocarbon accumulation.

  7. 13 CFR 120.1712 - Seller responsibilities with respect to Seller's Pool Loan.

    Science.gov (United States)

    2010-01-01

    ... respect to Seller's Pool Loan. 120.1712 Section 120.1712 Business Credit and Assistance SMALL BUSINESS... Loan Pools § 120.1712 Seller responsibilities with respect to Seller's Pool Loan. Seller shall remain obligated for servicing and liquidating Seller's Pool Loan until the Pool Loan is repaid in full unless...

  8. The reduced state of the plastoquinone pool is required for chloroplast-mediated stomatal closure in response to calcium stimulation.

    Science.gov (United States)

    Wang, Wen-Hua; He, En-Ming; Chen, Juan; Guo, Ying; Chen, Juan; Liu, Xiang; Zheng, Hai-Lei

    2016-04-01

    Besides their participation in photosynthesis, leaf chloroplasts function in plant responses to stimuli, yet how they direct stimulus-induced stomatal movement remains elusive. Here, we showed that over-reduction of the plastoquinone (PQ) pool by dibromothymoquinone (DBMIB) was closely associated with stomatal closure in plants which required chloroplastic H2O2 generation in the mesophyll. External application of H2 O2 reduced the PQ pool, whereas the cell-permeable reactive oxygen species (ROS) scavenger N-acetylcysteine (NAC) reversed the DBMIB-induced over-reduction of the PQ pool and stomatal closure. Mesophyll chloroplasts are key players of extracellular Ca(2+) (Ca(2+)o)-induced stomatal closure, but when treated with either 3-(3',4'-dichlorophenyl)-1,1-dimethylurea (DCMU) or NAC they failed to facilitate Ca(2+)o-induced stomatal closure due to the inhibition of chloroplastic H2 O2 synthesis in mesophyll. Similarly, the Arabidopsis electron transfer chain-related mutants npq4-1, stn7 and cas-1 exhibited diverse responses to Ca(2+)o or DBMIB. Transcriptome analysis also demonstrated that the PQ pool signaling pathway shared common responsive genes with the H2 O2 signaling pathway. These results implicated a mechanism for chloroplast-mediated stomatal closure involving the generation of mesophyll chloroplastic H2O2 based on the reduced state of the PQ pool, which is calcium-sensing receptor (CAS) and LHCII phosphorylation dependent.

  9. Swimming pools and health-related behaviours: results of an Italian multicentre study on showering habits among pool users.

    Science.gov (United States)

    Pasquarella, C; Veronesi, L; Napoli, C; Castaldi, S; Pasquarella, M L; Saccani, E; Colucci, M E; Auxilia, F; Gallè, F; Di Onofrio, V; Tafuri, S; Signorelli, C; Liguori, G

    2013-07-01

    Showering before entering a swimming pool is highly recommended to reduce the risk of biological and chemical contamination. This study evaluated the behaviour of indoor swimming pool users; analysed the variables associated with lack of showering; and assessed awareness of the importance of showering. Cross-sectional study. A self-administered questionnaire was used to collect data about users of swimming pools located in five different Italian cities. The association between specific variables and the lack of showering was assessed. P < 0.05 was considered to indicate statistical significance. In total, 4356 questionnaires were analysed. Sixty-five percent of interviewees always showered before entering the pool. The main reason given for pre-swim showering was 'to wash oneself' (50.5%); or 'to get used to the temperature of the water' (44.3%); and 5.2% answered 'for both reasons'. Risk factors significantly associated with lack of showering were: female sex (odds ratio (OR) 1.37, 95% confidence interval (CI) 1.2-1.59), age 14-17 years (OR 5.09, 95% CI 3.40-7.64); not reading the swimming pool rules (OR 1.24, 95% CI 1.10-1.41); living in Central Italy (OR 3.3, 95% CI 2.65-4.1) or Southern Italy (OR 1.35, 95% CI 1.18-1.55); and previous/current attendance of a swimming course (OR 1.7, 95% CI 1.48-1.97). The results revealed low compliance with the rule of showering before entering a swimming pool, and little awareness of the preventive role of showering in the hygienic management of swimming pools. There is a need for targeted educational interventions to inform swimming pool users of the reasons for the importance of showering before entering a pool. Copyright © 2013 The Royal Society for Public Health. Published by Elsevier Ltd. All rights reserved.

  10. Determination of allele frequency in pooled DNA: comparison of three PCR-based methods.

    Science.gov (United States)

    Wilkening, Stefan; Hemminki, Kari; Thirumaran, Ranjit Kumar; Bermejo, Justo Lorenzo; Bonn, Stefan; Försti, Asta; Kumar, Rajiv

    2005-12-01

    Determination of allele frequency in pooled DNA samples is a powerful and efficient tool for large-scale association studies. In this study, we tested and compared three PCR-based methods for accuracy, reproducibility, cost, and convenience. The methods compared were: (i) real-time PCR with allele-specific primers, (ii) real-time PCR with allele-specific TaqMan probes, and (iii) quantitative sequencing. Allele frequencies of three single nucleotide polymorphisms in three different genes were estimated from pooled DNA. The pools were made of genomic DNA samples from 96 cases with basal cell carcinoma of the skin and 96 healthy controls with known genotypes. In this study, the allele frequency estimation made by real-time PCR with allele-specific primers had the smallest median deviation (MD) from the real allele frequency with 1.12% (absolute percentage points) and was also the cheapest method. However; this method required the most time for optimization and showed the highest variation between replicates (SD = 6.47%). Quantitative sequencing, the simplest method, was found to have intermediate accuracies (MD = 1.44%, SD = 4.2%). Real-time PCR with TaqMan probes, a convenient but very expensive method, had an MD of 1.47% and the lowest variation between replicates (SD = 3.18%).

  11. Screening for Residual Disease in Pediatric Burkitt Lymphoma Using Consensus Primer Pools

    Directory of Open Access Journals (Sweden)

    Melissa Agsalda

    2009-01-01

    Full Text Available Assessing molecular persistent or minimal residual disease (PD/MRD in childhood Burkitt lymphoma (BL is challenging because access to original tumor is usually needed to design patient-specific primers (PSPs. Because BL is characterized by rearranged immunoglobulin heavy chain (IgVH genes, IgVH primer pools from IgVH1–IgVH7 regions were tested to detect PD/MRD, thus eliminating the need for original tumor. The focus of the current study was to assess the feasibility of using IgVH primer pools to detect disease in clinical specimens. Fourteen children diagnosed with B-NHL had follow-up repository specimens available to assess PD/MRD. Of the 14 patients, 12 were PD/MRD negative after 2 months of therapy and remained in remission at the end of therapy; 2/14 patients were PD/MRD positive at 2-3 months and later relapsed. PSP-based assays from these 14 patients showed 100% concordance with the current assay. This feasibility study warrants further investigation to assess PD/MRD using IgVH primer pools, which could have clinical significance as a real-time assessment tool to monitor pediatric BL and possibly other B-cell non-Hodgkin lymphoma therapy.

  12. Retail Demand Response in Southwest Power Pool

    Energy Technology Data Exchange (ETDEWEB)

    Bharvirkar, Ranjit; Heffner, Grayson; Goldman, Charles

    2009-01-30

    In 2007, the Southwest Power Pool (SPP) formed the Customer Response Task Force (CRTF) to identify barriers to deploying demand response (DR) resources in wholesale markets and develop policies to overcome these barriers. One of the initiatives of this Task Force was to develop more detailed information on existing retail DR programs and dynamic pricing tariffs, program rules, and utility operating practices. This report describes the results of a comprehensive survey conducted by LBNL in support of the Customer Response Task Force and discusses policy implications for integrating legacy retail DR programs and dynamic pricing tariffs into wholesale markets in the SPP region. LBNL conducted a detailed survey of existing DR programs and dynamic pricing tariffs administered by SPP's member utilities. Survey respondents were asked to provide information on advance notice requirements to customers, operational triggers used to call events (e.g. system emergencies, market conditions, local emergencies), use of these DR resources to meet planning reserves requirements, DR resource availability (e.g. seasonal, annual), participant incentive structures, and monitoring and verification (M&V) protocols. Nearly all of the 30 load-serving entities in SPP responded to the survey. Of this group, fourteen SPP member utilities administer 36 DR programs, five dynamic pricing tariffs, and six voluntary customer response initiatives. These existing DR programs and dynamic pricing tariffs have a peak demand reduction potential of 1,552 MW. Other major findings of this study are: o About 81percent of available DR is from interruptible rate tariffs offered to large commercial and industrial customers, while direct load control (DLC) programs account for ~;;14percent. o Arkansas accounts for ~;;50percent of the DR resources in the SPP footprint; these DR resources are primarily managed by cooperatives. o Publicly-owned cooperatives accounted for 54percent of the existing DR resources

  13. Environmental assessment, K Pool fish rearing, Hanford Site, Richland, Washington

    Energy Technology Data Exchange (ETDEWEB)

    NONE

    1996-12-01

    The US Department of Energy (DOE) has a need to respond to a request to lease facilities at the Hanford Site 100-KE and 100-KW filter plant pools (K Pools) for fish rearing activities. These fish rearing activities would be: (1) business ventures with public and private funds and (2) long-term enhancement and supplementation programs for game fish populations in the Columbia River Basin. The proposed action is to enter into a use permit or lease agreement with the YIN or other parties who would rear fish in the 100-K Area Pools. The proposed action would include necessary piping, pump, and electrical upgrades of the facility; cleaning and preparation of the pools; water withdrawal from the Columbia River, and any necessary water or wastewater treatment; and introduction, rearing and release of fish. Future commercial operations may be included.

  14. Vernal Pool Study 2005 Wallkill River National Wildlife Refuge

    Data.gov (United States)

    US Fish and Wildlife Service, Department of the Interior — These are data sheets from Wallkill River National Wildlife Refuge that will be part of a larger study to estimate the amphibian occupancy of vernal pool habitat at...

  15. Pool Onistarist kuulub kütusefirma omanikele / Sirje Niitra

    Index Scriptorium Estoniae

    Niitra, Sirje, 1948-

    2001-01-01

    Alkoholikontserni Onistar kiiret tõusu Eesti alkoholiturul toetavad Vene rahvusest ärimeestele kuuluvate kütusefirmade Infast Oil ja Saurix Petroleum omanikud, kellele kuulub pool Eesti viinaturu liidri aktsiatest

  16. LCG Persistency Framework (POOL, CORAL, COOL) - Status and Outlook

    CERN Document Server

    CERN. Geneva

    2012-01-01

    The LCG Persistency Framework consists of three software packages (POOL, CORAL and COOL) that address the data access requirements of the LHC experiments in several different areas. The project is the result of the collaboration between the CERN IT Department and the three experiments (ATLAS, CMS and LHCb) that are using some or all of the Persistency Framework components to access their data. The POOL package is a hybrid technology store for C++ objects, using a mixture of streaming and relational technologies to implement both object persistency and object metadata catalogs and collections. POOL provides generic components that can be used by the experiments to store both their event data and their conditions data. The CORAL package is an abstraction layer with an SQL-free API for accessing data stored using relational database technologies. It is used directly by experiment-specific applications and internally by both COOL and POOL. The COOL package provides specific software components and tools for the h...

  17. 49 CFR 1184.2 - Contents of a pooling application.

    Science.gov (United States)

    2010-10-01

    ... description of the projected volume of traffic, the revenues, and the commodities which will be subject to the...) A narrative statement as to the relative transportation importance of the pooling agreement as...

  18. Waterfowl Count over Pool 9 Erie National Wildlife Refuge 1970

    Data.gov (United States)

    US Fish and Wildlife Service, Department of the Interior — This presents the observations of waterfowl flying over Pool 9 at Erie National Wildlife Refuge from late-August through early October, 1970.

  19. Allegheny County Public Swimming Pool, Hot Tub, and Spa Inspections

    Data.gov (United States)

    Allegheny County / City of Pittsburgh / Western PA Regional Data Center — Public swimming pool, hot tub, and spa facilities are licensed and inspected once each year to assure proper water quality, sanitation, lifeguard coverage and...

  20. Cumulative Permitted Vernal Pool Losses - Mitigation Sites [ds652

    Data.gov (United States)

    California Department of Resources — This shapefile represents mitigation areas included in the Vernal Pool Clean Water Act Permit Database, developed by AECOM for the Placer Land Trust. The permit...

  1. schwimmbad: A uniform interface to parallel processing pools in Python

    Science.gov (United States)

    Price-Whelan, Adrian M.; Foreman-Mackey, Daniel

    2017-09-01

    Many scientific and computing problems require doing some calculation on all elements of some data set. If the calculations can be executed in parallel (i.e. without any communication between calculations), these problems are said to be perfectly parallel. On computers with multiple processing cores, these tasks can be distributed and executed in parallel to greatly improve performance. A common paradigm for handling these distributed computing problems is to use a processing "pool": the "tasks" (the data) are passed in bulk to the pool, and the pool handles distributing the tasks to a number of worker processes when available. schwimmbad provides a uniform interface to parallel processing pools and enables switching easily between local development (e.g., serial processing or with multiprocessing) and deployment on a cluster or supercomputer (via, e.g., MPI or JobLib).

  2. Vernal Pool Complexes - Central Valley, 1989-1998 [ds36

    Data.gov (United States)

    California Department of Resources — This Arc/Info coverage is a polygon layer of vernal pool complexes greater than 40 acres in size for 29 counties throughout the greater Central Valley, and some...

  3. Pool Onistarist kuulub kütusefirma omanikele / Sirje Niitra

    Index Scriptorium Estoniae

    Niitra, Sirje, 1948-

    2001-01-01

    Alkoholikontserni Onistar kiiret tõusu Eesti alkoholiturul toetavad Vene rahvusest ärimeestele kuuluvate kütusefirmade Infast Oil ja Saurix Petroleum omanikud, kellele kuulub pool Eesti viinaturu liidri aktsiatest

  4. 41 CFR 101-25.109-2 - Equipment pools.

    Science.gov (United States)

    2010-07-01

    ... number and location of equipment pools, consideration shall be given to economy of operation, mobility of... available for sharing or loan. Information concerning the availability of this equipment can be...

  5. Incidence of otitis externa following swimming pool attendance--a case study in 6 indoor pools

    Energy Technology Data Exchange (ETDEWEB)

    Borneff, M.; Geyer, G.

    1982-08-01

    A bacteriological study of the microflora in the auditory meatus of patients with otitis externa after swimming in correlation to the water flora was done during winter 80/81. Six indoor-pools (monthly controls ahead had proven unobjectionable water quality) were analyzed daily, while all swimmers were asked to come for otologic examination whenever symptoms of otitis externa appeared. In a control group without otitis externa the auditory canal was inspected and swabs were taken immediately after swimming. The results indicate, that a short term contamination of the ear canal is possible by swimming in water of unobjectionable quality; this however does not necessarily lead to clinical appearances. Since the incidence of otitis externa in our study (0.01%) was not higher than the morbidity rate in nonswimmers, the data support the concept of the multiplex etiology for otitis externa.

  6. Economic and Innovative Spent Fuel Pool Level Instrumentation

    Energy Technology Data Exchange (ETDEWEB)

    Legrand, R.; Scecina, J.; Koenig, W.

    2014-07-01

    At Fukushima, significant attention and resources were concentrated on providing makeup water to the Spent Fuel Pools (SFP). No level indication was available and the assumption was that the water level was dangerously low. As it later turned out, the applied resources could have been used more effectively elsewhere. In reaction, Nuclear Regulatory Authorities worldwide have issued orders to add rugged, seismically qualified level instrumentation to Spent Fuel Pools. (Author)

  7. CHARACTERISTICS OFBENTHIC FISH COMMUNITY OF DNIEPER STORAGE POOL LITTORAL ZONE

    Directory of Open Access Journals (Sweden)

    Novitskiy R. A.

    2011-11-01

    Full Text Available Specific composition of bull-calves is analyzed together with their quantitative and quality parameters in the littoral zone of the Dnepr storage pool. The structural-functional features of organization of littoral communities of bull-calves were studied. The patterns of spatial distribution of Bull-calf (Gobiidae representatives were analyzed for the storage pool; their role in the littoral fish communities was clarified.

  8. Pooling score: an endoscopic model for evaluating severity of dysphagia

    OpenAIRE

    FARNETI, D.

    2008-01-01

    The finding of secretions and bolus pooling is of great diagnostic interest in the evaluation of subjects with swallowing disorders. Bedside evaluation alone, in subjects at risk for aspiration, can underestimate this parameter. The usefulness of endoscopic investigation for the evaluation of subjects with swallowing disorders is stressed, in order to plan treatment and follow-up. Based on endoscopic evaluation of material pooling we devised a score expressing the severity of dysphagia. This ...

  9. Condensation pool experiments with steam using DN200 blowdown pipe

    Energy Technology Data Exchange (ETDEWEB)

    Laine, J.; Puustinen, M. [Lappeenranta Univ. of Technology (Finland)

    2005-08-01

    This report summarizes the results of the condensation pool experiments with steam using a DN200 blowdown pipe. Altogether five experiment series, each consisting of several steam blows, were carried out in December 2004 with a scaled-down test facility designed and constructed at Lappeenranta University of Technology. The main purpose of the experiments was to increase the understanding of different phenomena in the condensation pool during steam discharge. (au)

  10. Health impact of disinfection by-products in swimming pools

    OpenAIRE

    Villanueva, Cristina M.; Laia Font-Ribera

    2012-01-01

    This article is focused on the epidemiological evidence on the health impacts related to disinfection by-products (DBPs) in swimming pools, which is a chemical hazard generated as an undesired consequence to reduce the microbial pathogens. Specific DBPs are carcinogenic, fetotoxic and/or irritant to the airways according to experimental studies. Epidemiological evidence shows that swimming in pools during pregnancy is not associated with an increased risk of reproductive outcomes. An epidemio...

  11. Off-exchange Trading, Dark Pools and their Regulatory Dilemmas

    OpenAIRE

    Zsuzsánna Biedermann

    2015-01-01

    Exemption from pre-trade transparency on dark platforms enables the prevention of information leakage and a major market impact, thus block traders prefer these platforms to public ones. There are several dark trading facilities: systematic internalisers, crossing networks, etc. In this study, I focus explicitly on dark pools, and analyse why average trade size is decreasing while the number of transactions and the popularity of these venues continue to increase even though dark pools do not ...

  12. NEW VISUAL PERCEPTUAL POOLING STRATEGY FOR IMAGE QUALITY ASSESSMENT

    Institute of Scientific and Technical Information of China (English)

    Zhou Wujie; Jiang Gangyi; Yu Mei

    2012-01-01

    Most of Image Quality Assessment (IQA) metrics consist of two processes.In the first process,quality map of image is measured locally.In the second process,the last quality score is converted from the quality map by using the pooling strategy.The first process had been made effective and significant progresses,while the second process was always done in simple ways.In the second process of the pooling strategy,the optimal perceptual pooling weights should be determined and computed according to Human Visual System (HVS).Thus,a reliable spatial pooling mathematical model based on HVS is an important issue worthy of study.In this paper,a new Visual Perceptual Pooling Strategy (VPPS) for IQA is presented based on contrast sensitivity and luminance sensitivity of HVS.Experimental results with the LIVE database show that the visual perceptual weights,obtained by the proposed pooling strategy,can effectively and significantly improve the performances of the IQA metrics with Mean Structural SIMilarity (MSSIM) or Phase Quantization Code (PQC).It is confirmed that the proposed VPPS demonstrates promising results for improving the performances of existing IQA metrics.

  13. Seasonal variation in Chironomid emergence from coastal pools

    Directory of Open Access Journals (Sweden)

    Alexander T. Egan

    2015-07-01

    Full Text Available Understanding the phenology of emergences can be useful in determining seasonal chironomid life cycle patterns, which are often influenced by ice cover and temperature in cold climates. Lake Superior is the largest lake in North America and with a mean surface temperature of 3.9 °C influences regional climate. Coastal pools at Isle Royale, a wilderness archipelago in the northern part of the lake, occur in dense patches on low-gradient volcanic bedrock between the lakeshore and forest, creating variable microhabitats for Chironomidae. Four sites were sampled monthly from April to October, 2010. Surface-floating pupal exuviae were collected from a series of pools in two zones: a lower zone near the lake influenced by wave splash, and an upper zone near the forest and influenced by upland runoff. We used Jaccard’s and Whittaker’s diversity indexes to test community similarity across months. Temperature loggers in pools collected hourly readings for most of the study. Assemblage emergences were stable in upper pools, with significant similarity across late spring and summer months. Assemblages were seasonally variable in lower pools, with significant dissimilarity across spring, summer, and fall months. Few species in either zone were unique to spring or fall months. However, many summer species in the splash zone had a narrow emergence period occurring during calm weather following distinct increases in mean water temperature. Regardless of input of cold lake water to the lower zone, pools from both zones generally had corresponding temperature trends.

  14. Inorganic Chemical Composition of Swimming Pools in Amman-Jordan

    Directory of Open Access Journals (Sweden)

    Bety Saqarat

    2012-10-01

    Full Text Available Monitoring was carried out during summer 2011 in three types of swimming pools in Amman-Jordan. Thirty six water samples, collected from three users type of swimming pools (adults, family and infants, were examined for its major ionic composition (HCO3-, Cl-, NO3-, SO4=, Ca+2, Mg+2, Na+, K+ and PO4+4 in addition to its BOD and COD content. All of the examined samples from the swimming pools water were acceptable according to the local and WHO standards. The type and number of users as well as the maintenance of the swimming pool water influenced the water quality. The results showed that there was a noticeable increase in NO3, PO4 and Cl than other ions. All of the examined samples from the swimming pools water were acceptable according to the local and WHO standards and although the water of the infant’s users changed frequently, it showed the highest concentration of most of the parameters and Adults’ pool showed the lowest.

  15. Visual crowding cannot be wholly explained by feature pooling.

    Science.gov (United States)

    Ester, Edward F; Klee, Daniel; Awh, Edward

    2014-06-01

    Visual perception is dramatically impaired when a peripheral target is embedded within clutter, a phenomenon known as visual crowding. Despite decades of study, the mechanisms underlying crowding remain a matter of debate. Feature pooling models assert that crowding results from a compulsory pooling (e.g., averaging) of target and distractor features. This view has been extraordinarily influential in recent years, so much so that crowding is typically regarded as synonymous with pooling. However, many demonstrations of feature pooling can also be accommodated by a probabilistic substitution model where observers occasionally report a distractor as the target. Here, we directly compared pooling and substitution using an analytical approach sensitive to both alternatives. In four experiments, we asked observers to report the precise orientation of a target stimulus flanked by two irrelevant distractors. In all cases, the observed data were well described by a quantitative model that assumes probabilistic substitution, and poorly described by a quantitative model that assumes that targets and distractors are averaged. These results challenge the widely held assumption that crowding can be wholly explained by compulsory pooling. PsycINFO Database Record (c) 2014 APA, all rights reserved.

  16. Survivin exists in immunochemically distinct subcellular pools and is involved in spindle microtubule function.

    Science.gov (United States)

    Fortugno, Paola; Wall, Nathan R; Giodini, Alessandra; O'Connor, Daniel S; Plescia, Janet; Padgett, Karen M; Tognin, Simona; Marchisio, Pier Carlo; Altieri, Dario C

    2002-02-01

    Survivin is a member of the inhibitor of apoptosis gene family that has been implicated in both apoptosis inhibition and regulation of mitosis. However, the subcellular distribution of survivin has been controversial and variously described as a microtubule-associated protein or chromosomal passenger protein. Here, we show that antibodies directed to the survivin sequence Ala(3)-Ile(19) exclusively recognized a nuclear pool of survivin that segregated with nucleoplasmic proteins, but not with outer nuclear matrix or nuclear matrix proteins. By immunofluorescence, nuclear survivin localized to kinetochores of metaphase chromosomes, and to the central spindle midzone at anaphase. However, antibodies to Cys(57)-Trp(67) identified a cytosolic pool of survivin, which associated with interphase microtubules, centrosomes, spindle poles and mitotic spindle microtubules at metaphase and anaphase. Polyclonal antibodies recognizing survivin epitopes Ala(3)-Ile(19), Met(38)-Thr(48), Pro(47)-Phe(58) and Cys(57)-Trp(67) identified both survivin pools within the same mitotic cell. A ratio of approximately 1:6 for nuclear versus cytosolic survivin was obtained by quantitative subcellular fractionation. In synchronized cultures, cytosolic survivin abruptly increased at mitosis, physically associated with p34(cdc2), and was phosphorylated by p34(cdc2) on Thr(34), in vivo. By contrast, nuclear survivin began to accumulate in S phase, was not complexed with p34(cdc2) and was not phosphorylated on Thr(34). Intracellular loading of a polyclonal antibody to survivin caused microtubule defects and resulted in formation of multipolar mitotic spindles, but did not interfere with cytokinesis. These data demonstrate that although both reported localizations of survivin exist in mitotic cells, the preponderant survivin pool is associated with microtubules and participates in the assembly of a bipolar mitotic spindle.

  17. Pooled versus separate measurements of tree-ring stable isotopes

    Energy Technology Data Exchange (ETDEWEB)

    Dorado Linan, Isabel, E-mail: isabel@gfz-potsdam.de [Universitat de Barcelona, Departament d' Ecologia, Diagonal 645, 08028, Barcelona (Spain); German Centre for Geosciences, Climate Dynamics and Landscape Evolution, Dendro Laboratory, Telegrafenberg, 14473, Potsdam (Germany); Gutierrez, Emilia, E-mail: emgutierrez@ub.edu [Universitat de Barcelona, Departament d' Ecologia, Diagonal 645, 08028, Barcelona (Spain); Helle, Gerhard, E-mail: ghelle@gfz-potsdam.de [German Centre for Geosciences, Climate Dynamics and Landscape Evolution, Dendro Laboratory, Telegrafenberg, 14473, Potsdam (Germany); Heinrich, Ingo, E-mail: heinrich@gfz-potsdam.de [German Centre for Geosciences, Climate Dynamics and Landscape Evolution, Dendro Laboratory, Telegrafenberg, 14473, Potsdam (Germany); Andreu-Hayles, Laia, E-mail: laiandreu@ub.edu [Universitat de Barcelona, Departament d' Ecologia, Diagonal 645, 08028, Barcelona (Spain); Tree-Ring Laboratory, Lamont-Doherty Earth Observatory of Columbia University, Palisades NY (United States); Planells, Octavi, E-mail: leocarpus@hotmail.com [Universitat de Barcelona, Departament d' Ecologia, Diagonal 645, 08028, Barcelona (Spain); Leuenberger, Markus, E-mail: leuenberger@climate.unibe.ch [Climate and Environmental Physics, Physics Institute, University of Bern, Sidlerstrasse 5, 3012 Bern (Switzerland); Oeschger Centre of Climate Change Research, University of Bern, Zaehringerstrasse 25, 3012 Bern (Switzerland); Buerger, Carmen, E-mail: buerger@gfz-potsdam.de [German Centre for Geosciences, Climate Dynamics and Landscape Evolution, Dendro Laboratory, Telegrafenberg, 14473, Potsdam (Germany); Schleser, Gerhard, E-mail: schleser@gfz-potsdam.de [German Centre for Geosciences, Climate Dynamics and Landscape Evolution, Dendro Laboratory, Telegrafenberg, 14473, Potsdam (Germany)

    2011-05-01

    {delta}{sup 13}C and {delta}{sup 18}O of tree rings contain time integrated information about the environmental conditions weighted by seasonal growth dynamics and are well established as sources of palaeoclimatic and ecophysiological data. Annually resolved isotope chronologies are frequently produced by pooling dated growth rings from several trees prior to the isotopic analyses. This procedure has the advantage of saving time and resources, but precludes from defining the isotopic error or statistical uncertainty related to the inter-tree variability. Up to now only a few studies have compared isotope series from pooled tree rings with isotopic measurements from individual trees. We tested whether or not the {delta}{sup 13}C and the {delta}{sup 18}O chronologies derived from pooled and from individual tree rings display significant differences at two locations from the Iberian Peninsula to assess advantages and constraints of both methodologies. The comparisons along the period 1900-2003 reveal a good agreement between pooled chronologies and the two mean master series which were created by averaging raw individual values (Mean) or by generating a mass calibrated mean (MassC). In most of the cases, pooled chronologies show high synchronicity with averaged individual samples at interannual scale but some differences also show up especially when comparing {delta}{sup 18}O decadal to multi-decadal variations. Moreover, differences in the first order autocorrelation among individuals may be obscured by pooling strategies. The lack of replication of pooled chronologies prevents detection of a bias due to a higher mass contribution of one sample but uncertainties associated with the analytical process itself, as sample inhomogeneity, seems to account for the observed differences. - Research Highlights: {yields} Pooled {delta}{sup 13}C and {delta}{sup 18}O chronologies are expected to be similar to the mean. {yields} Empirical pooled chronologies {delta}{sup 13}C and

  18. Variability and Expansion of the Tropical Ocean Warm Pool

    Science.gov (United States)

    Hoyos, C. D.; Webster, P. J.

    2007-12-01

    The tropical warm pool plays a determining role in the global climate since it acts as a sorce of thermodynamic forcing for the atmospheric general circulation. The warm pools (SST>28°C) extend from the Indian Ocean, across the Indonesian Archipelago into the western Pacific with a secondary area crossing Central America into the Caribbean and the central Atlantic ocean. The heating in the atmosphere above the warm pool influences climate over wide ranges of the planet. As there are zonal asymmetries in the extent of the warm pool, and hence variations in the locations of total heating of the atmospheric column, the warm pools also create centers of diabatic heating along the equator which set up the position and strength of the east-west Circulations which play integral roles in the coupled ocean-atmosphere tropical climate. In fact, almost all of the global vertically integrated heating resides over waters >27°C. The tropical warm pool is characterized by large-scale variations of SST on time scales that range from intraseasonal to interdecadal, considerably altering the forcing to the atmosphere. In addition to the existence of the large variability of the tropical warm pool SST, there is an upward trend in the tropical warm pool area, which is evident in the Atlantic, Indian and Pacific oceans with the area encompassed by the 28C isotherm groewing by 67% since 1920. Changes in the zonal and meridional circulation associated with the variability and expansion of the warm pool are studied using NCEP-NCAR and ERA40 reanalsysis. It is found that the impacts extend around the tropics and are associated with a slowing down of the Asian monsoon circulation and modulation of the of the equatorial Walker cells. Analysis of the IPCC-CMIP3 models for the 20th century show similar changes in the warm pool extent suggesting that changes that occur under different future emission scenarios may poossess credence. With greenhouse warming it is found that the warm pool

  19. Types, Evolution and Pool-Controlling Significance of Pool Fluid Sources in Superimposed Basins: A Case Study from Paleozoic and Mesozoic in South China

    Institute of Scientific and Technical Information of China (English)

    Xu Sihuang; Mei Lianfu; Yuan Caiping; Ma Yongsheng; Guo Tonglou

    2007-01-01

    Having multiple tectonic evolution stages, South China belongs to a superimposed basin in nature. Most marine gas pools became secondary pools. The pool fluid sources serve as the principal pool-controlling factors. On the basis of eight typical petroleum pools, the type, evolution in time-space,and the controlling of petroleum distribution of pool fluid sources are comprehensively analyzed. The main types of pool fluid sources include hydrocarbon, generated primarily and secondly from source rocks, gas cracked from crude oil, gas dissolved in water, inorganic gas, and mixed gases. In terms of evolution, the primary hydrocarbon was predominant prior to Indosinian; during Indosinian to Yenshanian the secondary gas includes gas cracked from crude oil, gas generated secondarily, gas dissolved in water, and inorganic gas dominated; during Yenshanian to Himalayan the most fluid sources were mixed gases. Controlled by pool fluid sources, the pools with mixed gas sources distributed mainly in Upper Yangtze block, especially Sichuan (四川) basin; the pools with primary hydrocarbon sources distributed in paleo-uplifts such as Jiangnan (江南), but most of these pools became fossil pools; the pools with secondary hydrocarbon source distributed in the areas covered by Cretaceous and Eogene in Middle-Lower Yangtze blocks, and Chuxiong (楚雄), Shiwandashan (十万大山), and Nanpanjiang (南盘江) basins; the pools with inorganic gas source mainly formed and distributed in tensional structure areas.

  20. salinity Budget analysis of of Western Pacific Warm Pool

    Science.gov (United States)

    Gao, Shan; nie, xunwei; Qu, Tangdong

    2013-04-01

    Western pacific warm pool plays an important role in governing global climate variability. In particular, the unique salinity structures of warm pool, barrier layer and salinity front, have significant impacts on the heat content accumulation and zonal migration of warm pool surface water, which further modulate the formation and development of tropical climate phenomenon, such as El Niño, MJO and EAM. In order to have better understanding of how warm pool salinity contributes to climate change the salinity budget of warm pool are investigated using results from a model of the Consortium for Estimating the Circulation and Climate of the Ocean (ECCO). The results show that the salinity budget of warm pool and its components have significant seasonal and annual variability. The surface freshwater flux is the dominant element of salinity budget, which is well balanced by the other ocean dynamic terms. However among all the terms of ocean dynamics, mixing is most significant, whereas advection and entrainment are not dominant, unlike most other region. The further analysis of lagged correlation coefficient between the salinity budget, salinity budget components and NIÑO 3.4 reveals that the salinity budget is highly related to El Niño and Southern Oscillation (ENSO). The results indicate that the annual variability of warm pool salinity budget has a notable correlation coefficient with NIÑO 3.4 (0.7); Mealwhile,variabilities of each components of Ocean dynamics,including diffusion, advection and mixing are found to be highly correlated to ENSO.The local barrier layer is believed to be a major reason.

  1. Pooled versus separate measurements of tree-ring stable isotopes.

    Science.gov (United States)

    Dorado Liñán, Isabel; Gutiérrez, Emilia; Helle, Gerhard; Heinrich, Ingo; Andreu-Hayles, Laia; Planells, Octavi; Leuenberger, Markus; Bürger, Carmen; Schleser, Gerhard

    2011-05-01

    δ(13)C and δ(18)O of tree rings contain time integrated information about the environmental conditions weighted by seasonal growth dynamics and are well established as sources of palaeoclimatic and ecophysiological data. Annually resolved isotope chronologies are frequently produced by pooling dated growth rings from several trees prior to the isotopic analyses. This procedure has the advantage of saving time and resources, but precludes from defining the isotopic error or statistical uncertainty related to the inter-tree variability. Up to now only a few studies have compared isotope series from pooled tree rings with isotopic measurements from individual trees. We tested whether or not the δ(13)C and the δ(18)O chronologies derived from pooled and from individual tree rings display significant differences at two locations from the Iberian Peninsula to assess advantages and constraints of both methodologies. The comparisons along the period 1900-2003 reveal a good agreement between pooled chronologies and the two mean master series which were created by averaging raw individual values (Mean) or by generating a mass calibrated mean (MassC). In most of the cases, pooled chronologies show high synchronicity with averaged individual samples at interannual scale but some differences also show up especially when comparing δ(18)O decadal to multi-decadal variations. Moreover, differences in the first order autocorrelation among individuals may be obscured by pooling strategies. The lack of replication of pooled chronologies prevents detection of a bias due to a higher mass contribution of one sample but uncertainties associated with the analytical process itself, as sample inhomogeneity, seems to account for the observed differences.

  2. The spatial variability of water chemistry and DOC in bog pools: the importance of slope position, diurnal turnover and pool type

    Science.gov (United States)

    Holden, Joseph; Turner, Ed; Baird, Andy; Beadle, Jeannie; Billett, Mike; Brown, Lee; Chapman, Pippa; Dinsmore, Kerry; Dooling, Gemma; Grayson, Richard; Moody, Catherine; Gee, Clare

    2017-04-01

    We have previously shown that marine influence is an important factor controlling regional variability of pool water chemistry in blanket peatlands. Here we examine within-site controls on pool water chemistry. We surveyed natural and artificial (restoration sites) bog pools at blanket peatland sites in northern Scotland and Sweden. DOC, pH, conductivity, dissolved oxygen, temperature, cations, anions and absorbance spectra from 220-750nm were sampled. We sampled changes over time but also conducted intensive spatial surveys within individual pools and between pools on the same sampling days at individual study sites. Artificial pools had significantly greater DOC concentrations and different spectral absorbance characteristics when compared to natural pools at all sites studied. Within-pool variability in water chemistry tended to be small, even for very large pools ( 400 m2), except where pools had a layer of loose, mobile detritus on their beds. In these instances rapid changes took place between the overlying water column and the mobile sediment layer wherein dissolved oxygen concentrations dropped from values of around 12-10 mg/L to values less than 0.5 mg/L over just 2-3 cm of the depth profile. Such strong contrasts were not observed for pools which had a hard peat floor and which lacked a significant detritus layer. Strong diurnal turnover occurred within the pools on summer days, including within small, shallow pools (e.g. dissolved oxygen concentrations which originated at the surface and was then cycled downwards as the pool surface waters cooled. Slope location was a significant control on several pool water chemistry variables including pH and DOC concentration with accumulation (higher concentrations) in pools that were located further downslope in both natural and artificial pool systems. These processes have important implications for our interpretation of water chemistry and gas flux data from pool systems, how we design our sampling strategies and

  3. Examination of homogeneity of selected Irish pooling groups

    Directory of Open Access Journals (Sweden)

    S. Das

    2011-03-01

    Full Text Available Flood frequency analysis is a necessary and important part of flood risk assessment and management studies. Regional flood frequency methods, in which flood data from groups of catchments are pooled together in order to enhance the precision of flood estimates at project locations, is an accepted part of such studies. This enhancement of precision is based on the assumption that catchments so pooled together are homogeneous in their flood producing properties. If homogeneity is assured then a homogeneous pooling group of sites lead to a reduction in the error of quantile estimates, relative to estimators based on single at-site data series alone. Homogeneous pooling groups are selected by using a previously nominated rule and this paper examines how effective one such rule is in selecting homogeneous groups. In this paper a study, based on annual maximum series obtained from 85 Irish gauging stations, examines how successful a common method of identifying pooling group membership is in selecting groups that actually are homogeneous. Each station has its own unique pooling group selected by use of a Euclidean distance measure in catchment descriptor space, commonly denoted dij and with a minimum of 500 station years of data in the pooling group. It was found that dij could be effectively defined in terms of catchment area, mean rainfall and baseflow index. The study then investigated how effective this selected method is in selecting groups of catchments that are actually homogenous as indicated by their L-Cv values. The sampling distribution of L-CV (t2 in each pooling group and the 95% confidence limits about the pooled estimate of t2 are obtained by simulation. The t2 values of the selected group members are compared with these confidence limits both graphically and numerically. Of the 85 stations, only 1 station's pooling group members have

  4. LKB1 acts as a critical gatekeeper of ovarian primordial follicle pool

    Science.gov (United States)

    Ma, Xue-Shan; Schatten, Heide; Fan, Heng-Yu; Wang, Zhen-Bo; Sun, Qing-Yuan

    2016-01-01

    Liver Kinase b1 (LKB1/STK11)is a tumor suppressor responsible for the Peutz-Jeghers syndrome, an autosomal-dominant, cancer-prone disorder in which patients develop neoplasms in several organs, including the oviduct, ovary, and cervix. Besides, the C allele of a SNP in the Lkb1 gene impedes the likelihood of ovulation in polycystic ovary syndrome (PCOS) in women treated with metformin, a known LKB1-AMPK activator. It is very likely that LKB1 plays roles in female fertility. To identify the physiological functions of LKB1 in the mouse ovary, we selectively disrupted LKB1 in oocytes by the Cre-LoxP conditional knockout system and found that Lkb1fl/fl; Gdf9-Cre mice were severely subfertile with significantly enlarged ovaries compared to Lkb1fl/fl mice. Interestingly, without Lkb1 expression in oocytes from the primordial follicle stage, the entire primordial follicle pool was activated but failed to mature and ovulate, subsequently causing premature ovarian failure (POF). Further investigation demonstrated that elevated mTOR signaling regulated by an AKT-independent LKB1-AMPK pathway was responsible for the excessive follicle activation and growth. Our findings reveal the role of LKB1 as an indispensable gatekeeper for the primordial follicle pool, offer new functional understanding for the tumor suppressor genes in reproductive organs, and might also provide valuable information for understanding POF and infertility. PMID:26745759

  5. BAC-pool sequencing and analysis confirms growth-associated QTLs in the Asian seabass genome

    Science.gov (United States)

    Shen, Xueyan; Ngoh, Si Yan; Thevasagayam, Natascha May; Prakki, Sai Rama Sridatta; Bhandare, Pranjali; Tan, Andy Wee Kiat; Tan, Gui Quan; Singh, Siddharth; Phua, Norman Chun Han; Vij, Shubha; Orbán, László

    2016-01-01

    The Asian seabass is an important marine food fish that has been cultured for several decades in Asia Pacific. However, the lack of a high quality reference genome has hampered efforts to improve its selective breeding. A 3D BAC pool set generated in this study was screened using 22 SSR markers located on linkage group 2 which contains a growth-related QTL region. Seventy-two clones corresponding to 22 FPC contigs were sequenced by Illumina MiSeq technology. We co-assembled the MiSeq-derived scaffolds from each FPC contig with error-corrected PacBio reads, resulting in 187 sequences covering 9.7 Mb. Eleven genes annotated within this region were found to be potentially associated with growth and their tissue-specific expression was investigated. Correlation analysis demonstrated that SNPs in ctsb, skp1 and ppp2ca can be potentially used as markers for selecting fast-growing fingerlings. Conserved syntenies between seabass LG2 and five other teleosts were identified. This study i) provided a 10 Mb targeted genome assembly; ii) demonstrated NGS of BAC pools as a potential approach for mining candidates underlying QTLs of this species; iii) detected eleven genes potentially responsible for growth in the QTL region; and iv) identified useful SNP markers for selective breeding programs of Asian seabass. PMID:27821852

  6. Evaluation of Total Coliform, Fecal Coliform and Residual Chlorine in Swimming Pools in Kermanshah on the Season, the type of Pool, Disinfection System and Source of Water Supply in the during of three years (2010-2012

    Directory of Open Access Journals (Sweden)

    K SHarafi

    2014-11-01

    From the results , although the pools of water quality parameters has been studied in almost ideal But in summer, especially on a female pools and pools with wells water supply source than other pools , to be more oversight .

  7. Experimental investigation of particulate debris spreading in a pool

    Energy Technology Data Exchange (ETDEWEB)

    Konovalenko, A., E-mail: kono@kth.se [Division of Nuclear Power Safety, Royal Institute of Technology (KTH) , Roslagstullsbacken 21, Stockholm 106 91 (Sweden); Basso, S., E-mail: simoneb@kth.se [Division of Nuclear Power Safety, Royal Institute of Technology (KTH) , Roslagstullsbacken 21, Stockholm 106 91 (Sweden); Kudinov, P., E-mail: pkudinov@kth.se [Division of Nuclear Power Safety, Royal Institute of Technology (KTH) , Roslagstullsbacken 21, Stockholm 106 91 (Sweden); Yakush, S.E., E-mail: yakush@ipmnet.ru [Institute for Problems in Mechanics of the Russian Academy of Sciences, Ave. Vernadskogo 101 Bldg 1, Moscow 119526 (Russian Federation)

    2016-02-15

    Termination of severe accident progression by core debris cooling in a deep pool of water under reactor vessel is considered in several designs of light water reactors. However, success of this accident mitigation strategy is contingent upon the effectiveness of heat removal by natural circulation from the debris bed. It is assumed that a porous bed will be formed in the pool in the process of core melt fragmentation and quenching. Debris bed coolability depends on its properties and system conditions. The properties of the bed, including its geometry are the outcomes of the debris bed formation process. Spreading of the debris particles in the pool by two-phase turbulent flows induced by the heat generated in the bed can affect the shape of the bed and thus influence its coolability. The goal of this work is to provide experimental data on spreading of solid particles in the pool by large-scale two-phase flow. The aim is to provide data necessary for understanding of separate effects and for development and validation of models and codes. Validated codes can be then used for prediction of debris bed formation under prototypic severe accident conditions. In PDS-P (Particulate Debris Spreading in the Pool) experiments, air injection at the bottom of the test section is employed as a means to create large-scale flow in the pool in isothermal conditions. The test section is a rectangular tank with a 2D slice geometry, it has fixed width (72 mm), adjustable length (up to 1.5 m) and allows water filling to the depth of up to 1 m. Variable pool length and depth allows studying two-phase circulating flows of different characteristic sizes and patterns. The average void fraction in the pool is determined by video recording and subsequent image processing. Particles are supplied from the top of the facility above the water surface. Results of several series of PDS-P experiments are reported in this paper. The influence of the gas flow rate, pool dimensions, particle density

  8. Health impact of disinfection by-products in swimming pools

    Directory of Open Access Journals (Sweden)

    Cristina M. Villanueva

    2012-12-01

    Full Text Available This article is focused on the epidemiological evidence on the health impacts related to disinfection by-products (DBPs in swimming pools, which is a chemical hazard generated as an undesired consequence to reduce the microbial pathogens. Specific DBPs are carcinogenic, fetotoxic and/or irritant to the airways according to experimental studies. Epidemiological evidence shows that swimming in pools during pregnancy is not associated with an increased risk of reproductive outcomes. An epidemiological study suggested an increased risk of bladder cancer with swimming pool attendance, although evidence is inconclusive. A higher prevalence of respiratory symptoms including asthma is found among swimming pool workers and elite swimmers, although the causality of this association is unclear. The body of evidence in children indicates that asthma is not increased by swimming pool attendance. Overall, the available knowledge suggests that the health benefits of swimming outweigh the potential health risks of chemical contamination. However, the positive effects of swimming should be enhanced by minimising potential risks.

  9. [ATP pool and bioluminescence in psychrophilic bacteria Photobacterium phosphoreum].

    Science.gov (United States)

    Alekserova, L É; Alenina, K A; Efremenko, E N; Mazhul', M M; Piskunova, N F; Ismailov, A D

    2014-01-01

    Bioluminescence activity and ATP pool were investigated in the culture of psychrophilic bacteria Photobacterium phosphoreum collected-from the exponential and stationary growth phases, as well as immobilized in polyvinyl alcohol (PVA) cryogel. In liquid culture, ATP pool remained at an almost a constant level throughout the luminescence cycle (over 100 h). The ATP pool in the stationary-phase and PVA-immobilizedl cells remained constant throughout their incubation in the medium (over 200 h) and in 3% NaCl solution (over 100 h): Quantitative assessment of integral photon yield and ATP pool indicated that bioluminescence decay in growing or stationary cells was not caused by limitation by the energy substrates of the luciferase reaction. Kinetic and quantitative parameters of emission activity and ATP pool excluded the possibility of formation of the aldehyde substrate for luciferase via reduction of the relevant fatty acids in NADPH and ATP-dependent reductase reaction and its oxidation in the monooxygenase reaction. Our results indicate that the aliphatic aldehyde is not utilized in the process of light emission.

  10. Swimming pool attendance and hay fever rates later in life.

    Science.gov (United States)

    Kohlhammer, Y; Döring, A; Schäfer, T; Wichmann, H-E; Heinrich, J

    2006-11-01

    Exposure to chlorination by-products through swimming pool attendance showed adverse health effects on children. The aim of our study was to assess whether pool attendance in childhood would be related to higher rates of allergic diseases in adulthood, with special regard to hay fever. 2606 adults aged 35-74 years provided retrospectively collected information on swimming pool attendance and medical history, including data on atopic diseases. Information was assessed by a combination of a personal interview and a self-administered questionnaire. Logistic regression models were applied to study associations between hay fever and swimming pool attendance, adjusted for potentially relevant confounders, such as age, gender, region, education and smoking. Higher rates of hay fever could be seen when frequently exposed at school age (aOR: 1.74, 95% CI: 1.09-2.77), frequently exposed during the past 12 months (aOR: 1.32, 95% CI: 0.92-1.89) and ever exposed (aOR: 1.65, 95% CI: 0.98-2.78). Strongest associations were found for the youngest subjects and were dose-related to the extent of current and school-age pool attendance. Impaired integrity of the lung epithelial by exposure to chlorination by-products might facilitate a closer contact to allergens and therefore could result in higher rates of hay fever.

  11. Research progresses and future directions on pool boiling heat transfer

    Directory of Open Access Journals (Sweden)

    M. Kumar

    2015-12-01

    Full Text Available This paper reviews the previous work carried on pool boiling heat transfer during heating of various liquids and commodities categorized as refrigerants and dielectric fluids, pure liquids, nanofluids, hydrocarbons and additive mixtures, as well as natural and synthetic colloidal solutions. Nucleate pool boiling is an efficient and effective method of boiling because high heat fluxes are possible with moderate temperature differences. It is characterized by the growth of bubbles on a heated surface. It occurs during boiling of liquids for excess temperature ranging from 5 to 30 °C in various processes related to high vaporization of liquid for specific purposes like sugarcane juice heating for jaggery making, milk heating for khoa making, steam generation, cooling of electronic equipments, refrigeration and etcetera. In this review paper, pool boiling method during heating of liquids for specific purpose is depicted. It is inferred that enhancement in pool boiling heat transfer is a challenging and complex task. Also, recent research and use of various correlations for natural convection pool boiling is reviewed.

  12. Genomic and Transcriptomic Evidence for Carbohydrate Consumption among Microorganisms in a Cold Seep Brine Pool

    KAUST Repository

    Zhang, Weipeng

    2016-11-15

    The detailed lifestyle of microorganisms in deep-sea brine environments remains largely unexplored. Using a carefully calibrated genome binning approach, we reconstructed partial to nearly-complete genomes of 51 microorganisms in biofilms from the Thuwal cold seep brine pool of the Red Sea. The recovered metagenome-assembled genomes (MAGs) belong to six different phyla: Actinobacteria, Proteobacteria, Candidatus Cloacimonetes, Candidatus Marinimicrobia, Bathyarchaeota, and Thaumarchaeota. By comparison with close relatives of these microorganisms, we identified a number of unique genes associated with organic carbon metabolism and energy generation. These genes included various glycoside hydrolases, nitrate and sulfate reductases, putative bacterial microcompartment biosynthetic clusters (BMC), and F420H2 dehydrogenases. Phylogenetic analysis suggested that the acquisition of these genes probably occurred through horizontal gene transfer (HGT). Metatranscriptomics illustrated that glycoside hydrolases are among the most highly expressed genes. Our results suggest that the microbial inhabitants are well adapted to this brine environment, and anaerobic carbohydrate consumption mediated by glycoside hydrolases and electron transport systems (ETSs) is a dominant process performed by microorganisms from various phyla within this ecosystem.

  13. Human parvovirus PARV4 in plasma pools of Chinese origin.

    Science.gov (United States)

    Ma, Y-Y; Guo, Y; Zhao, X; Wang, Z; Lv, M-M; Yan, Q-P; Zhang, J-G

    2012-10-01

    Human parvovirus 4 (PARV4) is present in blood and blood products. As the presence and levels of PARV4 in Chinese source plasma pools have never been determined, we implemented real-time quantitative PCR to investigate the presence of PARV4 in source plasma pools in China. Results showed that 26·15% (51/195) of lots tested positive for PARV4. The amounts of DNA ranged from 2·83 × 10(3) copies/ml to 2·35×10(7) copies/ml plasma. The high level of PARV4 in plasma pools may pose a potential risk to recipients. Further studies on the pathogenesis of PARV4 are urgently required. © 2012 The Author(s). Vox Sanguinis © 2012 International Society of Blood Transfusion.

  14. Retakaful Pool Framework for Takaful Operators in Malaysia: Experts’ Opinions

    Directory of Open Access Journals (Sweden)

    Sheila Nu Nu Htay

    2014-05-01

    Full Text Available Malaysia is trying to position itself as a hub of Islamic finance and the government is promoting the Islamic finance industry. Takaful industry is rapidly increasing however, Retakaful industry is not catching up with the dynamic and complex needs of Takaful industry. In addition, the existence of the limited number of Retakaful operators causes Takaful operators not much bargaining power in negotiating the Retakaful agreement andTakaful operators have no option except to follow the requirements set by Retakaful operators. Thus, this study intends to propose framework forRetakaful pool mechanism by seeking the opinions of experts in Malaysia. By introducingRetakaful pool among the Takaful operators, it will create mutual and friendly business environment among them and reduce dependency on Retakaful operators. In addition, the experts believe that Retakaful pool will bring more benefit to the Takaful operators, compared to the traditional Retakaful method, i.e., engaging with Retakaful operators.

  15. Insertion sequences enrichment in extreme Red sea brine pool vent

    KAUST Repository

    Elbehery, Ali H. A.

    2016-12-03

    Mobile genetic elements are major agents of genome diversification and evolution. Limited studies addressed their characteristics, including abundance, and role in extreme habitats. One of the rare natural habitats exposed to multiple-extreme conditions, including high temperature, salinity and concentration of heavy metals, are the Red Sea brine pools. We assessed the abundance and distribution of different mobile genetic elements in four Red Sea brine pools including the world’s largest known multiple-extreme deep-sea environment, the Red Sea Atlantis II Deep. We report a gradient in the abundance of mobile genetic elements, dramatically increasing in the harshest environment of the pool. Additionally, we identified a strong association between the abundance of insertion sequences and extreme conditions, being highest in the harshest and deepest layer of the Red Sea Atlantis II Deep. Our comparative analyses of mobile genetic elements in secluded, extreme and relatively non-extreme environments, suggest that insertion sequences predominantly contribute to polyextremophiles genome plasticity.

  16. Does carbon dioxide pool or stream in the subsurface?

    CERN Document Server

    Cardoso, Silvana S S

    2014-01-01

    Pools of carbon dioxide are found in natural geological accumulations and in engineered storage in saline aquifers. It has been thought that once this CO2 dissolves in the formation water, making it denser, convection streams would transport it efficiently to depth, but this may not be so. Here, we assess the impact of natural chemical reactions between the dissolved CO2 and the rock formation on the convection streams in the subsurface. We show that, while in carbonate rocks the streaming of dissolved carbon dioxide persists, the chemical interactions in silicate-rich rocks may curb this transport drastically and even inhibit it altogether. New laboratory experiments confirm the curtailing of convection by reaction. Wide and narrow streams of dense carbon-rich water are shut-off gradually as reaction strength increases until all transport of the pooled carbon dioxide occurs by slow molecular diffusion. These results show that the complex fluid dynamic and kinetic interactions between pooled carbon dioxide an...

  17. Mathematical model and simulation of partial penetrated weld pool

    Institute of Scientific and Technical Information of China (English)

    2001-01-01

    The qualitative analysis on the behavior of partial penetrated weld pool transferring from pulsed peak current to base current in pulsed TIG welding is carried out in this paper. Based on the analysis results, the mathematical models for 3D liquid surface shape of partial penetrated weld pool in pulsed TIG welding are created including surface potential energy model, gravitational energy model and volumetric potential energy. The numerical simulation with these models and the experiments on low carbon steel are carried out using the software Surface Evolver. The simulation results and model are then amended with experimental results. Two important characteristic quantities, the liquid metal coverage ratio and the stripping width of liquid metal, are put forward in this paper, which paves a way for further weld pool full penetration control.

  18. Weld pool image sensor for pulsed MIG welding

    Institute of Scientific and Technical Information of China (English)

    Liu Pengfei; Sun Zhenguo; Huang Cao; Chen Qiang

    2008-01-01

    Visual image sensor is developed to detect the weld pool images in pulsed MIG welding. An exposure controller, which is composed of the modules of the voltage transforming, the exposure parameters presetting, the complex programmable logic device (CPLD) based logic controlling, exposure signal processing, the arc state detecting, the mechanical iris driving and so on, is designed at first. Then, a visual image sensor consists of an ordinary CCD camera, optical system and exposure controller is established. The exposure synchronic control logic is described with very-high-speed integrated circuit hardware description language (VHDL) and programmed with CPLD, to detect weld pool images at the stage of base current in pulsed MIG welding. Finally, both bead on plate welding and V groove filled welding are carried out, clear and consistent weld pool images are acquired.

  19. Models for Pooled Time-Series Cross-Section Data

    Directory of Open Access Journals (Sweden)

    Lawrence E Raffalovich

    2015-07-01

    Full Text Available Several models are available for the analysis of pooled time-series cross-section (TSCS data, defined as “repeated observations on fixed units” (Beck and Katz 1995. In this paper, we run the following models: (1 a completely pooled model, (2 fixed effects models, and (3 multi-level/hierarchical linear models. To illustrate these models, we use a Generalized Least Squares (GLS estimator with cross-section weights and panel-corrected standard errors (with EViews 8 on the cross-national homicide trends data of forty countries from 1950 to 2005, which we source from published research (Messner et al. 2011. We describe and discuss the similarities and differences between the models, and what information each can contribute to help answer substantive research questions. We conclude with a discussion of how the models we present may help to mitigate validity threats inherent in pooled time-series cross-section data analysis.

  20. A new kind of Molotov? Gasoline-pool chlorinator mixtures.

    Science.gov (United States)

    Hutches, Katherine; Lord, James

    2012-07-01

    This paper investigates the reaction between pool chlorinators and gasoline. In particular, the propensity for self-ignition and the resulting chemical products were studied. An organic pool chlorinator was combined with gasoline in varying proportions in an attempt to form a hypergolic mixture. None of the combinations resulted in self-ignition, but larger quantities of chlorinator produced vigorous light-colored smoke and a solid mass containing isocyanuric acid and copper chloride. Additionally, the chlorinating abilities of different commercially available pool chlorinators were explored. When Ca(ClO)(2) and sodium dichloro-s-triazinetrione-based chlorinators were used, the presence of gasoline was still visible after 10 days, despite limited chlorination. The trichloro-s-triazinetrione-based chlorinator, however, caused efficient chlorination of the C(2)- and C(3)-alkylbenzenes, making gasoline no longer identifiable.

  1. Inferring local ecological processes amid species pool influences

    DEFF Research Database (Denmark)

    Lessard, Jean-Philippe; Belmaker, Jonathan; Myers, Jonathan A.

    2012-01-01

    Resolving contingencies in community ecology requires comparative studies of local communities along broad-scale environmental gradients and in different biogeographic regions. However, comparisons of local ecological processes among regions require a synthetic understanding of how the species pool...... of potential community members influences the structure of ecological communities. Here, we outline an integrative approach for quantifying local ecological processes while explicitly accounting for species pool influences. Specifically, we highlight the utility of combining geographically replicated local...... studies, null models of community structure, and ecologically explicit definitions of the species pool as a means to compare predominant ecological processes among regions. By uniting concepts and tools from community ecology and macroecology, this approach might facilitate synthesis and resolve many...

  2. Inferring local ecological processes amid species pool influences

    DEFF Research Database (Denmark)

    Lessard, Jean-Philippe; Belmaker, Jonathan; Myers, Jonathan A.;

    2012-01-01

    studies, null models of community structure, and ecologically explicit definitions of the species pool as a means to compare predominant ecological processes among regions. By uniting concepts and tools from community ecology and macroecology, this approach might facilitate synthesis and resolve many......Resolving contingencies in community ecology requires comparative studies of local communities along broad-scale environmental gradients and in different biogeographic regions. However, comparisons of local ecological processes among regions require a synthetic understanding of how the species pool...... of potential community members influences the structure of ecological communities. Here, we outline an integrative approach for quantifying local ecological processes while explicitly accounting for species pool influences. Specifically, we highlight the utility of combining geographically replicated local...

  3. Features of molten pool free surface in laser processing

    Institute of Scientific and Technical Information of China (English)

    2001-01-01

    On the basis of static characteristics of free surface of molten pools in laser processing, starting with the change of surface tension, the uniform numerical models are developed for both the liquid and solid regions of metals by applying the enthalpy source method and the porous region model. The flow and heat transfer characteristics in the molten pools and the distribution of surface tension on free surface are disclosed. The shape of free surface is analyzed by considering the static forces on the free surface and by combining with the calculated results of the molten pool. The model is applied to analyzing the laser processing of AISI 304 stainless steel, and the effects of different processing tech nics and material properties on shaping of free surface are discussed.

  4. Improving video foreground segmentation with an object-like pool

    Science.gov (United States)

    Cheng, Xiaoliu; Lv, Wei; Liu, Huawei; You, Xing; Li, Baoqing; Yuan, Xiaobing

    2015-03-01

    Foreground segmentation in video frames is quite valuable for object and activity recognition, while the existing approaches often demand training data or initial annotation, which is expensive and inconvenient. We propose an automatic and unsupervised method of foreground segmentation given an unlabeled and short video. The pixel-level optical flow and binary mask features are converted into the normal probabilistic superpixels, therefore, they are adaptable to build the superpixel-level conditional random field which aims to label the foreground and background. We exploit the fact that the appearance and motion features of the moving object are temporally and spatially coherent in general, to construct an object-like pool and background-like pool via the previous segmented results. The continuously updated pools can be regarded as the "prior" knowledge of the current frame to provide a reliable way to learn the features of the object. Experimental results demonstrate that our approach exceeds the current methods, both qualitatively and quantitatively.

  5. Study of Fungal Contamination of Indoor Public Swimming Pools

    Directory of Open Access Journals (Sweden)

    H Nanbakhsh

    2004-06-01

    Full Text Available Fungi are found in different environments with variable distribution patterns depending on various factors. The aim of this study was determination of fungal contaminants in public swimming pools in Uromia, Iran. The fungal contaminations of four indoor swimming pools were studied by using membrane filtration and swab sampling method. Samples were collected by a manual plastic pump, in a 200 ml sterilized bottle. All samples were collected within 2 hours and then transferred to the laboratory. A total of 384 samples including water and environmental surfaces were collected and tested for the presence of fungi in different seasons within one year. In addition to the above information, some physical and chemical parameters such as temperature, residual chlorine, pH, turbidity of water and the number of swimmers were studied. Findings indicated that, the average temperature, pH, residual chlorine and turbidity of water in the swimming pools within one year were: 29.9°C, 8.1, 0.6 ppm and 0.8 NTU respectively. The most common fungi recovered were as follows: Asepergillus Spp. 56.25%, Candida spp. 22.9%, Rhizopus spp. 4.16 %, other filamentous fungi 16.6% and other yeast species 2.8%. The fungi such as Alternaria, Cladosporium, Philophora and Trichophyton mentagrophytis were isolated from dressing room, bathing room and other places out of pools. According to these results and previous studies on pools, it has been indicated that contamination by fungi in the pools is not significant in water and environment. Presence of dermatophytic fungus from dressing room is probably due to human contact.

  6. The pool chlorine hypothesis and asthma among boys.

    LENUS (Irish Health Repository)

    Cotter, A

    2012-01-31

    Swimming pool sanitation has largely been concerned with the microbiological quality of pool water, which is normally treated using a number of chlorine products. Recent studies have pointed to the potential hazards of chlorine by-products to the respiratory epithelium, particularly in indoor, poorly ventilated, pools. The aim of our study was to elucidate whether chronic exposure to indoor chlorinated swimming pools was associated with an increased likelihood of the development of asthma in boys. METHODS: The subjects were boys aged between 6 and 12 years. Data was collected by means of parental responses to a standardized asthma questionnaire (ISAAC: International Study of Asthma and Allergies in Childhood), supplemented with additional questions regarding frequency of attendance, number of years attendance, whether the child is a swimming team member. The questionnaire return rate was 71\\/% (n = 121). 23 boys were excluded on the basis that they had asthma before they started swimming (n = 97). There was a significant association between number of years a boy had been swimming and the likelihood of wheezing in the last 12 months (p = 0.009; OR = 1.351; 95% CI = 1.077-1.693) and diagnosed asthma (p = 0.046; OR = 1.299; 95% CI = 1.004-1.506). The greater the number the number of years a boy had been attending an indoor, chlorinated pool, the greater the likelihood of wheezing in the last 12 months or "had asthma". Age, parental smoking habits and being a swimming team member had no association with any of the asthma variables examined. Swimming pool attendance may be a risk factor in asthma in boys.

  7. Temperature dependent fission product removal efficiency due to pool scrubbing

    Energy Technology Data Exchange (ETDEWEB)

    Uchida, Shunsuke, E-mail: suchida@iae.or.jp [Institute of Applied Energy, 1-14-2, Nishi-Shimbashi, Minato-ku, Tokyo 105-0003 (Japan); Itoh, Ayumi; Naitoh, Masanori; Okada, Hidetoshi; Suzuki, Hiroyuki [Institute of Applied Energy, 1-14-2, Nishi-Shimbashi, Minato-ku, Tokyo 105-0003 (Japan); Hanamoto, Yukio [KAKEN, Inc., 1044, Hori-machi, Mito 310-0903 (Japan); Osakabe, Masahiro [Tokyo University of Marine Science & Technology, Koutou-ku, Tokyo 135-8533 (Japan); Fujikawa, Masahiro [Japan Broadcasting Corporation, 2-2-1, Jinnan, Shibuya-ku, Tokyo 150-8001 (Japan)

    2016-03-15

    Highlights: • Pool temperature effects on the FP removal were not clearly concluded in the previous publications. • It was confirmed that the removal efficiency decreased with temperature around the boiling point. • A modified empirical formula for FP removal was proposed as a function of sub-cooling temperature. • DF could be predicted with an accuracy within a factor of 2 with the proposed formula. - Abstract: The wet-well of boiling water reactors plays important roles not only to suppress the pressure in the primary containment vessel due to steam scrubbing effects during severe accidents but also to mitigate release of radioactive fission products (FP), aerosols and particulates, into the environment. The effects of steam scrubbing in the wet-well on FP removal have been well studied and reported by changing major parameters determining the removal efficiencies, e.g., aerosol diameters, submergence (depth of scrubbing nozzles) and steam/non-condensable gas volume fraction. Unfortunately, the effects of pool temperature on the FP removal were not clearly concluded in the previous publications, though it would be easily expected that boiling in the pool resulted in reduced aerosol removal efficiency. In order to determine the temperature effects on FP removal efficiency, amounts of cesium in aerosols released from scrubbing pool were measured by changing pool temperature in mini and medium scale scrubbing experiments, and then, it was confirmed that the removal efficiency clearly decreased with temperature around the boiling point. Then, a modified empirical formula to express the FP removal around the boiling point temperature was proposed as a function of sub-cooling temperature by applying the effective steam volume fraction, which was designated as the volume ratio of condensed steam in the pool versus the sum of input steam and non-condensable gas. By comparing the measured removal efficiency with the calculated, it was validated that the

  8. 25 CFR 1000.23 - How is a Tribe/Consortium admitted to the applicant pool?

    Science.gov (United States)

    2010-04-01

    ... 25 Indians 2 2010-04-01 2010-04-01 false How is a Tribe/Consortium admitted to the applicant pool... Admission into the Applicant Pool § 1000.23 How is a Tribe/Consortium admitted to the applicant pool? To be considered for admission in the applicant pool, a Tribe/Consortium must submit an application to the...

  9. 33 CFR 207.170 - Federal Dam, Oklawaha River, Moss Bluff, Fla.; pool level.

    Science.gov (United States)

    2010-07-01

    ... Bluff, Fla.; pool level. 207.170 Section 207.170 Navigation and Navigable Waters CORPS OF ENGINEERS..., Moss Bluff, Fla.; pool level. (a) The level of the pool shall normally be maintained at elevation 56.5 feet above sea level: Provided, That the level of the pool may be raised to not exceeding 58.5...

  10. 33 CFR 207.60 - Federal Dam, Hudson River, Troy, N.Y.; pool level.

    Science.gov (United States)

    2010-07-01

    ..., N.Y.; pool level. 207.60 Section 207.60 Navigation and Navigable Waters CORPS OF ENGINEERS..., N.Y.; pool level. (a) Whenever the elevation of the pool created by the Federal dam at Troy, N.Y... automatically when the pool level rises to an elevation of +18.5 feet mean sea level, and conform in...

  11. Pool sajandit geenilugu, pikk tee veel käia / Tiit Kändler

    Index Scriptorium Estoniae

    Kändler, Tiit, 1948-

    2003-01-01

    Vt. ka Koit 22. apr., lk. 7 pealkirja all: Tänavu täitub pool sajandit geenilugu. Võrumaa Teataja 26. apr., lk. 7 pealkirja all: Pool sajandit geeniuuringuid. Inimese genoom on lõplikult järjestatud. Vooremaa 29. apr., lk. 5 pealkirja all: Pool sajandit geenilugu. Virumaa Teataja 23. juuli, lk. 7 pealkirja all: Pool sajandit geenilugu

  12. Cool Water Formation and Trout Habitat Use in a Deep Pool in the Sierra Nevada, California

    Science.gov (United States)

    KATHLEEN R. MATTHEWS; NEIL H. BERG; AZUMA DAVID L.

    1994-01-01

    We documented temperature stratification in a deep bedrock pool in the North Fork of the American River, described the diel movement of rainbow trout Oncorhynchus mykiss and brown trout Salmo trutta. and determined whether these trout used cooler portions of the pool.From July 30 to October 10, 1992, the main study pool and an adjacent pool were stratified(temperature...

  13. Measure Guideline. Replacing Single-Speed Pool Pumps with Variable Speed Pumps for Energy Savings

    Energy Technology Data Exchange (ETDEWEB)

    Hunt, A. [Building Media and the Building America Retrofit Alliance (BARA), Wilmington, DE (United States); Easley, S. [Building Media and the Building America Retrofit Alliance (BARA), Wilmington, DE (United States)

    2012-05-01

    This measure guideline evaluates potential energy savings by replacing traditional single-speed pool pumps with variable speed pool pumps, and provides a basic cost comparison between continued uses of traditional pumps verses new pumps. A simple step-by-step process for inspecting the pool area and installing a new pool pump follows.

  14. Measure Guideline: Replacing Single-Speed Pool Pumps with Variable Speed Pumps for Energy Savings

    Energy Technology Data Exchange (ETDEWEB)

    Hunt, A.; Easley, S.

    2012-05-01

    The report evaluates potential energy savings by replacing traditional single-speed pool pumps with variable speed pool pumps, and provide a basic cost comparison between continued uses of traditional pumps verses new pumps. A simple step-by-step process for inspecting the pool area and installing a new pool pump follows.

  15. Pooled credit plans offer financing alternatives to independent hospitals.

    Science.gov (United States)

    Ziglar, J W

    1983-06-01

    Using the collective financial strength of a group of not-for-profit health care institutions to finance capital needs has become an increasingly popular concept. This article discusses the significant advantages and disadvantages of the concept, provides an overview of the development of multi-institutional financing arrangements, and describes the generic forms of credit poolings. It also outlines three broad areas of inquiry to be explored by potential participants before entering a pooled credit arrangement: the relationships among participants, the availability of assets to support debt, and corporate planning and strategy.

  16. The CERN Electronics Pool moves to Building 13

    CERN Multimedia

    PH Department

    2010-01-01

    After 32 years in Building 4 R‐050, the CERN Electronics Pool will re‐open in Building 13 R009 on Monday 13 December at 10:00 As of this date, you will be able to come and choose the instruments you want: oscilloscopes and other measurement instruments, low and high voltage power supplies, modular instrumentation, etc. Please do not hesitate to consult the catalogue and give us any input you may have. The CERN Electronics Pool operates on a self-service basis (with a CERN budget code) and is available for any help you may need.

  17. Molten pool and temperature field in CO2 laser welding

    Institute of Scientific and Technical Information of China (English)

    Duan Aiqin; Chen Li; Wang Yajun; Hu Lunji

    2006-01-01

    Two measuring methods, high-speed camera and optical monitoring system, were used to study processes of laser welding. Molten pool, cooling time and temperature field were analyzed based on real measured images and optical signal data. The results show that the width of molten pool is almost equal to the width of weld, and length is about 7.8 mm. The solidification time is about 0. 5 s and the temperature gradient is great, so HAZ is very small. The method and results will be of benefit to build the relationship between welding parameters and microstructure.

  18. Criticality safety calculations of the Soreq research reactor storage pool

    Energy Technology Data Exchange (ETDEWEB)

    Caner, M.; Hirshfeld, H.; Nagler, A.; Silverman, I.; Bettan, M. [Soreq Nuclear Research Center, Yavne 81800 (Israel); Levine, S.H. [Penn State University, University Park 16802 (United States)

    2001-07-01

    The IRR-l spent fuel is to be relocated in a storage pool. The present paper describes the actual facility and summarizes the Monte Carlo criticality safety calculations. The fuel elements are to be placed inside cadmium boxes to reduce their reactivity. The fuel element is 7.6 cm by 8.0 cm in the horizontal plane. The cadmium box is effectively 9.7 cm by 9.7 cm, providing significant water between the cadmium and the fuel element. The present calculations show that the spent fuel storage pool is criticality safe even for fresh fuel elements. (author)

  19. ITC-Euromaster Course Pool for AEC Engineers

    Directory of Open Access Journals (Sweden)

    Andrej Tibaut

    2013-05-01

    Full Text Available The paper describes the ITC-Euromaster Course Pool. It is a concept that powers e-learning environment for conducting an international Master’s level programme in information technologies for Architecture, Engineering and Construction (AEC. The e-learning environment integrates resources (units of study, learning management system, virtual classroom, teachers and students from five European universities. In the paper following aspects of the system are presented: concept and methodology of the Course Pool, technology for e-learning and evaluation results.

  20. Analysis of swimming pool accidents resulting in spinal cord injury.

    Science.gov (United States)

    Green, B A; Gabrielsen, M A; Hall, W J; O'Heir, J

    1980-04-01

    This paper is a summary of a study of 72 cases of swimming-pool accidents resulting in serious injuries with the potential of permanent disability. Sixty-four of the 72 cases resulted in spinal cord injuries, 57 of which involved quadriplegic lesions. The authors observed that the majority of these injuries resulted from a lack of good judgement and common sense rather than from intoxication or pool structural deficiencies. Also of note was the lack of appropriate first-aid and extrication rendered, as well as the absence of uniform treatment and care received by the majority of the patients.

  1. Cryptosporidium and Giardia in Swimming Pools, Atlanta, Georgia

    Centers for Disease Control (CDC) Podcasts

    2008-05-29

    In this podcast, Dan Rutz speaks with Dr. Joan Shields, a guest researcher with the Healthy Swimming Program at CDC, about an article in June 2008 issue of Emerging Infectious Diseases reporting on the results of a test of swimming pools in the greater Atlanta, Georgia area. Dr. Shields tested 160 pools in metro Atlanta last year for Cryptosporidium and Giardia. These germs cause most recreational water associated outbreaks.  Created: 5/29/2008 by Emerging Infectious Diseases.   Date Released: 5/29/2008.

  2. Price manipulation in a market impact model with dark pool

    OpenAIRE

    Florian Kl\\"ock; Alexander Schied; Yuemeng Sun

    2012-01-01

    For a market impact model, price manipulation and related notions play a role that is similar to the role of arbitrage in a derivatives pricing model. Here, we give a systematic investigation into such regularity issues when orders can be executed both at a traditional exchange and in a dark pool. To this end, we focus on a class of dark-pool models whose market impact at the exchange is described by an Almgren--Chriss model. Conditions for the absence of price manipulation for all Almgren--C...

  3. Microarray-based estimation of SNP allele-frequency in pooled DNA using the Langmuir kinetic model

    Directory of Open Access Journals (Sweden)

    Ye Bang-Ce

    2008-12-01

    Full Text Available Abstract Background High throughput genotyping of single nucleotide polymorphisms (SNPs for genome-wide association requires technologies for generating millions of genotypes with relative ease but also at a reasonable cost and with high accuracy. In this work, we have developed a theoretical approach to estimate allele frequency in pooled DNA samples, based on the physical principles of DNA immobilization and hybridization on solid surface using the Langmuir kinetic model and quantitative analysis of the allelic signals. Results This method can successfully distinguish allele frequencies differing by 0.01 in the actual pool of clinical samples, and detect alleles with a frequency as low as 2%. The accuracy of measuring known allele frequencies is very high, with the strength of correlation between measured and actual frequencies having an r2 = 0.9992. These results demonstrated that this method could allow the accurate estimation of absolute allele frequencies in pooled samples of DNA in a feasible and inexpensive way. Conclusion We conclude that this novel strategy for quantitative analysis of the ratio of SNP allelic sequences in DNA pools is an inexpensive and feasible alternative for detecting polymorphic differences in candidate gene association studies and genome-wide linkage disequilibrium scans.

  4. Characteristics of carbonate gas pool and multistage gas pool formation history of Hetianhe gas field, Tarim Basin, Northwest China

    Institute of Scientific and Technical Information of China (English)

    2002-01-01

    Hetianhe is a big carbonate gas field which is found and demonstrated in the period of "Chinese National Ninth 5-Year Plan". The proved reserve of Hetianhe gas field is over 600×108 m3. Its main producing layers are Carboniferous bioclastic limestone and Ordovician carbonate composed of buried hill. The former is stratified gas pool with water around its side, and the latter is massive gas pool with water in its bottom. The gases in the gas pools belong to dry gases with normal temperature and pressure systems. Based on the correlation of gas and source rock, the gases are mainly generated from Cambrian source rocks. According to the researches on source rock and structure evolution, and the observations on the thin section to reservoir bitumen and the studies on homogenization temperature of fluid inclusions, the gas pool has been identified and divided into three formation periods. The first is Late Caledonian when the oil generated from the Cambrian source rocks and migrated along faults, as a form of liquid facies into Ordovician carbonate reservoir and accumulated there. After that, the crust uplifted, the oil reservoir had been destroyed. The second is Late Hercynian when condensate gases generated from the Cambrian source rocks and migrated into Ordovician reservoir, as a form of liquid facies. Since the fractures had reached P strata, so the trap might have a real poor preservation condition, and the large-scale gas pool formation had not happened. The third gas reservoir formation period occurred in Himalaya. The fractures on both sides of Hetianhe gas field developed violently under the forces of compression, and thus the present fault horst formed. The dry gases generated from Cambrian source rocks and migrated upwards as the form of gas facies into Ordovician and Carboniferous reservoirs, and the large gas pool as discovered at present was formed finally.

  5. Calibration of the Standards and Calibration Laboratory`s Co{sup 60} Radiation Pool

    Energy Technology Data Exchange (ETDEWEB)

    Wirtenson, G.R.; White, R.H.

    1993-01-01

    The authors report measurements of dose rates at various locations in the LLNL Standards and Calibrations Laboratory`s Co{sup 60} Radiation Pool. Plots show the dependence of dose rate on radius near the bottom of the pool and the dependence of dose rate on height at a fixed distance from the pool center. The effect of varying sample location within the pool`s dry-well was also investigated.

  6. Genes and Gene Therapy

    Science.gov (United States)

    ... correctly, a child can have a genetic disorder. Gene therapy is an experimental technique that uses genes to ... or prevent disease. The most common form of gene therapy involves inserting a normal gene to replace an ...

  7. Solidification microstructures in single-crystal stainless steel melt pools

    Energy Technology Data Exchange (ETDEWEB)

    Sipf, J.B.; Boatner, L.A.; David, S.A.

    1994-03-01

    Development of microstructure of stationary melt pools of oriented stainless steel single crystals (70%Fe-15%Ni-15%Cr was analyzed. Stationary melt pools were formed by electron-beam and gas-tungsten-arc heating on (001), (011), and (111) oriented planes of the austenitic, fcc-alloy crystals. Characterization and analysis of resulting microstructure was carried out for each crystallographic plane and welding method. Results showed that crystallography which favors ``easy growth`` along the <100> family of directions is a controlling factor in the microstructural formation along with the melt-pool shape. The microstructure was found to depend on the melting method, since each method forms a unique melt-pool shape. These results are used in making a three-dimensional reconstruction of the microstructure for each plane and melting method employed. This investigation also suggests avenues for future research into the microstructural properties of electron-beam welds as well as providing an experimental basis for mathematical models for the prediction of solidification microstructures.

  8. Dynamic behavior of the weld pool in stationary GMAW

    Directory of Open Access Journals (Sweden)

    Soulié F.

    2010-06-01

    Full Text Available Because hump formation limits welding productivity, better understanding of the humping phenomena during the welding process is needed to access to process modifications that decrease the tendency for hump formation and then allow higher productivity welding. From a physical point of view, the mechanism identified is the Rayleigh instability initiated by strong surface tension gradient which induces a variation of kinetic flow. But the causes of the appearance of this instability are not yet well explained. Because of the phenomena complex and multi-physics, we chose in first step to conduct an analysis of the characteristic times involved in weld pool in pulsed stationary GMAW. The goal is to study the dynamic behavior of the weld pool, using our experimental multi physics approach. The experimental tool and methodology developed to understand these fast phenomena are presented first: frames acquisition with high speed digital camera and specific optical devices, numerical library. The analysis of geometric parameters of the weld pool during welding operation are presented in the last part: we observe the variations of wetting angles (or contact lines angles, the base and the height of the weld pool (macro-drop versus weld time.

  9. Rebound of continuous droplet streams from an immiscible liquid pool

    Science.gov (United States)

    Doak, William J.; Laiacona, Danielle M.; German, Guy K.; Chiarot, Paul R.

    2016-05-01

    We report on the rebound of high velocity continuous water droplet streams from the surface of an immiscible oil pool. The droplets have diameters and velocities of less than 90 μm and 15 m/s, respectively, and were created at frequencies up to 60 kHz. The impact and rebound of continuous droplet streams at this scale and velocity have been largely unexplored. This regime bridges the gap between single drop and jet impacts. The impinging droplets create a divot at the surface of the oil pool that had a common characteristic shape across a wide-range of droplet and oil properties. After impact, the reflected droplets maintain the same uniformity and periodicity of the incoming droplets but have significantly lower velocity and kinetic energy. This was solely attributed to the generation of a flow induced in the viscous oil pool by the impacting droplets. Unlike normally directed impact of millimeter-scale droplets with a solid surface, our results show that an air film does not appear to be maintained beneath the droplets during impact. This suggests direct contact between the droplets and the surface of the oil pool. A ballistic failure limit, correlated with the Weber number, was identified where the rebound was suppressed and the droplets were driven through the oil surface. A secondary failure mode was identified for aperiodic incoming streams. Startup effects and early time dynamics of the rebounding droplet stream were also investigated.

  10. Gamification is broken. An interview with Steven Poole

    Directory of Open Access Journals (Sweden)

    Marco Benoit Carbone

    2012-05-01

    Full Text Available Steven Poole is the author of Trigger Happy (2000. New York, NY: Arcade Publish, Unspeak (2006. New York, NY: Grove Press, and You Aren’t What You Eat (2012. In press. He has written extensively on books, culture, and videogames for The Guardian and other publications.

  11. Convective cooling in a pool-type research reactor

    Science.gov (United States)

    Sipaun, Susan; Usman, Shoaib

    2016-01-01

    A reactor produces heat arising from fission reactions in the nuclear core. In the Missouri University of Science and Technology research reactor (MSTR), this heat is removed by natural convection where the coolant/moderator is demineralised water. Heat energy is transferred from the core into the coolant, and the heated water eventually evaporates from the open pool surface. A secondary cooling system was installed to actively remove excess heat arising from prolonged reactor operations. The nuclear core consists of uranium silicide aluminium dispersion fuel (U3Si2Al) in the form of rectangular plates. Gaps between the plates allow coolant to pass through and carry away heat. A study was carried out to map out heat flow as well as to predict the system's performance via STAR-CCM+ simulation. The core was approximated as porous media with porosity of 0.7027. The reactor is rated 200kW and total heat density is approximately 1.07+E7 Wm-3. An MSTR model consisting of 20% of MSTR's nuclear core in a third of the reactor pool was developed. At 35% pump capacity, the simulation results for the MSTR model showed that water is drawn out of the pool at a rate 1.28 kg s-1 from the 4" pipe, and predicted pool surface temperature not exceeding 30°C.

  12. Mitochondria as determinant of nucleotide pools and chromosomal stability

    DEFF Research Database (Denmark)

    Madsen, Claus Desler; Munch-Petersen, Birgitte; Stevnsner, Tinna

    2007-01-01

    Mitochondrial function plays an important role in multiple human diseases and mutations in the mitochondrial genome have been detected in nearly every type of cancer investigated to date. However, the mechanism underlying the interrelation is unknown. We used human cell lines depleted of mitochon......Mitochondrial function plays an important role in multiple human diseases and mutations in the mitochondrial genome have been detected in nearly every type of cancer investigated to date. However, the mechanism underlying the interrelation is unknown. We used human cell lines depleted...... of mitochondrial DNA as models and analyzed the outcome of mitochondrial dysfunction on major cellular repair activities. We show that the deoxyribonucleoside triphosphate (dNTP) pools are affected, most prominently we detect a 3-fold reduction of the dTTP pool when normalized to the number of cells in S......-phase. It is known that imbalanced dNTP pools are mutagenic and in accordance, we show that mitochondrial dysfunction results in chromosomal instability, which can explain its role in tumor development. We did not find any straightforward correlation between ATP levels and dNTP pools in cells with defective...

  13. Mitochondria as determinant of nucleotide pools and chromosomal stability

    Energy Technology Data Exchange (ETDEWEB)

    Desler, Claus; Munch-Petersen, Birgitte [Department of Science, Systems and Models, Roskilde University, 4000 Roskilde (Denmark); Stevnsner, Tinna [Department of Molecular Biology, University of Aarhus, 8000 Aarhus (Denmark); Matsui, Sei-Ichi; Kulawiec, Mariola; Singh, Keshav K. [Department og Cancer Genetics, Roswell Park Cancer Institute, Buffalo, NY 14263 (United States); Rasmussen, Lene Juel [Department of Science, Systems and Models, Roskilde University, 4000 Roskilde (Denmark)], E-mail: ljr@ruc.dk

    2007-12-01

    Mitochondrial function plays an important role in multiple human diseases and mutations in the mitochondrial genome have been detected in nearly every type of cancer investigated to date. However, the mechanism underlying the interrelation is unknown. We used human cell lines depleted of mitochondrial DNA as models and analyzed the outcome of mitochondrial dysfunction on major cellular repair activities. We show that the deoxyribonucleoside triphosphate (dNTP) pools are affected, most prominently we detect a 3-fold reduction of the dTTP pool when normalized to the number of cells in S-phase. It is known that imbalanced dNTP pools are mutagenic and in accordance, we show that mitochondrial dysfunction results in chromosomal instability, which can explain its role in tumor development. We did not find any straightforward correlation between ATP levels and dNTP pools in cells with defective mitochondrial activity. Our results suggest that mitochondria are central players in maintaining genomic stability and in controlling essential nuclear processes such as upholding a balanced supply of nucleotides.

  14. Book by Book, College Libraries Pool Their Collected Wisdom

    Science.gov (United States)

    Wills, Eric

    2006-01-01

    The Orbis Cascade Alliance is a consortium of 35 college libraries in Washington State and Oregon which allows the libraries to pool their resources in pursuit of what librarians call collaborative collection development. In its scope and diversity, Orbis Cascade is unusual among groups of colleges that collaboratively buy and share books, with…

  15. Theoretical assessment of particle generation from sodium pool fires

    Energy Technology Data Exchange (ETDEWEB)

    Garcia, M., E-mail: monica.gmartin@ciemat.es [CIEMAT, Unit of Nuclear Safety Research, Av. Complutense, 40, 28040 Madrid (Spain); Herranz, L.E., E-mail: luisen.herranz@ciemat.es [CIEMAT, Unit of Nuclear Safety Research, Av. Complutense, 40, 28040 Madrid (Spain); Kissane, M.P., E-mail: Martin.KISSANE@oecd.org [Nuclear Safety Technology and Regulation Division, OECD Nuclear Energy Agency (NEA), 46 quai Alphonse Le Gallo, 92100 Boulogne-Billancourt (France)

    2016-12-15

    Highlights: • Development of particle generation model for sodium-oxides aerosol formation. • Development of partially validated numerical simulations to build up maps of saturation ratio. • Nucleation of supersaturated vapours as relevant source of aerosols over sodium pools. • Prediction of high concentrations of primary particles in the combustion zone. - Abstract: Potential sodium discharge in the containment during postulated Beyond Design Basis Accidents (BDBAs) in Sodium-cooled Fast Reactors (SFRs) would have major consequences for accident development in terms of energetics and source term. In the containment, sodium vaporization and subsequent oxidation would result in supersaturated oxide vapours that would undergo rapid nucleation creating toxic aerosols. Therefore, modelling this vapour nucleation is essential to proper source term assessment in SFRs. In the frame of the EU-JASMIN project, a particle generation model to calculate the particle generation rate and their primary size during an in-containment sodium pool fire has been developed. Based on a suite of individual models for sodium vaporization, oxygen natural circulation (3D modelling), sodium-oxygen chemical reactions, sodium-oxides-vapour nucleation and condensation, its consistency has been partially validated by comparing with available experimental data. As an outcome, large temperature and vapour concentration gradients set over the sodium pool have been found which result in large particle concentrations in the close vicinity of the pool.

  16. Can Human Subject Pool Participation Benefit Sociology Students?

    Science.gov (United States)

    Chin, Lynn Gencianeo; Gibbs Stayte, Patricia

    2015-01-01

    Instructors at non-research institutions are less able to expose their students to research firsthand. Utilizing human subject pools (HSPs) in class may be a solution. Given that HSPs tend to be used in introduction to psychology classes at research institutions, we examine a community college HSP to answer three questions: (1) Do community…

  17. Molten pool characterization of laser lap welded copper and aluminum

    Science.gov (United States)

    Xue, Zhiqing; Hu, Shengsun; Zuo, Di; Cai, Wayne; Lee, Dongkyun; Elijah, Kannatey-Asibu, Jr.

    2013-12-01

    A 3D finite volume simulation model for laser welding of a Cu-Al lap joint was developed using ANSYS FLUENT to predict the weld pool temperature distribution, velocity field, geometry, alloying element distribution and transition layer thickness—all key attributes and performance characteristics for a laser-welded joint. Melting and solidification of the weld pool was simulated with an enthalpy-porosity formulation. Laser welding experiments and metallographic examination by SEM and EDX were performed to investigate the weld pool features and validate the simulated results. A bowl-shaped temperature field and molten pool, and a unique maximum fusion zone width were observed near the Cu-Al interface. Both the numerical simulation and experimental results indicate an arch-shaped intermediate layer of Cu and Al, and a gradual transition of Cu concentration from the aluminum plate to the copper plate with high composition gradient. For the conditions used, welding with Cu on top was found to result in a better weld joint.

  18. Pool Rules: A Survival Guide for Parents and Children

    Science.gov (United States)

    Grosse, Susan J.

    2008-01-01

    In most sports and physical activities rules are present to facilitate participation, outlining courtesy during play as well as establishing guidelines for keeping any competition fair. In contrast, rules for appropriate behavior in swimming pools serve a much more important purpose--that of ensuring health and safety for all participants.…

  19. Initial surface deformations during impact on a liquid pool

    NARCIS (Netherlands)

    Bouwhuis, W.; Hendrix, M.H.W.; van der Meer, Roger M.; Snoeijer, Jacobus Hendrikus

    2015-01-01

    A tiny air bubble can be entrapped at the bottom of a solid sphere that impacts onto a liquid pool. The bubble forms due to the deformation of the liquid surface by a local pressure buildup inside the surrounding gas, as also observed during the impact of a liquid drop on a solid wall. Here, we

  20. Using pool noodles to teach mitosis and meiosis.

    Science.gov (United States)

    Locke, John; McDermid, Heather E

    2005-05-01

    Although mitosis and meiosis are fundamental to understanding genetics, students often find them difficult to learn. We suggest using common "pool noodles" as teaching aids to represent chromatids in classroom demonstrations. Students use these noodles to demonstrate the processes of synapsis, segregation, and recombination. Student feedback has been overwhelmingly positive.