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dc.contributor.authorWu, Meng Yue
dc.contributor.authorForcina, Giovanni
dc.contributor.authorLow, Gabriel Weijie
dc.contributor.authorSadanandan, Keren R
dc.contributor.authorGwee, Chyi Yin
dc.contributor.authorvan Grouw, Hein
dc.contributor.authorWu, Shaoyuan
dc.contributor.authorEdwards, Scott V
dc.contributor.authorBaldwin, Maude W
dc.contributor.authorRheindt, Frank E
dc.date.accessioned2023-03-17T14:49:06Z
dc.date.available2023-03-17T14:49:06Z
dc.date.issued2023-01-19
dc.date.submitted2022-04-29
dc.identifier.citationWu MY, Forcina G, Low GW, Sadanandan KR, Gwee CY, et al. (2023) Historic samples reveal loss of wild genotype through domestic chicken introgression during the Anthropocene. PLOS Genetics 19(1): e1010551. https://doi.org/10.1371/journal.pgen.1010551en_US
dc.identifier.doi10.1371/journal.pgen.1010551
dc.identifier.urihttp://hdl.handle.net/10141/623048
dc.description.abstract<Human activities have precipitated a rise in the levels of introgressive gene flow among animals. The investigation of conspecific populations at different time points may shed light on the magnitude of human-mediated introgression. We used the red junglefowl Gallus gallus, the wild ancestral form of the chicken, as our study system. As wild junglefowl and domestic chickens readily admix, conservationists fear that domestic introgression into junglefowl may compromise their wild genotype. By contrasting the whole genomes of 51 chickens with 63 junglefowl from across their natural range, we found evidence of a loss of the wild genotype across the Anthropocene. When comparing against the genomes of junglefowl from approximately a century ago using rigorous ancient-DNA protocols, we discovered that levels of domestic introgression are not equal among and within modern wild populations, with the percentage of domestic ancestry around 20–50%. We identified a number of domestication markers in which chickens are deeply differentiated from historic junglefowl regardless of breed and/or geographic provenance, with eight genes under selection. The latter are involved in pathways dealing with development, reproduction and vision. The wild genotype is an allelic reservoir that holds most of the genetic diversity of G. gallus, a species which is immensely important to human society. Our study provides fundamental genomic infrastructure to assist in efforts to prevent a further loss of the wild genotype through introgression of domestic alleles.en_US
dc.language.isoenen_US
dc.publisherPublic Library of Science (PLoS)en_US
dc.rightsopenAccessen_US
dc.rights.urihttps://creativecommons.org/licenses/by/4.0/
dc.titleHistoric samples reveal loss of wild genotype through domestic chicken introgression during the Anthropoceneen_US
dc.typeJournal Articleen_US
dc.identifier.eissn1553-7404
dc.identifier.journalPLOS Geneticsen_US
dc.date.updated2023-03-16T15:28:36Z
dc.identifier.volume19en_US
dc.identifier.issue1en_US
dc.identifier.startpagee1010551-e1010551en_US
elements.import.authorWu, Meng Yue
elements.import.authorForcina, Giovanni
elements.import.authorLow, Gabriel Weijie
elements.import.authorSadanandan, Keren R
elements.import.authorGwee, Chyi Yin
elements.import.authorvan Grouw, Hein
elements.import.authorWu, Shaoyuan
elements.import.authorEdwards, Scott V
elements.import.authorBaldwin, Maude W
elements.import.authorRheindt, Frank E
dc.description.nhmCopyright: © 2023 Wu et al. This is an open access article distributed under the terms of the Creative Commons Attribution License (https://creativecommons.org/licenses/by/4.0/), which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are credited. The attached file is the published version of the article.en_US
dc.description.nhmNHM Repository
dc.subject.nhmchickensen_US
dc.subject.nhmintrogressionen_US
dc.subject.nhmdomestic animalsen_US
dc.subject.nhmgenomicsen_US
dc.subject.nhmsingle nucleotide polymorphismsen_US
dc.subject.nhmprincipal component analysisen_US
dc.subject.nhmphylogenetic analysisen_US
dc.subject.nhmpopulation geneticsen_US
refterms.dateFOA2023-03-17T14:49:07Z


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