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1,659 results for “structured population”
Figure 2 in Hidden diversity of the genus Trinomys (Rodentia: Echimyidae): phylogenetic and populational structure analyses uncover putative new lineages
Figure 2. mt-Cytb gene time-tree reconstructed by Bayesian analysis. Horizontal bar on the nodes indicates 95% HPD. The values at the nodes represent the posterior probability and the height of the molecular dating analysis, respectively. Vertical bars indicate the ESUS by bPTP and GMYC, respectively. Red dashed rectangles indicate possible new lineages.
Figure 1 in Hidden diversity of the genus Trinomys (Rodentia: Echimyidae): phylogenetic and populational structure analyses uncover putative new lineages
Figure 1. Map with localities of analysed sampled for each species of Trinomys. Sergipe: (1) Fazenda Cruzeiro; Bahia: (2) Ibiraba, (3) Faz. Jaboticaba, (4) Morro do Chapéu, (5) Morrão, (6) Ibipeba, (7) Abaíra, (8) Caetité, (9) Porto Seguro, (10) Cumuruxatiba; Minas Gerais: (11) Joaíma, (12) Turmalina (13) Serro, (14) Conceição do Mato Dentro, (15) Catas Altas, (16) Faz. Esmeralda, (17) Serra do Brigadeiro; Espírito Santo: (18) Aracruz, (19) Domingo Martins, (20) Guarapari; Rio de Janeiro: (21) Cambucí, (22) São Francisco de Itabapoana, (23) Campos dos Goytacazes, (24) Santa Maria Magdalena, (25) Conceição de Macabu, (26) Carapebus, (27) Cabiúnas, (28) Rio das Ostras, (29) Correntezas, (30) Silva Jardim, (31) Sumidouro, (32) Nova Friburgo, (33) Cachoeira de Macacu, (34) PN Serra dos Órgãos, (35) Petrópolis, (36) Guapimirim, (37) Restinga de Maricá, (38) Itaipuaçu, (39) PN da Tijuca, (40) Itatiaia, (41) Rio Claro, (42) Ilha Grande, Vila Dois Rios, (43) Ilha Grande, Parnaióca, (44) Ilha Grande, Aventureiro, (45) Angra dos Reis, (46) Tarituba, (47) Paraty, (48) Trindade, São Paulo: (49) Picinguaba, (50) Ubatuba, (51) Ilha de São Sebastião, (52) Ilha do Cardoso, (53) Boracéia, (54) Carlos Botelho.
Data for: Genomic variation across Chinook salmon populations reveals effects of a duplication on migration alleles and supports fine scale structure
<p>Distribution of ecotypic variation in natural populations is influenced by neutral and adaptive evolutionary forces that are challenging to disentangle without understanding of genomic architecture for phenotypic traits. This study provides a high-resolution portrait of genomic variation in Chinook salmon (<em>Oncorhynchus</em> <em>tshawytscha</em>) with emphasis on a region of major effect for ecotypic variation in migration timing. With a filtered dataset of ~13 million SNPs from low coverage whole genome resequencing of 53 populations (3,566 barcoded individuals), we contrasted patterns of genomic variation within and among major lineages and examined the extent of a selective sweep at a major effect region underlying migration timing (GREB1L/ROCK1). Allele frequency variation in GREB1L/ROCK1 was highly correlated with mean migration timing for early- and late-run populations within each of the lineages (r<sup>2</sup> between 0.58–0.95; P < 0.001). However, the extent of selection within the genomic region controlling migration timing was much narrower in one lineage (interior stream-type) compared to the other two major lineages which corresponded to the breadth of phenotypic variation in migration timing observed among lineages. Evidence of a duplicated block within GREB1L/ROCK1 may be responsible for reduced recombination in this portion of the genome and contributes to phenotypic variation within and across lineages. Lastly, SNP positions across GREB1L/ROCK1 were assessed for their utility in discriminating migration timing among lineages, and we recommend multiple markers nearest the duplication to provide highest accuracy in conservation applications such as those that aim to protect early migrating Chinook salmon. These results highlight the need to investigate variation throughout the genome and the effects of structural variants on ecologically relevant phenotypic variation in natural species.</p>
Phylogeography and population genetic structure of the cardinal tetra (Paracheirodon axelrodi) in the Orinoco basin and Negro River (Amazon basin): evaluating connectivity and historical patterns of diversification
<p class="MsoNormal"><span class="Fuentedeprrafopredeter1"><span>The Neotropics contain one of the most diverse assemblages of freshwater fishes worldwide. Part of this diversity is shared between the Orinoco and Amazon basins. These basins have been separated for a long time due to the Vaupes Arch, rising between 10 - 11 Ma. T</span></span><span class="Fuentedeprrafopredeter1"><span>oday, there is only one permanent connection between the Orinoco and Negro </span></span><span class="Fuentedeprrafopredeter1"><span>(Amazon) </span></span><span class="Fuentedeprrafopredeter1"><span>basins, known as the Casiquiare Canal</span></span><span class="Fuentedeprrafopredeter1"><span>. </span></span><span class="Fuentedeprrafopredeter1"><span>However, alternative corridors allowing fish dispersion between both basins have been proposed. The cardinal tetra (<em>Paracheirodon axelrodi),</em> the most important fish in the ornamental world market, is distributed in both basins. Here we investigated </span></span><span class="Fuentedeprrafopredeter1"><em><span>P. axelrodi </span></em></span><span class="Fuentedeprrafopredeter1"><span>phylogeography, population structure, and potential routes of migration and connectivity between the two basins. A total of 468 bp of the mitochondrial gene (COI), 555 bp of the nuclear gene fragment (MYH6), and 8 microsatellite loci were analyzed. </span></span><span class="Fuentedeprrafopredeter1"><span>As a result, we found two major genetic clusters as the most likely scenario (K=2), but they were not discreetly distributed between basins. A gradient of genetic admixture was observed in Cucui and </span></span><span class="Fuentedeprrafopredeter1"><span>São</span></span><span class="Fuentedeprrafopredeter1"><span> Gabriel da Cachoeira, between the upper Negro River and the upper Orinoco. Samples from the middle-lower Negro River were highly structured. </span></span><span class="Fuentedeprrafopredeter1"><span>Cucui (Negro basin) was more similar to the Orinoco than to the rest of the Negro basin populations. </span></span><span class="Fuentedeprrafopredeter1"><span>However, substructure was also observed by the discriminant analysis, fixation indices and other hierarchichal structure analyses (K=3-6), showing three major geographic clusters: Orinoco, Cucui, and the remaining of the Negro basin. </span></span><span class="Fuentedeprrafopredeter1"><span>Unidirectional migration patterns were detected between basins: via Cucui toward Orinoco and via the remaining of the Negro basin toward Orinoco. Results from the Relaxed Random Walk analysis support a very recent origin of this species in the headwater Orinoco basin (Western Guiana Shield, at late Pleistocene) with a later rapid colonization of the remaining Orinoco basin and almost simultaneously the Negro River via Cucui, between 0.115 until about 0.001 Ma. Historical biogeography and population genetic patterns observed here for Cardinal tetra, seem to be better explained by river capture, physical, or ecological barriers than due to the geographic distance.</span></span></p>
Data for Selfing species has greater genetic diversity and less structure than related outcrossing species due to seed dispersal and population history in Roscoea (Zingiberaceae)
<p>Data matrix of two species with nexus format.</p>
Assessment of genetic diversity, population structure and wolf-dog hybridisation in the Eastern Romanian Carpathian wolf population
<p class="MsoNormal"><span>The Carpathian Mountains were always inhabited by grey wolves and present one of the largest distribution areas in Europe, comprising between 2,300 to 2,700 individuals in Romania. To date, however, relatively little is known about the Romanian wolf population. We aimed to provide a first assessment of genetic diversity, population structure and wolf-dog hybridisation based on 444 mostly non-invasively collected samples in the Eastern Romanian Carpathians. Pack reconstruction and analysis of population genetic parameters were performed with mitochondrial DNA control-region sequencing and microsatellite genotyping. We found relatively high levels of genetic diversity, which is similar to values found in previous studies on Carpathian wolves from Poland and Slovakia, as well as to the long-lasting Dinaric-Balkan wolf population. We found no significant population structure in our study region, suggesting effective dispersal and admixture. Analysis of wolf-dog hybridisation using a Single Nucleotide Polymorphism panel optimised for hybrid detection revealed low rates of admixture between wolves and domestic dogs. Our results provide evidence for the existence of a genetically viable wolf population in the Romanian Carpathians. The genetic data obtained in this study may serve as valuable baseline information for the elaboration of monitoring standards and management plans for wolves in Romania.</span></p>
Apoe Impact Study on Brain Structure and Function, in a Population 45 to 75 Years Old
ClinicalTrials.gov study NCT02198586. IPD Sharing: Not stated. Countries: 1. Publications: 2.
Human Genomic Population Structure and Phenotype-genotype Variation in ADME Genes in Four Populations
ClinicalTrials.gov study NCT02789527. IPD Sharing: UNDECIDED. Countries: 4. Publications: 1.
Population structure of Drosophila suzukii and signals of multiple invasions in the continental United States
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Data from: Continent-wide population genomic structure and phylogeography of North America’s most destructive conifer defoliator, the spruce budworm (Choristoneura fumiferana)
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Data from: Initial genetic diversity enhances population establishment and alters genetic structuring of a newly established Daphnia metapopulation
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Data from: Genetic diversity, population structure and ancestral origin of Australian wheat
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Data from: Population genetic structure and connectivity of the seagrass Thalassia hemprichii in the Western Indian Ocean is influenced by predominant ocean currents
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Data from: Population density and structure drive differential investment in pre- and postmating sexual traits in frogs
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Data from: A worldwide perspective on the population structure and genetic diversity of bottlenose dolphins (Tursiops truncatus) in New Zealand
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Data from: Genomic diversity, population structure, and migration following rapid range expansion in the balsam poplar, Populus balsamifera
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Data from: Strong population genetic structure of an invasive species, Rhynchophorus ferrugineus (Olivier), in southern China
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Data from: Genetic diversity and population structure of Glossina morsitans morsitans in the active foci of human African trypanosomiasis in Zambia and Malawi
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Data from: Nutrient availability and atmospheric CO2 partial pressure modulate the effects of nutrient heterogeneity on the size structure of populations in grassland species
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Data from: Temporal variation in the genetic structure of a drone congregation area: An insight into the population dynamics of wild African honeybees (Apis mellifera scutellata)
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Allen Brain Atlas
Allen Brain Atlas is an Allen Institute collection of brain map atlases, datasets, APIs, and analysis tools covering mouse, human, and non-human primate brain resources.
Annotated Behaviour and Observability Dataset (ABODe)
ABODe is a University of Edinburgh DataShare dataset for behavior classification in group-housed mice using home-cage video, identities, bounding boxes, ground-plate positions, and annotator labels.
DANDI Archive for NWB datasets
DANDI is a BRAIN Initiative archive for publishing and sharing neurophysiology data, including electrophysiology, optophysiology, and behavioral data packaged as NWB and related standards.
International Brain Laboratory public data
The International Brain Laboratory public data releases expose standardized mouse decision-making experiments, including Neuropixels recordings, widefield calcium imaging, behavior, and session metadata accessed through the ONE API.
OpenNeuro
OpenNeuro is a free, open platform for sharing neuroimaging datasets, with public search, dataset pages, and download paths for web, S3, DataLad, and the OpenNeuro CLI.