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128 results for “hybrid origin”
Data from: Cross-species hybridization and the origin of North African date palms
Date palm (Phoenix dactylifera L.) is a major fruit crop of arid regions that were domesticated 7,000 y ago in the Near or Middle East. This species is cultivated widely in the Middle East and North Africa, and previous population genetic studies have shown genetic differentiation between these regions. We investigated the evolutionary history of P. dactylifera and its wild relatives by resequencing the genomes of date palm varieties and five of its closest relatives. Our results indicate that the North African population has mixed ancestry with components from Middle Eastern P. dactylifera and Phoenix theophrasti, a wild relative endemic to the Eastern Mediterranean. Introgressive hybridization is supported by tests of admixture, reduced subdivision between North African date palm and P. theophrasti, sharing of haplotypes in introgressed regions, and a population model that incorporates gene flow between these populations. Analysis of ancestry proportions indicates that as much as 18% of the genome of North African varieties can be traced to P. theophrasti and a large percentage of loci in this population are segregating for single-nucleotide polymorphisms (SNPs) that are fixed in P. theophrasti and absent from date palm in the Middle East. We present a survey of Phoenix remains in the archaeobotanical record which supports a late arrival of date palm to North Africa. Our results suggest that hybridization with P. theophrasti was of central importance in the diversification history of the cultivated date palm.
Data from: Genetic admixture supports an ancient hybrid origin of the endangered Hawaiian duck
Speciation is regarded primarily as a bifurcation from an ancestral species into two distinct taxonomic units, but gene flow can create different signals of phylogenetic relationships among different loci. We evaluated several hypotheses that could account for phylogenetic discord between mitochondrial DNA (mtDNA) and nuclear DNA (nuDNA) within Hawaiian ducks (Anas wyvilliana), including stochastic lineage sorting, mtDNA capture, and widespread genomic introgression. Our results best support the hypothesis that the contemporary Hawaiian duck is descended from an ancient hybridization event between the mallard (A. platyrhynchos) and Laysan duck (A. laysanensis). Whereas mtDNA clearly shows a sister-relationship between Hawaiian ducks and mallards, nuDNA is consistent with a genetic mosaic with nearly equal contributions from Laysan ducks and mallards. In addition, coalescent analyses suggest that gene flow from either mallard or Laysan duck, depending on the pre-defined tree topology, is necessary to explain contemporary genetic diversity in Hawaiian ducks, and these estimates are more consistent with ancient, rather than contemporary, hybridization. Time since divergence estimates suggest that the genetic admixture event occurred around the Pleistocene-Holocene boundary, which is further supported by circumstantial evidence from the Hawaiian sub-fossil record. Although the extent of reproductive isolation from either putative parental taxon is not currently known, these species are phenotypically, genetically, and ecologically different, and they meet primary criteria used in avian taxonomy for species designation. Thus, the available data are consistent with an admixed origin, and support the hypothesis that the Hawaiian duck may represent a young hybrid species.
Hybrid origins of the cosmic-ray nuclei spectral hardening at a few hundred GV
<p>This dataset includes the posterior distribution samples of Scheme I, II, and III in the article.</p>
FIGURE 2 in Carex ×favratii (Cyperaceae), new record for Romania and evidence of its hybrid origin
FIGURE 2. Habitus of the herbarium specimen of Carex ×favratii (deposited in BRNL herbarium).
FIGURE 5 in Molecular and cytogenetic confirmation of the hybrid origin of Jacobaea ×mirabilis (Asteraceae, Senecioneae), with nomenclatural notes on this name
FIGURE 5. Lectotype (A), isolectotype (B), and syntype (C) of Jacobaea ×mirabilis.
FIGURE 8 in Anatomy and morphology suggest a hybrid origin of Zamia katzeriana (Zamiaceae)
FIGURE 8. Habit of Zamia katzeriana with megastrobilus. Illustration from Rettig (1896).
FIGURE 5 in Anatomy and morphology suggest a hybrid origin of Zamia katzeriana (Zamiaceae)
FIGURE 5. Megastrobilus of Zamia splendens, showing aristate apex and long decumbent peduncle.
FIGURE 1. Distribution Zamia splendens, Z. loddigesii and Z in Anatomy and morphology suggest a hybrid origin of Zamia katzeriana (Zamiaceae)
FIGURE 1. Distribution Zamia splendens, Z. loddigesii and Z. katzeriana in southern Mexico.
Data from: RAD sequencing and genomic simulations resolve hybrid origins within North American Canis
Top predators are disappearing worldwide, significantly changing ecosystems that depend on top-down regulation. Conflict with humans remains the primary roadblock for large carnivore conservation, but for the eastern wolf (Canis lycaon), disagreement over its evolutionary origins presents a significant barrier to conservation in Canada and has impeded protection for grey wolves (Canis lupus) in the USA. Here, we use 127 235 single-nucleotide polymorphisms (SNPs) identified from restriction-site associated DNA sequencing (RAD-seq) of wolves and coyotes, in combination with genomic simulations, to test hypotheses of hybrid origins of Canis types in eastern North America. A principal components analysis revealed no evidence to support eastern wolves, or any other Canis type, as the product of grey wolf × western coyote hybridization. In contrast, simulations that included eastern wolves as a distinct taxon clarified the hybrid origins of Great Lakes-boreal wolves and eastern coyotes. Our results support the eastern wolf as a distinct genomic cluster in North America and help resolve hybrid origins of Great Lakes wolves and eastern coyotes. The data provide timely information that will shed new light on the debate over wolf conservation in eastern North America.
Supplementary files for "Homoploid Hybridization Resolves the Origin of Octoploid Strawberries" paper
<p>Supplementary files for "Homoploid Hybridization Resolves the Origin of Octoploid Strawberries" paper</p> <p>README for instructions. </p>
Data from: Incongruence between morphological and mitochondrial-DNA characters suggests hybrid origins of parthenogenetic weevil lineages (genus Aramigus)
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Data from: Genetic admixture supports an ancient hybrid origin of the endangered Hawaiian duck
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The origin of the parrotfish species Scarus compressus in the Tropical Eastern Pacific: region-wide hybridization between ancient species pairs
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Data from: Genomic selection for recovery of original genetic background from hybrids of endangered and common breeds
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Data from: RAD sequencing and genomic simulations resolve hybrid origins within North American Canis
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Data from: Parent-of-origin growth effects and the evolution of hybrid inviability in dwarf hamsters
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Data from: Cross-species hybridization and the origin of North African date palms
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Copy number variation in an invasive fish of hybrid origin
GEO Series GSE93065. Cottus; Cottus perifretum; Cottus rhenanus. 40 samples. Type: Genome variation profiling by array.
Regulation of Gene Expression and Parent-of-Origin Effects in Maize Hybrids
GEO Series GSE16136. Zea mays. 533 samples. Type: Expression profiling by array; Expression profiling by high throughput sequencing.
Hybrid mice reveal parent-of-origin and cis- and trans-regulatory effects in the retina
GEO Series GSE60545. Mus musculus. 12 samples. Type: Expression profiling by high throughput sequencing.
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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)
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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.