A genome-wide scan for signatures of directional selection in domesticated pigs

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dc.contributor.authorS Moon-
dc.contributor.authorT H Kim-
dc.contributor.authorK T Lee-
dc.contributor.authorW Kwak-
dc.contributor.authorT Lee-
dc.contributor.authorS W Lee-
dc.contributor.authorM J Kim-
dc.contributor.authorK Cho-
dc.contributor.authorNamshin Kim-
dc.contributor.authorWon-Hyong Chung-
dc.contributor.authorS Sung-
dc.contributor.authorT Park-
dc.contributor.authorS Cho-
dc.contributor.authorK A M Groenen-
dc.contributor.authorR Nielson-
dc.contributor.authorY Kim-
dc.contributor.authorH Kim-
dc.date.accessioned2017-04-19T10:02:32Z-
dc.date.available2017-04-19T10:02:32Z-
dc.date.issued2015-
dc.identifier.issn14712164-
dc.identifier.uri10.1186/s12864-015-1330-xko
dc.identifier.urihttps://oak.kribb.re.kr/handle/201005/12505-
dc.description.abstractBackground: Animal domestication involved drastic phenotypic changes driven by strong artificial selection and also resulted in new populations of breeds, established by humans. This study aims to identify genes that show evidence of recent artificial selection during pig domestication. Results: Whole-genome resequencing of 30 individual pigs from domesticated breeds, Landrace and Yorkshire, and 10 Asian wild boars at ~16-fold coverage was performed resulting in over 4.3 million SNPs for 19,990 genes. We constructed a comprehensive genome map of directional selection by detecting selective sweeps using an FST-based approach that detects directional selection in lineages leading to the domesticated breeds and using a haplotype-based test that detects ongoing selective sweeps within the breeds. We show that candidate genes under selection are significantly enriched for loci implicated in quantitative traits important to pig reproduction and production. The candidate gene with the strongest signals of directional selection belongs to group III of the metabolomics glutamate receptors, known to affect brain functions associated with eating behavior, suggesting that loci under strong selection include loci involved in behaviorial traits in domesticated pigs including tameness. Conclusions: We show that a significant proportion of selection signatures coincide with loci that were previously inferred to affect phenotypic variation in pigs. We further identify functional enrichment related to behavior, such as signal transduction and neuronal activities, for those targets of selection during domestication in pigs.-
dc.publisherSpringer-BMC-
dc.titleA genome-wide scan for signatures of directional selection in domesticated pigs-
dc.title.alternativeA genome-wide scan for signatures of directional selection in domesticated pigs-
dc.typeArticle-
dc.citation.titleBMC Genomics-
dc.citation.number0-
dc.citation.endPage130-
dc.citation.startPage130-
dc.citation.volume16-
dc.contributor.affiliatedAuthorNamshin Kim-
dc.contributor.alternativeName문선진-
dc.contributor.alternativeName김태헌-
dc.contributor.alternativeName이경태-
dc.contributor.alternativeName곽우리-
dc.contributor.alternativeName이태헌-
dc.contributor.alternativeName이시우-
dc.contributor.alternativeName김명직-
dc.contributor.alternativeName조규호-
dc.contributor.alternativeName김남신-
dc.contributor.alternativeName정원형-
dc.contributor.alternativeName성삼순-
dc.contributor.alternativeName박태성-
dc.contributor.alternativeName조서애-
dc.contributor.alternativeNameGroenen-
dc.contributor.alternativeNameNielson-
dc.contributor.alternativeName김유섭-
dc.contributor.alternativeName김희발-
dc.identifier.bibliographicCitationBMC Genomics, vol. 16, pp. 130-130-
dc.identifier.doi10.1186/s12864-015-1330-x-
dc.subject.keywordDirectional selection-
dc.subject.keywordDomestication-
dc.subject.keywordPig-
dc.subject.keywordQuantitative traits-
dc.subject.keywordSelective sweep-
dc.subject.localDirectional selection-
dc.subject.localDomestication-
dc.subject.localPig-
dc.subject.localQuantitative traits-
dc.subject.localquantitative trait-
dc.subject.localSelective sweep-
dc.description.journalClassY-
Appears in Collections:
Division of Biomedical Research > Genome Editing Research Center > 1. Journal Articles
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