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dc.contributor.authorQanbari, Saber
dc.contributor.authorRubin, Carl-Johan
dc.contributor.authorMaqbool, Khurram
dc.contributor.authorWeigend, Steffen
dc.contributor.authorWeigend, Annett
dc.contributor.authorGeibel, Johannes
dc.contributor.authorKerje, Susanne
dc.contributor.authorWurmser, Christine
dc.contributor.authorPeterson, Andrew Townsend
dc.contributor.authorBrisbin, I. Lehr, Jr.
dc.contributor.authorPreisinger, Ruedi
dc.contributor.authorFries, Ruedi
dc.contributor.authorSimianer, Henner
dc.contributor.authorAndersson, Leif
dc.identifier.citationQanbari S, Rubin C-J, Maqbool K, Weigend S, Weigend A, Geibel J, et al. (2019) Genetics of adaptation in modern chicken. PLoS Genet 15(4): e1007989.
dc.descriptionThis work is licensed under a Creative Commons Attribution 4.0 International License.en_US
dc.description.abstractWe carried out whole genome resequencing of 127 chicken including red jungle fowl and multiple populations of commercial broilers and layers to perform a systematic screening of adaptive changes in modern chicken (Gallus gallus domesticus). We uncovered >21 million high quality SNPs of which 34% are newly detected variants. This panel comprises >115,000 predicted amino-acid altering substitutions as well as 1,100 SNPs predicted to be stop-gain or -loss, several of which reach high frequencies. Signatures of selection were investigated both through analyses of fixation and differentiation to reveal selective sweeps that may have had prominent roles during domestication and breed development. Contrasting wild and domestic chicken we confirmed selection at the BCO2 and TSHR loci and identified 34 putative sweeps co-localized with ALX1, KITLG, EPGR, IGF1, DLK1, JPT2, CRAMP1, and GLI3, among others. Analysis of enrichment between groups of wild vs. commercials and broilers vs. layers revealed a further panel of candidate genes including CORIN, SKIV2L2 implicated in pigmentation and LEPR, MEGF10 and SPEF2, suggestive of production-oriented selection. SNPs with marked allele frequency differences between wild and domestic chicken showed a highly significant deficiency in the proportion of amino-acid altering mutations (P<2.5×10−6). The results contribute to the understanding of major genetic changes that took place during the evolution of modern chickens and in poultry breeding.en_US
dc.publisherPublic Library of Scienceen_US
dc.rights© 2019 Qanbari et al.en_US
dc.titleGenetics of adaptation in modern chickenen_US
kusw.kuauthorPeterson, Andrew Townsend
kusw.kudepartmentEcology & Evolutionary Biologyen_US
kusw.kudepartmentKU Biodiversity Instituteen_US
kusw.oanotesPer Sherpa Romeo 01/29/2021:

PLoS Genetics [Open panel below]Publication Information TitlePLoS Genetics [English] ISSNs Print: 1553-7390 Electronic: 1553-7404 URL PublishersPublic Library of Science [Commercial Publisher] DOAJ Listing Requires APCYes [Data provided by DOAJ] [Close panel below]Publisher Policy Open Access pathways permitted by this journal's policy are listed below by article version. Click on a pathway for a more detailed view.

Published Version NoneCC BYPMC Any Website, Journal Website, +1 OA PublishingThis pathway includes Open Access publishing EmbargoNo Embargo LicenceCC BY 4.0 Copyright OwnerAuthors Publisher DepositPubMed Central Location Any Website Named Repository (PubMed Central) Journal Website ConditionsPublished source must be acknowledged with citation
kusw.oaversionScholarly/refereed, publisher versionen_US
kusw.oapolicyThis item meets KU Open Access policy criteria.en_US

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© 2019 Qanbari et al.
Except where otherwise noted, this item's license is described as: © 2019 Qanbari et al.