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for the Central Universities","doi-asserted-by":"crossref","award":["ZYN2023097"],"award-info":[{"award-number":["ZYN2023097"]}],"id":[{"id":"10.13039\/501100012226","id-type":"DOI","asserted-by":"crossref"}]}],"content-domain":{"domain":["link.springer.com"],"crossmark-restriction":false},"short-container-title":["BMC Genomics"],"abstract":"<jats:title>Abstract<\/jats:title><jats:sec>\n                <jats:title>Background<\/jats:title>\n                <jats:p>The yak is a symbol of the Qinghai-Tibet Plateau and provides important basic resources for human life on the plateau. Domestic yaks have been subjected to strong artificial selection and environmental pressures over the long-term. Understanding the molecular mechanisms of phenotypic differences in yak populations can reveal key functional genes involved in the domestication process and improve genetic breeding.<\/jats:p>\n              <\/jats:sec><jats:sec>\n                <jats:title>Material and method<\/jats:title>\n                <jats:p>Here, we re-sequenced 80 yaks (Maiwa, Yushu, and Huanhu populations) to identify single-nucleotide polymorphisms (SNPs) as genetic variants. After filtering and quality control, remaining SNPs were kept to identify the genome-wide regions of selective sweeps associated with domestic traits. The four methods (\u03c0, XPEHH, iHS, and XP-nSL) were used to detect the population genetic separation.<\/jats:p>\n              <\/jats:sec><jats:sec>\n                <jats:title>Results<\/jats:title>\n                <jats:p>By comparing the differences in the population stratification, linkage disequilibrium decay rate, and characteristic selective sweep signals, we identified 203 putative selective regions of domestic traits, 45 of which were mapped to 27 known genes. They were clustered into 4 major GO biological process terms. All known genes were associated with seven major domestication traits, such as dwarfism (<jats:italic>ANKRD28<\/jats:italic>), milk (<jats:italic>HECW1<\/jats:italic>, <jats:italic>HECW2<\/jats:italic>, and <jats:italic>OSBPL2<\/jats:italic>), meat (<jats:italic>SPATA5<\/jats:italic> and <jats:italic>GRHL2<\/jats:italic>), fertility (<jats:italic>BTBD11<\/jats:italic> and <jats:italic>ARFIP1<\/jats:italic>), adaptation (<jats:italic>NCKAP5<\/jats:italic>, <jats:italic>ANTXR1<\/jats:italic>, <jats:italic>LAMA5<\/jats:italic>, <jats:italic>OSBPL2<\/jats:italic>, <jats:italic>AOC2<\/jats:italic>, and <jats:italic>RYR2<\/jats:italic>), growth (<jats:italic>GRHL2<\/jats:italic>, <jats:italic>GRID2<\/jats:italic>, <jats:italic>SMARCAL1<\/jats:italic>, and <jats:italic>EPHB2<\/jats:italic>), and the immune system (<jats:italic>INPP5D<\/jats:italic> and <jats:italic>ADCYAP1R1<\/jats:italic>).<\/jats:p>\n              <\/jats:sec><jats:sec>\n                <jats:title>Conclusions<\/jats:title>\n                <jats:p>We provided there is an obvious genetic different among domestic progress in these three yak populations. Our findings improve the understanding of the major genetic switches and domestic processes among yak populations.<\/jats:p>\n              <\/jats:sec>","DOI":"10.1186\/s12864-024-09993-7","type":"journal-article","created":{"date-parts":[[2024,1,17]],"date-time":"2024-01-17T13:02:01Z","timestamp":1705496521000},"update-policy":"https:\/\/doi.org\/10.1007\/springer_crossmark_policy","source":"Crossref","is-referenced-by-count":16,"title":["Whole-genome resequencing of major populations revealed domestication-related genes in yaks"],"prefix":"10.1186","volume":"25","author":[{"given":"Wei","family":"Peng","sequence":"first","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Changqi","family":"Fu","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Shi","family":"Shu","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Guowen","family":"Wang","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Hui","family":"Wang","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Binglin","family":"Yue","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Ming","family":"Zhang","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Xinrui","family":"Liu","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Yaxin","family":"Liu","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Jun","family":"Zhang","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Jincheng","family":"Zhong","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Jiabo","family":"Wang","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]}],"member":"297","published-online":{"date-parts":[[2024,1,17]]},"reference":[{"key":"9993_CR1","doi-asserted-by":"publisher","first-page":"946","DOI":"10.1038\/ng.2343","volume":"44","author":"Q Qiu","year":"2012","unstructured":"Qiu Q, Zhang G, Ma T, Qian W, Wang J, Ye Z, et al. 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All experiment methods were carried out in accordance with relevant guidelines and regulations. All methods were carried out in accordance with relevant guidelines and regulations. All methods are reported in accordance with ARRIVE guidelines for the reporting of animal experiments.","order":2,"name":"Ethics","group":{"name":"EthicsHeading","label":"Ethics approval and consent to participate"}},{"value":"Not applicable.","order":3,"name":"Ethics","group":{"name":"EthicsHeading","label":"Consent for publication"}},{"value":"The authors declare no competing interests.","order":4,"name":"Ethics","group":{"name":"EthicsHeading","label":"Competing interests"}}],"article-number":"69"}}