{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,9,17]],"date-time":"2026-09-17T14:15:47Z","timestamp":1789654547337,"version":"4.0.1"},"reference-count":51,"publisher":"Wiley","issue":"2","license":[{"start":{"date-parts":[[2014,8,22]],"date-time":"2014-08-22T00:00:00Z","timestamp":1408665600000},"content-version":"vor","delay-in-days":0,"URL":"http:\/\/onlinelibrary.wiley.com\/termsAndConditions#vor"}],"funder":[{"name":"Major International Cooperation NSFC","award":["31210103917"],"award-info":[{"award-number":["31210103917"]}]},{"name":"National High Technology Research and Development Program of China","award":["2011AA100304"],"award-info":[{"award-number":["2011AA100304"]}]}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":["Molecular Ecology Resources"],"published-print":{"date-parts":[[2015,3]]},"abstract":"<jats:title>Abstract<\/jats:title><jats:p>Pigs from <jats:styled-content style=\"fixed-case\">A<\/jats:styled-content>sia and <jats:styled-content style=\"fixed-case\">E<\/jats:styled-content>urope were independently domesticated from <jats:italic>c<\/jats:italic>. 9000\u00a0years ago. During this period, strong artificial selection has led to dramatic phenotypic changes in domestic pigs. However, the genetic basis underlying these morphological and behavioural adaptations is relatively unknown, particularly for indigenous <jats:styled-content style=\"fixed-case\">C<\/jats:styled-content>hinese pigs. Here, we performed a genome\u2010wide analysis to screen 196 regions with selective sweep signals in <jats:styled-content style=\"fixed-case\">T<\/jats:styled-content>ongcheng pigs, which are a typical indigenous <jats:styled-content style=\"fixed-case\">C<\/jats:styled-content>hinese breed. Genes located in these regions have been found to be involved in lipid metabolism, melanocyte differentiation, neural development and other biological processes, which coincide with the evolutionary phenotypic changes in this breed. A synonymous substitution, c.669T&gt;C, in <jats:italic><jats:styled-content style=\"fixed-case\">ESR<\/jats:styled-content>1<\/jats:italic>, which colocalizes with a major quantitative trait locus for litter size, shows extreme differences in allele frequency between <jats:styled-content style=\"fixed-case\">T<\/jats:styled-content>ongcheng pigs and wild boars. Notably, the variant <jats:styled-content style=\"fixed-case\">C<\/jats:styled-content> allele in this locus exhibits high allele frequency in most <jats:styled-content style=\"fixed-case\">C<\/jats:styled-content>hinese populations, suggesting a consequence of positive selection. Five genes (<jats:styled-content style=\"fixed-case\"><jats:italic>PRM1<\/jats:italic><\/jats:styled-content>,<jats:styled-content style=\"fixed-case\"> <jats:italic>PRM2<\/jats:italic><\/jats:styled-content>,<jats:styled-content style=\"fixed-case\"> <jats:italic>TNP2<\/jats:italic><\/jats:styled-content><jats:italic>, <\/jats:italic><jats:styled-content style=\"fixed-case\"><jats:italic>GPR149<\/jats:italic><\/jats:styled-content> and <jats:styled-content style=\"fixed-case\"><jats:italic>JMJD1C<\/jats:italic><\/jats:styled-content>) related to reproductive traits were found to have high haplotype similarity in <jats:styled-content style=\"fixed-case\">C<\/jats:styled-content>hinese breeds. Two selected genes, <jats:styled-content style=\"fixed-case\"><jats:italic>MITF<\/jats:italic><\/jats:styled-content> and <jats:styled-content style=\"fixed-case\"><jats:italic>EDNRB<\/jats:italic><\/jats:styled-content>, are implied to shape the two\u2010end black colour trait in <jats:styled-content style=\"fixed-case\">T<\/jats:styled-content>ongcheng pig. Subsequent <jats:styled-content style=\"fixed-case\">SNP<\/jats:styled-content> microarray studies of five <jats:styled-content style=\"fixed-case\">C<\/jats:styled-content>hinese white\u2010spotted breeds displayed a concordant signature at both loci, suggesting that these two genes are responsible for colour variations in <jats:styled-content style=\"fixed-case\">C<\/jats:styled-content>hinese breeds. Utilizing massively parallel sequencing, we characterized the candidate sites that adapt to artificial and environmental selections during the <jats:styled-content style=\"fixed-case\">C<\/jats:styled-content>hinese pig domestication. This study provides fundamental proof for further research on the evolutionary adaptation of <jats:styled-content style=\"fixed-case\">C<\/jats:styled-content>hinese pigs.<\/jats:p>","DOI":"10.1111\/1755-0998.12311","type":"journal-article","created":{"date-parts":[[2014,7,30]],"date-time":"2014-07-30T08:09:32Z","timestamp":1406707772000},"page":"414-424","source":"Crossref","is-referenced-by-count":85,"title":["Genome\u2010wide analysis reveals artificial selection on coat colour and reproductive traits in <scp>C<\/scp>hinese domestic pigs"],"prefix":"10.1111","volume":"15","author":[{"given":"Chao","family":"Wang","sequence":"first","affiliation":[{"name":"Key Laboratory of Agricultural Animal Genetics Breeding and Reproduction of Ministry of Education Huazhong Agricultural University Wuhan 430070 China"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Hongyang","family":"Wang","sequence":"additional","affiliation":[{"name":"Key Laboratory of Agricultural Animal Genetics Breeding and Reproduction of Ministry of Education Huazhong Agricultural University Wuhan 430070 China"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Yu","family":"Zhang","sequence":"additional","affiliation":[{"name":"Key Laboratory of Agricultural Animal Genetics Breeding and Reproduction of Ministry of Education Huazhong Agricultural University Wuhan 430070 China"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Zhonglin","family":"Tang","sequence":"additional","affiliation":[{"name":"Key Laboratory of Farm Animal Genetic Resources and Germplasm Innovation of Ministry of Agriculture Institute of Animal Science Chinese Academy of Agricultural Sciences Beijing 100193 China"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Kui","family":"Li","sequence":"additional","affiliation":[{"name":"Key Laboratory of Farm Animal Genetic Resources and Germplasm Innovation of Ministry of Agriculture Institute of Animal Science Chinese Academy of Agricultural Sciences Beijing 100193 China"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Bang","family":"Liu","sequence":"additional","affiliation":[{"name":"Key Laboratory of Agricultural Animal Genetics Breeding and Reproduction of Ministry of Education Huazhong Agricultural University Wuhan 430070 China"}],"role":[{"vocabulary":"crossref","role":"author"}]}],"member":"311","published-online":{"date-parts":[[2014,8,22]]},"reference":[{"key":"e_1_2_6_2_1","doi-asserted-by":"publisher","DOI":"10.1371\/journal.pone.0056001"},{"key":"e_1_2_6_3_1","volume-title":"History of Domestic Mammals in Central and Eastern Europe","author":"B\u00f6k\u00f6nyi 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