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Sample records for anopheline divergence time

  1. Complete mtDNA genomes of Anopheles darlingi and an approach to anopheline divergence time

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    James Anthony A

    2010-05-01

    Full Text Available Abstract Background The complete sequences of the mitochondrial genomes (mtDNA of members of the northern and southern genotypes of Anopheles (Nyssorhynchus darlingi were used for comparative studies to estimate the time to the most recent common ancestor for modern anophelines, to evaluate differentiation within this taxon, and to seek evidence of incipient speciation. Methods The mtDNAs were sequenced from mosquitoes from Belize and Brazil and comparative analyses of structure and base composition, among others, were performed. A maximum likelihood approach linked with phylogenetic information was employed to detect evidence of selection and a Bayesian approach was used to date the split between the subgenus Nyssorhynchus and other Anopheles subgenera. Results The comparison of mtDNA sequences within the Anopheles darlingi taxon does not provide sufficient resolution to establish different units of speciation within the species. In addition, no evidence of positive selection in any protein-coding gene of the mtDNA was detected, and purifying selection likely is the basis for this lack of diversity. Bayesian analysis supports the conclusion that the most recent ancestor of Nyssorhynchus and Anopheles+Cellia was extant ~94 million years ago. Conclusion Analyses of mtDNA genomes of Anopheles darlingi do not provide support for speciation in the taxon. The dates estimated for divergence among the anopheline groups tested is in agreement with the geological split of western Gondwana (95 mya, and provides additional support for explaining the absence of Cellia in the New World, and Nyssorhynchus in the Afro-Eurasian continents.

  2. Ookinete-induced midgut peroxidases detonate the time bomb in anopheline mosquitoes.

    Science.gov (United States)

    Kumar, Sanjeev; Barillas-Mury, Carolina

    2005-07-01

    Previous analysis of the temporal-spatial relationship between ookinete migration and the cellular localization of genes mediating midgut immune defense responses suggested that, in order to survive, parasites must complete invasion before toxic chemicals ("a bomb") are generated by the invaded cell. Recent studies indicate that ookinete invasion induces tyrosine nitration as a two-step reaction, in which NOS induction is followed by a localized increase in peroxidase activity. Peroxidases utilize nitrite and hydrogen peroxide as substrates, and detonate the time bomb by generating reactive nitrogen intermediates, such as nitrogen dioxide, which mediate nitration. There is evidence that peroxidases also mediate antimicrobial responses to bacteria, fungi and parasites in a broad range of biological systems including humans and plants. Defense reactions that generate toxic chemicals are also potentially harmful to the host mounting the response and often results in apoptosis. The two-step nitration pathway is probably an ancient response, as it has also been described in vertebrate leukocytes and probably evolved as a mechanism to circumscribe the toxic products generated during defense responses involving protein nitration. PMID:15894189

  3. Comparison of the Performances of Five Primer Sets for the Detection and Quantification of Plasmodium in Anopheline Vectors by Real-Time PCR

    Science.gov (United States)

    Chaumeau, V.; Andolina, C.; Fustec, B.; Tuikue Ndam, N.; Brengues, C.; Herder, S.; Cerqueira, D.; Chareonviriyaphap, T.; Nosten, F.; Corbel, V.

    2016-01-01

    Quantitative real-time polymerase chain reaction (qrtPCR) has made a significant improvement for the detection of Plasmodium in anopheline vectors. A wide variety of primers has been used in different assays, mostly adapted from molecular diagnosis of malaria in human. However, such an adaptation can impact the sensitivity of the PCR. Therefore we compared the sensitivity of five primer sets with different molecular targets on blood stages, sporozoites and oocysts standards of Plasmodium falciparum (Pf) and P. vivax (Pv). Dilution series of standard DNA were used to discriminate between methods at low concentrations of parasite and to generate standard curves suitable for the absolute quantification of Plasmodium sporozoites. Our results showed that the best primers to detect blood stages were not necessarily the best ones to detect sporozoites. Absolute detection threshold of our qrtPCR assay varied between 3.6 and 360 Pv sporozoites and between 6 and 600 Pf sporozoites per mosquito according to the primer set used in the reaction mix. In this paper, we discuss the general performance of each primer set and highlight the need to use efficient detection methods for transmission studies. PMID:27441839

  4. Carrier relaxation time divergence in single and double layer cuprates

    Science.gov (United States)

    Schneider, M. L.; Rast, S.; Onellion, M.; Demsar, J.; Taylor, A. J.; Glinka, Y.; Tolk, N. H.; Ren, Y. H.; Lüpke, G.; Klimov, A.; Xu, Y.; Sobolewski, R.; Si, W.; Zeng, X. H.; Soukiassian, A.; Xi, X. X.; Abrecht, M.; Ariosa, D.; Pavuna, D.; Krapf, A.; Manzke, R.; Printz, J. O.; Williamsen, M. S.; Downum, K. E.; Guptasarma, P.; Bozovic, I.

    2003-12-01

    We report the transient optical pump-probe reflectivity measurements on single and double layer cuprate single crystals and thin films of ten different stoichiometries. We find that with sufficiently low fluence the relaxation time (tauR) of all samples exhibits a power law divergence with temperature (T): tauR ∝ T^{-3 ± 0.5}. Further, the divergence has an onset temperature above the superconducting transition temperature for all superconducting samples. Possible causes of this divergence are discussed.

  5. Carrier Rexlaxation Time Divergence in Single and Double Layer Cuprates.

    Energy Technology Data Exchange (ETDEWEB)

    Schneider, M.; Rast, S.; Onellion, M.; Demsar, J.; Taylor, A. J.; Glinka, Y.; Tolk, N. H.; Ren, Y. H.; Lupke, G.; Klimov, A.; Sobolewski, R.; Xu, Y.; Si, Weidong; Zeng, X. H.; Soukiassian, A.; Xi, X. X.; Abrecht, M.; Ariosa, D.; Pavuna, D.; Drapf, A.; Manzke, R.; Printz, J. O.; Williamsen, M. S.; Downum, K. E.; Guptasarma, P.

    2003-06-20

    We report the transient optical pump-probe reflectivity measurements on single and double layer cuprate single crystals and thin films of ten different stoichiometries. We find that with sufficiently low fluence the relaxation time (tau [sub R] of all samples exhibits a power law divergence with temperature (T): tau [sub R] [proportional to] T[sup -3 [plus or minus] 0.5]. Further, the divergence has an onset temperature above the superconducting transition temperature for all superconducting samples. Possible causes of this divergence are discussed.

  6. Reappraisal on anopheline mosquitoes of Garhwal region, Uttarakhand, India

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    N. Pemola Devi

    2008-05-01

    Full Text Available Background & objectives: The study examines occurrence of anopheline mosquitoes in seven districts— Dehradun, Pauri, New Tehri, Hardwar, Rudraprayag, Chamoli and Uttarkashi of Garhwal region in Uttarakhand state, India. Methods: The methodological approach comprised sampling and processing of adult/immature mosquitoes, data compilation, meteorological information and parasitological survey.Results: A total of 87 localities covering 24 tehsils/blocks were surveyed during January 2000 to December 2005 for mosquito sampling. The study encountered 18 species of anophelines including three malaria vectors namely Anopheles culicifacies, An. fluviatilis and An. stephensi collected from Kalsi, Dehradun City, Sahaspur, Hardwar town, Roorkee, New Tehri town and Kotdwar localities. An. pallidus has been recorded for the first time from the Garhwal region. All the collected species have been presented with particular reference to their both adult and immature distribution, brief account of bionomics and some ecological notes.Interpretation & conclusion: Out of 18 collected anopheline species, 15 were non-vectors and they were found to create nuisance to the inhabitants. As far as the species distribution was concerned the diversity was more at elevation between 150 and 1000 m above the mean sea level, while the immature of some species were not recovered from those localities where their adults were collected. Certain species of Anopheles were climate determined and their distribution was localized while some others were cosmopolitan.

  7. The unbearable uncertainty of Bayesian divergence time estimation

    Institute of Scientific and Technical Information of China (English)

    Mario DOS REIS; Ziheng YANG

    2013-01-01

    Divergence time estimation using molecular sequence data relying on uncertain fossil calibrations is an unconventional statistical estimation problem.As the sequence data provide information about the distances only,estimation of absolute times and rates has to rely on information in the prior,so that the model is only semiidentifiable.In this paper,we use a combination of mathematical analysis,computer simulation,and real data analysis to examine the uncertainty in posterior time estimates when the amount of sequence data increases.The analysis extends the infinite-sites theory of Yang and Rannala,which predicts the posterior distribution of divergence times and rate when the amount of data approaches infinity.We found that the posterior credibility interval in general decreases and reaches a non-zero limit when the data size increases.However,for the node with the most precise fossil calibration (as measured by the interval width divided by the mid value),sequence data do not really make the time estimate any more precise.We propose a finite-sites theory which predicts that the square of the posterior interval width approaches its infinite-data limit at the rate 1/n,where n is the sequence length.We suggest a procedure to partition the uncertainty of posterior time estimates into that due to uncertainties in fossil calibrations and that due to sampling errors in the sequence data.We evaluate the impact of conflicting fossil calibrations on posterior time estimation and point out that narrow credibility intervals or overly precise time estimates can be produced by conflicting or erroneous fossil calibrations.

  8. Consequences of Secondary Calibrations on Divergence Time Estimates.

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    John J Schenk

    Full Text Available Secondary calibrations (calibrations based on the results of previous molecular dating studies are commonly applied in divergence time analyses in groups that lack fossil data; however, the consequences of applying secondary calibrations in a relaxed-clock approach are not fully understood. I tested whether applying the posterior estimate from a primary study as a prior distribution in a secondary study results in consistent age and uncertainty estimates. I compared age estimates from simulations with 100 randomly replicated secondary trees. On average, the 95% credible intervals of node ages for secondary estimates were significantly younger and narrower than primary estimates. The primary and secondary age estimates were significantly different in 97% of the replicates after Bonferroni corrections. Greater error in magnitude was associated with deeper than shallower nodes, but the opposite was found when standardized by median node age, and a significant positive relationship was determined between the number of tips/age of secondary trees and the total amount of error. When two secondary calibrated nodes were analyzed, estimates remained significantly different, and although the minimum and median estimates were associated with less error, maximum age estimates and credible interval widths had greater error. The shape of the prior also influenced error, in which applying a normal, rather than uniform, prior distribution resulted in greater error. Secondary calibrations, in summary, lead to a false impression of precision and the distribution of age estimates shift away from those that would be inferred by the primary analysis. These results suggest that secondary calibrations should not be applied as the only source of calibration in divergence time analyses that test time-dependent hypotheses until the additional error associated with secondary calibrations is more properly modeled to take into account increased uncertainty in age estimates.

  9. Anopheline mosquitoes in District Ramgarh (Jharkhand, India

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    Siddharth Pandey

    2015-01-01

    Interpretation & conclusion: The study revealed the prevalence of three recognised malaria vector species (An. culicifacies, An. fluviatilis and An. annularis in high density throughout the year in this area, which indicates possibility of widening of malaria transmission window in the presence of malaria parasites. The shifting of anopheline species in Ramgarh also indicate alteration in ecological, environmental and sociological conditions, which necessitate routine monitoring on ecology and successional changes of vector species as well as malariological survey for management and adoption of appropriate vector control strategies in this area.

  10. Wind, METOP ASCAT, 0.25 degrees, Global, Near Real Time, Divergence

    Data.gov (United States)

    National Oceanic and Atmospheric Administration, Department of Commerce — NOAA CoastWatch distributes near real time wind divergence data originating with wind velocity measurements from the ASCAT instrument onboard EUMETSAT's ASCAT...

  11. Why are anopheline mosquitoes not present in the Seychelles?

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    Goodman Steven M

    2011-02-01

    Full Text Available Abstract Background Species of anopheline mosquitoes are largely distributed over emerged lands around the world and, within the tropics, few areas are without these insects, which are vectors of malaria parasites. Among the exceptions is the Seychelles archipelago in the western Indian Ocean. However, in the Aldabra island group, located in the extreme western portion of the archipelago, Anopheles gambiae s.l. was introduced, leading to massive proliferation and then elimination, with the most recent autochthonous malaria cases recorded in 1931. Methods In order to re-examine the absence of anopheline mosquitoes in the Seychelles, an entomological field survey was conducted in December 2008 at 17 sites on four granitic islands, including Mahé and Praslin, and ten sites on coralline atolls in the extreme west, including Aldabra. Results No evidence of larval or adult anophelines was found at the surveyed sites, which supports their absence in the Seychelles. Conclusions In the granitic islands of the Seychelles, the climate is favourable for anophelines. However, these islands are protected by their remoteness and prevailing seasonal winds. In addition, stagnant freshwater, required in anopheline larval development, is relatively uncommon on the granitic islands because of the steep slopes. In the southwestern atolls (Aldabra and Providence-Farquhar groups, the presence of a long dry season of up to nine months and the total absence of permanent natural freshwater prevents the breeding of anophelines and their successful colonization. The Seychelles does not have any native land mammals and like in other parts of the world (Antarctica, Iceland, New Caledonia, Central Pacific islands their absence is associated with the lack of anophelines. This suggests an obligatory relationship for anophelines to feed on terrestrial mammals, without alternative for blood-feeding sources, such as bats, birds and reptiles.

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

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    Callahan, Melissa S; McPeek, Mark A

    2016-01-01

    Reconstructing evolutionary patterns of species and populations provides a framework for asking questions about the impacts of climate change. Here we use a multilocus dataset to estimate gene trees under maximum likelihood and Bayesian models to obtain a robust estimate of relationships for a genus of North American damselflies, Enallagma. Using a relaxed molecular clock, we estimate the divergence times for this group. Furthermore, to account for the fact that gene tree analyses can overestimate ages of population divergences, we use a multi-population coalescent model to gain a more accurate estimate of divergence times. We also infer diversification rates using a method that allows for variation in diversification rate through time and among lineages. Our results reveal a complex evolutionary history of Enallagma, in which divergence events both predate and occur during Pleistocene climate fluctuations. There is also evidence of diversification rate heterogeneity across the tree. These divergence time estimates provide a foundation for addressing the relative significance of historical climatic events in the diversification of this genus. PMID:26318206

  13. Unraveling the Evolutionary Radiation of the Thoracican Barnacles Using Molecular and Morphological Evidence: A Comparison of Several Divergence Time Estimation Approaches

    DEFF Research Database (Denmark)

    Pérez-Losada, Marcos; Høeg, Jens Thorvald; Crandall, K. A.

    calibration point, Cirripedia, divergence times, DNA sequences, fossils, genetic algorithms, mixed models, phylogeny......calibration point, Cirripedia, divergence times, DNA sequences, fossils, genetic algorithms, mixed models, phylogeny...

  14. Impact of curvature divergences on physical observers in a wormhole space-time with horizons

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    Olmo, Gonzalo J.; Rubiera-Garcia, D.; Sanchez-Puente, A.

    2016-06-01

    The impact of curvature divergences on physical observers in a black hole space-time, which, nonetheless, is geodesically complete is investigated. This space-time is an exact solution of certain extensions of general relativity coupled to Maxwell’s electrodynamics and, roughly speaking, consists of two Reissner-Nordström (or Schwarzschild or Minkowski) geometries connected by a spherical wormhole near the center. We find that, despite the existence of infinite tidal forces, causal contact is never lost among the elements making up the observer. This suggests that curvature divergences may not be as pathological as traditionally thought.

  15. Impact of curvature divergences on physical observers in a wormhole space-time with horizons

    CERN Document Server

    Olmo, Gonzalo J; Sanchez-Puente, A

    2016-01-01

    The impact of curvature divergences on physical observers in a black hole space-time which, nonetheless, is geodesically complete is investigated. This space-time is an exact solution of certain extensions of General Relativity coupled to Maxwell's electrodynamics and, roughly speaking, consists on two Reissner-Nordstr\\"{o}m (or Schwarzschild or Minkowski) geometries connected by a spherical wormhole near the center. We find that, despite the existence of infinite tidal forces, causal contact is never lost among the elements making up the observer. This suggests that curvature divergences may not be as pathological as traditionally thought.

  16. Divergence time estimates and the evolution of major lineages in the florideophyte red algae.

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    Yang, Eun Chan; Boo, Sung Min; Bhattacharya, Debashish; Saunders, Gary W; Knoll, Andrew H; Fredericq, Suzanne; Graf, Louis; Yoon, Hwan Su

    2016-01-01

    The Florideophyceae is the most abundant and taxonomically diverse class of red algae (Rhodophyta). However, many aspects of the systematics and divergence times of the group remain unresolved. Using a seven-gene concatenated dataset (nuclear EF2, LSU and SSU rRNAs, mitochondrial cox1, and plastid rbcL, psaA and psbA genes), we generated a robust phylogeny of red algae to provide an evolutionary timeline for florideophyte diversification. Our relaxed molecular clock analysis suggests that the Florideophyceae diverged approximately 943 (817-1,049) million years ago (Ma). The major divergences in this class involved the emergence of Hildenbrandiophycidae [ca. 781 (681-879) Ma], Nemaliophycidae [ca. 661 (597-736) Ma], Corallinophycidae [ca. 579 (543-617) Ma], and the split of Ahnfeltiophycidae and Rhodymeniophycidae [ca. 508 (442-580) Ma]. Within these clades, extant diversity reflects largely Phanerozoic diversification. Divergences within Florideophyceae were accompanied by evolutionary changes in the carposporophyte stage, leading to a successful strategy for maximizing spore production from each fertilization event. Our research provides robust estimates for the divergence times of major lineages within the Florideophyceae. This timeline was used to interpret the emergence of key morphological innovations that characterize these multicellular red algae. PMID:26892537

  17. Impact of duplicate gene copies on phylogenetic analysis and divergence time estimates in butterflies

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    Liswi Saif W

    2009-05-01

    Full Text Available Abstract Background The increase in availability of genomic sequences for a wide range of organisms has revealed gene duplication to be a relatively common event. Encounters with duplicate gene copies have consequently become almost inevitable in the context of collecting gene sequences for inferring species trees. Here we examine the effect of incorporating duplicate gene copies evolving at different rates on tree reconstruction and time estimation of recent and deep divergences in butterflies. Results Sequences from ultraviolet-sensitive (UVRh, blue-sensitive (BRh, and long-wavelength sensitive (LWRh opsins,EF-1α and COI were obtained from 27 taxa representing the five major butterfly families (5535 bp total. Both BRh and LWRh are present in multiple copies in some butterfly lineages and the different copies evolve at different rates. Regardless of the phylogenetic reconstruction method used, we found that analyses of combined data sets using either slower or faster evolving copies of duplicate genes resulted in a single topology in agreement with our current understanding of butterfly family relationships based on morphology and molecules. Interestingly, individual analyses of BRh and LWRh sequences also recovered these family-level relationships. Two different relaxed clock methods resulted in similar divergence time estimates at the shallower nodes in the tree, regardless of whether faster or slower evolving copies were used, with larger discrepancies observed at deeper nodes in the phylogeny. The time of divergence between the monarch butterfly Danaus plexippus and the queen D. gilippus (15.3–35.6 Mya was found to be much older than the time of divergence between monarch co-mimic Limenitis archippus and red-spotted purple L. arthemis (4.7–13.6 Mya, and overlapping with the time of divergence of the co-mimetic passionflower butterflies Heliconius erato and H. melpomene (13.5–26.1 Mya. Our family-level results are congruent with

  18. Phylogenetic relationship and time of divergence of Mus terricolor with reference to other Mus species

    Indian Academy of Sciences (India)

    MAHUA RUDRA; BISHWANATH CHATTERJEE; MIN BAHADUR

    2016-06-01

    Mitochondrial DNA control region ofMus terricolor , three aboriginal speciesM. spretus ,M. macedonicus ,M. spicilegus ;the Asian lineageM. caroli ,M. cervicolor ,M. cookii ; and the two house mice,M. musculus domesticusandM. m. castaneuswere analysed to estimate the substitution rate, phylogenetic relationship and the probable time of divergence. Results showedthatM. spretus ,M. caroliandM. terricolorare highly diverged from each other (caroli /terricolor =0.146,caroli /spretus =0.147 andterricolor /spretus =0.122), whereasM. spretusshowed less divergence with two house mice species (0.070 and0.071). Sequence divergence betweenM. terricolorand the Palearctic group were found to be ranging from 0.121 to 0.134.Phylogenetic analysis by minimum evolution, neighbour-joining, unweighed pair group method with arithmetic mean andmaximum parsimony showed almost similar topology. Two major clusters were found, one included the Asian lineage,M.caroli ,M. cookiiandM. cervicolorand the other included the house miceM. m. domesticus ,M. m. castaneusand the aboriginalmiceM. macedonicusandM. spicilegusalong withM. spretus , forming the Palearctic clade.M. terricolorwas positionedbetween the Palearctic and Asian clades. Results showed that Palearctic -terricolorand the Asian lineages diverged 5.47million years ago (Mya), whileM. terricolorhad split around 4.63 Mya from their ancestor.M. cervicolor ,M. cookiiandM.carolidiverged between 4.70 and 3.36 Mya, which indicates thatM. terricolorand the Asian lineages evolved simultaneously.M. spretusis expected to have diverged nearly 2.9 Mya from their most recent common ancestor

  19. The colonization of land by animals: molecular phylogeny and divergence times among arthropods

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    Lyons-Weiler Maureen

    2004-01-01

    Full Text Available Abstract Background The earliest fossil evidence of terrestrial animal activity is from the Ordovician, ~450 million years ago (Ma. However, there are earlier animal fossils, and most molecular clocks suggest a deep origin of animal phyla in the Precambrian, leaving open the possibility that animals colonized land much earlier than the Ordovician. To further investigate the time of colonization of land by animals, we sequenced two nuclear genes, glyceraldehyde-3-phosphate dehydrogenase and enolase, in representative arthropods and conducted phylogenetic and molecular clock analyses of those and other available DNA and protein sequence data. To assess the robustness of animal molecular clocks, we estimated the deuterostome-arthropod divergence using the arthropod fossil record for calibration and tunicate instead of vertebrate sequences to represent Deuterostomia. Nine nuclear and 15 mitochondrial genes were used in phylogenetic analyses and 61 genes were used in molecular clock analyses. Results Significant support was found for the unconventional pairing of myriapods (millipedes and centipedes with chelicerates (spiders, scorpions, horseshoe crabs, etc. using nuclear and mitochondrial genes. Our estimated time for the divergence of millipedes (Diplopoda and centipedes (Chilopoda was 442 ± 50 Ma, and the divergence of insects and crustaceans was estimated as 666 ± 58 Ma. Our results also agree with previous studies suggesting a deep divergence (~1100 – 900 Ma for arthropods and deuterostomes, considerably predating the Cambrian Explosion seen in the animal fossil record. Conclusions The consistent support for a close relationship between myriapods and chelicerates, using mitochondrial and nuclear genes and different methods of analysis, suggests that this unexpected result is not an artefact of analysis. We propose the name Myriochelata for this group of animals, which includes many that immobilize prey with venom. Our molecular clock

  20. Tools and Methods Derived from the Anopheline 16 Genome project

    NARCIS (Netherlands)

    Steele, Aaron; Fontaine, Michael Christophe; Martin, Andres; Emrich, Scott J

    2014-01-01

    The dramatic reduction in sequencing costs has resulted in many initiatives to sequence certain organisms and populations. These initiatives aim to not only sequence and assemble genomes but also to perform a more broader analysis of the population structure. As part of the Anopheline Genome Consort

  1. The oldest platypus and its bearing on divergence timing of the platypus and echidna clades

    OpenAIRE

    Rowe, Timothy; Rich, Thomas H.; Vickers-Rich, Patricia; Springer, Mark; Woodburne, Michael O.

    2008-01-01

    Monotremes have left a poor fossil record, and paleontology has been virtually mute during two decades of discussion about molecular clock estimates of the timing of divergence between the platypus and echidna clades. We describe evidence from high-resolution x-ray computed tomography indicating that Teinolophos, an Early Cretaceous fossil from Australia's Flat Rocks locality (121–112.5 Ma), lies within the crown clade Monotremata, as a basal platypus. Strict molecular clock estimates of the ...

  2. Divergence Times and Phylogenetic Patterns of Sebacinales, a Highly Diverse and Widespread Fungal Lineage

    OpenAIRE

    Garnica, Sigisfredo; Riess, Kai; Max E Schön; Oberwinkler, Franz; Sabrina D Setaro

    2016-01-01

    Patterns of geographic distribution and composition of fungal communities are still poorly understood. Widespread occurrence in terrestrial ecosystems and the unique richness of interactions of Sebacinales with plants make them a target group to study evolutionary events in the light of nutritional lifestyle. We inferred diversity patterns, phylogenetic structures and divergence times of Sebacinales with respect to their nutritional lifestyles by integrating data from fossil-calibrated phylog...

  3. Molecular phylogeny, divergence time estimates and historical biogeography within one of the world's largest monocot genera.

    Science.gov (United States)

    Li, Qin-Qin; Zhou, Song-Dong; Huang, De-Qing; He, Xing-Jin; Wei, Xian-Qin

    2016-01-01

    A primary aim of historical biogeography is to identify the causal factors or processes that have shaped the composition and distribution of biotas over time. Another is to infer the evolution of geographic ranges of species and clades in a phylogenetic context. To this end, historical biogeography addresses important questions such as: Where were ancestors distributed? Where did lineages originate? Which processes cause geographic ranges to evolve through time? Allium subgenus Anguinum comprises approximately twelve taxa with a disjunct distribution in the high mountains from south-western Europe to eastern Asia and in northeastern North America. Although both the systematic position and the geographical limits of Anguinum have been identified, to date no molecular systematic study has been performed utilizing a comprehensive sampling of these species. With an emphasis on the Anguinum eastern Asian geographical group, the goals of the present study were: (i) to infer species-level phylogenetic relationships within Anguinum, (ii) to assess molecular divergence and estimated the times of the major splits in Anguinum and (iii) to trace the biogeographic history of the subgenus. Four DNA sequences (ITS, matK, trnH-psbA, rps16) were used to reconstruct the phylogeny of Allium subgen. Anguinum RbcL sequences were used to estimate divergences time for Allium, and sequences of ITS were used to estimate the divergence times for Anguinum and its main lineages and to provide implications for the evolutionary history of the subgenus. Phylogenetic analyses for all Allium corroborate that Anguinum is monophyletic and indicate that Anguinum is composed of two sister groups: one with a Eurasian-American distribution, and the other restricted to eastern Asia. In the eastern Asian geographical group, incongruence between gene trees and morphology-based taxonomies was recovered as was incongruence between data from plastid and nuclear sequences. This incongruence is likely due to

  4. Ultrasonic divergent-beam scanner for time-of-flight tomography with computer evaluation

    International Nuclear Information System (INIS)

    The rotatable ultrasonic divergent-beam scanner is designed for time-of-flight tomography with computer evaluation. With it there can be measured parameters that are of importance for the structure of soft tissues, e.g. time as a function of the velocity distribution along a certain path of flight(the method is analogous to the transaxial X-ray tomography). Moreover it permits to perform the quantitative measurement of two-dimensional velocity distributions and may therefore be applied to serial examinations for detecting cancer of the breast. As computers digital memories as well as analog-digital-hybrid systems are suitable. (ORU)

  5. A late origin of the extant eukaryotic diversity: divergence time estimates using rare genomic changes

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    Koonin Eugene V

    2011-05-01

    Full Text Available Abstract Background Accurate estimation of the divergence time of the extant eukaryotes is a fundamentally important but extremely difficult problem owing primarily to gross violations of the molecular clock at long evolutionary distances and the lack of appropriate calibration points close to the date of interest. These difficulties are intrinsic to the dating of ancient divergence events and are reflected in the large discrepancies between estimates obtained with different approaches. Estimates of the age of Last Eukaryotic Common Ancestor (LECA vary approximately twofold, from ~1,100 million years ago (Mya to ~2,300 Mya. Results We applied the genome-wide analysis of rare genomic changes associated with conserved amino acids (RGC_CAs and used several independent techniques to obtain date estimates for the divergence of the major lineages of eukaryotes with calibration intervals for insects, land plants and vertebrates. The results suggest an early divergence of monocot and dicot plants, approximately 340 Mya, raising the possibility of plant-insect coevolution. The divergence of bilaterian animal phyla is estimated at ~400-700 Mya, a range of dates that is consistent with cladogenesis immediately preceding the Cambrian explosion. The origin of opisthokonts (the supergroup of eukaryotes that includes metazoa and fungi is estimated at ~700-1,000 Mya, and the age of LECA at ~1,000-1,300 Mya. We separately analyzed the red algal calibration interval which is based on single fossil. This analysis produced time estimates that were systematically older compared to the other estimates. Nevertheless, the majority of the estimates for the age of the LECA using the red algal data fell within the 1,200-1,400 Mya interval. Conclusion The inference of a "young LECA" is compatible with the latest of previously estimated dates and has substantial biological implications. If these estimates are valid, the approximately 1 to 1.4 billion years of evolution of

  6. Rate variation and estimation of divergence times using strict and relaxed clocks

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    Yang Ziheng

    2011-09-01

    Full Text Available Abstract Background Understanding causes of biological diversity may be greatly enhanced by knowledge of divergence times. Strict and relaxed clock models are used in Bayesian estimation of divergence times. We examined whether: i strict clock models are generally more appropriate in shallow phylogenies where rate variation is expected to be low, ii the likelihood ratio test of the clock (LRT reliably informs which model is appropriate for dating divergence times. Strict and relaxed models were used to analyse sequences simulated under different levels of rate variation. Published shallow phylogenies (Black bass, Primate-sucking lice, Podarcis lizards, Gallotiinae lizards, and Caprinae mammals were also analysed to determine natural levels of rate variation relative to the performance of the different models. Results Strict clock analyses performed well on data simulated under the independent rates model when the standard deviation of log rate on branches, σ, was low (≤0.1, but were inappropriate when σ>0.1 (95% of rates fall within 0.0082-0.0121 subs/site/Ma when σ = 0.1, for a mean rate of 0.01. The independent rates relaxed clock model performed well at all levels of rate variation, although posterior intervals on times were significantly wider than for the strict clock. The strict clock is therefore superior when rate variation is low. The performance of a correlated rates relaxed clock model was similar to the strict clock. Increased numbers of independent loci led to slightly narrower posteriors under the relaxed clock while older root ages provided proportionately narrower posteriors. The LRT had low power for σ = 0.01-0.1, but high power for σ = 0.5-2.0. Posterior means of σ2 were useful for assessing rate variation in published datasets. Estimates of natural levels of rate variation ranged from 0.05-3.38 for different partitions. Differences in divergence times between relaxed and strict clock analyses were greater in two

  7. Estimating Divergence Time and Ancestral Effective Population Size of Bornean and Sumatran Orangutan Subspecies Using a Coalescent Hidden Markov Model

    DEFF Research Database (Denmark)

    Mailund, Thomas; Dutheil, Julien; Hobolth, Asger;

    2011-01-01

    ue to genetic variation in the ancestor of two populations or two species, the divergence time for DNA sequences from two populations is variable along the genome. Within genomic segments all bases will share the same divergence—because they share a most recent common ancestor—when no recombination...... event has occurred to split them apart. The size of these segments of constant divergence depends on the recombination rate, but also on the speciation time, the effective population size of the ancestral population, as well as demographic effects and selection. Thus, inference of these parameters may...... be possible if we can decode the divergence times along a genomic alignment. Here, we present a new hidden Markov model that infers the changing divergence (coalescence) times along the genome alignment using a coalescent framework, in order to estimate the speciation time, the recombination rate...

  8. Inhibition of Malaria Infection in Transgenic Anopheline Mosquitoes Lacking Salivary Gland Cells.

    Science.gov (United States)

    Yamamoto, Daisuke S; Sumitani, Megumi; Kasashima, Katsumi; Sezutsu, Hideki; Matsuoka, Hiroyuki

    2016-09-01

    Malaria is an important global public health challenge, and is transmitted by anopheline mosquitoes during blood feeding. Mosquito vector control is one of the most effective methods to control malaria, and population replacement with genetically engineered mosquitoes to block its transmission is expected to become a new vector control strategy. The salivary glands are an effective target tissue for the expression of molecules that kill or inactivate malaria parasites. Moreover, salivary gland cells express a large number of molecules that facilitate blood feeding and parasite transmission to hosts. In the present study, we adapted a functional deficiency system in specific tissues by inducing cell death using the mouse Bcl-2-associated X protein (Bax) to the Asian malaria vector mosquito, Anopheles stephensi. We applied this technique to salivary gland cells, and produced a transgenic strain containing extremely low amounts of saliva. Although probing times for feeding on mice were longer in transgenic mosquitoes than in wild-type mosquitoes, transgenic mosquitoes still successfully ingested blood. Transgenic mosquitoes also exhibited a significant reduction in oocyst formation in the midgut in a rodent malaria model. These results indicate that mosquito saliva plays an important role in malaria infection in the midgut of anopheline mosquitoes. The dysfunction in the salivary glands enabled the inhibition of malaria transmission from hosts to mosquito midguts. Therefore, salivary components have potential in the development of new drugs or genetically engineered mosquitoes for malaria control. PMID:27598328

  9. Evidence for non-diverging time-scales in glass-forming liquids

    Science.gov (United States)

    McKenna, Gregory

    2013-03-01

    One perceived important signature of the ``ideal'' glass transition and of the complex fluid nature of glass-forming liquids remains the apparent divergence of the dynamics at temperatures above zero Kelvin. Recently, however, this perception has been increasingly challenged both through experiments and in new theories of the dynamics of glass forming systems. In this presentation we summarize some of the prior evidence suggesting that time scales actually do not diverge in glasses that are aged into equilibrium, perhaps 15 K below the conventional glass transition temperature Tg. We then show new results from an extremely densified glass, 20 Ma old Jamaican amber, in which we were able to obtain the upper bound to the relaxation times through a step-wise temperature scan in which the stress relaxation response of the amber was measured both below and above the fictive temperature TF . We find that in the case of the upper bound responses at T>TF , there is a strong deviation of the response from the Super-Arrhenius Vogel-Fulcher behavior and this persists to the fictive temperature which is some 33.8 K below Tg. The results are compared to the parabolic model of Chandler and co-workers and we find the model to be consistent with our results if the value of Tx in the model is taken to be the calorimetric glass transition temperature. The significance of the results will be discussed. We acknowledge NSF grants DMR-0804438 and DMR-1207070 for support of this work

  10. The right time to happen: play developmental divergence in the two Pan species.

    Directory of Open Access Journals (Sweden)

    Elisabetta Palagi

    Full Text Available Bonobos, compared to chimpanzees, are highly motivated to play as adults. Therefore, it is interesting to compare the two species at earlier developmental stages to determine how and when these differences arise. We measured and compared some play parameters between the two species including frequency, number of partners (solitary, dyadic, and polyadic play, session length, and escalation into overt aggression. Since solitary play has a role in developing cognitive and physical skills, it is not surprising that chimpanzees and bonobos share similar developmental trajectories in the motivation to engage in this activity. The striking divergence in play developmental pathways emerged for social play. Infants of the two species showed comparable social play levels, which began to diverge during the juvenile period, a 'timing hotspot' for play development. Compared to chimpanzees, social play sessions in juvenile bonobos escalated less frequently into overt aggression, lasted longer, and frequently involved more than two partners concurrently (polyadic play. In this view, play fighting in juvenile bonobos seems to maintain a cooperative mood, whereas in juvenile chimpanzees it acquires more competitive elements. The retention of juvenile traits into adulthood typical of bonobos can be due to a developmental delay in social inhibition. Our findings show that the divergence of play ontogenetic pathways between the two Pan species and the relative emergence of play neotenic traits in bonobos can be detected before individuals reach sexual maturity. The high play motivation showed by adult bonobos compared to chimpanzees is probably the result of a long developmental process, rooted in the delicate transitional phase, which leads subjects from infancy to juvenility.

  11. Axiomatising Divergence

    NARCIS (Netherlands)

    Lohrey, M.; D'Argenio, P.R.; Hermanns, H.; Widmayer, P.; Triguero Ruiz, F.; Morales Bueno, R.; Hennessy, M.; Eidenbenz, S.; Conejo, R.

    2002-01-01

    This paper develops sound and complete axiomatisations for the divergence sensitive spectrum of weak bisimulation equivalence. The axiomatisations can be extended to a considerable fragment of the linear time - branching time spectrum with silent moves, partially solving an open problem posed in [5

  12. Studies on prevalence of anopheline species and community perception of malaria in Jaffna district, Sri Lanka

    Directory of Open Access Journals (Sweden)

    N.D. Karunaweera

    2008-08-01

    predominant anopheline species. The distribution of sibling species of An. subpictus complex in the Jaffna district, revealed for the first time, has implications for future studies on its bionomics and malaria transmission pattern in this area and the planning of control strategies for this region. The community perception of disease, which revealed a satisfactory knowledge indicates the potential for better community participation in future malaria control activities in this region. As potential vectors are still present, health authorities need to be vigilant to prevent any future epidemics of malaria.

  13. The impact of ancestral population size and incomplete lineage sorting on Bayesian estimation of species divergence times

    Institute of Scientific and Technical Information of China (English)

    Konstantinos ANGELIS; Mario DOS REIS

    2015-01-01

    Although the effects of the coalescent process on sequence divergence and genealogies are well understood, the vir-tual majority of studies that use molecular sequences to estimate times of divergence among species have failed to account for the coalescent process. Here we study the impact of ancestral population size and incomplete lineage sorting on Bayesian estimates of species divergence times under the molecular clock when the inference model ignores the coalescent process. Using a combi-nation of mathematical analysis, computer simulations and analysis of real data, we find that the errors on estimates of times and the molecular rate can be substantial when ancestral populations are large and when there is substantial incomplete lineage sort-ing. For example, in a simple three-species case, we find that if the most precise fossil calibration is placed on the root of the phylogeny, the age of the internal node is overestimated, while if the most precise calibration is placed on the internal node, then the age of the root is underestimated. In both cases, the molecular rate is overestimated. Using simulations on a phylogeny of nine species, we show that substantial errors in time and rate estimates can be obtained even when dating ancient divergence events. We analyse the hominoid phylogeny and show that estimates of the neutral mutation rate obtained while ignoring the coalescent are too high. Using a coalescent-based technique to obtain geological times of divergence, we obtain estimates of the mutation rate that are within experimental estimates and we also obtain substantially older divergence times within the phylogeny [Current Zoology 61 (5): 874–885, 2015].

  14. Phylogenetic relationships and divergence times of the family Araucariaceae based on the DNA sequences of eight genes

    Institute of Scientific and Technical Information of China (English)

    LIU Nian; ZHU Yong; WEI ZongXian; CHEN Jie; WANG QingBiao; JIAN ShuGuang; ZHOU DangWei; SHI Jing; YANG Yong; ZHONG Yang

    2009-01-01

    Araucariaceae is one of the most primitive families of the living conifers,and its phylogenetic relationships and divergence times are critically important issues.The DNA sequences of 8 genes,i.e.,nuclear ribosomal 18S and 26S rRNA,chloroplast 16S rRNA,rbcL,mafK and rps4,and mitochondrial coxl and atp1,obtained from this study and GenBank were used for constructing the molecular phylogenetic trees of Araucariaceae,indicating that the phylogenetic relationships among the three genera of this family should be ((Wollemia,Agathis),Araucaria).On the basis of the fossil calibrations of Wollemia and the two tribes Araucaria and Eutacta of the genus Araucaria,the divergence time of Araucariaceae was estimated to be (308±53) million years ago,that is,the origin of the family was in the Late Carboniferous rather than Triassic as a traditional view.With the same gene combination,the divergence times of the genera Araucaria and Agathis were (246 ±47) and (61±5) Ma,respectively.Statistical analyses on the phylogenetic trees generated by using different genes and comparisons of thedivergence times estimated by using those genes suggested that the chloroplast mafK and rps4 genes are most suitable for investigating the phylogenetic relationships and divergence times of the family Araucariaceae.

  15. Assignment of Calibration Information to Deeper Phylogenetic Nodes is More Effective in Obtaining Precise and Accurate Divergence Time Estimates.

    Science.gov (United States)

    Mello, Beatriz; Schrago, Carlos G

    2014-01-01

    Divergence time estimation has become an essential tool for understanding macroevolutionary events. Molecular dating aims to obtain reliable inferences, which, within a statistical framework, means jointly increasing the accuracy and precision of estimates. Bayesian dating methods exhibit the propriety of a linear relationship between uncertainty and estimated divergence dates. This relationship occurs even if the number of sites approaches infinity and places a limit on the maximum precision of node ages. However, how the placement of calibration information may affect the precision of divergence time estimates remains an open question. In this study, relying on simulated and empirical data, we investigated how the location of calibration within a phylogeny affects the accuracy and precision of time estimates. We found that calibration priors set at median and deep phylogenetic nodes were associated with higher precision values compared to analyses involving calibration at the shallowest node. The results were independent of the tree symmetry. An empirical mammalian dataset produced results that were consistent with those generated by the simulated sequences. Assigning time information to the deeper nodes of a tree is crucial to guarantee the accuracy and precision of divergence times. This finding highlights the importance of the appropriate choice of outgroups in molecular dating. PMID:24855333

  16. Divergence Times and Phylogenetic Patterns of Sebacinales, a Highly Diverse and Widespread Fungal Lineage.

    Directory of Open Access Journals (Sweden)

    Sigisfredo Garnica

    Full Text Available Patterns of geographic distribution and composition of fungal communities are still poorly understood. Widespread occurrence in terrestrial ecosystems and the unique richness of interactions of Sebacinales with plants make them a target group to study evolutionary events in the light of nutritional lifestyle. We inferred diversity patterns, phylogenetic structures and divergence times of Sebacinales with respect to their nutritional lifestyles by integrating data from fossil-calibrated phylogenetic analyses. Relaxed molecular clock analyses indicated that Sebacinales originated late Permian within Basidiomycota, and their split into Sebacinaceae and Serendipitaceae nom. prov. likely occurred during the late Jurassic and the early Cretaceous, coinciding with major diversifications of land plants. In Sebacinaceae, diversification of species with ectomycorrhizal lifestyle presumably started during the Paleocene. Lineage radiations of the core group of ericoid and cavendishioid mycorrhizal Sebacinales started probably in the Eocene, coinciding with diversification events of their hosts. The diversification of Sebacinales with jungermannioid interactions started during the Oligocene, and occurred much later than the diversification of their hosts. Sebacinales communities associated either with ectomycorrhizal plants, achlorophyllous orchids, ericoid and cavendishioid Ericaceae or liverworts were phylogenetically clustered and globally distributed. Major Sebacinales lineage diversifications started after the continents had drifted apart. We also briefly discuss dispersal patterns of extant Sebacinales.

  17. Divergence Times and Phylogenetic Patterns of Sebacinales, a Highly Diverse and Widespread Fungal Lineage.

    Science.gov (United States)

    Garnica, Sigisfredo; Riess, Kai; Schön, Max E; Oberwinkler, Franz; Setaro, Sabrina D

    2016-01-01

    Patterns of geographic distribution and composition of fungal communities are still poorly understood. Widespread occurrence in terrestrial ecosystems and the unique richness of interactions of Sebacinales with plants make them a target group to study evolutionary events in the light of nutritional lifestyle. We inferred diversity patterns, phylogenetic structures and divergence times of Sebacinales with respect to their nutritional lifestyles by integrating data from fossil-calibrated phylogenetic analyses. Relaxed molecular clock analyses indicated that Sebacinales originated late Permian within Basidiomycota, and their split into Sebacinaceae and Serendipitaceae nom. prov. likely occurred during the late Jurassic and the early Cretaceous, coinciding with major diversifications of land plants. In Sebacinaceae, diversification of species with ectomycorrhizal lifestyle presumably started during the Paleocene. Lineage radiations of the core group of ericoid and cavendishioid mycorrhizal Sebacinales started probably in the Eocene, coinciding with diversification events of their hosts. The diversification of Sebacinales with jungermannioid interactions started during the Oligocene, and occurred much later than the diversification of their hosts. Sebacinales communities associated either with ectomycorrhizal plants, achlorophyllous orchids, ericoid and cavendishioid Ericaceae or liverworts were phylogenetically clustered and globally distributed. Major Sebacinales lineage diversifications started after the continents had drifted apart. We also briefly discuss dispersal patterns of extant Sebacinales. PMID:26938104

  18. Highly focused anopheline breeding sites and malaria transmission in Dakar

    Directory of Open Access Journals (Sweden)

    Bouzid Samia

    2009-06-01

    Full Text Available Abstract Background Urbanization has a great impact on the composition of the vector system and malaria transmission dynamics. In Dakar, some malaria cases are autochthonous but parasite rates and incidences of clinical malaria attacks have been recorded at low levels. Ecological heterogeneity of malaria transmission was investigated in Dakar, in order to characterize the Anopheles breeding sites in the city and to study the dynamics of larval density and adult aggressiveness in ten characteristically different urban areas. Methods Ten study areas were sampled in Dakar and Pikine. Mosquitoes were collected by human landing collection during four nights in each area (120 person-nights. The Plasmodium falciparum circumsporozoite (CSP index was measured by ELISA and the entomological inoculation rates (EIR were calculated. Open water collections in the study areas were monitored weekly for physico-chemical characterization and the presence of anopheline larvae. Adult mosquitoes and hatched larvae were identified morphologically and by molecular methods. Results In September-October 2007, 19,451 adult mosquitoes were caught among which, 1,101 were Anopheles gambiae s.l. The Human Biting Rate ranged from 0.1 bites per person per night in Yoff Village to 43.7 in Almadies. Seven out of 1,101 An. gambiae s.l. were found to be positive for P. falciparum (CSP index = 0.64%. EIR ranged from 0 infected bites per person per year in Yoff Village to 16.8 in Almadies. The An. gambiae complex population was composed of Anopheles arabiensis (94.8% and Anopheles melas (5.2%. None of the An. melas were infected with P. falciparum. Of the 54 water collection sites monitored, 33 (61.1% served as anopheline breeding sites on at least one observation. No An. melas was identified among the larval samples. Some physico-chemical characteristics of water bodies were associated with the presence/absence of anopheline larvae and with larval density. A very close parallel

  19. Divergence history of the Carpathian and smooth newts modelled in space and time.

    Science.gov (United States)

    Zieliński, P; Nadachowska-Brzyska, K; Dudek, K; Babik, W

    2016-08-01

    Information about demographic history is essential for the understanding of the processes of divergence and speciation. Patterns of genetic variation within and between closely related species provide insights into the history of their interactions. Here, we investigated historical demography and genetic exchange between the Carpathian (Lissotriton montandoni, Lm) and smooth (L. vulgaris, Lv) newts. We combine an extensive geographical sampling and multilocus nuclear sequence data with the approximate Bayesian computation framework to test alternative scenarios of divergence and reconstruct the temporal and spatial pattern of gene flow between species. A model of recent (last glacial period) interspecific gene flow was favoured over alternative models. Thus, despite the relatively old divergence (4-6 mya) and presumably long periods of isolation, the species have retained the ability to exchange genes. Nevertheless, the low migration rates (ca. 10(-6) per gene copy per generation) are consistent with strong reproductive isolation between the species. Models allowing demographic changes were favoured, suggesting that the effective population sizes of both species at least doubled as divergence reaching the current ca. 0.2 million in Lm and 1 million in Lv. We found asymmetry in rates of interspecific gene flow between Lm and one evolutionary lineage of Lv. We suggest that intraspecific polymorphism for hybrid incompatibilities segregating within Lv could explain this pattern and propose further tests to distinguish between alternative explanations. Our study highlights the importance of incorporating intraspecific genetic structure into the models investigating the history of divergence. PMID:27288862

  20. Indian Sub-Continent Anophelines and the Malaria Problem on a Regional Basis

    International Nuclear Information System (INIS)

    The countries in the Indian sub-continent come under the Oriental region. Of the 450 anopheline species reported so far 286 species are from this region. A list of important vectors prevalent in each country of the sub-continent is given. Species which may have been found positive with sporozoites but not considered important in the transmission of malaria are not included in the list. The Indian anopheline fauna consists of about 56 species.

  1. Estimation of divergence times in litostomatean ciliates (Ciliophora: Intramacronucleata), using Bayesian relaxed clock and 18S rRNA gene.

    Science.gov (United States)

    Vďačný, Peter

    2015-08-01

    The class Litostomatea comprises a diverse assemblage of free-living and endosymbiotic ciliates. To understand diversification dynamic of litostomateans, divergence times of their main groups were estimated with the Bayesian molecular dating, a technique allowing relaxation of molecular clock and incorporation of flexible calibration points. The class Litostomatea very likely emerged during the Cryogenian around 680 Mya. The origin of the subclass Rhynchostomatia is dated to about 415 Mya, while that of the subclass Haptoria to about 654 Mya. The order Pleurostomatida, emerging about 556 Mya, was recognized as the oldest group within the subclass Haptoria. The order Spathidiida appeared in the Paleozoic about 442 Mya. The three remaining haptorian orders evolved in the Paleozoic/Mesozoic periods: Didiniida about 419 Mya, Lacrymariida about 269 Mya, and Haptorida about 194 Mya. The subclass Trichostomatia originated from a spathidiid ancestor in the Mesozoic about 260 Mya. A further goal of this study was to investigate the impact of various settings on posterior divergence time estimates. The root placement and tree topology as well as the priors of the rate-drift model, birth-death process and nucleotide substitution rate, had no significant effect on calculation of posterior divergence time estimates. However, removal of calibration points could significantly change time estimates at some nodes. PMID:26204556

  2. Phylogeny and divergence time estimation of cheilostome bryozoans based on mitochodrial 16S rRNA sequences

    Institute of Scientific and Technical Information of China (English)

    HAO Jiasheng; LI Chunxiang; SUN Xiaoyan; YANG Qun

    2005-01-01

    The mitochondrial 16S rDNA sequences of 40 species of cheilostome bryozoans including those of 24 species newly determined were used to reconstruct the phylogenetic tree using neighboring-joining and maximum-parsimony methods. By applying molecular clock technique on the basis of the appropriate phylogeny and the fossil record, the divergence times of the two main cheilostome groups, Anasca and Ascophora sensu stricto, were estimated. The results show that the molecular phylogeny of the higher taxonomic groups (superfamilies and higher taxa) of cheilostome bryozoans is mostly in conflict with the morphology-based phylogenetic trees; the divergence of the extant groups of Anasca and those of Ascophora sensu stricto is estimated to have happened about 263 Ma (Permian Guadalupian Epoch) and 183 Ma (Early Jurassic), respectively.

  3. Genetic divergence and evolutionary times: calibrating a protein clock for South-European Stenasellus species (Crustacea, Isopoda

    Directory of Open Access Journals (Sweden)

    Valerio Ketmaier

    1997-01-01

    Full Text Available We studied genetic divergence in a group of exclusively stygobiont isopods of the family Stenasellidae. In particular, we assessed evolutionary relationships among several populations of Stenasellus racovitzai and Stenasellus virei. To place this study in a phylogenetic context. we used another species of Stenasellus, S. assorgiai, as an outgroup. S. racovitzai occurs in Corsica, Sardinia and in the fossil islands of the Tuscan Archipelago, while S. virei is a polytypic species widely distributed in the central France and Pyrenean area. This vicariant distribution is believed to be the result of the disjunction of the Sardinia-Corsica microplate from the Pyrenean region and its subsequent rotation. Since geological data provide time estimates for these events, we can use the genetic distance data to calibrate a molecular clock for this group of stygobiont isopods. The calibration of the molecular clock reveals a roughly linear relationship (r = 0.753 between the genetic distances and absolute divergence times, with a mean divergence rate (19.269 Myr/DNei, different from those previously reported in the literature and provides an opportunity to shed some light on the evolutionary scenarios of other Stenasellus species.

  4. Notes on the birth-death prior with fossil calibrations for Bayesian estimation of species divergence times.

    Science.gov (United States)

    Dos Reis, Mario

    2016-07-19

    Constructing a multi-dimensional prior on the times of divergence (the node ages) of species in a phylogeny is not a trivial task, in particular, if the prior density is the result of combining different sources of information such as a speciation process with fossil calibration densities. Yang & Rannala (2006 Mol. Biol. Evol 23, 212-226. (doi:10.1093/molbev/msj024)) laid out the general approach to combine the birth-death process with arbitrary fossil-based densities to construct a prior on divergence times. They achieved this by calculating the density of node ages without calibrations conditioned on the ages of the calibrated nodes. Here, I show that the conditional density obtained by Yang & Rannala is misspecified. The misspecified density can sometimes be quite strange-looking and can lead to unintentionally informative priors on node ages without fossil calibrations. I derive the correct density and provide a few illustrative examples. Calculation of the density involves a sum over a large set of labelled histories, and so obtaining the density in a computer program seems hard at the moment. A general algorithm that may provide a way forward is given.This article is part of the themed issue 'Dating species divergences using rocks and clocks'. PMID:27325826

  5. Development of environmental tools for anopheline larval control

    Directory of Open Access Journals (Sweden)

    Mweresa Collins K

    2011-07-01

    Full Text Available Abstract Background Malaria mosquitoes spend a considerable part of their life in the aquatic stage, rendering them vulnerable to interventions directed to aquatic habitats. Recent successes of mosquito larval control have been reported using environmental and biological tools. Here, we report the effects of shading by plants and biological control agents on the development and survival of anopheline and culicine mosquito larvae in man-made natural habitats in western Kenya. Trials consisted of environmental manipulation using locally available plants, the introduction of predatory fish and/or the use of Bacillus thuringiensis var. israelensis (Bti in various combinations. Results Man-made habitats provided with shade from different crop species produced significantly fewer larvae than those without shade especially for the malaria vector Anopheles gambiae. Larval control of the African malaria mosquito An. gambiae and other mosquito species was effective in habitats where both predatory fish and Bti were applied, than where the two biological control agents were administered independently. Conclusion We conclude that integration of environmental management techniques using shade-providing plants and predatory fish and/or Bti are effective and sustainable tools for the control of malaria and other mosquito-borne disease vectors.

  6. Lineage divergence detected in the malaria vector Anopheles marajoara (Diptera: Culicidae in Amazonian Brazil

    Directory of Open Access Journals (Sweden)

    Povoa Marinete M

    2010-10-01

    Full Text Available Abstract Background Cryptic species complexes are common among anophelines. Previous phylogenetic analysis based on the complete mtDNA COI gene sequences detected paraphyly in the Neotropical malaria vector Anopheles marajoara. The "Folmer region" detects a single taxon using a 3% divergence threshold. Methods To test the paraphyletic hypothesis and examine the utility of the Folmer region, genealogical trees based on a concatenated (white + 3' COI sequences dataset and pairwise differentiation of COI fragments were examined. The population structure and demographic history were based on partial COI sequences for 294 individuals from 14 localities in Amazonian Brazil. 109 individuals from 12 localities were sequenced for the nDNA white gene, and 57 individuals from 11 localities were sequenced for the ribosomal DNA (rDNA internal transcribed spacer 2 (ITS2. Results Distinct A. marajoara lineages were detected by combined genealogical analysis and were also supported among COI haplotypes using a median joining network and AMOVA, with time since divergence during the Pleistocene (COI sequences at the 3' end were more variable, demonstrating significant pairwise differentiation (3.82% compared to the more moderate 2.92% detected by the Folmer region. Lineage 1 was present in all localities, whereas lineage 2 was restricted mainly to the west. Mismatch distributions for both lineages were bimodal, likely due to multiple colonization events and spatial expansion (~798 - 81,045 ya. There appears to be gene flow within, not between lineages, and a partial barrier was detected near Rio Jari in Amapá state, separating western and eastern populations. In contrast, both nDNA data sets (white gene sequences with or without the retention of the 4th intron, and ITS2 sequences and length detected a single A. marajoara lineage. Conclusions Strong support for combined data with significant differentiation detected in the COI and absent in the nDNA suggest that

  7. Formal Comment to Pettengill: The Time to Most Recent Common Ancestor Does Not (Usually Approximate the Date of Divergence.

    Directory of Open Access Journals (Sweden)

    Mark Achtman

    Full Text Available In 2013 Zhou et al. concluded that Salmonella enterica serovar Agona represents a genetically monomorphic lineage of recent ancestry, whose most recent common ancestor existed in 1932, or earlier. The Abstract stated 'Agona consists of three lineages with minimal mutational diversity: only 846 single nucleotide polymorphisms (SNPs have accumulated in the non-repetitive, core genome since Agona evolved in 1932 and subsequently underwent a major population expansion in the 1960s.' These conclusions have now been criticized by Pettengill, who claims that the evolutionary models used to date Agona may not have been appropriate, the dating estimates were inaccurate, and the age of emergence of Agona should have been qualified by an upper limit reflecting the date of its divergence from an outgroup, serovar Soerenga. We dispute these claims. Firstly, Pettengill's analysis of Agona is not justifiable on technical grounds. Secondly, an upper limit for divergence from an outgroup would only be meaningful if the outgroup were closely related to Agona, but close relatives of Agona are yet to be identified. Thirdly, it is not possible to reliably date the time of divergence between Agona and Soerenga. We conclude that Pettengill's criticism is comparable to a tempest in a teapot.

  8. The remarkable journey of adaptation of the Plasmodium falciparum malaria parasite to New World anopheline mosquitoes

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    Alvaro Molina-Cruz

    2014-08-01

    Full Text Available Plasmodium falciparum originated in Africa, dispersed around the world as a result of human migration and had to adapt to several different indigenous anopheline mosquitoes. Anophelines from the New World are evolutionary distant form African ones and this probably resulted in a more stringent selection of Plasmodium as it adapted to these vectors. It is thought that Plasmodium has been genetically selected by some anopheline species through unknown mechanisms. The mosquito immune system can greatly limit infection and P. falciparum evolved a strategy to evade these responses, at least in part mediated by Pfs47, a highly polymorphic gene. We propose that adaptation of P. falciparum to new vectors may require evasion of their immune system. Parasites with a Pfs47 haplotype compatible with the indigenous mosquito vector would be able to survive and be transmitted. The mosquito antiplasmodial response could be an important determinant of P. falciparum population structure and could affect malaria transmission in the Americas.

  9. The remarkable journey of adaptation of the Plasmodium falciparum malaria parasite to New World anopheline mosquitoes.

    Science.gov (United States)

    Molina-Cruz, Alvaro; Barillas-Mury, Carolina

    2014-08-01

    Plasmodium falciparum originated in Africa, dispersed around the world as a result of human migration and had to adapt to several different indigenous anopheline mosquitoes. Anophelines from the New World are evolutionary distant form African ones and this probably resulted in a more stringent selection of Plasmodium as it adapted to these vectors. It is thought that Plasmodium has been genetically selected by some anopheline species through unknown mechanisms. The mosquito immune system can greatly limit infection and P. falciparum evolved a strategy to evade these responses, at least in part mediated by Pfs47, a highly polymorphic gene. We propose that adaptation of P. falciparum to new vectors may require evasion of their immune system. Parasites with a Pfs47 haplotype compatible with the indigenous mosquito vector would be able to survive and be transmitted. The mosquito antiplasmodial response could be an important determinant of P. falciparum population structure and could affect malaria transmission in the Americas. PMID:25185006

  10. The remarkable journey of adaptation of the Plasmodium falciparum malaria parasite to New World anopheline mosquitoes

    Science.gov (United States)

    Molina-Cruz, Alvaro; Barillas-Mury, Carolina

    2014-01-01

    Plasmodium falciparum originated in Africa, dispersed around the world as a result of human migration and had to adapt to several different indigenous anopheline mosquitoes. Anophelines from the New World are evolutionary distant form African ones and this probably resulted in a more stringent selection of Plasmodium as it adapted to these vectors. It is thought that Plasmodium has been genetically selected by some anopheline species through unknown mechanisms. The mosquito immune system can greatly limit infection and P. falciparum evolved a strategy to evade these responses, at least in part mediated by Pfs47, a highly polymorphic gene. We propose that adaptation of P. falciparum to new vectors may require evasion of their immune system. Parasites with a Pfs47 haplotype compatible with the indigenous mosquito vector would be able to survive and be transmitted. The mosquito antiplasmodial response could be an important determinant of P. falciparum population structure and could affect malaria transmission in the Americas. PMID:25185006

  11. Identification of a fibrinogen-related protein (FBN9 gene in neotropical anopheline mosquitoes

    Directory of Open Access Journals (Sweden)

    Brito Cristiana FA

    2011-02-01

    Full Text Available Abstract Background Malaria has a devastating impact on worldwide public health in many tropical areas. Studies on vector immunity are important for the overall understanding of the parasite-vector interaction and for the design of novel strategies to control malaria. A member of the fibrinogen-related protein family, fbn9, has been well studied in Anopheles gambiae and has been shown to be an important component of the mosquito immune system. However, little is known about this gene in neotropical anopheline species. Methods This article describes the identification and characterization of the fbn9 gene partial sequences from four species of neotropical anopheline primary and secondary vectors: Anopheles darlingi, Anopheles nuneztovari, Anopheles aquasalis, and Anopheles albitarsis (namely Anopheles marajoara. Degenerate primers were designed based on comparative analysis of publicly available Aedes aegypti and An. gambiae gene sequences and used to clone putative homologs in the neotropical species. Sequence comparisons and Bayesian phylogenetic analyses were then performed to better understand the molecular diversity of this gene in evolutionary distant anopheline species, belonging to different subgenera. Results Comparisons of the fbn9 gene sequences of the neotropical anophelines and their homologs in the An. gambiae complex (Gambiae complex showed high conservation at the nucleotide and amino acid levels, although some sites show significant differentiation (non-synonymous substitutions. Furthermore, phylogenetic analysis of fbn9 nucleotide sequences showed that neotropical anophelines and African mosquitoes form two well-supported clades, mirroring their separation into two different subgenera. Conclusions The present work adds new insights into the conserved role of fbn9 in insect immunity in a broader range of anopheline species and reinforces the possibility of manipulating mosquito immunity to design novel pathogen control strategies.

  12. Abundance and dynamics of anopheline larvae in a highland malarious area of south-central Ethiopia

    Directory of Open Access Journals (Sweden)

    Animut Abebe

    2012-06-01

    Full Text Available Abstract Background Malaria is a public health problem in Ethiopia, and increasingly so in highland areas, possibly because of global warming. This study describes the distribution, breeding habitat and monthly dynamics of anopheline larvae in Butajira, a highland area in south-central Ethiopia. Methods A study of the abundance and dynamics of Anopheles larvae was undertaken at different sites and altitudes in Butajira from July 2008 to June 2010. The sites included Hobe (1817 m.a.s.l, Dirama (1995m.a.s.l. and Wurib (2196m.a.s.l.. Potential anopheline larval habitats were surveyed once per month in each village. The recorded characteristics of the habitats included habitat type, pH, surface debris, emergent plants, algae, substrate, turbidity, temperature, length, width, depth, distance to the nearest house and anophelines. The Spearman correlation coefficient and Mann–Whitney U test were used to calculate the degree of association between the density of anopheline species and key environmental factors. Results Among the different types of habitat surveyed, the Odamo, Akamuja and Assas streams and Beko swamp were positive for anopheline larvae. A total of 3,957 third and fourth instar larvae were collected from the three localities, and they represented ten species of anophelines. These were: Anopheles cinereus (32.5%, An. arabiensis (31.4%, An. chrysti (23%, An. demeilloni (12.2%, An. pretoriensis (0.6%, An. azaniae (0.1%, An. rufipes(0.1%, An. sergentii (0.06%, An. garnhami (0.06% and An. pharoensis (0.03%. The density of anopheline larvae was highest during the dry months. An. arabiensis was widely distributed, and its density decreased from the lowest elevation in Hobe to the highest in Wurib. The density of An. arabiensis larvae was correlated positively with larval habitat temperature (r = 0.33, p p  Conclusion Ten species of anophelines were identified, including two known vectors of malaria (An. arabiensis and An. pharoensis

  13. Diverging sensitivity of soil water stress to changing snowmelt timing in the Western U.S.

    Science.gov (United States)

    Harpold, Adrian A.

    2016-06-01

    Altered snowpack regimes from regional warming threaten mountain ecosystems with greater water stress and increased likelihood of vegetation disturbance. The sensitivity of vegetation to changing snowpack conditions is strongly mediated by soil water storage, yet a framework to identify areas sensitive to changing snowpack regimes is lacking. In this study we ask two questions: (1) How will changing snowmelt alter the duration of soil water stress and length of the soil-mediated growing season (shortened to water stress and growing season, respectively)? and (2) What site characteristics increase the sensitivity of water stress and growing season duration to changes in snowmelt? We compiled soil moisture at 5, 20 and 50 cm depths from 62 SNOTEL sites with > 5 years of records and detailed soil properties. Soil water stress was estimated based on measured wilting point water content. The day of snow disappearance consistently explained the greatest variability in water stress across all site-years and within individual sites, while summer precipitation explained the most variability in growing season length. On average, a one day earlier snow disappearance resulted in 0.62 days greater water stress and 36 of 62 sites had significant relationships between snow disappearance and water stress. Despite earlier snow disappearance leading to greater water stress at nearly all sites, earlier snow disappearance led to both significant increases (4 of 62) and decreases (5 of 62) in growing season length. Satellite derived vegetation greenness confirmed site-dependent changes could both increase and reduce maximum annual vegetation greenness with earlier snow disappearance. A simple soil moisture model demonstrated the potential for diverging growing season length with earlier snow disappearance was more likely in areas with finer soil texture, greater rooting depth, greater potential evapotranspiration, and greater precipitation. More work is needed to understand the role of

  14. Imprints from genetic drift and mutation imply relative divergence times across marine transition zones in a Pan European small pelagic fish (Sprattus sprattus)

    DEFF Research Database (Denmark)

    Limborg, Morten; Hanel, R.; Debes, P.;

    2012-01-01

    Geographic distributions of most temperate marine fishes are affected by postglacial recolonisation events, which have left complex genetic imprints on populations of marine species. This study investigated population structure and demographic history of European sprat (Sprattus sprattus L.) by......’ southern distribution in the Mediterranean region. These results were interpreted to reflect more recent divergence times between northern populations in accordance with previous findings. This study demonstrates the usefulness of comparing inference from different markers and estimators of divergence for...

  15. Landscape determinants and remote sensing of anopheline mosquito larval habitats in the western Kenya highlands

    Directory of Open Access Journals (Sweden)

    Beck Louisa

    2006-02-01

    Full Text Available Abstract Background In the past two decades the east African highlands have experienced several major malaria epidemics. Currently there is a renewed interest in exploring the possibility of anopheline larval control through environmental management or larvicide as an additional means of reducing malaria transmission in Africa. This study examined the landscape determinants of anopheline mosquito larval habitats and usefulness of remote sensing in identifying these habitats in western Kenya highlands. Methods Panchromatic aerial photos, Ikonos and Landsat Thematic Mapper 7 satellite images were acquired for a study area in Kakamega, western Kenya. Supervised classification of land-use and land-cover and visual identification of aquatic habitats were conducted. Ground survey of all aquatic habitats was conducted in the dry and rainy seasons in 2003. All habitats positive for anopheline larvae were identified. The retrieved data from the remote sensors were compared to the ground results on aquatic habitats and land-use. The probability of finding aquatic habitats and habitats with Anopheles larvae were modelled based on the digital elevation model and land-use types. Results The misclassification rate of land-cover types was 10.8% based on Ikonos imagery, 22.6% for panchromatic aerial photos and 39.2% for Landsat TM 7 imagery. The Ikonos image identified 40.6% of aquatic habitats, aerial photos identified 10.6%, and Landsate TM 7 image identified 0%. Computer models based on topographic features and land-cover information obtained from the Ikonos image yielded a misclassification rate of 20.3–22.7% for aquatic habitats, and 18.1–25.1% for anopheline-positive larval habitats. Conclusion One-metre spatial resolution Ikonos images combined with computer modelling based on topographic land-cover features are useful tools for identification of anopheline larval habitats, and they can be used to assist to malaria vector control in western Kenya

  16. A Finite-Time Analysis of Multi-armed Bandits Problems with Kullback-Leibler Divergences

    CERN Document Server

    Maillard, Odalric-Ambrym; Stoltz, Gilles

    2011-01-01

    We consider a Kullback-Leibler-based algorithm for the stochastic multi-armed bandit problem in the case of distributions with finite supports (not necessarily known beforehand), whose asymptotic regret matches the lower bound of \\cite{Burnetas96}. Our contribution is to provide a finite-time analysis of this algorithm; we get bounds whose main terms are smaller than the ones of previously known algorithms with finite-time analyses (like UCB-type algorithms).

  17. Divergence identities in curved space-time. A resolution of the stress-energy problem

    International Nuclear Information System (INIS)

    It is noted that the joint use of two basic differential identities in curved space-time, namely. 1) the Einstein-Hilbert identity (1915), and 2) the identity of P. Freud (1939), permits a viable alternative to general relativity and a resolution of the field stress-energy' problem of the gravitational theory. (orig.)

  18. The colonization of land by animals: molecular phylogeny and divergence times among arthropods

    OpenAIRE

    Lyons-Weiler Maureen; Poling Laura L; Pisani Davide; Hedges S

    2004-01-01

    Abstract Background The earliest fossil evidence of terrestrial animal activity is from the Ordovician, ~450 million years ago (Ma). However, there are earlier animal fossils, and most molecular clocks suggest a deep origin of animal phyla in the Precambrian, leaving open the possibility that animals colonized land much earlier than the Ordovician. To further investigate the time of colonization of land by animals, we sequenced two nuclear genes, glyceraldehyde-3-phosphate dehydrogenase and e...

  19. Monophyly, divergence times, and evolution of host plant use inferred from a revised phylogeny of the Drosophila repleta species group.

    Science.gov (United States)

    Oliveira, Deodoro C S G; Almeida, Francisca C; O'Grady, Patrick M; Armella, Miguel A; DeSalle, Rob; Etges, William J

    2012-09-01

    We present a revised molecular phylogeny of the Drosophila repleta group including 62 repleta group taxa and nine outgroup species based on four mitochondrial and six nuclear DNA sequence fragments. With ca. 100 species endemic to the New World, the repleta species group represents one of the major species radiations in the genus Drosophila. Most repleta group species are associated with cacti in arid or semiarid regions. Contrary to previous results, maximum likelihood and Bayesian phylogenies of the 10-gene dataset strongly support the monophyly of the repleta group. Several previously described subdivisions in the group were also recovered, despite poorly resolved relationships between these clades. Divergence time estimates suggested that the repleta group split from its sister group about 21millionyears ago (Mya), although diversification of the crown group began ca. 16Mya. Character mapping of patterns of host plant use showed that flat leaf Opuntia use is common throughout the phylogeny and that shifts in host use from Opuntia to the more chemically complex columnar cacti occurred several times independently during the history of this group. Although some species retained the use of Opuntia after acquiring the use of columnar cacti, there were multiple, phylogenetically independent instances of columnar cactus specialization with loss of Opuntia as a host. Concordant with our proposed timing of host use shifts, these dates are consistent with the suggested times when the Opuntioideae originated in South America. We discuss the generally accepted South American origin of the repleta group. PMID:22634936

  20. Putting scales into evolutionary time: the divergence of major scale insect lineages (Hemiptera) predates the radiation of modern angiosperm hosts

    Science.gov (United States)

    Vea, Isabelle M.; Grimaldi, David A.

    2016-01-01

    The radiation of flowering plants in the mid-Cretaceous transformed landscapes and is widely believed to have fuelled the radiations of major groups of phytophagous insects. An excellent group to test this assertion is the scale insects (Coccomorpha: Hemiptera), with some 8,000 described Recent species and probably the most diverse fossil record of any phytophagous insect group preserved in amber. We used here a total-evidence approach (by tip-dating) employing 174 morphological characters of 73 Recent and 43 fossil taxa (48 families) and DNA sequences of three gene regions, to obtain divergence time estimates and compare the chronology of the most diverse lineage of scale insects, the neococcoid families, with the timing of the main angiosperm radiation. An estimated origin of the Coccomorpha occurred at the beginning of the Triassic, about 245 Ma [228–273], and of the neococcoids 60 million years later [210–165 Ma]. A total-evidence approach allows the integration of extinct scale insects into a phylogenetic framework, resulting in slightly younger median estimates than analyses using Recent taxa, calibrated with fossil ages only. From these estimates, we hypothesise that most major lineages of coccoids shifted from gymnosperms onto angiosperms when the latter became diverse and abundant in the mid- to Late Cretaceous. PMID:27000526

  1. Abundance and dynamics of anopheline larvae in a highland malarious area of south-central Ethiopia

    OpenAIRE

    Animut Abebe; Gebre-Michael Teshome; Balkew Meshesha; Lindtjørn Bernt

    2012-01-01

    Abstract Background Malaria is a public health problem in Ethiopia, and increasingly so in highland areas, possibly because of global warming. This study describes the distribution, breeding habitat and monthly dynamics of anopheline larvae in Butajira, a highland area in south-central Ethiopia. Methods A study of the abundance and dynamics of Anopheles larvae was undertaken at different sites and altitudes in Butajira from July 2008 to June 2010. The sites included Hobe (1817 m.a.s.l), Diram...

  2. Integrating fossils in a molecular-based phylogeny and testing them as calibration points for divergence time estimates in Menispermaceae

    Institute of Scientific and Technical Information of China (English)

    Frédéric M.B.JACQUES; Wei WANG; Rosa Del C.ORTIZ; Hong-Lei LI; Zhe-Kun ZHOU; Zhi-Duan CHEN

    2011-01-01

    The phylogeny of extant Menispermaceae (Ranunculales) is reconstructed based on DNA sequences of two chloroplast genes (rbcL and atpB) from 94 species belonging to 56 genera.Fossilized endocarps represent 34 genera.The positions of these are inferred using 30 morphological characters and the molecular phylogeny as a backbone constraint.Nine of the thirteen nodes that are each dated by a fossil are used as calibration points for the estimates of molecular divergence times.BEAST is used to estimate stem age (121.2 Myr) and crown age (105.4 Myr) for Menispermaceae.This method does not require an input tree topology and can also account for rate heterogeneity among lineages.The sensitivity of these estimates to fossil constraints is then evaluated by a cross-validation procedure.The estimated origin for Menispermaceae is dated to the mid-Jurassic ifthe customary maximum age of 125 Myr for eudicots is not implemented.All constraints when used alone failed to estimate node ages in some parts of the tree.Fossils from the Palaeocene and Eocene impose strict constraints.Likewise,the use of Prototinomiscium as a dating constraint for Menispermaceae appears to be a conservative approach.

  3. Evolution of Lycopodiaceae (Lycopsida): estimating divergence times from rbcL gene sequences by use of nonparametric rate smoothing.

    Science.gov (United States)

    Wikström, N; Kenrick, P

    2001-05-01

    By use of nonparametric rate smoothing and nucleotide sequences of the rbcL gene, divergence times in Lycopodiaceae are estimated. The results show that much extant species diversity in Lycopodiaceae stems from relatively recent cladogenic events. These results corroborate previous ideas based on paleobotanical and biogeographical data. Previous molecular phylogenetic analyses recognized a split into neotropical and paleotropical clades in Huperzia, which contains 85-90% of all living species. Connecting this biogeographical pattern with continent movements, the diversification of this epiphytic group was suggested to coincide with that of angiosperms in the mid to Late Cretaceous. Results presented here are consistent with this idea, and the diversification of the two clades is resolved as Late Cretacous (78 and 95 Myr). In the related genera Lycopodium and Lycopodiella, the patterns are somewhat different. Here species diversity is scattered among different subgeneric groups. Most of the high-diversity subgeneric groups seem to have diversified very recently (Late Tertiary), whereas the cladogenic events leading to these groups are much older (Early to Late Cretaceous). Our analysis shows that, although much living species diversity stems from relatively recent cladogenesis, the origins of the family (Early Carboniferous) and generic crown groups (Early Permian to Early Jurassic) are much more ancient events. PMID:11341801

  4. Diverging Cohesion?

    DEFF Research Database (Denmark)

    Charron, Nicholas

    2013-01-01

    −which we define here as a combination of impartial bureaucratic practices, corruption and the rule of law − limits, and in some cases reverses the tendency towards greater divergence linked to trade. Countries with high levels of state capacity − that is, those that have greater government effectiveness......, stronger rule of law and lower corruption − experience lower levels of divergence, as they have the mechanisms to counterbalance the strong centripetal forces linked to openness. This claim is tested on countries that have experienced relatively high levels of increases in levels of economic and political...

  5. Diversity of anopheline species and their Plasmodium infection status in rural Bandarban, Bangladesh

    Directory of Open Access Journals (Sweden)

    Alam Mohammad

    2012-07-01

    Full Text Available Abstract Background Historically, the Chittagong Hill Tracts (CHT of Bangladesh was considered hyperendemic for malaria. To better understand the contemporary malaria epidemiology and to develop new and innovative control strategies, comprehensive epidemiologic studies are ongoing in two endemic unions of Bandarban district of CHT. Within these studies entomological surveillance has been undertaken to study the role of the existing anopheline species involved in the malaria transmission cycle throughout the year. Methods CDC miniature light traps were deployed to collect anopheline mosquitoes from the sleeping room of the selected houses each month in a single union (Kuhalong. Molecular identification was carried out for available Anopheles species complexes. Circumsporozoite proteins (CSP for Plasmodium falciparum, Plasmodium vivax-210 (Pv-210 and Plasmodium vivax-247(Pv-247 were detected by Enzyme-linked immunosorbent assay (ELISA from the female anopheline mosquitoes. To confirm CSP-ELISA results, polymerase chain reaction (PCR was also performed. Results A total of 2,837 anopheline mosquitoes, of which 2,576 were female, belonging to 20 species were collected from July 2009 -June 2010. Anopheles jeyporiensis was the most abundant species (18.9%, followed by An. vagus (16.8% and An. kochi (14.4%. ELISA was performed on 2,467 female mosquitoes of 19 species. 15 (0.6% female anophelines belonging to eight species were found to be positive for Plasmodium infection by CSP-ELISA. Of those, 11 (0.4% mosquitoes were positive for P. falciparum and four (0.2% for Pv-210. No mosquito was found positive for Pv-247. An. maculatus (2.1%, 2/97 had the highest infection rate followed by An. umbrosus (1.7%, 2/115 and An. barbirostris (1.1%, 2/186. Other infected species were An. nigerrimus, An. nivipes, An. jeyporiensis, An. kochi, and An. vagus. Out of 11 P. falciparum CSP positive samples, seven turned out to be positive by PCR. None of the samples

  6. Characterization of larval habitats for anopheline mosquitoes in a malarious area under elimination program in the southeast of Iran

    Institute of Scientific and Technical Information of China (English)

    Moussa Soleimani-Ahmadi; Hassan Vatandoost; Mehdi Zare

    2014-01-01

    Objective: To determine the effects of environmental characteristics of larval habitats on distribution and abundance of anopheline mosquitoes in Bashagard county, a malarious area in southeast of Iran. Methods: Larvae were collected monthly using the standard dipping method and identified using a morphological-based key. Environmental characteristics of the larval habitats were recorded. Water samples were taken from habitats during larval collection for physico-chemical characterization. Statistical analyses were performed. Results: In total 5150 anopheline larvae from 36 larval habitats were collected and identified. They comprised of six species: Anopheles culicifacies (29.36%), Anopheles moghulensis (25.20%),Anopheles dthali stephensi (5.01%). (18.02%), Anopheles superpictus (17.24%), Anopheles turkhudi (5.17%) and Anopheles The most common larval habitats were natural and clear water bodies such as riverbeds with sandy substrates and still water. Furthermore, the anopheline larvae were abundant in permanent and full sunlight habitats without vegetation and algae. Larval density was positively correlated with water temperature. Chemical characteristics including conductivity, total alkalinity, sulphate and chloride had significant effects on distribution and abundance of anopheline species.Conclusions:The result of this study indicates a correlation between some environmental characteristics and anopheline larvae abundance which can be considered for effective planning and implementing malaria elimination program in Iran.

  7. Biogeography of the Pistia clade (Araceae): based on chloroplast and mitochondrial DNA sequences and Bayesian divergence time inference.

    Science.gov (United States)

    Renner, Susanne S; Zhang, Li-Bing

    2004-06-01

    Pistia stratiotes (water lettuce) and Lemna (duckweeds) are the only free-floating aquatic Araceae. The geographic origin and phylogenetic placement of these unrelated aroids present long-standing problems because of their highly modified reproductive structures and wide geographical distributions. We sampled chloroplast (trnL-trnF and rpl20-rps12 spacers, trnL intron) and mitochondrial sequences (nad1 b/c intron) for all genera implicated as close relatives of Pistia by morphological, restriction site, and sequencing data, and present a hypothesis about its geographic origin based on the consensus of trees obtained from the combined data, using Bayesian, maximum likelihood, parsimony, and distance analyses. Of the 14 genera closest to Pistia, only Alocasia, Arisaema, and Typhonium are species-rich, and the latter two were studied previously, facilitating the choice of representatives that span the roots of these genera. Results indicate that Pistia and the Seychelles endemic Protarum sechellarum are the basalmost branches in a grade comprising the tribes Colocasieae (Ariopsis, Steudnera, Remusatia, Alocasia, Colocasia), Arisaemateae (Arisaema, Pinellia), and Areae (Arum, Biarum, Dracunculus, Eminium, Helicodiceros, Theriophonum, Typhonium). Unexpectedly, all Areae genera are embedded in Typhonium, which throws new light on the geographic history of Areae. A Bayesian analysis of divergence times that explores the effects of multiple fossil and geological calibration points indicates that the Pistia lineage is 90 to 76 million years (my) old. The oldest fossils of the Pistia clade, though not Pistia itself, are 45-my-old leaves from Germany; the closest outgroup, Peltandreae (comprising a few species in Florida, the Mediterranean, and Madagascar), is known from 60-my-old leaves from Europe, Kazakhstan, North Dakota, and Tennessee. Based on the geographic ranges of close relatives, Pistia likely originated in the Tethys region, with Protarum then surviving on the

  8. Molecular and morphological phylogenetics of chelonine parasitoid wasps (Hymenoptera: Braconidae), with a critical assessment of divergence time estimations.

    Science.gov (United States)

    Kittel, Rebecca N; Austin, Andrew D; Klopfstein, Seraina

    2016-08-01

    Parasitoid wasps of the subfamily Cheloninae are both species rich and poorly known. Although the taxonomy of Cheloninae appears to be relatively stable, there is no clear understanding of relationships among higher-level taxa. We here applied molecular phylogenetic analyses using three markers (COI, EF1α, 28S) and 37 morphological characters to elucidate the evolution and systematics of these wasps. Analyses were based on 83 specimens representing 13 genera. All genera except Ascogaster, Phanerotoma, and Pseudophanerotoma formed monophyletic groups; Furcidentia (stat. rev.) is raised to generic rank. Neither Chelonus (Chelonus) nor Chelonus (Microchelonus) were recovered as monophyletic, but together formed a monophyletic lineage. The tribes Chelonini and Odontosphaeropygini formed monophyletic groups, but the Phanerotomini sensu Zettel and Pseudophanerotomini were retrieved as either para- or polyphyletic. The genera comprising the former subfamily Adeliinae were confirmed as being nested within the Cheloninae. To estimate the age of the subfamily, we used 16 fossil taxa. Three approaches were compared: fixed-rate dating, node dating, and total-evidence dating, with age estimates differing greatly between the three methods. Shortcomings of each approach in relation to our dataset are discussed, and none of the age estimates is deemed sufficiently reliable. Given that most dating studies use a single method only, in most cases without presenting analyses on the sensitivity to priors, it is likely that numerous age estimates in the literature suffer from a similar lack of robustness. We argue for a more rigorous approach to dating analyses and for a faithful presentation of uncertainties in divergence time estimates. Given the results of the phylogenetic analysis the following taxonomic changes are proposed: Furcidentia Zettel (stat. rev.), previously treated as a subgenus of Pseudophanerotoma Zettel is raised to generic rank; Microchelonus Szépligeti (syn. nov

  9. Molecular phylogeny and divergence times estimates of Lilium section Liriotypus (Liliaceae) based on plastid and nuclear ribosomal ITS DNA sequence data

    OpenAIRE

    İKİNCİ, Nursel

    2011-01-01

    In the present study the phylogeny and the biogeography of the genus Lilium L. section Liriotypus Asch. et Graebn. were investigated and divergence times for the section Liriotypus were calculated. The study group covers Lilium species from Europe, the Italian and Balkan peninsulas, Anatolia, and the Caucasus. Plastid DNA sequence data (the trnC-petN intergenic spacer and petN gene) and nuclear DNA ITS sequence data were used to infer the phylogenetic history of the section Liriotypus. Molecu...

  10. A three year study on distribution and ecology of Anophelines in Thenzawl, Mizoram, India.

    Science.gov (United States)

    Zomuanpuii, Rita; Guruswami, Gurusubramanian; Nachimuthu, Senthil Kumar

    2014-03-01

    A systematic survey on Anopheline species abundance, bionomics and habitat preference was conducted for three years in Thenzawl, Mizoram. A scoop-net method was employed for larval collection and a local made killing-jar for adults. A total of 10 species Anopheles campestris (25.8%), An. nivipes (24.0%), An. vagus (20.6%), An. jamesii (15.1%), An. jeyporiensis (11.4%), An. maculatus (1.7%), An. philippinensis (0.7%), An. annularis (0.26%), An. sinensis (0.23%) and An. peditaeniatus (0.22%) were collected. The survey site having thick tall grasses, numerous rural-huts as residents, small to relatively larger ponds and very slow running water bodies well shaded from sunlight with floating aquatic plants provided the largest area for Anopheles larvae breeding and accounted for 40% of all Anopheles larva and 25.4% total Anopheles spp. collected. An. campestris (NSK01), maculatus (NSK04), philippinensis (NSK06), nivipes (NSK10) and jeyporiensis (NSK09) were strongly anthropogenic and endophagic while vagus (NSK18) and jamesii (NSK03) were found to be highly zoophilic and exophilic and An. peditaeniatus (NSK02), annularis (NSK07) and sinensis (NSK15) were found to be highly zoophilic. Because of its abundance and bionomics, An. campestris, jeyporiensis and nivipes may have played a role in malarial transmission throughout the year. This is the first study reported on Anopheline distribution and abundance in Thenzawl, Mizoram. PMID:24665764

  11. Extensive homology of chicken macrochromosomes in the karyotypes of Trachemys scripta elegans and Crocodylus niloticus revealed by chromosome painting despite long divergence times.

    Science.gov (United States)

    Kasai, F; O'Brien, P C M; Martin, S; Ferguson-Smith, M A

    2012-01-01

    We report extensive chromosome homology revealed by chromosome painting between chicken (Gallus gallus domesticus, GGA, 2n = 78) macrochromosomes (representing 70% of the chicken genome) and the chromosomes of a turtle, the red-eared slider (Trachemys scripta elegans, TSC, 2n = 50), and the Nile crocodile (Crocodylus niloticus, CNI, 2n = 32). Our data show that GGA1-8 arms seem to be conserved in the arms of TSC chromosomes, GGA1-2 arms are separated and homologous to CNI1p, 3q, 4q and 5q. In addition to GGAZ homologues in our previous study, large-scale GGA autosome syntenies have been conserved in turtle and crocodile despite hundreds of millions of years divergence time. Based on phylogenetic hypotheses that crocodiles diverged after the divergence of birds and turtles, our results in CNI suggest that GGA1-2 and TSC1-2 represent the ancestral state and that chromosome fissions followed by fusions have been the mechanisms responsible for the reduction of chromosome number in crocodiles. PMID:22572532

  12. Environmental characteristics of anopheline mosquito larval habitats in a malaria endemic area in Iran

    Institute of Scientific and Technical Information of China (English)

    Moussa Soleimani-Ahmadi; Hassan Vatandoost; Ahmad-Ali Hanafi-Bojd; Mehdi Zare; Reza Safari; Abdolrasul Mojahedi; Fatemeh Poorahmad-Garbandi

    2013-01-01

    Objective: To determine the effects of environmental parameters of larval habitats on distribution and abundance of anopheline mosquitoes in Rudan county of Iran. Methods: This cross-sectional study was conducted during the mosquito breeding season from February 2010 to October 2011. The anopheline larvae were collected using the standard dipping method. The specimens were identified using a morphological-based key. Simultaneously with larval collection, environmental parameters of the larval habitats including water current and turbidity, sunlight situation, and substrate type of habitats were recorded. Water samples were taken from breeding sites during larval collection. Before collection of samples, the water temperature was measured. The water samples were analysed for turbidity, conductivity, total alkalinity, total dissolved solid, pH and ions including chloride, sulphate, calcium, and magnesium. Statistical correlation analysis and ANOVA test were used to analyze the association between environmental parameters and larval mosquito abundance. Results: In total 2 973 larvae of the genus Anopheles were collected from 25 larval habitats and identified using morphological characters. They comprised of six species:An. dthali turkhudi (3.30%), and An. apoci (1.14%). The most abundant species was An. dthali which were collected from all of the study areas. Larvae of two malaria vectors, An. dthali and An. stephensi, co-existed and collected in a wide range of habitats with different physico-chemical parameters. The most common larval habitats were man-made sites such as sand mining pools with clean and still water. The anopheline mosquitoes also preferred permanent habitats in sunlight with sandy substrates. The results indicated that there was a significant relationship between mean physico-chemical parameters such as water temperature, conductivity, total alkalinity, sulphate, chloride, and mosquito distribution and abundance. Conclusions: The results of this

  13. The ecology and larval habitats characteristics of anopheline mosquitoes (Diptera:Culicidae) in Aligudarz County (Luristan province, western Iran)

    Institute of Scientific and Technical Information of China (English)

    Hamid Amani; Mohammad Reza Yaghoobi-Ershadi; Hamid Kassiri

    2014-01-01

    Objective: To determine ecology and characteristics of the larval habitats of the genus Anopheles (Dipetra: Culicidae) in Aligudarz County, western Iran.Methods:larvae ecology in seven rural districts, Aligudarz County, from late April to late November 1997. Larvae were captured using the dipping method. Larval breeding places characteristics were noted according to water situation (turbid or clean, stagnant or running), substrate type, site type (man-made or natural), sunlight situation, site situation (transient or permanent, with or without vegetation). This descriptive cross-sectional research was carried out to study the anopheline Results: A total of 9 620 3rd and 4th instar larvae of Anopheles from 115 breeding places in 22 villages were captured, which belonged to the following species: Anopheles stephensi, Anopheles d’thali, Anopheles apoci, Anopheles superpictus (forms A and B), Anopheles marterii sogdianus, Anopheles turkhodi, Anopheles maculipennis S.L and Anopheles claviger. Anopheles stephensi,Anopheles maculipennis Anopheles superpictus (93.18%) was the most prevailed one and dispersed over the entire region. Larval habitats consisted of nine natural and three artificial larval habitats. The most important larval habitats were river edges (54.8%), rice fields (12.2%), and grassland (8.7%) with permanent or transient, stagnant or running and clean water, with or without vegetation, sand or mud substrate in full sunlight area.Conclusions:Regarding this research, river edges and rice fields are the most important S.L and Anopheles apoci were collected for the first time in this county. breeding places of malaria vectors in Aligudarz County. It is worthy of note in larvicidal programs.

  14. Anopheline larval habitats seasonality and species distribution: a prerequisite for effective targeted larval habitats control programmes.

    Directory of Open Access Journals (Sweden)

    Eliningaya J Kweka

    Full Text Available BACKGROUND: Larval control is of paramount importance in the reduction of malaria vector abundance and subsequent disease transmission reduction. Understanding larval habitat succession and its ecology in different land use managements and cropping systems can give an insight for effective larval source management practices. This study investigated larval habitat succession and ecological parameters which influence larval abundance in malaria epidemic prone areas of western Kenya. METHODS AND FINDINGS: A total of 51 aquatic habitats positive for anopheline larvae were surveyed and visited once a week for a period of 85 weeks in succession. Habitats were selected and identified. Mosquito larval species, physico-chemical parameters, habitat size, grass cover, crop cycle and distance to nearest house were recorded. Polymerase chain reaction revealed that An. gambiae s.l was the most dominant vector species comprised of An.gambiae s.s (77.60% and An.arabiensis (18.34%, the remaining 4.06% had no amplification by polymerase chain reaction. Physico-chemical parameters and habitat size significantly influenced abundance of An. gambiae s.s (P = 0.024 and An. arabiensis (P = 0.002 larvae. Further, larval species abundance was influenced by crop cycle (P≤0.001, grass cover (P≤0.001, while distance to nearest houses significantly influenced the abundance of mosquito species larvae (r = 0.920;P≤0.001. The number of predator species influenced mosquito larval abundance in different habitat types. Crop weeding significantly influenced with the abundance of An.gambiae s.l (P≤0.001 when preceded with fertilizer application. Significantly higher anopheline larval abundance was recorded in habitats in pasture compared to farmland (P = 0.002. When habitat stability and habitat types were considered, hoof print were the most productive followed by disused goldmines. CONCLUSION: These findings suggest that implementation of effective larval

  15. Risks of alcohol-attributable hospitalisation and death in Australia over time: Evidence of divergence by region, age and sex.

    Directory of Open Access Journals (Sweden)

    Richard Pascal

    2013-03-01

    Full Text Available BackgroundPast reports on trends of alcohol consumption and related harm have generally been descriptive in nature and have not provided evidence of whether changes over time are significant.AimsWe investigated whether: (i the risk of alcohol-attributable hospitalisation and death between 1994 and 2005 for three different age groups changed significantly across all Australian jurisdictions; and (ii the relative rates of hospitalisation for males and females changed over time.MethodEstimates of alcohol-attributable hospitalisations and deaths were calculated using the aetiologic fraction method. Hospitalisations and deaths were grouped by age: 15-29 years, 30-44 years and 45+ years. Risk estimates and risk differences were analysed using Poisson regression.ResultsRisk of alcohol-attributable hospital separations increased nationally and across most jurisdictions throughout the study period. Male and female rates converged over time. Alcohol-attributable deaths decreased nationally across the three age groups and across several jurisdictions beginning in the mid-1990s.ConclusionNationally, alcohol-attributable deaths declined while hospitalisations rose. However, states with higher population density tended to drive national rates, with considerable variation by jurisdiction. The conditions which dominated hospitalisations (e.g. alcohol dependence, falls differed substantially from those underlying alcoholattributable deaths (e.g. alcoholic liver cirrhosis, road crashes. Jurisdictional variation in death and hospitalisations rates as well as changes over time may be partly due to differences in: regulation of alcohol supply; patterns and levels of alcohol consumption; the nature and effectiveness of law enforcement; demographic characteristics of general and sub-populations; and medical health services and screening for chronic conditions.

  16. Relationships between anopheline mosquitoes and topography in West Timor and Java, Indonesia

    Directory of Open Access Journals (Sweden)

    Ndoen Ermi

    2010-08-01

    Full Text Available Abstract Background Malaria is a serious health issue in Indonesia. Mosquito control is one aspect of an integrated malaria management programme. To focus resources on priority areas, information is needed about the vectors and their habitats. This research aimed to identify the relationship between anopheline mosquitoes and topography in West Timor and Java. Methods Study areas were selected in three topographic types in West Timor and Java. These were: coastal plain, hilly (rice field and highland. Adult mosquitoes were captured landing on humans identified to species level and counted. Results Eleven species were recorded, four of which were significant for malaria transmission: Anopheles aconitus, Anopheles barbirostris, Anopheles subpictus and Anopheles sundaicus. Each species occupied different topographies, but only five were significantly associated: Anopheles annularis, Anopheles vagus and Anopheles subpictus (Java only with hilly rice fields; Anopheles barbirostris, Anopheles maculatus and Anopheles subpictus (West Timor only with coastal areas. Conclusion Information on significant malaria vectors associated with specific topography is useful for planning the mosquito control aspect of malaria management.

  17. Observations on anopheline breeding in relation to aquatic plants in different breeding habitats of Kheda (Gujarat).

    Science.gov (United States)

    Kant, Rajni; Srivastava, H C

    2004-09-01

    Water bodies infested with aquatic vegetations may pose problems in mosquito control through bio-environmental methods. Paucity of information pertaining to association of mosquito breeding with aquatic vegetation was the basis for present investigation. The mosquito breeding sites infested with solitary/dominating plant community viz., Eichhornia crassipes, Ipomoea aquatica, Hydrilla verticillata, Nymphea neuchali, Trapa bispinosa, Lemna paucicostata, Trachelomonas spp., Azolla pinnata, Algae spp. and Cynodon dactylon were selected for the study. The investigation revealed that breeding of eleven anopheline species was associated with Eichhornia in different habitats followed by Hydrilla, algae and Cynodon (8 each), Ipomoea and Trapa (6), Lemna. and Nymphea (5), Azolla and Trachelomonas (4). An. subpictus was associated with all types of vegetation. An. annularis, An. nigerrimus and An. barbirostris were associated with nine plant species. An. culicifacies, the principal malaria vector was found breeding in association with seven aquatic plants and showed strong association with Cynodon, Hydrilla and algae. The species diversity in habitats infested with Hydrilla, algae and Cynodon seems to be most favourable for the breeding of An. culicifacies. It is suggested that thinning or removal of such vegetations at regular interval may help to reduce vector population and enhance the efficacy of biological control agents particularly the larvivorous fishes in such habitats. PMID:16509256

  18. Investigations on anopheline mosquitoes close to the nest sites of chimpanzees subject to malaria infection in Ugandan Highlands

    Directory of Open Access Journals (Sweden)

    Krief Sabrina

    2012-04-01

    Full Text Available Abstract Background Malaria parasites (Plasmodium sp., including new species, have recently been discovered as low grade mixed infections in three wild chimpanzees (Pan troglodytes schweinfurthii sampled randomly in Kibale National Park, Uganda. This suggested a high prevalence of malaria infection in this community. The clinical course of malaria in chimpanzees and the species of the vectors that transmit their parasites are not known. The fact that these apes display a specific behaviour in which they consume plant parts of low nutritional value but that contain compounds with anti-malarial properties suggests that the apes health might be affected by the parasite. The avoidance of the night-biting anopheline mosquitoes is another potential behavioural adaptation that would lead to a decrease in the number of infectious bites and consequently malaria. Methods Mosquitoes were collected over two years using suction-light traps and yeast-generated CO2 traps at the nesting and the feeding sites of two chimpanzee communities in Kibale National Park. The species of the female Anopheles caught were then determined and the presence of Plasmodium was sought in these insects by PCR amplification. Results The mosquito catches yielded a total of 309 female Anopheles specimens, the only known vectors of malaria parasites of mammalians. These specimens belonged to 10 species, of which Anopheles implexus, Anopheles vinckei and Anopheles demeilloni dominated. Sensitive DNA amplification techniques failed to detect any Plasmodium-positive Anopheles specimens. Humidity and trap height influenced the Anopheles capture success, and there was a negative correlation between nest numbers and mosquito abundance. The anopheline mosquitoes were also less diverse and numerous in sites where chimpanzees were nesting as compared to those where they were feeding. Conclusions These observations suggest that the sites where chimpanzees build their nests every night might be

  19. Multiple insecticide resistance mechanisms involving metabolic changes and insensitive target sites selected in anopheline vectors of malaria in Sri Lanka

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    Karunaratne SHP Parakrama

    2008-08-01

    Full Text Available Abstract Background The current status of insecticide resistance and the underlying resistance mechanisms were studied in the major vector of malaria, Anopheles culicifacies, and the secondary vector, Anopheles subpictus in five districts (Anuradhapura, Kurunegala, Moneragala, Puttalam and Trincomalee of Sri Lanka. Eight other anophelines, Anopheles annularis, Anopheles barbirostris, Anopheles jamesii, Anopheles nigerrimus, Anopheles peditaeniatus, Anopheles tessellatus, Anopheles vagus and Anopheles varuna from Anuradhapura district were also tested. Methods Adult females were exposed to the WHO discriminating dosages of DDT, malathion, fenitrothion, propoxur, λ-cyhalothrin, cyfluthrin, cypermethrin, deltamethrin, permethrin and etofenprox. The presence of metabolic resistance by esterase, glutathione S-transferase (GST and monooxygenase-based mechanisms, and the sensitivity of the acetylcholinesterase target site were assessed using synergists, and biochemical, and metabolic techniques. Results All the anopheline species had high DDT resistance. All An. culicifacies and An. subpictus populations were resistant to malathion, except An. culicifacies from Kurunegala, where there was no malathion carboxylesterase activity. Kurunegala and Puttalam populations of An. culicifacies were susceptible to fenitrothion. All the An. culicifacies populations were susceptible to carbamates. Both species were susceptible to the discriminating dosages of cypermethrin and cyfluthrin, but had different levels of resistance to other pyrethroids. Of the 8 other anophelines, only An. nigerrimus and An. peditaeniatus were resistant to all the insecticides tested, probably due to their high exposure to the insecticides used in agriculture. An. vagus showed some resistance to permethrin. Esterases, GSTs and monooxygenases were elevated in both An. culicifacies and An. subpictus. AChE was most sensitive to insecticides in Kurunegala and Trincomalee An. culicifacies

  20. Affinity and diversity indices for anopheline immature forms Afinidade e diversidade de formas imaturas de anofelinos

    Directory of Open Access Journals (Sweden)

    Lucy Nagm

    2007-10-01

    Full Text Available As for the entire Amazon Region, malaria continues to be a major health public problem in Roraima that presented an Annual Parasitic Index of 85.4 in 2005, the highest in Brazil. Information on anopheline breeding sites is an essential component in malaria control strategies. Aiming to contribute to the limited knowledge on anopheline immature forms in Roraima, collections and breeding site observations were performed in 10 breeding sites around the capital city Boa Vista. Collections were carried out in the rainy and dry season periods between April 2004 and January 2005. Breeding sites comprised natural and artificial water reservoirs. A total of 623 immature forms were collected belonging to Anopheles albitarsis s.l., An.triannulatus s.l., An. nuneztovari/dunhami, An. braziliensis, An. evansae, An. oswaldoi s.l., An. strodei and An. darlingi. An. albitarsis and An. braziliensis were the most frequently found species. Eight larvae of An. darlingi were found in only one breeding site located in the forest. An. triannulatus/An. nuneztovari and An. albitarsis/An. braziliensis were the pairs of species that mostly occurred together. Both pair of species displayed the highest affinity index what might indicate a high compatibility for the same breeding conditions and/or a synergistic co-occurrence. Species diversity index was higher for the dry season.Como para toda a Amazônia, a malária representa um importante problema de saúde pública em Roraima. Roraima apresentou um índice parasitário anual de 85,4 em 2005, o maior do Brasil. O conhecimento dos criadouros de anofelinos constitui-se num componente primordial nas estratégias de controle da malária. No intuito de contribuir para o limitado conhecimento dos criadouros de anofelinos em Roraima, coleções de imaturos e observações dos criadouros foram realizadas no entorno da capital Boa Vista. As coletas foram feitas nas estações seca e chuvosa entre abril de 2004 e janeiro de 2005. Os

  1. Anofelinos de Santa Catarina (Diptera: Culicidae, Brasil Anophelines of Santa Catarina (Diptera: Culicidae, Brazil

    Directory of Open Access Journals (Sweden)

    Maria da Graça Teixeira Portes

    2010-04-01

    likelihood of reintroduction of the disease. METHODS: The following data were used: the database of the Entomology Group of the National Health Foundation, Santa Catarina (ACCES, 1997-2000; the epidemiological surveillance information system of the Health Surveillance Department (Malaria/SC; and the notifiable disease information system (SINAN/SC. These data were transferred to and analyzed in the Microsoft Office Excel 2007 software. RESULTS: Collections were carried out in 48 municipalities and 159 localities, and 12,310 culicids, 11,546 anophelines (93.7% and 764 others (6.2% were identified. Three subgenera and 13 species of anophelines were identified. CONCLUSIONS: Given that in the municipalities investigated, important vectors such as Anopheles cruzii and Anopheles albitasis were found to be present, with movements of infected individuals from endemic areas, these areas can be considered to be receptive and vulnerable to malaria. These species are suspected of being responsible for malaria transmission in this region, especially in the municipalities of Gaspar, Indaial and Rodeio.

  2. Anopheline (Diptera:Culicidae) breeding in a traditional tank-based village ecosystem in north central Sri Lanka

    DEFF Research Database (Denmark)

    Amerasinghe, F P; Konradsen, F; Fonseka, K T;

    1997-01-01

    A 13-mo survey of immature anopheline mosquitoes breeding in surface water habitats was done at Mahameegaswewa village within the Huruluwewa watershed in north central Sri Lanka as part of a multidisciplinary study on malaria epidemiology. The watershed is representative of the ancient small tank....... A clear progression in breeding habitat use from stream bed to tank bed and drainage area pools was seen in An. culicifacies during the premonsoon period. Environmental management measures to reduce or modify these habitats could potentially decrease malaria. transmission....

  3. Modified H5 real-time reverse transcriptase-PCR oligonucleotides for detection of divergent avian influenza H5N1 viruses in Egypt.

    Science.gov (United States)

    Abdelwhab, E M; Abdelwhab, El-Sayed M; Arafa, Abdel-Satar; Erfan, Ahmed M; Aly, Mona M; Hafez, Hafez M

    2010-12-01

    The efforts exerted to prevent circulation of highly pathogenic avian influenza (HPAI) H5N1 virus in birds are the best way to prevent the emergence of a new virus subtype with pandemic potential. Despite the blanket vaccination strategy against HPAI H5N1 in Egypt, continuous circulation of the virus in poultry has increased since late 2007 as a result of the presence of genetic and antigenic distinct variant strains that have escaped during the immune response of vaccinated birds. Although the suspected poultry flocks have had signs and lesions commonly seen in HPAI H5N1-infected birds, escape of variant strains from detection by real-time reverse transcriptase-PCR (RRT-PCR) was observed. Sequence analysis of these variants revealed multiple single nucleotide substitutions in the primers and probe target sequences of the H5 gene by real-time RT-PCR. This study describes the results of RRT-PCR, modified from an existing protocol with regard to the detection of the partial H5 gene segment of the Egyptian H5N1 divergent viruses and applied to nationwide surveillance. The modified RRT-PCR assay was more sensitive than the original one in the detection of Egyptian isolates, with 104% amplification efficiency. Sixty-one field samples were found to be positive in our assay, but only 51 samples tested positive by the original protocol and were more sensitive than matrix gene RRT-PCR detection assay. A detection limit of 10 mean embryo infective dose (EID50) with the updated oligonucleotides primers and probe set was found. For the foreseeable future, mutation of H5N1 viruses and the endemic situation in developing countries require continuous improvement of current diagnostics to aid in the containment of the H5N1 virus in poultry sectors and to lower the threat of influenza virus spread. PMID:21313854

  4. Divergent Cumulative Cultural Evolution

    OpenAIRE

    Marriott, Chris; Chebib, Jobran

    2016-01-01

    Divergent cumulative cultural evolution occurs when the cultural evolutionary trajectory diverges from the biological evolutionary trajectory. We consider the conditions under which divergent cumulative cultural evolution can occur. We hypothesize that two conditions are necessary. First that genetic and cultural information are stored separately in the agent. Second cultural information must be transferred horizontally between agents of different generations. We implement a model with these ...

  5. Operational use of neem oil as an alternative anopheline larvicide. Part B: Environmental impact and toxicological potential.

    Science.gov (United States)

    Awad, O M

    2003-07-01

    This study was conducted to investigate the preliminary environmental and mammalian toxicology of neem oil, temephos and chlorpyriphos-methyl/fenitrothion. Culex pipiens, Daphnia magna and Gambusia affinis were used to study environmental impact. A high level of toxicity was observed, with slight differences between organisms. The emulsifiers individually also displayed toxicity towards the tested organisms. Up to 90 days daily oral crude neem oil treatment (5 g/kg body weight) of laboratory mice did not cause any significant changes in weekly body weight gain, nor in serum liver damage indicators, direct bilirubin or total bilirubin. Blood parameters of treated mice up to 90 days were not statistically different from those of control mice. Neem oil could be used as an environmentally friendly alternative to the traditional chemical anopheline larvicides. PMID:15748062

  6. Atom laser divergence

    OpenAIRE

    Le Coq, Yann; Thywissen, Joseph H.; Rangwala, Sadiq A.; Gerbier, Fabrice; Richard, Simon; Delannoy, Guillaume; Bouyer, Philippe; Aspect, Alain

    2001-01-01

    We measure the angular divergence of a quasi-continuous, rf-outcoupled, free-falling atom laser as a function of the outcoupling frequency. The data is compared to a Gaussian-beam model of laser propagation that generalizes the standard formalism of photonic lasers. Our treatment includes diffraction, magnetic lensing, and interaction between the atom laser and the condensate. We find that the dominant source of divergence is the condensate-laser interaction.

  7. Mitochondrial genomes and divergence times of crocodile newts: inter-islands distribution of Echinotriton andersoni and the origin of a unique repetitive sequence found in Tylototriton mt genomes.

    Science.gov (United States)

    Kurabayashi, Atsushi; Nishitani, Takuma; Katsuren, Seiki; Oumi, Shohei; Sumida, Masayuki

    2012-01-01

    Crocodile newts, which constitute the genera Echinotriton and Tylototriton, are known as living fossils, and these genera comprise many endangered species. To identify mitochondrial (mt) genes suitable for future population genetic analyses for endangered taxa, we determined the complete nucleotide sequences of the mt genomes of the Japanese crocodile newt Echinotriton andersoni and Himalayan crocodile newt Tylototriton verrucosus. Although the control region (CR) is known as the most variable mtDNA region in many animal taxa, the CRs of crocodile newts are highly conservative. Rather, the genes of NADH dehydrogenase subunits and ATPase subunit 6 were found to have high sequence divergences and to be usable for population genetics studies. To estimate the inter-population divergence ages of E. andersoni endemic to the Ryukyu Islands, we performed molecular dating analysis using whole and partial mt genomic data. The estimated divergence ages of the inter-island individuals are older than the paleogeographic segmentation ages of the islands, suggesting that the lineage splits of E. andersoni populations were not caused by vicariant events. Our phylogenetic analysis with partial mt sequence data also suggests the existence of at least two more undescribed species in the genus Tylototriton. We also found unusual repeat sequences containing the 3' region of cytochrome apoenzyme b gene, whole tRNA-Thr gene, and a noncoding region (the T-P noncoding region characteristic in caudate mtDNAs) from T. verrucosus mtDNA. Similar repeat sequences were found in two other Tylototriton species. The Tylototriton taxa with the repeats become a monophyletic group, indicating a single origin of the repeat sequences. The intra-and inter-specific comparisons of the repeat sequences suggest the occurrences of homologous recombination-based concerted evolution among the repeat sequences. PMID:22531793

  8. Molecular phylogeny of two unusual brown algae, Phaeostrophion irregulare and Platysiphon glacialis, proposal of the Stschapoviales ord. nov. and Platysiphonaceae fam. nov., and a re-examination of divergence times for brown algal orders.

    Science.gov (United States)

    Kawai, Hiroshi; Hanyuda, Takeaki; Draisma, Stefano G A; Wilce, Robert T; Andersen, Robert A

    2015-10-01

    The molecular phylogeny of brown algae was examined using concatenated DNA sequences of seven chloroplast and mitochondrial genes (atpB, psaA, psaB, psbA, psbC, rbcL, and cox1). The study was carried out mostly from unialgal cultures; we included Phaeostrophion irregulare and Platysiphon glacialis because their ordinal taxonomic positions were unclear. Overall, the molecular phylogeny agreed with previously published studies, however, Platysiphon clustered with Halosiphon and Stschapovia and was paraphyletic with the Tilopteridales. Platysiphon resembled Stschapovia in showing remarkable morphological changes between young and mature thalli. Platysiphon, Halosiphon and Stschapovia also shared parenchymatous, terete, erect thalli with assimilatory filaments in whorls or on the distal end. Based on these results, we proposed a new order Stschapoviales and a new family Platysiphonaceae. We proposed to include Phaeostrophion in the Sphacelariales, and we emended the order to include this foliose member. Finally, using basal taxa not included in earlier studies, the origin and divergence times for brown algae were re-investigated. Results showed that the Phaeophyceae branched from Schizocladiophyceae ~260 Ma during the Permian Period. The early diverging brown algae had isomorphic life histories, whereas the derived taxa with heteromorphic life histories evolved 155-110 Ma when they branched from the basal taxa. Based on these results, we propose that the development of heteromorphic life histories and their success in the temperate and cold-water regions was induced by the development of the remarkable seasonality caused by the breakup of Pangaea. Most brown algal orders had diverged by roughly 60 Ma, around the last mass extinction event during the Cretaceous Period, and therefore a drastic climate change might have triggered the divergence of brown algae. PMID:26986888

  9. Zero modes and divergence of entanglement entropy

    CERN Document Server

    Mallayya, Krishnanand; Shankaranarayanan, S; Padmanabhan, T

    2014-01-01

    We investigate the cause of the divergence of the entanglement entropy for the free scalar fields in $(1+1)$ and $(D + 1)$ dimensional space-times. In a canonically equivalent set of variables, we show explicitly that the divergence in the entanglement entropy in $(1 + 1)-$ dimensions is due to the accumulation of large number of near-zero frequency modes as opposed to the commonly held view of divergence having UV origin. The feature revealing the divergence in zero modes is related to the observation that the entropy is invariant under a hidden scaling transformation even when the Hamiltonian is not. We discuss the role of dispersion relations and the dimensionality of the space-time on the behavior of entanglement entropy.

  10. Mitochondrial DNA variation within and between two species of neotropical anopheline mosquitoes (Diptera:Culicidae).

    Science.gov (United States)

    Conn, J E; Mitchell, S E; Cockburn, A F

    1997-01-01

    We analyzed variation in mitochondrial DNA (mtDNA) of two neotropical mosquitoes, Anopheles rangeli (n = 181) and A. trinkae (n = 45), with very different distribution patterns in Latin America, to assess species boundaries for these putative sister taxa and to examine population genetic structure. Phylogenetic analyses revealed (1) support for the monophyletic origin of each species; (2) diagnostic restriction site differences between the species; (3) geographic partitioning of haplotypes by country in A. rangeli from Bolivia, Ecuador, and Venezuela compared with considerable overlap in haplotypes of A. trinkae from Bolivia and Ecuador; and (4) similar levels of mean haplotype and nucleotide diversity in both species, but lower levels of mean nucleotide divergence in A. trinkae compared with A. rangeli. We hypothesize that higher maternal gene flow and lower divergence in A. trinkae are most likely due either to a distinctive matrilineal history or to a smaller effective population size, which may have been influenced by a smaller, essentially linear geographic range along the eastern flank of the Andes. In the cladistic analysis of A. rangell, the Bolivian haplotypes appear to be more derived than those from Ecuador or Venezuela, yet there is no evidence to support the hypothesis of a recent range expansion from Ecuador into Bolivia. PMID:9099005

  11. Metagenomics, paratransgenesis and the Anopheles microbiome: a portrait of the geographical distribution of the anopheline microbiota based on a meta-analysis of reported taxa

    Directory of Open Access Journals (Sweden)

    Luis Martínez Villegas

    2014-08-01

    Full Text Available Anophelines harbour a diverse microbial consortium that may represent an extended gene pool for the host. The proposed effects of the insect microbiota span physiological, metabolic and immune processes. Here we synthesise how current metagenomic tools combined with classical culture-dependent techniques provide new insights in the elucidation of the role of the Anopheles-associated microbiota. Many proposed malaria control strategies have been based upon the immunomodulating effects that the bacterial components of the microbiota appear to exert and their ability to express anti-Plasmodium peptides. The number of identified bacterial taxa has increased in the current “omics” era and the available data are mostly scattered or in “tables” that are difficult to exploit. Published microbiota reports for multiple anopheline species were compiled in an Excel® spreadsheet. We then filtered the microbiota data using a continent-oriented criterion and generated a visual correlation showing the exclusive and shared bacterial genera among four continents. The data suggested the existence of a core group of bacteria associated in a stable manner with their anopheline hosts. However, the lack of data from Neotropical vectors may reduce the possibility of defining the core microbiota and understanding the mosquito-bacteria interactive consortium.

  12. Convergence or Divergence?

    DEFF Research Database (Denmark)

    Lema, Rasmus; Zhou, Yuan; Sagar, Ambuj

    2016-01-01

    characteristics and therefore differ along key dimensions, the increasing roles of cross-national firm interactions amplify tendencies towards global convergence. These patterns of divergence and convergence can potentially enhance the contribution of wind power to the low-carbon technology transition but also...

  13. Decoherence and infrared divergence

    Indian Academy of Sciences (India)

    J Kupsch

    2002-08-01

    The dynamics of a particle which is linearly coupled to a boson field is investigated. The boson field induces superselection rules for the momentum of the particle, if the field is infrared divergent. Thereby the Hamiltonian of the total system remains bounded from below.

  14. Field study site selection, species abundance and monthly distribution of anopheline mosquitoes in the northern Kruger National Park, South Africa

    Science.gov (United States)

    2014-01-01

    Background Knowledge of the ecology and behaviour of a target species is a prerequisite for the successful development of any vector control strategy. Before the implementation of any strategy it is essential to have comprehensive information on the bionomics of species in the targeted area. The aims of this study were to conduct regular entomological surveillance and to determine the relative abundance of anopheline species in the northern Kruger National Park. In addition to this, the impact of weather conditions on an Anopheles arabiensis population were evaluated and a range of mosquito collection methods were assessed. Methods A survey of Anopheles species was made between July 2010 and December 2012. Mosquitoes were collected from five sites in the northern Kruger National Park, using carbon dioxide-baited traps, human landing and larval collections. Specimens were identified morphologically and polymerase chain reaction assays were subsequently used where appropriate. Results A total of 3,311 specimens belonging to nine different taxa was collected. Species collected were: Anopheles arabiensis (n = 1,352), Anopheles quadriannulatus (n = 870), Anopheles coustani (n = 395), Anopheles merus (n = 349), Anopheles pretoriensis (n = 35), Anopheles maculipalpis (n = 28), Anopheles rivulorum (n = 19), Anopheles squamosus (n = 3) and Anopheles rufipes (n = 2). Members of the Anopheles gambiae species complex were the most abundant and widely distributed, occurring across all collection sites. The highest number of mosquitoes was collected using CO2 baited net traps (58.2%) followed by human landing catches (24.8%). Larval collections (17%) provided an additional method to increase sample size. Mosquito sampling productivity was influenced by prevailing weather conditions and overall population densities fluctuated with seasons. Conclusion Several anopheline species occur in the northern Kruger National Park and their densities

  15. The origin and early evolution of Sauria: reassessing the permian Saurian fossil record and the timing of the crocodile-lizard divergence.

    Science.gov (United States)

    Ezcurra, Martín D; Scheyer, Torsten M; Butler, Richard J

    2014-01-01

    Sauria is the crown-group of Diapsida and is subdivided into Lepidosauromorpha and Archosauromorpha, comprising a high percentage of the diversity of living and fossil tetrapods. The split between lepidosauromorphs and archosauromorphs (the crocodile-lizard, or bird-lizard, divergence) is considered one of the key calibration points for molecular analyses of tetrapod phylogeny. Saurians have a very rich Mesozoic and Cenozoic fossil record, but their late Paleozoic (Permian) record is problematic. Several Permian specimens have been referred to Sauria, but the phylogenetic affinity of some of these records remains questionable. We reexamine and review all of these specimens here, providing new data on early saurian evolution including osteohistology, and present a new morphological phylogenetic dataset. We support previous studies that find that no valid Permian record for Lepidosauromorpha, and we also reject some of the previous referrals of Permian specimens to Archosauromorpha. The most informative Permian archosauromorph is Protorosaurus speneri from the middle Late Permian of Western Europe. A historically problematic specimen from the Late Permian of Tanzania is redescribed and reidentified as a new genus and species of basal archosauromorph: Aenigmastropheus parringtoni. The supposed protorosaur Eorasaurus olsoni from the Late Permian of Russia is recovered among Archosauriformes and may be the oldest known member of the group but the phylogenetic support for this position is low. The assignment of Archosaurus rossicus from the latest Permian of Russia to the archosauromorph clade Proterosuchidae is supported. Our revision suggests a minimum fossil calibration date for the crocodile-lizard split of 254.7 Ma. The occurrences of basal archosauromorphs in the northern (30°N) and southern (55°S) parts of Pangea imply a wider paleobiogeographic distribution for the group during the Late Permian than previously appreciated. Early archosauromorph growth

  16. The origin and early evolution of Sauria: reassessing the permian Saurian fossil record and the timing of the crocodile-lizard divergence.

    Directory of Open Access Journals (Sweden)

    Martín D Ezcurra

    Full Text Available Sauria is the crown-group of Diapsida and is subdivided into Lepidosauromorpha and Archosauromorpha, comprising a high percentage of the diversity of living and fossil tetrapods. The split between lepidosauromorphs and archosauromorphs (the crocodile-lizard, or bird-lizard, divergence is considered one of the key calibration points for molecular analyses of tetrapod phylogeny. Saurians have a very rich Mesozoic and Cenozoic fossil record, but their late Paleozoic (Permian record is problematic. Several Permian specimens have been referred to Sauria, but the phylogenetic affinity of some of these records remains questionable. We reexamine and review all of these specimens here, providing new data on early saurian evolution including osteohistology, and present a new morphological phylogenetic dataset. We support previous studies that find that no valid Permian record for Lepidosauromorpha, and we also reject some of the previous referrals of Permian specimens to Archosauromorpha. The most informative Permian archosauromorph is Protorosaurus speneri from the middle Late Permian of Western Europe. A historically problematic specimen from the Late Permian of Tanzania is redescribed and reidentified as a new genus and species of basal archosauromorph: Aenigmastropheus parringtoni. The supposed protorosaur Eorasaurus olsoni from the Late Permian of Russia is recovered among Archosauriformes and may be the oldest known member of the group but the phylogenetic support for this position is low. The assignment of Archosaurus rossicus from the latest Permian of Russia to the archosauromorph clade Proterosuchidae is supported. Our revision suggests a minimum fossil calibration date for the crocodile-lizard split of 254.7 Ma. The occurrences of basal archosauromorphs in the northern (30°N and southern (55°S parts of Pangea imply a wider paleobiogeographic distribution for the group during the Late Permian than previously appreciated. Early archosauromorph

  17. Divergent flow isoelectric focusing

    Czech Academy of Sciences Publication Activity Database

    Šlais, Karel

    2008-01-01

    Roč. 29, č. 12 (2008), s. 2451-2457. ISSN 0173-0835 R&D Projects: GA AV ČR IAAX00310701; GA ČR GA203/06/1179 Institutional research plan: CEZ:AV0Z40310501 Keywords : isoelectric focusing * divergent flow * pI markers Subject RIV: CB - Analytical Chemistry, Separation Impact factor: 3.509, year: 2008

  18. Divergent flow isoelectric focusing

    Czech Academy of Sciences Publication Activity Database

    Šlais, Karel

    Budapest: Hungarian Society for Separation Sciences, 2007. s. 45. ISBN 978-963-06-2925-6. [Balaton Symposium on High-Performance /7./. 05.09.2007-07.09.2007, Siofok] R&D Projects: GA AV ČR IAAX00310701; GA ČR GA203/06/1179 Institutional research plan: CEZ:AV0Z40310501 Keywords : isoelectric focusing * divergent flow * pI markers Subject RIV: CB - Analytical Chemistry, Separation

  19. Ultraviolet divergences in the cyclic Wilson loop and their renormalization

    OpenAIRE

    Berwein, Matthias

    2013-01-01

    We discuss the cyclic Wilson loop, i.e. a rectangular Wilson loop that spans the entire compactified time axis in the imaginary time formalism. The result of a perturbative calculation at $O(\\alpha_s^2)$ is given, with the main focus on the ultraviolet divergences of this operator. Based on a general analysis of divergences in loop diagrams, we find that, unlike usual Wilson loops, the cyclic loop does not have cusp divergences but intersection divergences, where the intersections arise due t...

  20. Resolving Metazoan phyla divergence times during cambrian explosion by COX I protein molecules%COXI蛋白质分子确定“寒武纪生物大爆发”时期物种分歧时间

    Institute of Scientific and Technical Information of China (English)

    李可群

    2016-01-01

    By using the equation for calculating absolute evolutionary rates of biological molecules presented by the author and classic"molecular clock"Cytochrome oxidase subunit I ( COX I ) protein molecules , the metazoan phyla divergence times during Cambrian explosion were obtained .These results show that Protostomia and Deuterostomia separated at560 million years( myrs ) ago.The phyla divergence times of four major deuterstomia:Cephalochordata , Urochordata, Hemichordata and Echinodermata are 536 myrs ago, 540 myrs ago, 548 myrs ago and 545 myrs ago, respectively.These divergence times agree well with their fossil records , and are obviously better than those obtained by other current molecular clock methods .Our method may provide a new way to understand origins and evo-lution of creatures .%使用经典分子钟分子COX I蛋白质和作者提出的同源生物分子绝对进化速率计算公式,对“寒武纪生物大爆发”期间的一些主要动物门类分歧时间进行了计算。结果表明:原口动物和后口动物分歧时间为5.60亿年前,后口动物中的头索动物、尾索动物、半索动物和棘皮动物的分歧时间分别为5.36亿年前、5.40亿年前、5.48亿年前和5.45亿年前。这些结果与化石记录基本符合,明显好于现有分子钟理论得到的结果。为研究生物起源和演化提供了一种的新的思路和方法。

  1. Rates of genomic divergence in humans, chimpanzees and their lice

    OpenAIRE

    Johnson, Kevin P.; Allen, Julie M; Olds, Brett P.; Mugisha, Lawrence; Reed, David L; Paige, Ken N.; Pittendrigh, Barry R.

    2014-01-01

    The rate of DNA mutation and divergence is highly variable across the tree of life. However, the reasons underlying this variation are not well understood. Comparing the rates of genetic changes between hosts and parasite lineages that diverged at the same time is one way to begin to understand differences in genetic mutation and substitution rates. Such studies have indicated that the rate of genetic divergence in parasites is often faster than that of their hosts when comparing single genes...

  2. Environmental factors associated with larval habitats of anopheline mosquitoes (Diptera: Culicidae in irrigation and major drainage areas in the middle course of the Rift Valley, central Ethiopia

    Directory of Open Access Journals (Sweden)

    Oljira Kenea, Meshesha Balkew & Teshome Gebre-Michael

    2011-06-01

    Full Text Available Background & objectives: Larval control is an integral part of malaria vector management in Ethiopia andelsewhere. For effective larval control, a sound understanding of the factors responsible for spatio-temporalvariation in larval production is essential. A study was thus conducted to characterize larval habitats of anophelinemosquitoes in irrigation and major drainage areas between Adami Tulu and Meki towns, in the middle course ofthe Ethiopian Rift Valley.Methods: Aquatic habitats were sampled for anopheline larvae and the associated environmental variables(water temperature, turbidity, water current, water pH and other variables were measured, characterized andanalyzed.Results: Microscopic identification of the late instars (III and IV of anopheline larvae collected throughout thestudy period yielded nearly 47.6% Anopheles pharoensis, 32.1% An. arabiensis, 17.1% An. squamosus and only3.2% of other species (An. coustani and An. cinereus. Larvae of the local malaria vectors, An. arabiensis andAn. pharoensis were most abundantly sampled from sand pools and natural swamps, respectively. Logisticregression analysis detected four best predictor variables associated with larval abundance of malaria vectorspecies. Thus, relative abundance of An. arabiensis larvae was significantly and inversely associated with aquaticvegetation and water current, whereas the relative abundance of An. pharoensis larvae was significantly andpositively associated with water temperature and the presence of algae in the water bodies.Conclusion: Dry season anopheline larval habitats such as riverine sand pools that are created and maintainedby perennial water bodies and their associated water development projects need to be considered in vectorcontrol operations.

  3. Salivary gland proteome analysis reveals modulation of anopheline unique proteins in insensitive acetylcholinesterase resistant Anopheles gambiae mosquitoes.

    Directory of Open Access Journals (Sweden)

    Sylvie Cornelie

    Full Text Available Insensitive acetylcholinesterase resistance due to a mutation in the acetylcholinesterase (ace encoding ace-1 gene confers cross-resistance to organophosphate and carbamate insecticides in Anopheles gambiae populations from Central and West Africa. This mutation is associated with a strong genetic cost revealed through alterations of some life history traits but little is known about the physiological and behavioural changes in insects bearing the ace-1(R allele. Comparative analysis of the salivary gland contents between An. gambiae susceptible and ace-1(R resistant strains was carried out to charaterize factors that could be involved in modifications of blood meal process, trophic behaviour or pathogen interaction in the insecticide-resistant mosquitoes. Differential analysis of the salivary gland protein profiles revealed differences in abundance for several proteins, two of them showing major differences between the two strains. These two proteins identified as saglin and TRIO are salivary gland-1 related proteins, a family unique to anopheline mosquitoes, one of them playing a crucial role in salivary gland invasion by Plasmodium falciparum sporozoites. Differential expression of two other proteins previously identified in the Anopheles sialome was also observed. The differentially regulated proteins are involved in pathogen invasion, blood feeding process, and protection against oxidation, relevant steps in the outcome of malaria infection. Further functional studies and insect behaviour experiments would confirm the impact of the modification of the sialome composition on blood feeding and pathogen transmission abilities of the resistant mosquitoes. The data supports the hypothesis of alterations linked to insecticide resistance in the biology of the primary vector of human malaria in Africa.

  4. Phylogenetic relationships and divergence times of Charadriiformes genera: multigene evidence for the Cretaceous origin of at least 14 clades of shorebirds.

    Science.gov (United States)

    Baker, Allan J; Pereira, Sérgio L; Paton, Tara A

    2007-04-22

    Comparative study of character evolution in the shorebirds is presently limited because the phylogenetic placement of some enigmatic genera remains unclear. We therefore used Bayesian methods to obtain a well-supported phylogeny of 90 recognized genera using 5 kb of mitochondrial and nuclear sequences. The tree comprised three major clades: Lari (gulls, auks and allies plus buttonquails) as sister to Scolopaci (sandpipers, jacanas and allies), and in turn sister to Charadrii (plovers, oystercatchers and allies), as in previous molecular studies. Plovers and noddies were not recovered as monophyletic assemblages, and the Egyptian plover Pluvianus is apparently not a plover. Molecular dating using multiple fossil constraints suggests that the three suborders originated in the late Cretaceous between 79 and 102 Mya, and at least 14 lineages of modern shorebirds survived the mass extinction at the K/T boundary. Previous difficulties in determining the phylogenetic relationships of enigmatic taxa reflect the fact that they are well-differentiated relicts of old, genus-poor lineages. We refrain from suggesting systematic revisions for shorebirds at this time because gene trees may fail to recover the species tree when long branches are connected to deep, shorter branches, as is the case for some of the enigmatic taxa. PMID:17284401

  5. Remote sensing of anophelines in rice-cropping villages in Mali: Patterns of vector abundance and malaria transmission

    Science.gov (United States)

    Diuk Wasser, Maria Ana

    The explosive population growth and widespread urbanization in Africa requires a significant increase in food production. Crop irrigation is therefore expected to increase in the future, although it is often blamed for aggravating the health risk of local communities---by providing habitats suitable for mosquitoes vectors of malaria (Anopheles gambiae s.l. and An. funestus in our study area) and other diseases. An epidemiological paradox sometimes occurs, however, when an increase in vector numbers is accompanied by a reduction of the risk of infection, due to a reduction in mosquito longevity and of their tendency to bite human (vs. animals). The objective of this dissertation was to determine how agricultural patterns mapped using satellite data affected vector densities and malaria transmission parameters in 18 rice-cropping villages in Mali. I used a combination of optical (Landsat ETM+) and synthetic aperture radar (ERS-2 SAR). Using Landsat data, rice was distinguished from other land uses with 98% accuracy and rice cohorts were discriminated with 84% accuracy (three classes) or 94% (two classes). ERS-2 SAR backscatter was correlated with the height and biomass of rice plants and was therefore useful to distinguish among rice growth stages. As in previous studies, the early vegetative stage was associated with higher larval production. SAR was further able to distinguish between agronomic practices linked to high and low-production within those early stages. The landcover maps were integrated with archived data on adult and larval anopheline densities and malaria transmission parameters. The area of several landcovers explained up to 89% of the variability in mosquito numbers. The maximum correlation was obtained when landcover was measured in a 1-km buffer area. Vector density was negatively associated to parity and anthropophilic rates. An. gambiae showed higher vectorial capacity (VC) than An. funestus , with seasonal variations. Peak VC for both species

  6. BIOLOGICAL AND MORPHOLOGICAL EFFECTS OF CHITINSYNTHESIS INHIBITOR (TRIFLUMURON) ON ANOPHELINE LARVAE

    OpenAIRE

    E. Farashiani; H. Ladonni

    1999-01-01

    Triflumuron (Bay sir 8514) is one of many benzoylated ureas, which inhibit chitin synthesis during insect molting and are commonly referred to as insect growth regulators or I. G. Rs. The post emergence efficacy of triflumuron (SC 48%) was evaluated against larvae of Anopheles stephensi. The first instar larvae were exposed to tirflumuron at LC50 level (0.0001 mg/l) in a continues exposure time. Among 1000 larvae listed 570 were passed to pupal stage (43% morality at the larvae of stage). The...

  7. 分子绝对进化速率与物种分歧时间之间的定量关系%Quantitative analysis of relationship between absolute evolutionary rates and taxa divergence times

    Institute of Scientific and Technical Information of China (English)

    李可群

    2015-01-01

    By studying some protein and nucleotide sequences available from GenBank database in American National Center of Bio -technology Information (NCBI), a quantitative equation was discovered for the relationship between the absolute molecular evolutionary Ea rates and taxa divergence times as follow:lnk =-Rt +lnK0 , where Ea is the activation energy of locus mutation , k0 is extreme absolute molecular evolutionary rate , and R is a constant , its preliminary biological application was discussed .Data analysis also showed that a similar equation is also applicable for the relationship between extreme absolute molecular evolutionary rates and taxa divergence times , which means that the biological molecular evolution process may be under the control of "molecular o′clocks"of sequence locus muta-tion and evolution of taxa extreme molecular evolutionary rates , which can be called as "dual molecular o′clock".%通过对美国国家生物技术信息中心数据库GenBank提供的一些蛋白质和核苷酸序列进行比对和分析,发现生物分子绝对进化速率k与进化时间或物种分歧时间t之间存在下列定量关系:lnk =-Ea Rt +lnK0,式中Ea为位点突变活化能,k0为分子极限绝对进化速率,R为常数,并对其生物学意义进行了初步的探讨;数据分析还揭示出物种的分子极限绝对进化速率与进化时间或物种分歧时间之间也服从相似的定量公式,也就是说生物分子进化过程可能同时受到序列位点突变和控制物种分子极限绝对进化速率进化的两个“分子钟”作用,即存在“双重分子钟”现象。

  8. BIOLOGICAL AND MORPHOLOGICAL EFFECTS OF CHITINSYNTHESIS INHIBITOR (TRIFLUMURON ON ANOPHELINE LARVAE

    Directory of Open Access Journals (Sweden)

    E. Farashiani

    1999-12-01

    Full Text Available Triflumuron (Bay sir 8514 is one of many benzoylated ureas, which inhibit chitin synthesis during insect molting and are commonly referred to as insect growth regulators or I. G. Rs. The post emergence efficacy of triflumuron (SC 48% was evaluated against larvae of Anopheles stephensi. The first instar larvae were exposed to tirflumuron at LC50 level (0.0001 mg/l in a continues exposure time. Among 1000 larvae listed 570 were passed to pupal stage (43% morality at the larvae of stage. The dead larvae generally showed different abnormalities, i.e. cuticle of these larvae was dark and thorax of them was inflated. 271 adults, off the pupae, emerged incompletely. At last, only 138 pupae developed completely to adults. It was noted that certain morphological abnormalities became evident in emerged adults. In the emerged adults, generally there were different abnormalities in wing or tarsus. They also showed some difficulties in mating or feeding behaviour in breeding cages. In the end of experiment, 3 out of 13 adults were oviposited. The effect of triflumuron on egg laying of adults was studied and the larvicid did not show any effect on egg laying of adults.

  9. Resolving the Divergence Times and Major Evolutionary Relationships of Protoctists%原生生物物种分歧时间和主要演化关系的定量计算

    Institute of Scientific and Technical Information of China (English)

    李可群

    2016-01-01

    The divergence times and evolutionary relationships of some major protoctist clades were resolved by equation for molecular absolute evolutionary rates and several protein molecules:EF-1α,EF-2,NADH1 and CytB.The results showed that protoctists evolved from the route as:algae→fungi→protozoan.Their respective evolutionary routes are:(1) After the seperation of red algae at 1.331 Ga ago,the green algae separated from it around 1.1744 Ga ago, Mosses seperated at 0.4527 Ga ago,ferns seperated at 0.437 Ga ago.The divergence times of club-mosses,liverworts, Chlamydomonadales and Chlorellales are 0.4185,0.4457,0.5202 and 0.5239 Ga ago,respectively;(2) both Slime molds and oomycetes belonge to Fungi evolutionary branch,which separated about 1.0456 and 0.9032 Ga ago;(3) In protozoan branch,Apicomplexa and Choanoflagellates separated about 1.045 and 0.8122 Ga ago,respectively.Our results agreed well with the references work based on fossil records,and provided a new way to precisely resolve the evolutionary relationships of all protoctists.%使用本文作者提出的分子绝对进化速率的计算公式和EF-1α,EF-2,NADH1和CytB等蛋白质分子,对原生生物的一些主要类群:藻类、真菌和原生动物的物种分歧时间和演化关系进行了定量计算.结果显示,原核生物沿着藻类→真菌→原生动物的方向演化.它们的演化关系为:(1)红藻自13.31亿年前分化出后,于11.74亿年前分化出绿藻,绿藻于4.527亿年前分化出藓类,4.37亿年前分化出蕨类;其他物种如石松类、肝苔类、团藻和小球藻分别于4.185亿年前、4.457亿年前、5.202亿年前和5.239亿年前分化出;(2)黏菌和卵菌均属于真菌进化分枝,分别于10.456亿年前和9.032亿年前分化出;(3)原生动物进化分枝中于10.45亿年前分化出孢子虫等,8.122亿年前领鞭毛虫与多细胞动物分化.这些结果均与基于化石记录的文献报道相符.

  10. Hyperbolic Divergence Cleaning for SPH

    CERN Document Server

    Tricco, Terrence S

    2012-01-01

    We present SPH formulations of Dedner et al's hyperbolic/parabolic divergence cleaning scheme for magnetic and velocity fields. Our implementation preserves the conservation properties of SPH which is important for stability. This is achieved by deriving an energy term for the Psi field, and imposing energy conservation on the cleaning subsystem of equations. This necessitates use of conjugate operators for divB and gradPsi in the numerical equations. For both the magnetic and velocity fields, the average divergence error in the system is reduced by an order of magnitude with our cleaning algorithm. Divergence errors in SPMHD are maintained to < 1%, even for realistic 3D applications with a corresponding gain in numerical stability. Density errors for an oscillating elliptic water drop using weakly compressible SPH are reduced by a factor of two.

  11. Generalized Symmetric Divergence Measures and Metric Spaces

    CERN Document Server

    da Costa, G A T F

    2011-01-01

    Recently, Taneja studied two one parameter generalizations of J-divergence, Jensen-Shannon divergence and Arithmetic-Geometric divergence. These two generalizations in particular contain measures like: Hellinger discrimination, symmetric chi-square divergence, and triangular discrimination. These measures are well known in the literature of Statistics and Information theory. In this paper our aim is to prove metric space properties for square root of these two symmetric generalized divergence measures.

  12. Divergence - is it geography?

    OpenAIRE

    Straubhaar, Thomas; Suhrcke, Marc; Urban, Dieter M.

    2002-01-01

    This paper tests directly a geography and growth model using regional data for Europe, the US, and Japan during di®erent time periods. We set up a standard geography and growth model with a poverty trap and derive a log- linearized growth equation that corresponds directly to a threshold regression technique in econometrics. In particular, we test whether regions with high population density (centers) grow faster and have a permanently higher per capita income than regions with low population...

  13. Possible divergences in Tsallis' thermostatistics

    Science.gov (United States)

    Plastino, A.; Rocca, M. C.

    2013-12-01

    Lutsko and Boon have shown via elegant theoretical reasoning (EPL, 95 (2011) 20006), that Tsallis' thermostatistics is affected by divergence problems. We explicitly verify such fact in trying to compute the nonextensive q-partition function for the harmonic oscillator in more than two dimensions. One can see that it indeed diverges. The appeal to the so-called q-Laplace transform, where the q-exponential function plays the role of the ordinary exponential, is seen to overcome the serious problem envisaged by Lutsko and Boon.

  14. Systematic variations in divergence angle

    CERN Document Server

    Okabe, Takuya

    2012-01-01

    Practical methods for quantitative analysis of radial and angular coordinates of leafy organs of vascular plants are presented and applied to published phyllotactic patterns of various real systems from young leaves on a shoot tip to florets on a flower head. The constancy of divergence angle is borne out with accuracy of less than a degree. It is shown that apparent fluctuations in divergence angle are in large part systematic variations caused by the invalid assumption of a fixed center and/or by secondary deformations, while random fluctuations are of minor importance.

  15. Divergent Paths Lnc Cell Fates.

    Science.gov (United States)

    Ounzain, Samir; Pedrazzini, Thierry

    2016-05-01

    Long noncoding RNAs (lncRNAs) comprise a class of regulatory molecules that may control diverse stem cell properties. Now in Cell Stem Cell, Luo et al. (2016) show that a specific group of lncRNAs, those transcribed divergently from protein coding genes, activate key developmental genes to control embryonic stem cell fate. PMID:27152437

  16. Ray pencils of general divergency

    Directory of Open Access Journals (Sweden)

    W. F. Harris

    2009-12-01

    Full Text Available That a thin refracting element can have a dioptric power which is asymmetric immediately raises questions at the fundamentals of linear optics.  In optometry the important concept of vergence, in particular, depends on the concept of a pencil of rays which in turn depends on the existence of a focus.  But systems that contain refracting elements of asymmetric power may have no focus at all.  Thus the existence of thin systems with asym-metric power forces one to go back to basics and redevelop a linear optics from scratch that is sufficiently general to be able to accommodate suchsystems.  This paper offers an axiomatic approach to such a generalized linear optics.  The paper makes use of two axioms: (i a ray in a homogeneous medium is a segment of a straight line, and (ii at an interface between two homogeneous media a ray refracts according to Snell’s equation.  The familiar paraxial assumption of linear optics is also made.  From the axioms a pencil of rays at a transverse plane T in a homogeneous medium is defined formally (Definition 1 as an equivalence relation with no necessary association with a focus.  At T the reduced inclination of a ray in a pencil is an af-fine function of its transverse position.  If the pencilis centred the function is linear.  The multiplying factor M, called the divergency of the pencil at T, is a real  2 2×  matrix.  Equations are derived for the change of divergency across thin systems and homogeneous gaps.  Although divergency is un-defined at refracting surfaces and focal planes the pencil of rays is defined at every transverse plane ina system (Definition 2.  The eigenstructure gives aprincipal meridional representation of divergency;and divergency can be decomposed into four natural components.  Depending on its divergency a pencil in a homogeneous gap may have exactly one point focus, one line focus, two line foci or no foci.Equations are presented for the position of a focusand of its

  17. Creative Cognition in Secondary Science: An exploration of divergent thinking in science among adolescents

    Science.gov (United States)

    Antink-Meyer, Allison; Lederman, Norman G.

    2015-07-01

    The divergent thinking skills in science of 282 US high school students were investigated across 16 weeks of instruction in order to determine whether typical academic time periods can significantly influence changes in thinking skills. Students' from 6 high school science classrooms completed the Scientific Structures Creativity Measure (SSCM) before and after a semester of instruction. Even the short time frame of a typical academic term was found to be sufficient to promote both improvements in divergent thinking skills as well as declining divergent thinking. Declining divergent thinking skills were more common in this time frame than were improvements. The nature of student performance on the SSCM and implications are discussed.

  18. Divergences in spinfoam quantum gravity

    CERN Document Server

    Smerlak, Matteo

    2012-01-01

    In this thesis we study the flat model, the main buidling block for the spinfoam approach to quantum gravity, with an emphasis on its divergences. Besides a personal introduction to the problem of quantum gravity, the manuscript consists in two part. In the first one, we establish an exact powercounting formula for the bubble divergences of the flat model, using tools from discrete gauge theory and twisted cohomology. In the second one, we address the issue of spinfoam continuum limit, both from the lattice field theory and the group field theory perspectives. In particular, we put forward a new proof of the Borel summability of the Boulatov-Freidel-Louapre model, with an improved control over the large-spin scaling behaviour. We conclude with an outlook of the renormalization program in spinfoam quantum gravity.

  19. Endogenous Globalization and Income Divergence

    OpenAIRE

    2005-01-01

    This paper develops a growth theory that accounts for the evolution of trade policy, underlying internal class conflicts, and global income divergence over the last few centuries. By analyzing political responses to the distributional effects of international trade, this paper finds a prominent interaction between trade policy and the pattern of economic development, and suggests that the nature of the interaction depends on a country's resource abundance and distribution. As shown by the exa...

  20. Hyperbolic Divergence Cleaning for SPH

    OpenAIRE

    Tricco, Terrence S.; Price, Daniel J.

    2012-01-01

    We present SPH formulations of Dedner et al's hyperbolic/parabolic divergence cleaning scheme for magnetic and velocity fields. Our implementation preserves the conservation properties of SPH which is important for stability. This is achieved by deriving an energy term for the Psi field, and imposing energy conservation on the cleaning subsystem of equations. This necessitates use of conjugate operators for divB and gradPsi in the numerical equations. For both the magnetic and velocity fields...

  1. Boiling flow through diverging microchannel

    Indian Academy of Sciences (India)

    V S Duryodhan; S G Singh; Amit Agrawal

    2013-12-01

    An experimental study of flow boiling through diverging microchannel has been carried out in this work, with the aim of understanding boiling in nonuniform cross-section microchannel. Diverging microchannel of 4° of divergence angle and 146 m hydraulic diameter (calculated at mid-length) has been employed for the present study with deionised water as working fluid. Effect of mass flux (118–1182 kg/m2-s) and heat flux (1.6–19.2 W/cm2) on single and two-phase pressure drop and average heat transfer coefficient has been studied. Concurrently, flow visualization is carried out to document the various flow regimes and to correlate the pressure drop and average heat transfer coefficient to the underlying flow regime. Four flow regimes have been identified from the measurements: bubbly, slug, slug–annular and periodic dry-out/rewetting. Variation of pressure drop with heat flux shows one maxima which corresponds to transition from bubbly to slug flow. It is shown that significantly large heat transfer coefficient (up to 107 kW/m2-K) can be attained for such systems, for small pressure drop penalty and with good flow stability.

  2. Genetic divergence of tomato subsamples

    Directory of Open Access Journals (Sweden)

    André Pugnal Mattedi

    2014-02-01

    Full Text Available Understanding the genetic variability of a species is crucial for the progress of a genetic breeding program and requires characterization and evaluation of germplasm. This study aimed to characterize and evaluate 101 tomato subsamples of the Salad group (fresh market and two commercial controls, one of the Salad group (cv. Fanny and another of the Santa Cruz group (cv. Santa Clara. Four experiments were conducted in a randomized block design with three replications and five plants per plot. The joint analysis of variance was performed and characteristics with significant complex interaction between control and experiment were excluded. Subsequently, the multicollinearity diagnostic test was carried out and characteristics that contributed to severe multicollinearity were excluded. The relative importance of each characteristics for genetic divergence was calculated by the Singh's method (Singh, 1981, and the less important ones were excluded according to Garcia (1998. Results showed large genetic divergence among the subsamples for morphological, agronomic and organoleptic characteristics, indicating potential for genetic improvement. The characteristics total soluble solids, mean number of good fruits per plant, endocarp thickness, mean mass of marketable fruit per plant, total acidity, mean number of unmarketable fruit per plant, internode diameter, internode length, main stem thickness and leaf width contributed little to the genetic divergence between the subsamples and may be excluded in future studies.

  3. Bubble Divergences from Twisted Cohomology

    Science.gov (United States)

    Bonzom, Valentin; Smerlak, Matteo

    2012-06-01

    We consider a class of lattice topological field theories, among which are the weak-coupling limit of 2d Yang-Mills theory and 3d Riemannian quantum gravity, whose dynamical variables are flat discrete connections with compact structure group on a cell 2-complex. In these models, it is known that the path integral measure is ill-defined because of a phenomenon known as `bubble divergences'. In this paper, we extend recent results of the authors to the cases where these divergences cannot be understood in terms of cellular cohomology. We introduce in its place the relevant twisted cohomology, and use it to compute the divergence degree of the partition function. We also relate its dominant part to the Reidemeister torsion of the complex, thereby generalizing previous results of Barrett and Naish-Guzman. The main limitation to our approach is the presence of singularities in the representation variety of the fundamental group of the complex; we illustrate this issue in the well-known case of two-dimensional manifolds.

  4. New classification of natural breeding habitats for Neotropical anophelines in the Yanomami Indian Reserve, Amazon Region, Brazil and a new larval sampling methodology

    Science.gov (United States)

    Sánchez-Ribas, Jordi; Oliveira-Ferreira, Joseli; Rosa-Freitas, Maria Goreti; Trilla, Lluís; Silva-do-Nascimento, Teresa Fernandes

    2015-01-01

    Here we present the first in a series of articles about the ecology of immature stages of anophelines in the Brazilian Yanomami area. We propose a new larval habitat classification and a new larval sampling methodology. We also report some preliminary results illustrating the applicability of the methodology based on data collected in the Brazilian Amazon rainforest in a longitudinal study of two remote Yanomami communities, Parafuri and Toototobi. In these areas, we mapped and classified 112 natural breeding habitats located in low-order river systems based on their association with river flood pulses, seasonality and exposure to sun. Our classification rendered seven types of larval habitats: lakes associated with the river, which are subdivided into oxbow lakes and nonoxbow lakes, flooded areas associated with the river, flooded areas not associated with the river, rainfall pools, small forest streams, medium forest streams and rivers. The methodology for larval sampling was based on the accurate quantification of the effective breeding area, taking into account the area of the perimeter and subtypes of microenvironments present per larval habitat type using a laser range finder and a small portable inflatable boat. The new classification and new sampling methodology proposed herein may be useful in vector control programs. PMID:26517655

  5. Resting behaviour of endophilic anopheline vectors in three ecological zones of southern Ghana and its implications for the use of entomopathogenic fungi

    International Nuclear Information System (INIS)

    The aim of the study was to determine the resting behaviour and factors that influence the choice of resting sites by endophilic anopheline mosquitoes in southern Ghana. The study was carried out in six villages across three ecological zones of Southern Ghana, including: the forest ecological zone (FEZ), the coastal savannah ecological zone (CSEZ) and the forest-transition ecological zone (FTEZ). For every mosquito collected, the indoor resting sites was characterised and microclimate at the actual resting site recorded using a data logger. In the laboratory, full diagnostics was carried out on a sub-sample. Resting devices constructed from different materials were tested in a screen house and in village rooms. The dominant anopheline vectors include Anopheles gambiae s.s., An. coluzzii and An.funestus. An gambiae s.s. was the most dominant species in the villages from the FEZ and FTEZ, whereas An. coluzzii was most dominant in the CSEZ. An funestus was present in the FEZ and CSEZ but almost absent from the FTEZ. The two kdr mutations (L1014F and L1014S) were present in all the ecological zones and in both An. gambiae s.s. and An.coluzzii. This is the first report of the L1014S mutation from Ghana. The populations were highly anthropophagic and plasmodium falciparum was present in populations from all the villages studied. Woody materials appeared to be the most preferred resting materials for An. gambiae, accounting for 47% of all the resting sites for that species. They were also found on fabrics (26%), wall materials (12%), and roof materials (10%). Similarly, An. funestus preferred to rest on woody materials (58%), followed by wall materials (21%), fabrics (11%) and roofing materials (7%). For An.coluzzii, fabrics were the most preferred resting materials (38%) followed by roof materials (21%), wooden materials (19%) and wall materials (9%). All the three vector species preferred to rest higher up the room and closer to the walls, with large proportions of An

  6. Statistical inference based on divergence measures

    CERN Document Server

    Pardo, Leandro

    2005-01-01

    The idea of using functionals of Information Theory, such as entropies or divergences, in statistical inference is not new. However, in spite of the fact that divergence statistics have become a very good alternative to the classical likelihood ratio test and the Pearson-type statistic in discrete models, many statisticians remain unaware of this powerful approach.Statistical Inference Based on Divergence Measures explores classical problems of statistical inference, such as estimation and hypothesis testing, on the basis of measures of entropy and divergence. The first two chapters form an overview, from a statistical perspective, of the most important measures of entropy and divergence and study their properties. The author then examines the statistical analysis of discrete multivariate data with emphasis is on problems in contingency tables and loglinear models using phi-divergence test statistics as well as minimum phi-divergence estimators. The final chapter looks at testing in general populations, prese...

  7. Ultraviolet divergences and supersymmetric theories

    International Nuclear Information System (INIS)

    This article is closely related to the one by Ferrara in these same Proceedings. It deals with what is perhaps the most fascinating property of supersymmetric theories, their improved ultraviolet behavior. My aim here is to present a survey of the state of the art as of August, 1984, and a somewhat more detailed discussion of the breakdown of the superspace power-counting beyond N = 2 superfields. A method is also described for simplifying divergence calculations that uses the locality of subtracted Feynman integrals. 74 references

  8. Occurrence of Knudsen minima in diverging microchannels

    Energy Technology Data Exchange (ETDEWEB)

    Hemadri, Vadiraj; Bhandarkar, Upendra; Agrawal, Amit [Mechanical Engineering Department, Indian Institute of Technology Bombay, Mumbai (India)

    2014-12-09

    Rarefied gas flow is gaining increasing importance with the emergence of Micro Electro Mechanical Systems (MEMS). Knudsen minima is one of the characteristic feature of such rarefied flows and has been observed in uniform cross section channels such as plane channel, cylindrical tube and annulus. However, data pertaining to gaseous flow in varying cross section channel is relatively sparse. Channels of varying cross section are frequently encountered in MEMS devices and are fundamental to the design of micro-scale nozzles and micro-valves. In this context, rarefied gas flow through a diverging microchannel (divergence angle – 12 degree) is studied experimentally with three different gases (argon, nitrogen and oxygen). The experiments are performed over a wide range with the mean Knudsen number varying from slip to the transitional regime (0.07 to 1.2). It is found that the effect of molecular weight of the gas on the non-dimensional mass flow rate is negligible. The Knudsen minima is experimentally observed for the first time in microchannel of non-uniform cross section.

  9. Gluon masses without seagull divergences

    CERN Document Server

    Papavassiliou, Joannis

    2009-01-01

    The study of dynamical gluon mass generation at the level of Schwinger-Dyson equation involves a delicate interplay between various field-theoretic mechanisms The underlying local gauge invariance remains intact by resorting to the well-known Schwinger mechanism, which is assumed to be realized by longitudinally coupled bound state poles, produced by the non-perturbative dynamics of the theory. These poles are subsequently included into the Schwinger-Dyson equation of the gluon propagator through the three-gluon vertex, generating a non-vanishing gluon mass, which, however, is expressed in terms of divergent seagull integrals. In this talk we explain how such divergences can be eliminated completely by virtue of a characteristic identity, valid in dimensional regularization. The ability to trigger this identity depends, in turn, on the details of the three-gluon vertex employed, and in particular, on the exact way the bound state poles are incorporated. A concrete example of a vertex that triggers the aforeme...

  10. Hamiltonian mechanics and divergence-free fields

    Energy Technology Data Exchange (ETDEWEB)

    Boozer, A.H.

    1986-08-01

    The field lines, or integral curves, of a divergence-free field in three dimensions are shown to be topologically equivalent to the trajectories of a Hamiltonian with two degrees of freedom. The consideration of fields that depend on a parameter allow the construction of a canonical perturbation theory which is valid even if the perturbation is large. If the parametric dependence of the magnetic, or the vorticity field is interpreted as time dependence, evolution equations are obtained which give Kelvin's theorem or the flux conservation theorem for ideal fluids and plasmas. The Hamiltonian methods prove especially useful for study of fields in which the field lines must be known throughout a volume of space.

  11. Hamiltonian mechanics and divergence-free fields

    International Nuclear Information System (INIS)

    The field lines, or integral curves, of a divergence-free field in three dimensions are shown to be topologically equivalent to the trajectories of a Hamiltonian with two degrees of freedom. The consideration of fields that depend on a parameter allow the construction of a canonical perturbation theory which is valid even if the perturbation is large. If the parametric dependence of the magnetic, or the vorticity field is interpreted as time dependence, evolution equations are obtained which give Kelvin's theorem or the flux conservation theorem for ideal fluids and plasmas. The Hamiltonian methods prove especially useful for study of fields in which the field lines must be known throughout a volume of space

  12. Adaptive filters: stable but divergent

    Science.gov (United States)

    Rupp, Markus

    2015-12-01

    The pros and cons of a quadratic error measure in the context of various applications have often been discussed. In this tutorial, we argue that it is not only a suboptimal but definitely the wrong choice when describing the stability behavior of adaptive filters. We take a walk through the past and recent history of adaptive filters and present 14 canonical forms of adaptive algorithms and even more variants thereof contrasting their mean-square with their l 2-stability conditions. In particular, in safety critical applications, the convergence in the mean-square sense turns out to provide wrong results, often not leading to stability at all. Only the robustness concept with its l 2-stability conditions ensures the absence of divergence.

  13. Divergence of optical vortex beams

    CERN Document Server

    Reddy, Salla Gangi; Prabhakar, Shashi; Anwar, Ali; Banerji, J; Singh, R P

    2015-01-01

    We show, both theoretically and experimentally, that the propagation of optical vortices in free space can be analysed by using the width ($w(z)$) of the host Gaussian beam and the inner and outer radii of the vortex beam at the source plane ($z=0$) as defined in \\textit{Optics Letters \\textbf{39,} 4364-4367 (2014)}. We also studied the divergence of vortex beams, considered as the rate of change of inner or outer radius with the propagation distance, and found that it varies with the order in the same way as that of the inner and outer radii at zero propagation distance. These results may be useful in designing optical fibers for orbital angular momentum modes that play a crucial role in quantum communication.

  14. Divergence of optical vortex beams.

    Science.gov (United States)

    Reddy, Salla Gangi; Permangatt, Chithrabhanu; Prabhakar, Shashi; Anwar, Ali; Banerji, J; Singh, R P

    2015-08-01

    We show, both theoretically and experimentally, that the propagation of optical vortices in free space can be analyzed by using the width [w(z)] of the host Gaussian beam and the inner and outer radii of the vortex beam at the source plane (z=0) as defined in [Opt. Lett.39, 4364 (2014)10.1364/OL.39.004364OPLEDP0146-9592]. We also studied the divergence of vortex beams, considered as the rate of change of inner or outer radius with the propagation distance (z), and found that it varies with the order in the same way as that of the inner and outer radii at z=0. These results may be useful in designing optical fibers for orbital angular momentum modes that play a crucial role in quantum communication. PMID:26368081

  15. DISSIPATIVE DIVERGENCE OF RESONANT ORBITS

    Energy Technology Data Exchange (ETDEWEB)

    Batygin, Konstantin [Division of Geological and Planetary Sciences, California Institute of Technology, Pasadena, CA 91125 (United States); Morbidelli, Alessandro, E-mail: kbatygin@gps.caltech.edu [Departement Cassiopee, Universite de Nice-Sophia Antipolis, Observatoire de la Cote d' Azur, F-06304 Nice (France)

    2013-01-01

    A considerable fraction of multi-planet systems discovered by the observational surveys of extrasolar planets reside in mild proximity to first-order mean-motion resonances. However, the relative remoteness of such systems from nominal resonant period ratios (e.g., 2:1, 3:2, and 4:3) has been interpreted as evidence for lack of resonant interactions. Here, we show that a slow divergence away from exact commensurability is a natural outcome of dissipative evolution and demonstrate that libration of critical angles can be maintained tens of percent away from nominal resonance. We construct an analytical theory for the long-term dynamical evolution of dissipated resonant planetary pairs and confirm our calculations numerically. Collectively, our results suggest that a significant fraction of the near-commensurate extrasolar planets are in fact resonant and have undergone significant dissipative evolution.

  16. Evolutionary Divergence of Aggregatibacter actinomycetemcomitans.

    Science.gov (United States)

    Kittichotirat, W; Bumgarner, R E; Chen, C

    2016-01-01

    Gram-negative facultative Aggregatibacter actinomycetemcomitans is an oral pathogen associated with periodontitis. The genetic heterogeneity among A. actinomycetemcomitans strains has been long recognized. This study provides a comprehensive genomic analysis of A. actinomycetemcomitans and the closely related nonpathogenic Aggregatibacter aphrophilus. Whole genome sequencing by Illumina MiSeq platform was performed for 31 A. actinomycetemcomitans and 2 A. aphrophilus strains. Sequence similarity analysis shows a total of 3,220 unique genes across the 2 species, where 1,550 are core genes present in all genomes and 1,670 are variable genes (accessory genes) missing in at least 1 genome. Phylogenetic analysis based on 397 concatenated core genes distinguished A. aphrophilus and A. actinomycetemcomitans. The latter was in turn divided into 5 clades: clade b (serotype b), clade c (serotype c), clade e/f (serotypes e and f), clade a/d (serotypes a and d), and clade e' (serotype e strains). Accessory genes accounted for 14.1% to 23.2% of the A. actinomycetemcomitans genomes, with a majority belonging to the category of poorly characterized by Cluster of Orthologous Groups classification. These accessory genes were often organized into genomic islands (n = 387) with base composition biases, suggesting their acquisitions via horizontal gene transfer. There was a greater degree of similarity in gene content and genomic islands among strains within clades than between clades. Strains of clade e' isolated from human were found to be missing the genomic island that carries genes encoding cytolethal distending toxins. Taken together, the results suggest a pattern of sequential divergence, starting from the separation of A. aphrophilus and A. actinomycetemcomitans through gain and loss of genes and ending with the divergence of the latter species into distinct clades and serotypes. With differing constellations of genes, the A. actinomycetemcomitans clades may have evolved

  17. Linkographic Evidence for Concurrent Divergent and Convergent Thinking in Creative Design

    Science.gov (United States)

    Goldschmidt, Gabriela

    2016-01-01

    For a long time, the creativity literature has stressed the role of divergent thinking in creative endeavor. More recently, it has been recognized that convergent thinking also has a role in creativity, and the design literature, which sees design as a creative activity a priori, has largely adopted this view: Divergent and convergent thinking are…

  18. Predictors for reproductive isolation in a ring species complex following genetic and ecological divergence

    Directory of Open Access Journals (Sweden)

    Pereira Ricardo J

    2011-07-01

    Full Text Available Abstract Background Reproductive isolation (RI is widely accepted as an important "check point" in the diversification process, since it defines irreversible evolutionary trajectories. Much less consensus exists about the processes that might drive RI. Here, we employ a formal quantitative analysis of genetic interactions at several stages of divergence within the ring species complex Ensatina eschscholtzii in order to assess the relative contribution of genetic and ecological divergence for the development of RI. Results By augmenting previous genetic datasets and adding new ecological data, we quantify levels of genetic and ecological divergence between populations and test how they correlate with a restriction of genetic admixture upon secondary contact. Our results indicate that the isolated effect of ecological divergence between parental populations does not result in reproductively isolated taxa, even when genetic transitions between parental taxa are narrow. Instead, processes associated with overall genetic divergence are the best predictors of reproductive isolation, and when parental taxa diverge in nuclear markers we observe a complete cessation of hybridization, even to sympatric occurrence of distinct evolutionary lineages. Although every parental population has diverged in mitochondrial DNA, its degree of divergence does not predict the extent of RI. Conclusions These results show that in Ensatina, the evolutionary outcomes of ecological divergence differ from those of genetic divergence. While evident properties of taxa may emerge via ecological divergence, such as adaptation to local environment, RI is likely to be a byproduct of processes that contribute to overall genetic divergence, such as time in geographic isolation, rather than being a direct outcome of local adaptation.

  19. Rates of genomic divergence in humans, chimpanzees and their lice.

    Science.gov (United States)

    Johnson, Kevin P; Allen, Julie M; Olds, Brett P; Mugisha, Lawrence; Reed, David L; Paige, Ken N; Pittendrigh, Barry R

    2014-02-22

    The rate of DNA mutation and divergence is highly variable across the tree of life. However, the reasons underlying this variation are not well understood. Comparing the rates of genetic changes between hosts and parasite lineages that diverged at the same time is one way to begin to understand differences in genetic mutation and substitution rates. Such studies have indicated that the rate of genetic divergence in parasites is often faster than that of their hosts when comparing single genes. However, the variation in this relative rate of molecular evolution across different genes in the genome is unknown. We compared the rate of DNA sequence divergence between humans, chimpanzees and their ectoparasitic lice for 1534 protein-coding genes across their genomes. The rate of DNA substitution in these orthologous genes was on average 14 times faster for lice than for humans and chimpanzees. In addition, these rates were positively correlated across genes. Because this correlation only occurred for substitutions that changed the amino acid, this pattern is probably produced by similar functional constraints across the same genes in humans, chimpanzees and their ectoparasites. PMID:24403325

  20. Gauge-Invariance and Infrared Divergences in the Luminosity Distance

    CERN Document Server

    Biern, Sang Gyu

    2016-01-01

    Measurements of the luminosity distance have played a key role in discovering the late-time cosmic accel- eration. However, when accounting for inhomogeneities in the Universe, its interpretation has been plagued with infrared divergences in its theoretical predictions, which are in some cases used to explain the cosmic ac- celeration without dark energy. The divergences in most calculations are artificially removed by imposing an infrared cut-off scale. For the first time, we show that a gauge-invariant calculation of the luminosity distance is devoid of such divergences and consistent with the equivalence principle, eliminating the need to impose a cut-off scale. We present proper numerical calculations of the luminosity distance using the gauge-invariant expression and demonstrate that the numerical results with an ad hoc cut-off scale in previous calculations have negligible systematic errors as long as the cut-off scale is larger than the horizon scale. We discuss the origin of infrared divergences and t...

  1. Divergent Thinking and Age-Related Changes

    Science.gov (United States)

    Palmiero, Massimiliano; Di Giacomo, Dina; Passafiume, Domenico

    2014-01-01

    Aging can affect cognition in different ways. The extent to which aging affects divergent thinking is unclear. In this study, younger and older adults were compared at the performance on the Torrance Test of Creative Thinking in visual and verbal form. Results showed that older adults can think divergently as younger participants, although they…

  2. Power Divergences in Overlapping Wilson Lines

    OpenAIRE

    Berwein, Matthias

    2014-01-01

    We discuss the divergence structure of Wilson line operators with partially overlapping segments on the basis of the cyclic Wilson loop as an explicit example. The generalized exponentiation theorem is used to show the exponentiation and factorization of power divergences for certain linear combinations of associated loop functions.

  3. Power divergences in overlapping Wilson lines

    Science.gov (United States)

    Berwein, Matthias

    2016-01-01

    We discuss the divergence structure of Wilson line operators with partially overlapping segments on the basis of the cyclic Wilson loop as an explicit example. The generalized exponentiation theorem is used to show the exponentiation and factorization of power divergences for certain linear combinations of associated loop functions.

  4. Convergences and divergences in mortality

    Directory of Open Access Journals (Sweden)

    2004-04-01

    Full Text Available Abdel Omran's 1971 theory of "Epidemiologic Transition" was the first attempt to account for the extraordinary advances in health care made in industrialized countries since the 18th century. In the framework of the Demographic Transition, it implied a general convergence of life expectancies toward a limit imposed by the new epidemiological features of modern societies. However, important failures, occurred in the past decades (mainly the health crisis in Eastern Europe and AIDS in Africa, seem to have stopped that process of convergence. In fact such failures do not really contradict the theory. The latter is much more ruined by the unexpected dramatic improvement in the field of cardiovascular disease experienced since the seventies, which results in a new step of a more general process. On the basis of the broader concept of "Health Transition" initiated by Julio Frenk et al., the present paper tries to rethink the full process in term of divergence/convergence sequences inferred by successive major changes in health technologies and strategies.

  5. Ultraviolet divergences and supersymmetric theories

    International Nuclear Information System (INIS)

    I attempt to outline the present understanding of the ultraviolet behavior of supersymmetric theories. Two things emerge clearly from this discussion. We have at our disposal a class of completely finite renormalizable models with extended global supersymmetry, and we have a number of formal ways of proving their finiteness. However, at present the motivation for looking at such theories is not clear. More precisely, it is not clear why a finite model should be preferred to other infinite, but still renormalizable and predictive, ones. On the other hand, supergravity theories are a priori far more interesting, as they offer a perspective for unifying all interactions including gravity. However, their couplings are parametrized by Newton's constant, which is of negative mass dimension. Thus these theories are all potentially nonrenormalizable. At present it does not seem possible to prove that they are finite along the lines of what has been achieved for supersymmetric Yang-Mills theories. All the available arguments fail, in one way or another, due to the presence of a dimensional coupling. Moreover, the indications of the indirect analysis are rather discouraging, and suggest that divergences should really set in at the 'obvious' number of loops, three. Of course, explicit calculations in (super)gravity theories would be most illuminating. Hopefully, the integration technique mentioned in sect. 3, together with the development of a suitable computer software and, at least, the completion of the work, should make this nontrivial task accessible in the near future. (orig.)

  6. Mass generation and the problem of seagull divergences

    CERN Document Server

    Figueiredo, C T

    2016-01-01

    The gluon mass generation is a purely non-perturbative effect, and the natural framework to study it in the continuum are the Schwinger-Dyson equations (SDEs) of the theory. At the level of the SDEs the generation of such a mass is associated with the existence of infrared finite solutions for the gluon propagator. From the theoretical point of view, the dynamical gluon mass generation has been traditionally plagued with seagull divergences. In this work, we will review how such divergences can be eliminated completely by virtue of a characteristic identity, valid in dimensional regularization. As a pedagogical example, we will first discuss in the context of scalar QED how it is possible to eliminate all seagull divergences, by triggering the aforementioned special identity, which enforces the masslessness of the photon. Then, we will discuss what happens in QCD and present an Ansatz for the three gluon vertex, which completely eliminates all seagull divergences and at same time allows for the possibility of...

  7. Genetic divergence of common bean cultivars.

    Science.gov (United States)

    Veloso, J S; Silva, W; Pinheiro, L R; Dos Santos, J B; Fonseca, N S; Euzebio, M P

    2015-01-01

    The aim of this study was to evaluate genetic divergence in the 'Carioca' (beige with brown stripes) common bean cultivar used by different institutions and in 16 other common bean cultivars used in the Rede Cooperativa de Pesquisa de Feijão (Cooperative Network of Common Bean Research), by using simple sequence repeats associated with agronomic traits that are highly distributed in the common bean genome. We evaluated 22 polymorphic loci using bulks containing DNA from 30 plants. There was genetic divergence among the Carioca cultivar provided by the institutions. Nevertheless, there was lower divergence among them than among the other cultivars. The cultivar used by Instituto Agronômico do Paraná was the most divergent in relation to the Carioca samples. The least divergence was observed among the samples used by Universidade Federal de Lavras and by Embrapa Arroz e Feijão. Of all the cultivars, 'CNFP 10104' and 'BRSMG Realce' showed the greatest dissimilarity. The cultivars were separated in two groups of greatest similarity using the Structure software. Genetic variation among cultivars was greater than the variation within or between the groups formed. This fact, together with the high estimate of heterozygosity observed and the genetic divergence of the samples of the Carioca cultivar in relation to the original provided by Instituto Agronômico de Campinas, indicates a mixture of cultivars. The high divergence among cultivars provides potential for the utilization of this genetic variability in plant breeding. PMID:26400359

  8. A New Study of Two Divergence Metrics for Change Detection in Data Streams

    KAUST Repository

    Qahtan, Abdulhakim

    2014-08-01

    Streaming data are dynamic in nature with frequent changes. To detect such changes, most methods measure the difference between the data distributions in a current time window and a reference window. Divergence metrics and density estimation are required to measure the difference between the data distributions. Our study shows that the Kullback-Leibler (KL) divergence, the most popular metric for comparing distributions, fails to detect certain changes due to its asymmetric property and its dependence on the variance of the data. We thus consider two metrics for detecting changes in univariate data streams: a symmetric KL-divergence and a divergence metric measuring the intersection area of two distributions. The experimental results show that these two metrics lead to more accurate results in change detection than baseline methods such as Change Finder and using conventional KL-divergence.

  9. Creativity and Memory: Effects of an Episodic-Specificity Induction on Divergent Thinking.

    Science.gov (United States)

    Madore, Kevin P; Addis, Donna Rose; Schacter, Daniel L

    2015-09-01

    People produce more episodic details when imagining future events and solving means-end problems after receiving an episodic-specificity induction-brief training in recollecting details of a recent event-than after receiving a control induction not focused on episodic retrieval. Here we show for the first time that an episodic-specificity induction also enhances divergent creative thinking. In Experiment 1, participants exhibited a selective boost on a divergent-thinking task (generating unusual uses of common objects) after a specificity induction compared with a control induction; by contrast, performance following the two inductions was similar on an object association task thought to involve little divergent thinking. In Experiment 2, we replicated the specificity-induction effect on divergent thinking using a different control induction, and also found that participants performed similarly on a convergent-thinking task following the two inductions. These experiments provide novel evidence that episodic memory is involved in divergent creative thinking. PMID:26205963

  10. Genetic, ecological and morphological divergence between populations of the endangered Mexican Sheartail hummingbird (Doricha eliza.

    Directory of Open Access Journals (Sweden)

    Yuyini Licona-Vera

    Full Text Available The Mexican Sheartail (Doricha eliza, an endangered hummingbird, is endemic to Mexico where two populations have a disjunct distribution. One population is distributed along the northern tip of the Yucatan Peninsula whereas the other is mostly restricted to central Veracruz. Despite their disjunct distribution, previous work has failed to detect morphological or behavioral differences between these populations. Here we use variation in morphology, mtDNA and nuDNA sequences to determine the degree of morphological and molecular divergence between populations, their divergence time, and historical demography. We use species distribution modeling and niche divergence tests to infer the relative roles of vicariance and dispersal in driving divergence in the genus. Our Bayesian and maximum likelihood phylogenetic analyses revealed that Doricha eliza populations form a monophyletic clade and support their sister relationship with D. enicura. We found marked genetic differentiation, with reciprocal monophyly of haplotypes and highly restricted gene flow, supporting a history of isolation over the last 120,000 years. Genetic divergence between populations is consistent with the lack of overlap in environmental space and slight morphological differences between males. Our findings indicate that the divergence of the Veracruz and Yucatan populations is best explained by a combination of a short period of isolation exacerbated by subsequent divergence in climate conditions, and that rather than vicariance, the two isolated ranges of D. eliza are the product of recent colonization and divergence in isolation.

  11. Anopheline ecology and malaria transmission during the construction of an irrigation canal in an endemic district of Odisha, India

    Directory of Open Access Journals (Sweden)

    B. K. Panigrahi

    2013-12-01

    Full Text Available Background & objectives: A new irrigation canal system is under construction in Dhenkanal district of Odisha, to increase the production of rice crop and thereby improve the living standard of farmers in the project area. Construction of canal may increase the transmission of malaria by creating vector breeding habitats. Knowledge about bionomics of vectors will support authorities for appropriate management of the disease in a changing ecological set up. The aim of this study was to assess the malaria transmission in the bank of the canal area under construction. Methods: The entomological survey was carried out in three seasons, winter, summer and rainy during the period November 2008-October 2010 in the study area. Adult mosquitoes were collected by using suction tubes and flash lights. Mosquito species identification was done by using standard keys, separated according to abdominal conditions and were kept in an isopropanol for further molecular analysis of sibling species, presence of sporozoites and human blood meal. Larvae were collected by dippers and reared in the laboratory, and the emerged adults were identified to species. The epidemiology of malaria was evaluated from the data collected by the State Health Department. Insecticide succeptibility test was done by WHO method. Results: The adult mosquito collection from the study area showed the prevalence of 14 species belonging to three genera, i.e. Anopheles, Culex and Aedes. The per man hour densities (PMHD of An. culicifacies were 3.8, 1.4, 4.8; that of An. annularis were 2.1, 1, 2.1; and that of An. fluviatilis were 1.4, 0.3, 0.6 during winter, summer and rainy seasons respectively. Sibling species identified were: An. culicifacies A, B, C and D, An. annularis A and An. fluviatilis S. Sporozoite rates of An. culicifacies A and C were 1.1 and 0.5% respectively and that of An. annularis A was 2% (reported for the first time in the state. Both the vectors (An. culicifacies and An

  12. Stora's fine notion of divergent amplitudes

    CERN Document Server

    Várilly, Joseph C

    2016-01-01

    Stora and coworkers refined the notion of divergent quantum amplitude, somewhat upsetting the standard power-counting recipe. This unexpectedly clears the way to new prototypes for free and interacting field theories of bosons of any mass and spin.

  13. Relative Entropies and Jensen Divergences in the Classical Limit

    Directory of Open Access Journals (Sweden)

    A. M. Kowalski

    2015-01-01

    Full Text Available Metrics and distances in probability spaces have shown to be useful tools for physical purposes. Here we use this idea, with emphasis on Jensen Divergences and relative entropies, to investigate features of the road towards the classical limit. A well-known semiclassical model is used and recourse is made to numerical techniques, via the well-known Bandt and Pompe methodology, to extract probability distributions from the pertinent time-series associated with dynamical data.

  14. Quantum Dirac field without vacuum energy divergence

    OpenAIRE

    Wang, Ruo Peng

    2001-01-01

    A quantum Dirac field theory with no divergences of vacuum energy is presented. The vacuum energy divergence is eliminated by removing a extra degree of freedom of the Dirac fields. The conditions for removing the extra degree of freedom, expressed in the form of a conservation law and an orthogonality relation, define another spin 1/2 field with the same rest mass that is just the antifermion field. The anticommutation relations for fermion and antifermion fields are imposed by this conserva...

  15. Genetic evidence for a recent divergence and subsequent gene flow between Spanish and Eastern imperial eagles

    Directory of Open Access Journals (Sweden)

    Martínez-Cruz Begoña

    2007-09-01

    Full Text Available Abstract Background Dating of population divergence is critical in understanding speciation and in evaluating the evolutionary significance of genetic lineages, upon which identification of conservation and management units should be based. In this study we used a multilocus approach and the Isolation-Migration model based on coalescence theory to estimate the time of divergence of the Spanish and Eastern imperial eagle sister species. This model enables estimation of population sizes at split, and inference of gene flow after divergence. Results Our results indicate that divergence may have occurred during the Holocene or the late Pleistocene, much more recently than previously suspected. They also suggest a large population reduction at split, with an estimated effective population size several times smaller for the western population than for the eastern population. Asymmetrical gene flow after divergence, from the Eastern imperial eagle to the Spanish imperial eagle, was detected for the nuclear genome but not the mitochondrial genome. Male-mediated gene flow after divergence may explain this result, and the previously reported lower mitochondrial diversity but similar nuclear diversity in Spanish imperial eagles compared to the Eastern species. Conclusion Spanish and Eastern imperial eagles split from a common ancestor much more recently than previously thought, and asymmetrical gene flow occurred after divergence. Revision of the phylogenetic proximity of both species is warranted, with implications for conservation.

  16. Chasing infinity with matrix product states by embracing divergences

    International Nuclear Information System (INIS)

    In this paper, we present a formalism for representing infinite systems in quantum mechanics by employing a strategy that embraces divergences rather than avoiding them. We do this by representing physical quantities such as inner products, expectations, etc, as maps from natural numbers to complex numbers which contain information about how these quantities diverge, and in particular whether they scale linearly, quadratically, exponentially, etc with the size of the system. We build our formalism on a variant of matrix product states, as this class of states has a structure that naturally provides a way to obtain the scaling function. We show that the states in our formalism form a module over the ring of functions that are made up of sums of exponentials times polynomials and delta functions. We analyze properties of this formalism and show how it works for selected systems. Finally, we discuss how our formalism relates to other work. (paper)

  17. Velocity field measurements in oblique static divergent vocal fold models

    Science.gov (United States)

    Erath, Byron

    2005-11-01

    During normal phonation, the vocal fold cycle is characterized by the glottal opening transitioning from a convergent to a divergent passage and then closing before the cycle is repeated. Under ordinary phonatory conditions, both vocal folds, which form the glottal passage, move in phase with each other, creating a time-varying symmetric opening. However, abnormal pathological conditions, such as unilateral paralysis, and polyps, can result in geometrical asymmetries between the vocal folds throughout the phonatory cycle. This study investigates pulsatile flow fields through 7.5 times life-size vocal fold models with included divergence angles of 5 to 30 degrees, and obliquities between the vocal folds of up to 15 degrees. Flow conditions were scaled to match physiological parameters. Data were taken at the anterior posterior mid-plane using phase-averaged Particle Image Velocimetry (PIV). Viscous flow phenomena including the Coanda effect, flow separation points, and jet "flapping" were investigated. The results are compared to previously reported work of flow through symmetric divergent vocal fold models.

  18. The Divergence of Neandertal and Modern Human Y Chromosomes.

    Science.gov (United States)

    Mendez, Fernando L; Poznik, G David; Castellano, Sergi; Bustamante, Carlos D

    2016-04-01

    Sequencing the genomes of extinct hominids has reshaped our understanding of modern human origins. Here, we analyze ∼120 kb of exome-captured Y-chromosome DNA from a Neandertal individual from El Sidrón, Spain. We investigate its divergence from orthologous chimpanzee and modern human sequences and find strong support for a model that places the Neandertal lineage as an outgroup to modern human Y chromosomes-including A00, the highly divergent basal haplogroup. We estimate that the time to the most recent common ancestor (TMRCA) of Neandertal and modern human Y chromosomes is ∼588 thousand years ago (kya) (95% confidence interval [CI]: 447-806 kya). This is ∼2.1 (95% CI: 1.7-2.9) times longer than the TMRCA of A00 and other extant modern human Y-chromosome lineages. This estimate suggests that the Y-chromosome divergence mirrors the population divergence of Neandertals and modern human ancestors, and it refutes alternative scenarios of a relatively recent or super-archaic origin of Neandertal Y chromosomes. The fact that the Neandertal Y we describe has never been observed in modern humans suggests that the lineage is most likely extinct. We identify protein-coding differences between Neandertal and modern human Y chromosomes, including potentially damaging changes to PCDH11Y, TMSB4Y, USP9Y, and KDM5D. Three of these changes are missense mutations in genes that produce male-specific minor histocompatibility (H-Y) antigens. Antigens derived from KDM5D, for example, are thought to elicit a maternal immune response during gestation. It is possible that incompatibilities at one or more of these genes played a role in the reproductive isolation of the two groups. PMID:27058445

  19. Flow of non-Newtonian Fluids in Converging-Diverging Rigid Tubes

    OpenAIRE

    Sochi, Taha

    2013-01-01

    A residual-based lubrication method is used in this paper to find the flow rate and pressure field in converging-diverging rigid tubes for the flow of time-independent category of non-Newtonian fluids. Five converging-diverging prototype geometries were used in this investigation in conjunction with two fluid models: Ellis and Herschel-Bulkley. The method was validated by convergence behavior sensibility tests, convergence to analytical solutions for the straight tubes as special cases for th...

  20. A Problem With the Correlation Coefficient as a Measure of Gene Expression Divergence

    OpenAIRE

    Pereira, Vini; Waxman, David; Eyre-Walker, Adam

    2009-01-01

    The correlation coefficient is commonly used as a measure of the divergence of gene expression profiles between different species. Here we point out a potential problem with this statistic: if measurement error is large relative to the differences in expression, the correlation coefficient will tend to show high divergence for genes that have relatively uniform levels of expression across tissues or time points. We show that genes with a conserved uniform pattern of expression have significan...

  1. Placing confidence limits on the molecular age of the human–chimpanzee divergence

    OpenAIRE

    Kumar, Sudhir; Filipski, Alan; Swarna, Vinod; Walker, Alan; Hedges, S. Blair

    2005-01-01

    Molecular clocks have been used to date the divergence of humans and chimpanzees for nearly four decades. Nonetheless, this date and its confidence interval remain to be firmly established. In an effort to generate a genomic view of the human–chimpanzee divergence, we have analyzed 167 nuclear protein-coding genes and built a reliable confidence interval around the calculated time by applying a multifactor bootstrap-resampling approach. Bayesian and maximum likelihood analyses of neutral DNA ...

  2. Vibhakti Divergence between Sanskrit and Hindi

    Science.gov (United States)

    Shukla, Preeti; Shukl, Devanand; Kulkarni, Amba

    Translation divergence at various levels between languages arises due to the different conventions followed by different languages for coding the information of grammatical relations. Though Sanskrit and Hindi belong to the same Indo-Aryan family and structurally as well as lexically Hindi inherits a lot from Sanskrit, yet divergences are observed at the level of function words such as vibhaktis. Pāṇini in his Aṣṭādhyāyī has assigned a default vibhakti to kārakas alongwith many scopes for exceptions. He handles these exceptions either by imposing a new kāraka role or by assigning a special vibhakti. However, these methods are not acceptable in Hindi in toto. Based on the nature of deviation, we propose seven cases of divergences in this paper.

  3. An Exponential Regulator for Rapidity Divergences

    CERN Document Server

    Li, Ye; Zhu, Hua Xing

    2016-01-01

    Finding an efficient and compelling regularization of soft and collinear degrees of freedom at the same invariant mass scale, but separated in rapidity is a persistent problem in high-energy factorization. In the course of a calculation, one encounters divergences unregulated by dimensional regularization, often called rapidity divergences. Once regulated, a general framework exists for their renormalization, the rapidity renormalization group (RRG), leading to fully resummed calculations of transverse momentum (to the jet axis) sensitive quantities. We examine how this regularization can be implemented via a multi-differential factorization of the soft-collinear phase-space, leading to an (in principle) alternative non-perturbative regularization of rapidity divergences. As an example, we examine the fully-differential factorization of a color singlet's momentum spectrum in a hadron-hadron collision at threshold. We show how this factorization acts as a mother theory to both traditional threshold and transve...

  4. Adaptive divergence in embryonic thermal plasticity among Atlantic salmon populations.

    Science.gov (United States)

    Côte, J; Roussel, J-M; Le Cam, S; Guillaume, F; Evanno, G

    2016-08-01

    In the context of global changes, the long-term viability of populations of endangered ectotherms may depend on their adaptive potential and ability to cope with temperature variations. We measured responses of Atlantic salmon embryos from four populations to temperature variations and used a QST -FST approach to study the adaptive divergence among these populations. Embryos were reared under two experimental conditions: a low temperature regime at 4 °C until eyed-stage and 10 °C until the end of embryonic development and a high temperature regime with a constant temperature of 10 °C throughout embryonic development. Significant variations among populations and population × temperature interactions were observed for embryo survival, incubation time and length. QST was higher than FST in all but one comparison suggesting an important effect of divergent selection. QST was also higher under the high-temperature treatment than at low temperature for length and survival due to a higher variance among populations under the stressful warmer treatment. Interestingly, heritability was lower for survival under high temperature in relation to a lower additive genetic variance under that treatment. Overall, these results reveal an adaptive divergence in thermal plasticity in embryonic life stages of Atlantic salmon suggesting that salmon populations may differentially respond to temperature variations induced by climate change. These results also suggest that changes in temperature may alter not only the adaptive potential of natural populations but also the selection regimes among them. PMID:27177256

  5. Three dimensional simulations of viscous folding in diverging microchannels

    CERN Document Server

    Xu, Bingrui; Shin, Seungwon; Juric, Damir

    2016-01-01

    Three dimensional simulations on the viscous folding in diverging microchannels reported by Cubaud and Mason are performed using the parallel code BLUE for multi-phase flows. The more viscous liquid L_1 is injected into the channel from the center inlet, and the less viscous liquid L_2 from two side inlets. Liquid L_1 takes the form of a thin filament due to hydrodynamic focusing in the long channel that leads to the diverging region. The thread then becomes unstable to a folding instability, due to the longitudinal compressive stress applied to it by the diverging flow of liquid L_2. Given the long computation time, we were limited to a parameter study comprising five simulations in which the flow rate ratio, the viscosity ratio, the Reynolds number, and the shape of the channel were varied relative to a reference model. In our simulations, the cross section of the thread produced by focusing is elliptical rather than circular. The initial folding axis can be either parallel or perpendicular to the narrow di...

  6. Global divergence of spatial coalescents

    CERN Document Server

    Angel, Omer; Limic, Vlada

    2009-01-01

    A class of processes called spatial \\Lambda-coalescents was recently introduced by Limic and Sturm (2006). In these models particles perform independent random walks on some underlying graph G. In addition, particles on the same site merge randomly according to some given coalescing mechanism. The goal of the current work is to obtain several asymptotic results for these processes. If G=Z^d, and the coalescing mechanism is Kingman's coalescent, then starting with N particles at the origin, the number of particles is of order (log^* N)^d at any fixed time (where log^* is the inverse tower function). At sufficiently large times this number is of order (log^* N)^{d-2}. Beta-coalescents behave similarly, with log log N in place of log^* N. Moreover, it is shown that on any graph and for general \\Lambda-coalescent, starting with infinitely many particles at a single site, the total number of particles will remain infinite at all times, almost surely.

  7. Divergent and Convergent Evolution of Fungal Pathogenicity.

    Science.gov (United States)

    Shang, Yanfang; Xiao, Guohua; Zheng, Peng; Cen, Kai; Zhan, Shuai; Wang, Chengshu

    2016-01-01

    Fungal pathogens of plants and animals have multifarious effects; they cause devastating damages to agricultures, lead to life-threatening diseases in humans, or induce beneficial effects by reducing insect pest populations. Many virulence factors have been determined in different fungal pathogens; however, the molecular determinants contributing to fungal host selection and adaptation are largely unknown. In this study, we sequenced the genomes of seven ascomycete insect pathogens and performed the genome-wide analyses of 33 species of filamentous ascomycete pathogenic fungi that infect insects (12 species), plants (12), and humans (9). Our results revealed that the genomes of plant pathogens encode more proteins and protein families than the insect and human pathogens. Unexpectedly, more common orthologous protein groups are shared between the insect and plant pathogens than between the two animal group pathogens. We also found that the pathogenicity of host-adapted fungi evolved multiple times, and that both divergent and convergent evolutions occurred during pathogen-host cospeciation thus resulting in protein families with similar features in each fungal group. However, the role of phylogenetic relatedness on the evolution of protein families and therefore pathotype formation could not be ruled out due to the effect of common ancestry. The evolutionary correlation analyses led to the identification of different protein families that correlated with alternate pathotypes. Particularly, the effector-like proteins identified in plant and animal pathogens were strongly linked to fungal host adaptation, suggesting the existence of similar gene-for-gene relationships in fungus-animal interactions that has not been established before. These results well advance our understanding of the evolution of fungal pathogenicity and the factors that contribute to fungal pathotype formation. PMID:27071652

  8. Quantum Field Theory without Divergences: Quantum Spacetime

    OpenAIRE

    Gadiyar, G. H.

    1994-01-01

    A fundamental length is introduced into physics in a way which respects the principles of relativity and quantum field theory. This improves the properties of quantum field theory: divergences are removed. How to quantize gravity is also indicated. When the fundamental length tends to zero the present version of quantum field theory is recovered.

  9. Taming infrared divergences in the effective potential

    Energy Technology Data Exchange (ETDEWEB)

    Elias-Miro, J. [IFAE, Univ. Autonoma de Barcelona (Spain); Universitat Autonoma de Barcelona (Spain). Dept. de Fisica; Espinosa, J.R. [IFAE, Univ. Autonoma de Barcelona (Spain); ICREA, Institucio Catalana de Recerca i Estudis Avancats, Barcelona (Spain); Konstandin, T. [Deutsches Elektronen-Synchrotron (DESY), Hamburg (Germany)

    2014-06-15

    The Higgs effective potential in the Standard Model (SM), calculated perturbatively, generically suffers from infrared (IR) divergences when the (field-dependent) tree-level mass of the Goldstone bosons goes to zero. Such divergences can affect both the potential and its first derivative and become worse with increasing loop order. In this paper we show that these IR divergences are spurious, we perform a simple resummation of all IR-problematic terms known (up to three loops) and explain how to extend the resummation to cure all such divergences to any order. The method is of general applicability and would work in scenarios other than the SM. Our discussion has some bearing on a scenario recently proposed as a mechanism for gauge mediation of scale breaking in the ultraviolet, in which it is claimed that the low-energy Higgs potential is non-standard. We argue that all non-decoupling effects from the heavy sector can be absorbed in the renormalization of low-energy parameters leading to a SM-like effective theory.

  10. Enhancing Divergent Search through Extinction Events

    DEFF Research Database (Denmark)

    Lehman, Joel; Miikkulainen, Risto

    2015-01-01

    capacity to evolve. This hypothesis is tested through experiments in two evolutionary robotics domains. The results show that combining extinction events with divergent search increases evolvability, while combining them with convergent search offers no similar benefit. The conclusion is that extinction...

  11. Enhancement of density divergence in an insect outbreak model driven by colored noise

    International Nuclear Information System (INIS)

    The steady states and the transient properties of an insect outbreak model driven by Gaussian colored noise are studied in this paper. According to the Fokker—Planck equation in the unified colored-noise approximation, we analyse the stationary probability distribution and the mean first-passage time of this model. By numerical analysis, the effects of the self-correlation time of insect birth rate and predation rate respectively reveal a manifest population divergence on the insect density. The decrease of the mean first-passage time indicates an enhancement dynamic on the density divergency with colored noise of a large self-correlation time based on the insect outbreak model

  12. Genomic divergence in a ring species complex.

    Science.gov (United States)

    Alcaide, Miguel; Scordato, Elizabeth S C; Price, Trevor D; Irwin, Darren E

    2014-07-01

    Ring species provide particularly clear demonstrations of how one species can gradually evolve into two, but are rare in nature. In the greenish warbler (Phylloscopus trochiloides) species complex, a ring of populations wraps around Tibet. Two reproductively isolated forms co-exist in central Siberia, with a gradient of genetic and phenotypic characteristics through the southern chain of populations connecting them. Previous genetic evidence has proven inconclusive, however, regarding whether species divergence took place in the face of continuous gene flow and whether hybridization between the terminal forms of the ring ever occurred. Here we use genome-wide analyses to show that, although spatial patterns of genetic variation are currently mostly as expected of a ring species, historical breaks in gene flow have existed at more than one location around the ring, and the two Siberian forms have occasionally interbred. Substantial periods of geographical isolation occurred not only in the north but also in the western Himalayas, where there is now an extensive hybrid zone between genetically divergent forms. Limited asymmetric introgression has occurred directly between the Siberian forms, although it has not caused a blending of those forms, suggesting selection against introgressed genes in the novel genetic background. Levels of reproductive isolation and genetic introgression are consistent with levels of phenotypic divergence around the ring, with phenotypic similarity and extensive interbreeding across the southwestern contact zone and strong phenotypic divergence and nearly complete reproductive isolation across the northern contact zone. These results cast doubt on the hypothesis that the greenish warbler should be viewed as a rare example of speciation by distance, but demonstrate that the greenish warbler displays a continuum from slightly divergent neighbouring populations to almost fully reproductively isolated species. PMID:24870239

  13. Estimating metazoan divergence times with a molecular clock

    OpenAIRE

    Peterson, Kevin J.; Lyons, Jessica B.; Nowak, Kristin S.; Takacs, Carter M.; Wargo, Matthew J.; McPeek, Mark A.

    2004-01-01

    Accurately dating when the first bilaterally symmetrical animals arose is crucial to our understanding of early animal evolution. The earliest unequivocally bilaterian fossils are ≈555 million years old. In contrast, molecular-clock analyses calibrated by using the fossil record of vertebrates estimate that vertebrates split from dipterans (Drosophila) ≈900 million years ago (Ma). Nonetheless, comparative genomic analyses suggest that a significant rate difference exists between vertebrates a...

  14. Investigation on Anopheline species in Chayu County, Linzhi Prefecture of Tibet Autonomous Region%西藏林芝地区察隅县按蚊种群调查

    Institute of Scientific and Technical Information of China (English)

    王洪举; 胡松林; 李松凌; 顾政诚; 陈建设; 朱国鼎; 黄芳

    2012-01-01

    目的 确定西藏林芝地区察隅县主要按蚊蚊种.方法 2010年7-8月在察隅县选择4个自然村,采用通宵/半通宵室内、外人饵帐诱捕法和通宵诱蚊灯诱捕法捕蚊,对捕获的按蚊进行形态学鉴定.结果 共捕获按蚊2 991只,其中带足按蚊2 284只(占76.36%),多斑按蚊种团667只(占22.30%),其他按蚊40只(占1.34%);带足按蚊室内、外半通宵平均密度分别为56.2只/夜和4只/夜,多斑按蚊种团室内、外半通宵平均密度分别为17.8只/夜和17.9只/夜;带足按蚊室内、外全通宵室内叮人率分别为28.1只/(人·夜)和2只/(人·夜),多斑按蚊种团全通宵室内、外叮人率均为8.9只/(人·夜).结论 带足按蚊和多斑按蚊为察隅县优势蚊种,是可能的疟疾传播媒介.%Objective To investigate Anopheline species in Chayu County of Linzhi Prefecture, Tibet Methods Four natural villages in Chayu County were selected in this study in 2010. The methods of overnighl/semi-overaight trapping indoor and outdoor human-bait, and overnight trapping with light traps were used, and all the Anopheline mosquitoes were confirmed by morphological characteristics. Results Totally 2 991 Anopheline mosquitoes were captured, with 76.36% (2 284/2 291) of An, peditae-niatus, 22.30% (667/2 291) of An. maculates group. The average densities of An. peditaeniatus by semi-overnight trapping were 56.2/per person indoor and 4/per person outdoor respectively, and the average densities of An. maculatus group by semi-overnight trapping were 17.8/per person indoor and 17.9/per person outdoor respectively. The man-biting rates of An. peditaeniatus by overnight trapping were 28.I/per person indoor and 2/per person outdoor respectively, and were both 8.9/per person to An. maculatus group. Conclusion An. peditaeniatus and An. maculatus group are the possible transmission vectors of malaria in Chayu County.

  15. Eliminating the "divergence problem" at Alaska's northern treeline

    Directory of Open Access Journals (Sweden)

    M. Wilmking

    2008-06-01

    Full Text Available Recently, an increasing off-set between tree-ring based temperature reconstructions and measured temperatures at high latitudes has been reported, the so called "divergence problem" (here "divergence effect". This "divergence effect" seriously questions the validity of tree-ring based climate reconstructions, since it seems to violate the assumption of a stable response of trees to changing climate over time. In this study we eliminated the "divergence effect" in northern Alaska by careful selection of individual trees with consistently significant positive relationships with climate (17% of sample and successfully attempted a divergence-free climate reconstruction using this sub-set. However, the majority of trees (83% did not adhere to the uniformitarian principle as usually applied in dendroclimatology. Our results thus support the notion, that factors acting on an individual tree basis are the primary causes for the "divergence effect" (at least in northern Alaska. Neither different detrending methods nor factors acting on larger scales such as global dimming or an increase in UV-B radiation could explain our results. Our results also highlight the necessity to adapt the methods of paleoreconstruction using tree rings to account for non-stable climate growth relationships as these are found in the vast majority of sampled trees and seem to be the norm rather than the exception.

  16. Higgsed Stueckelberg vector and Higgs quadratic divergence

    Directory of Open Access Journals (Sweden)

    Durmuş Ali Demir

    2015-01-01

    Full Text Available Here we show that, a hidden vector field whose gauge invariance is ensured by a Stueckelberg scalar and whose mass is spontaneously generated by the Standard Model Higgs field contributes to quadratic divergences in the Higgs boson mass squared, and even leads to its cancellation at one-loop when Higgs coupling to gauge field is fine-tuned. In contrast to mechanisms based on hidden scalars where a complete cancellation cannot be achieved, stabilization here is complete in that the hidden vector and the accompanying Stueckelberg scalar are both free from quadratic divergences at one-loop. This stability, deriving from hidden exact gauge invariance, can have important implications for modeling dark phenomena like dark matter, dark energy, dark photon and neutrino masses. The hidden fields can be produced at the LHC.

  17. Flow over convergent and divergent wall riblets

    Energy Technology Data Exchange (ETDEWEB)

    Koeltzsch, K.; Dinkelacker, A.; Grundmann, R. [Institut fuer Luft- und Raumfahrttechnik, Technische Universitaet Dresden, 36460 Merkers (Germany)

    2002-08-01

    Fast swimming sharks have small riblets on their skin, which are assumed to improve the swimming performance of the fish. Fluid dynamic experiments in water as well as in air confirm this assumption. With riblet surfaces as compared to smooth surfaces, drag reductions up to about 10% were measured. The overall riblet pattern on sharks shows parallel riblets directed from head to tail, but besides this overall pattern fast swimming sharks have also small areas with converging riblets and others with diverging riblets. In the present study the velocity field over convergent and divergent riblet patterns is investigated by hot-wire measurements in turbulent pipe flow. Significant changes in the near wall velocity field were found. (orig.)

  18. Information Filtering Using Kullback-Leibler Divergence

    Science.gov (United States)

    Yanagimoto, Hidekazu; Omatu, Sigeru

    In this paper we describe an information filtering system using the Kullback-Leibler divergence. To cope with information flood, many information filtering systems have been proposed up to now. Since almost all information filtering systems are developed with techniques of information retrieval, machine learning, and pattern recognition, they often use a linear function as the discriminant function. To classify information in the field of document classification more precisely, the systems have been reported which use a non-linear function as the discriminant function. The proposed method is to use the Kullback-Leibler divergence as the discriminat function which denotes to user's interest in the information filtering system. To identify the optimal discriminat function with documents which a user evaluates, we decide the optimal function using the genetic algorithm. We compare the present method with the other one using a linear discriminant function and confirm the effectiveness of the proposed method.

  19. Increasing interpersonal trust through divergent thinking

    Directory of Open Access Journals (Sweden)

    RobertaSellaro

    2014-06-01

    Full Text Available Interpersonal trust is an essential ingredient of many social relationships but how stable is it actually, and how is it controlled? There is evidence that the degree of trust into others might be rather volatile and can be affected by manipulations like drawing attention to personal interdependence or independence. Here we investigated whether the degree of interpersonal trust can be biased by inducing either a more integrative or a more cognitive-control mode by means of a creativity task requiring divergent or convergent thinking, respectively. Participants then performed the Trust Game, which provides an index of interpersonal trust by assessing the money units one participant (the trustor transfers to another participant (the trustee. As expected, participants transferred significantly more money to the trustee after engaging in divergent thinking as compared to convergent thinking. This observation provides support for the idea that interpersonal trust is controlled by domain-general (i.e., not socially dedicated cognitive states.

  20. COMPARATIVE FINANCIAL STATEMENTS. CONVERGENCE VERSUS DIVERGENCE

    Directory of Open Access Journals (Sweden)

    Nicolae ECOBICI

    2010-09-01

    Full Text Available In this paper I compared the Romanian financial statements with the US GAAP financial statements in terms of two criteria: first the reference period and secondly the shape, structure and content of financial statements. Nowadays the two accounting systems, the French and Anglo-Saxon, tend to harmonize. I will present the convergences and the divergences between the financial statements of Romania, subject to OMFP 3055/2009, in parallel with the Anglo-Saxon accounting system.

  1. Nucleosomes shape DNA polymorphism and divergence.

    Directory of Open Access Journals (Sweden)

    Sasha A Langley

    2014-07-01

    Full Text Available An estimated 80% of genomic DNA in eukaryotes is packaged as nucleosomes, which, together with the remaining interstitial linker regions, generate higher order chromatin structures [1]. Nucleosome sequences isolated from diverse organisms exhibit ∼10 bp periodic variations in AA, TT and GC dinucleotide frequencies. These sequence elements generate intrinsically curved DNA and help establish the histone-DNA interface. We investigated an important unanswered question concerning the interplay between chromatin organization and genome evolution: do the DNA sequence preferences inherent to the highly conserved histone core exert detectable natural selection on genomic divergence and polymorphism? To address this hypothesis, we isolated nucleosomal DNA sequences from Drosophila melanogaster embryos and examined the underlying genomic variation within and between species. We found that divergence along the D. melanogaster lineage is periodic across nucleosome regions with base changes following preferred nucleotides, providing new evidence for systematic evolutionary forces in the generation and maintenance of nucleosome-associated dinucleotide periodicities. Further, Single Nucleotide Polymorphism (SNP frequency spectra show striking periodicities across nucleosomal regions, paralleling divergence patterns. Preferred alleles occur at higher frequencies in natural populations, consistent with a central role for natural selection. These patterns are stronger for nucleosomes in introns than in intergenic regions, suggesting selection is stronger in transcribed regions where nucleosomes undergo more displacement, remodeling and functional modification. In addition, we observe a large-scale (∼180 bp periodic enrichment of AA/TT dinucleotides associated with nucleosome occupancy, while GC dinucleotide frequency peaks in linker regions. Divergence and polymorphism data also support a role for natural selection in the generation and maintenance of these

  2. On the Benefits of Divergent Search for Evolved Representations

    DEFF Research Database (Denmark)

    Lehman, Joel; Risi, Sebastian; Stanley, Kenneth O

    2012-01-01

    explicit objectives that are consequently divergent may implicitly reward lineages that continually diverge, thereby indirectly selecting for evolvable representations that are better able to diverge further. This paper reviews a range of past results that support such a hypothesis from a method called...... novelty search, which explicitly rewards novelty, i.e. behaviors that diverge from previously encountered behaviors. In many experiments, novelty search demonstrates significant representational advantages over traditional fitness-based search, such as evolving more compact solutions, uncovering more...

  3. Spontaneous eye blinks during creative task correlate with divergent processing.

    Science.gov (United States)

    Ueda, Yoshiyuki; Tominaga, Atsuko; Kajimura, Shogo; Nomura, Michio

    2016-07-01

    Creativity consists of divergent and convergent thinking, with both related to individual eye blinks at rest. To assess underlying mechanisms between eye blinks and traditional creativity tasks, we investigated the relationship between creativity performance and eye blinks at rest and during tasks. Participants performed an alternative uses and remote association task while eye blinks were recorded. Results showed that the relationship between eye blinks at rest and creativity performance was compatible with those of previous research. Interestingly, we found that the generation of ideas increased as a function of eye blink number during the alternative uses task. On the other hand, during the remote association task, accuracy was independent of eye blink number during the task, but response time increased with it. Moreover, eye blink changes in participants who responded quickly during the remote association task were different depending on their resting state eye blinks; that is, participants with many eye blinks during rest showed little increasing eye blinks and achieved solutions quickly. Positive correlations between eye blinks during creative tasks and yielding ideas on the alternative uses task and response time on the remote association task suggest that eye blinks during creativity tasks relate to divergent thinking processes such as conceptual reorganization. PMID:25863791

  4. Distance-dependent patterns of molecular divergences in Tuatara mitogenomes.

    Science.gov (United States)

    Subramanian, Sankar; Mohandesan, Elmira; Millar, Craig D; Lambert, David M

    2015-01-01

    Population genetic models predict that populations that are geographically close to each other are expected to be genetically more similar to each other compared to those that are widely separate. However the patterns of relationships between geographic distance and molecular divergences at neutral and constrained regions of the genome are unclear. We attempted to clarify this relationship by sequencing complete mitochondrial genomes of the relic species Tuatara (Sphenodon punctatus) from ten offshore islands of New Zealand. We observed a positive relationship that showed a proportional increase in the neutral diversity at synonymous sites (dS), with increasing geographical distance. In contrast we showed that diversity at evolutionarily constrained sites (dC) was elevated in the case of comparisons involving closely located populations. Conversely diversity was reduced in the case of comparisons between distantly located populations. These patterns were confirmed by a significant negative relationship between the ratio of dC/dS and geographic distance. The observed high dC/dS could be explained by the abundance of deleterious mutations in comparisons involving closely located populations, due to the recent population divergence times. Since distantly related populations were separated over long periods of time, deleterious mutations might have been removed by purifying selection. PMID:25731894

  5. Coherence and Divergence of Megatrends in Science and Engineering

    International Nuclear Information System (INIS)

    Scientific discoveries and technological innovations are at the core of human endeavor, and it is estimated that their role will only increase in time. Such advancements evolve in coherence, with areas of confluence and temporary divergences, which bring synergism and that stimulate further developments following in average an exponential growth. Six increasingly interconnected megatrends are perceived as dominating the scene for the next decades: (a) information and computing, (b) nanoscale science and engineering (S and E), (c) biology and bio-environmental approaches, (d) medical sciences and enhancing human physical capabilities, (e) cognitive sciences and enhancing intellectual abilities, and (f) collective behavior and system approach.This paper presents a perspective on the process of identification, planning and program implementation of S and E megatrends, with illustration for the US research initiative on nanoscale science, engineering, and technology. The interplay between coherence and divergence, leading to unifying science and converging technologies, does not develop only among simultaneous scientific trends but also along time and across geopolitical boundaries. There is no single way of development of S and E, and here is the role of taking visionary measures. Societal implication scientists need to be involved from the conceptual phase of a program responding to a S and E megatrend

  6. Divergent natural selection promotes immigrant inviability at early and late stages of evolutionary divergence.

    Science.gov (United States)

    Ingley, Spencer J; Johnson, Jerald B

    2016-03-01

    Natural selection's role in speciation has been of fundamental importance since Darwin first outlined his theory. Recently, work has focused on understanding how selection drives trait divergence, and subsequently reproductive isolation. "Immigrant inviability," a barrier that arises from selection against immigrants in their nonnative environment, appears to be of particular importance. Although immigrant inviability is likely ubiquitous, we know relatively little about how selection acts on traits to drive immigrant inviability, and how important immigrant inviability is at early-versus-late stages of divergence. We present a study evaluating the role of predation in the evolution of immigrant inviability in recently diverged population pairs and a well-established species pair of Brachyrhaphis fishes. We evaluate performance in a high-predation environment by assessing survival in the presence of a predator, and swimming endurance in a low-predation environment. We find strong signatures of local adaptation and immigrant inviability of roughly the same magnitude both early and late in divergence. We find remarkably conserved selection for burst-speed swimming (important in predator evasion), and selection for increased size in low-predation environments. Our results highlight the consistency with which selection acts during speciation, and suggest that similar factors might promote initial population differentiation and maintain differentiation at late stages of divergence. PMID:26831519

  7. Constrained hyperbolic divergence cleaning in smoothed particle magnetohydrodynamics with variable cleaning speeds

    CERN Document Server

    Tricco, Terrence S; Bate, Matthew R

    2016-01-01

    We present an updated constrained hyperbolic/parabolic divergence cleaning algorithm for smoothed particle magnetohydrodynamics (SPMHD) that remains conservative with wave cleaning speeds which vary in space and time. This is accomplished by evolving the quantity $\\psi / c_h$ instead of $\\psi$. Doing so allows each particle to carry an individual wave cleaning speed, $c_h$, that can evolve in time without needing an explicit prescription for how it should evolve, preventing circumstances which we demonstrate could lead to runaway energy growth related to variable wave cleaning speeds. This modification requires only a minor adjustment to the cleaning equations and is trivial to adopt in existing codes. Finally, we demonstrate that our constrained hyperbolic/parabolic divergence cleaning algorithm, run for a large number of iterations, can reduce the divergence of the field to an arbitrarily small value, achieving $\

  8. Divergence of Electric Field of Continuous and of a Point Charge for Relativistic and non-Relativistic Motion

    CERN Document Server

    Zhakatayev, Altay

    2016-01-01

    In this paper we considered divergence of electric and of magnetic fields for four cases: classical point charge, classical continuous charge, relativistic point and relativistic continuous charges. Results for classical and relativistic point charges are the same as in literature, i.e. Gauss's law is valid. However results for time-varying classical and relativistic distributed charges indicate that divergence of electric field is not zero even for volumes of space where no charges are present. For these cases original Gauss's law might require modification. Divergence of electric field seems to be far-field type scalar anisotropic field, which is generated by time-varying electric charges or currents. Results indicate that for these effects to be sufficiently large to be experimentally observable the time variation of electric charges and/or of currents should be very fast. Divergence of magnetic field is zero for all cases.

  9. Some Divergence Properties of Asset Price Models

    Science.gov (United States)

    Stummer, Wolfgang

    2001-12-01

    We consider asset price processes Xt which are weak solutions of one-dimensional stochastic differential equations of the form (equation (2)) Such price models can be interpreted as non-lognormally-distributed generalizations of the geometric Brownian motion. We study properties of the Iα-divergence between the law of the solution Xt and the corresponding drift-less measure (the special case α=1 is the relative entropy). This will be applied to some context in statistical information theory as well as to arbitrage theory and contingent claim valuation. For instance, the seminal option pricing theorems of Black-Scholes and Merton appear as a special case.

  10. Phycobiliprotein distribution across the western Mediterranean divergence

    Science.gov (United States)

    Algarra, Patricia; Estrada, Marta; Niell, F. Xavier

    1988-08-01

    A modified method is presented to determine phycobiliprotein distribution across the western Mediterranean divergence. A deep C-phycoerythrin maximum is detected between 60 and 80 m, but when irradiance in the water column decreases this maximum is shallower and occurs at around the 1% light level. Even though other factors cannot be discarded, the relationships between C-phycoerythrin (associated to Synechococcus cyanobacteria), chlorophyll a and light intensity distributions suggest that this last factor plays an important role in the maintenance of the deep pigment maxima detected.

  11. Activation Detection in fMRI Using Jeffrey Divergence

    Science.gov (United States)

    Seghouane, Abd-Krim

    2009-12-01

    A statistical test for detecting activated pixels in functional MRI (fMRI) data is proposed. For the derivation of this test, the fMRI time series measured at each voxel is modeled as the sum of a response signal which arises due to the experimentally controlled activation-baseline pattern, a nuisance component representing effects of no interest, and Gaussian white noise. The test is based on comparing the dimension of the voxels fMRI time series fitted data models with and without controlled activation-baseline pattern. The Jeffrey divergence is used for this comparison. The test has the advantage of not requiring a level of significance or a threshold to be provided.

  12. The constancy of gene conservation across divergent bacterial orders

    Directory of Open Access Journals (Sweden)

    Ackermann Martin

    2009-01-01

    Full Text Available Abstract Background Orthologous genes are frequently presumed to perform similar functions. However, outside of model organisms, this is rarely tested. One means of inferring changes in function is if there are changes in the level of gene conservation and selective constraint. Here we compare levels of gene conservation across three bacterial groups to test for changes in gene functionality. Findings The level of gene conservation for different orthologous genes is highly correlated across clades, even for highly divergent groups of bacteria. These correlations do not arise from broad differences in gene functionality (e.g. informational genes vs. metabolic genes, but instead seem to result from very specific differences in gene function. Furthermore, these functional differences appear to be maintained over very long periods of time. Conclusion These results suggest that even over broad time scales, most bacterial genes are under a nearly constant level of purifying selection, and that bacterial evolution is thus dominated by selective and functional stasis.

  13. The relation between gray matter morphology and divergent thinking in adolescents and young adults.

    Directory of Open Access Journals (Sweden)

    Janna Cousijn

    Full Text Available Adolescence and early adulthood are developmental time periods during which creative cognition is highly important for adapting to environmental changes. Divergent thinking, which refers to generating novel and useful solutions to open-ended problems, has often been used as a measure of creative cognition. The first goal of this structural neuroimaging study was to elucidate the relationship between gray matter morphology and performance in the verbal (AUT; alternative uses task and visuo-spatial (CAT; creative ability test domain of divergent thinking in adolescents and young adults. The second goal was to test if gray matter morphology is related to brain activity during AUT performance. Neural and behavioral data were combined from a cross-sectional study including 25 adolescents aged 15-17 and 20 young adults aged 25-30. Brain-behavior relationships were assessed without a priori location assumptions and within areas that were activated during an AUT-scanner task. Gray matter volume and cortical thickness were not significantly associated with verbal divergent thinking. However, visuo-spatial divergent thinking (CAT originality and fluency was positively associated with cortical thickness of the right middle temporal gyrus and left brain areas including the superior frontal gyrus and various occipital, parietal, and temporal areas, independently of age. AUT brain activity was not associated with cortical thickness. The results support an important role of a widespread brain network involved in flexible visuo-spatial divergent thinking, providing evidence for a relation between cortical thickness and visuo-spatial divergent thinking in adolescents and young adults. However, studies including visuo-spatial divergent thinking tasks in the scanner are warranted.

  14. The relation between gray matter morphology and divergent thinking in adolescents and young adults.

    Science.gov (United States)

    Cousijn, Janna; Koolschijn, P Cédric M P; Zanolie, Kiki; Kleibeuker, Sietske W; Crone, Eveline A

    2014-01-01

    Adolescence and early adulthood are developmental time periods during which creative cognition is highly important for adapting to environmental changes. Divergent thinking, which refers to generating novel and useful solutions to open-ended problems, has often been used as a measure of creative cognition. The first goal of this structural neuroimaging study was to elucidate the relationship between gray matter morphology and performance in the verbal (AUT; alternative uses task) and visuo-spatial (CAT; creative ability test) domain of divergent thinking in adolescents and young adults. The second goal was to test if gray matter morphology is related to brain activity during AUT performance. Neural and behavioral data were combined from a cross-sectional study including 25 adolescents aged 15-17 and 20 young adults aged 25-30. Brain-behavior relationships were assessed without a priori location assumptions and within areas that were activated during an AUT-scanner task. Gray matter volume and cortical thickness were not significantly associated with verbal divergent thinking. However, visuo-spatial divergent thinking (CAT originality and fluency) was positively associated with cortical thickness of the right middle temporal gyrus and left brain areas including the superior frontal gyrus and various occipital, parietal, and temporal areas, independently of age. AUT brain activity was not associated with cortical thickness. The results support an important role of a widespread brain network involved in flexible visuo-spatial divergent thinking, providing evidence for a relation between cortical thickness and visuo-spatial divergent thinking in adolescents and young adults. However, studies including visuo-spatial divergent thinking tasks in the scanner are warranted. PMID:25514366

  15. Sleep loss and "divergent" thinking ability.

    Science.gov (United States)

    Horne, J A

    1988-12-01

    Although much is known about the impact of sleep loss on many aspects of psychological performance, the effects on divergent ("creative") thinking has received little attention. Twelve subjects went 32 h without sleep, and 12 others acted as normally sleeping controls. All subjects were assessed on the figural and verbal versions of the Torrance Tests of Creative Thinking. As compared with the control condition, sleep loss impaired performance on all test scales (e.g., "flexibility," the ability to change strategy, and "originality," generation of unusual ideas) for both versions, even on an initial 5-min test component. In an attempt at further understanding of whether these findings might be explained solely by a loss of motivation, two additional short and stimulating tests were also used--a word fluency task incorporating high incentive to do well and a challenging nonverbal planning test. Performance at these tasks was still significantly impaired by sleep loss. Increased perseveration was clearly apparent. Apparently, 1 night of sleep loss can affect divergent thinking. This contrasts with the outcome for convergent thinking tasks, which are more resilient to short-term sleep loss. PMID:3238256

  16. Fungal evolutionary genomics provides insight into the mechanisms of adaptive divergence in eukaryotes.

    Science.gov (United States)

    Gladieux, Pierre; Ropars, Jeanne; Badouin, Hélène; Branca, Antoine; Aguileta, Gabriela; de Vienne, Damien M; Rodríguez de la Vega, Ricardo C; Branco, Sara; Giraud, Tatiana

    2014-02-01

    Fungi are ideal model organisms for dissecting the genomic bases of adaptive divergence in eukaryotes. They have simple morphologies and small genomes, occupy contrasting, well-identified ecological niches and tend to have short generation times, and many are amenable to experimental approaches. Fungi also display diverse lifestyles, from saprotrophs to pathogens or mutualists, and they play extremely important roles in both ecosystems and human activities, as wood decayers, mycorrhizal fungi, lichens, endophytes, plant and animal pathogens, and in fermentation or drug production. We review here recent insights into the patterns and mechanisms of adaptive divergence in fungi, including sources of divergence, genomic variation and, ultimately, speciation. We outline the various ecological sources of divergent selection and genomic changes, showing that gene loss and changes in gene expression and in genomic architecture are important adaptation processes, in addition to the more widely recognized processes of amino acid substitution and gene duplication. We also review recent findings regarding the interspecific acquisition of genomic variation and suggesting an important role for introgression, hybridization and horizontal gene transfers (HGTs). We show that transposable elements can mediate several of these genomic changes, thus constituting important factors for adaptation. Finally, we review the consequences of divergent selection in terms of speciation, arguing that genetic incompatibilities may not be as widespread as generally thought and that pleiotropy between adaptation and reproductive isolation is an important route of speciation in fungal pathogens. PMID:24341913

  17. DNA barcoding reveals species level divergence between populations of the microhylid frog genus Arcovomer (Anura: Microhylidae) in the Atlantic Rainforest of southeastern Brazil.

    Science.gov (United States)

    Jennings, W Bryan; Wogel, Henrique; Bilate, Marcos; Salles, Rodrigo de O L; Buckup, Paulo A

    2016-09-01

    The microhylid frogs belonging to the genus Arcovomer have been reported from lowland Atlantic Rainforest in the Brazilian states of Espírito Santo, Rio de Janeiro, and São Paulo. Here, we use DNA barcoding to assess levels of genetic divergence between apparently isolated populations in Espírito Santo and Rio de Janeiro. Our mtDNA data consisting of cytochrome oxidase subunit I (COI) nucleotide sequences reveals 13.2% uncorrected and 30.4% TIM2 + I + Γ corrected genetic divergences between these two populations. This level of divergence exceeds the suggested 10% uncorrected divergence threshold for elevating amphibian populations to candidate species using this marker, which implies that the Espírito Santo population is a species distinct from Arcovomer passarellii. Calibration of our model-corrected sequence divergence estimates suggests that the time of population divergence falls between 12 and 29 million years ago. PMID:26016873

  18. Divergence of the Chapman-Enskog expansion in relativistic kinetic theory

    CERN Document Server

    Denicol, Gabriel S

    2016-01-01

    In this letter we show for the first time that the relativistic Chapman-Enskog series for a massless gas undergoing Bjorken expansion diverges. In order to fix this problem, we propose a novel type of expansion that includes non-perturbative contributions in the Knudsen number that are not considered in Chapman-Enskog theory. This approach is in good agreement with exact solutions of the Boltzmann equation for a wide range of values of Knudsen number and does not display the clear signs of divergence exhibited by the Chapman-Enskog series.

  19. Divergent pointing with the Cherenkov Telescope Array for surveys and beyond

    CERN Document Server

    ,

    2015-01-01

    The galactic and extragalactic surveys are two of the main proposed legacy projects of the Cherenkov Telescope Array (CTA), providing an unbiased view of the Universe at energies above tens of GeV. Considering Cherenkov telescopes' limited field of view ($<10^\\circ$), the time needed for those projects is large. The many telescopes of CTA will allow taking full advantage of new pointing modes in which telescopes point slightly offset from one another. This divergent pointing mode leads to an increase of the array field of view ($\\sim 14^\\circ$ or larger) with competitive performance compared to normal pointing. We present here a study of the performance of the divergent pointing for different array configurations and number of telescopes. We briefly discuss the prospect of using divergent pointing for surveys.

  20. Regulation of cell-to-cell variability in divergent gene expression

    Science.gov (United States)

    Yan, Chao; Wu, Shuyang; Pocetti, Christopher; Bai, Lu

    2016-03-01

    Cell-to-cell variability (noise) is an important feature of gene expression that impacts cell fitness and development. The regulatory mechanism of this variability is not fully understood. Here we investigate the effect on gene expression noise in divergent gene pairs (DGPs). We generated reporters driven by divergent promoters, rearranged their gene order, and probed their expressions using time-lapse fluorescence microscopy and single-molecule fluorescence in situ hybridization (smFISH). We show that two genes in a co-regulated DGP have higher expression covariance compared with the separate, tandem and convergent configurations, and this higher covariance is caused by more synchronized firing of the divergent transcriptions. For differentially regulated DGPs, the regulatory signal of one gene can stochastically `leak' to the other, causing increased gene expression noise. We propose that the DGPs' function in limiting or promoting gene expression noise may enhance or compromise cell fitness, providing an explanation for the conservation pattern of DGPs.

  1. Creative Cognition in Secondary Science: An Exploration of Divergent Thinking in Science among Adolescents

    Science.gov (United States)

    Antink-Meyer, Allison; Lederman, Norman G.

    2015-01-01

    The divergent thinking skills in science of 282 US high school students were investigated across 16 weeks of instruction in order to determine whether typical academic time periods can significantly influence changes in thinking skills. Students' from 6 high school science classrooms completed the Scientific Structures Creativity Measure (SSCM)…

  2. Hyperbolic Divergence Cleaning Method for Godunov Smoothed Particle Magnetohydrodynamics

    Science.gov (United States)

    Iwasaki, K.; Inutsuka, S.-I.

    2013-04-01

    In this paper, we implement a divergence cleaning method into Godunov smoothed particle magnetohydrodynamics (GSPM). In the GSPM, to describe MHD shocks accurately, a Riemann solver is applied to the SPH method instead of artificial viscosity and resistivity that have been used in previous works. We confirmed that the divergence cleaning method reduces divergence errors significantly. The performance of the method is demonstrated in the numerical simulations of a strongly magnetized gas and bipolar outflow from the first core.

  3. Solar Divergence Collimators for Optical Characterisation of Solar Components

    OpenAIRE

    D. Fontani; P. Sansoni; E. Sani; Coraggia, S.; D. Jafrancesco; Mercatelli, L.

    2013-01-01

    Experimentation and laboratory optical tests on solar components are central aspects of the research on renewable energies. The key element of the proposed testing systems is a solar divergence collimator, which exactly reproduces in laboratory the sunlight divergence, while commercial solar simulators are mainly aimed to replicate intensity and spectrum of the sun. Precise solar divergence reproduction is essential to correctly assess the optical properties and to simulate the operative cond...

  4. DIVERGENCE - FREE WAVELET SOLUTION TO THE STOKES PROBLEM

    Institute of Scientific and Technical Information of China (English)

    Yingchun Jiang

    2007-01-01

    In this paper, we use divergence-free wavelets to give an adaptive solution to the velocity field of the Stokes problem. We first use divergence-free wavelets to discretize the divergence-free weak formulation of the Stokes problem and obtain a discrete positive definite linear system of equations whose coefficient matrix is quasi-sparse; Secondly, an adaptive scheme is used to solve the discrete linear system of equations and the error estimation and complexity analysis are given.

  5. State-Dependent Divergences in the Entanglement Entropy

    CERN Document Server

    Marolf, Donald

    2016-01-01

    We show the entanglement entropy in certain quantum field theories to contain state-dependent divergences. Both perturbative and holographic examples are exhibited. However, quantities such as the relative entropy and the generalized entropy of black holes remain finite, due to cancellation of divergences. We classify all possible state-dependent divergences that can appear in both perturbatively renormalizeable and holographic covariant $d\\le 6$ quantum field theories.

  6. Divergence with gene flow within the recent chipmunk radiation (Tamias)

    OpenAIRE

    Sullivan, J.; Demboski, J R; Bell, K C; Hird, S.; Sarver, B; Reid, N; Good, J M

    2014-01-01

    Increasing data have supported the importance of divergence with gene flow (DGF) in the generation of biological diversity. In such cases, lineage divergence occurs on a shorter timescale than does the completion of reproductive isolation. Although it is critical to explore the mechanisms driving divergence and preventing homogenization by hybridization, it is equally important to document cases of DGF in nature. Here we synthesize data that have accumulated over the last dozen or so years on...

  7. Repeated adaptive divergence of microhabitat specialization in avian feather lice

    OpenAIRE

    Johnson Kevin P; Shreve Scott M; Smith Vincent S

    2012-01-01

    Abstract Background Repeated adaptive radiations are evident when phenotypic divergence occurs within lineages, but this divergence into different forms is convergent when compared across lineages. Classic examples of such repeated adaptive divergence occur in island (for example, Caribbean Anolis lizards) and lake systems (for example, African cichlids). Host-parasite systems in many respects are analogous to island systems, where host species represent isolated islands for parasites whose l...

  8. Genetic divergence in land races of rice

    Directory of Open Access Journals (Sweden)

    T.Rajesh, K.Paramasivam and S.Thirumeni

    2010-03-01

    Full Text Available Genetic diversity was assessed in 29 land races of rice using Mahalanobis’s D2 statistics. Eight quantitativecharacters including grain yield were considered for the study. Based on genetic distances, the 29 genotypeswere grouped into five clusters. The mode of distribution of genotypes from different geographic regions intovarious clusters was at random indicating that geographical diversity and genetic diversity were not related .Thecharacters days to first flowering and single plant yield contributed maximum towards genetic divergence. Themaximum inter cluster distance was recorded between cluster IV and cluster V. The genotypes in these clustersVattan and Vellai Chitraikar (cluster IV and Thulasi Manjari (cluster V may serve as potential donors forfuture hybridization programmes.

  9. Some Divergence Properties of Asset Price Models

    Directory of Open Access Journals (Sweden)

    Wolfgang Stummer

    2001-12-01

    Full Text Available Abstract: We consider asset price processes Xt which are weak solutions of one-dimensional stochastic differential equations of the form (equation (2 Such price models can be interpreted as non-lognormally-distributed generalizations of the geometric Brownian motion. We study properties of the Iα-divergence between the law of the solution Xt and the corresponding drift-less measure (the special case α=1 is the relative entropy. This will be applied to some context in statistical information theory as well as to arbitrage theory and contingent claim valuation. For instance, the seminal option pricing theorems of Black-Scholes and Merton appear as a special case.

  10. Temperature Influence on Divergence Angles of Quartz Crystal Wollaston Prism

    International Nuclear Information System (INIS)

    We propose a structural angle and main refractive indices as two key factors to understand the temperature influence on the divergence angles of the Wollaston prism. The temperature influence on the divergence angles of quartz crystal Wollaston prism is studied theoretically The results show that divergence angles decrease with increasing temperature, while the divergence angle of e-light decrease more quickly than that of o-light. The testing system is established to verify the above results, and the experimental results are in agreement well with the theoretical analysis. (fundamental areas of phenomenology (including applications))

  11. Sandwiched R\\'enyi Divergence Satisfies Data Processing Inequality

    OpenAIRE

    Beigi, Salman

    2013-01-01

    Sandwiched (quantum) $\\alpha$-R\\'enyi divergence has been recently defined in the independent works of Wilde et al. (arXiv:1306.1586) and M\\"uller-Lennert et al (arXiv:1306.3142v1). This new quantum divergence has already found applications in quantum information theory. Here we further investigate properties of this new quantum divergence. In particular we show that sandwiched $\\alpha$-R\\'enyi divergence satisfies the data processing inequality for all values of $\\alpha> 1$. Moreover we prov...

  12. 1-Loop Divergences of Quantum Gravity Using Conformal Parametrization

    CERN Document Server

    De Berredo-Peixoto, G; Shapiro, I L

    2000-01-01

    We calculate the one-loop divergences for quantum gravity with cosmological constant, using new parametrization of quantum metric. The conformal factor of the metric is treated as an independent variable. As a result the theory possesses an additional degeneracy and one needs an extra conformal gauge fixing. We verify the on shell independence of the divergences from the parameter of the conformal gauge fixing, and find a special conformal gauge in which the divergences coincide with the ones obtained by t'Hooft and Veltman (1974). Using conformal invariance of the counterterms one can restore the divergences for the conformal metric-scalar gravity.

  13. Suppression effects of Weibel instability for fast electron divergence

    Directory of Open Access Journals (Sweden)

    Sakagami H.

    2013-11-01

    Full Text Available Quasi-static magnetic fields, which are induced by the Weibel instability and grow to more than hundred Megagauss, lead to large divergence angle of fast electrons, hence lower energy coupling. To suppress the divergence, two different structures, namely density trough and punched out holes, are introduced to targets. In the density trough target, the Weibel instability is enhanced and the divergence is getting worse. On the other hand, the divergence angle is improved but the number of electrons is degraded for fast electrons (<3 MeV in the punched out target.

  14. Horizontal Gene Transfers from Bacteria to Entamoeba Complex: A Strategy for Dating Events along Species Divergence.

    Science.gov (United States)

    Romero, Miguel; Cerritos, R; Ximenez, Cecilia

    2016-01-01

    Horizontal gene transfer has proved to be relevant in eukaryotic evolution, as it has been found more often than expected and related to adaptation to certain niches. A relatively large list of laterally transferred genes has been proposed and evaluated for the parasite Entamoeba histolytica. The goals of this work were to elucidate the importance of lateral gene transfer along the evolutionary history of some members of the genus Entamoeba, through identifying donor groups and estimating the divergence time of some of these events. In order to estimate the divergence time of some of the horizontal gene transfer events, the dating of some Entamoeba species was necessary, following an indirect dating strategy based on the fossil record of plausible hosts. The divergence between E. histolytica and E. nuttallii probably occurred 5.93 million years ago (Mya); this lineage diverged from E. dispar 9.97 Mya, while the ancestor of the latter separated from E. invadens 68.18 Mya. We estimated times for 22 transferences; the most recent occurred 31.45 Mya and the oldest 253.59 Mya. Indeed, the acquisition of genes through lateral transfer may have triggered a period of adaptive radiation, thus playing a major role in the evolution of the Entamoeba genus. PMID:27239333

  15. DAST in Flight Showing Diverging Wingtip Oscillations

    Science.gov (United States)

    1980-01-01

    normal stiffness. This was done because stiffness requires structural weight but ensures freedom from flutter-an uncontrolled, divergent oscillation of the structure, driven by aerodynamic forces and resulting in structural failure. The program used refined theoretical tools to predict at what speed flutter would occur. It then designed a high-response control system to counteract the motion and permit a much lighter wing structure. The wing had, in effect, 'electronic stiffness.' Flight research with this concept was extremely hazardous because an error in either the flutter prediction or control system implementation would result in wing structural failure and the loss of the vehicle. Because of this, flight demonstration of a sub-scale vehicle made sense from the standpoint of both safety and cost. The program anticipated structural failure during the course of the flight research. The Firebee II was a supersonic drone selected as the DAST testbed because its wing could be easily replaced, it used only tail-mounted control surfaces, and it was available as surplus from the U. S. Air Force. It was capable of 5-g turns (that is, turns producing acceleration equal to 5 times that of gravity). Langley outfitted a drone with an aeroelastic, supercritical research wing suitable for a Mach 0.98 cruise transport with a predicted flutter speed of Mach 0.95 at an altitude of 25,000 feet. Dryden and Langley, in conjunction with Boeing, designed and fabricated a digital flutter suppression system (FSS). Dryden developed an RPRV (remotely piloted research vehicle) flight control system; integrated the wing, FSS, and vehicle systems; and conducted the flight program. In addition to a digital flight control system and aeroelastic wings, each DAST drone had research equipment mounted in its nose and a mid-air retrieval system in its tail. The drones were originally launched from the NASA B-52 bomber and later from a DC-130. The DAST vehicle's flight was monitored from the sky by an F

  16. Convergence Insufficiency/Divergence Insufficiency Convergence Excess/Divergence Excess: Some Facts and Fictions.

    Science.gov (United States)

    Khawam, Edward; Abiad, Bachir; Boughannam, Alaa; Saade, Joanna; Alameddine, Ramzi

    2015-01-01

    Great discrepancies are often encountered between the distance fixation and the near-fixation esodeviations and exodeviations. They are all attributed to either anomalies of the AC/A ratio or anomalies of the fusional convergence or divergence amplitudes. We report a case with pseudoconvergence insufficiency and another one with pseudoaccommodative convergence excess. In both cases, conv./div. excess and insufficiency were erroneously attributed to anomalies of the AC/A ratio or to anomalies of the fusional amplitudes. Our purpose is to show that numerous factors, other than anomalies in the AC/A ratio or anomalies in the fusional conv. or divergence amplitudes, can contaminate either the distance or the near deviations. This results in significant discrepancies between the distance and the near deviations despite a normal AC/A ratio and normal fusional amplitudes, leading to erroneous diagnoses and inappropriate treatment models. PMID:26351603

  17. Convergence Insufficiency/Divergence Insufficiency Convergence Excess/Divergence Excess: Some Facts and Fictions

    OpenAIRE

    Edward Khawam; Bachir Abiad; Alaa Boughannam; Joanna Saade; Ramzi Alameddine

    2015-01-01

    Great discrepancies are often encountered between the distance fixation and the near-fixation esodeviations and exodeviations. They are all attributed to either anomalies of the AC/A ratio or anomalies of the fusional convergence or divergence amplitudes. We report a case with pseudoconvergence insufficiency and another one with pseudoaccommodative convergence excess. In both cases, conv./div. excess and insufficiency were erroneously attributed to anomalies of the AC/A ratio or to anomalies ...

  18. Investigation on Divergent Exit Curvature Effect on Nozzle Pressure Ratio of Supersonic Convergent Divergent Nozzle

    OpenAIRE

    aShyamshankar.M.B; Sankar.V

    2015-01-01

    The objective of this project work is to computationally analyze shock waves in the Convergent Divergent (CD) Nozzle. The commercial CFD code Fluent is employed to analyze the compressible flow through the nozzle. The analysis is about NPR (Nozzle Pressure Ratio) i.e., the ratio between exit pressure of the nozzle to ambient pressure. The various models of CD Nozzle are designed and the results are compared. The flow characteristic of shockwave for various design of CD Nozzle is a...

  19. A phylogenomic approach to resolve the basal pterygote divergence.

    Science.gov (United States)

    Simon, Sabrina; Strauss, Sascha; von Haeseler, Arndt; Hadrys, Heike

    2009-12-01

    One of the most fascinating Bauplan transitions in the animal kingdom was the invention of insect wings, a change that also contributed to the success and enormous diversity of this animal group. However, the origin of insect flight and the relationships of basal winged insect orders are still controversial. Three hypotheses have been proposed to explain the phylogeny of winged insects: 1) the traditional Palaeoptera hypothesis (Ephemeroptera + Odonata, Neoptera), 2) the Metapterygota hypothesis (Ephemeroptera, Odonata + Neoptera), and 3) the Chiastomyaria hypothesis (Odonata, Ephemeroptera + Neoptera). Neither phylogenetic analyses of single genes nor even multiple marker systems (e.g., molecular markers + morphological characters) have yet been able to conclusively resolve basal pterygote divergences. A possible explanation for the lack of resolution is that the divergences took place in the mid-Devonian within a short period of time and attempts to solve this problem have been confounded by the major challenge of finding molecular markers to accurately track these short ancient internodes. Although phylogenomic data are available for Neoptera and some wingless (apterygote) orders, they are lacking for the crucial Odonata and Ephemeroptera orders. We adopt a multigene approach including data from two new expressed sequence tag projects-from the orders Ephemeroptera (Baetis sp.) and Odonata (Ischnura elegans)-to evaluate the potential of phylogenomic analyses in clarifying this unresolved issue. We analyzed two data sets that differed in represented taxa, genes, and overall sequence lengths: maxspe (15 taxa, 125 genes, and 31,643 amino acid positions) and maxgen (8 taxa, 150 genes, and 42,541 amino acid positions). Maximum likelihood and Bayesian inference analyses both place the Odonata at the base of the winged insects. Furthermore, statistical hypotheses testing rejected both the Palaeoptera and the Metapterygota hypotheses. The comprehensive molecular data set

  20. An investigation of merging and diverging cars on a multi-lane road using a cellular automation model

    Institute of Scientific and Technical Information of China (English)

    K.Jetto; H.Ez-Zahraouy; A.Benyoussef

    2012-01-01

    In this paper,we have investigated two observed situations in a multi-lane road.The first one concerns a fast merging vehicle.The second situation is related to the case of a fast vehicle leaving the fastest lane back into the slowest lane and targeting a specific way out.We are interested in the relaxation time τ,i.e.,which is the time that the merging (diverging) vehicle spends before reaching the desired lane.Using analytical treatment and numerical simulations for the NaSch model,we have found two states,namely,the free state in which the merging (diverging) vehicle reaches the desired lane,and the trapped state in which τ diverges.We have established phase diagrams for several values of the braking probability.In the second situation,we have shown that diverging from the fast lane targeting a specific way out is not a simple task.Even if the diverging vehicle is in the free phase,two different states can be distinguished.One is the critical state,in which the diverging car can probably reach the desired way out.The other is the safe state,in which the diverging car can surely reach the desired way out.In order to be in the safe state,we have found that the driver of the diverging car must know the critical distance (below which the way out will be out of his reach) in each lane.Furthermore,this critical distance depends on the density of cars,and it follows an exponential law.

  1. Metric redefinition and UV divergences in quantum Einstein gravity

    Science.gov (United States)

    Solodukhin, Sergey N.

    2016-03-01

    I formulate several statements demonstrating that the local metric redefinition can be used to reduce the UV divergences present in the quantum action for the Einstein gravity in d = 4 dimensions. In its most general form, the proposal is that any UV divergences in the quantum action can be removed by an appropriate field re-definition and a renormalization of cosmological constant.

  2. Metric redefinition and UV divergences in quantum Einstein gravity

    OpenAIRE

    Solodukhin, Sergey N.

    2016-01-01

    I formulate several statements demonstrating that the local metric redefinition can be used to reduce the UV divergences present in the quantum action for the Einstein gravity in $d=4$ dimensions. In its most general form, the proposal is that any UV divergences in the quantum action can be removed by an appropriate field re-definition and a renormalization of cosmological constant.

  3. Metric Redefinition and UV Divergences in Quantum Einstein Gravity

    CERN Document Server

    Solodukhin, Sergey N

    2015-01-01

    I formulate several statements demonstrating that the local metric redefinition can be used to reduce the UV divergences present in the quantum action for the Einstein gravity in $d=4$ dimensions. In its most general form, the proposal is that any UV divergences in the quantum action can be removed by an appropriate field re-definition and a renormalization of cosmological constant.

  4. Divergence and Convergence between Oral and Written Communication.

    Science.gov (United States)

    Rubin, Donald L.

    1987-01-01

    Differences and similarities between oral and written communication as applied to writing instruction are discussed with examples of divergent oral and written styles among speakers of nonstandard dialects, code switching between speech and writing, convergence and divergence in the development of writing skills, and the role of talking in writing…

  5. Turbulent boundary layer over a convergent and divergent superhydrophobic surface

    Science.gov (United States)

    Nadeem, Muhammad; Hwang, Jinyul; Sung, Hyung Jin

    2015-11-01

    Direct numerical simulation (DNS) of spatially developing turbulent boundary layer (TBL) over a convergent and divergent superhydrophobic surface (SHS) was performed. The convergent and divergent SHS was aligned in the streamwise direction. The SHS was modeled as a pattern of slip and no-slip surfaces. For comparison, DNS of TBL over a straight SHS was also carried out. The momentum thickness Reynolds number was varied from 800 to 1400. The gas fraction of the convergent and divergent SHS was the same as that of the straight SHS, keeping the slip area constant. The slip velocity in the convergent SHS was higher than that of the straight SHS. An optimal streamwise length of the convergent and divergent SHS was obtained. The convergent and divergent SHS gave more drag reduction than the straight SHS. The convergent and divergent SHS led to the modification of near wall-turbulent structures, resembling the narrowing and widening streaky structures near the wall. The convergent and divergent SHS had a relatively larger damping effect on near-wall turbulence than the straight SHS. These observations will be further analyzed statistically to demonstrate the effect of the convergent and divergent SHS on the interaction of inner and outer regions of TBL.

  6. Maps on Quantum States Preserving Bregman and Jensen Divergences

    Science.gov (United States)

    Virosztek, Dániel

    2016-09-01

    We describe the structure of the bijective transformations on the set of density operators which preserve the Bregman f-divergence for an arbitrary differentiable strictly convex function f. Furthermore, we determine the preservers of the Jensen f-divergence in the case when the generating function f belongs to a recently introduced function class called Matrix Entropy Class.

  7. Parallel divergent adaptation along replicated altitudinal gradients in Alpine trout

    Directory of Open Access Journals (Sweden)

    Keller Irene

    2012-10-01

    Full Text Available Abstract Background The European trout (Salmo trutta species complex occurs across a very wide altitudinal range from lowland rivers to alpine streams. Historically, the major European river systems contained different, evolutionarily distinct trout lineages, and some of this genetic diversity has persisted in spite of extensive human-mediated translocations. We used AFLP-based genome scans to investigate the extent of potentially adaptive divergence among major drainages and along altitudinal gradients replicated in several rivers. Results The proportion of loci showing evidence of divergent selection was larger between drainages than along altitudinal transects within drainages. This suggests divergent selection is stronger between drainages, or adaptive divergence is constrained by gene flow among populations within drainages, although the latter could not be confirmed at a more local scale. Still, altitudinal divergence occurred and, at approximately 2% of the markers, parallel changes of the AFLP band frequencies with altitude were observed suggesting that altitude may well be an important source of divergent selection within rivers. Conclusions Our results indicate that adaptive genetic divergence is common both between major European river systems and along altitudinal gradients within drainages. Alpine trout appear to be a promising model system to investigate the relative roles of divergent selection and gene flow in promoting or preventing adaptation to climate gradients.

  8. The direct Flow parametric Proof of Gauss' Divergence Theorem revisited

    DEFF Research Database (Denmark)

    Markvorsen, Steen

    The standard proof of the divergence theorem in undergraduate calculus courses covers the theorem for static domains between two graph surfaces. We show that within first year undergraduate curriculum, the flow proof of the dynamic version of the divergence theorem - which is usually considered...

  9. Divergent clonal selection dominates medulloblastoma at recurrence.

    Science.gov (United States)

    Morrissy, A Sorana; Garzia, Livia; Shih, David J H; Zuyderduyn, Scott; Huang, Xi; Skowron, Patryk; Remke, Marc; Cavalli, Florence M G; Ramaswamy, Vijay; Lindsay, Patricia E; Jelveh, Salomeh; Donovan, Laura K; Wang, Xin; Luu, Betty; Zayne, Kory; Li, Yisu; Mayoh, Chelsea; Thiessen, Nina; Mercier, Eloi; Mungall, Karen L; Ma, Yusanne; Tse, Kane; Zeng, Thomas; Shumansky, Karey; Roth, Andrew J L; Shah, Sohrab; Farooq, Hamza; Kijima, Noriyuki; Holgado, Borja L; Lee, John J Y; Matan-Lithwick, Stuart; Liu, Jessica; Mack, Stephen C; Manno, Alex; Michealraj, K A; Nor, Carolina; Peacock, John; Qin, Lei; Reimand, Juri; Rolider, Adi; Thompson, Yuan Y; Wu, Xiaochong; Pugh, Trevor; Ally, Adrian; Bilenky, Mikhail; Butterfield, Yaron S N; Carlsen, Rebecca; Cheng, Young; Chuah, Eric; Corbett, Richard D; Dhalla, Noreen; He, An; Lee, Darlene; Li, Haiyan I; Long, William; Mayo, Michael; Plettner, Patrick; Qian, Jenny Q; Schein, Jacqueline E; Tam, Angela; Wong, Tina; Birol, Inanc; Zhao, Yongjun; Faria, Claudia C; Pimentel, José; Nunes, Sofia; Shalaby, Tarek; Grotzer, Michael; Pollack, Ian F; Hamilton, Ronald L; Li, Xiao-Nan; Bendel, Anne E; Fults, Daniel W; Walter, Andrew W; Kumabe, Toshihiro; Tominaga, Teiji; Collins, V Peter; Cho, Yoon-Jae; Hoffman, Caitlin; Lyden, David; Wisoff, Jeffrey H; Garvin, James H; Stearns, Duncan S; Massimi, Luca; Schüller, Ulrich; Sterba, Jaroslav; Zitterbart, Karel; Puget, Stephanie; Ayrault, Olivier; Dunn, Sandra E; Tirapelli, Daniela P C; Carlotti, Carlos G; Wheeler, Helen; Hallahan, Andrew R; Ingram, Wendy; MacDonald, Tobey J; Olson, Jeffrey J; Van Meir, Erwin G; Lee, Ji-Yeoun; Wang, Kyu-Chang; Kim, Seung-Ki; Cho, Byung-Kyu; Pietsch, Torsten; Fleischhack, Gudrun; Tippelt, Stephan; Ra, Young Shin; Bailey, Simon; Lindsey, Janet C; Clifford, Steven C; Eberhart, Charles G; Cooper, Michael K; Packer, Roger J; Massimino, Maura; Garre, Maria Luisa; Bartels, Ute; Tabori, Uri; Hawkins, Cynthia E; Dirks, Peter; Bouffet, Eric; Rutka, James T; Wechsler-Reya, Robert J; Weiss, William A; Collier, Lara S; Dupuy, Adam J; Korshunov, Andrey; Jones, David T W; Kool, Marcel; Northcott, Paul A; Pfister, Stefan M; Largaespada, David A; Mungall, Andrew J; Moore, Richard A; Jabado, Nada; Bader, Gary D; Jones, Steven J M; Malkin, David; Marra, Marco A; Taylor, Michael D

    2016-01-21

    The development of targeted anti-cancer therapies through the study of cancer genomes is intended to increase survival rates and decrease treatment-related toxicity. We treated a transposon-driven, functional genomic mouse model of medulloblastoma with 'humanized' in vivo therapy (microneurosurgical tumour resection followed by multi-fractionated, image-guided radiotherapy). Genetic events in recurrent murine medulloblastoma exhibit a very poor overlap with those in matched murine diagnostic samples (<5%). Whole-genome sequencing of 33 pairs of human diagnostic and post-therapy medulloblastomas demonstrated substantial genetic divergence of the dominant clone after therapy (<12% diagnostic events were retained at recurrence). In both mice and humans, the dominant clone at recurrence arose through clonal selection of a pre-existing minor clone present at diagnosis. Targeted therapy is unlikely to be effective in the absence of the target, therefore our results offer a simple, proximal, and remediable explanation for the failure of prior clinical trials of targeted therapy. PMID:26760213

  10. Divergent Synthesis of Heparan Sulfate Oligosaccharides.

    Science.gov (United States)

    Dulaney, Steven B; Xu, Yongmei; Wang, Peng; Tiruchinapally, Gopinath; Wang, Zhen; Kathawa, Jolian; El-Dakdouki, Mohammad H; Yang, Bo; Liu, Jian; Huang, Xuefei

    2015-12-18

    Heparan sulfates are implicated in a wide range of biological processes. A major challenge in deciphering their structure and activity relationship is the synthetic difficulties to access diverse heparan sulfate oligosaccharides with well-defined sulfation patterns. In order to expedite the synthesis, a divergent synthetic strategy was developed. By integrating chemical synthesis and two types of O-sulfo transferases, seven different hexasaccharides were obtained from a single hexasaccharide precursor. This approach combined the flexibility of chemical synthesis with the selectivity of enzyme-catalyzed sulfations, thus simplifying the overall synthetic operations. In an attempt to establish structure activity relationships of heparan sulfate binding with its receptor, the synthesized oligosaccharides were incorporated onto a glycan microarray, and their bindings with a growth factor FGF-2 were examined. The unique combination of chemical and enzymatic approaches expanded the capability of oligosaccharide synthesis. In addition, the well-defined heparan sulfate structures helped shine light on the fine substrate specificities of biosynthetic enzymes and confirm the potential sequence of enzymatic reactions in biosynthesis. PMID:26574650

  11. Divergent clonal selection dominates medulloblastoma at recurrence

    Science.gov (United States)

    Morrissy, A. Sorana; Garzia, Livia; Shih, David J. H.; Zuyderduyn, Scott; Huang, Xi; Skowron, Patryk; Remke, Marc; Cavalli, Florence M. G.; Ramaswamy, Vijay; Lindsay, Patricia E.; Jelveh, Salomeh; Donovan, Laura K.; Wang, Xin; Luu, Betty; Zayne, Kory; Li, Yisu; Mayoh, Chelsea; Thiessen, Nina; Mercier, Eloi; Mungall, Karen L.; Ma, Yusanne; Tse, Kane; Zeng, Thomas; Shumansky, Karey; Roth, Andrew J. L.; Shah, Sohrab; Farooq, Hamza; Kijima, Noriyuki; Holgado, Borja L.; Lee, John J. Y.; Matan-Lithwick, Stuart; Liu, Jessica; Mack, Stephen C.; Manno, Alex; Michealraj, K. A.; Nor, Carolina; Peacock, John; Qin, Lei; Reimand, Juri; Rolider, Adi; Thompson, Yuan Y.; Wu, Xiaochong; Pugh, Trevor; Ally, Adrian; Bilenky, Mikhail; Butterfield, Yaron S. N.; Carlsen, Rebecca; Cheng, Young; Chuah, Eric; Corbett, Richard D.; Dhalla, Noreen; He, An; Lee, Darlene; Li, Haiyan I.; Long, William; Mayo, Michael; Plettner, Patrick; Qian, Jenny Q.; Schein, Jacqueline E.; Tam, Angela; Wong, Tina; Birol, Inanc; Zhao, Yongjun; Faria, Claudia C.; Pimentel, José; Nunes, Sofia; Shalaby, Tarek; Grotzer, Michael; Pollack, Ian F.; Hamilton, Ronald L.; Li, Xiao-Nan; Bendel, Anne E.; Fults, Daniel W.; Walter, Andrew W.; Kumabe, Toshihiro; Tominaga, Teiji; Collins, V. Peter; Cho, Yoon-Jae; Hoffman, Caitlin; Lyden, David; Wisoff, Jeffrey H.; Garvin, James H.; Stearns, Duncan S.; Massimi, Luca; Schüller, Ulrich; Sterba, Jaroslav; Zitterbart, Karel; Puget, Stephanie; Ayrault, Olivier; Dunn, Sandra E.; Tirapelli, Daniela P. C.; Carlotti, Carlos G.; Wheeler, Helen; Hallahan, Andrew R.; Ingram, Wendy; MacDonald, Tobey J.; Olson, Jeffrey J.; Van Meir, Erwin G.; Lee, Ji-Yeoun; Wang, Kyu-Chang; Kim, Seung-Ki; Cho, Byung-Kyu; Pietsch, Torsten; Fleischhack, Gudrun; Tippelt, Stephan; Ra, Young Shin; Bailey, Simon; Lindsey, Janet C.; Clifford, Steven C.; Eberhart, Charles G.; Cooper, Michael K.; Packer, Roger J.; Massimino, Maura; Garre, Maria Luisa; Bartels, Ute; Tabori, Uri; Hawkins, Cynthia E.; Dirks, Peter; Bouffet, Eric; Rutka, James T.; Wechsler-Reya, Robert J.; Weiss, William A.; Collier, Lara S.; Dupuy, Adam J.; Korshunov, Andrey; Jones, David T. W.; Kool, Marcel; Northcott, Paul A.; Pfister, Stefan M.; Largaespada, David A.; Mungall, Andrew J.; Moore, Richard A.; Jabado, Nada; Bader, Gary D.; Jones, Steven J. M.; Malkin, David; Marra, Marco A.; Taylor, Michael D.

    2016-01-01

    The development of targeted anti-cancer therapies through the study of cancer genomes is intended to increase survival rates and decrease treatment-related toxicity. We treated a transposon–driven, functional genomic mouse model of medulloblastoma with ‘humanized’ in vivo therapy (microneurosurgical tumour resection followed by multi-fractionated, image-guided radiotherapy). Genetic events in recurrent murine medulloblastoma exhibit a very poor overlap with those in matched murine diagnostic samples (<5%). Whole-genome sequencing of 33 pairs of human diagnostic and post-therapy medulloblastomas demonstrated substantial genetic divergence of the dominant clone after therapy (<12% diagnostic events were retained at recurrence). In both mice and humans, the dominant clone at recurrence arose through clonal selection of a pre-existing minor clone present at diagnosis. Targeted therapy is unlikely to be effective in the absence of the target, therefore our results offer a simple, proximal, and remediable explanation for the failure of prior clinical trials of targeted therapy. PMID:26760213

  12. Divergence-free Hardy space on

    Institute of Scientific and Technical Information of China (English)

    LOU; Zengjian

    2004-01-01

    [1]Gilbert, J. E., Hogan, J. A., Lakey, J. D., Atomic decomposition of divergence-free Hardy spaces, Mathematica Moraviza, 1997, Special Volume, Proc. IWAA: 33-52.[2]Chang, D. C., Krantz, S. G., Stein, E. M., HP theory on a smooth domain in RN and elliptic boundary value problems, J. Funct. Anal., 1993, 114: 286-347.[3]Schwarz, G., Hodge Decomposition-A method for solving boundary value problems, Lecture Notes in Mathematics, Vol. 1607, Berlin Heidelberg: Springer-Verlag, 1995.[4]Girault, V., Raviart, P. A., Finite Element Methods for Navier-Stokes Equations, Theory and Algorithms, Berlin Heidelberg: Springer-Verlag, 1986.[5]Stein, E. M., Singular Integrals and Differentiability Properties of Functions, Princeton: Princeton Univ. Press,1970.[6]Davies, B., Heat Kernels and Spectral Theory, Cambridge: Cambridge University Press, 1989.[7]Geymonat, G., Miller, S., Triantafylidis, N., Homogenization of nonlinear elastic materials, microscopic bifurcation and microscopic loss of rank-one convexity, Arch. Rational Mech. Anal., 1993, 122: 231-290.[8]Ball, J., Convexity conditions and existence theorems in nonlinear elasticity, Arch. Rational Mech. Anal., 1977,63: 337-403.[9]Zhang, K., On the coercivity of elliptic systems in two dimensional spaces, Bull. Austral. Math. Soc., 1996, 54:423-430.

  13. Orbital Divergence and Relaxation in the Gravitational N-Body Problem

    Science.gov (United States)

    Hut, P.; Heggie, D. C.

    2002-12-01

    One of the fundamental aspects of statistical behaviour in many-body systems is exponential divergence of neighbouring orbits, which is often discussed in terms of Liapounov exponents. Here we study this topic for the classical gravitational N-body problem. The application we have in mind is to old stellar systems such as globular star clusters, where N˜106, and so we concentrate on spherical, centrally concentrated systems with total energy Econnection has been made between the time scale for divergence (denoted here by t e ) and the time scale on which the energies of the particles evolve because of two-body encounters (i.e., the two-body relaxation time scale, t r ), even though both may be calculated by similar considerations. In this paper we give a simplified model showing that divergence in phase space is initially roughly exponential, on a timescale proportional to the crossing time (defined as a mean time for a star to cross from one side of the system to another). In this phase t e bodies) varies with time as t 1/2, on a timescale nearly proportional to the familiar two-body relaxation timescale, i.e., t e ˜ t r in this phase. These conclusions are illustrated by numerical results.

  14. Creativity and sensory gating indexed by the P50: selective versus leaky sensory gating in divergent thinkers and creative achievers.

    Science.gov (United States)

    Zabelina, Darya L; O'Leary, Daniel; Pornpattananangkul, Narun; Nusslock, Robin; Beeman, Mark

    2015-03-01

    Creativity has previously been linked with atypical attention, but it is not clear what aspects of attention, or what types of creativity are associated. Here we investigated specific neural markers of a very early form of attention, namely sensory gating, indexed by the P50 ERP, and how it relates to two measures of creativity: divergent thinking and real-world creative achievement. Data from 84 participants revealed that divergent thinking (assessed with the Torrance Test of Creative Thinking) was associated with selective sensory gating, whereas real-world creative achievement was associated with "leaky" sensory gating, both in zero-order correlations and when controlling for academic test scores in a regression. Thus both creativity measures related to sensory gating, but in opposite directions. Additionally, divergent thinking and real-world creative achievement did not interact in predicting P50 sensory gating, suggesting that these two creativity measures orthogonally relate to P50 sensory gating. Finally, the ERP effect was specific to the P50 - neither divergent thinking nor creative achievement were related to later components, such as the N100 and P200. Overall results suggest that leaky sensory gating may help people integrate ideas that are outside of focus of attention, leading to creativity in the real world; whereas divergent thinking, measured by divergent thinking tests which emphasize numerous responses within a limited time, may require selective sensory processing more than previously thought. PMID:25623426

  15. Inferring possible population divergence in Espeletia pycnophylla (Asteraceae) through morphometric and paleogeographic approaches.

    Science.gov (United States)

    Benavides, Felipe; Burbano, Jorge; Burbano, Diana; Prieto, Rodrigo; Torres, Carlos

    2010-12-01

    Abstract: The phenotypic structure within and between plant populations is generally influenced by their distribution patterns in space and time; therefore, the study of their divergence is a central issue for the understanding of their microevolutive processes. We boarded the hypothesis that three populations of Espeletia pycnophylla show phenotypic divergence as one of the possible implications of their geographic isolation in the Southern Colombian Andes. We used the Elliptic Fourier Descriptors (leaf shape) and traditional leaf morphometry (leaf size) of 347 leaves to measure inter and intra-population variation and a comparison between a paleogeographic reconstruction with an actual estimate of the distribution areas of E. pycnophylla in order to identify their main changes during the last 14 000 years. The three populations showed significant differences in leaf morphometry and a positive correlation between the matrices of morphometric and geographic dissimilarities, indicating that the inter-population divergence increases between further populations, so that the morphometric structure reflects their spatial distribution. The geographical and paleogeographical estimates evidenced a conspicuous process of reduction and fragmentation of the distribution area of E. pycnophylla since the Late-Glacial until the Holocene. We suggest that these results support possible scenarios of vicariance events, which allow us to approach the divergence of these populations in terms of their historic biogeographic relations. However, genetic analyses are still needed to support these results. PMID:21246990

  16. Recent ecological selection on regulatory divergence is shaping clinal variation in senecio on Mount Etna.

    Science.gov (United States)

    Muir, Graham; Osborne, Owen G; Sarasa, Jonas; Hiscock, Simon J; Filatov, Dmitry A

    2013-10-01

    The hybrid zone on Mount Etna (Sicily) between Senecio aethnensis and Senecio chrysanthemifolius (two morphologically and physiologically distinct species) is a classic example of an altitudinal cline. Hybridization at intermediate altitudes and gradients in phenotypic and life-history traits occur along altitudinal transects of the volcano. The cline is considered to be a good example of ecological selection with species differences arising by divergent selection opposing gene flow. However, the possibility that the cline formed from recent secondary contact following an allopatric phase is difficult to exclude. We demonstrate a recent split between S. aethnensis and S. chrysanthemifolius (as recent as ∼32,000 years ago) and sufficient gene flow (2Nm > 1) to have prevented divergence (implicating a role for diversifying selection in the maintenance of the cline). Differentially expressed genes between S. aethnensis and S. chrysanthemifolius exhibit significantly higher genetic divergence relative to "expression invariant" controls, suggesting that species differences may in part be mediated by divergent selection on differentially expressed genes involved with altitude-related adaptation. The recent split time and the absence of fixed differences between these two ecologically distinct species suggest the rapid evolution to an altitudinal cline involving selection on both sequence and expression variation. PMID:24094352

  17. Developmental rate: A unifying mechanism for sympatric divergence in postglacial fishes?

    Institute of Scientific and Technical Information of China (English)

    Megan V. MCPHEE; David L. G. NOAKES; Fred W. ALLENDORF

    2012-01-01

    Morphologically divergent ecotypes arise in fish populations on postglacial time scales,and resource polymorphisms are often invoked to explain their origin.However,genetic recombination can constrain the ability of divergent selection to produce reproductive isolation in sympatry.Recombination breaks up favorable combinations of traits (”adaptive suites”) if individual traits are affected by different loci.Recombination also breaks up any association between traits under divergent selection and traits contributing to reproductive isolation.Thus,ecological speciation in the absence of preexisting barriers to gene flow is more likely when pleiotropy minimizes the number of loci involved.Here,we revisit research conducted by Carl Hubbs in the early 1900s on the effects of developmental rate on morphological traits in fishes.Hubbs' work provides a mechanism to explain how sympatric divergence by trophic polymorphism can occur despite the challenges of recombination.We consider the implications of Hubbs' observations for ecological speciation with gene flow in fishes,as well as rapid evolution in captive fish populations [Current Zoology 58 (1):21-34,2012].

  18. An experimental investigation of velocity fields in divergent glottal models of the human vocal tract

    Science.gov (United States)

    Erath, Byron D.; Plesniak, Michael W.

    2005-09-01

    In speech, sound production arises from fluid-structure interactions within the larynx as well as viscous flow phenomena that is most likely to occur during the divergent orientation of the vocal folds. Of particular interest are the flow mechanisms that influence the location of flow separation points on the vocal folds walls. Physiologically scaled pulsatile flow fields in 7.5 times real size static divergent glottal models were investigated. Three divergence angles were investigated using phase-averaged particle image velocimetry (PIV). The pulsatile glottal jet exhibited a bi-modal stability toward both glottal walls, although there was a significant amount of variance in the angle the jet deflected from the midline. The attachment of the Coanda effect to the glottal model walls occurred when the pulsatile velocity was a maximum, and the acceleration of the waveform was zero. The location of the separation and reattachment points of the flow from the glottal models was a function of the velocity waveform and divergence angle. Acoustic analogies show that a dipole sound source contribution arising from the fluid interaction (Coanda jet) with the vocal fold walls is expected. [Work funded by NIH Grant RO1 DC03577.

  19. Natural epigenetic variation contributes to heritable flowering divergence in a widespread asexual dandelion lineage.

    Science.gov (United States)

    Wilschut, Rutger A; Oplaat, Carla; Snoek, L Basten; Kirschner, Jan; Verhoeven, Koen J F

    2016-04-01

    Epigenetic variation has been proposed to contribute to the success of asexual plants, either as a contributor to phenotypic plasticity or by enabling transient adaptation via selection on transgenerationally stable, but reversible, epialleles. While recent studies in experimental plant populations have shown the potential for epigenetic mechanisms to contribute to adaptive phenotypes, it remains unknown whether heritable variation in ecologically relevant traits is at least partially epigenetically determined in natural populations. Here, we tested the hypothesis that DNA methylation variation contributes to heritable differences in flowering time within a single widespread apomictic clonal lineage of the common dandelion (Taraxacum officinale s. lat.). Apomictic clone members of the same apomictic lineage collected from different field sites showed heritable differences in flowering time, which was correlated with inherited differences in methylation-sensitive AFLP marker profiles. Differences in flowering between apomictic clone members were significantly reduced after in vivo demethylation using the DNA methyltransferase inhibitor zebularine. This synchronization of flowering times suggests that flowering time divergence within an apomictic lineage was mediated by differences in DNA methylation. While the underlying basis of the methylation polymorphism at functional flowering time-affecting loci remains to be demonstrated, our study shows that epigenetic variation contributes to heritable phenotypic divergence in ecologically relevant traits in natural plant populations. This result also suggests that epigenetic mechanisms can facilitate adaptive divergence within genetically uniform asexual lineages. PMID:26615058

  20. Evolutionary divergence of chloroplast FAD synthetase proteins

    Directory of Open Access Journals (Sweden)

    Arilla-Luna Sonia

    2010-10-01

    Full Text Available Abstract Background Flavin adenine dinucleotide synthetases (FADSs - a group of bifunctional enzymes that carry out the dual functions of riboflavin phosphorylation to produce flavin mononucleotide (FMN and its subsequent adenylation to generate FAD in most prokaryotes - were studied in plants in terms of sequence, structure and evolutionary history. Results Using a variety of bioinformatics methods we have found that FADS enzymes localized to the chloroplasts, which we term as plant-like FADS proteins, are distributed across a variety of green plant lineages and constitute a divergent protein family clearly of cyanobacterial origin. The C-terminal module of these enzymes does not contain the typical riboflavin kinase active site sequence, while the N-terminal module is broadly conserved. These results agree with a previous work reported by Sandoval et al. in 2008. Furthermore, our observations and preliminary experimental results indicate that the C-terminus of plant-like FADS proteins may contain a catalytic activity, but different to that of their prokaryotic counterparts. In fact, homology models predict that plant-specific conserved residues constitute a distinct active site in the C-terminus. Conclusions A structure-based sequence alignment and an in-depth evolutionary survey of FADS proteins, thought to be crucial in plant metabolism, are reported, which will be essential for the correct annotation of plant genomes and further structural and functional studies. This work is a contribution to our understanding of the evolutionary history of plant-like FADS enzymes, which constitute a new family of FADS proteins whose C-terminal module might be involved in a distinct catalytic activity.

  1. Human exposure to anopheline mosquitoes occurs primarily indoors, even for users of insecticide-treated nets in Luangwa Valley, South-east Zambia

    Directory of Open Access Journals (Sweden)

    Seyoum Aklilu

    2012-05-01

    Full Text Available Abstract Background Current front line malaria vector control methods such as indoor residual spraying (IRS and long-lasting insecticidal nets (LLINs, rely upon the preference of many primary vectors to feed and/or rest inside human habitations where they can be targeted with domestically-applied insecticidal products. We studied the human biting behaviour of the malaria vector Anopheles funestus Giles and the potential malaria vector Anopheles quadriannulatus Theobald in Luangwa valley, south-east Zambia. Methods Mosquitoes were collected by human landing catch in blocks of houses with either combined use of deltamethrin-based IRS and LLINs or LLINs alone. Human behaviour data were collected to estimate how much exposure to mosquito bites indoors and outdoors occurred at various times of the night for LLIN users and non-users. Results Anopheles funestus and An. quadriannulatus did not show preference to bite either indoors or outdoors: the proportions [95% confidence interval] caught indoors were 0.586 [0.303, 0.821] and 0.624 [0.324, 0.852], respectively. However, the overwhelming majority of both species were caught at times when most people are indoors. The proportion of mosquitoes caught at a time when most people are indoors were 0.981 [0.881, 0.997] and 0.897 [0.731, 0.965], respectively, so the proportion of human exposure to both species occuring indoors was high for individuals lacking LLINs (An. funestus: 0.983 and An. quadriannulatus: 0.970, respectively. While LLIN users were better protected, more than half of their exposure was nevertheless estimated to occur indoors (An. funestus: 0.570 and An. quadriannulatus: 0.584. Conclusions The proportion of human exposure to both An. funestus and An. quadriannulatus occuring indoors was high in the area and hence both species might be responsive to further peri-domestic measures if these mosquitoes are susceptible to insecticidal products.

  2. Event-Driven Contrastive Divergence for Spiking Neuromorphic Systems

    Directory of Open Access Journals (Sweden)

    Emre eNeftci

    2014-01-01

    Full Text Available Restricted Boltzmann Machines (RBMs and Deep Belief Networks have been demonstrated to perform efficiently in variety of applications, such as dimensionality reduction, feature learning, and classification. Their implementation on neuromorphic hardware platforms emulating large-scale networks of spiking neurons can have significant advantages from the perspectives of scalability, power dissipation and real-time interfacing with the environment. However the traditional RBM architecture and the commonly used training algorithm known as Contrastive Divergence (CD are based on discrete updates and exact arithmetics which do not directly map onto a dynamical neural substrate. Here, we present an event-driven variation of CD to train a RBM constructed with Integrate & Fire (I&F neurons, that is constrained by the limitations of existing and near future neuromorphic hardware platforms. Our strategy is based on neural sampling, which allows us to synthesize a spiking neural network that samples from a target Boltzmann distribution. The reverberating activity of the network replaces the discrete steps of the CD algorithm, while Spike Time Dependent Plasticity (STDP carries out the weight updates in an online, asynchronous fashion.We demonstrate our approach by training an RBM composed of leaky I&F neurons with STDP synapses to learn a generative model of the MNIST hand-written digit dataset, and by testing it in recognition, generation and cue integration tasks. Our results contribute to a machine learning-driven approach for synthesizing networks of spiking neurons capable of carrying out practical, high-level functionality.

  3. Genetic and phenotypic divergence between low- and high-altitude populations of two recently diverged cinnamon teal subspecies.

    Science.gov (United States)

    Wilson, Robert E; Peters, Jeffrey L; McCracken, Kevin G

    2013-01-01

    Spatial variation in the environment can lead to divergent selection between populations occupying different parts of a species' range, and ultimately lead to population divergence. The colonization of new areas can thus facilitate divergence in beneficial traits, yet with little differentiation at neutral genetic markers. We investigated genetic and phenotypic patterns of divergence between low- and high-altitude populations of cinnamon teal inhabiting normoxic and hypoxic regions in the Andes and adjacent lowlands of South America. Cinnamon teal showed strong divergence in body size (PC1; P(ST) = 0.56) and exhibited significant frequency differences in a single nonsynonymous α-hemoglobin amino acid polymorphism (Asn/Ser-α9; F(ST) = 0.60) between environmental extremes, despite considerable admixture of mtDNA and intron loci (F(ST) = 0.004-0.168). Inferences of strong population segregation were further supported by the observation of few mismatched individuals in either environmental extreme. Coalescent analyses indicated that the highlands were most likely colonized from lowland regions but following divergence, gene flow has been asymmetric from the highlands into the lowlands. Multiple selection pressures associated with high-altitude habitats, including cold and hypoxia, have likely shaped morphological and genetic divergence within South American cinnamon teal populations. PMID:23289570

  4. How old is the Hawaiian biota? Geology and phylogeny suggest recent divergence.

    Science.gov (United States)

    Price, Jonathan P; Clague, David A

    2002-12-01

    This study quantifies long-term landscape changes in the Hawaiian archipelago relating to dispersal, speciation and extinction. Accounting for volcano growth, subsidence and erosion, we modelled the elevations of islands at time intervals of 0.5 Myr for the last 32 Myr; we also assessed the variation in the spacing of volcanoes during this period. The size, spacing and total number of volcanic islands have varied greatly over time, with the current landscape of large, closely spaced islands preceded by a period with smaller, more distantly spaced islands. Considering associated changes in rates of dispersal and speciation, much of the present species pool is probably the result of recent colonization from outside the archipelago and divergence within contemporary islands, with limited dispersal from older islands. This view is in accordance with abundant phylogenetic studies of Hawaiian organisms that estimate the timing of colonization and divergence within the archipelago. Twelve out of 15 multi-species lineages have diverged within the lifetime of the current high islands (last 5 Myr). Three of these, and an additional seven (mostly single-species) lineages, have colonized the archipelago within this period. The timing of colonization of other lineages remains uncertain. PMID:12495485

  5. Orbital Divergence and Relaxation in the Gravitational N-Body Problem

    CERN Document Server

    Hut, P

    2001-01-01

    One of the fundamental aspects of statistical behaviour in many-body systems is exponential divergence of neighbouring orbits, which is often discussed in terms of Liapounov exponents. Here we study this topic for the classical gravitational N-body problem. The application we have in mind is to old stellar systems such as globular star clusters, where N~10^6, and so we concentrate on spherical, centrally concentrated systems with total energy E<0. Hitherto no connection has been made between the time scale for divergence (denoted here by t_e) and the two-body relaxation time scale (t_r), even though both may be calculated by consideration of two-body encounters. In this paper we give a simplified model showing that divergence in phase space is initially roughly exponential, on a timescale proportional to the crossing time (defined as a mean time for a star to cross from one side of the system to another). In this phase t_e is much less than t_r, if N is not too small (i.e. N is much more than about 30). Af...

  6. On the divergence-free condition and conservation laws in numerical simulations for supersonic magnetohydrodynamic flows

    International Nuclear Information System (INIS)

    An approach to maintain exactly the eight conservation laws and the divergence-free condition of magnetic fields is proposed for numerical simulations of multidimensional magnetohydrodynamic (MHD) equations. The approach is simple and may be easily applied to both dimensionally split and unsplit Godunov schemes for supersonic MHD flows. The numerical schemes based on the approach are second-order accurate in both space and time if the original Godunov schemes are. As an example of such schemes, a scheme based on the approach and an approximate MHD Riemann solver is presented. The Riemann solver is simple and is used to approximately calculate the time-averaged flux. The correctness, accuracy, and robustness of the scheme are shown through numerical examples. A comparison in numerical solutions between the proposed scheme and a Godunov scheme without the divergence-free constraint implemented is presented. copyright 1998 The American Astronomical Society

  7. Mitochondrial genome sequences reveal deep divergences among Anopheles punctulatus sibling species in Papua New Guinea

    Directory of Open Access Journals (Sweden)

    Logue Kyle

    2013-02-01

    Full Text Available Abstract Background Members of the Anopheles punctulatus group (AP group are the primary vectors of human malaria in Papua New Guinea. The AP group includes 13 sibling species, most of them morphologically indistinguishable. Understanding why only certain species are able to transmit malaria requires a better comprehension of their evolutionary history. In particular, understanding relationships and divergence times among Anopheles species may enable assessing how malaria-related traits (e.g. blood feeding behaviours, vector competence have evolved. Methods DNA sequences of 14 mitochondrial (mt genomes from five AP sibling species and two species of the Anopheles dirus complex of Southeast Asia were sequenced. DNA sequences from all concatenated protein coding genes (10,770 bp were then analysed using a Bayesian approach to reconstruct phylogenetic relationships and date the divergence of the AP sibling species. Results Phylogenetic reconstruction using the concatenated DNA sequence of all mitochondrial protein coding genes indicates that the ancestors of the AP group arrived in Papua New Guinea 25 to 54 million years ago and rapidly diverged to form the current sibling species. Conclusion Through evaluation of newly described mt genome sequences, this study has revealed a divergence among members of the AP group in Papua New Guinea that would significantly predate the arrival of humans in this region, 50 thousand years ago. The divergence observed among the mtDNA sequences studied here may have resulted from reproductive isolation during historical changes in sea-level through glacial minima and maxima. This leads to a hypothesis that the AP sibling species have evolved independently for potentially thousands of generations. This suggests that the evolution of many phenotypes, such as insecticide resistance will arise independently in each of the AP sibling species studied here.

  8. Interspecific genetic divergence in grey mullets from the Goa region

    Digital Repository Service at National Institute of Oceanography (India)

    Menezes, M.R.; Martins, M.; Naik, S.

    Genetic divergence and phylogenetic relationships among Mugil cephalus, Liza subviridis and Valamugil cunnesius were investigated by examining the electrophoretic patterns of ten enzymes and sarcoplasmic proteins. Among the 19 loci detected, eight...

  9. The relation between gray matter morphology and divergent thinking in adolescents and young adults

    OpenAIRE

    Cousijn, Janna; Koolschijn, P. Cédric M. P.; Zanolie, Kiki; Kleibeuker, Sietske W.; Crone, Eveline A.

    2014-01-01

    Adolescence and early adulthood are developmental time periods during which creative cognition is highly important for adapting to environmental changes. Divergent thinking, which refers to generating novel and useful solutions to open-ended problems, has often been used as a measure of creative cognition. The first goal of this structural neuroimaging study was to elucidate the relationship between gray matter morphology and performance in the verbal (AUT; alternative uses task) and visuo-sp...

  10. The Impact of Information Sharing on Order Fulfillment in Divergent Differentiation Supply Chains

    OpenAIRE

    Troy J. Strader; Fu-Ren Lin; Shaw, Michael J.

    1999-01-01

    Current information technology (IT), such as extended intranets (extranets) utilizing the components of the World Wide Web (WWW), makes information sharing between global supply chain partners feasible. Given this, an important issue is: What impact does efficient information sharing have on supply chain order fulfillment performance (specifically cycle time and inventory costs)? In this study, we focus on divergent differentiation supply chains (commonly associated with industries such as fa...

  11. GroupDiv: Formalizing and Computing Group Divergence Awareness in Multi-Synchronous Distributed Collaborative Systems

    OpenAIRE

    Aslan-Almoubayed, Khaled; Skaf-Molli, Hala; Molli, Pascal

    2013-01-01

    Collaboration can be synchronous, asynchronous or multi-synchronous. In multi-synchronous collaboration, participants work in parallel on their own copies and synchronize periodically to build a consistent state. A multi-synchronous collaboration introduces divergence between copies of shared objects. Working in parallel can potentially reduce completion time, however, it introduces blind modifications and the overhead of solving conflicts introduced by concurrent modifications can overwhelm ...

  12. Modification of special relativity and the divergence problem in quantum field theory

    OpenAIRE

    Liu, Jian-Miin

    1999-01-01

    The root of the divergence problem in the current quantum field theory seems to be in the special theory of relativity. Here we propose a modified special relativity theory by introducing the primed inertial coordinate system, in addition to the usual inertial coordinate system, for each inertial frame of reference, assuming the flat structures of gravity-free space and time in the primed inertial coordinate system and their generalized Finslerian structures in the usual inertial coordinate s...

  13. The geography and ecology of plant speciation: range overlap and niche divergence in sister species

    OpenAIRE

    Anacker, Brian L.; Strauss, Sharon Y.

    2014-01-01

    A goal of evolutionary biology is to understand the roles of geography and ecology in speciation. The recent shared ancestry of sister species can leave a major imprint on their geographical and ecological attributes, possibly revealing processes involved in speciation. We examined how ecological similarity, range overlap and range asymmetry are related to time since divergence of 71 sister species pairs in the California Floristic Province (CFP). We found that plants exhibit strikingly diffe...

  14. The dynamics of organizational structures and performances under diverging distributions of knowledge and different power structures

    OpenAIRE

    Dosi, Giovanni; Marengo, Luigi

    2013-01-01

    In this work we analyze the characteristics and dynamics of organizations wherein members diverge in terms of capabilities and visions they hold, and interests which they pursue. In particular we examine how different forms of power can achieve coordination among such diverse capabilities, visions and interests while at the same time ensuring control and allowing mutual learning. By means of a simple simulation model of collective decisions by heterogeneous agents, we will examine three diffe...

  15. Dimensional regularization and infrared divergences in quantum electrodynamics

    International Nuclear Information System (INIS)

    Dimensional continuation was devised as a powerful regularization method for ultraviolet divergences in quantum field theories. Recently it was clear, at least for quantum electrodynamics, that such a method could be employed for factorizing out infrared divergences from the on-shell S-matrix elements. This provides a renormalization scheme on the electron mass-shell without using a gauge violating ''photon mass''. (author)

  16. Metric redefinition and UV divergences in quantum Einstein gravity

    Directory of Open Access Journals (Sweden)

    Sergey N. Solodukhin

    2016-03-01

    Full Text Available I formulate several statements demonstrating that the local metric redefinition can be used to reduce the UV divergences present in the quantum action for the Einstein gravity in d=4 dimensions. In its most general form, the proposal is that any UV divergences in the quantum action can be removed by an appropriate field re-definition and a renormalization of cosmological constant.

  17. Numerical Optimization of converging diverging miniature cavitating nozzles

    Science.gov (United States)

    Chavan, Kanchan; Bhingole, B.; Raut, J.; Pandit, A. B.

    2015-12-01

    The work focuses on the numerical optimization of converging diverging cavitating nozzles through nozzle dimensions and wall shape. The objective is to develop design rules for the geometry of cavitating nozzles for desired end-use. Two main aspects of nozzle design which affects the cavitation have been studied i.e. end dimensions of the geometry (i.e. angle and/or curvature of the inlet, outlet and the throat and the lengths of the converging and diverging sections) and wall curvatures(concave or convex). Angle of convergence at the inlet was found to control the cavity growth whereas angle of divergence of the exit controls the collapse of cavity. CFD simulations were carried out for the straight line converging and diverging sections by varying converging and diverging angles to study its effect on the collapse pressure generated by the cavity. Optimized geometry configurations were obtained on the basis of maximum Cavitational Efficacy Ratio (CER)i.e. cavity collapse pressure generated for a given permanent pressure drop across the system. With increasing capabilities in machining and fabrication, it is possible to exploit the effect of wall curvature to create nozzles with further increase in the CER. Effect of wall curvature has been studied for the straight, concave and convex shapes. Curvature has been varied and effect of concave and convex wall curvatures vis-à-vis straight walls studied for fixed converging and diverging angles.It is concluded that concave converging-diverging nozzles with converging angle of 20° and diverging angle of 5° with the radius of curvature 0.03 m and 0.1530 m respectively gives maximum CER. Preliminary experiments using optimized geometry are indicating similar trends and are currently being carried out. Refinements of the CFD technique using two phase flow simulations are planned.

  18. Information Divergence and Distance Measures for Quantum States

    Science.gov (United States)

    Jiang, Nan; Zhang, Zhaozhi

    2015-02-01

    Both information divergence and distance are measures of closeness of two quantum states which are widely used in the theory of information processing and quantum cryptography. For example, the quantum relative entropy and trace distance are well known. Here we introduce a number of new quantum information divergence and distance measures into the literature and discuss their relations and properties. We also propose a method to analyze the properties and relations of various distance and pseudo-distance measures.

  19. Corporate governance of financial intermediaries: convergence and divergence

    OpenAIRE

    Nedelchev, Miroslav

    2012-01-01

    The paper reviews the corporate governance from his evolution point of view. The used perspective is a discussion between convergence and divergence in corporate governance of financial intermediaries. The discussion is core for researches in scientific and implementation papers for last fifty years. Based on “principal-agent” model the paper illustrates both the dynamics of corporate governance and contemporary points of view for convergence and divergence of systems and practices. Th...

  20. Policy Convergence and Divergence in Scotland under Devolution

    OpenAIRE

    Keating, Michael

    2005-01-01

    The scope for divergence of public policy between Scotland and the rest of the UK is constrained by institutional, political and contextual factors. The policy capacity of the Scottish Executive is limited but increasing. Distinct Scottish policy communities are emerging, but there is variation by sector. There are important divergences in the organization and delivery of public services. Scotland is more committed than England to the traditional public sector model, emphasizing egalitarianis...

  1. Genetic divergence for quantitative traits in rice germplasm

    OpenAIRE

    P. K. Bhati, S. K. Singh, S. Y. Dhurai and Amita Sharma

    2015-01-01

    An investigation was carried out with 52 genotypes of rice to study the nature and magnitude of genetic divergence using D2 statistics. Fifty two genotypes were grouped into 8 clusters based on Euclidean cluster analysis with cluster-IV containing maximum of 14 genotypes. Maximum intra-cluster distance was observed in cluster- IV (187.87) indicating greater genetic divergence among genotypes belonging to this cluster. Number of spikelets panicle-1, plant height, grain panicle-1 and grain yiel...

  2. Average Contrastive Divergence for Training Restricted Boltzmann Machines

    OpenAIRE

    Xuesi Ma; Xiaojie Wang

    2016-01-01

    This paper studies contrastive divergence (CD) learning algorithm and proposes a new algorithm for training restricted Boltzmann machines (RBMs). We derive that CD is a biased estimator of the log-likelihood gradient method and make an analysis of the bias. Meanwhile, we propose a new learning algorithm called average contrastive divergence (ACD) for training RBMs. It is an improved CD algorithm, and it is different from the traditional CD algorithm. Finally, we obtain some experimental resul...

  3. Genetic divergence of inbred lines in sunflower (Helianthus annuus L.)

    OpenAIRE

    Gopal Dan, N. Manivannan and P. Vindhiyavarman

    2012-01-01

    Genetic divergence of 79 inbred lines of sunflower using eight agronomic characters was studied. Analysis of variance revealedthe existence of divergence among the inbred lines. Mahalanobis D2 statistics indicated the presence of substantial geneticdiversity. Based on intercluster D2 value and cluster mean for various characters, potential inbred lines were identified.Intercrossing of these inbreds will exhibit more variability for yield and yield component traits. The character oil yield was...

  4. Juvenile skeletogenesis in anciently diverged sea urchin clades

    OpenAIRE

    Gao, Feng; Thompson, Jeffrey R.; Petsios, Elizabeth; Erkenbrack, Eric; Moats, Rex A.; Bottjer, David J.; Davidson, Eric H.

    2015-01-01

    Mechanistic understanding of evolutionary divergence in animal body plans devolves from analysis of those developmental processes that, in forms descendant from a common ancestor, are responsible for their morphological differences. The last common ancestor of the two extant subclasses of sea urchins, i.e., euechinoids and cidaroids, existed well before the Permian/Triassic extinction (252 mya). Subsequent evolutionary divergence of these clades offers in principle a rare opportunity to solve...

  5. Learning to Rank With Bregman Divergences and Monotone Retargeting

    OpenAIRE

    Acharyya, Sreangsu; Koyejo, Oluwasanmi; Ghosh, Joydeep

    2012-01-01

    This paper introduces a novel approach for learning to rank (LETOR) based on the notion of monotone retargeting. It involves minimizing a divergence between all monotonic increasing transformations of the training scores and a parameterized prediction function. The minimization is both over the transformations as well as over the parameters. It is applied to Bregman divergences, a large class of "distance like" functions that were recently shown to be the unique class that is statistically co...

  6. Qualitative Evaluation of Divergent Thinking in Patients with Schizophrenia

    Directory of Open Access Journals (Sweden)

    Takahiro Nemoto

    2005-01-01

    Full Text Available Patients with schizophrenia show deficits across a broad spectrum of neurocognitive domains. In particular, deficits in verbal fluency are common. Verbal fluency tests are neuropsychological tests that assess frontal lobe function or executive function but also assess divergent thinking. However, few studies have considered the impairment of verbal fluency from the viewpoint of divergent thinking. To consider the structure of divergent thinking, not only verbal assessments but also non-verbal assessments are indispensable. We administered several fluency tests, the idea fluency test, the design fluency test, and word (letter and category fluency tests to 26 patients with schizophrenia and 26 healthy control subjects to evaluate divergent thinking in both groups and assessed their responses qualitatively. An acceptable minimal level of intelligence was maintained in the patient group. Although attention and executive functioning were relatively preserved in the subjects with schizophrenia, they demonstrated significant deficits in divergent thinking and had particular difficulty in producing ideas and designs requiring concept flexibility, a conversion of viewpoint, originality, or novelty. Research on deficits in divergent thinking in patients with schizophrenia may contribute to the development of cognitive and behavioral rehabilitation programs.

  7. THE SIGNIFICANCE OF MOTOR ASYMMETRY AND HEMISPHERIC CHARACTERISTICS FOR EFFECTIVE CONVERGENT AND DIVERGENT THINKING DURING INFŒORMATION IDENTIFICATION

    Directory of Open Access Journals (Sweden)

    O.M. Razumnikova

    2013-05-01

    Full Text Available Multiple regression analyses utilising time parameters have been used to investigate the relationships between hemispheric attention and motor asymmetry and the efficiency of convergent/divergent thinking during the identification of laterally presented hierarchical letters and during performance of psychometric indices of intelligence and creativity. Efficiency in convergent thinking is primarily associated with the rapid and accurate identification of information on a global level of selection, and divergent thinking is associated with increases in selection time on a local level. Motor asymmetry is more associated with verbal creativity and figurative intelligence, as evidenced by increased performance on psychometric indices as right-handed dominance decreases. Additionally, the contribution of selective left or right hemispheric processing to convergent or divergent thinking is different during verbal versus figurative testing.

  8. The Kalash genetic isolate: ancient divergence, drift, and selection.

    Science.gov (United States)

    Ayub, Qasim; Mezzavilla, Massimo; Pagani, Luca; Haber, Marc; Mohyuddin, Aisha; Khaliq, Shagufta; Mehdi, Syed Qasim; Tyler-Smith, Chris

    2015-05-01

    The Kalash represent an enigmatic isolated population of Indo-European speakers who have been living for centuries in the Hindu Kush mountain ranges of present-day Pakistan. Previous Y chromosome and mitochondrial DNA markers provided no support for their claimed Greek descent following Alexander III of Macedon's invasion of this region, and analysis of autosomal loci provided evidence of a strong genetic bottleneck. To understand their origins and demography further, we genotyped 23 unrelated Kalash samples on the Illumina HumanOmni2.5M-8 BeadChip and sequenced one male individual at high coverage on an Illumina HiSeq 2000. Comparison with published data from ancient hunter-gatherers and European farmers showed that the Kalash share genetic drift with the Paleolithic Siberian hunter-gatherers and might represent an extremely drifted ancient northern Eurasian population that also contributed to European and Near Eastern ancestry. Since the split from other South Asian populations, the Kalash have maintained a low long-term effective population size (2,319-2,603) and experienced no detectable gene flow from their geographic neighbors in Pakistan or from other extant Eurasian populations. The mean time of divergence between the Kalash and other populations currently residing in this region was estimated to be 11,800 (95% confidence interval = 10,600-12,600) years ago, and thus they represent present-day descendants of some of the earliest migrants into the Indian sub-continent from West Asia. PMID:25937445

  9. Divergent Horizontal Sub-surface Flows within Active Region 11158

    CERN Document Server

    Jain, Kiran; Hill, F

    2015-01-01

    We measure the horizontal subsurface flow in a fast emerging active region (NOAA 11158) using the ring-diagram technique and the HMI high-spatial resolution Dopplergrams. This active region had a complex magnetic structure and displayed significant changes in the morphology during its disk passage. Over the period of six days from 2011 February 11 to 16, the temporal variation in the magnitude of total velocity is found to follow the trend of magnetic field strength. We further analyze regions of individual magnetic polarity within AR 11158 and find that the horizontal velocity components in these sub-regions have significant variation with time and depth. The leading and trailing polarity regions move faster than the mixed-polarity region. Further, both zonal and meridional components have opposite signs for trailing and leading polarity regions at all depths showing divergent flows within the active region. We also find a sharp decrease in the magnitude of total horizontal velocity in deeper layer around ma...

  10. Clonal selection drives genetic divergence of metastatic medulloblastoma.

    Science.gov (United States)

    Wu, Xiaochong; Northcott, Paul A; Dubuc, Adrian; Dupuy, Adam J; Shih, David J H; Witt, Hendrik; Croul, Sidney; Bouffet, Eric; Fults, Daniel W; Eberhart, Charles G; Garzia, Livia; Van Meter, Timothy; Zagzag, David; Jabado, Nada; Schwartzentruber, Jeremy; Majewski, Jacek; Scheetz, Todd E; Pfister, Stefan M; Korshunov, Andrey; Li, Xiao-Nan; Scherer, Stephen W; Cho, Yoon-Jae; Akagi, Keiko; MacDonald, Tobey J; Koster, Jan; McCabe, Martin G; Sarver, Aaron L; Collins, V Peter; Weiss, William A; Largaespada, David A; Collier, Lara S; Taylor, Michael D

    2012-02-23

    Medulloblastoma, the most common malignant paediatric brain tumour, arises in the cerebellum and disseminates through the cerebrospinal fluid in the leptomeningeal space to coat the brain and spinal cord. Dissemination, a marker of poor prognosis, is found in up to 40% of children at diagnosis and in most children at the time of recurrence. Affected children therefore are treated with radiation to the entire developing brain and spinal cord, followed by high-dose chemotherapy, with the ensuing deleterious effects on the developing nervous system. The mechanisms of dissemination through the cerebrospinal fluid are poorly studied, and medulloblastoma metastases have been assumed to be biologically similar to the primary tumour. Here we show that in both mouse and human medulloblastoma, the metastases from an individual are extremely similar to each other but are divergent from the matched primary tumour. Clonal genetic events in the metastases can be demonstrated in a restricted subclone of the primary tumour, suggesting that only rare cells within the primary tumour have the ability to metastasize. Failure to account for the bicompartmental nature of metastatic medulloblastoma could be a major barrier to the development of effective targeted therapies. PMID:22343890

  11. Numerical Simulation of Density Current Evolution in a Diverging Channel

    Directory of Open Access Journals (Sweden)

    Mitra Javan

    2012-01-01

    Full Text Available When a buoyant inflow of higher density enters a reservoir, it sinks below the ambient water and forms an underflow. Downstream of the plunge point, the flow becomes progressively diluted due to the fluid entrainment. This study seeks to explore the ability of 2D width-averaged unsteady Reynolds-averaged Navier-Stokes (RANS simulation approach for resolving density currents in an inclined diverging channel. 2D width-averaged unsteady RANS equations closed by a buoyancy-modified − turbulence model are integrated in time with a second-order fractional step approach coupled with a direct implicit method and discretized in space on a staggered mesh using a second-order accurate finite volume approach incorporating a high-resolution semi-Lagrangian technique for the convective terms. A series of 2D width-averaged unsteady simulations is carried out for density currents. Comparisons with the experimental measurements and the other numerical simulations show that the predictions of velocity and density field are with reasonable accuracy.

  12. Investigation on Divergent Exit Curvature Effect on Nozzle Pressure Ratio of Supersonic Convergent Divergent Nozzle

    Directory of Open Access Journals (Sweden)

    aShyamshankar.M.B

    2015-05-01

    Full Text Available The objective of this project work is to computationally analyze shock waves in the Convergent Divergent (CD Nozzle. The commercial CFD code Fluent is employed to analyze the compressible flow through the nozzle. The analysis is about NPR (Nozzle Pressure Ratio i.e., the ratio between exit pressure of the nozzle to ambient pressure. The various models of CD Nozzle are designed and the results are compared. The flow characteristic of shockwave for various design of CD Nozzle is also discussed. The purpose of this project is to investigate supersonic C-D nozzle flow for increasing NPR (Nozzle pressure ratio through CFD. The imperfect matching between the pressures and ambient pressure and exit pressure leads to the formation of a complicated shock wave structure. Supersonic nozzle flow separation occurs in CD nozzles at NPR values far above their design value that results in shock formation inside the nozzle. The one-dimensional analysis approximations are not accurate, in reality the flow detaches from the wall and forms a separation region, subsequently the flow downstream becomes non-uniform and unstable. Shock wave affects flow performance of nozzle from NPR value 1.63 for existing geometrical conditions of nozzle. Problem of using this nozzle above 1.63NPR is shock wave at downstream of throat. After shock wave, static pressure increases further downstream of flow. It leads to flow separation and back pressure effects. Back pressure makes nozzle chocked. To investigate this problem, geometry of divergent portion is introduced and analysed through CFD. This is expected in resulting of reduction of flow separation and back pressure effect as well as increase in nozzle working NPR.

  13. Laser fusion target illumination optimization with consideration of the beam divergence

    International Nuclear Information System (INIS)

    Using a focusing system with a great focal length it is demonstrated that the radiation divergence considerably influences the illumination optimization. If the channel beam is composed of several single beams, there are two optimum illumination variants: the channel beam tangent and the single beam tangent illumination. Further, it is shown that the illumination channel distribution function can vary in the central region without any effect on the illumination uniformity. The deviation at the periphery is more critical. The most homogeneous illumination and favourable energy transfer would be obtained by low radiation divergence and optimum lateral and axial defocusing of the single beam imaging a suitable near-field intensity pattern on the target surface. It is emphasized that the estimation was made without considering the plasma parameters and the dynamic variation in time. (author)

  14. Co-divergence and host-switching in the evolution of tobamoviruses.

    Science.gov (United States)

    Stobbe, Anthony H; Melcher, Ulrich; Palmer, Michael W; Roossinck, Marilyn J; Shen, Guoan

    2012-02-01

    The proposed phylogenetic structure of the genus Tobamovirus supports the idea that these viruses have codiverged with their hosts since radiation of the hosts from a common ancestor. The determinations of genome sequence for two strains of Passion fruit mosaic virus (PafMV), a tobamovirus from plants of the family Passifloraceae (order Malpighiales) from which only one other tobamovirus (Maracuja mosaic virus; MarMV) has been characterized, combined with the development of Bayesian analysis methods for phylogenetic inference, provided an opportunity to reassess the co-divergence hypothesis. The sequence of one PafMV strain, PfaMV-TGP, was discovered during a survey of plants of the Tallgrass Prairie Preserve for their virus content. Its nucleotides are only 73 % identical to those of MarMV. A conserved ORF not found in other tobamovirus genomes, and encoding a cysteine-rich protein, was found in MarMV and both PafMV strains. Phylogenetic tree construction, using an alignment of the nucleotide sequences of PafMV-TGP and other tobamoviruses resulted in a major clade containing isolates exclusively from rosid plants. Asterid-derived viruses were exclusively found in a second major clade that also contained an orchid-derived tobamovirus and tobamoviruses infecting plants of the order Brassicales. With a few exceptions, calibrating the virus tree with dates of host divergence at two points resulted in predictions of divergence times of family specific tobamovirus clades that were consistent with the times of divergence of the host plant orders. PMID:22049092

  15. Speciation genomics and a role for the Z chromosome in the early stages of divergence between Mexican ducks and mallards.

    Science.gov (United States)

    Lavretsky, Philip; Dacosta, Jeffrey M; Hernández-Baños, Blanca E; Engilis, Andrew; Sorenson, Michael D; Peters, Jeffrey L

    2015-11-01

    Speciation is a continuous and dynamic process, and studying organisms during the early stages of this process can aid in identifying speciation mechanisms. The mallard (Anas platyrhynchos) and Mexican duck (A. [p.] diazi) are two recently diverged taxa with a history of hybridization and controversial taxonomy. To understand their evolutionary history, we conducted genomic scans to characterize patterns of genetic diversity and divergence across the mitochondrial DNA (mtDNA) control region, 3523 autosomal loci and 172 Z-linked sex chromosome loci. Between the two taxa, Z-linked loci (ΦST  = 0.088) were 5.2 times more differentiated than autosomal DNA (ΦST  = 0.017) but comparable to mtDNA (ΦST  = 0.092). This elevated Z differentiation deviated from neutral expectations inferred from simulated data that incorporated demographic history and differences in effective population sizes between marker types. Furthermore, 3% of Z-linked loci, compared to Mexican duck sampling locations was close to 1:1 (ΦST  = 0.018 for both markers). We conclude that between mallards and Mexican ducks, divergence at autosomal markers is largely neutral, whereas greater divergence on the Z chromosome (or some portions thereof) is likely the product of selection that has been important in speciation. Our results contribute to a growing body of literature indicating elevated divergence on the Z chromosome and its likely importance in avian speciation. PMID:26414437

  16. Sandwiched Rényi divergence satisfies data processing inequality

    Energy Technology Data Exchange (ETDEWEB)

    Beigi, Salman [School of Mathematics, Institute for Research in Fundamental Sciences (IPM), P.O. Box 19395-5746, Tehran (Iran, Islamic Republic of)

    2013-12-15

    Sandwiched (quantum) α-Rényi divergence has been recently defined in the independent works of Wilde et al. [“Strong converse for the classical capacity of entanglement-breaking channels,” preprint http://arxiv.org/abs/arXiv:1306.1586 (2013)] and Müller-Lennert et al. [“On quantum Rényi entropies: a new definition, some properties and several conjectures,” preprint http://arxiv.org/abs/arXiv:1306.3142v1 (2013)]. This new quantum divergence has already found applications in quantum information theory. Here we further investigate properties of this new quantum divergence. In particular, we show that sandwiched α-Rényi divergence satisfies the data processing inequality for all values of α > 1. Moreover we prove that α-Holevo information, a variant of Holevo information defined in terms of sandwiched α-Rényi divergence, is super-additive. Our results are based on Hölder's inequality, the Riesz-Thorin theorem and ideas from the theory of complex interpolation. We also employ Sion's minimax theorem.

  17. Sufficient Statistics for Divergence and the Probability of Misclassification

    Science.gov (United States)

    Quirein, J.

    1972-01-01

    One particular aspect is considered of the feature selection problem which results from the transformation x=Bz, where B is a k by n matrix of rank k and k is or = to n. It is shown that in general, such a transformation results in a loss of information. In terms of the divergence, this is equivalent to the fact that the average divergence computed using the variable x is less than or equal to the average divergence computed using the variable z. A loss of information in terms of the probability of misclassification is shown to be equivalent to the fact that the probability of misclassification computed using variable x is greater than or equal to the probability of misclassification computed using variable z. First, the necessary facts relating k-dimensional and n-dimensional integrals are derived. Then the mentioned results about the divergence and probability of misclassification are derived. Finally it is shown that if no information is lost (in x = Bz) as measured by the divergence, then no information is lost as measured by the probability of misclassification.

  18. Rotational and divergent kinetic energy in the mesoscale model ALADIN

    Directory of Open Access Journals (Sweden)

    V. Blažica

    2013-03-01

    Full Text Available Kinetic energy spectra from the mesoscale numerical weather prediction (NWP model ALADIN with horizontal resolution 4.4 km are split into divergent and rotational components which are then compared at horizontal scales below 300 km and various vertical levels. It is shown that about 50% of kinetic energy in the free troposphere in ALADIN is divergent energy. The percentage increases towards 70% near the surface and in the upper troposphere towards 100 hPa. The maximal percentage of divergent energy is found at stratospheric levels around 100 hPa and at scales below 100 km which are not represented by the global models. At all levels, the divergent energy spectra are characterised by shallower slopes than the rotational energy spectra, and the difference increases as horizontal scales become larger. A very similar vertical distribution of divergent energy is obtained by using the standard ALADIN approach for the computation of spectra based on the extension zone and by applying detrending approach commonly used in mesoscale NWP community.

  19. Phylogeny and divergence of the pinnipeds (Carnivora: Mammalia assessed using a multigene dataset

    Directory of Open Access Journals (Sweden)

    Beck Robin MD

    2007-11-01

    Full Text Available Abstract Background Phylogenetic comparative methods are often improved by complete phylogenies with meaningful branch lengths (e.g., divergence dates. This study presents a dated molecular supertree for all 34 world pinniped species derived from a weighted matrix representation with parsimony (MRP supertree analysis of 50 gene trees, each determined under a maximum likelihood (ML framework. Divergence times were determined by mapping the same sequence data (plus two additional genes on to the supertree topology and calibrating the ML branch lengths against a range of fossil calibrations. We assessed the sensitivity of our supertree topology in two ways: 1 a second supertree with all mtDNA genes combined into a single source tree, and 2 likelihood-based supermatrix analyses. Divergence dates were also calculated using a Bayesian relaxed molecular clock with rate autocorrelation to test the sensitivity of our supertree results further. Results The resulting phylogenies all agreed broadly with recent molecular studies, in particular supporting the monophyly of Phocidae, Otariidae, and the two phocid subfamilies, as well as an Odobenidae + Otariidae sister relationship; areas of disagreement were limited to four more poorly supported regions. Neither the supertree nor supermatrix analyses supported the monophyly of the two traditional otariid subfamilies, supporting suggestions for the need for taxonomic revision in this group. Phocid relationships were similar to other recent studies and deeper branches were generally well-resolved. Halichoerus grypus was nested within a paraphyletic Pusa, although relationships within Phocina tend to be poorly supported. Divergence date estimates for the supertree were in good agreement with other studies and the available fossil record; however, the Bayesian relaxed molecular clock divergence date estimates were significantly older. Conclusion Our results join other recent studies and highlight the need for a re

  20. Divergência genética em café conilon Genetic divergence in conilon coffee

    Directory of Open Access Journals (Sweden)

    Aymbiré Francisco Almeida da Fonseca

    2006-04-01

    Full Text Available O objetivo deste trabalho foi avaliar a divergência genética entre 32 clones de café conilon (Coffea canephora Pierre ex Frohener componentes de três variedades clonais melhoradas, com vistas à identificação dos mais dissimilares, para o estabelecimento de programas de cruzamentos dirigidos. A divergência genética foi avaliada por procedimentos multivariados: distância generalizada de Mahalanobis, método de agrupamento de otimização de Tocher e técnica de variáveis canônicas. Sete caracteres foram avaliados em experimento conduzido em Marilândia, ES. Os genótipos ES 92, ES 25 e ES 22 são os mais divergentes, sendo os dois últimos os mais indicados para cruzamento com os demais, tendo em vista aliarem divergência genética a um bom desempenho produtivo.The objective of this work was to evaluate the genetic divergence between 32 clones of three clonal varieties of conilon coffee, to identify the most dissimilar for the establishment of programs of directed crosses. Genetic divergence was evaluated by multivariate procedures: generalized Mahalanobis distance, the grouping optimization method of Tocher and the technique of canonical variables. Seven characteristics were evaluated in one trial conducted in Marilândia, ES, Brazil. Genotypes ES 92, ES 25 and ES 22 are the most divergent; the last two are the most appropriate for crossing and to obtain hybrids of improved performance by using genetic divergence for good productive performance.

  1. Theoretical analysis of some problems in the measurement of beam divergence angle for EAST neutral beam injector

    Institute of Scientific and Technical Information of China (English)

    2011-01-01

    Beam angular divergence is one of the indicators to evaluate the beam quality. Operating parameters of the beam extraction system could be adjusted to gain better beam quality following the measurement results, which will be helpful not only to study the transmission characteristics of the beam and the power distribution on the heat load components, but also to understand the real-time working condition of the ion source and beam extraction system. This study includes: (1) the theoretical analysis of beam extraction pulse duration for measurement of beam angular divergence; (2) the theoretical analysis of beam intensity distribution during beam transmission for Experimental Advanced Superconducting Tokomak (EAST) neutral beam injector. Those theoretical analyses could point the way to the measurement of beam divergence angle for EAST neutral beam injector.

  2. Changes in cis-regulatory elements of a key floral regulator are associated with divergence of inflorescence architectures

    NARCIS (Netherlands)

    E. Kusters; S. Della Pina; R. Castel; E. Souer; R. Koes

    2015-01-01

    Higher plant species diverged extensively with regard to the moment (flowering time) and position (inflorescence architecture) at which flowers are formed. This seems largely caused by variation in the expression patterns of conserved genes that specify floral meristem identity (FMI), rather than ch

  3. The Impact of Random and Lineal Fission on the Genetic Divergence of Small Human Groups: A Case Study among the Yanomama

    OpenAIRE

    Smouse, Peter E.; Vitzthum, Virginia J.; Neel, James V.

    1981-01-01

    Most of the genetic divergence that currently separates populations of Homo sapiens must have arisen during that long period when the local village (or band) was the basic unit of biological evolution. Studies of tribally intact Amerindian groups exhibiting such small-group organization have demonstrated marked genetic divergence between nearby villages. Some of this genetic radiation can be attributed to the effects of random genetic drift over time within these small demes. Some of it, howe...

  4. Ice flux divergence anomalies on 79north Glacier, Greenland

    DEFF Research Database (Denmark)

    Seroussi, H.; Morlighem, M.; Rignot, E.;

    2011-01-01

    The ice flux divergence of a glacier is an important quantity to examine because it determines the rate of temporal change of its thickness. Here, we combine high-resolution ice surface velocity observations of Nioghalvfjerdsfjorden (79north) Glacier, a major outlet glacier in north Greenland, with...... a dense grid of ice thickness data collected with an airborne radar sounder in 1998, to examine its ice flux divergence. We detect large variations, up to 100 m/yr, in flux divergence on grounded ice that are incompatible with what we know of the glacier surface mass balance, basal mass balance and...... onto a regular grid using a scheme (here block kriging) that does not conserve mass or ice flux. This problem is not unique to 79north Glacier but is common to all conventional ice thickness surveys of glaciers and ice sheets; and fundamentally limits the application of ice thickness grids to high...

  5. Divergence measurements of soft x-ray laser beam

    International Nuclear Information System (INIS)

    The divergence of the CVI 182 A lasing line generated in a rapidly recombining, magnetically confined plasma column was measured using soft x-ray spectrometers equipped with multichannel detectors. In addition to measurements of the relative divergence, an absolute divergence of approx.9 mrad at a magnetic field of 20 kG and approx.5 mrad at a magnetic field of 35 or 50 kG was obtained by a direct scan of the 182 A axial radiation. Based on this data a peak 182 A intensity of approx.100 kW is obtained. Calculations of the spatial distribution of gain in the plasma were in very good agreement with the experimental data

  6. On Bregman Distances and Divergences of Probability Measures

    CERN Document Server

    Stummer, Wolfgang

    2009-01-01

    The paper introduces scaled Bregman distances of probability distributions which admit non-uniform contributions of observed events. They are introduced in a general form covering not only the distances of discrete and continuous stochastic observations, but also the distances of random processes and signals. It is shown that the scaled Bregman distances extend not only the classical ones studied in the previous literature, but also the information divergence and the related wider class of convex divergences of probability measures. An information processing theorem is established too, but only in the sense of invariance w.r.t. statistically sufficient transformations and not in the sense of universal monotonicity. Pathological situations where coding can increase the classical Bregman distance are illustrated by a concrete example. In addition to the classical areas of application of the Bregman distances and convex divergences such as recognition, classification, learning and evaluation of proximity of vari...

  7. Frequencies of digits, divergence points, and Schmidt games

    International Nuclear Information System (INIS)

    Sets of divergence points, i.e. numbers x (or tuples of numbers) for which the limiting frequency of a given string of N-adic digits of x fails to exist, have recently attracted huge interest in the literature. In this paper we consider sets of simultaneous divergence points, i.e. numbers x (or tuples of numbers) for which the limiting frequencies of all strings of N-adic digits of x fail to exist. We show that many natural sets of simultaneous divergence points are (α, β)-wining sets in the sense of the Schmidt game. As an application we obtain lower bounds for the Hausdorff dimension of these sets.

  8. Android Malware Detection Using Kullback-Leibler Divergence

    Directory of Open Access Journals (Sweden)

    Vanessa N. COOPER

    2015-03-01

    Full Text Available Many recent reports suggest that mareware applications cause high billing to victims by sending and receiving hidden SMS messages. Given that, there is a need to develop necessary technique to identify malicious SMS operations as well as differentiate between good and bad SMS operations within applications.In this paper, we apply Kullback-Leibler Divergence (KLD as a distance metric to identify the difference between good and bad SMS operations. We develop a set of elements that represent sending or receiving of SMS messages, both legitimately and maliciously. Then, we compare the divergence of the trained set of elements. Our evaluation shows that the divergence between good and bad applications remains significantly high, whereas between two applications performing the same SMS operations remain low. We evaluate the proposed KLD-based concept for identifying a set of malware applications. The initial results show that our approach can identify all known malware and has less false positive warning.

  9. Phenotypic and genetic divergence within a single whitefish form - detecting the potential for future divergence.

    Science.gov (United States)

    Hirsch, Philipp Emanuel; Eckmann, Reiner; Oppelt, Claus; Behrmann-Godel, Jasminca

    2013-12-01

    Human-induced nutrient input can change the selection regime and lead to the loss of biodiversity. For example, eutrophication caused speciation reversal in polymorphic whitefish populations through a flattening of littoral-pelagic selection gradients. We investigated the current state of phenotypic and genetic diversity in whitefish (Coregonus macrophthalmus) in a newly restored lake whose nutrient load has returned to pre-eutrophication levels and found that whitefish spawning at different depths varied phenotypically and genetically: individuals spawning at shallower depth had fewer gill rakers, faster growth, and a morphology adapted to benthic feeding, and they showed higher degrees of diet specialization than deeper spawning individuals. Microsatellite analyses complemented the phenotype analyses by demonstrating reproductive isolation along different spawning depths. Our results indicate that whitefish still retain or currently regain phenotypic and genetic diversity, which was lost during eutrophication. Hence, the population documented here has a potential for future divergence because natural selection can target phenotypes specialized along re-established littoral-pelagic selection gradients. The biodiversity, however, will have better chances to return if managers acknowledge the evolutionary potential within the local whitefish and adapt fishing and stocking measures. PMID:24478795

  10. Convergence Analysis of Contrastive Divergence Algorithm Based on Gradient Method with Errors

    OpenAIRE

    Xuesi Ma; Xiaojie Wang

    2015-01-01

    Contrastive Divergence has become a common way to train Restricted Boltzmann Machines; however, its convergence has not been made clear yet. This paper studies the convergence of Contrastive Divergence algorithm. We relate Contrastive Divergence algorithm to gradient method with errors and derive convergence conditions of Contrastive Divergence algorithm using the convergence theorem of gradient method with errors. We give specific convergence conditions of Contrastive Divergence ...

  11. Revised timeline and distribution of the earliest diverged human maternal lineages in southern Africa.

    Directory of Open Access Journals (Sweden)

    Eva K F Chan

    Full Text Available The oldest extant human maternal lineages include mitochondrial haplogroups L0d and L0k found in the southern African click-speaking forager peoples broadly classified as Khoesan. Profiling these early mitochondrial lineages allows for better understanding of modern human evolution. In this study, we profile 77 new early-diverged complete mitochondrial genomes and sub-classify another 105 L0d/L0k individuals from southern Africa. We use this data to refine basal phylogenetic divergence, coalescence times and Khoesan prehistory. Our results confirm L0d as the earliest diverged lineage (∼172 kya, 95%CI: 149-199 kya, followed by L0k (∼159 kya, 95%CI: 136-183 kya and a new lineage we name L0g (∼94 kya, 95%CI: 72-116 kya. We identify two new L0d1 subclades we name L0d1d and L0d1c4/L0d1e, and estimate L0d2 and L0d1 divergence at ∼93 kya (95%CI:76-112 kya. We concur the earliest emerging L0d1'2 sublineage L0d1b (∼49 kya, 95%CI:37-58 kya is widely distributed across southern Africa. Concomitantly, we find the most recent sublineage L0d2a (∼17 kya, 95%CI:10-27 kya to be equally common. While we agree that lineages L0d1c and L0k1a are restricted to contemporary inland Khoesan populations, our observed predominance of L0d2a and L0d1a in non-Khoesan populations suggests a once independent coastal Khoesan prehistory. The distribution of early-diverged human maternal lineages within contemporary southern Africans suggests a rich history of human existence prior to any archaeological evidence of migration into the region. For the first time, we provide a genetic-based evidence for significant modern human evolution in southern Africa at the time of the Last Glacial Maximum at between ∼21-17 kya, coinciding with the emergence of major lineages L0d1a, L0d2b, L0d2d and L0d2a.

  12. Revised Timeline and Distribution of the Earliest Diverged Human Maternal Lineages in Southern Africa

    Science.gov (United States)

    Chan, Eva K. F.; Hardie, Rae-Anne; Petersen, Desiree C.; Beeson, Karen; Bornman, Riana M. S.; Smith, Andrew B.; Hayes, Vanessa M.

    2015-01-01

    The oldest extant human maternal lineages include mitochondrial haplogroups L0d and L0k found in the southern African click-speaking forager peoples broadly classified as Khoesan. Profiling these early mitochondrial lineages allows for better understanding of modern human evolution. In this study, we profile 77 new early-diverged complete mitochondrial genomes and sub-classify another 105 L0d/L0k individuals from southern Africa. We use this data to refine basal phylogenetic divergence, coalescence times and Khoesan prehistory. Our results confirm L0d as the earliest diverged lineage (∼172 kya, 95%CI: 149–199 kya), followed by L0k (∼159 kya, 95%CI: 136–183 kya) and a new lineage we name L0g (∼94 kya, 95%CI: 72–116 kya). We identify two new L0d1 subclades we name L0d1d and L0d1c4/L0d1e, and estimate L0d2 and L0d1 divergence at ∼93 kya (95%CI:76–112 kya). We concur the earliest emerging L0d1’2 sublineage L0d1b (∼49 kya, 95%CI:37–58 kya) is widely distributed across southern Africa. Concomitantly, we find the most recent sublineage L0d2a (∼17 kya, 95%CI:10–27 kya) to be equally common. While we agree that lineages L0d1c and L0k1a are restricted to contemporary inland Khoesan populations, our observed predominance of L0d2a and L0d1a in non-Khoesan populations suggests a once independent coastal Khoesan prehistory. The distribution of early-diverged human maternal lineages within contemporary southern Africans suggests a rich history of human existence prior to any archaeological evidence of migration into the region. For the first time, we provide a genetic-based evidence for significant modern human evolution in southern Africa at the time of the Last Glacial Maximum at between ∼21–17 kya, coinciding with the emergence of major lineages L0d1a, L0d2b, L0d2d and L0d2a. PMID:25807545

  13. Repeated adaptive divergence of microhabitat specialization in avian feather lice

    Directory of Open Access Journals (Sweden)

    Johnson Kevin P

    2012-06-01

    Full Text Available Abstract Background Repeated adaptive radiations are evident when phenotypic divergence occurs within lineages, but this divergence into different forms is convergent when compared across lineages. Classic examples of such repeated adaptive divergence occur in island (for example, Caribbean Anolis lizards and lake systems (for example, African cichlids. Host-parasite systems in many respects are analogous to island systems, where host species represent isolated islands for parasites whose life cycle is highly tied to that of their hosts. Thus, host-parasite systems might exhibit interesting cases of repeated adaptive divergence as seen in island and lake systems. The feather lice of birds spend their entire life cycle on the body of the host and occupy distinct microhabitats on the host: head, wing, body and generalist. These microhabitat specialists show pronounced morphological differences corresponding to how they escape from host preening. We tested whether these different microhabitat specialists were a case of repeated adaptive divergence by constructing both morphological and molecular phylogenies for a diversity of avian feather lice, including many examples of head, wing, body and generalist forms. Results Morphological and molecular based phylogenies were highly incongruent, which could be explained by rampant convergence in morphology related to microhabitat specialization on the host. In many cases lice from different microhabitat specializations, but from the same group of birds, were sister taxa. Conclusions This pattern indicates a process of repeated adaptive divergence of these parasites within host group, but convergence when comparing parasites across host groups. These results suggest that host-parasite systems might be another case in which repeated adaptive radiations could be relatively common, but potentially overlooked, because morphological convergence can obscure evolutionary relationships.

  14. Duplication and Divergence Effect on Network Motifs in Undirected Bio-Molecular Networks.

    Science.gov (United States)

    Pei Wang; Jinhu Lu; Xinghuo Yu; Zengrong Liu

    2015-06-01

    Duplication and divergence are two basic evolutionary mechanisms of bio-molecular networks. Real-world bio-molecular networks and their statistical characteristics can be well mimicked by artificial algorithms based on the two mechanisms. Bio-molecular networks consist of network motifs, which act as building blocks of large-scale networks. A fundamental question is how network motifs are evolved from long time evolution and natural selection. By considering the effect of various duplication and divergence strategies, we find that the underlying duplication scheme of the real-world undirected bio-molecular networks would rather follow the anti-preference strategy than the random one. The anti-preference duplication mechanism and the dimerization processes can lead to the formation of various motifs, and robustly conserve proper quantities of motifs in the artificial networks as that in the real-world ones. Furthermore, the anti-preference mechanism and edge deletion divergence can robustly preserve the sparsity of the networks. The investigations reveal the possible evolutionary mechanisms of network motifs in real-world bio-molecular networks, and have potential implications in the design, synthesis and reengineering of biological networks for biomedical purpose. PMID:25203993

  15. Divergence in male cricket song and female preference functions in three allopatric sister species.

    Science.gov (United States)

    Hennig, Ralf Matthias; Blankers, Thomas; Gray, David A

    2016-05-01

    Multivariate female preference functions for male sexual signals have rarely been investigated, especially in a comparative context among sister species. Here we examined male signal and female preference co-variation in three closely related, but allopatric species of Gryllus crickets and quantified male song traits as well as female preferences. We show that males differ conspicuously in either one of two relatively static song traits, carrier frequency or pulse rate; female preference functions for these traits also differed, and would in combination enhance species discrimination. In contrast, the relatively dynamic song traits, chirp rate and chirp duty cycle, show minimal divergence among species and relatively greater conservation of female preference functions. Notably, among species we demonstrate similar mechanistic rules for the integration of pulse and chirp time scales, despite divergence in pulse rate preferences. As these are allopatric taxa, selection for species recognition per se is unlikely. More likely sexual selection combined with conserved properties of preference filters enabled divergent coevolution of male song and female preferences. PMID:27026021

  16. Evolutionary divergence in the fungal response to fluconazole revealed by soft clustering

    KAUST Repository

    Kuo, Dwight

    2010-07-23

    Background: Fungal infections are an emerging health risk, especially those involving yeast that are resistant to antifungal agents. To understand the range of mechanisms by which yeasts can respond to anti-fungals, we compared gene expression patterns across three evolutionarily distant species - Saccharomyces cerevisiae, Candida glabrata and Kluyveromyces lactis - over time following fluconazole exposure. Results: Conserved and diverged expression patterns were identified using a novel soft clustering algorithm that concurrently clusters data from all species while incorporating sequence orthology. The analysis suggests complementary strategies for coping with ergosterol depletion by azoles - Saccharomyces imports exogenous ergosterol, Candida exports fluconazole, while Kluyveromyces does neither, leading to extreme sensitivity. In support of this hypothesis we find that only Saccharomyces becomes more azole resistant in ergosterol-supplemented media; that this depends on sterol importers Aus1 and Pdr11; and that transgenic expression of sterol importers in Kluyveromyces alleviates its drug sensitivity. Conclusions: We have compared the dynamic transcriptional responses of three diverse yeast species to fluconazole treatment using a novel clustering algorithm. This approach revealed significant divergence among regulatory programs associated with fluconazole sensitivity. In future, such approaches might be used to survey a wider range of species, drug concentrations and stimuli to reveal conserved and divergent molecular response pathways.

  17. Phylogenetic analyses of complete mitochondrial genome sequences suggest a basal divergence of the enigmatic rodent Anomalurus

    Directory of Open Access Journals (Sweden)

    Gissi Carmela

    2007-02-01

    Full Text Available Abstract Background Phylogenetic relationships between Lagomorpha, Rodentia and Primates and their allies (Euarchontoglires have long been debated. While it is now generally agreed that Rodentia constitutes a monophyletic sister-group of Lagomorpha and that this clade (Glires is sister to Primates and Dermoptera, higher-level relationships within Rodentia remain contentious. Results We have sequenced and performed extensive evolutionary analyses on the mitochondrial genome of the scaly-tailed flying squirrel Anomalurus sp., an enigmatic rodent whose phylogenetic affinities have been obscure and extensively debated. Our phylogenetic analyses of the coding regions of available complete mitochondrial genome sequences from Euarchontoglires suggest that Anomalurus is a sister taxon to the Hystricognathi, and that this clade represents the most basal divergence among sampled Rodentia. Bayesian dating methods incorporating a relaxed molecular clock provide divergence-time estimates which are consistently in agreement with the fossil record and which indicate a rapid radiation within Glires around 60 million years ago. Conclusion Taken together, the data presented provide a working hypothesis as to the phylogenetic placement of Anomalurus, underline the utility of mitochondrial sequences in the resolution of even relatively deep divergences and go some way to explaining the difficulty of conclusively resolving higher-level relationships within Glires with available data and methodologies.

  18. Diverging Responses of Tropical Andean Biomes under Future Climate Conditions

    Science.gov (United States)

    Tovar, Carolina; Arnillas, Carlos Alberto; Cuesta, Francisco; Buytaert, Wouter

    2013-01-01

    Observations and projections for mountain regions show a strong tendency towards upslope displacement of their biomes under future climate conditions. Because of their climatic and topographic heterogeneity, a more complex response is expected for biodiversity hotspots such as tropical mountain regions. This study analyzes potential changes in the distribution of biomes in the Tropical Andes and identifies target areas for conservation. Biome distribution models were developed using logistic regressions. These models were then coupled to an ensemble of 8 global climate models to project future distribution of the Andean biomes and their uncertainties. We analysed projected changes in extent and elevational range and identified regions most prone to change. Our results show a heterogeneous response to climate change. Although the wetter biomes exhibit an upslope displacement of both the upper and the lower boundaries as expected, most dry biomes tend to show downslope expansion. Despite important losses being projected for several biomes, projections suggest that between 74.8% and 83.1% of the current total Tropical Andes will remain stable, depending on the emission scenario and time horizon. Between 3.3% and 7.6% of the study area is projected to change, mostly towards an increase in vertical structure. For the remaining area (13.1%–17.4%), there is no agreement between model projections. These results challenge the common believe that climate change will lead to an upslope displacement of biome boundaries in mountain regions. Instead, our models project diverging responses, including downslope expansion and large areas projected to remain stable. Lastly, a significant part of the area expected to change is already affected by land use changes, which has important implications for management. This, and the inclusion of a comprehensive uncertainty analysis, will help to inform conservation strategies in the Tropical Andes, and to guide similar assessments for

  19. Convergence and Divergence of Crude Oil and Natural Gas Prices

    Science.gov (United States)

    Romagus, George M.

    This research investigates the possibility that WTI crude oil and Henry Hub natural gas prices share a stable link. Economic theory suggests that the two commodities are linked by both supply and demand given that the commodities can be coproduced and many consumers have the ability to switch between the fuels. In general, it would appear that the two commodities support this theory with natural gas prices tracking crude oil prices fairly well until late 2008. However, since the end of 2008 the two price series have diverged and appear to move independently of each other. Reduced fuel switching capabilities in U.S. industry and electric power generation coupled with increased technology and production from shale formations have potentially changed the driving force behind natural gas prices. However, a severe recession has impacted world economies over the same time period making the cause of the disparity between crude oil and natural gas prices unclear. Therefore, this research analyzed the possible long-term link between the two commodities over two timeframes. Using an error correction model that includes exogenous factors affecting the short-run dynamics of natural gas prices over the period January 1999 through September 2008, I find evidence of a long-run cointegrating relationship between natural gas and crude oil prices. Additionally, crude oil prices are found to be weakly exogenous to the system, suggesting causality runs from crude oil to natural gas prices. Extending this series through February 2012 yields much weaker evidence of a cointegrating relationship and provides evidence for the decoupling crude oil and natural gas prices.

  20. Robustness of Spacing-based Power Divergence Statistics

    Czech Academy of Sciences Publication Activity Database

    Boček, Pavel

    Praha : ÚTIA AVČR, v.v.i, 2011 - (Janžura, M.; Ivánek, J.). s. 23-23 [7th International Workshop on Data - Algorithms - Decision Making. 27.11.2011-29.11.2011, Mariánská] R&D Projects: GA MŠk 1M0572; GA ČR GAP202/10/0618 Institutional research plan: CEZ:AV0Z10750506 Keywords : alpha-divergence * goodness-of-fit Subject RIV: BD - Theory of Information http://library.utia.cas.cz/separaty/2011/SI/bocek- robustness of spacing-based power divergence statistics.pdf

  1. Evolution of Weighted Networks by Duplication-Divergence Mechanism

    Institute of Scientific and Technical Information of China (English)

    ZHANG Jian-Guo; YAN Jia-Ren; LIU Zi-Ran; WANG Li

    2006-01-01

    @@ The duplication and divergence process is ubiquitous in nature and man-made networks. Motivated by the duplication-divergence mechanism which depicts the growth of protein networks, we propose a weighted network model in which topological evolution is coupled with weight dynamics. Large scale numerical results indicate that our model can naturally generate networks with power-law-like distributions of degree, strength and weight.The degree-strength correlation is illustrated as well. These properties are in agreement well with empirical data observed in real-world systems. Furthermore, by altering the retention probability σ, weighted, structured exponential networks are realized.

  2. Genetic divergence in Virginia groundnut (Arachis hypogaea L.

    Directory of Open Access Journals (Sweden)

    R. P. Gupta, J. H. Vachhani, V. H. Kachhadia, M. A. Vaddoria and V. J. Bhatiya

    2015-06-01

    Full Text Available Divergence analysis among sixty groundnut genotypes was carried out using Mahalanobis’s D2-statistic. The genotypes were grouped into thirteen clusters. The maximum inter-cluster distance (D=36.51 was found between clusters III and V followed by clusters IV and V (D=32.67 and II and IV (D=24.21 indicated that these groups of genotypes were highly divergent from each other. The genotypes in above clusters revealed substantial difference in the means for important yield contributing characters suggesting that the genotypes belonging to these clusters from ideal parents for yield improvement in groundnut.

  3. Divergence from factorizable distributions and matroid representations by partitions

    Czech Academy of Sciences Publication Activity Database

    Matúš, František

    2009-01-01

    Roč. 55, č. 12 (2009), s. 5375-5381. ISSN 0018-9448 R&D Projects: GA AV ČR IAA100750603; GA ČR GA201/04/0393 Institutional research plan: CEZ:AV0Z10750506 Keywords : Information divergence * relative entropy * Shannon entropy * exponential family * hierarchical model * log-linear model * contingency table * Gibbs distribution * matroid representation * secret sharing scheme * maximum likelihood. Subject RIV: BA - General Mathematics Impact factor: 2.357, year: 2009 http://library.utia.cas.cz/separaty/2009/MTR/matus-divergence from factorizable distributions and matroid representations by partitions.pdf

  4. Genetic divergence and the genetic architecture of complex traits in chromosome substitution strains of mice

    Directory of Open Access Journals (Sweden)

    Spiezio Sabrina H

    2012-05-01

    Full Text Available Abstract Background The genetic architecture of complex traits strongly influences the consequences of inherited mutations, genetic engineering, environmental and genetic perturbations, and natural and artificial selection. But because most studies are under-powered, the picture of complex traits is often incomplete. Chromosome substitution strains (CSSs are a unique paradigm for these genome surveys because they enable statistically independent, powerful tests for the phenotypic effects of each chromosome on a uniform inbred genetic background. A previous CSS survey in mice and rats revealed many complex trait genes (QTLs, large phenotypic effects, extensive epistasis, as well as systems properties such as strongly directional phenotypic changes and genetically-determined limits on the range of phenotypic variation. However, the unusually close genetic relation between the CSS progenitor strains in that study raised questions about the impact of genetic divergence: would greater divergence between progenitor strains, with the corresponding changes in gene regulation and protein function, lead to significantly more distinctive phenotypic features, or alternatively would epistasis and systems constraints, which are pervasive in CSSs, limit the range of phenotypic variation regardless of the extent of DNA sequence variation? Results We analyzed results for an extensive survey of traits in two new panels of CSSs where the donor strains were derived from inbred strains with more distant origins and discovered a strong similarity in genetic and systems properties among the three CSS panels, regardless of divergence time. Conclusion Our results argue that DNA sequence differences between host and donor strains did not substantially affect the architecture of complex traits, and suggest instead that strong epistasis buffered the phenotypic effects of genetic divergence, thereby constraining the range of phenotypic variation.

  5. Divergence of flowering genes in soybean

    Indian Academy of Sciences (India)

    Moon Young Kim; Jin Hee Shin; Yang Jae Kang; Sang Rea Shim; Suk-Ha Lee

    2012-11-01

    Soybean genome sequences were blasted with Arabidopsis thaliana regulatory genes involved in photoperiod-dependent flowering. This approach enabled the identification of 118 genes involved in the flowering pathway. Two genome sequences of cultivated (Williams 82) and wild (IT182932) soybeans were employed to survey functional DNA variations in the flowering-related homologs. Forty genes exhibiting nonsynonymous substitutions between G. max and G. soja were catalogued. In addition, 22 genes were found to co-localize with QTLs for six traits including flowering time, first flower, pod maturity, beginning of pod, reproductive period, and seed filling period. Among the genes overlapping the QTL regions, two LHY/CCA1 genes, GI and SFR6 contained amino acid changes. The recently duplicated sequence regions of the soybean genome were used as additional criteria for the speculation of the putative function of the homologs. Two duplicated regions showed redundancy of both flowering-related genes and QTLs. ID 12398025, which contains the homeologous regions between chr 7 and chr 16, was redundant for the LHY/CCA1 and SPA1 homologs and the QTLs. Retaining of the CRY1 gene and the pod maturity QTLs were observed in the duplicated region of ID 23546507 on chr 4 and chr 6. Functional DNA variation of the LHY/CCA1 gene (Glyma07g05410) was present in a counterpart of the duplicated region on chr 7, while the gene (Glyma16g01980) present in the other portion of the duplicated region on chr 16 did not show a functional sequence change. The gene list catalogued in this study provides primary insight for understanding the regulation of flowering time and maturity in soybean.

  6. A highly divergent 33 kDa Cryptosporidium parvum antigen

    Science.gov (United States)

    Previous studies comparing the genome sequences of Cryptosporidium parvum with C. hominis identified a number of highly divergent genes that might reflect positive selection for host specificity. In the present study, a C. parvum sequence, namely cgd8-5370, whose amino acid sequence differs appreci...

  7. A genomic island linked to ecotype divergence in Atlantic cod

    DEFF Research Database (Denmark)

    Hansen, Jakob Hemmer; Eg Nielsen, Einar; Therkildsen, Nina O.;

    2013-01-01

    gene flow and large effective population sizes, properties which theoretically could restrict divergence in local genomic regions. We identify a genomic region of strong population differentiation, extending over approximately 20 cM, between pairs of migratory and stationary ecotypes examined at two...

  8. Divergent Thinking as an Indicator of Creative Potential

    Science.gov (United States)

    Runco, Mark A.; Acar, Selcuk

    2012-01-01

    Divergent thinking (DT) tests are very often used in creativity studies. Certainly DT does not guarantee actual creative achievement, but tests of DT are reliable and reasonably valid predictors of certain performance criteria. The validity of DT is described as reasonable because validity is not an all-or-nothing attribute, but is, instead, a…

  9. Regional Variation Exaggerates Ecological Divergence in Niche Models

    OpenAIRE

    Godsoe, William

    2010-01-01

    Traditionally, the goal of systematics has been to produce classifications that are both strongly supported and biologically meaningful. In recent years several authors have advocated complementing phylogenetic analyses with measures of another form of evolutionary change, ecological divergence. These analyses frequently rely on ecological niche models to determine if species have ...

  10. Divergence in Siblings' Adult Attachment Security: Potential Contributors and Consequences

    Science.gov (United States)

    Fortuna, Keren

    2009-01-01

    Previous research has revealed only modest concordance in attachment security between siblings during childhood and adolescence. The first goal of this dissertation was to estimate sibling concordance in adult attachment security and identify factors contributing to divergence. The Adult Attachment Interview (AAI) was administered to young adult…

  11. Micropolar Fluids Using B-spline Divergence Conforming Spaces

    KAUST Repository

    Sarmiento, Adel

    2014-06-06

    We discretized the two-dimensional linear momentum, microrotation, energy and mass conservation equations from micropolar fluids theory, with the finite element method, creating divergence conforming spaces based on B-spline basis functions to obtain pointwise divergence free solutions [8]. Weak boundary conditions were imposed using Nitsche\\'s method for tangential conditions, while normal conditions were imposed strongly. Once the exact mass conservation was provided by the divergence free formulation, we focused on evaluating the differences between micropolar fluids and conventional fluids, to show the advantages of using the micropolar fluid model to capture the features of complex fluids. A square and an arc heat driven cavities were solved as test cases. A variation of the parameters of the model, along with the variation of Rayleigh number were performed for a better understanding of the system. The divergence free formulation was used to guarantee an accurate solution of the flow. This formulation was implemented using the framework PetIGA as a basis, using its parallel stuctures to achieve high scalability. The results of the square heat driven cavity test case are in good agreement with those reported earlier.

  12. Divergent Explanatory Production (DEP): The Relationship between Resilience and Creativity

    Science.gov (United States)

    Hernández, Óscar Sánchez; Méndez, Francisco Xavier; Garber, Judy

    2015-01-01

    Introduction: The aim of the study is to describe and analyze a new test and construct, Divergent Explanatory Production (DEP), defined as the ability to observe adverse situations from various points of view. At the theoretical level, it is a bridge between the reformulated model of learned helplessness (as a resilience model), and creative…

  13. STUDIES ON GENETIC DIVERGENCE IN GOSSYPIUM ARBOREUM L.

    Directory of Open Access Journals (Sweden)

    Rumesh Ranjan

    2014-08-01

    Full Text Available On the basis of D2 values, sixty genotypes were grouped into eight clusters containing one to fourteen genotypes. These clusters consisted of genotypes with different geographical origins and indicated no correlation between genetic divergence and geographical divergence. The genotypes of Cluster VIII showed maximum genetic divergence with Cluster I and cluster V. The genotypes belonging to cluster VIII and cluster I may be selected for hybridization for generating genetic variability. Cluster VI having six genotypes was found to be best performing for agronomic characters followed by cluster VIII with one genotype and cluster V with eight genotypes. Thus to generate desirable genetic variability the crossing between cluster VI, VIII and V genotypes would be useful. It is suggested that hybridization among the genotypes of above said clusters would produce segregants for more than one economic character which can serve as parents of hybrids. Days to first flower followed by seed cotton yield per plant, number of monopods and plant height contribute maximum toward divergence.

  14. Constrained Transport vs. Divergence Cleanser Options in Astrophysical MHD Simulations

    Science.gov (United States)

    Lindner, Christopher C.; Fragile, P.

    2009-01-01

    In previous work, we presented results from global numerical simulations of the evolution of black hole accretion disks using the Cosmos++ GRMHD code. In those simulations we solved the magnetic induction equation using an advection-split form, which is known not to satisfy the divergence-free constraint. To minimize the build-up of divergence error, we used a hyperbolic cleanser function that simultaneously damped the error and propagated it off the grid. We have since found that this method produces qualitatively and quantitatively different behavior in high magnetic field regions than results published by other research groups, particularly in the evacuated funnels of black-hole accretion disks where Poynting-flux jets are reported to form. The main difference between our earlier work and that of our competitors is their use of constrained-transport schemes to preserve a divergence-free magnetic field. Therefore, to study these differences directly, we have implemented a constrained transport scheme into Cosmos++. Because Cosmos++ uses a zone-centered, finite-volume method, we can not use the traditional staggered-mesh constrained transport scheme of Evans & Hawley. Instead we must implement a more general scheme; we chose the Flux-CT scheme as described by Toth. Here we present comparisons of results using the divergence-cleanser and constrained transport options in Cosmos++.

  15. The 1925 Fort Union Indian Congress: Divergent Narratives, One Event

    Science.gov (United States)

    Blee, Lisa

    2007-01-01

    This essay investigates how various perspectives differ and converge in the span of an afternoon, thus illustrating how divergent narratives, through their very difference, enhance one's understanding of the past. The case study of the 1925 Fort Union Indian Congress points to the process of narrativizing experience and underscores how meaning is…

  16. Divergence-free MHD on unstructured meshes using high order finite volume schemes based on multidimensional Riemann solvers

    Science.gov (United States)

    Balsara, Dinshaw S.; Dumbser, Michael

    2015-10-01

    Several advances have been reported in the recent literature on divergence-free finite volume schemes for Magnetohydrodynamics (MHD). Almost all of these advances are restricted to structured meshes. To retain full geometric versatility, however, it is also very important to make analogous advances in divergence-free schemes for MHD on unstructured meshes. Such schemes utilize a staggered Yee-type mesh, where all hydrodynamic quantities (mass, momentum and energy density) are cell-centered, while the magnetic fields are face-centered and the electric fields, which are so useful for the time update of the magnetic field, are centered at the edges. Three important advances are brought together in this paper in order to make it possible to have high order accurate finite volume schemes for the MHD equations on unstructured meshes. First, it is shown that a divergence-free WENO reconstruction of the magnetic field can be developed for unstructured meshes in two and three space dimensions using a classical cell-centered WENO algorithm, without the need to do a WENO reconstruction for the magnetic field on the faces. This is achieved via a novel constrained L2-projection operator that is used in each time step as a postprocessor of the cell-centered WENO reconstruction so that the magnetic field becomes locally and globally divergence free. Second, it is shown that recently-developed genuinely multidimensional Riemann solvers (called MuSIC Riemann solvers) can be used on unstructured meshes to obtain a multidimensionally upwinded representation of the electric field at each edge. Third, the above two innovations work well together with a high order accurate one-step ADER time stepping strategy, which requires the divergence-free nonlinear WENO reconstruction procedure to be carried out only once per time step. The resulting divergence-free ADER-WENO schemes with MuSIC Riemann solvers give us an efficient and easily-implemented strategy for divergence-free MHD on

  17. Longitudinal Dispersivity in a Radial Diverging Flow Field

    Science.gov (United States)

    Seaman, J. C.; Wilson, M.; Bertsch, P. M.; Aburime, S. A.

    2005-12-01

    Hydrodynamic dispersion is an important factor controlling contaminant migration in the subsurface environment. However, few comprehensive data sets exist for evaluating the impact of travel distance and site heterogeneity on solute dispersion under non-uniform flow conditions. In addition, anionic tracers are often used to estimate physical transport parameters based on an erroneous assumption of conservative (i.e., non-reactive) behavior. Therefore, a series of field experiments using tritiated water and several other commonly used hydrologic tracers (Br, Cl, FBAs) were conducted in the water-table aquifer on the U.S. Department of Energy's Savannah River Site (Aiken, SC) to evaluate solute transport processes in a diverging radial flow field. For each experiment, tracer-free groundwater was injected for approximately 24 hours at a fixed rate of 56.7 L/min (15 gpm) to establish a forced radial gradient prior to the introduction of a tracer pulse. After the tracer pulse, the forced gradient was maintained throughout the experiment using non-labeled groundwater. Tracer migration was monitored using a set of six sampling wells radially spaced at approximate distances of 1.5, 3, and 4.5 meters from a central injection well. Each sampling well was further divided into three discrete sampling depths that were monitored continuously throughout the course of the tracer experiment. At various time intervals, discrete groundwater samples were collected from all 18 sampling ports for tritium analysis. Longitudinal dispersivity for tritium breakthrough at each sampling location was estimated using analytical approximations of the convection dispersion equation (CDE) for radial flow assuming an instantaneous Dirac pulse and a pulse of known duration. The results were also compared to dispersivity values derived from fitting the tracer data to analytical solutions derived from assuming uniform flow conditions. Tremendous variation in dispersivity values and tracer arrival

  18. Differentiation of ovarian development and the evolution of fecundity in rapidly diverging exotic beetle populations.

    Science.gov (United States)

    Macagno, Anna L M; Beckers, Oliver M; Moczek, Armin P

    2015-11-01

    Fecundity is a fundamental determinant of fitness, yet the proximate developmental and physiological mechanisms that enable its often rapid evolution in natural populations are poorly understood. Here, we investigated two populations of the dung beetle Onthophagus taurus that were established in exotic ranges in the early 1970s. These populations are subject to drastically different levels of resource competition in the field, and have diverged dramatically in female fecundity. Specifically, Western Australian O. taurus experience high levels of resource competition, and exhibit greatly elevated reproductive output compared to beetles from the Eastern US, where resource competition is minimal and female fecundity is low. We compared patterns of ovarian maturation, relative investment into and timing of egg production, and potential trade-offs between ovarian investment and the duration of larval development and adult body size between populations representative of both exotic ranges. We found that the rapid divergence in fecundity between exotic populations is associated with striking differences in several aspects of ovarian development: (1) Western Australian females exhibit accelerated ovarian development, (2) produce more eggs, (3) bigger eggs, and (4) start laying eggs earlier compared to their Eastern US counterparts. At the same time, divergence in ovarian maturation patterns occurred alongside changes in (5) larval developmental time, and (6) adult body size, and (7) mass. Western Australian females take longer to complete larval development and, surprisingly, emerge into smaller yet heavier adults than size-matched Eastern US females. We discuss our results in the context of the evolutionary developmental biology of fecundity in exotic populations. PMID:26300520

  19. A great thermal divergence in the mantle beginning 2.5 Ga : geochemical constraints from greenstone basalts and komatiites.

    OpenAIRE

    Condie, K.C.; Aster, R.C.; J. van Hunen

    2016-01-01

    Greenstone basalts and komatiites provide a means to track both mantle composition and magma generation temperature with time. Four types of mantle are characterized from incompatible element distributions in basalts and komatiites: depleted, hydrated, enriched and mantle from which komatiites are derived. Our most important observation is the recognition for the first time of what we refer to as a Great Thermal Divergence within the mantle beginning near the end of the Archean, which we ascr...

  20. Divergência genética em linhagens de melancia Genetic divergence in watermelon lines

    Directory of Open Access Journals (Sweden)

    Flávio de França Souza

    2005-06-01

    Full Text Available A divergência genética entre 31 genótipos de melancia foi avaliada por meio da análise de variáveis canônicas e de técnicas de agrupamento (Tocher e método hierárquico de Ward baseadas na distância generalizada de Mahalanobis (D²ii'. Trinta linhagens, obtidas a partir de acessos coletados no Nordeste brasileiro e a cultivar 'Crimson Sweet' foram avaliadas quanto ao número de dias para o aparecimento da primeira flor masculina e da primeira flor feminina (NDM e NDF; número do nó da primeira flor masculina e da primeira flor feminina (NGM e NGF; número de frutos por planta (NFP; comprimento de rama principal (CRP; peso médio de fruto (PMF; teor de sólidos solúveis (TSS; diâmetro transversal e longitudinal do fruto (DTF e DLF e espessura média de casca (EMC. O experimento foi realizado em delineamento de blocos ao acaso com três repetições, compostas por parcelas de sete plantas. As características que mais contribuíram para a divergência entre as linhagens foram número de frutos por planta, diâmetro longitudinal, teor de sólidos solúveis e peso médio de fruto. Foram formados três grupos por meio do método de otimização de Tocher, três por meio do método hierárquico de Ward e quatro grupos pela dispersão gráfica baseada nas duas primeiras variáveis canônicas. Neste caso, o grupo I compôs-se de sete linhagens de Pernambuco e uma da Bahia; o grupo II reuniu todas as 21 linhagens do Maranhão; os grupos III e IV foram compostos pela linhagem 97-0247.008 (Pernambuco e pela cultivar Crimson Sweet, respectivamente. As linhagens 87-019.021 e 87-019.022 foram as mais semelhantes, enquanto a linhagem 87-019.023 e 'Crimson Sweet' apresentaram maior dissimilaridade pela distância generalizada Mahalanobis (D²ii'. Os cruzamentos mais promissores serão aqueles realizados entre Crimson Sweet e as linhagens do grupo II. Cruzamentos entre Crimson Sweet e as linhagens do grupo I serão interessantes para a obtenção de

  1. An automated optimization tool for high-dose-rate (HDR) prostate brachytherapy with divergent needle pattern

    Science.gov (United States)

    Borot de Battisti, M.; Maenhout, M.; de Senneville, B. Denis; Hautvast, G.; Binnekamp, D.; Lagendijk, J. J. W.; van Vulpen, M.; Moerland, M. A.

    2015-10-01

    Focal high-dose-rate (HDR) for prostate cancer has gained increasing interest as an alternative to whole gland therapy as it may contribute to the reduction of treatment related toxicity. For focal treatment, optimal needle guidance and placement is warranted. This can be achieved under MR guidance. However, MR-guided needle placement is currently not possible due to space restrictions in the closed MR bore. To overcome this problem, a MR-compatible, single-divergent needle-implant robotic device is under development at the University Medical Centre, Utrecht: placed between the legs of the patient inside the MR bore, this robot will tap the needle in a divergent pattern from a single rotation point into the tissue. This rotation point is just beneath the perineal skin to have access to the focal prostate tumor lesion. Currently, there is no treatment planning system commercially available which allows optimization of the dose distribution with such needle arrangement. The aim of this work is to develop an automatic inverse dose planning optimization tool for focal HDR prostate brachytherapy with needle insertions in a divergent configuration. A complete optimizer workflow is proposed which includes the determination of (1) the position of the center of rotation, (2) the needle angulations and (3) the dwell times. Unlike most currently used optimizers, no prior selection or adjustment of input parameters such as minimum or maximum dose or weight coefficients for treatment region and organs at risk is required. To test this optimizer, a planning study was performed on ten patients (treatment volumes ranged from 8.5 cm3to 23.3 cm3) by using 2-14 needle insertions. The total computation time of the optimizer workflow was below 20 min and a clinically acceptable plan was reached on average using only four needle insertions.

  2. An automated optimization tool for high-dose-rate (HDR) prostate brachytherapy with divergent needle pattern.

    Science.gov (United States)

    Borot de Battisti, M; Maenhout, M; Denis de Senneville, B; Hautvast, G; Binnekamp, D; Lagendijk, J J W; van Vulpen, M; Moerland, M A

    2015-10-01

    Focal high-dose-rate (HDR) for prostate cancer has gained increasing interest as an alternative to whole gland therapy as it may contribute to the reduction of treatment related toxicity. For focal treatment, optimal needle guidance and placement is warranted. This can be achieved under MR guidance. However, MR-guided needle placement is currently not possible due to space restrictions in the closed MR bore. To overcome this problem, a MR-compatible, single-divergent needle-implant robotic device is under development at the University Medical Centre, Utrecht: placed between the legs of the patient inside the MR bore, this robot will tap the needle in a divergent pattern from a single rotation point into the tissue. This rotation point is just beneath the perineal skin to have access to the focal prostate tumor lesion. Currently, there is no treatment planning system commercially available which allows optimization of the dose distribution with such needle arrangement. The aim of this work is to develop an automatic inverse dose planning optimization tool for focal HDR prostate brachytherapy with needle insertions in a divergent configuration. A complete optimizer workflow is proposed which includes the determination of (1) the position of the center of rotation, (2) the needle angulations and (3) the dwell times. Unlike most currently used optimizers, no prior selection or adjustment of input parameters such as minimum or maximum dose or weight coefficients for treatment region and organs at risk is required. To test this optimizer, a planning study was performed on ten patients (treatment volumes ranged from 8.5 cm(3)to 23.3 cm(3)) by using 2-14 needle insertions. The total computation time of the optimizer workflow was below 20 min and a clinically acceptable plan was reached on average using only four needle insertions. PMID:26378657

  3. Large eddies modulating flux convergence and divergence in a disturbed unstable atmospheric surface layer

    Science.gov (United States)

    Gao, Zhongming; Liu, Heping; Russell, Eric S.; Huang, Jianping; Foken, Thomas; Oncley, Steven P.

    2016-02-01

    The effects of large eddies on turbulence structures and flux transport were studied using data collected over a flat cotton field during the Energy Balance Experiment 2000 in the San Joaquin Valley of California in August 2000. Flux convergence (FC; larger fluxes at 8.7 m than 2.7 m) and divergence (FD) in latent heat flux (LE) were observed in a disturbed, unstable atmospheric surface layer, and their magnitudes largely departed from the prediction of Monin-Obukhov similarity theory. From our wavelet analysis, it was identified that large eddies affected turbulence structures, scalar distribution, and flux transport differently at 8.7 m and 2.7 m under the FC and FD conditions. Using the ensemble empirical mode decomposition, time series data were decomposed into large eddies and small-scale background turbulence, the time-domain characteristics of large eddies were examined, and the flux contribution by large eddies was also determined quantitatively. The results suggest that large eddies over the frequency range of 0.002 Hz < f < 0.02 Hz (predominantly 300-400 m) enhanced the vertical velocity spectra more significantly at 8.7 m than 2.7 m, leading to an increased magnitude of the cospectra and thus LE at 8.7 m. In the FD case, however, these large eddies were not present and even suppressed in the vertical velocity spectra at 8.7 m. Consequently, the cospectra divergence over the low-frequency ranges primarily caused the LE divergence. This work implies that large eddies may either improve or degrade the surface energy balance closure by increasing or decreasing turbulent fluxes, respectively.

  4. Evolutionary divergency of giant tortoises in Gal?pagos

    Science.gov (United States)

    Fritts, T.H.

    1984-01-01

    The giant tortoises in the Galapagos Archipelago diverge considerably in size, and in shape and other carapace characteristics. The saddleback morphotype is known only from insular faunas lacking large terrestrial predators (i.e. Galapagos and Mauritius) and in Galapagos is associated with xeric habitats where vertical feeding range and vertical reach in agonistic encounters are adaptive. The large domed morphotype is associated with relatively cool, mesic habitats where intraspecific competition for food and other resources may be less intense than in xeric habitats. Other external characteristics that differ between tortoise populations are also correlated with ecological variation. Tortoises have radiated into a mosaic of ecological conditions in the Galapagos but critical data are lacking on the role of genetic and environmental controls on phenotypic variation. Morphological divergence in tortoises is potentially a better indicator of present ecological conditions than of evolutionary relationships.

  5. Divergent series, summability and resurgence II simple and multiple summability

    CERN Document Server

    Loday-Richaud, Michèle

    2016-01-01

    Addressing the question how to “sum” a power series in one variable when it diverges, that is, how to attach to it analytic functions, the volume gives answers by presenting and comparing the various theories of k-summability and multisummability. These theories apply in particular to all solutions of ordinary differential equations. The volume includes applications, examples and revisits, from a cohomological point of view, the group of tangent-to-identity germs of diffeomorphisms of C studied in volume 1. With a view to applying the theories to solutions of differential equations, a detailed survey of linear ordinary differential equations is provided which includes Gevrey asymptotic expansions, Newton polygons, index theorems and Sibuya’s proof of the meromorphic classification theorem that characterizes the Stokes phenomenon for linear differential equations. This volume is the second of a series of three entitled Divergent Series, Summability and Resurgence. It is aimed at graduate students and res...

  6. The $\\Omega$ dependence of the velocity divergence distribution

    CERN Document Server

    Bernardeau, F; Hivon, E; Bouchet, F R

    1996-01-01

    We present a series of results investigating the $\\Omega$ dependence of the distribution function of the large scale local cosmic velocity divergence. Analytical studies using perturbation theory techniques indicate that the shape of this distribution should be strongly dependent on $\\Omega$. This dependence is all the more interesting as it does not involve biases of the galaxy distribution with respect to the underlying density distribution, making it a potentially promising and useful basis for new and alternative methods to obtain bias-independent estimates of $\\Omega$. After a description of the $\\Omega$ dependent characteristics expected in the shape of the velocity divergence PDF, we study this distribution on the basis of a set of $N$-body simulations. To analyze the discretely sampled velocity field yielded by the latter, we apply a set of recently developed numerical tools, the ``Voronoi'' and ``Delaunay'' methods. These two methods were devised specifically for the purpose of investigating statisti...

  7. Perturbation Theory in Supersymmetric QED: Infrared Divergences and Gauge Invariance

    CERN Document Server

    Dine, Michael; Haber, Howard E; Haskins, Laurel Stephenson

    2016-01-01

    We study some aspects of perturbation theory in $N=1$ supersymmetric abelian gauge theories with massive charged matter. In general gauges, infrared (IR) divergences and nonlocal behavior arise in 1PI diagrams, associated with a $1/k^4$ term in the propagator for the vector superfield. We examine this structure in supersymmetric QED. The IR divergences are gauge-dependent and must cancel in physical quantities like the electron pole mass. We demonstrate that cancellation takes place in a nontrivial way, amounting to a reorganization of the perturbative series from powers of $e^2$ to powers of $e$. We also show how these complications are avoided in cases where a Wilsonian effective action can be defined.

  8. Compound liquid crystal microlens array with convergent and divergent functions.

    Science.gov (United States)

    Kang, Shengwu; Zhang, Xinyu

    2016-04-20

    Based on the common liquid crystal microlens, a new compound structure for a liquid crystal (LC) microlens array is proposed. The structure consists of two sub LC microlens arrays with properties of light divergence and convergence. The structure has two LC layers: one to form the positive sub lens, one for the negative. The patterned electrode and plane electrode are used in both sub microlens arrays. When two sub microlens arrays are electrically controlled separately, they can diverge or converge the incident light, respectively. As two sub microlens arrays are both applied on the voltage, the focal length of the compound LC microlens becomes larger than that of the LC microlens with a single LC layer. Another feature of a compound LC microlens array is that it can make the target contour become visible under intense light. The mechanisms are described in detail, and the experimental data are given. PMID:27140107

  9. Blind Deconvolution of Seismic Data Using f-Divergences

    Directory of Open Access Journals (Sweden)

    Bing Zhang

    2011-09-01

    Full Text Available This paper proposes a new approach to the seismic blind deconvolution problem in the case of band-limited seismic data characterized by low dominant frequency and short data records, based on Csiszár’s f-divergence. In order to model the probability density function of the deconvolved data, and obtain the closed form formula of Csiszár’s f-divergence, mixture Jones’ family of distributions (MJ is introduced, by which a new criterion for blind deconvolution is constructed. By applying Neidell’s wavelet model to the inverse filter, we then make the optimization program for multivariate reduce to univariate case. Examples are provided showing the good performance of the method, even in low SNR situations.

  10. Skew Divergence-Based Fuzzy Segmentation of Rock Samples

    Science.gov (United States)

    Carvalho, Bruno M.; Garduño, Edgar; Santos, Iraçú O.

    2014-03-01

    Digital image segmentation is a process in which one assigns distinct labels to different objects in a digital image. The MOFS (Multi Object Fuzzy Segmentation) algorithm has been successfully applied to the segmentation of images from several modalities. However, the traditional MOFS algorithm fails when applied to images whose composing objects are characterized by textures whose patterns cannot be successfully described by simple statistics computed over a very restricted area. Here, we present an extension of the MOFS algorithm that achieves the segmentation of textures by employing adaptive affinity functions that use the Skew Divergence as a measure of distance between two distributions. These affinity functions are called adaptive because their associated area (neighborhood) changes according to the characteristics of the texture being processed. We performed experiments on mosaic images composed by combining rock sample images which show the effectiveness of the adaptive skew divergence based fuzzy affinity functions.

  11. Content-based network model with duplication and divergence

    Science.gov (United States)

    Şengün, Yasemin; Erzan, Ayşe

    2006-06-01

    We construct a minimal content-based realization of the duplication and divergence model of genomic networks introduced by Wagner [Proc. Natl. Acad. Sci. 91 (1994) 4387] and investigate the scaling properties of the directed degree distribution and clustering coefficient. We find that the content-based network exhibits crossover between two scaling regimes, with log-periodic oscillations for large degrees. These features are not present in the original gene duplication model, but inherent in the content-based model of Balcan and Erzan. The scaling form of the degree distribution of the content-based model turns out to be robust under duplication and divergence, with some re-adjustment of the scaling exponents, while the out-clustering coefficient goes over from a weak power-law dependence on the degree, to an exponential decay under mutations which include splitting and merging of strings.

  12. Stable divergence angles of a magnetic dipole spiral array

    Energy Technology Data Exchange (ETDEWEB)

    Fan, X.D.; Bursill, L.A.

    1996-03-01

    An analytical model is introduced for Douady and Couder`s [1992] experiment, where phyllotactic patterns appear as a dynamical result of the interaction between magnetic dipoles. The difference equation for the divergence angle (i.e. the angle between successive radial vectors) is obtained by solving the equations of motion with a second nearest neighbour (SNN) approximation. A one dimensional map analysis as well as a comprehensive analytical proof shows that the divergence angle always converges to a single attractor regardless of the initial conditions. This attractor is approximately the Fibonacci angle ({approx} 138 deg) within variations due to a growth factor {mu} of the pattern. The system is proved to be stable with the SNN approximation. Further analysis with a third nearest neighbour approximation (TNN) shows extra linearly stable attractors may appear around the Lucas angle at {approx} 99.5 deg. 7 refs., 5 figs.

  13. Skew Divergence-Based Fuzzy Segmentation of Rock Samples

    International Nuclear Information System (INIS)

    Digital image segmentation is a process in which one assigns distinct labels to different objects in a digital image. The MOFS (Multi Object Fuzzy Segmentation) algorithm has been successfully applied to the segmentation of images from several modalities. However, the traditional MOFS algorithm fails when applied to images whose composing objects are characterized by textures whose patterns cannot be successfully described by simple statistics computed over a very restricted area. Here, we present an extension of the MOFS algorithm that achieves the segmentation of textures by employing adaptive affinity functions that use the Skew Divergence as a measure of distance between two distributions. These affinity functions are called adaptive because their associated area (neighborhood) changes according to the characteristics of the texture being processed. We performed experiments on mosaic images composed by combining rock sample images which show the effectiveness of the adaptive skew divergence based fuzzy affinity functions

  14. Divergence-free MHD Simulations with the HERACLES Code

    Directory of Open Access Journals (Sweden)

    Vides J.

    2013-12-01

    Full Text Available Numerical simulations of the magnetohydrodynamics (MHD equations have played a significant role in plasma research over the years. The need of obtaining physical and stable solutions to these equations has led to the development of several schemes, all requiring to satisfy and preserve the divergence constraint of the magnetic field numerically. In this paper, we aim to show the importance of maintaining this constraint numerically. We investigate in particular the hyperbolic divergence cleaning technique applied to the ideal MHD equations on a collocated grid and compare it to the constrained transport technique that uses a staggered grid to maintain the property. The methods are implemented in the software HERACLES and several numerical tests are presented, where the robustness and accuracy of the different schemes can be directly compared.

  15. A cosmopolitics of energy: diverging materialities and hesitating practices

    OpenAIRE

    Jennifer Gabrys

    2014-01-01

    Numerous proposals, analyses, and strategies now exist for materializing energy in order to influence environmental participation and reduce energy use. This paper asks how specific materialities of energy are articulated across social science and creative practice projects, and how these distinct renderings of materiality perform environmental change. Drawing on work by Stengers, the paper moves to consider the diverging materialities and speculative practices that might emerge through more ...

  16. Effect of hydrogen on beam divergence in copper bromide lasers

    International Nuclear Information System (INIS)

    Full text: The application of copper lasers to precision micro-machining and non-linear frequency conversion into the UV requires high beam quality. In the elemental Copper Vapour Laser (CVL), beam quality and output power can be improved by the addition of hydrogen halides to the flowing neon buffer gas. The sealed Ne-H2-CuBr laser has always been superior to the elemental CVL in terms of beam quality and it is a viable alternative to the latest generation of hydrogen halide CVLs for small scale machining applications by virtue of the efficiency of generating low divergence output. We present our study of variations in the beam quality of these devices with changes in hydrogen pressure. The maximum output power (∼ 14W under these pumping conditions) from this small scale laser oscillator is generated with the addition of 2% hydrogen to the neon buffer gas but the conditions for minimum amplified spontaneous emission (ASE) generation (16% of the total emission) occur with only 0.8% hydrogen. The near field beam profile at 0.8% H2 is near top-hat which minimises the far-field divergence angle and up to 88% of the (non-ASE) laser emission falls within 80μrad divergence (1.3xDL). The gain of the laser appears to be saturated after the initial ASE spike and as a result there is negligible emission during the second round trip of the resonator. The M=62 cavity is then able to reduce the divergence of the initial ASE emission to diffraction limit before the rise in gain of the main laser pulse. Copyright (1999) Australian Optical Society

  17. Compulsory education - in schools only? : divergent developments in Germany

    OpenAIRE

    Schirrmacher, Thomas

    2012-01-01

    Germany is the focus of this paper, owing to the fact that since 1938 it has had the strictest laws on compulsory schooling worldwide. As a result, homeschooling in Germany has become virtually impossible. There are interesting divergences between policy and practice in the German setting, both in the country’s educational history and present educational problems. The Länder (federal states) have the responsibility for education, and they are taking a much stricter line against homeschoolers ...

  18. Peaches tree genetic divergence for brown rot reaction

    OpenAIRE

    Américo Wagner Júnior; Keli Cristina Fabiane; Jéssica Scarlet Marth Alves de Oliveira; Juliano Zanela; Idemir Citadin

    2011-01-01

    It was evaluated the genetic divergence in peach genotypes for brown rot reaction. It was evaluated 26 and 29 peach genotypes in the 2009/2010 and 2010/2011 production cycle, respectively. The experiment was carried out at the Laboratório de Fitossanidade, da UTFPR - Campus Dois Vizinhos. The experimental design was entirely randomized, considering each peach genotype a treatment, and it was use three replication of nine fruits. The treatment control use three replication of three peach. The ...

  19. f-divergences: Sufficiency, deficiency and testing of hypotheses

    Czech Academy of Sciences Publication Activity Database

    Vajda, Igor; Liese, F.

    Toronto : Nova Publishers, 2008 - (Barnett, N.; Dragomir, S.), s. 113-149 ISBN 1-60021-943-8. - (Advances in Mathematical Inequalities) R&D Projects: GA MŠk(CZ) 1M0572 Institutional research plan: CEZ:AV0Z10750506 Keywords : divergence * sufficiency * testing errors * information gain * deficiency * exponential rate Subject RIV: BB - Applied Statistics, Operational Research http://library.utia.cas.cz/separaty/2009/SI/vajda-fdivergences sufficiency deficiency and testing of hypotheses.pdf

  20. Critical Initiation Conditions for Gaseous Diverging Spherical Detonations

    OpenAIRE

    Desbordes, D.

    1995-01-01

    The diverging spherical detonation wave in gaseous explosives is obtained either with a point source of explosion of energy E or through the transmission of a plane detonation from a cylindrical tube of diameter d into a large volume. The mechanism of detonation initiation in both cases is based on the shock to detonation transition. The experimental critical conditions lead to an initiation criterion for detonation resulting from the competition between the expansion behind the leading shock...

  1. Long-Run Cultural Divergence: Evidence From the Neolithic Revolution

    OpenAIRE

    Olsson, Ola; Paik, Christopher

    2015-01-01

    This paper investigates the long-run influence of the Neolithic Revolution on contemporary cultural norms and institutions as reflected in the imension of collectivism-individualism. We outline an agricultural origins-model of cultural divergence where we claim that the advent of farming in a core region was characterized by collectivist values and eventually triggered the out-migration of individualistic farmers towards more and more peripheral areas. This migration pattern caused the initia...

  2. Reconciling divergent estimates of oil and gas methane emissions

    OpenAIRE

    Zavala-Araiza, Daniel; Lyon, David R; Alvarez, Ramón A.; Davis, Kenneth J.; Harriss, Robert; Herndon, Scott C.; Karion, Anna; Kort, Eric Adam; Lamb, Brian K.; Lan, Xin; Marchese, Anthony J.; Pacala, Stephen W.; Robinson, Allen L.; Shepson, Paul B.; Sweeney, Colm

    2015-01-01

    Past studies reporting divergent estimates of methane emissions from the natural gas supply chain have generated conflicting claims about the full greenhouse gas footprint of natural gas. Top-down estimates based on large-scale atmospheric sampling often exceed bottom-up estimates based on source-based emission inventories. In this work, we reconcile top-down and bottom-up methane emissions estimates in one of the country’s major natural gas production basins using easily replicable measureme...

  3. Distance-dependent patterns of molecular divergences in tuatara mitogenomes

    OpenAIRE

    Subramanian, Sankar; Mohandesan, Elmira; Millar, Craig D; David M Lambert

    2015-01-01

    Population genetic models predict that populations that are geographically close to each other are expected to be genetically more similar to each other compared to those that are widely separate. However the patterns of relationships between geographic distance and molecular divergences at neutral and constrained regions of the genome are unclear. We attempted to clarify this relationship by sequencing complete mitochondrial genomes of the relic species Tuatara (Sphenodon punctatus) from ten...

  4. Divergence and convergence in early embryonic stages of metazoans

    OpenAIRE

    Galis, Frietson; Sinervo, Barry

    2002-01-01

    The early stages of organogenesis in metazoans differ drastically between higher order taxa such as phyla and classes. The segmented germ band stage in insects, the nauplius stage of crustaceans, and the neurula/pharyngula stage in vertebrates are examples of this diversification. In striking contrast with this divergence, is the similarity of these stages within these taxa, i.e., within insects, crustaceans, and vertebrates. The early stages of organogenesis, or phylotypic stages, have, thus...

  5. Chromosomal speciation and molecular divergence - Accelerated evolution in rearranged chromosomes

    OpenAIRE

    Navarro, Arcadi; Barton, Nick

    2003-01-01

    Humans and their closest evolutionary relatives, the chimpanzees, differ in ~1.24% of their genomic DNA sequences. The fraction of these changes accumulated during the speciation processes that have separated the two lineages may be of special relevance in understanding the basis of their differences. We analyzed human and chimpanzee sequence data to search for the patterns of divergence and polymorphism predicted by a theoretical model of speciation. According to the model, positively select...

  6. EVALUATION OF GENETIC DIVERGENCE IN BERSEEM (TRIFOLIUM ALEXANDRINUM L.) GERMPLASMS

    OpenAIRE

    D. M. LANGADE; C. N. RAM; D. N. VISHWAKARMA; AMITA SHARMA

    2013-01-01

    Forty germplasms of berseem were assessed for the nature and magnitude of genetic divergence based on tendifferent traits of economic importance including green forage yield per plant following Mahalanobis’s D2statistics. The germplasms were grouped into seven clusters. The grouping showed one mono-genotypic cluster(Cluster II), while others comprised of two (Cluster IV), three (Cluster III), four (Cluster V), five (Cluster VII), nine(Cluster I) and sixteen germplasms (Cluster VI). The maximu...

  7. Evidence for five divergent thioredoxin h sequences in Arabidopsis thaliana.

    OpenAIRE

    Rivera-Madrid, R.; Mestres, D; Marinho, P.; Jacquot, J P; Decottignies, P; Miginiac-Maslow, M; Meyer, Y.

    1995-01-01

    Five different clones encoding thioredoxin homologues were isolated from Arabidopsis thaliana cDNA libraries. On the basis of the sequences they encode divergent proteins, but all belong to the cytoplasmic thioredoxins h previously described in higher plants. The five proteins obtained by overexpressing the coding sequences in Escherichia coli present typical thioredoxin activities (NADP(+)-malate dehydrogenase activation and reduction by Arabidopsis thioredoxin reductase) despite the presenc...

  8. Singular divergence instability thresholds of kinematically constrained circulatory systems

    International Nuclear Information System (INIS)

    Static instability or divergence threshold of both potential and circulatory systems with kinematic constraints depends singularly on the constraints' coefficients. Particularly, the critical buckling load of the kinematically constrained Ziegler's pendulum as a function of two coefficients of the constraint is given by the Plücker conoid of degree n=2. This simple mechanical model exhibits a structural instability similar to that responsible for the Velikhov–Chandrasekhar paradox in the theory of magnetorotational instability.

  9. Investigating the interaction between schizotypy, divergent thinking and cannabis use

    OpenAIRE

    Schafer, G.; Feilding, A.; Morgan, C J; Agathangelou, M.; Freeman, T P; Valerie Curran, H.

    2012-01-01

    Cannabis acutely increases schizotypy and chronic use is associated with elevated rates of psychosis. Creative individuals have higher levels of schizotypy, however links between cannabis use, schizotypy and creativity have not been investigated. We investigated the effects of cannabis smoked naturalistically on schizotypy and divergent thinking, a measure of creativity. One hundred and sixty cannabis users were tested on 1 day when sober and another day when intoxicated with cannabis. State ...

  10. Android Malware Detection Using Kullback-Leibler Divergence

    OpenAIRE

    Vanessa N. COOPER; Hisham M. HADDAD; Hossain SHAHRIAR

    2015-01-01

    Many recent reports suggest that mareware applications cause high billing to victims by sending and receiving hidden SMS messages. Given that, there is a need to develop necessary technique to identify malicious SMS operations as well as differentiate between good and bad SMS operations within applications.In this paper, we apply Kullback-Leibler Divergence (KLD) as a distance metric to identify the difference between good and bad SMS operations. We develop a set of elements that represent se...

  11. Kullback-Leibler Divergence Approach to Partitioned Update Kalman Filter

    OpenAIRE

    Raitoharju, Matti; García-Fernández, Ángel F.; Piché, Robert

    2016-01-01

    Kalman filtering is a widely used framework for Bayesian estimation. The partitioned update Kalman filter applies a Kalman filter update in parts so that the most linear parts of measurements are applied first. In this paper, we generalize partitioned update Kalman filter, which requires the use oft the second order extended Kalman filter, so that it can be used with any Kalman filter extension. To do so, we use a Kullback-Leibler divergence approach to measure the nonlinearity of the measure...

  12. On Clustering Histograms with k-Means by Using Mixed α-Divergences

    OpenAIRE

    Frank Nielsen; Richard Nock; Shun-ichi Amari

    2014-01-01

    Clustering sets of histograms has become popular thanks to the success of the generic method of bag-of-X used in text categorization and in visual categorization applications. In this paper, we investigate the use of a parametric family of distortion measures, called the α-divergences, for clustering histograms. Since it usually makes sense to deal with symmetric divergences in information retrieval systems, we symmetrize the α -divergences using the concept of mixed divergences. Firs...

  13. Dynamics of detonations with a constant mean flow divergence

    CERN Document Server

    Borzou, Bijan

    2016-01-01

    The present work addresses the question of whether mean field macroscopic models are suitable to describe the dynamics of real cellular detonations. This question is posed in the framework of detonations with stream-tube area divergence that is kept constant, as to generate attenuated detonations in quasi-steady state. An exponential horn geometry is used, in order to keep the source term due to geometrical divergence constant in the governing equations of mean flow, and hence permit to establish steady travelling waves with constant losses. The experiments were conducted in two mixtures 2C$_2$H$_2$+5O$_2$+21Ar, characterized by a relatively weak instability, and C$_3$H$_8$+5O$_2$, characterized by a much more unstable cellular structure. The experiments demonstrated that such quasi-steady state detonations can be realized. The experiments permitted a unique detonation speed - divergence scaling laws to be developed. Quantitative comparisons were made with steady wave predictions based on the underlying chemi...

  14. Beam divergence effects on high power optical parametric oscillation

    Institute of Scientific and Technical Information of China (English)

    Li Hui-Qing; Geng Ai-Cong; Bo Yong; Wu Ling-An; Cui Da-Fu; Xu Zu-Yan

    2005-01-01

    The beam divergence effects of the input pump laser on a high power nanosecond optical parametric oscillator (OPO) have been numerically simulated. The OPO conversion efficiency is affected due to the angular deviation of real laser beams from ideal phase matching conditions. Our theoretical model is based on the decomposition of the Gaussian beam and assumes each component has a single deviation angle and thus a Particular wave vector mismatch. We take into account the variable intensity profile in the spatial and temporal domains of the Gaussian beam, the pump depletion effects for large-signal processes as well as the oscillatory effects of the three waves. Two nonlinear crystals β-BaB2O4 (BBO) and LiB3O5 (LBO) have been investigated in detail. The results indicate that the degree of beam divergence strongly influences the maximum pump intensity, optimum crystal length and OPO conversion efficiency.The impact of beam divergence is much more severe in the case of critical phase-matching for BBO than in the case of non-critical phase-matching for LBO. The results provide a way to choose the optimum parameters for a high power ns OPO such as the nonlinear material, the crystal length and the pump intensity, etc. Good agreement is obtained with our experimental results.

  15. Genetic divergence between genotypes for male and female broilers

    Directory of Open Access Journals (Sweden)

    Rogério de Carvalho Veloso

    2015-01-01

    Full Text Available ABSTRACT: The aim of this study was to verify the genetic divergence amongst three broiler genotype, from both sexes, by means of a multivariate performance analysis and carcass traits. Nine hundred and ninety sexed, one-day chicks were utilized; belonged to the following genetic groups: Cobb 500, Hubbard Flex, and Ross 308. The study evaluated the daily average weight gain, the daily average ration consumption, feed conversion, body weight, weight and performance for breast, and carcass over the period from 1 to 35, and from 1 to 42 days of age. Performance of the genetic groups was evaluated by means of multivariate analysis of variance and by Fisher's linear discriminant function, using Roy's largest eigenvalue and Roy's union-intersection test for multiple comparisons. The genetic divergence study was carried out through the analysis of canonical variables and through Tocher method. Female animals from Cobb 500, Hubbard Flex, and Ross 308 genetic groups presented different canonical averages from males of the same groups. First two canonical variables explained 88.10% of variation between genetic groups. Genetic divergence between the evaluated groups allowed formation of two clusters with the following genotypes: Cluster 1 - Cobb 500, Hubbard Flex and Ross 308 females; Cluster 2 - Cobb 500, Hubbard Flex and Ross 308 males.

  16. Peaches tree genetic divergence for brown rot reaction

    Directory of Open Access Journals (Sweden)

    Américo Wagner Júnior

    2011-10-01

    Full Text Available It was evaluated the genetic divergence in peach genotypes for brown rot reaction. It was evaluated 26 and 29 peach genotypes in the 2009/2010 and 2010/2011 production cycle, respectively. The experiment was carried out at the Laboratório de Fitossanidade, da UTFPR - Campus Dois Vizinhos. The experimental design was entirely randomized, considering each peach genotype a treatment, and it was use three replication of nine fruits. The treatment control use three replication of three peach. The fruit epidermis were inoculated individually with 0.15 mL of M. fructicola conidial suspension (1.0 x 10(5 spores mL-1. In the control treatment was sprayed with 0.15 mL of distilled water. The fruits were examined 72 and 120 hours after inoculation, and the incidence and severity disease were evaluated. These results allowed realized study for genetic divergence, used as dissimilarity measure the Generalized Mahalanobis distance. Cluster analysis using Tocher´s optimization method and distances in the plan were applied. There was smallest genetic divergence among peach trees evaluated for brown rot, what can difficult to obtain resistance in the genotypes.

  17. Bayesian-Pearson Divergence Estimator Based on Grouped Data

    Institute of Scientific and Technical Information of China (English)

    BaoxueZhang; QingxunMeng

    2004-01-01

    A new method along with Bayesian approach for estimating the parameter in the distribution function F(x; θ) by using grouped data is developed in this paper. The support of F(x;θ) is divided into disjointed intervals as -∞ = x0 < x1 <… < xk-1 divergence D(p; q) is introduced to scale the distance between the probabilities pj(θ),j = 1,..., k and the samples from the posterior distribution (Dirichlet distribution) of the probabilities. Then by minimizing the Pearson divergence D(p;q), the ‘posterior' samples of the parameter θ can be obtained, through which statistical inference including Bayesian-Pearson Divergence Estimator of the parameter can be processed. Simulations and a numerical example emt:loying this method are presented.

  18. The impact of physical exercise on convergent and divergent thinking

    Directory of Open Access Journals (Sweden)

    Lorenza S Colzato

    2013-12-01

    Full Text Available Anecdotal literature suggests that creative people sometimes use bodily movement to help overcome mental blocks and lack of inspiration. Several studies have shown that physical exercise may sometimes enhance creative thinking, but the evidence is still inconclusive. In this study we investigated whether creativity in convergent- and divergent-thinking tasks is affected by acute moderate and intense physical exercise in athletes (n=48 and non-athletes (n=48. Exercise interfered with divergent thinking in both groups. The impact on convergent thinking, the task that presumably required more cognitive control, depended on the training level: while in non-athletes performance was significantly impaired by exercise, athletes showed a benefit that approached significance. The findings suggest that acute exercise may affect both, divergent and convergent thinking. In particular, it seems to affect control-hungry tasks through exercise-induced “ego-depletion”, which however is less pronounced in individuals with higher levels of physical fitness, presumably because of the automatization of movement control, fitness-related neuroenergetic benefits, or both.

  19. Hemispheric Connectivity and the Visual-Spatial Divergent-Thinking Component of Creativity

    Science.gov (United States)

    Moore, Dana W.; Bhadelia, Rafeeque A.; Billings, Rebecca L.; Fulwiler, Carl; Heilman, Kenneth M.; Rood, Kenneth M. J.; Gansler, David A.

    2009-01-01

    Background/hypothesis: Divergent thinking is an important measurable component of creativity. This study tested the postulate that divergent thinking depends on large distributed inter- and intra-hemispheric networks. Although preliminary evidence supports increased brain connectivity during divergent thinking, the neural correlates of this…

  20. Divergência genética em genótipos de girassol Genetic divergence in sunflower genotypes

    Directory of Open Access Journals (Sweden)

    Edson Perito Amorim

    2007-12-01

    Full Text Available Uma investigação sobre a diversidade genética entre 15 genótipos de girassol, por meio de 12 características agronômicas, foi implementada no Instituto Agronômico, Campinas, Brasil. Análises de variância univariada e multivariada revelaram diferenças entre os genótipos. A distância generalizada de Mahalanobis indicou um alto grau de divergência genética. Os genótipos foram agrupados em três grupos. As características início do florescimento, 50% do florescimento, número de folhas e altura da inserção do capítulo contribuíram com grande parte da divergência genética observada. Por meio desses resultados, é possível identificar materiais divergentes e com características agronômicas complementares para o desenvolvimento de novos cultivares superiores.An investigation about the genetical diversity among fifteen sunflower genotypes using twelve agronomical characteristics was implanted at the Agronomic Institute, Campinas Brazil. Univariate and multivariate analyses of variance revealed the presence of differences among the genotypes. The generalized distance of Mahalanobis indicated the presence of genetic diversity. The genotypes were grouped into tree clusters. Among the investigated characteristics, the beginning of flowering, 50% flowering, leaf number and head height of chapter insertion exhibited high contribution towards genetic divergence. Through these studies it is possible to identify divergent material with further agronomical features for the development of new superior sunflower cultivars.

  1. Effect of multiplicity of stellar encounters and the diffusion coefficients in the uniform stellar medium: no classical divergence ?

    CERN Document Server

    Rastorguev, A S; Utkin, N D

    2016-01-01

    Agekyan lambda-factor that accounts for the effect of multiple distant encounters with large impact factors is used for the first time to compute the diffusion coefficients in the velocity space of a stellar system. It is shown that in this case the cumulative effect - the total contribution of distant encounters to the change in the velocity of the test star - is finite, and the logarithmic divergence inherent to the classical description disappears. At the same time, the formulas for the diffusion coefficients, as before, contain the logarithm of the ratio of two independent scale factors that fully characterize the state of the stellar system: the average interparticle distance and the impact parameter of a close encounter. However, the physical meaning of this factor is no longer associated with the classical logarithmic divergence.

  2. Polymorphism and divergence in the beta-globin replication origin initiation region.

    Science.gov (United States)

    Fullerton, S M; Bond, J; Schneider, J A; Hamilton, B; Harding, R M; Boyce, A J; Clegg, J B

    2000-01-01

    DNA sequence polymorphism and divergence was examined in the vicinity of the human beta-globin gene cluster origin of replication initiation region (IR), a 1.3-kb genomic region located immediately 5' of the adult-expressed beta-globin gene. DNA sequence variation in the replication origin IR and 5 kb of flanking DNA was surveyed in samples drawn from two populations, one African (from the Gambia, West Africa) and the other European (from Oxford, England). In these samples, levels of nucleotide and length polymorphism in the IR were found to be more than two times as high as adjacent non-IR-associated regions (estimates of per-nucleotide heterozygosity were 0.30% and 0.12%, respectively). Most polymorphic positions identified in the origin IR fall within or just adjacent to a 52-bp alternating purine-pyrimidine ((RY)n) sequence repeat. Within- and between-populations divergence is highest in this portion of the IR, and interspecific divergence in the same region, determined by comparison with an orthologous sequence from the chimpanzee, is also pronounced. Higher levels of diversity in this subregion are not, however, primarily attributable to slippage-mediated repeat unit changes, as nucleotide substitution contributes disproportionately to allelic heterogeneity. An estimate of helical stability in the sequenced region suggests that the hypervariable (RY)n constitutes the major DNA unwinding element (DUE) of the replication origin IR, the location at which the DNA duplex first unwinds and new strand synthesis begins. These findings suggest that the beta-globin IR experiences a higher underlying rate of neutral mutation than do adjacent genomic regions and that enzyme fidelity associated with the initiation of DNA replication at this origin may be compromised. The significance of these findings for our understanding of eukaryotic replication origin biology is discussed. PMID:10666717

  3. Recent Y chromosome divergence despite ancient origin of dioecy in poplars (Populus).

    Science.gov (United States)

    Geraldes, A; Hefer, C A; Capron, A; Kolosova, N; Martinez-Nuñez, F; Soolanayakanahally, R Y; Stanton, B; Guy, R D; Mansfield, S D; Douglas, C J; Cronk, Q C B

    2015-07-01

    All species of the genus Populus (poplar, aspen) are dioecious, suggesting an ancient origin of this trait. Despite some empirical counter examples, theory suggests that nonrecombining sex-linked regions should quickly spread, eventually becoming heteromorphic chromosomes. In contrast, we show using whole-genome scans that the sex-associated region in Populus trichocarpa is small and much younger than the age of the genus. This indicates that sex determination is highly labile in poplar, consistent with recent evidence of 'turnover' of sex-determination regions in animals. We performed whole-genome resequencing of 52 P. trichocarpa (black cottonwood) and 34 Populus balsamifera (balsam poplar) individuals of known sex. Genomewide association studies in these unstructured populations identified 650 SNPs significantly associated with sex. We estimate the size of the sex-linked region to be ~100 kbp. All SNPs significantly associated with sex were in strong linkage disequilibrium despite the fact that they were mapped to six different chromosomes (plus 3 unmapped scaffolds) in version 2.2 of the reference genome. We show that this is likely due to genome misassembly. The segregation pattern of sex-associated SNPs revealed this to be an XY sex-determining system. Estimated divergence times of X and Y haplotype sequences (6-7 Ma) are much more recent than the divergence of P. trichocarpa (poplar) and Populus tremuloides (aspen). Consistent with this, in P. tremuloides, we found no XY haplotype divergence within the P. trichocarpa sex-determining region. These two species therefore have a different genomic architecture of sex, suggestive of at least one turnover event in the recent past. PMID:25728270

  4. Detection of the density of fine particulate matter employing laser beam divergence and inertia-dependent particle motion

    Science.gov (United States)

    Schrobenhauser, R.; Strzoda, R.; Hartmann, A.; Fleischer, M.; Amann, M.-C.

    2014-10-01

    We present a miniaturized sensor setup capable of determining the density of airborne particles employing size information provided by an enhanced light-scattering intensity ratio technique and inertia-dependent particle motion. The method is based on the particle density-dependent spatial particle spreading, measured as the time of flight using a divergent laser beam. Measurement results using polystyrene latex and silica particles in a size range of 500-1,600 nm show good agreement with theoretical estimations.

  5. Rock, scissors, paper: the problem of incentives and information in traditional Chinese state and the origin of Great Divergence

    OpenAIRE

    Ma, Debin

    2011-01-01

    This article posits that the political institution of imperial China – its unitary and centralized ruling structure – is an essential determinant to China‘s long-run economic trajectory and its early modern divergence from Western Europe. Drawing on institutional economics, I demonstrate that monopoly rule, a long time-horizon and the large size of the empire could give rise to a path of low-taxation and dynastic stability in imperial China. But fundamental incentive misalignment and informat...

  6. On the Divergence-Free Condition in Godunov-Type Schemes for Ideal Magnetohydrodynamics: the Upwind Constrained Transport Method

    OpenAIRE

    Londrillo, P.; Del Zanna, L.

    2003-01-01

    We present a general framework to design Godunov-type schemes for multidimensional ideal magnetohydrodynamic (MHD) systems, having the divergence-free relation and the related properties of the magnetic field B as built-in conditions. Our approach mostly relies on the 'Constrained Transport' (CT) discretization technique for the magnetic field components, originally developed for the linear induction equation, which assures div(B)=0 and its preservation in time to within machine accuracy in a...

  7. Changes in cis-regulatory elements of a key floral regulator are associated with divergence of inflorescence architectures

    OpenAIRE

    Kusters, E.; Pina, Della, S.; Castel, R; Souer, E.; Koes, R

    2015-01-01

    Higher plant species diverged extensively with regard to the moment (flowering time) and position (inflorescence architecture) at which flowers are formed. This seems largely caused by variation in the expression patterns of conserved genes that specify floral meristem identity (FMI), rather than changes in the encoded proteins. Here, we report a functional comparison of the promoters of homologous FMI genes from Arabidopsis, petunia, tomato and Antirrhinum. Analysis of promoter-reporter cons...

  8. THE SIGNIFICANCE OF MOTOR ASYMMETRY AND HEMISPHERIC CHARACTERISTICS FOR EFFECTIVE CONVERGENT AND DIVERGENT THINKING DURING INFŒORMATION IDENTIFICATION

    OpenAIRE

    Razumnikova, O.M.; A.U. Zagainova

    2013-01-01

    Multiple regression analyses utilising time parameters have been used to investigate the relationships between hemispheric attention and motor asymmetry and the efficiency of convergent/divergent thinking during the identification of laterally presented hierarchical letters and during performance of psychometric indices of intelligence and creativity. Efficiency in convergent thinking is primarily associated with the rapid and accurate identification of information on a global level of select...

  9. Divergência genética em feijão-caupi Genetic divergence among cowpea

    Directory of Open Access Journals (Sweden)

    Adriana Rodrigues Passos

    2007-01-01

    Full Text Available Este trabalho objetivou avaliar a divergência genética entre genótipos de feijão-caupi, visando à seleção dos mais divergentes e de maior potencial produtivo para indicar como genitores em cruzamentos genéticos para futura recomendação de cultivares aos agricultores do Recôncavo Baiano. Os experimentos foram desenvolvidos na Escola de Agronomia da Universidade Federal da Bahia, Cruz das Almas (BA, utilizando-se 22 genótipos do tipo prostrado e 20 do tipo semi-ereto, dispostos em delineamento de blocos casualizados, com quatro repetições. Foram analisados os caracteres altura da planta, comprimento de vagem, massa de vagens, massa de grãos por vagem, número de grãos por vagem, massa de cem grãos, índice de grãos, produtividade de vagem e de grãos. A divergência genética foi obtida através da distância generalizada de Mahalanobis. Novas combinações gênicas promissoras podem surgir nos cruzamentos entre os genótipos TE97-309G-1, TE97-367G-3, TE97-367G-11 e TE97-430G-12 do tipo prostrado e TE97-321G-4 e TE97-404-1E-1 do tipo semi-ereto. A seleção dos genótipos TE93-244-23F-1, TE97-299G-10 e BR 17-Gurguéia tipo prostrado e os genótipos TE97-321G-4, TE97-406-2E, TE96-282-22G e EV x 91-2E-1 tipo semi-ereto demonstram superioridade para a produtividade de grãos. Os caracteres comprimento de vagem, massa de grãos por vagem e produtividade de vagens são os que mais contribuem para a divergência genética.This work aimed to evaluate the genetic divergence among cowpea genotypes, for selection of most divergent genotypes and of highest yield potential as parents in crossings as well as for future recommendation of cultivars in the reconcave region in Bahia, Brazil. The experiment was carried out Agronomy School of Universidade Federal da Bahia, Cruz das Almas, State of Bahia, using twenty two erect cowpea and twenty semi-erect cowpea genotypes, in a randomized design, with four replications. The following characters

  10. A new isolation with migration model along complete genomes infers very different divergence processes among closely related great ape species.

    Directory of Open Access Journals (Sweden)

    Thomas Mailund

    Full Text Available We present a hidden Markov model (HMM for inferring gradual isolation between two populations during speciation, modelled as a time interval with restricted gene flow. The HMM describes the history of adjacent nucleotides in two genomic sequences, such that the nucleotides can be separated by recombination, can migrate between populations, or can coalesce at variable time points, all dependent on the parameters of the model, which are the effective population sizes, splitting times, recombination rate, and migration rate. We show by extensive simulations that the HMM can accurately infer all parameters except the recombination rate, which is biased downwards. Inference is robust to variation in the mutation rate and the recombination rate over the sequence and also robust to unknown phase of genomes unless they are very closely related. We provide a test for whether divergence is gradual or instantaneous, and we apply the model to three key divergence processes in great apes: (a the bonobo and common chimpanzee, (b the eastern and western gorilla, and (c the Sumatran and Bornean orang-utan. We find that the bonobo and chimpanzee appear to have undergone a clear split, whereas the divergence processes of the gorilla and orang-utan species occurred over several hundred thousands years with gene flow stopping quite recently. We also apply the model to the Homo/Pan speciation event and find that the most likely scenario involves an extended period of gene flow during speciation.

  11. Bayesian classification of residues associated with protein functional divergence: Arf and Arf-like GTPases

    Directory of Open Access Journals (Sweden)

    Neuwald Andrew F

    2010-12-01

    explore mechanisms underlying GTP hydrolysis, nucleotide exchange and interswitch toggling within Arf/Arl GTPases. More generally, it illustrates how the mcBPPS sampler can complement traditional evolutionary analyses by providing an objective, quantitative and statistically rigorous way to explore protein functional-divergence in molecular detail. Because the sampler classifies the input sequences at the same time, it can be used to generate subgroup profiles, in which functionally-divergent categories of residues are annotated automatically. Reviewers This article was reviewed by Frank Eisenhaber, L Aravind and Daniel Gaston (nominated by Eric Bapteste. For the full reviews, go to the Reviewers' comments section.

  12. The complete plastid genome sequence of Welwitschia mirabilis: an unusually compact plastome with accelerated divergence rates

    Directory of Open Access Journals (Sweden)

    Boore Jeffrey L

    2008-05-01

    Full Text Available Abstract Background Welwitschia mirabilis is the only extant member of the family Welwitschiaceae, one of three lineages of gnetophytes, an enigmatic group of gymnosperms variously allied with flowering plants or conifers. Limited sequence data and rapid divergence rates have precluded consensus on the evolutionary placement of gnetophytes based on molecular characters. Here we report on the first complete gnetophyte chloroplast genome sequence, from Welwitschia mirabilis, as well as analyses on divergence rates of protein-coding genes, comparisons of gene content and order, and phylogenetic implications. Results The chloroplast genome of Welwitschia mirabilis [GenBank: EU342371] is comprised of 119,726 base pairs and exhibits large and small single copy regions and two copies of the large inverted repeat (IR. Only 101 unique gene species are encoded. The Welwitschia plastome is the most compact photosynthetic land plant plastome sequenced to date; 66% of the sequence codes for product. The genome also exhibits a slightly expanded IR, a minimum of 9 inversions that modify gene order, and 19 genes that are lost or present as pseudogenes. Phylogenetic analyses, including one representative of each extant seed plant lineage and based on 57 concatenated protein-coding sequences, place Welwitschia at the base of all seed plants (distance, maximum parsimony or as the sister to Pinus (the only conifer representative in a monophyletic gymnosperm clade (maximum likelihood, bayesian. Relative rate tests on these gene sequences show the Welwitschia sequences to be evolving at faster rates than other seed plants. For these genes individually, a comparison of average pairwise distances indicates that relative divergence in Welwitschia ranges from amounts about equal to other seed plants to amounts almost three times greater than the average for non-gnetophyte seed plants. Conclusion Although the basic organization of the Welwitschia plastome is typical, its

  13. The taxonomic position and the unexpected divergence of the Habu viper, Protobothrops among Japanese subtropical islands.

    Science.gov (United States)

    Shibata, Hiroki; Chijiwa, Takahito; Hattori, Shosaku; Terada, Koki; Ohno, Motonori; Fukumaki, Yasuyuki

    2016-08-01

    paraphyly of the taxon, P. flavoviridis. In contrast, we observed a distinct lineage of the two specimens from the Yaeyama Islands, supporting the validity of the taxon, P. elegans as an independent species. By MCMC method, we estimated the divergence time between the Amami Clade and the Okinawa Clade to be 6.51MYA, suggesting that the vicariance of the two clades preceded the geological separation of the Amami Islands and the Okinawa Islands (∼1.5MYA). As expected from the limited mobility of terrestrial reptiles including snakes, we observed high genetic divergence in Habu mtDNA among Japanese subtropical island populations. PMID:27132943

  14. Evolutionary divergence of the APETALA1 and CAULIFLOWER proteins

    Institute of Scientific and Technical Information of China (English)

    Bin WANG; Ning ZHANG; Chun-Ce GUO; Gui-Xia XU; Hong-Zhi KONG; Hong-Yan SHAN

    2012-01-01

    APETALA1 (AP1) and CAULIFLOWER (CAL) are apair of paralogous genes that were generated through the pre-Brassicaceae whole-genome duplication event.AP1 and CAL have both partially redundant and unique functions.Previous studies have shown that the K and C regions of their proteins are essential for the functional divergence.However,which differences in these regions are the major contributors and how the differences were accumulated remain unknown.In the present study,we compared the sequences of the two proteins and identified five gaps and 55 amino acid replacements between them.Investigation of genomic sequences further indicated that the differences in the proteins were caused by non-synonymous substitutions and changes in exon-intron structures.Reconstruction of three-dimensional structures revealed that the sequence divergence of AP1 and CAL has resulted in differences between the two in terms of the number,length,position and orientation of α-helices,especially in the K and C regions.Comparisons of sequences and three-dimensional structures of ancestral proteins with AP1 and CAL suggest that the ancestral AP1 protein experienced fewer changes,whereas the ancestral CAL protein accumulated more changes shortly after gene duplication,relative to their common ancestor.Thereafter,AP1-like proteins experienced few mutations,whereas CAL-like proteins were not conserved until the diversification of the Brassicaceae lineage Ⅰ.This indicates that AP1- and CAL-like proteins evolved asymmetrically after gene duplication.These findings provide new insights into the functional divergence of AP1 and CAL genes.

  15. Generalization of entropy based divergence measures for symbolic sequence analysis.

    Directory of Open Access Journals (Sweden)

    Miguel A Ré

    Full Text Available Entropy based measures have been frequently used in symbolic sequence analysis. A symmetrized and smoothed form of Kullback-Leibler divergence or relative entropy, the Jensen-Shannon divergence (JSD, is of particular interest because of its sharing properties with families of other divergence measures and its interpretability in different domains including statistical physics, information theory and mathematical statistics. The uniqueness and versatility of this measure arise because of a number of attributes including generalization to any number of probability distributions and association of weights to the distributions. Furthermore, its entropic formulation allows its generalization in different statistical frameworks, such as, non-extensive Tsallis statistics and higher order Markovian statistics. We revisit these generalizations and propose a new generalization of JSD in the integrated Tsallis and Markovian statistical framework. We show that this generalization can be interpreted in terms of mutual information. We also investigate the performance of different JSD generalizations in deconstructing chimeric DNA sequences assembled from bacterial genomes including that of E. coli, S. enterica typhi, Y. pestis and H. influenzae. Our results show that the JSD generalizations bring in more pronounced improvements when the sequences being compared are from phylogenetically proximal organisms, which are often difficult to distinguish because of their compositional similarity. While small but noticeable improvements were observed with the Tsallis statistical JSD generalization, relatively large improvements were observed with the Markovian generalization. In contrast, the proposed Tsallis-Markovian generalization yielded more pronounced improvements relative to the Tsallis and Markovian generalizations, specifically when the sequences being compared arose from phylogenetically proximal organisms.

  16. Evolution of cichlid vision via trans-regulatory divergence

    Directory of Open Access Journals (Sweden)

    O’Quin Kelly E

    2012-12-01

    Full Text Available Abstract Background Phenotypic evolution may occur through mutations that affect either the structure or expression of protein-coding genes. Although the evolution of color vision has historically been attributed to structural mutations within the opsin genes, recent research has shown that opsin regulatory mutations can also tune photoreceptor sensitivity and color vision. Visual sensitivity in African cichlid fishes varies as a result of the differential expression of seven opsin genes. We crossed cichlid species that express different opsin gene sets and scanned their genome for expression Quantitative Trait Loci (eQTL responsible for these differences. Our results shed light on the role that different structural, cis-, and trans-regulatory mutations play in the evolution of color vision. Results We identified 11 eQTL that contribute to the divergent expression of five opsin genes. On three linkage groups, several eQTL formed regulatory “hotspots” associated with the expression of multiple opsins. Importantly, however, the majority of the eQTL we identified (8/11 or 73% occur on linkage groups located trans to the opsin genes, suggesting that cichlid color vision has evolved primarily via trans-regulatory divergence. By modeling the impact of just two of these trans-regulatory eQTL, we show that opsin regulatory mutations can alter cichlid photoreceptor sensitivity and color vision at least as much as opsin structural mutations can. Conclusions Combined with previous work, we demonstrate that the evolution of cichlid color vision results from the interplay of structural, cis-, and especially trans-regulatory loci. Although there are numerous examples of structural and cis-regulatory mutations that contribute to phenotypic evolution, our results suggest that trans-regulatory mutations could contribute to phenotypic divergence more commonly than previously expected, especially in systems like color vision, where compensatory changes in the

  17. Genetic divergence in popcorn lines detected by microsatellite

    OpenAIRE

    Thatiana Silva Dandolini; Carlos Alberto Scapim; Antônio Teixeira do Amaral Júnior; Claudete Aparecida Mangolin; Maria de Fátima Pires da Silva Machado; Andressa de Souza Mott; Ana Daniela Lopes

    2008-01-01

    The purpose of this study was to use microsatellite markers to evaluate the genetic divergence in 10 popcornlines. The number of alleles per locus ranged from 2 to 5. The proportion of polymorphic loci was highest (50%) in lineCuragua, while Zélia II was the most monomorphic (100%). The arithmetic complement of similarity of Roger and Tanimotofor the 10 lines indicated lower genetic similarity between the lines Zélia II and Avati Pichinga I and higher similarity betweenZélia I and Zélia II. T...

  18. On the Divergence in Unionism among Developed Countries

    OpenAIRE

    Richard B. Freeman

    1989-01-01

    In this paper I explore the evolution of unionism in the 1970n and 1980s, when the post-oil shock world economy created a "crisis of unionism" throughout the western world. I try to explain why union representation of work forces fell in some countries but not in others and contrast union responses to the challenge of the period. I find that: -- Rates of unionization diverged greatly among developed countries -- The composition of union members shifted from private sector blue collar workers ...

  19. Porous waveguide facilitated low divergence quantum cascade laser*

    Institute of Scientific and Technical Information of China (English)

    Yin Wen; Lu Quanyong; Liu Wannfeng; Zhang Jinchuan; Wang Lijun; Liu Junqi; Li Lu; Liu Fengqi; Wang Zhanguo

    2011-01-01

    A quantum cscade laser with a porous waveguide structure emitting at 4.5 μm is reported. A branchlike porous structure filled with metal material was fabricated on both sides of the laser ridge by an electrochemical etching process. In contrast to the common ridge waveguide laser, devices with a porous structure give rather better beam quality. Utilizing this porous structure as a high-order mode absorber, the device exhibited fundamental transverse mode emission with a nearly diffraction limited far-field beam divergence angle of 4.9°.

  20. Divergent IR gluon propagator from Ward-Slavnov-Taylor identities?

    CERN Document Server

    Boucaud, P; Lokhov, A Y; Micheli, J; Pène, O; Rodríguez-Quintero, J; Roiesnel, C; Yaouanc, A L; Boucaud, Ph.

    2007-01-01

    We exploit the Ward-Slavnov-Taylor identity relating the 3-gluons to the ghost-gluon vertices to conclude either that the ghost dressing function is finite and non vanishing at zero momentum while the gluon propagator diverges (although it may do so weakly enough not to be in contradiction with current lattice data) or that the 3-gluons vertex is non-regular when one momentum goes to zero. We stress that those results should be kept in mind when one studies the Infrared properties of the ghost and gluon propagators, for example by means of Dyson-Schwinger equations.

  1. Porous waveguide facilitated low divergence quantum cascade laser

    International Nuclear Information System (INIS)

    A quantum cascade laser with a porous waveguide structure emitting at 4.5 μm is reported. A branchlike porous structure filled with metal material was fabricated on both sides of the laser ridge by an electrochemical etching process. In contrast to the common ridge waveguide laser, devices with a porous structure give rather better beam quality. Utilizing this porous structure as a high-order mode absorber, the device exhibited fundamental transverse mode emission with a nearly diffraction limited far-field beam divergence angle of 4.90. (semiconductor devices)

  2. Porous waveguide facilitated low divergence quantum cascade laser

    Energy Technology Data Exchange (ETDEWEB)

    Yin Wen; Lu Quanyong; Liu Wanfeng; Zhang Jinchuan; Wang Lijun; Liu Junqi; Li Lu; Liu Fengqi; Wang Zhanguo, E-mail: fqliu@semi.ac.cn [Key Laboratory of Semiconductor Materials Science, Institute of Semiconductors, Chinese Academy of Sciences, Beijing 100083 (China)

    2011-06-15

    A quantum cascade laser with a porous waveguide structure emitting at 4.5 {mu}m is reported. A branchlike porous structure filled with metal material was fabricated on both sides of the laser ridge by an electrochemical etching process. In contrast to the common ridge waveguide laser, devices with a porous structure give rather better beam quality. Utilizing this porous structure as a high-order mode absorber, the device exhibited fundamental transverse mode emission with a nearly diffraction limited far-field beam divergence angle of 4.9{sup 0}. (semiconductor devices)

  3. The divergent autoencoder (DIVA) model of category learning.

    Science.gov (United States)

    Kutrz, Kenneth J

    2007-08-01

    A novel theoretical approach to human category learning is proposed in which categories are represented as coordinated statistical models of the properties of the members. Key elements of the account are learning to recode inputs as task-constrained principle components and evaluating category membership in terms of model fit-that is, the fidelity of the reconstruction after recoding and decoding the stimulus. The approach is implemented as a computational model called DIVA (for DIVergent Autoencoder), an artificial neural network that uses reconstructive learning to solve N-way classification tasks. DIVA shows good qualitative fits to benchmark human learning data and provides a compelling theoretical alternative to established models. PMID:17972718

  4. Cancellation of Infrared Divergence in Inclusive Production of Heavy Quarkonia

    CERN Document Server

    Zhou, Gao-Liang

    2015-01-01

    A scheme is presented here to cancel out the topologically unfactorized infrared divergences in the inclusive production of heavy quarkonia, which affect the NRQCD factorization of these processes. The heavy quarkonia are defined as resonance states of QCD instead of color singlet heavy quark pair. Thus the final heavy quark pair is nor necessarily to be color singlet. In addition, the heavy quarkonia are reconstructed by their decay products. As the result, transition between states containing containing heavy quarks caused by exchanges of soft gluons are also taken into account here. Such cancellation is crucial for the NRQCD factorization of these processes.

  5. Behaviour modelling of two aluminas in divergent spherical pyrotechnical experiments

    International Nuclear Information System (INIS)

    Two pure aluminas of different characteristics have been subjected to the propagation of a longitudinal divergent spherical shock wave through pyrotechnical experiments. An approach combining a phenomenological analysis and numerical 1D-calculations is proposed to study the behaviour of these aluminas submitted to that type of wave loading. The modelling, proposed in a previous paper, is refined and gives satisfying experimentation-calculation correlations. An analysis of the influence exerted by the various encountered phenomena (plastic activity, pore closure, microcracking) is performed. The significant consequence of the activation of damage with an extension criterion is also underlined. (orig.)

  6. Ultraviolet divergences, repulsive forces and a spherical plasma shell

    International Nuclear Information System (INIS)

    We discuss the vacuum energy of the electromagnetic field interacting with a spherical plasma shell together with a model for the classical motion of the shell. We discuss the ultraviolet divergences in terms of the heat kernel coefficients. Using these, we carry out the renormalization by redefining the parameters of the classical model. It turns out that this is possible and that the resulting model has a vacuum energy which changes sign in dependence on the parameters of the plasma shell. In the limit of the plasma shell becoming an ideal conductor the vacuum energy found by Boyer in 1968 is reproduced.

  7. La langue de la bourse : convergences et divergences

    OpenAIRE

    Catherine RESCHE

    2013-01-01

    La langue de la bourse, langue de spécialité, est à la fois une langue technique et une langue imagée, empruntant largement à la langue commune, avec des parallélismes frappants en français et en anglais sur le plan des métaphores. La terminologie comparée permet d’établir méthodiquement les convergences et de faire ressortir les divergences et fait le constat des néologismes réussis et des erreurs de la normalisation forcée.

  8. Genetic Divergence Studies in Guava ( Psidium guajava L.)

    OpenAIRE

    B.R.Jana, P.S.Munsi, D.C.Manna, H.Sarkar and Bikash Das

    2015-01-01

    Thirty-two guava cultivars were studied for genetic divergence (Ward’s minimum variance method) on the basis of growth and yield. Thirty two germplasm were distributed into six clusters. Cluster II was largest having eleven genotypes and was nearest to cluster III (28.200) and farthest to cluster VI (82.786). The maximum inter cluster distance was between cluster IV and cluster VI (222.411). Cluster VI had high mean cluster value for fruit set per cent in rainy and winter seasons and chloroph...

  9. Convergence of Contrastive Divergence Algorithm in Exponential Family

    OpenAIRE

    Wu, Tung-yu; Jiang, Bai; Jin, Yifan; Wong, Wing H.

    2016-01-01

    This paper studies the convergence properties of contrastive divergence algorithm for parameter inference in exponential family, by relating it to Markov chain theory and stochastic stability literature. We prove that, under mild conditions and given a finite data sample $X_1,\\dots,X_n \\sim p_{\\theta^*}$ i.i.d. in an event with probability approaching to 1, the sequence $\\{\\theta_t\\}_{t \\ge 0}$ generated by CD algorithm is a positive Harris recurrent chain, and thus processes an unique invari...

  10. Aeroelastic divergence modeled by means of the stochastic resonance

    Czech Academy of Sciences Publication Activity Database

    Náprstek, Jiří; Pospíšil, Stanislav

    Brno : Brno University of Technology. Institute of Solid Mechanics, Mechatronics and Biomechanics, 2014 - (Fuis, V.), s. 420-423 ISBN 978-80-214-4871-1. ISSN 1805-8248. [Engineering Mechanics 2014 /20./. Svratka (CZ), 12.05.2014-15.05.2014] R&D Projects: GA ČR(CZ) GC13-34405J Institutional support: RVO:68378297 Keywords : stochastic resonance * interwell hopping * non-linear vibration * aeroelastic divergence Subject RIV: JM - Building Engineering http://www.itam.cas.cz/?pid=5

  11. Juvenile skeletogenesis in anciently diverged sea urchin clades.

    Science.gov (United States)

    Gao, Feng; Thompson, Jeffrey R; Petsios, Elizabeth; Erkenbrack, Eric; Moats, Rex A; Bottjer, David J; Davidson, Eric H

    2015-04-01

    Mechanistic understanding of evolutionary divergence in animal body plans devolves from analysis of those developmental processes that, in forms descendant from a common ancestor, are responsible for their morphological differences. The last common ancestor of the two extant subclasses of sea urchins, i.e., euechinoids and cidaroids, existed well before the Permian/Triassic extinction (252 mya). Subsequent evolutionary divergence of these clades offers in principle a rare opportunity to solve the developmental regulatory events underlying a defined evolutionary divergence process. Thus (i) there is an excellent and fairly dense (if yet incompletely analyzed) fossil record; (ii) cladistically confined features of the skeletal structures of modern euechinoid and cidaroid sea urchins are preserved in fossils of ancestral forms; (iii) euechinoids and cidaroids are among current laboratory model systems in molecular developmental biology (here Strongylocentrotus purpuratus [Sp] and Eucidaris tribuloides [Et]); (iv) skeletogenic specification in sea urchins is uncommonly well understood at the causal level of interactions of regulatory genes with one another, and with known skeletogenic effector genes, providing a ready arsenal of available molecular tools. Here we focus on differences in test and perignathic girdle skeletal morphology that distinguish all modern euechinoid from all modern cidaroid sea urchins. We demonstrate distinct canonical test and girdle morphologies in juveniles of both species by use of SEM and X-ray microtomography. Among the sharply distinct morphological features of these clades are the internal skeletal structures of the perignathic girdle to which attach homologous muscles utilized for retraction and protraction of Aristotles׳ lantern and its teeth. We demonstrate that these structures develop de novo between one and four weeks after metamorphosis. In order to study the underlying developmental processes, a method of section whole mount in

  12. The role of vibrations in population divergence in the red mason bee, Osmia bicornis.

    Science.gov (United States)

    Conrad, Taina; Ayasse, Manfred

    2015-11-01

    Differences in female preference for certain male characteristics can be a driving force for population divergence and speciation [1-4]. During precopulation, females of the red mason bee, Osmia bicornis, choose suitable males based on, among other criteria, their thoracic vibrations [5]. These vibrations are thought to be a signal of a male's fitness with females choosing the strongest males that can vibrate for the longest time [5]. The precise role of such vibrational signals, however, has not been determined by bioassays, and the vibrations might also play a role in species recognition [6]. There are two main subspecies of O. bicornis in Europe distinguishable only by a single morphological trait [7] (Figure S1). We therefore developed a new bioassay allowing us to impose the vibrations of one live male onto another in order to discern possible selective mate choice by females from O. bicornis originating from different regions of Europe. Females showed strong preference for males from their own region, and male vibrations were the main signal involved in this choice. Thus, vibrational signals encode not only fitness but also information about the region of origin indicating that divergence exists between the different European O. bicornis populations, which might ultimately lead to speciation. These results provide new insights into the scope of vibrational communication in bees, a group previously considered to rely predominantly on chemical signals [8, 9]. Our newly developed method should shed further light on many exciting questions concerning vibrational communication in bees and other animal taxa. PMID:26592342

  13. Scl binds to primed enhancers in mesoderm to regulate hematopoietic and cardiac fate divergence.

    Science.gov (United States)

    Org, Tõnis; Duan, Dan; Ferrari, Roberto; Montel-Hagen, Amelie; Van Handel, Ben; Kerényi, Marc A; Sasidharan, Rajkumar; Rubbi, Liudmilla; Fujiwara, Yuko; Pellegrini, Matteo; Orkin, Stuart H; Kurdistani, Siavash K; Mikkola, Hanna Ka

    2015-03-12

    Scl/Tal1 confers hemogenic competence and prevents ectopic cardiomyogenesis in embryonic endothelium by unknown mechanisms. We discovered that Scl binds to hematopoietic and cardiac enhancers that become epigenetically primed in multipotent cardiovascular mesoderm, to regulate the divergence of hematopoietic and cardiac lineages. Scl does not act as a pioneer factor but rather exploits a pre-established epigenetic landscape. As the blood lineage emerges, Scl binding and active epigenetic modifications are sustained in hematopoietic enhancers, whereas cardiac enhancers are decommissioned by removal of active epigenetic marks. Our data suggest that, rather than recruiting corepressors to enhancers, Scl prevents ectopic cardiogenesis by occupying enhancers that cardiac factors, such as Gata4 and Hand1, use for gene activation. Although hematopoietic Gata factors bind with Scl to both activated and repressed genes, they are dispensable for cardiac repression, but necessary for activating genes that enable hematopoietic stem/progenitor cell development. These results suggest that a unique subset of enhancers in lineage-specific genes that are accessible for regulators of opposing fates during the time of the fate decision provide a platform where the divergence of mutually exclusive fates is orchestrated. PMID:25564442

  14. On the origin of Lake Malawi cichlid species: a population genetic analysis of divergence.

    Science.gov (United States)

    Won, Yong-Jin; Sivasundar, Arjun; Wang, Yong; Hey, Jody

    2005-05-01

    The cichlid fishes of Lake Malawi are famously diverse. However, phylogenetic and population genetic studies of their history have been difficult because of the great amount of genetic variation that is shared between species. We apply a recently developed method for fitting the "isolation with migration" divergence model to a data set of specially designed compound loci to develop portraits of cichlid species divergence. Outgroup sequences from a cichlid from Lake Tanganyika permit model parameter estimates in units of years and effective population sizes. Estimated speciation times range from 1,000 to 17,000 years for species in the genus Tropheops. These exceptionally recent dates suggest that Malawi cichlids as a group experience a very active and dynamic diversification process. Current effective population size estimates range form 2,000 to near 40,000, and to >120,000 for estimates of ancestral population sizes. It appears that very recent speciation and gene flow are among the reasons why it has been difficult to discern the phylogenetic history of Malawi cichlids. PMID:15851665

  15. On the advantage of a divergence-free velocity interpolation for particle-in

    Science.gov (United States)

    Wang, Hongliang; Agrusta, Roberto; van Hunen, Jeroen

    2015-04-01

    The Particle-in-cell (PIC) method is found to be the most flexible and robust method to model the geodynamic problems with chemical heterogeneity. The initial equally distributed particles, however, can disperse and cluster due to the inaccuracy of the particle velocity interpolation. Our models with analytical solution show this problem is independent of the choice of numerical stokes solver. Instead, it is caused by the fact that the different components of the velocity field are interpolated independently without considering the divergence of the velocity.By introducing a conservative velocity interpolation (divergence free for incompressible flow), our model results demonstrate that the dispersion and clustering of the particles are significantly reduced both in steady state flow problems and time-dependent flow problems. The new interpolation is able to maintain a more steady number of particles in any computation cell, without the need for very high particle densities or re-seeding during the calculation.Our results show that this method improves the particle distribution when used in common geodynamic settings with sharp viscosity such as subduction dynamics and lithosphere dynamics, both in 2D and 3D. Thus, the potential application of this improved particle displacement method and its extension in compressible flow is very promising.

  16. Divergence date estimation and a comprehensive molecular tree of extant cetaceans.

    Science.gov (United States)

    McGowen, Michael R; Spaulding, Michelle; Gatesy, John

    2009-12-01

    Cetaceans are remarkable among mammals for their numerous adaptations to an entirely aquatic existence, yet many aspects of their phylogeny remain unresolved. Here we merged 37 new sequences from the nuclear genes RAG1 and PRM1 with most published molecular data for the group (45 nuclear loci, transposons, mitochondrial genomes), and generated a supermatrix consisting of 42,335 characters. The great majority of these data have never been combined. Model-based analyses of the supermatrix produced a solid, consistent phylogenetic hypothesis for 87 cetacean species. Bayesian analyses corroborated odontocete (toothed whale) monophyly, stabilized basal odontocete relationships, and completely resolved branching events within Mysticeti (baleen whales) as well as the problematic speciose clade Delphinidae (oceanic dolphins). Only limited conflicts relative to maximum likelihood results were recorded, and discrepancies found in parsimony trees were very weakly supported. We utilized the Bayesian supermatrix tree to estimate divergence dates among lineages using relaxed-clock methods. Divergence estimates revealed rapid branching of basal odontocete lineages near the Eocene-Oligocene boundary, the antiquity of river dolphin lineages, a Late Miocene radiation of balaenopteroid mysticetes, and a recent rapid radiation of Delphinidae beginning approximately 10 million years ago. Our comprehensive, time-calibrated tree provides a powerful evolutionary tool for broad-scale comparative studies of Cetacea. PMID:19699809

  17. Complex Selection on Human Polyadenylation Signals Revealed by Polymorphism and Divergence Data

    Science.gov (United States)

    Kainov, Yaroslav A.; Aushev, Vasily N.; Naumenko, Sergey A.; Tchevkina, Elena M.; Bazykin, Georgii A.

    2016-01-01

    Polyadenylation is a step of mRNA processing which is crucial for its expression and stability. The major polyadenylation signal (PAS) represents a nucleotide hexamer that adheres to the AATAAA consensus sequence. Over a half of human genes have multiple cleavage and polyadenylation sites, resulting in a great diversity of transcripts differing in function, stability, and translational activity. Here, we use available whole-genome human polymorphism data together with data on interspecies divergence to study the patterns of selection acting on PAS hexamers. Common variants of PAS hexamers are depleted of single nucleotide polymorphisms (SNPs), and SNPs within PAS hexamers have a reduced derived allele frequency (DAF) and increased conservation, indicating prevalent negative selection; at the same time, the SNPs that “improve” the PAS (i.e., those leading to higher cleavage efficiency) have increased DAF, compared to those that “impair” it. SNPs are rarer at PAS of “unique” polyadenylation sites (one site per gene); among alternative polyadenylation sites, at the distal PAS and at exonic PAS. Similar trends were observed in DAFs and divergence between species of placental mammals. Thus, selection permits PAS mutations mainly at redundant and/or weakly functional PAS. Nevertheless, a fraction of the SNPs at PAS hexamers likely affect gene functions; in particular, some of the observed SNPs are associated with disease. PMID:27324920

  18. PT-symmetry breaking with divergent potentials: lattice and continuum cases

    CERN Document Server

    Joglekar, Yogesh N; Saxena, Avadh

    2014-01-01

    We investigate the parity- and time-reversal ($\\mathcal{PT}$)-symmetry breaking in lattice models in the presence of long-ranged, non-hermitian, $\\mathcal{PT}$-symmetric potentials that remain finite or become divergent in the continuum limit. By scaling analysis of the fragile $\\mathcal{PT}$ threshold for an open finite lattice, we show that continuum loss-gain potentials $V_\\alpha(x)\\propto i |x|^\\alpha \\mathrm{sign}(x)$ have a positive $\\mathcal{PT}$-breaking threshold for $\\alpha>-2$, and a zero threshold for $\\alpha\\leq -2$. When $\\alpha<0$ localized states with complex (conjugate) energies in the continuum energy-band occur at higher loss-gain strengths. We investigate the signatures of $\\mathcal{PT}$-symmetry breaking in coupled waveguides, and show that the emergence of localized states dramatically shortens the relevant time-scale in the $\\mathcal{PT}$-symmetry broken region.

  19. On calculation of quasi-two-dimensional divergence-free projections for visualization of three-dimensional incompressible flows

    CERN Document Server

    Gelfgat, Alexander

    2015-01-01

    A visualization of three-dimensional incompressible flows by divergence-free quasi-two-dimensional projections of the velocity field on three coordinate planes was recently proposed. The projections were calculated using divergence-free Galerkin bases, which resulted in the whole procedure being complicated and CPU-time consuming. Here we propose an alternative way based on the Chorin projection combined with a SIMPLE-like iteration. The approach proposed is much easier in realization, allows for faster computations, and can be generalized for arbitrary curvilinear orthogonal coordinates. To illustrate the visualization method, examples of flow visualization in cylindrical and spherical coordinates, as well as post-processing of experimental 3D-PTV data are presented.

  20. Divergence of a stereotyped call in northern resident killer whales.

    Science.gov (United States)

    Grebner, Dawn M; Parks, Susan E; Bradley, David L; Miksis-Olds, Jennifer L; Capone, Dean E; Ford, John K B

    2011-02-01

    Northern resident killer whale pods (Orcinus orca) have distinctive stereotyped pulsed call repertoires that can be used to distinguish groups acoustically. Repertoires are generally stable, with the same call types comprising the repertoire of a given pod over a period of years to decades. Previous studies have shown that some discrete pulsed calls can be subdivided into variants or subtypes. This study suggests that new stereotyped calls may result from the gradual modification of existing call types through subtypes. Vocalizations of individuals and small groups of killer whales were collected using a bottom-mounted hydrophone array in Johnstone Strait, British Columbia in 2006 and 2007. Discriminant analysis of slope variations of a predominant call type, N4, revealed the presence of four distinct call subtypes. Similar to previous studies, there was a divergence of the N4 call between members of different matrilines of the same pod. However, this study reveals that individual killer whales produced multiple subtypes of the N4 call, indicating that divergence in the N4 call is not the result of individual differences, but rather may indicate the gradual evolution of a new stereotyped call. PMID:21361462

  1. Factor analysis models via I-divergence optimization.

    Science.gov (United States)

    Finesso, Lorenzo; Spreij, Peter

    2016-09-01

    Given a positive definite covariance matrix [Formula: see text] of dimension n, we approximate it with a covariance of the form [Formula: see text], where H has a prescribed number [Formula: see text] of columns and [Formula: see text] is diagonal. The quality of the approximation is gauged by the I-divergence between the zero mean normal laws with covariances [Formula: see text] and [Formula: see text], respectively. To determine a pair (H, D) that minimizes the I-divergence we construct, by lifting the minimization into a larger space, an iterative alternating minimization algorithm (AML) à la Csiszár-Tusnády. As it turns out, the proper choice of the enlarged space is crucial for optimization. The convergence of the algorithm is studied, with special attention given to the case where D is singular. The theoretical properties of the AML are compared to those of the popular EM algorithm for exploratory factor analysis. Inspired by the ECME (a Newton-Raphson variation on EM), we develop a similar variant of AML, called ACML, and in a few numerical experiments, we compare the performances of the four algorithms. PMID:26608962

  2. Performance evaluation of advanced industrial SPECT system with diverging collimator

    International Nuclear Information System (INIS)

    An advanced industrial SPECT system with 12-fold-array diverging collimator was developed for flow visualization in industrial reactors and was discussed in the previous study. The present paper describes performance evaluation of the SPECT system under both static- and dynamic- flow conditions. Under static conditions, the movement of radiotracer inside the test reactor was compared with that of color tracer (blue ink) captured with a high-speed camera. The comparison of the reconstructed images obtained with the radiotracer and the SPECT system showed fairly good agreement with video-frames of the color tracer obtained with the camera. Based on the results of the performance evaluation, it is concluded that the SPECT system is suitable for investigation and visualization of flows in industrial flow reactors. - Highlights: • Industrial SPECT system provides the flow behavior of industrial multiphase processes. • A 12-fold-array industrial SPECT system was constructed using diverging collimators. • The constructed system turned out to be very suitable to examine the fluid behavior

  3. User Profile Creation Using Genetic Algorithm with Kullback Leibler Divergence

    Science.gov (United States)

    Hidekazu, Yanagimoto; Sigeru, Omatu

    In this paper we propose a user profile creation method using the Kullback Leibler divergence. To cope with information flood, many information filtering systems have been developed up to now. In the information filtering systems it is important to create a user profile which represents user's interests correctly. Since almost all information filtering systems are developed with techniques of information retrieval, machine learning, and pattern recognition, they often use a linear function as a discriminant function. To classify information in the field of document classification more precisely, the systems have been reported which use a non-linear function as a discriminant function. The proposed method is to use the Kullback Leibler divergence as a discriminant function which denotes to user's interest in the information filtering system. To identify an optimal discriminat function with documents which a user evaluates, we use the real-coded genetic algorithm. We compare the present method with the other one using a linear discriminant function and confirm the effectiveness of the proposing method.

  4. Marker-aided genetic divergence analysis in Brassica

    Indian Academy of Sciences (India)

    V. Arunachalam; Shefali Verma; V. Sujata; K. V. Prabhu

    2005-08-01

    Genetic divergence was evaluated in 31 breeding lines from four Brassica species using Mahalanobis’ $D^{2}$. A new method of grouping using $D^{2}$ values was used to group the 31 lines, based on diagnostic morphological traits (called morphoqts). Isozyme variation of the individual enzymes esterase and glutamate oxaloacetate was quantified by five parameters (called isoqts) developed earlier. Grouping by the same method was also done based on the isoqts, and the grouping by isozymes was compared with that by morphoqts. Overall, there was an agreement of 73% suggesting that isoqts can be used in the choice of parents and also first stage selection of segregants in the laboratory. It was suggested that such an exercise would help to take care of season-bound and field-related problems of breeding. The new isozyme QTs, within lane variance of relative mobility and relative absorption, accounted for about 50% of the total divergence. The utility of the new method and isoqts in cost-effective breeding were highlighted.

  5. Gene duplication and divergence affecting drug content in Cannabis sativa.

    Science.gov (United States)

    Weiblen, George D; Wenger, Jonathan P; Craft, Kathleen J; ElSohly, Mahmoud A; Mehmedic, Zlatko; Treiber, Erin L; Marks, M David

    2015-12-01

    Cannabis sativa is an economically important source of durable fibers, nutritious seeds, and psychoactive drugs but few economic plants are so poorly understood genetically. Marijuana and hemp were crossed to evaluate competing models of cannabinoid inheritance and to explain the predominance of tetrahydrocannabinolic acid (THCA) in marijuana compared with cannabidiolic acid (CBDA) in hemp. Individuals in the resulting F2 population were assessed for differential expression of cannabinoid synthase genes and were used in linkage mapping. Genetic markers associated with divergent cannabinoid phenotypes were identified. Although phenotypic segregation and a major quantitative trait locus (QTL) for the THCA/CBDA ratio were consistent with a simple model of codominant alleles at a single locus, the diversity of THCA and CBDA synthase sequences observed in the mapping population, the position of enzyme coding loci on the map, and patterns of expression suggest multiple linked loci. Phylogenetic analysis further suggests a history of duplication and divergence affecting drug content. Marijuana is distinguished from hemp by a nonfunctional CBDA synthase that appears to have been positively selected to enhance psychoactivity. An unlinked QTL for cannabinoid quantity may also have played a role in the recent escalation of drug potency. PMID:26189495

  6. Genetic divergence and stability analysis in Pigeonpea (Cajanus cajan L.

    Directory of Open Access Journals (Sweden)

    Ch.Sreelakshmi, D.Shivani and C.V.Sameer Kumar

    2010-07-01

    Full Text Available Thirty Pigeonpea genotypes studied for genetic divergence using Mahalanobis D2 statistic indicated wider genetic diversity.Considerable variability was observed for days to 50% flowering, days to maturity, plant height, number of pods per plantand seed yield due to non-linear pooled deviation. The variability was low for number of primary branches per plant and testweight. Among the 7 characters studied, seed yield contributed the most (89.49% towards the divergence of genotypesfollowed by number of pods per plant, days to 50% flowering and plant height. The genotypes were grouped into 8 clusters,maximum inter cluster distance being observed between the clusters III and VII (725.69. Hence, crossing of parents fromthese clusters would be desirable for combining earliness, short plant height, more primary branches per plant with more podnumber coupled with high seed yield. The genotypes ICPL 98008, ICPHAL 4979-2 and ICP 77303 were identified asdesirable and stable for days to maturity. Stability parameters along with per se performance across three kharif seasonsrevealed that ICPL 20036 and ICPL 20058 were stable genotypes for seed yield and were found to be suitable for low inputcultivation while, ICPL 13198 was found suitable for input rich cultivation.

  7. Thermodynamic Study on Plasma Expansion along a Divergent Magnetic Field

    Science.gov (United States)

    Zhang, Yunchao; Charles, Christine; Boswell, Rod

    2016-01-01

    Thermodynamic properties are revisited for electrons that are governed by nonlocal electron energy probability functions in a plasma of low collisionality. Measurements in a laboratory helicon double layer experiment have shown that the effective electron temperature and density show a polytropic correlation with an index of γe=1.17 ±0.02 along the divergent magnetic field, implying a nearly isothermal plasma (γe=1 ) with heat being brought into the system. However, the evolution of electrons along the divergent magnetic field is essentially an adiabatic process, which should have a γe=5/3 . The reason for this apparent contradiction is that the nearly collisionless plasma is very far from local thermodynamic equilibrium and the electrons behave nonlocally. The corresponding effective electron enthalpy has a conservation relation with the potential energy, which verifies that there is no heat transferred into the system during the electron evolution. The electrons are shown in nonlocal momentum equilibrium under the electric field and the gradient of the effective electron pressure. The convective momentum of ions, which can be assumed as a cold species, is determined by the effective electron pressure and the effective electron enthalpy is shown to be the source for ion acceleration. For these nearly collisionless plasmas, the use of traditional thermodynamic concepts can lead to very erroneous conclusions regarding the thermal conductivity.

  8. Selection and geographic isolation influence hummingbird speciation: genetic, acoustic and morphological divergence in the wedge-tailed sabrewing (Campylopterus curvipennis

    Directory of Open Access Journals (Sweden)

    Ornelas Juan

    2011-02-01

    Full Text Available Abstract Background Mesoamerica is one of the most threatened biodiversity hotspots in the world, yet we are far from understanding the geologic history and the processes driving population divergence and speciation for most endemic taxa. In species with highly differentiated populations selective and/or neutral factors can induce rapid changes to traits involved in mate choice, promoting reproductive isolation between allopatric populations that can eventually lead to speciation. We present the results of genetic differentiation, and explore drift and selection effects in promoting acoustic and morphological divergence among populations of Campylopterus curvipennis, a lekking hummingbird with an extraordinary vocal variability across Mesoamerica. Results Analyses of two mitochondrial genes and ten microsatellite loci genotyped for 160 individuals revealed the presence of three lineages with no contemporary gene flow: C. c. curvipennis, C. c. excellens, and C. c. pampa disjunctly distributed in the Sierra Madre Oriental, the Tuxtlas region and the Yucatan Peninsula, respectively. Sequence mtDNA and microsatellite data were congruent with two diversification events: an old vicariance event at the Isthmus of Tehuantepec (c. 1.4 Ma, and a more recent Pleistocene split, isolating populations in the Tuxtlas region. Hummingbirds of the excellens group were larger, and those of the pampa group had shorter bills, and lineages that have been isolated the longest shared fewer syllables and differed in spectral and temporal traits of a shared syllable. Coalescent simulations showed that fixation of song types has occurred faster than expected under neutrality but the null hypothesis that morphological divergence resulted from drift was not rejected. Conclusions Our phylogeographic analyses uncovered the presence of three Mesoamerican wedge-tailed sabrewing lineages, which diverged at different time scales. These results highlight the importance of the

  9. Single nucleotide polymorphisms unravel hierarchical divergence and signatures of selection among Alaskan sockeye salmon (Oncorhynchus nerka populations

    Directory of Open Access Journals (Sweden)

    Habicht Christopher

    2011-02-01

    Full Text Available Abstract Background Disentangling the roles of geography and ecology driving population divergence and distinguishing adaptive from neutral evolution at the molecular level have been common goals among evolutionary and conservation biologists. Using single nucleotide polymorphism (SNP multilocus genotypes for 31 sockeye salmon (Oncorhynchus nerka populations from the Kvichak River, Alaska, we assessed the relative roles of geography (discrete boundaries or continuous distance and ecology (spawning habitat and timing driving genetic divergence in this species at varying spatial scales within the drainage. We also evaluated two outlier detection methods to characterize candidate SNPs responding to environmental selection, emphasizing which mechanism(s may maintain the genetic variation of outlier loci. Results For the entire drainage, Mantel tests suggested a greater role of geographic distance on population divergence than differences in spawn timing when each variable was correlated with pairwise genetic distances. Clustering and hierarchical analyses of molecular variance indicated that the largest genetic differentiation occurred between populations from distinct lakes or subdrainages. Within one population-rich lake, however, Mantel tests suggested a greater role of spawn timing than geographic distance on population divergence when each variable was correlated with pairwise genetic distances. Variable spawn timing among populations was linked to specific spawning habitats as revealed by principal coordinate analyses. We additionally identified two outlier SNPs located in the major histocompatibility complex (MHC class II that appeared robust to violations of demographic assumptions from an initial pool of eight candidates for selection. Conclusions First, our results suggest that geography and ecology have influenced genetic divergence between Alaskan sockeye salmon populations in a hierarchical manner depending on the spatial scale. Second

  10. Evolution of metabolic divergence in Pseudomonas aeruginosa during long-term infection facilitates a proto-cooperative interspecies interaction

    DEFF Research Database (Denmark)

    Frydenlund Michelsen, Charlotte; Khademi, Seyed Mohammad Hossein; Johansen, Helle Krogh;

    2016-01-01

    host-adapted strain, DK2-P2M24-2003, and S. aureus. In this study, characterization by matrix-assisted laser desorption ionization-time of flight (MALDI-TOF) imaging mass spectrometry (IMS) and mass spectral (MS) molecular networking revealed a significant metabolic divergence between P. aeruginosa PAO...

  11. Divergência genética entre cultivares de caupi Genetic divergence among cultivars of cowpea

    Directory of Open Access Journals (Sweden)

    Francisco José de Oliveira

    2003-05-01

    Full Text Available O objetivo deste trabalho foi quantificar a divergência genética de cultivares de caupi, agrupadas por análise multivariada visando à seleção de parentais superiores. Foram utilizadas 16 cultivares de caupi [Vigna unguiculata (L. Walp.] do banco de germoplasma do Centro de Ciências Agrárias da Universidade Federal do Ceará. As observações fenotípicas foram realizadas num ensaio com delineamento experimental em blocos completos casualizados, com seis blocos e 16 tratamentos, incluindo três testemunhas, com parcela experimental de 24 m² e área útil de 16 m², sendo quatro fileiras de plantas, com espaços de 1,0 x 0,5 m, contendo duas plantas por cova. Para mensurar os caracteres fenotípicos, cinco plantas competitivas, localizadas nas duas fileiras centrais da parcela, foram tomadas ao acaso. Os cruzamentos entre os grupos I [TVx-337-3F e Vita-4 (TVu 1977-OD] e II (Bengala e V-4 Alagoas podem resultar em produção de novas combinações gênicas, por serem divergentes e reunirem maior número de caracteres agronomicamente desejáveis. Os caracteres que mais contribuem para divergência genética são o comprimento da vagem (36,80% e o peso de 100 sementes (19,21%.This work aimed to determine the genetic divergence among cowpea cultivars [Vigna unguiculata (L. Walp.] when grouped in a multivariate analysis concerning to select superior parents. So 16 cowpea cultivars were used from the germplasm bank of the Centro de Ciências Agrárias of the Universidade Federal do Ceará, in Brazil. The data were accomplished in complete randomized blocks, with six blocks, 16 treatments and three cultivar checks. The total area of experimental plots was 24 m² and the net area was 16 m², displayed in four rows, plants were spaced about 1.0 x 0.5 m with two plants in each plot. The phenotypic data were estimated from five competitive plants as casual samples on two central rows of each replicate. Breeding among the groups I [TVx-337-3F and

  12. Magnetohydrodynamic electrical power generation using convexly divergent channel: II. Numerical simulation

    Energy Technology Data Exchange (ETDEWEB)

    Murakami, Tomoyuki; Okuno, Yoshihiro, E-mail: murakami@es.titech.ac.jp [Department of Energy Sciences, Tokyo Institute of Technology, 4259, Nagatsuta, Midori-ku, Yokohama 226-8502 (Japan)

    2011-05-11

    We describe quasi-three-dimensional numerical calculations based on large eddy simulation model for magnetohydrodynamic (MHD) electrical power generators equipped with modified wall configurations. The wall profile of the MHD channel is finely tuned in four types of geometry, that is, a concavely divergent channel, a linearly divergent channel, a convexly divergent channel and a highly convexed channel. The plasma-fluid properties and energy conversion efficiency are examined in detail. Although the deterioration in the plasma-fluid behaviour is not completely overcome, the advantages of the convexly divergent channel are notable. The convexly divergent channel exhibits the highest energy conversion performance, which is followed by the highly convexed, linearly and concavely divergent channels in order. The effect of the channel geometry modification on the generator performance is clearly quantified using a convexity parameter. This paper is the second part of a duology.

  13. Magnetohydrodynamic electrical power generation using convexly divergent channel: II. Numerical simulation

    Science.gov (United States)

    Murakami, Tomoyuki; Okuno, Yoshihiro

    2011-05-01

    We describe quasi-three-dimensional numerical calculations based on large eddy simulation model for magnetohydrodynamic (MHD) electrical power generators equipped with modified wall configurations. The wall profile of the MHD channel is finely tuned in four types of geometry, that is, a concavely divergent channel, a linearly divergent channel, a convexly divergent channel and a highly convexed channel. The plasma-fluid properties and energy conversion efficiency are examined in detail. Although the deterioration in the plasma-fluid behaviour is not completely overcome, the advantages of the convexly divergent channel are notable. The convexly divergent channel exhibits the highest energy conversion performance, which is followed by the highly convexed, linearly and concavely divergent channels in order. The effect of the channel geometry modification on the generator performance is clearly quantified using a convexity parameter. This paper is the second part of a duology.

  14. Water Transparency Drives Intra-Population Divergence in Eurasian Perch (Perca fluviatilis)

    OpenAIRE

    Pia Bartels; Hirsch, Philipp E; Richard Svanbäck; Peter Eklöv

    2012-01-01

    Trait combinations that lead to a higher efficiency in resource utilization are important drivers of divergent natural selection and adaptive radiation. However, variation in environmental features might constrain foraging in complex ways and therefore impede the exploitation of critical resources. We tested the effect of water transparency on intra-population divergence in morphology of Eurasian perch (Perca fluviatilis) across seven lakes in central Sweden. Morphological divergence between ...

  15. Reduced Contrast Medical Image Estimation using Information Divergence Measure based on Iterative Algorithms

    OpenAIRE

    Arash Kalami

    2014-01-01

    We proposed a new information divergence measure, referred to as divergence, which satisfies the requirements. A decision map is then generated by applying the divergence to measure the coherenceof sourceactivity maps at the pixel level. We further segment the decision map into two regions. It is the set of pixels whose activity patterns are similar in all the sourceimages, while it is the set of pixels whose activity patterns are different. Our fusionscheme is to find the solution for optimi...

  16. Divergence of gene body DNA methylation and evolution of plant duplicate genes.

    Directory of Open Access Journals (Sweden)

    Jun Wang

    Full Text Available It has been shown that gene body DNA methylation is associated with gene expression. However, whether and how deviation of gene body DNA methylation between duplicate genes can influence their divergence remains largely unexplored. Here, we aim to elucidate the potential role of gene body DNA methylation in the fate of duplicate genes. We identified paralogous gene pairs from Arabidopsis and rice (Oryza sativa ssp. japonica genomes and reprocessed their single-base resolution methylome data. We show that methylation in paralogous genes nonlinearly correlates with several gene properties including exon number/gene length, expression level and mutation rate. Further, we demonstrated that divergence of methylation level and pattern in paralogs indeed positively correlate with their sequence and expression divergences. This result held even after controlling for other confounding factors known to influence the divergence of paralogs. We observed that methylation level divergence might be more relevant to the expression divergence of paralogs than methylation pattern divergence. Finally, we explored the mechanisms that might give rise to the divergence of gene body methylation in paralogs. We found that exonic methylation divergence more closely correlates with expression divergence than intronic methylation divergence. We show that genomic environments (e.g., flanked by transposable elements and repetitive sequences of paralogs generated by various duplication mechanisms are associated with the methylation divergence of paralogs. Overall, our results suggest that the changes in gene body DNA methylation could provide another avenue for duplicate genes to develop differential expression patterns and undergo different evolutionary fates in plant genomes.

  17. Accumulating pyramid spatial-spectral collaborative coding divergence for hyperspectral anomaly detection

    Science.gov (United States)

    Sun, Hao; Zou, Huanxin; Zhou, Shilin

    2016-03-01

    Detection of anomalous targets of various sizes in hyperspectral data has received a lot of attention in reconnaissance and surveillance applications. Many anomaly detectors have been proposed in literature. However, current methods are susceptible to anomalies in the processing window range and often make critical assumptions about the distribution of the background data. Motivated by the fact that anomaly pixels are often distinctive from their local background, in this letter, we proposed a novel hyperspectral anomaly detection framework for real-time remote sensing applications. The proposed framework consists of four major components, sparse feature learning, pyramid grid window selection, joint spatial-spectral collaborative coding and multi-level divergence fusion. It exploits the collaborative representation difference in the feature space to locate potential anomalies and is totally unsupervised without any prior assumptions. Experimental results on airborne recorded hyperspectral data demonstrate that the proposed methods adaptive to anomalies in a large range of sizes and is well suited for parallel processing.

  18. Right-Handed Neutrino Production at Finite Temperature: Radiative Corrections, Soft and Collinear Divergences

    CERN Document Server

    Garbrecht, Bjorn; Herranen, Matti

    2013-01-01

    The production and decay rate of massive sterile neutrinos at finite temperature receives next-to-leading order corrections from the gauge interactions of lepton and Higgs doublets. Using the Closed-Time-Path approach, we demonstrate that the perturbatively obtained inclusive rate is finite. For this purpose, we show that soft, collinear and Bose divergences cancel when adding the tree-level rates from 13 and 22 processes to vertex and wave-function corrections to 12 processes. These results hold for a general momentum of the sterile neutrino with respect to the plasma frame. Moreover, they do not rely on non-relativistic approximations, such that the full quantum-statistical effects are accounted for to the given order in perturbation theory. While the neutrino production rate is of relevance for Leptogenesis, the proposed methods may as well be suitable for application to a more general class of relativistic transport phenomena.

  19. Specificity and divergence in the neurobiologic effects of different metallothioneins after brain injury

    DEFF Research Database (Denmark)

    Penkowa, Milena; Tio, Laura; Giralt, Mercedes;

    2006-01-01

    . All the recombinant proteins showed similar neuroprotective properties to native MT-II, significantly reducing brain inflammation (macrophages, T cells, and pro-inflammatory cytokines), oxidative stress, neurodegeneration, and apoptosis. These results in principle do not support specific protein......-protein interactions as the mechanism underlying the neuroprotective effects of these proteins because a non-homologous and structurally unrelated MT such as Drosophila MTN functions similarly to mammalian MTs. We have also evaluated for the first time the neurobiologic effects of exogenous MT-III, a major CNS MT...... isoform. Human rMT-III, in contrast to human nMT-IIa, did not affect inflammation, oxidative stress, and apoptosis, and showed opposite effects on several growth factors, neurotrophins, and markers of synaptic growth and plasticity. Our data thus highlight specific and divergent roles of exogenous MT...

  20. f-divergence cutoff index to simultaneously identify differential expression in the integrated transcriptome and proteome.

    Science.gov (United States)

    Tang, Shaojun; Hemberg, Martin; Cansizoglu, Ertugrul; Belin, Stephane; Kosik, Kenneth; Kreiman, Gabriel; Steen, Hanno; Steen, Judith

    2016-06-01

    The ability to integrate 'omics' (i.e. transcriptomics and proteomics) is becoming increasingly important to the understanding of regulatory mechanisms. There are currently no tools available to identify differentially expressed genes (DEGs) across different 'omics' data types or multi-dimensional data including time courses. We present fCI (f-divergence Cut-out Index), a model capable of simultaneously identifying DEGs from continuous and discrete transcriptomic, proteomic and integrated proteogenomic data. We show that fCI can be used across multiple diverse sets of data and can unambiguously find genes that show functional modulation, developmental changes or misregulation. Applying fCI to several proteogenomics datasets, we identified a number of important genes that showed distinctive regulation patterns. The package fCI is available at R Bioconductor and http://software.steenlab.org/fCI/. PMID:26980280

  1. [Ontogenetic Mechanisms of Explosive Morphological Divergence in the Lake Tana (Ethiopia) Species Flock of Large African Barbs (Labeobarbus; Cyprinidae; Teleostei)].

    Science.gov (United States)

    Shkila, F N; Lazebny, O E; Kapitanova, D V; Abdissa, Belay; Borisov, V B; Smirnov, S V

    2015-01-01

    Species flock of Lake Tana (Ethiopia) large African barbs (Labeobarbus; Cyprinidae; Teleostei) was studied as a model system for investigating ontogenetic mechanisms of the explosive morphological divergence often accompanying sympatric speciation in bony fishes. Comparative morphological analysis carried out with the use ofgeometric morphometric techniques revealed quantitative differences in the head shapes of species under study. Comparative analysis of skull development revealed significant interspecies differences in the temporal characteristics of craniogenesis in these species. These two lines of evidence suggest that heterochronies in craniogenesis underlie divergence in the head shapes of adult Tana barbs. This prediction was verified via experimental changes of temporal characteristics of craniogenesis in L. intermedius, a putative ancestor for the Lake Tana species flock. For this aim, timing and rate of skull development were changed by artificial manipulation of thyroid hormone levels. In sum, it was shown that it is heterochronies that underlie an explosive morphological divergence of the Lake Tana barbs species flock. Our findings together with those reported in the literature suggest variability in the activity of the hypothalamic-pituitary-thyroid axis to contribute to these heterochronies. PMID:26606829

  2. Changes in cis-regulatory elements of a key floral regulator are associated with divergence of inflorescence architectures.

    Science.gov (United States)

    Kusters, Elske; Della Pina, Serena; Castel, Rob; Souer, Erik; Koes, Ronald

    2015-08-15

    Higher plant species diverged extensively with regard to the moment (flowering time) and position (inflorescence architecture) at which flowers are formed. This seems largely caused by variation in the expression patterns of conserved genes that specify floral meristem identity (FMI), rather than changes in the encoded proteins. Here, we report a functional comparison of the promoters of homologous FMI genes from Arabidopsis, petunia, tomato and Antirrhinum. Analysis of promoter-reporter constructs in petunia and Arabidopsis, as well as complementation experiments, showed that the divergent expression of leafy (LFY) and the petunia homolog aberrant leaf and flower (ALF) results from alterations in the upstream regulatory network rather than cis-regulatory changes. The divergent expression of unusual floral organs (UFO) from Arabidopsis, and the petunia homolog double top (DOT), however, is caused by the loss or gain of cis-regulatory promoter elements, which respond to trans-acting factors that are expressed in similar patterns in both species. Introduction of pUFO:UFO causes no obvious defects in Arabidopsis, but in petunia it causes the precocious and ectopic formation of flowers. This provides an example of how a change in a cis-regulatory region can account for a change in the plant body plan. PMID:26220938

  3. A Δ11 desaturase gene genealogy reveals two divergent allelic classes within the European corn borer (Ostrinia nubilalis

    Directory of Open Access Journals (Sweden)

    Harrison Richard G

    2010-04-01

    Full Text Available Abstract Background Moth pheromone mating systems have been characterized at the molecular level, allowing evolutionary biologists to study how changes in protein sequence or gene expression affect pheromone phenotype, patterns of mating, and ultimately, the formation of barriers to gene exchange. Recent studies of Ostrinia pheromones have focused on the diversity of sex pheromone desaturases and their role in the specificity of pheromone production. Here we produce a Δ11 desaturase genealogy within Ostrinia nubilalis. We ask what has been the history of this gene, and whether this history suggests that changes in Δ11 desaturase have been involved in the divergence of the E and Z O. nubilalis pheromone strains. Results The Δ11 desaturase gene genealogy does not differentiate O. nubilalis pheromone strains. However, we find two distinct clades, separated by 2.9% sequence divergence, that do not sort with pheromone strain, geographic origin, or emergence time. We demonstrate that these clades do not represent gene duplicates, but rather allelic variation at a single gene locus. Conclusions Analyses of patterns of variation at the Δ11 desaturase gene in ECB suggest that this enzyme does not contribute to reproductive isolation between pheromone strains (E and Z. However, our genealogy reveals two deeply divergent allelic classes. Standing variation at loci that contribute to mate choice phenotypes may permit novel pheromone mating systems to arise in the presence of strong stabilizing selection.

  4. A Divergence Statistics Extension to VTK for Performance Analysis.

    Energy Technology Data Exchange (ETDEWEB)

    Pebay, Philippe Pierre; Bennett, Janine Camille

    2015-02-01

    This report follows the series of previous documents ([PT08, BPRT09b, PT09, BPT09, PT10, PB13], where we presented the parallel descriptive, correlative, multi-correlative, principal component analysis, contingency, k -means, order and auto-correlative statistics engines which we developed within the Visualization Tool Kit ( VTK ) as a scalable, parallel and versatile statistics package. We now report on a new engine which we developed for the calculation of divergence statistics, a concept which we hereafter explain and whose main goal is to quantify the discrepancy, in a stasticial manner akin to measuring a distance, between an observed empirical distribution and a theoretical, "ideal" one. The ease of use of the new diverence statistics engine is illustrated by the means of C++ code snippets. Although this new engine does not yet have a parallel implementation, it has already been applied to HPC performance analysis, of which we provide an example.

  5. Divergence model for measurement of Goos-Hanchen shift

    Science.gov (United States)

    Gray, Jeffrey Frank

    In this effort a new measurement technique for the lateral Goos-Hanchen shift is developed, analyzed, and demonstrated. The new technique uses classical image formation methods fused with modern detection and analysis methods to achieve higher levels of sensitivity than obtained with prior practice. Central to the effort is a new mathematical model of the dispersion seen at a step shadow when the Goos-Hanchen effect occurs near critical angle for total internal reflection. Image processing techniques are applied to measure the intensity distribution transfer function of a new divergence model of the Goos-Hanchen phenomena providing verification of the model. This effort includes mathematical modeling techniques, analytical derivations of governing equations, numerical verification of models and sensitivities, optical design of apparatus, image processing. Keywords--Goos-Hanchen, total internal reflection, evanescent waves, image processing, Canny filters, sub-pixel, Superresolution.

  6. Evaluations versus expectations: children's divergent beliefs about resource distribution.

    Science.gov (United States)

    Dejesus, Jasmine M; Rhodes, Marjorie; Kinzler, Katherine D

    2014-01-01

    Past research reveals a tension between children's preferences for egalitarianism and ingroup favoritism when distributing resources to others. Here we investigate how children's evaluations and expectations of others' behaviors compare. Four- to 10-year-old children viewed events where individuals from two different groups distributed resources to their own group, to the other group, or equally across groups. Groups were described within a context of intergroup competition over scarce resources. In the Evaluation condition, children were asked to evaluate which resource distribution actions were nicer. In the Expectation condition, children were asked to predict which events were more likely to occur. With age, children's evaluations and expectations of others' actions diverged: Children evaluated egalitarian actions as nicer yet expected others to behave in ways that benefit their own group. Thus, children's evaluations about the way human social actors should behave do not mirror their expectations concerning those individuals' actions. PMID:24117730

  7. Diverging Fortunes: Recent Developments in Income Inequality across Russian Regions

    Directory of Open Access Journals (Sweden)

    Christian Mahler

    2011-04-01

    Full Text Available Russia’s regions have been experiencing increasing inequality in per capita income after transition, with spatial inequality accounting for one-third of total inequality which constitutes the highest level of spatial inequality within Europe (Yemtsov. While inequality is not uncommon in large and versatile countries with heterogeneous ethnicities and vast differences in economic capability (Gerry and Mickiewicz, the entrenchment of inequality poses questions regarding the ability and intent of Russian institutions in tackling this divergence. Much research has been done on the issue of inequality in Russia in recent years; this paper will discuss the causes that drive increasing spatial inequality after the transition from command to market economy, and will look at the more recent developments and trends in spatial inequality in Russia.

  8. Optimism in Reinforcement Learning Based on Kullback-Leibler Divergence

    CERN Document Server

    Filippi, Sarah; Garivier, Aurélien

    2010-01-01

    We consider model-based reinforcement learning in finite Markov Decision Processes (MDPs), focussing on so-called optimistic strategies. Optimism is usually implemented by carrying out extended value iterations, under a constraint of consistency with the estimated model transition probabilities. In this paper, we strongly argue in favor of using the Kullback-Leibler (KL) divergence for this purpose. By study- ing the linear maximization problem under KL constraints, we provide an efficient algorithm for solving KL-optimistic extended value iteration. When implemented within the structure of UCRL2, the near-optimal method introduced by [Auer et al, 2008], this algorithm also achieves bounded regrets in the undiscounted case. We however provide some geometric arguments as well as a concrete illustration on a simulated example to explain the observed improved practical behavior, particularly when the MDP has reduced connectivity. To analyze this new algorithm, termed KL-UCRL, we also rely on recent deviation bou...

  9. Domestication and Divergence of Saccharomyces cerevisiae Beer Yeasts.

    Science.gov (United States)

    Gallone, Brigida; Steensels, Jan; Prahl, Troels; Soriaga, Leah; Saels, Veerle; Herrera-Malaver, Beatriz; Merlevede, Adriaan; Roncoroni, Miguel; Voordeckers, Karin; Miraglia, Loren; Teiling, Clotilde; Steffy, Brian; Taylor, Maryann; Schwartz, Ariel; Richardson, Toby; White, Christopher; Baele, Guy; Maere, Steven; Verstrepen, Kevin J

    2016-09-01

    Whereas domestication of livestock, pets, and crops is well documented, it is still unclear to what extent microbes associated with the production of food have also undergone human selection and where the plethora of industrial strains originates from. Here, we present the genomes and phenomes of 157 industrial Saccharomyces cerevisiae yeasts. Our analyses reveal that today's industrial yeasts can be divided into five sublineages that are genetically and phenotypically separated from wild strains and originate from only a few ancestors through complex patterns of domestication and local divergence. Large-scale phenotyping and genome analysis further show strong industry-specific selection for stress tolerance, sugar utilization, and flavor production, while the sexual cycle and other phenotypes related to survival in nature show decay, particularly in beer yeasts. Together, these results shed light on the origins, evolutionary history, and phenotypic diversity of industrial yeasts and provide a resource for further selection of superior strains. PAPERCLIP. PMID:27610566

  10. Acceptance and Divergence from Engineering Design Procedures Implicating Knowledge Flow

    DEFF Research Database (Denmark)

    Jensen, Ole Kjeldal; Ahmed, Saeema

    2009-01-01

    When developing procedures such as tools, methods and frameworks to support the development of new products, one of the challenges is ensuring their successful implementation. This paper describes a study of the development and use of such design-procedures with primary focus on the new product...... development process-model, its supporting methods and handling of knowledge. Semi-structured interviews with 20 participants have been carried out to understand the use of procedures. All the interviews were conducted in a company, which develops large complex equipment for oil rigs. The findings suggest that...... a complex understanding of procedures and reasons for divergence needs to be adopted, where implicit as well as explicit procedures are recognised and managed. Three distinct types of implicit procedures were uncovered through the study: 1) historical implicit procedures; 2) social interpretations...

  11. Ultraviolet divergences in non-renormalizable supersymmetric theories

    CERN Document Server

    Smilga, A V

    2016-01-01

    We present a pedagogical review of our current understanding of the ultraviolet structure of N = (1,1) 6D supersymmetric Yang-Mills theory and of N = 8 4D supergravity. These theories are not renormalizable, they involve power ultraviolet divergences and, in all probability, an infinite set of higher-dimensional counterterms that contribute to on-mass-shell scattering amplitudes. A specific feature of supersymmetric theories (especially, of extended supersymmetric theories) is that these counterterms may not be invariant off shell under the full set of supersymmetry transformations. The lowest-dimensional nontrivial counterterm is supersymmetric on shell. Still higher counterterms may lose even the on-shell invariance. On the other hand, the full effective Lagrangian, generating the amplitudes and representing an infinite sum of counterterms, still enjoys the complete symmetry of original theory. We also discuss simple supersymmetric quantum-mechanical models that exhibit the same behaviour.

  12. Agreements and Divergences in German Idealism: Regarding the Publication

    Directory of Open Access Journals (Sweden)

    Hugo Ochoa

    2011-12-01

    Full Text Available The history of German Idealism is marked by points of agreement and divergence among those who attempted to complete a task that might have remained unfinished in terms of its first formulations and that would lead to the definitive constitution of philosophy. In this sense, the correspondence among Kant, Fichte, Schelling, and Hegel makes it possible to unravel, to some extent, the non-explicitassumptions underlying the systems of these thinkers, since it reveals the questions,objectives, initial formulations, discussions, and differences that would later acquire a systematic structure. This article attempts to show how despite the intention of these philosophers to remain faithful to an original impulse, that allegedfidelity was based on essential misunderstandings.

  13. Microfluidic converging/diverging channels optimised for homogeneous extensional deformation.

    Science.gov (United States)

    Zografos, K; Pimenta, F; Alves, M A; Oliveira, M S N

    2016-07-01

    In this work, we optimise microfluidic converging/diverging geometries in order to produce constant strain-rates along the centreline of the flow, for performing studies under homogeneous extension. The design is examined for both two-dimensional and three-dimensional flows where the effects of aspect ratio and dimensionless contraction length are investigated. Initially, pressure driven flows of Newtonian fluids under creeping flow conditions are considered, which is a reasonable approximation in microfluidics, and the limits of the applicability of the design in terms of Reynolds numbers are investigated. The optimised geometry is then used for studying the flow of viscoelastic fluids and the practical limitations in terms of Weissenberg number are reported. Furthermore, the optimisation strategy is also applied for electro-osmotic driven flows, where the development of a plug-like velocity profile allows for a wider region of homogeneous extensional deformation in the flow field. PMID:27478523

  14. Microfluidic converging/diverging channels optimised for homogeneous extensional deformation

    Science.gov (United States)

    Zografos, K.; Oliveira, M. S. N.

    2016-01-01

    In this work, we optimise microfluidic converging/diverging geometries in order to produce constant strain-rates along the centreline of the flow, for performing studies under homogeneous extension. The design is examined for both two-dimensional and three-dimensional flows where the effects of aspect ratio and dimensionless contraction length are investigated. Initially, pressure driven flows of Newtonian fluids under creeping flow conditions are considered, which is a reasonable approximation in microfluidics, and the limits of the applicability of the design in terms of Reynolds numbers are investigated. The optimised geometry is then used for studying the flow of viscoelastic fluids and the practical limitations in terms of Weissenberg number are reported. Furthermore, the optimisation strategy is also applied for electro-osmotic driven flows, where the development of a plug-like velocity profile allows for a wider region of homogeneous extensional deformation in the flow field.

  15. Sparse Coding on Symmetric Positive Definite Manifolds Using Bregman Divergences.

    Science.gov (United States)

    Harandi, Mehrtash T; Hartley, Richard; Lovell, Brian; Sanderson, Conrad

    2016-06-01

    This paper introduces sparse coding and dictionary learning for symmetric positive definite (SPD) matrices, which are often used in machine learning, computer vision, and related areas. Unlike traditional sparse coding schemes that work in vector spaces, in this paper, we discuss how SPD matrices can be described by sparse combination of dictionary atoms, where the atoms are also SPD matrices. We propose to seek sparse coding by embedding the space of SPD matrices into the Hilbert spaces through two types of the Bregman matrix divergences. This not only leads to an efficient way of performing sparse coding but also an online and iterative scheme for dictionary learning. We apply the proposed methods to several computer vision tasks where images are represented by region covariance matrices. Our proposed algorithms outperform state-of-the-art methods on a wide range of classification tasks, including face recognition, action recognition, material classification, and texture categorization. PMID:25643414

  16. Generalized binomial transform applied to the divergent series

    CERN Document Server

    Yamada, Hirofumi

    2015-01-01

    The divergent series for a function defined through Lapalce integral and the ground state energy of the quartic anharmonic oscillator to large orders are studied to test the generalized binomial transform which is the renamed version of $\\delta$-expansion proposed recently. We show that, by the use of the generalized binomial transform, the values of functions in the limit of zero of an argument is approximately computable from the series expansion around the infinity of the same argument. In the Laplace integral, we investigate the subject in detail with the aid of Mellin transform. In the anharmonic oscillator, we compute the strong coupling limit of the ground state energy and also the expansion coefficients at strong coupling from the weak coupling perturbation series. The obtained result is compared with that of the linear delta expansion.

  17. Divergent series, summability and resurgence I monodromy and resurgence

    CERN Document Server

    Mitschi, Claude

    2016-01-01

    Providing an elementary introduction to analytic continuation and monodromy, the first part of this volume applies these notions to the local and global study of complex linear differential equations, their formal solutions at singular points, their monodromy and their differential Galois groups. The Riemann-Hilbert problem is discussed from Bolibrukh’s point of view. The second part expounds 1-summability and Ecalle’s theory of resurgence under fairly general conditions. It contains numerous examples and presents an analysis of the singularities in the Borel plane via “alien calculus”, which provides a full description of the Stokes phenomenon for linear or non-linear differential or difference equations. The first of a series of three, entitled Divergent Series, Summability and Resurgence, this volume is aimed at graduate students, mathematicians and theoretical physicists interested in geometric, algebraic or local analytic properties of dynamical systems. It includes useful exercises with solution...

  18. Why do lifespan variability trends for the young and old diverge? A perturbation analysis

    Directory of Open Access Journals (Sweden)

    Michal Engelman

    2014-05-01

    Full Text Available Background: Variation in lifespan has followed strikingly different trends for the young and old: while overall lifespan variability has decreased as life expectancy at birth has risen, the variability conditional on survival to older ages has increased. These diverging trends reflect changes in the underlying demographic parameters determining age-specific mortality. Objective: We ask why the variation in the adult ages at death has followed a different trend than the variation at younger ages, and aim to explain the diverging patterns in terms of historical changes in the age schedule of mortality. Methods: Using simulations, we show that the empirical trends in lifespan variation are well characterized using the Siler model, which describes the mortality hazard across the full lifespan using functions representing early-life, later-life, and background mortality. We then obtain maximum likelihood estimates of the Siler parameters over time. Finally, we express lifespan variation in terms of a Markov chain model, and apply matrix calculus perturbation analysis to compute the sensitivity of age-specific lifespan variance trends to the changing Siler model parameters. Results: Our analysis produces a detailed quantification of the impact of changing demographic parameters on the pattern of lifespan variability at all ages, highlighting the impact of declining childhood mortality on the reduction of lifespan variability and the impact of improved survival in adulthood on the rising variability of lifespans at older ages. Conclusions: These findings provide insight into the dynamic relationship between the age pattern of survival improvements and time trends in lifespan variability.

  19. Genetic divergence among extant and extirpated colonies of an endangered pelagic seabird, the Hawaiian petrel

    Science.gov (United States)

    Welch, A. J.; Fleischer, R. C.; James, H. F.

    2010-12-01

    It is important to consider both the temporal and spatial dimensions of variability in ecology and evolution. Given the potentially great dispersal capabilities and long generation times of pelagic seabirds, genetic diversity in these species seems likely to be homogeneously distributed and relatively static over time. Investigating temporal and spatial processes involved in the ecology and evolution of seabird populations is important to island ecosystem sustainability, as they play a significant role in transferring marine derived nutrients to terrestrial oceanic ecosystems. Additionally, many seabird species are threatened by extinction due to increasing mortality both at land and at sea. Here we investigate population divergence of the endemic and endangered Hawaiian petrel (Pterodroma sandwichensis). We examined four extant colonies on the islands of Hawaii, Maui, Lanai and Kauai, and employed ancient DNA techniques to study a prehistorically extirpated colony on Oahu, and a historically large, but likely extirpated, colony on the island of Molokai. Analyses of sequences of the mitochondrial cytochrome b gene as well as nuclear microsatellite markers indicate substantial differentiation (global Φst of 0.38, p < 0.0001). Significant divergence was found among each pair of the six islands except between Oahu and Molokai (Φst = 0.10, p = 0.07). However, this could result from low power due to the limited availability of amplifiable samples, especially for the hot, low elevation colony formerly present on Oahu. The largest differentiation occurred between the islands of Lanai and Kauai (Φst = 0.58, p < 0.0001). These results suggest that despite their great dispersal capabilities, spatially proximate colonies of the Hawaiian petrel are not genetically homogenous. Additionally, the extirpation of large colonies, such as those on Oahu and Molokai, could result in loss of a substantial amount of genetic diversity. Future work should further investigate temporal

  20. On Rapidity Divergences in the Soft and Collinear Limits of QCD

    Science.gov (United States)

    Echevarria, Miguel G.; Idilbi, Ahmad; Scimemi, Ignazio

    2014-01-01

    We consider the definition of a transverse-momentum-dependent parton distribution function (TMDPDF) and its evolution properties given a factorization theorem of Drell-Yan lepton pair production with a non-vanishing transverse momentum. We discuss rapidity divergences that exist in both limits of QCD: the soft and collinear. We argue that only when a specific combination of the soft and collinear matrix elements is formed, rapidity divergences cancel. We also argue that the soft matrix element, calculated in perturbation theory, contains only rapidity divergences and there is no genuine long-distance infra-red divergences.

  1. On Rapidity Divergences in the Soft and Collinear Limits of QCD

    CERN Document Server

    Echevarria, Miguel G; Scimemi, Ignazio

    2013-01-01

    We consider the definition of a transverse-momentum-dependent parton distribution function (TMDPDF) and its evolution properties given a factorization theorem of Drell- Yan lepton pair production with a non-vanishing transverse momentum. We discuss rapidity divergences that exist in both limits of QCD: the soft and collinear. We argue that only when a specific combination of the soft and collinear matrix elements is formed, rapidity divergences cancel. We also argue that the soft matrix element, calculated in perturbation theory, contains only rapidity divergences and there is no genuine long-distance infra-red divergences.

  2. Beam divergence changing mechanism for short-range inter-unmanned aerial vehicle optical communications.

    Science.gov (United States)

    Heng, Kiang Huat; Zhong, Wen-De; Cheng, Tee Hiang; Liu, Ning; He, Yingjie

    2009-03-10

    The problems associated with using a single fixed beam divergence for short-range inter-unmanned aerial vehicle free-space optical communications are discussed. To overcome the problems, a beam divergence changing mechanism is proposed. Four different methods are then proposed to implement the beam divergence changing mechanism. The performance of these methods is evaluated in terms of transmission distance under adverse weather conditions. The results show that the performance is greatly improved when the beam divergence changing mechanism is used. PMID:19277090

  3. Segmenting the human genome based on states of neutral genetic divergence.

    Science.gov (United States)

    Kuruppumullage Don, Prabhani; Ananda, Guruprasad; Chiaromonte, Francesca; Makova, Kateryna D

    2013-09-01

    Many studies have demonstrated that divergence levels generated by different mutation types vary and covary across the human genome. To improve our still-incomplete understanding of the mechanistic basis of this phenomenon, we analyze several mutation types simultaneously, anchoring their variation to specific regions of the genome. Using hidden Markov models on insertion, deletion, nucleotide substitution, and microsatellite divergence estimates inferred from human-orangutan alignments of neutrally evolving genomic sequences, we segment the human genome into regions corresponding to different divergence states--each uniquely characterized by specific combinations of divergence levels. We then parsed the mutagenic contributions of various biochemical processes associating divergence states with a broad range of genomic landscape features. We find that high divergence states inhabit guanine- and cytosine (GC)-rich, highly recombining subtelomeric regions; low divergence states cover inner parts of autosomes; chromosome X forms its own state with lowest divergence; and a state of elevated microsatellite mutability is interspersed across the genome. These general trends are mirrored in human diversity data from the 1000 Genomes Project, and departures from them highlight the evolutionary history of primate chromosomes. We also find that genes and noncoding functional marks [annotations from the Encyclopedia of DNA Elements (ENCODE)] are concentrated in high divergence states. Our results provide a powerful tool for biomedical data analysis: segmentations can be used to screen personal genome variants--including those associated with cancer and other diseases--and to improve computational predictions of noncoding functional elements. PMID:23959903

  4. Experimental Investigation of 'Transonic Resonance' with Convergent-Divergent Nozzles

    Science.gov (United States)

    Zaman, K. B. M. Q.; Dahl, M. D.; Bencic, T. J.; Zaman, Khairul (Technical Monitor)

    2001-01-01

    Convergent-divergent nozzles, when run at pressure ratios lower than the design value, often undergo a flow resonance accompanied by the emission of acoustic tones. The phenomenon, different in characteristics from conventional 'screech' tones, has been studied experimentally. Unlike screech, the frequency increases with increasing supply pressure. There is a 'staging' behavior; 'odd harmonic' stages resonate at lower pressures while the fundamental occurs in a range of higher pressures corresponding to a fully expanded Mach number (M(sub j)) around unity. The frequency (f(sub N)) variation with M(sub j) depends on the half angle-of-divergence (theta) of the nozzle. At smaller theta, the slope of f(sub N) versus M(sub j) curve becomes steeper. The resonance involves standing waves and is driven by unsteady shock/boundary layer interaction. The distance between the foot of the shock and the nozzle exit imposes the lengthscale (L'). The fundamental corresponds to a quarterwave resonance, the next stage at a lower supply pressure corresponds to a three-quarter-wave resonance, and so on. The principal trends in the frequency variation are explained simply from the characteristic variation of the length-scale L'. Based on the data, correlation equations are provided for the prediction of f(sub N). A striking feature is that tripping of the boundary layer near the nozzle's throat tends to suppress the resonance. In a practical nozzle a tendency for the occurrence of the phenomenon is thought to be a source of 'internal noise'; thus, there is a potential for noise benefit simply by appropriate boundary layer tripping near the nozzle's throat.

  5. Extensive genetic divergence among Diptychus maculatus populations in northwest China

    Science.gov (United States)

    Meng, Wei; Yang, Tianyan; Hai, Sa; Ma, Yanwu; Cai, Lingang; Ma, Xufa; Gao, Tianxiang; Guo, Yan

    2015-05-01

    D. maculates is a kind of specialized Schizothoracinae fish has been locally listed as a protected animal in Xinjiang Province, China. Ili River located in north of Tianshan Mountain and Tarim River located in north of Qinghai-Tibetan Plateau were two main distribution areas of this fish. To investigate the genetic diversity and genetic structure of D. maculates, four populations from Tarim River system and two populations from Ili River system were collected in this study. A 570-bp sequence of the control region was obtained for 105 specimens. Twenty-four haplotypes were detected from six populations, only Kunes River population and Kashi River population shared haplotypes with each other. For all the populations examined, the haplotype diversity ( h) was 0.904 8±0.012 6, nucleotide diversity (π) was 0.027 9±0.013 9, and the average number of pairwise nucleotide differences ( k) was 15.878 3±7.139 1. The analysis of molecular variance (AMOVA) showed that 86.31% of the total genetic variation was apportioned among populations, and the variation within sampled populations was 13.69%. Genetic differences among sampled populations were highly significant. F st statistical test indicated that all populations were significantly divergent from each other ( P<0.01). The largest F st value was between Yurungkash River population and Muzat River population, while the smallest F st value was between Kunes River population and Kashi River population. NJ phylogenetic tree of D-loop haplotypes revealed two main clades. The neutrality test and mismatch distribution analysis suggested that the fish had went through a recent population expansion. The uplift of Tianshan Mountain and movement of Qinghai-Tibetan Plateau might contribute to the wide genetic divergence of D. maculates in northwest China.

  6. Fractional integration associated with second order divergence operators on Rn

    Institute of Scientific and Technical Information of China (English)

    DENG; Donggao(

    2003-01-01

    [1]McIntosh, A., Operators which have an H∞-calculus, Miniconference on Operator Theory and Partial Differential Equations (Proceedings of the Centre for Mathematical Analysis, ANU), 1986, 14: 210.[2]Stein, E. M., Singular Integral and Differentiability Properties of Functions, Princeton: Princeton Univ. Press,1970.[3]Auscher, P., Tchamitchian, P., Square Root Problem for Divergence Operators and Related Topics, Astérisque,vol. 249, 1998.[4]Auscher, P., Coulhon, T., Tchamitchian, P., Absence de principe du maximum pour certaines équations paraboliques complexes, Coll. Math., 1996, 171: 87.[5]Auscher, P., Hofmann, S., Lacey, M., The solution of Kato's conjectures, C. R. Acad. Sci. Paris Sr. I Math.,2001, 332: 601.[6]Davies, E. B., Uniformly elliptic operators with measurable coefficients, J. Funct. Anal., 1995, 132: 141.[7]Liskevich, V., Vogt, H., On Lp-spectrum and essential spectra of second order elliptic operators, Proc. London Math. Soc., 2000, 80: 590.[8]Duong, X. T., McIntosh, A., Singular integral operators with non-smooth kernels on irregular domains, Rev.Mat. Iberoamericana, 1999, 15: 233.[9]Lions, J. L., Espaces d'interpolation et domaines de puissances fractionnaires, J. Math. Soc. Japan, 1962, 14:233.[10]Auscher, P., McIntosh, A., Nahmod, A., The square root problem of Kato in one dimension, and first order elliptic systems, Indiana Univ. Math. J., 1997, 46: 659.[11]Deng, D. G., Hah, Y. S., Theory of Hp Spaces (in Chinese), Beijing: Peking Univ. Press, 1992.Vector subdivision schemes in (Lp(Rs))r(1 ≤ p ≤∞) spacesLI Song(李松)[12]Auscher,P.,Tchamitchian,P.,Square roots of elliptic second order divergence operators on strongly Lipschitz domain:L2 theory ,to appear in Journal d' Analyse Mathematique.

  7. Divergent allosteric patterns verify the regulatory paradigm for aspartate transcarbamylase.

    Science.gov (United States)

    Wales, M E; Madison, L L; Glaser, S S; Wild, J R

    1999-12-17

    The native Escherichia coli aspartate transcarbamoylase (ATCase, E.C. 2.1.3.2) provides a classic allosteric model for the feedback inhibition of a biosynthetic pathway by its end products. Both E. coli and Erwinia herbicola possess ATCase holoenzymes which are dodecameric (2(c3):3(r2)) with 311 amino acid residues per catalytic monomer and 153 and 154 amino acid residues per regulatory (r) monomer, respectively. While the quaternary structures of the two enzymes are identical, the primary amino acid sequences have diverged by 14 % in the catalytic polypeptide and 20 % in the regulatory polypeptide. The amino acids proposed to be directly involved in the active site and nucleotide binding site are strictly conserved between the two enzymes; nonetheless, the two enzymes differ in their catalytic and regulatory characteristics. The E. coli enzyme has sigmoidal substrate binding with activation by ATP, and inhibition by CTP, while the E. herbicola enzyme has apparent first order kinetics at low substrate concentrations in the absence of allosteric ligands, no ATP activation and only slight CTP inhibition. In an apparently important and highly conserved characteristic, CTP and UTP impose strong synergistic inhibition on both enzymes. The co-operative binding of aspartate in the E. coli enzyme is correlated with a T-to-R conformational transition which appears to be greatly reduced in the E. herbicola enzyme, although the addition of inhibitory heterotropic ligands (CTP or CTP+UTP) re-establishes co-operative saturation kinetics. Hybrid holoenzymes assembled in vivo with catalytic subunits from E. herbicola and regulatory subunits from E. coli mimick the allosteric response of the native E. coli holoenzyme and exhibit ATP activation. The reverse hybrid, regulatory subunits from E. herbicola and catalytic subunits from E. coli, exhibited no response to ATP. The conserved structure and diverged functional characteristics of the E. herbicola enzyme provides an opportunity

  8. Plasma exosome profiles from dairy cows with divergent fertility phenotypes.

    Science.gov (United States)

    Mitchell, M D; Scholz-Romero, K; Reed, S; Peiris, H N; Koh, Y Q; Meier, S; Walker, C G; Burke, C R; Roche, J R; Rice, G; Salomon, C

    2016-09-01

    Cell-to-cell communication in physiological and pathological conditions may be influenced by neighboring cells, distant tissues, or local environmental factors. Exosomes are specific subsets of extracellular vesicles that internalize and deliver their content to near and distant sites. Exosomes may play a role in the maternal-embryo crosstalk vital for the recognition and maintenance of a pregnancy; however, their role in dairy cow reproduction has not been established. This study aimed to characterize the exosome profile in the plasma of 2 strains of dairy cow with divergent fertility phenotypes. Plasma was obtained and characterized on the basis of genetic ancestry as fertile (FERT; 92% North American genetics, North American Holstein-Friesian strain, n=8). Exosomes were isolated by differential and buoyant density centrifugation and characterized by size distribution (nanoparticle tracking analysis, NanoSight NS500, NanoSight Ltd., Amesbury, UK), the presence of CD63 (Western blot), and their morphology (electron microscopy). The total number of exosomes was determined by quantifying the immunoreactive CD63 (ExoELISA kit, System Biosciences), and the protein content established by mass spectrometry. Enriched exosome fractions were identified as cup-shape vesicles with diameters around 100 nm and positive for the CD63 marker. The concentration of exosomes was 50% greater in FERT cows. Mass spectrometry identified 104 and 117 proteins in FERT and SUBFERT cows, of which 23 and 36 were unique, respectively. Gene ontology analysis revealed enrichment for proteins involved in immunomodulatory processes and cell-to-cell communication. Although the role of exosomes in dairy cow reproduction remains to be elucidated, their quantification and content in models with divergent fertility phenotypes could provide novel information to support both physiological and genetic approaches to improving dairy cow fertility. PMID:27372594

  9. Differential patterns of divergence in ocean drifters: Implications for larval flatfish advection and recruitment

    Science.gov (United States)

    Wilderbuer, Thomas; Duffy-Anderson, Janet T.; Stabeno, Phyllis; Hermann, Albert

    2016-05-01

    In an effort to better understand the physics of the eastern Bering Sea shelf current as it relates to flatfish advection to favorable near-shore areas, sets of multiple, satellite-tracked, oceanic drifters were released in 2010, 2012 and 2013. The release sites and dates were chosen to coincide with known spawning locations for northern rock sole (Lepidopsetta polyxystra) and known time of larval emergence. The drifters were drogued 5-each at 20 and 40 m in 2010 and 2012, and 4 at 40 m and 2 at 20 m in 2013. The locations of drifters were used to calculate divergence over a 90-day period that corresponds to the larval pelagic duration of Bering Sea shelf northern rock sole. Results indicate that there are alternating periods of positive and negative divergence with an overall trend toward drifter separation after 90 days, roughly the end of the rock sole planktonic larval period. Examination of the drifter behavior at the hourly scale indicates that semi-daily tidal forcing is the primary mechanism of drifter divergence and convergence. Field observations of early-stage northern rock sole larval distributions over the same period indicate that predominant oceanographic advection is northerly over the continental shelf among preflexion stages, though juveniles are predominantly found in nursery areas located ~ 400 km eastward and inshore. Evidence from drifter deployments suggests that behavioral movements during the postflexion and early juvenile larval phases that optimize eastward periodicity of tidal cycles is a viable mechanism to enhance eastward movement of northern rock sole larvae to favorable nursery grounds. A regional ocean modeling system (ROMS) was implemented to track the different rates of dispersion in simulations both with and without tidal forcing, and was used to estimate effective horizontal eddy diffusion in the case of both isobaric (fixed-depth) and Lagrangian (neutrally buoyant) particles. The addition of tidal forcing had a pronounced

  10. Functional divergence of the NIP III subgroup proteins involved altered selective constraints and positive selection

    Directory of Open Access Journals (Sweden)

    Zhu Zhujun

    2010-11-01

    Full Text Available Abstract Background Nod26-like intrinsic proteins (NIPs that belong to the aquaporin superfamily are unique to plants. According to homology modeling and phylogenetic analysis, the NIP subfamily can be further divided into three subgroups with distinct biological functions (NIP I, NIP II, and NIP III. In some grasses, the NIP III subgroup proteins (NIP2s were demonstrated to be permeable to solutes with larger diameter, such as silicic acid and arsenous acids. However, to date there is no data-mining or direct experimental evidences for the permeability of such larger solutes for dicot NIP2s, although they exhibit similar three-dimensional structures as those in grasses. It is therefore intriguing to investigate the molecular mechanisms that drive the evolution of plant NIP2s. Results The NIP III subgroup is more ancient with a divergence time that predates the monocot-dicot split. The proliferation of NIP2 genes in modern grass species is primarily attributed to whole genome and segmental chromosomal duplication events. The structure of NIP2 genes is relatively conserved, possessing five exons and four introns. All NIP2s possess an ar/R filter consisting of G, S, G, and R, except for the cucumber CsNIP2;2, where a small G in the H2 is substituted with the bulkier C residue. Our maximum likelihood analysis revealed that NIP2s, especially the loop A (LA region, have undergone strong selective pressure for adaptive evolution. The analysis at the amino acid level provided strong statistical evidences for the functional divergence between monocot and dicot NIP III subgroup proteins. In addition, several SDPs (Specificity Determining Positions responsible for functional specificity were predicted. Conclusions The present study provides the first evidences of functional divergence between dicot and monocot NIP2s, and suggests that positive selection, as well as a radical shift of evolutionary rate at some critical amino acid sites is the primary

  11. Whole genome investigation of a divergent clade of the pathogen Streptococcus suis

    Directory of Open Access Journals (Sweden)

    Abiyad eBaig

    2015-11-01

    Full Text Available Streptococcus suis is a major porcine and zoonotic pathogen responsible for significant economic losses in the pig industry and an increasing number of human cases. Multiple isolates of S. suis show marked genomic diversity. Here we report the analysis of whole genome sequences of nine pig isolates that caused disease typical of S. suis and had phenotypic characteristics of S. suis, but their genomes were divergent from those of many other S. suis isolates. Comparison of protein sequences predicted from divergent genomes with those from normal S. suis reduced the size of core genome from 793 to only 397 genes. Divergence was clear if phylogenetic analysis was performed on reduced core genes and MLST alleles. Phylogenies based on certain other genes (16S rRNA, sodA, recN and cpn60 did not show divergence for all isolates, suggesting recombination between some divergent isolates with normal S. suis for these genes. Indeed, there is evidence of recent recombination between the divergent and normal S. suis genomes for 249 of 397 core genes. In addition, phylogenetic analysis based on the 16S rRNA gene and 132 genes that were conserved between the divergent isolates and representatives of the broader Streptococcus genus showed that divergent isolates were more closely related to S. suis. Six out of nine divergent isolates possessed a S. suis-like capsule region with variation in capsular gene sequences but the remaining three did not have a discrete capsule locus. The majority (40/70, of virulence-associated genes in normal S. suis were present in the divergent genomes. Overall, the divergent isolates extend the current diversity of S. suis species but the phenotypic similarities and the large amount of gene exchange with normal S. suis gives insufficient evidence to assign these isolates to a new species or subspecies. Further sampling and whole genome analysis of more isolates is warranted to understand the diversity of the species.

  12. On the characteristics of sea ice divergence/convergence in the Southern Beaufort Sea

    Directory of Open Access Journals (Sweden)

    J. V. Lukovich

    2014-07-01

    Full Text Available An understanding of spatial gradients in sea ice motion, or deformation, is essential to understanding of ocean-sea-ice-atmosphere interactions and realistic representations of sea ice in models used for the purposes of prediction. This is particularly true for the southern Beaufort Sea, where significant offshore hydrocarbon resource development increases the risk of oil and other contaminants dispersing into the marginal ice zone. In this study, sea ice deformation is examined through evaluation of ice beacon triplets from September to November 2009 in the southern Beaufort Sea (SBS, defined according to distance from the coastline on deployment. Results from this analysis illustrate that ice beacon triplets in the SBS demonstrate spatiotemporal differences in their evolution at the periphery and interior of the ice pack. The time rate of change in triplet area highlights two intervals of enhanced divergence and convergence in fall, 2009. Investigation of sea ice and atmospheric conditions during these intervals shows that until mid-September, all triplets respond to northerly flow, while during the second interval of enhanced divergence/convergence in October only one triplet responds to persistent northeasterly flow due to its proximity to the ice edge, in contrast to triplets located at the interior of the pack. Differences in sea ice deformation and dispersion near the pack ice edge and interior are further demonstrated in the behavior of triplets B and C in late October/early November. The results from this analysis highlight differences in dispersion and deformation characteristics based on triplet proximity to the southernmost ice edge and coastline, with implications for modeling studies pertaining to sea ice dynamics and dispersion.

  13. Substitution patterns are GC-biased in divergent sequences across the metazoans.

    Science.gov (United States)

    Capra, John A; Pollard, Katherine S

    2011-01-01

    The fastest-evolving regions in the human and chimpanzee genomes show a remarkable excess of weak (A,T) to strong (G,C) nucleotide substitutions since divergence from their common ancestor. We investigated the phylogenetic extent and possible causes of this weak to strong (W → S) bias in divergent sequences (BDS) using recently sequenced genomes and recombination maps from eight trios of eukaryotic species. To quantify evidence for BDS, we inferred substitution histories using an efficient maximum likelihood approach with a context-dependent evolutionary model. We then annotated all lineage-specific substitutions in terms of W → S bias and density on the chromosomes. Finally, we used the inferred substitutions to calculate a BDS score-a log odds ratio between substitution type and density-and assessed its statistical significance with Fisher's exact test. Applying this approach, we found significant BDS in the coding and noncoding sequence of human, mouse, dog, stickleback, fruit fly, and worm. We also observed a significant lack of W → S BDS in chicken and yeast. The BDS score varies between species and across the chromosomes within each species. It is most strongly correlated with different genomic features in different species, but a strong correlation with recombination rates is found in several species. Our results demonstrate that a W → S substitution bias in fast-evolving sequences is a widespread phenomenon. The patterns of BDS observed suggest that a recombination-associated process, such as GC-biased gene conversion, is involved in the production of the bias in many species, but the strength of the BDS likely depends on many factors, including genome stability, variability in recombination rate over time and across the genome, the frequency of meiosis, and the amount of outcrossing in each species. PMID:21670083

  14. Divergent roles of clock genes in retinal and suprachiasmatic nucleus circadian oscillators.

    Directory of Open Access Journals (Sweden)

    Guo-Xiang Ruan

    Full Text Available The retina is both a sensory organ and a self-sustained circadian clock. Gene targeting studies have revealed that mammalian circadian clocks generate molecular circadian rhythms through coupled transcription/translation feedback loops which involve 6 core clock genes, namely Period (Per 1 and 2, Cryptochrome (Cry 1 and 2, Clock, and Bmal1 and that the roles of individual clock genes in rhythms generation are tissue-specific. However, the mechanisms of molecular circadian rhythms in the mammalian retina are incompletely understood and the extent to which retinal neural clocks share mechanisms with the suprachiasmatic nucleus (SCN, the central neural clock, is unclear. In the present study, we examined the rhythmic amplitude and period of real-time bioluminescence rhythms in explants of retina from Per1-, Per2-, Per3-, Cry1-, Cry2-, and Clock-deficient mice that carried transgenic PERIOD2::LUCIFERASE (PER2::LUC or Period1::luciferase (Per1::luc circadian reporters. Per1-, Cry1- and Clock-deficient retinal and SCN explants showed weakened or disrupted rhythms, with stronger effects in retina compared to SCN. Per2, Per3, and Cry2 were individually dispensable for sustained rhythms in both tissues. Retinal and SCN explants from double knockouts of Cry1 and Cry2 were arrhythmic. Gene effects on period were divergent with reduction in the number of Per1 alleles shortening circadian period in retina, but lengthening it in SCN, and knockout of Per3 substantially shortening retinal clock period, but leaving SCN unaffected. Thus, the retinal neural clock has a unique pattern of clock gene dependence at the tissue level that it is similar in pattern, but more severe in degree, than the SCN neural clock, with divergent clock gene regulation of rhythmic period.

  15. Neuroglobin of seals and whales: evidence for a divergent role in the diving brain.

    Science.gov (United States)

    Schneuer, M; Flachsbarth, S; Czech-Damal, N U; Folkow, L P; Siebert, U; Burmester, T

    2012-10-25

    Although many physiological adaptations of diving mammals have been reported, little is known about how their brains sustain the high demands for metabolic energy and thus O(2) when submerged. A recent study revealed in the deep-diving hooded seal (Cystophora cristata) a unique shift of the oxidative energy metabolism and neuroglobin, a respiratory protein that is involved in neuronal hypoxia tolerance, from neurons to astrocytes. Here we have investigated neuroglobin in another pinniped species, the harp seal (Pagophilus groenlandicus), and in two cetaceans, the harbor porpoise (Phocoena phocoena) and the minke whale (Balaenoptera acutorostrata). Neuroglobin sequences, expression levels and patterns were compared with those of terrestrial relatives, the ferret (Mustela putorius furo) and the cattle (Bos taurus), respectively. Neuroglobin sequences of whales and seals only differ in two or three amino acids from those of cattle and ferret, and are unlikely to confer functional differences, e.g. in O(2) affinity. Neuroglobin is expressed in the astrocytes also of P. groenlandicus, suggesting that the shift of neuroglobin and oxidative metabolism is a common adaptation in the brains of deep-diving phocid seals. In the cetacean brain neuroglobin resides in neurons, like in terrestrial mammals. However, neuroglobin mRNA expression levels were 4-15 times higher in the brains of harbor porpoises and minke whales than in terrestrial mammals or in seals. Thus neuroglobin appears to play a specific role in diving mammals, but seals and whales have evolved divergent strategies to cope with cerebral hypoxia. The specific function of neuroglobin that conveys hypoxia tolerance may either relate to oxygen supply or protection from reactive oxygen species. The different strategies in seals and whales resulted from a divergent evolution and an independent adaptation to diving. PMID:22864183

  16. Narrow endemics on coastal plains: Miocene divergence of the critically endangered genus Avellara (Compositae).

    Science.gov (United States)

    Fernández-Mazuecos, M; Jiménez-Mejías, P; Martín-Bravo, S; Buide, M L; Álvarez, I; Vargas, P

    2016-07-01

    Critically endangered species representing ancient, evolutionarily isolated lineages must be given priority when allocating resources for conservation projects. Sound phylogenetic analyses and divergence time estimations are required to detect them, and studies on their population genetics, ecological requirements and breeding system are needed to understand their evolutionary history and to design efficient conservation strategies. Here we present the paradigmatic case of Avellara, a critically endangered monotypic genus of Compositae inhabiting a few swamps in the west-southwest Iberian coastal plains. Our phylogenetic and dating analyses based on nuclear (ITS) and plastid (matK) DNA sequences support a Miocene (>8.6 Ma) divergence between Avellara and closely related genera, resulting in marked morphological and ecological differentiation. We found alarmingly low levels of genetic diversity, based on AFLPs and plastid DNA sequences, and confirmed the prevalence of clonal reproduction. Species distribution modelling suggested a large macroclimatically suitable area for Avellara in the western Iberian Peninsula, but its apparently narrow microecological requirements restrict its distribution to peatlands with low-mineralised waters. Although five populations have been recorded from Spain and Portugal in the past, its current distribution may be reduced to only one population, recurrently found in the last decade but threatened by herbivory and habitat degradation. All this confirms the consideration of Avellara as a threatened species with high phylogenetic singularity, and makes it a flagship species for plant conservation in both Spain and Portugal that should be given priority in the design of in situ and ex situ conservation programmes. PMID:27039878

  17. A condition for a perfect-fluid space-time to be a generalized Robertson-Walker space-time

    CERN Document Server

    Mantica, Carlo Alberto; De, Uday Chand

    2015-01-01

    A perfect-fluid space-time of dimension n>3 with irrotational velocity vector field and null divergence of the Weyl tensor is a generalised Robertson-Walker space. The first condition is verified whenever pressure and energy density are related by an equation of state. The contraction of the Weyl tensor with the velocity vector field is zero. A generalized Robertson-Walker space-time with null divergence of the Weyl tensor is a perfect-fluid space-time.

  18. Reproductive isolation related to mimetic divergence in the poison frog Ranitomeya imitator

    DEFF Research Database (Denmark)

    Twomey, Evan; Vestergaard, Jacob Schack; Summers, Kyle

    2014-01-01

    phenotypic transition zone, neutral genetic divergence and assortative mating, suggesting that divergent selection to resemble different model species has led to a breakdown in gene flow between these two populations. These results extend the effects of mimicry on speciation into a vertebrate system and...... characterize an early stage of speciation where reproductive isolation between mimetic morphs is incomplete but evident....

  19. Expression Divergence Is Correlated with Sequence Evolution but Not Positive Selection in Conifers.

    Science.gov (United States)

    Hodgins, Kathryn A; Yeaman, Sam; Nurkowski, Kristin A; Rieseberg, Loren H; Aitken, Sally N

    2016-06-01

    The evolutionary and genomic determinants of sequence evolution in conifers are poorly understood, and previous studies have found only limited evidence for positive selection. Using RNAseq data, we compared gene expression profiles to patterns of divergence and polymorphism in 44 seedlings of lodgepole pine (Pinus contorta) and 39 seedlings of interior spruce (Picea glauca × engelmannii) to elucidate the evolutionary forces that shape their genomes and their plastic responses to abiotic stress. We found that rapidly diverging genes tend to have greater expression divergence, lower expression levels, reduced levels of synonymous site diversity, and longer proteins than slowly diverging genes. Similar patterns were identified for the untranslated regions, but with some exceptions. We found evidence that genes with low expression levels had a larger fraction of nearly neutral sites, suggesting a primary role for negative selection in determining the association between evolutionary rate and expression level. There was limited evidence for differences in the rate of positive selection among genes with divergent versus conserved expression profiles and some evidence supporting relaxed selection in genes diverging in expression between the species. Finally, we identified a small number of genes that showed evidence of site-specific positive selection using divergence data alone. However, estimates of the proportion of sites fixed by positive selection (α) were in the range of other plant species with large effective population sizes suggesting relatively high rates of adaptive divergence among conifers. PMID:26873578

  20. Approximation of the I-divergence between stationary and hidden Markov processes

    NARCIS (Netherlands)

    L. Finesso; A. Grassi; P. Spreij

    2008-01-01

    We aim at the construction of a Hidden Markov Model (HMM) of assigned complexity (number of states of the underlying Markov chain) which best approximates, in Kullback-Leibler divergence rate, a given stationary process. We establish, under mild conditions, the existence of the divergence rate betwe

  1. Divergent Task Performance in Older Adults: Declarative Memory or Creative Potential?

    Science.gov (United States)

    Leon, Susan A.; Altmann, Lori J. P.; Abrams, Lise; Gonzalez Rothi, Leslie J.; Heilman, Kenneth M.

    2014-01-01

    Divergent thinking is a process or method used to generate creative ideas by exploring many possible solutions or responses, and is a critical element of creativity. Lesion and imaging studies have shown that the frontal lobes are important in mediating divergent thinking, and frontal lobe function is highly dependent on white matter connections…

  2. Parasite-mediated sexual selection and species divergence in Lake Victoria cichlid fish

    NARCIS (Netherlands)

    Maan, Martine E.; Van Rooijen, Anne M. C.; Van Alphen, Jacques J. M.; Seehausen, Ole

    2008-01-01

    We investigate the role of parasite-mediated sexual selection in the divergence of two species of Lake Victoria cichlids. Pundamilia pundamilia and Pundamilia nyererei represent a common pattern of male nuptial colour divergence between haplochromine sister species: metallic grey-blue in P. pundamil

  3. Fine-grained adaptive divergence in an amphibian: genetic basis of phenotypic divergence and the role of nonrandom gene flow in restricting effective migration among wetlands.

    Science.gov (United States)

    Richter-Boix, Alex; Quintela, María; Kierczak, Marcin; Franch, Marc; Laurila, Anssi

    2013-03-01

    Adaptive ecological differentiation among sympatric populations is promoted by environmental heterogeneity, strong local selection and restricted gene flow. High gene flow, on the other hand, is expected to homogenize genetic variation among populations and therefore prevent local adaptation. Understanding how local adaptation can persist at the spatial scale at which gene flow occurs has remained an elusive goal, especially for wild vertebrate populations. Here, we explore the roles of natural selection and nonrandom gene flow (isolation by breeding time and habitat choice) in restricting effective migration among local populations and promoting generalized genetic barriers to neutral gene flow. We examined these processes in a network of 17 breeding ponds of the moor frog Rana arvalis, by combining environmental field data, a common garden experiment and data on variation in neutral microsatellite loci and in a thyroid hormone receptor (TRβ) gene putatively under selection. We illustrate the connection between genotype, phenotype and habitat variation and demonstrate that the strong differences in larval life history traits observed in the common garden experiment can result from adaptation to local pond characteristics. Remarkably, we found that haplotype variation in the TRβ gene contributes to variation in larval development time and growth rate, indicating that polymorphism in the TRβ gene is linked with the phenotypic variation among the environments. Genetic distance in neutral markers was correlated with differences in breeding time and environmental differences among the ponds, but not with geographical distance. These results demonstrate that while our study area did not exceed the scale of gene flow, ecological barriers constrained gene flow among contrasting habitats. Our results highlight the roles of strong selection and nonrandom gene flow created by phenological variation and, possibly, habitat preferences, which together maintain genetic and

  4. Information revolutions and spreading of communication channels: overview of divergence and/or convergence of the media

    Directory of Open Access Journals (Sweden)

    Anita Papić

    2012-11-01

    Full Text Available The paper provides an overview of the so-called information revolutions, with a special emphasis on the spreading of communication channels. The notion 'information revolution' is used conditionally – not in the sense of disruptive changes in communication models, but in the sense of expansion of communication possibilities. The revolutions were identified using Irving E. Fang's criteria. He defined six revolutions: writing, printing, mass media, using media for entertainment, the 'toolshed' (now called 'home', and the Information Highway. The paper presents the basic media in each of the revolutions, questions the very current issues of convergence (as some modern scholars consider the term convergence to be more appropriate than the term revolution, and divergence of media, and special attention is paid to the social context that lead to particular revolutions. The central conclusion is that information revolutions were not the time of replacing the old media with the new, but the times of condensation of communication possibilities. During those times the new media joined the existing types, not replacing them but co-existing. They faded out gradually or disappeared only over extended periods of time. Key-words: information revolutions, media, convergence, divergence, communication.

  5. GENDER-BASED DIFFERENCES IN SCHOOL-AGED CHILDREN’S DIVERGENT THINKING

    Directory of Open Access Journals (Sweden)

    Leah Roue

    2014-12-01

    Full Text Available This study examines whether the shortage of females in science and engineering is linked to possible gender-based differences in school-aged children’s divergent thinking. Divergent thinking is a direct measure of creativity and an important characteristic in science and engineering. A survey instrument designed to measure divergent thinking was administered to 8th and 11th graders in a mid-western United States school district. Results showed that there were no difference between girls and boys on the three measures of divergent thinking: fluency, flexibility, and originality. These results indicate little reason as to why participation in science and engineering is male dominated, and support the notion that additional exposure to science and engineering through divergent-thinking activities will provide girls with the self-knowledge that they are capable of solving open-ended problems and engineering tasks.

  6. Divergence in olfactory host plant preference in D. mojavensis in response to cactus host use.

    Science.gov (United States)

    Date, Priya; Dweck, Hany K M; Stensmyr, Marcus C; Shann, Jodi; Hansson, Bill S; Rollmann, Stephanie M

    2013-01-01

    Divergence in host adaptive traits has been well studied from an ecological and evolutionary perspective, but identification of the proximate mechanisms underlying such divergence is less well understood. Behavioral preferences for host plants are often mediated by olfaction and shifts in preference may be accompanied by changes in the olfactory system. In this study, we examine the evolution of host plant preferences in cactophilic Drosophila mojavensis that feeds and breeds on different cacti throughout its range. We show divergence in electrophysiological responses and olfactory behavior among populations with host plant shifts. Specifically, significant divergence was observed in the Mojave Desert population that specializes on barrel cactus. Differences were observed in electrophysiological responses of the olfactory organs and in behavioral responses to barrel cactus volatiles. Together our results suggest that the peripheral nervous system has changed in response to different ecological environments and that these changes likely contribute to divergence among D. mojavensis populations. PMID:23936137

  7. Ecological, morphological and genetic divergence of sympatric North Atlantic killer whale populations

    DEFF Research Database (Denmark)

    Foote, Andrew D; Newton, Jason; Piertney, Stuart B;

    2009-01-01

    Ecological divergence has a central role in speciation and is therefore an important source of biodiversity. Studying the micro-evolutionary processes of ecological diversification at its early stages provides an opportunity for investigating the causative mechanisms and ecological conditions...... a single fixed genetic difference in the mtDNA control region between these types, indicating integrity of groupings and a shallow divergence. Phylogenetic analysis indicates this divergence is independent of similar ecological divergences in the Pacific and Antarctic. Niche-width in the generalist...... type is more strongly influenced by between-individual variation rather than within-individual variation in the composition of the diet. This first step to divergent specialization on different ecological resources provides a rare example of the ecological conditions at the early stages of adaptive...

  8. Dike-induced contraction along oceanic and continental divergent plate boundaries

    KAUST Repository

    Trippanera, D.

    2014-10-28

    The axis of divergent plate boundaries shows extension fractures and normal faults at the surface. Here we present evidence of contraction along the axis of the oceanic ridge of Iceland and the continental Main Ethiopian Rift. Contraction is found at the base of the tilted hanging wall of dilational normal faults, balancing part of their extension. Our experiments suggest that these structures result from dike emplacement. Multiple dike injection induces subsidence above and uplift to the sides of the dikes; the transition in between is accommodated by reverse faults and subsequent peripheral inward dipping normal faults. Our results suggest that contraction is a direct product of magma emplacement along divergent plate boundaries, at various scales, marking a precise evolutionary stage and initiating part of the extensional structures (extension fractures and normal faults). Key Points Contraction along divergent plate boundaries results from dike emplacementContraction generates extensional structures along divergent plate boundariesSurface deformation along divergent plate boundaries may be magma induced

  9. Testing founder effect speciation: Divergence population genetics of the Spoonbills Platalea regia and Pl. minor (Threskiornithidae, Aves)

    Science.gov (United States)

    Yeung, Carol K.L.; Tsai, Pi-Wen; Chesser, R. Terry; Lin, Rong-Chien; Yao, Cheng-Te; Tian, Xiu-Hua; Li, Shou-Hsien

    2011-01-01

    Although founder effect speciation has been a popular theoretical model for the speciation of geographically isolated taxa, its empirical importance has remained difficult to evaluate due to the intractability of past demography, which in a founder effect speciation scenario would involve a speciational bottleneck in the emergent species and the complete cessation of gene flow following divergence. Using regression-weighted approximate Bayesian computation, we tested the validity of these two fundamental conditions of founder effect speciation in a pair of sister species with disjunct distributions: the royal spoonbill Platalea regia in Australasia and the black-faced spoonbill Pl. minor in eastern Asia. When compared with genetic polymorphism observed at 20 nuclear loci in the two species, simulations showed that the founder effect speciation model had an extremely low posterior probability (1.55 × 10-8) of producing the extant genetic pattern. In contrast, speciation models that allowed for postdivergence gene flow were much more probable (posterior probabilities were 0.37 and 0.50 for the bottleneck with gene flow and the gene flow models, respectively) and postdivergence gene flow persisted for a considerable period of time (more than 80% of the divergence history in both models) following initial divergence (median = 197,000 generations, 95% credible interval [CI]: 50,000-478,000, for the bottleneck with gene flow model; and 186,000 generations, 95% CI: 45,000-477,000, for the gene flow model). Furthermore, the estimated population size reduction in Pl. regia to 7,000 individuals (median, 95% CI: 487-12,000, according to the bottleneck with gene flow model) was unlikely to have been severe enough to be considered a bottleneck. Therefore, these results do not support founder effect speciation in Pl. regia but indicate instead that the divergence between Pl. regia and Pl. minor was probably driven by selection despite continuous gene flow. In this light, we

  10. Determining the Effect of Natural Selection on Linked Neutral Divergence across Species.

    Science.gov (United States)

    Phung, Tanya N; Huber, Christian D; Lohmueller, Kirk E

    2016-08-01

    A major goal in evolutionary biology is to understand how natural selection has shaped patterns of genetic variation across genomes. Studies in a variety of species have shown that neutral genetic diversity (intra-species differences) has been reduced at sites linked to those under direct selection. However, the effect of linked selection on neutral sequence divergence (inter-species differences) remains ambiguous. While empirical studies have reported correlations between divergence and recombination, which is interpreted as evidence for natural selection reducing linked neutral divergence, theory argues otherwise, especially for species that have diverged long ago. Here we address these outstanding issues by examining whether natural selection can affect divergence between both closely and distantly related species. We show that neutral divergence between closely related species (e.g. human-primate) is negatively correlated with functional content and positively correlated with human recombination rate. We also find that neutral divergence between distantly related species (e.g. human-rodent) is negatively correlated with functional content and positively correlated with estimates of background selection from primates. These patterns persist after accounting for the confounding factors of hypermutable CpG sites, GC content, and biased gene conversion. Coalescent models indicate that even when the contribution of ancestral polymorphism to divergence is small, background selection in the ancestral population can still explain a large proportion of the variance in divergence across the genome, generating the observed correlations. Our findings reveal that, contrary to previous intuition, natural selection can indirectly affect linked neutral divergence between both closely and distantly related species. Though we cannot formally exclude the possibility that the direct effects of purifying selection drive some of these patterns, such a scenario would be possible only

  11. Subleading Corrections to entropy formulae (convergences and divergences)

    CERN Document Server

    Ahmad, Suhail

    2012-01-01

    We know that sub-leading corrections to the hawking area law is riddled with issues which have some convergent and divergent aspects. Depending on the theory, scheme, model or even method sub-leading terms turn out to have trivial and non- trivial aspects which we are going to dwell upon. The generic character of the first sub leading logarithmic term comes out unanimously the same from all theories of quantum gravity like Strings, Loops, or even semi-classical methods with the exception that sometimes the pre-factor of logarithmic term turns out to be model dependent parameter or number hence consensus on this issue is yet to be finalized. In this paper we will try to compare and contrast how we get the corrections in various theories of quantum gravity including semi-classical methods on the variant of Black Hole that is BTZ Black Hole. Towards the end we see how the addition of chern-simon terms affects the entropy of black holes and we will make brief observations regarding the same.

  12. Genetic divergence analysis in sesame (Sesamum indicum L.

    Directory of Open Access Journals (Sweden)

    Jadhav, R. S. and Mohrir, M. N.

    2013-03-01

    Full Text Available Thirty one germplasm lines of sesame collected from AICRP on Sesame & Niger, Jabalpur and NBPGR Regional Station,Akola were evaluated for genetic divergence using Mahalanobis D2 analysis. Analysis of variances for dispersion indicatessignificant differences among the genotypes. Thirty one genotypes were grouped into seven clusters and cluster I (10 waslargest, followed by cluster II (8, cluster III (7 and cluster V (3, while clusters IV, VI and VII were solitary. Inter clusterdistance ranged from 51.96 (between clusters V and VII to 423.26 (between clusters II and VII, while maximum intracluster distance observed within cluster V (48.03. Character oil content contributed maximum (91.83% towards geneticdivergence. On the basis of the inter cluster distance, cluster I, II, III and VII were identified as distant clusters andgenotypes viz., S-0434, IC-413209, GRT-8637, NIC-16328, TKG-22, IC-413204, IC-413231, Lalguda local, KMR-116, SI-331517, IC-413208, KMS-5-343, ES-111-284, KMS-5-873, SI-3218 and SI-2973 from these clusters could be used forintercrossing to obtain heterosis and also wider variability.

  13. Divergence and convergence of conjugacies in non-Archimedean dynamics

    CERN Document Server

    Lindahl, Karl-Olof

    2011-01-01

    We continue the study in [21] of the linearizability near an indif- ferent fixed point of a power series f, defined over a field of prime characteristic p. It is known since the work of Herman and Yoccoz [13] in 1981 that Siegel's linearization theorem [27] is true also for non- Archimedean fields. However, they also showed that the condition in Siegel's theorem is 'usually' not satisfied over fields of prime character- istic. Indeed, as proven in [21], there exist power series f such that the associated conjugacy function diverges. We prove that if the degrees of the monomials of a power series f are divisible by p, then f is analyt- ically linearizable. We find a lower (sometimes the best) bound of the size of the corresponding linearization disc. In the cases where we find the exact size of the linearization disc, we show, using the Weierstrass degree of the conjugacy, that f has an indifferent periodic point on the boundary. We also give a class of polynomials containing a monomial of degree prime to p, s...

  14. Divergence of reference evapotranspiration observations with windy tropical conditions

    Directory of Open Access Journals (Sweden)

    R. G. Anderson

    2014-06-01

    Full Text Available Standardized reference evapotranspiration (ET and ecosystem-specific vegetation coefficients are frequently used to estimate actual ET. However, equations for calculating reference ET have not been well validated in tropical environments. We measured ET (ETEC using Eddy Covariance (EC towers at two irrigated sugarcane fields on the leeward (dry side of Maui, Hawaii, USA in contrasting climates. We calculated reference ET at the fields using the short (ET0 and tall (ETr vegetation versions of the American Society for Civil Engineers (ASCE equation. The ASCE equations were compared to the Priestley–Taylor ET (ETPT and ETEC. Reference ET from the ASCE approaches exceeded ETEC during the mid-period (when vegetation coefficients suggest ETEC should exceed reference ET. At the windier tower site, cumulative ETr exceeded ETEC by 854 mm over the course of the mid-period (267 days. At the less windy site, mid-period ETr still exceeded ETEC, but the difference was smaller (443 mm. At both sites, ETPT approximated mid-period ETEC more closely than the ASCE equations ((ETPT–ETEC EC was not the result of water stress or reduced vegetation cover. Use of a custom calibrated bulk canopy resistance improved the reference ET estimate and reduced seasonal ET discrepancy relative to ETPT and ETEC for the less windy field and had mixed performance at the windier field. These divergences suggest that modifications to reference ET equations may be warranted in some tropical regions.

  15. Divergence or disorder?: the politics of naming intersex.

    Science.gov (United States)

    Reis, Elizabeth

    2007-01-01

    The conditions once known under the umbrella terms intersex and hermaphroditism are now generally being called disorders of sex development in medical settings. The terms might seem synonymous, but in fact there are significant differences with controversial consequences. Hermaphroditism, an older term that can still be found in many medical writings, is vague, demeaning, and sensationalistic, conjuring mythic images of monsters and freaks. In the 1990s, activists advocated intersex to describe discordance between the multiple components of sex anatomy, but that word alienated many parents of affected children, as it suggests a self-conscious alternative gender identity and sexuality. Disorders of sex development also refers to intersex, but it deemphasizes the identity politics and sexual connotations associated with intersex, avoids the degradation associated with hermaphrodite, and instead highlights the underlying genetic or endocrine factors that cause prenatal sex development to take an unusual path. I argue that using disorder is problematic, because it implies medical conditions in need of repair, when some intersex anatomies, though atypical, do not necessarily need surgical or hormonal correction. I advocate a less pathologizing new term, divergence of sex development, that might reduce some of the conflict over nomenclature and satisfy intersex people, their parents, and their doctors. PMID:17951887

  16. Real and metaphorical hunger: the case of The Divergent Trilogy

    Directory of Open Access Journals (Sweden)

    Cristina Paravano

    2015-05-01

    Full Text Available The present contribution investigates how the issue of hunger becomes a means of expressing and communicating personal and social identity in Veronica Roth’s best seller trilogy Divergent (2011-13. Roth portrays a dystopian future developing a multifaceted concept of hunger, both real and figurative, and using food as a cultural metaphor. The trilogy is set in a post-apocalyptic Chicago, whose population is divided into five allegorical factions, according to a number of personal and social characteristics. The life of each faction seems to be based on a form of metaphorical hunger: those who pursue selflessness and altruism belong to Abnegation, peace and harmony to Amity, honesty and truth to Candor, danger and adventure to Dauntless, and knowledge and power to Erudite. Those people who are excluded become factionless: they are outcasts who live their life in extreme poverty and experience real physical hunger. On the other hand, I will show how the numerous references to food and eating pervading the novels help to map the characters’ personalities and identities as single individuals and as groups.

  17. Analysis of synergy between divergent simple retrovirus posttranscriptional control elements

    International Nuclear Information System (INIS)

    Mason-Pfizer monkey virus (MPMV) and spleen necrosis virus (SNV) are simple retroviruses that encode functionally divergent cis-acting RNA elements that use cellular proteins to facilitate nuclear export and translation of unspliced viral RNA. We tested the hypothesis that a combination of MPMV constitutive transport element (CTE) and SNV or MPMV RU5 translational enhancer on unspliced HIV-1 gag-pol reporter RNA synergistically augments Gag production. Results of transient transfection assays validate the hypothesis of synergistic augmentation in COS cells, but not 293 cells. RNA targeting experiments verified comparable responsiveness to CTE-interactive proteins tethered by RRE and RevM10Tap in COS and 293 cells. Exogeneous expression of Tap and NXT1 was necessary and sufficient to rescue Gag augmentation in 293 cells. Overexpression experiments established that CTE, but not RU5, confers the responsiveness to Tap and NXT1 and that CTE in conjunction with Tap and NXT1 conferred a 30-fold increase in translational utilization of the cytoplasmic RNA. Our results uncovered a previously unidentified role of CTE in conjunction with Tap and NXT1 in commitment to efficient cytoplasmic RNA utilization

  18. Extensive genetic divergence among Diptychus maculatus populations in northwest China

    Science.gov (United States)

    Meng, Wei; Yang, Tianyan; Hai, Sa; Ma, Yanwu; Cai, Lingang; Ma, Xufa; Gao, Tianxiang; Guo, Yan

    2015-05-01

    D. maculates is a kind of specialized Schizothoracinae fish has been locally listed as a protected animal in Xinjiang Province, China. Ili River located in north of Tianshan Mountain and Tarim River located in north of Qinghai-Tibetan Plateau were two main distribution areas of this fish. To investigate the genetic diversity and genetic structure of D. maculates, four populations from Tarim River system and two populations from Ili River system were collected in this study. A 570-bp sequence of the control region was obtained for 105 specimens. Twenty-four haplotypes were detected from six populations, only Kunes River population and Kashi River population shared haplotypes with each other. For all the populations examined, the haplotype diversity ( h) was 0.904 8±0.012 6, nucleotide diversity (π) was 0.027 9±0.013 9, and the average number of pairwise nucleotide differences ( k) was 15.878 3±7.139 1. The analysis of molecular variance (AMOVA) showed that 86.31% of the total genetic variation was apportioned among populations, and the variation within sampled populations was 13.69%. Genetic differences among sampled populations were highly significant. F st statistical test indicated that all populations were significantly divergent from each other ( PChina.

  19. Non-analytic terms from nested divergences in maximal supergravity

    Science.gov (United States)

    Basu, Anirban

    2016-07-01

    The {D}4{{ R }}4 and {D}6{{ R }}4 coefficient functions in the effective action of type II string theory compactified on T d contain terms of the form {{ E }}1{{ln}}{g}d and {{ E }}2{({{ln}}{g}d)}2 in specific dimensions, where g d is the T-duality invariant string coupling, and {{ E }}1 and {{ E }}2 are U-duality invariant coefficient functions. We derive these non-analytic terms from nested ultraviolet divergences in two and three loop maximal supergravity. For the {D}4{{ R }}4 coupling, the contribution involves {{ E }}{{ R }4}{{ln}}{g}d, while for the {D}6{{ R }}4 coupling, it involves {{ E }}{{ R }4}{{ln}}{g}d, {{ E }}{D2{{ R }}4}{({{ln}}{g}d)}2 and {{ E }}{D4{{ R }}4}{{ln}}{g}d; where {{ E }}{{ R }4}, {{ E }}{D2{{ R }}4} and {{ E }}{D4{{ R }}4} are the {{ R }}4, {D}2{{ R }}4 and {D}4{{ R }}4 coefficient functions respectively. The contribution from {{ E }}{D2{{ R }}4}, the coefficient function of an amplitude that vanishes onshell, arises from a two loop nested subdivergence of the three loop amplitude.

  20. Nonequilibrium Quantum Systems: Divergence between Global and Local Descriptions

    Directory of Open Access Journals (Sweden)

    Pedro D. Manrique

    2015-01-01

    Full Text Available Even photosynthesis—the most basic natural phenomenon underlying life on Earth—involves the nontrivial processing of excitations at the pico- and femtosecond scales during light-harvesting. The desire to understand such natural phenomena, as well as interpret the output from ultrafast experimental probes, creates an urgent need for accurate quantitative theories of open quantum systems. However it is unclear how best to generalize the well-established assumptions of an isolated system, particularly under nonequilibrium conditions. Here we compare two popular approaches: a description in terms of a direct product of the states of each individual system (i.e., a local approach versus the use of new states resulting from diagonalizing the whole Hamiltonian (i.e., a global approach. The main difference lies in finding suitable operators to derive the Lindbladian and hence the master equation. We show that their equivalence fails when the system is open, in particular under the experimentally ubiquitous condition of a temperature gradient. By solving for the steady state populations and calculating the heat flux as a test observable, we uncover stark differences between the formulations. This divergence highlights the need to establish rigorous ranges of applicability for such methods in modeling nanoscale transfer phenomena—including during the light-harvesting process in photosynthesis.

  1. When goals diverge: Staff consensus and the organizational climate.

    Science.gov (United States)

    Melnick, Gerald; Ulaszek, Wendy R; Lin, Hsiu-Ju; Wexler, Harry K

    2009-08-01

    A sample of correctional officers and prison substance abuse treatment staff collected by the National Criminal Justice Treatment Practices Survey is used to provide an exploratory study of an aspect of organizational culture consisting of consensus (agreement) among prison personnel regarding their beliefs about rehabilitation in the presence of conflicting organizational goals and aspects of the organizational climate important to change. Findings show that among those staff members responding to the survey, the belief in rehabilitation scale mean score was associated with higher levels of organizational commitment, and interdepartmental coordination. However, an hierarchical linear modeling (HLM) analysis that used an index score derived from the standard deviation for staff consensus regarding these same beliefs about rehabilitation produced a different pattern of results, showing that high levels of consensus were associated with job frustration, cynicism towards the ability of the institution to change, and lower levels of organizational commitment. The authors conclude that, although the sample may not express the beliefs of corrections officers or prison-based treatment staff at large, within the sample, consensus appeared to play a unique role in evaluating the effect of divergent goals on organizational climate as it relates to change, and warrants consideration when considering the effects of organizational climate. PMID:19097709

  2. How to understand divergent views on bipolar disorder in youth.

    Science.gov (United States)

    Carlson, Gabrielle A; Klein, Daniel N

    2014-01-01

    There are two divergent viewpoints on the phenomenology and outcome of bipolar I (BP I) disorder in youth. Disparities evolved as unintended consequences from investigators' inconsistencies both in translating the Diagnostic and Statistical Manual of Mental Disorders (DSM)-III, DSM-III-R, and DSM-IV criteria and in operationalizing them differently in their standardized assessments. Rates of conservatively diagnosed BP I are lower both in community studies of youths than in adults and from liberally defined BP I in youths. Rates of co-occurring attention-deficit hyperactivity disorder (ADHD) are lower in conservatively than liberally defined children and adolescents with BP I. Rates of both BP I and of ADHD are lower in offspring of BP I probands, and outcome more closely approximates that of adults with BP I in conservatively versus liberally defined children and teens with BP I. Both perspectives can claim evidence for reliability and validity that support their positions. However, the samples are so different that it is difficult to compare studies conducted from these different perspectives. PMID:24387237

  3. Low protein diets produce divergent effects on energy balance

    Science.gov (United States)

    Pezeshki, Adel; Zapata, Rizaldy C.; Singh, Arashdeep; Yee, Nicholas J.; Chelikani, Prasanth K.

    2016-01-01

    Diets deficient in protein often increase food consumption, body weight and fat mass; however, the underlying mechanisms remain poorly understood. We compared the effects of diets varying in protein concentrations on energy balance in obesity-prone rats. We demonstrate that protein-free (0% protein calories) diets decreased energy intake and increased energy expenditure, very low protein (5% protein) diets increased energy intake and expenditure, whereas moderately low protein (10% protein) diets increased energy intake without altering expenditure, relative to control diet (15% protein). These diet-induced alterations in energy expenditure are in part mediated through enhanced serotonergic and β-adrenergic signaling coupled with upregulation of key thermogenic markers in brown fat and skeletal muscle. The protein-free and very low protein diets decreased plasma concentrations of multiple essential amino acids, anorexigenic and metabolic hormones, but these diets increased the tissue expression and plasma concentrations of fibroblast growth factor-21. Protein-free and very low protein diets induced fatty liver, reduced energy digestibility, and decreased lean mass and body weight that persisted beyond the restriction period. In contrast, moderately low protein diets promoted gain in body weight and adiposity following the period of protein restriction. Together, our findings demonstrate that low protein diets produce divergent effects on energy balance. PMID:27122299

  4. Non--analytic terms from nested divergences in maximal supergravity

    CERN Document Server

    Basu, Anirban

    2016-01-01

    The $D^4\\mathcal{R}^4$ and $D^6\\mathcal{R}^4$ coefficient functions in the effective action of type II string theory compactified on $T^d$ contain terms of the form $\\mathcal{E}_1 {\\rm ln}g_d$ and $\\mathcal{E}_2 ({\\rm ln}g_d)^2$ in specific dimensions, where $g_d$ is the T--duality invariant string coupling, and $\\mathcal{E}_1$ and $\\mathcal{E}_2$ are U--duality invariant coefficient functions. We derive these non--analytic terms from nested ultraviolet divergences in two and three loop maximal supergravity. For the $D^4\\mathcal{R}^4$ coupling, the contribution involves $\\mathcal{E}_{\\mathcal{R}^4} {\\rm ln} g_d$, while for the $D^6\\mathcal{R}^4$ coupling, it involves $\\mathcal{E}_{\\mathcal{R}^4} {\\rm ln} g_d$, $\\mathcal{E}_{D^2\\mathcal{R}^4} ({\\rm ln} g_d)^2$ and $\\mathcal{E}_{D^4\\mathcal{R}^4} {\\rm ln} g_d$; where $\\mathcal{E}_{\\mathcal{R}^4}$, $\\mathcal{E}_{D^2\\mathcal{R}^4}$ and $\\mathcal{E}_{D^4\\mathcal{R}^4}$ are the $\\mathcal{R}^4$, $D^2\\mathcal{R}^4$ and $D^4\\mathcal{R}^4$ coefficient functions respect...

  5. Low protein diets produce divergent effects on energy balance.

    Science.gov (United States)

    Pezeshki, Adel; Zapata, Rizaldy C; Singh, Arashdeep; Yee, Nicholas J; Chelikani, Prasanth K

    2016-01-01

    Diets deficient in protein often increase food consumption, body weight and fat mass; however, the underlying mechanisms remain poorly understood. We compared the effects of diets varying in protein concentrations on energy balance in obesity-prone rats. We demonstrate that protein-free (0% protein calories) diets decreased energy intake and increased energy expenditure, very low protein (5% protein) diets increased energy intake and expenditure, whereas moderately low protein (10% protein) diets increased energy intake without altering expenditure, relative to control diet (15% protein). These diet-induced alterations in energy expenditure are in part mediated through enhanced serotonergic and β-adrenergic signaling coupled with upregulation of key thermogenic markers in brown fat and skeletal muscle. The protein-free and very low protein diets decreased plasma concentrations of multiple essential amino acids, anorexigenic and metabolic hormones, but these diets increased the tissue expression and plasma concentrations of fibroblast growth factor-21. Protein-free and very low protein diets induced fatty liver, reduced energy digestibility, and decreased lean mass and body weight that persisted beyond the restriction period. In contrast, moderately low protein diets promoted gain in body weight and adiposity following the period of protein restriction. Together, our findings demonstrate that low protein diets produce divergent effects on energy balance. PMID:27122299

  6. Genetic Divergence Analysis In Indigenous Maize Germplasms (Zea Mays L.

    Directory of Open Access Journals (Sweden)

    K.N. Ganesan, G. Nallathambi, Thura Safawo, N. Senthil and P. M. Tamilarasi

    2010-07-01

    Full Text Available Assessing the genetic diversity is a pre-requisite for any breeding programme to select appropriate parents forhybridization. A total of 105 adapted maize germplasms lines were subjected to Mahalanobis D2analysis based on fourcharacteristics viz., plant height, cob height, cob length and number of kernel rows per cob in order to assess the genetic divergenceamong them. The analysis grouped the genotypes into four clusters. Among them, cluster IV was the largest with 53 genotypesfollowed by cluster II with 32 genotypes. The percent contribution of each traits for total divergence revealed the highestcontribution from Plant height followed by ear length, number of kernel rows per cob and ear height. The maximum intra-clusterdistance was observed in cluster II followed by cluster I and IV. The highest inter cluster distance was observed between cluster IIIand cluster IV followed by cluster I and III indicating greater variability in genetic make up of the genotypes included in theseclusters. Based on inter cluster distances, genotypes present in the clusters viz., I, III and IV are advisable to used as parents forhybridization programme to develop heterotic hybrids in maize.

  7. Divergent signaling via SUMO modification: potential for CFTR modulation.

    Science.gov (United States)

    Ahner, Annette; Gong, Xiaoyan; Frizzell, Raymond A

    2016-02-01

    The cystic fibrosis transmembrane conductance regulator (CFTR) is generally responsible for the cAMP/PKA regulated anion conductance at the apical membranes of secretory epithelial cells. Mutations in CFTR underlie cystic fibrosis (CF), in which the most common variant, F508del, causes protein misfolding and its proteasome-mediated degradation. A new pathway that contributes to mutant CFTR degradation is mediated by the small heat shock protein, Hsp27, which cooperates with Ubc9, the E2 enzyme for SUMOylation, to selectively conjugate mutant CFTR with SUMO-2/3. This SUMO paralog can form polychains, which are recognized by the ubiquitin E3 enzyme, RNF4, leading to CFTR ubiquitylation and recognition by the proteasome. We found also that F508del CFTR could be modified by SUMO-1, a paralog that does not support SUMO polychain formation. The use of different SUMO paralogs to modify and target a single substrate for divergent purposes is not uncommon. In this short review we discuss the possibility that conjugation with SUMO-1 could protect mutant CFTR from disposal by RNF4 and similar ubiquitin ligases. We hypothesize that such a pathway could contribute to therapeutic efforts to stabilize immature mutant CFTR and thereby enhance the action of therapeutics that correct CFTR trafficking to the apical membranes. PMID:26582473

  8. Exploring the correlations between sequence evolution rate and phenotypic divergence across the Mammalian tree provides insights into adaptive evolution

    Indian Academy of Sciences (India)

    Jan Janecka; Bhanu Chowdhary; William Murphy

    2012-11-01

    Sequence evolution behaves in a relatively consistent manner, leading to one of the fundamental paradigms in biology, the existence of a `molecular clock’. The molecular clock can be distilled to the concept of accumulation of substitutions, through time yielding a stable rate from which we can estimate lineage divergence. Over the last 50 years, evolutionary biologists have obtained an in-depth understanding of this clock’s nuances. It has been fine-tuned by taking into account the vast heterogeneity in rates across lineages and genes, leading to `relaxed’ molecular clock methods for timetree reconstruction. Sequence rate varies with life history traits including body size, generation time and metabolic rate, and we review recent studies on this topic. However, few studies have explicitly examined correlates between molecular evolution and morphological evolution. The patterns observed across diverse lineages suggest that rates of molecular and morphological evolution are largely decoupled. We discuss how identifying the molecular mechanisms behind rapid functional radiations are central to understanding evolution. The vast functional divergence within mammalian lineages that have relatively `slow’ sequence evolution refutes the hypotheses that pulses in diversification yielding major phenotypic change are the result of steady accumulation of substitutions. Patterns rather suggest phenotypic divergence is likely caused by regulatory alterations mediated through mechanisms such as insertions/deletions in functional regions. These can rapidly arise and sweep to fixation faster than predicted from a lineage’s sequence neutral substitution rate, enabling species to leapfrog between phenotypic `islands’. We suggest research directions that could illuminate mechanisms behind the functional diversity we see today.

  9. A universal mechanism generating clusters of differentiated loci during divergence-with-migration.

    Science.gov (United States)

    Rafajlović, Marina; Emanuelsson, Anna; Johannesson, Kerstin; Butlin, Roger K; Mehlig, Bernhard

    2016-07-01

    Genome-wide patterns of genetic divergence reveal mechanisms of adaptation under gene flow. Empirical data show that divergence is mostly concentrated in narrow genomic regions. This pattern may arise because differentiated loci protect nearby mutations from gene flow, but recent theory suggests this mechanism is insufficient to explain the emergence of concentrated differentiation during biologically realistic timescales. Critically, earlier theory neglects an inevitable consequence of genetic drift: stochastic loss of local genomic divergence. Here, we demonstrate that the rate of stochastic loss of weak local differentiation increases with recombination distance to a strongly diverged locus and, above a critical recombination distance, local loss is faster than local "gain" of new differentiation. Under high migration and weak selection, this critical recombination distance is much smaller than the total recombination distance of the genomic region under selection. Consequently, divergence between populations increases by net gain of new differentiation within the critical recombination distance, resulting in tightly linked clusters of divergence. The mechanism responsible is the balance between stochastic loss and gain of weak local differentiation, a mechanism acting universally throughout the genome. Our results will help to explain empirical observations and lead to novel predictions regarding changes in genomic architectures during adaptive divergence. PMID:27196373

  10. Indirect trophic interactions with an invasive species affect phenotypic divergence in a top consumer.

    Science.gov (United States)

    Hirsch, P E; Eklöv, P; Svanbäck, R

    2013-05-01

    While phenotypic responses to direct species interactions are well studied, we know little about the consequences of indirect interactions for phenotypic divergence. In this study we used lakes with and without the zebra mussel to investigate effects of indirect trophic interactions on phenotypic divergence between littoral and pelagic perch. We found a greater phenotypic divergence between littoral and pelagic individuals in lakes with zebra mussels and propose a mussel-mediated increase in pelagic and benthic resource availability as a major factor underlying this divergence. Lakes with zebra mussels contained higher densities of large plankton taxa and large invertebrates. We suggest that this augmented resource availability improved perch foraging opportunities in both the littoral and pelagic zones. Perch in both habitats could hence express a more specialized foraging morphology, leading to an increased divergence of perch forms in lakes with zebra mussels. As perch do not prey on mussels directly, we conclude that the increased divergence results from indirect interactions with the mussels. Our results hence suggest that species at lower food web levels can indirectly affect phenotypic divergence in species at the top of the food chain. PMID:23463242

  11. Divergent creative thinking in young and older adults: Extending the effects of an episodic specificity induction.

    Science.gov (United States)

    Madore, Kevin P; Jing, Helen G; Schacter, Daniel L

    2016-08-01

    Recent research has suggested that an episodic specificity induction-brief training in recollecting the details of a past experience-enhances divergent creative thinking on the alternate uses task (AUT) in young adults, without affecting performance on tasks thought to involve little divergent thinking; however, the generalizability of these results to other populations and tasks is unknown. In the present experiments, we examined whether the effects of an episodic specificity induction would extend to older adults and a different index of divergent thinking, the consequences task. In Experiment 1, the specificity induction significantly enhanced divergent thinking on the AUT in both young and older adults, as compared with a control induction not requiring specific episodic retrieval; performance on a task involving little divergent thinking (generating associates for common objects) did not vary as a function of induction. No overall age-related differences were observed on either task. In Experiment 2, the specificity induction significantly enhanced divergent thinking (in terms of generating consequences of novel scenarios) in young adults, relative to another control induction not requiring episodic retrieval. To examine the types of creative ideas affected by the induction, the participants in both experiments also labeled each of their divergent-thinking responses as an "old idea" from memory or a "new idea" from imagination. New, and to some extent old, ideas were significantly boosted following the specificity induction relative to the control. These experiments provide novel evidence that an episodic specificity induction can boost divergent thinking in young and older adults, and indicate that episodic memory is involved in multiple divergent-thinking tasks. PMID:27001170

  12. Differential gene expression in seasonal sympatry: mechanisms involved in diverging life histories.

    Science.gov (United States)

    Fudickar, Adam M; Peterson, Mark P; Greives, Timothy J; Atwell, Jonathan W; Bridge, Eli S; Ketterson, Ellen D

    2016-03-01

    In an era of climate change, understanding the genetic and physiological mechanisms underlying flexibility in phenology and life history has gained greater importance. These mechanisms can be elucidated by comparing closely related populations that differ in key behavioural and physiological traits such as migration and timing of reproduction. We compared gene expression in two recently diverged dark-eyed Junco ( Junco hyemalis) subspecies that live in seasonal sympatry during winter and early spring, but that differ in behaviour and physiology, despite exposure to identical environmental cues. We identified 547 genes differentially expressed in blood and pectoral muscle. Genes involved in lipid transport and metabolism were highly expressed in migrant juncos, while genes involved in reproductive processes were highly expressed in resident breeders. Seasonal differences in gene expression in closely related populations residing in the same environment provide significant insights into mechanisms underlying variation in phenology and life history, and have potential implications for the role of seasonal timing differences in gene flow and reproductive isolation. PMID:26979563

  13. Divergent Arctic-Boreal Vegetation Changes between North America and Eurasia over the Past 30 Years

    Directory of Open Access Journals (Sweden)

    Arindam Samanta

    2013-05-01

    Full Text Available Arctic-Boreal region—mainly consisting of tundra, shrub lands, and boreal forests—has been experiencing an amplified warming over the past 30 years. As the main driving force of vegetation growth in the north, temperature exhibits tight coupling with the Normalized Difference Vegetation Index (NDVI—a proxy to photosynthetic activity. However, the comparison between North America (NA and northern Eurasia (EA shows a weakened spatial dependency of vegetation growth on temperature changes in NA during the past decade. If this relationship holds over time, it suggests a 2/3 decrease in vegetation growth under the same rate of warming in NA, while the vegetation response in EA stays the same. This divergence accompanies a circumpolar widespread greening trend, but 20 times more browning in the Boreal NA compared to EA, and comparative greening and browning trends in the Arctic. These observed spatial patterns of NDVI are consistent with the temperature record, except in the Arctic NA, where vegetation exhibits a similar long-term trend of greening to EA under less warming. This unusual growth pattern in Arctic NA could be due to a lack of precipitation velocity compared to the temperature velocity, when taking velocity as a measure of northward migration of climatic conditions.

  14. Characterization and phylogenetic analysis of -gliadin gene sequences reveals significant genomic divergence in Triticeae species

    Indian Academy of Sciences (India)

    Guang-Rong Li; Tao Lang; En-Nian Yang; Cheng Liu; Zu-Jun Yang

    2014-12-01

    Although the unique properties of wheat -gliadin gene family are well characterized, little is known about the evolution and genomic divergence of -gliadin gene family within the Triticeae. We isolated a total of 203 -gliadin gene sequences from 11 representative diploid and polyploid Triticeae species, and found 108 sequences putatively functional. Our results indicate that -gliadin genes may have possibly originated from wild Secale species, where the sequences contain the shortest repetitive domains and display minimum variation. A miniature inverted-repeat transposable element insertion is reported for the first time in -gliadin gene sequence of Thinopyrum intermedium in this study, indicating that the transposable element might have contributed to the diversification of -gliadin genes family among Triticeae genomes. The phylogenetic analyses revealed that the -gliadin gene sequences of Dasypyrum, Australopyrum, Lophopyrum, Eremopyrum and Pseudoroengeria species have amplified several times. A search for four typical toxic epitopes for celiac disease within the Triticeae -gliadin gene sequences showed that the -gliadins of wild Secale, Australopyrum and Agropyron genomes lack all four epitopes, while other Triticeae species have accumulated these epitopes, suggesting that the evolution of these toxic epitopes sequences occurred during the course of speciation, domestication or polyploidization of Triticeae.

  15. Geographic divergence in upper thermal limits across insect life stages: does behavior matter?

    Science.gov (United States)

    MacLean, Heidi J; Higgins, Jessica K; Buckley, Lauren B; Kingsolver, Joel G

    2016-05-01

    Insects with complex life cycles vary in size, mobility, and thermal ecology across life stages. We examine how differences in the capacity for thermoregulatory behavior influence geographic differences in physiological heat tolerance among egg and adult Colias butterflies. Colias adults exhibit differences in morphology (wing melanin and thoracic setal length) along spatial gradients, whereas eggs are morphologically indistinguishable. Here we compare Colias eriphyle eggs and adults from two elevations and Colias meadii from a high elevation. Hatching success and egg development time of C. eriphyle eggs did not differ significantly with the elevation of origin. Egg survival declined in response to heat-shock temperatures above 38-40 °C and egg development time was shortest at intermediate heat-shock temperatures of 33-38 °C. Laboratory experiments with adults showed survival in response to heat shock was significantly greater for Colias from higher than from lower elevation sites. Common-garden experiments at the low-elevation field site showed that C. meadii adults initiated heat-avoidance and over-heating behaviors significantly earlier in the day than C. eriphyle. Our study demonstrates the importance of examining thermal tolerances across life stages. Our findings are inconsistent with the hypothesis that thermoregulatory behavior inhibits the geographic divergence of physiological traits in mobile stages, and suggest that sessile stages may evolve similar heat tolerances in different environments due to microclimatic variability or evolutionary constraints. PMID:26849879

  16. Nonparametric Information Geometry: From Divergence Function to Referential-Representational Biduality on Statistical Manifolds

    OpenAIRE

    Jun Zhang

    2013-01-01

    Divergence functions are the non-symmetric “distance” on the manifold, Μθ, of parametric probability density functions over a measure space, (Χ,μ). Classical information geometry prescribes, on Μθ: (i) a Riemannian metric given by the Fisher information; (ii) a pair of dual connections (giving rise to the family of α-connections) that preserve the metric under parallel transport by their joint actions; and (iii) a family of divergence functions ( α-divergence) defined on Μθ x Μθ, which induce...

  17. Minimization and Parameter Estimation for Seminorm Regularization Models with I-Divergence Constraints

    OpenAIRE

    Teuber, Tanja; Steidl, Gabriele; Chan, Raymond Honfu

    2012-01-01

    This papers deals with the minimization of seminorms \\(\\|L\\cdot\\|\\) on \\(\\mathbb R^n\\) under the constraint of a bounded I-divergence \\(D(b,H\\cdot)\\). The I-divergence is also known as Kullback-Leibler divergence and appears in many models in imaging science, in particular when dealing with Poisson data. Typically, \\(H\\) represents here, e.g., a linear blur operator and \\(L\\) is some discrete derivative operator. Our preference for the constrained approach over the corresponding penalized ...

  18. Quenched Chiral Logarithm Diverge in Very Light Quark Region from the Overlap Lattice Quantum Chromodynamics

    Institute of Scientific and Technical Information of China (English)

    应和平; 董绍静; 张剑波

    2003-01-01

    With an exact chiral symmetry, overlap fermions allow us to reach very light quark region. In the minimummps = 179 MeV, the quenched chiral logarithm diverge is examined. The chiral logarithm parameter δ is calculatedfrom both the pseudo-scalar meson mass mp2s diverge channel and the pseudo-scalar decay constant f p channel.In both the cases, we obtain δ = 0.25 ± 0.03. We also observe that the quenchedchiral logarithm diverge occursonly in the mps ≤400 MeV region.

  19. Design of Diverging Stacked Bar Charts for Likert Scales and Other Applications

    Directory of Open Access Journals (Sweden)

    Richard Heiberger

    2014-04-01

    Full Text Available Rating scales, such as Likert scales, are very common in marketing research, customer satisfaction studies, psychometrics, opinion surveys, population studies, and numerous other fields. We recommend diverging stacked bar charts as the primary graphical display technique for Likert and related scales. We also show other applications where diverging stacked bar charts are useful. Many examples of plots of Likert scales are given. We discuss the perceptual and programming issues in constructing these graphs. We present two implementations for diverging stacked bar charts. Most examples in this paper were drawn with the likert function included in the HH package in R. We also have a dashboard in Tableau.

  20. Stochastic population dynamics in populations of western terrestrial garter snakes with divergent life histories

    Science.gov (United States)

    Miller, David A.; Clark, W.R.; Arnold, S.J.; Bronikowski, A.M.

    2011-01-01

    Comparative evaluations of population dynamics in species with temporal and spatial variation in life-history traits are rare because they require long-term demographic time series from multiple populations. We present such an analysis using demographic data collected during the interval 1978-1996 for six populations of western terrestrial garter snakes (Thamnophis elegans) from two evolutionarily divergent ecotypes. Three replicate populations from a slow-living ecotype, found in mountain meadows of northeastern California, were characterized by individuals that develop slowly, mature late, reproduce infrequently with small reproductive effort, and live longer than individuals of three populations of a fast-living ecotype found at lakeshore locales. We constructed matrix population models for each of the populations based on 8-13 years of data per population and analyzed both deterministic dynamics based on mean annual vital rates and stochastic dynamics incorporating annual variation in vital rates. (1) Contributions of highly variable vital rates to fitness (??s) were buffered against the negative effects of stochastic variation, and this relationship was consistent with differences between the meadow (M-slow) and lakeshore (L-fast) ecotypes. (2) Annual variation in the proportion of gravid females had the greatest negative effect among all vital rates on ?? s. The magnitude of variation in the proportion of gravid females and its effect on ??s was greater in M-slow than L-fast populations. (3) Variation in the proportion of gravid females, in turn, depended on annual variation in prey availability, and its effect on ??s was 4- 23 times greater in M-slow than L-fast populations. In addition to differences in stochastic dynamics between ecotypes, we also found higher mean mortality rates across all age classes in the L-fast populations. Our results suggest that both deterministic and stochastic selective forces have affected the evolution of divergent life