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675 results for “Introgression”
Disentangling complex histories of hybridisation: The genomic consequences of ancient and recent introgression in Channel Island monkeyflowers
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Genome-wide sequence data show no evidence of hybridization and introgression among pollinator wasps associated with a community of Panamanian strangler figs
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Selection shapes the genomic landscape of introgressed ancestry in a pair of sympatric sea urchin species
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Power of Bayesian and heuristic tests to detect cross-species introgression with reference to gene flow in the Tamias quadrivittatus group of North American chipmunks
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Interspecific introgression and widespread intraspecific gene flow in a clade of tropical and subtropical seabirds
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Hybrid lizards with introgressed mtDNA show increased resistance to DNA damage from Reactive Oxygen Species
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Data from: Contact zones reveal restricted introgression despite frequent hybridization across a recent lizard radiation
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Pollinator and host sharing lead to hybridization and introgression in Panamanian free-standing figs, but not in their pollinator wasps
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Data from: Introgressed variants obscure phylogenetic relationships but are not subject to positive selection in Australasian long-tailed parrots
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High heterogeneity in genomic differentiation between phenotypically divergent songbirds: A test of mitonuclear co-introgression
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Introgression between Sphyrapicus nuchalis and S. varius sapsuckers in a hybrid zone in west-central Alberta
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Data from: Repeated mitochondrial capture with limited genomic introgression in a lizard group
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Whole-genome sequencing reveals asymmetric introgression between two sister species of cold-resistant leaf beetles
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Phenotypic homogenization and potential fitness constraints following non-native introgression in an endemic sportfish
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Reduced fitness associated with introgression within the Western Mediterranean admixed population of European seabass
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The MUC19 Gene: An Evolutionary History of Recurrent Introgression and Natural Selection
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Multigenerational hybridisation results in heterosis and facilitates adaptive introgression, with no evidence of outbreeding depression in a pair of marine gastropods
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Signals interpreted as archaic introgression are driven primarily by accelerated evolution in Africa
<p>Non-African humans appear to carry a few percent archaic DNA due to ancient inter-breeding. This modest legacy and its likely recent timing imply that most introgressed fragments will be rare and hence will occur mainly in the heterozygous state. I tested this prediction by calculating D statistics, a measure of legacy size, for pairs of humans where one of the pair was conditioned always to be either homozygous or heterozygous. Using coalescent simulations, I confirmed that conditioning the non-African to be heterozygous increased D while conditioning the non-African to be homozygous reduced D to zero. Repeating with real data reveals the exact opposite pattern. In African – non-African comparisons, D is near-zero if the African individual is held homozygous. Conditioning one of two Africans to be either homozygous or heterozygous invariably generates large values of D, even when both individuals are drawn from the same population. Invariably, the African with more heterozygous sites (conditioned heterozygous > unconditioned > conditioned homozygous) appears less related to the archaic. In contrast, the same analysis applied to pairs of non-Africans always yields near-zero D, showing that conditioning does not create large D without an underlying signal to expose. Large D values in humans are therefore driven almost entirely by heterozygous sites in Africans acting to increase divergence from related taxa such as Neanderthals. In comparison with heterozygous Africans, individuals that lack African heterozygous sites, whether non-African or conditioned homozygous African, always appear more similar to archaic outgroups, a signal previously interpreted as evidence for introgression. I hope these analyses will encourage others to consider increased divergence as well as increased similarity to archaics as mechanisms capable of driving asymmetrical base-sharing.</p>
Diversification, introgression, and rampant cytonuclear discordance in Rocky Mountains Chipmunks (Sciuridae: Tamias)
<p>Evidence from natural systems suggests that hybridization between animal species is more common than traditionally thought, but the overall contribution of introgression to standing genetic variation within species remains unclear for most animal systems. Here, we use targeted exon-capture to sequence thousands of nuclear loci and complete mitochondrial genomes from closely related chipmunk species in the <i>Tamias quadrivittatus</i> group that are distributed across the Great Basin and the central and southern Rocky Mountains of North America. This recent radiation includes six overlapping, ecologically distinct species (<i>T. canipes</i>, <i>T. cinereicollis</i>, <i>T. dorsalis</i>, <i>T. quadrivittatus</i>, <i>T. rufus</i>, and <i>T. umbrinus</i>) that show evidence for widespread mitochondrial introgression across species boundaries. Such evidence has historically derived from a handful of markers, typically focused on mitochondrial loci, to describe patterns of introgression; consequently, the extent of introgression of nuclear genes is less well characterized. We conducted a series of phylogenomic and species-tree analyses to resolve the phylogeny of six species in this group. In addition, we performed several population genomic analyses to characterize nuclear genomes and infer coancestry among individuals. Furthermore, we used emerging quartets-based approaches to simultaneously infer the species tree (SVDquartets) and identify introgression (HyDe). We found that, in spite of rampant introgression of mitochondrial genomes between some species pairs (and sometimes involving up to three species), there appears to be little to no evidence for nuclear introgression. These findings mirror other genomic results where complete mitochondrial capture has occurred between chipmunk species in the absence of appreciable nuclear gene flow. The underlying causes of recurrent massive cytonuclear discordance remain unresolved in this group but mitochondrial DNA appears highly misleading of population histories as a whole. Collectively, it appears that chipmunk species boundaries are largely impermeable to nuclear gene flow and that hybridization, while pervasive with respect to mtDNA, has likely played a relatively minor role in the evolutionary history of this group.</p>
Data from: Whole-genome analyses provide no evidence for dog introgression in Fennoscandian wolf populations
<p>Hybridisation and admixture can threaten the genetic integrity of populations and be of particular concern to endangered species. Hybridisation between grey wolves and dogs has been documented in many wolf populations worldwide and is a prominent example of human-mediated hybridisation between a domesticated species and its wild relative. We analysed whole-genome sequences from >200 wolves and >100 dogs to study admixture in Fennoscandian wolf populations. A principal component analysis of genetic variation as well as Admixture showed that wolves and dogs were well separated, without evidence for introgression. Analyses of local ancestry revealed that wolves had <1% mixed ancestry, levels comparable to the degree of mixed ancestry in many dogs, and likely not resulting from recent wolf-dog hybridisation. We also show that the founders of the Scandinavian wolf population were genetically inseparable from Finnish and Russian Karelian wolves, pointing at the geographical origin of contemporary Scandinavian wolves. Moreover, we found Scandinavian-born animals among wolves sampled in Finland, demonstrating bi-directional gene flow between the Scandinavian peninsula and eastern countries. The low incidence of admixture between wolves and dogs in Fennoscandia may be explained by that feral dogs are rare in this part of Europe, and that careful monitoring and management act to remove hybrids before they backcross into wolf populations.</p>
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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.
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DANDI Archive for NWB datasets
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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.