Whole-genome resequencing of worldwide wild and domestic sheep elucidates genetic diversity, introgression and agronomically important loci

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dc.creatorFeng-Hua Lv
dc.creatorYin-Hong Cao
dc.creatorGuang-Jian Liu
dc.creatorLing-Yun Luo
dc.creatorRan Lu
dc.creatorMing-Jun Liu
dc.creatorWen-Rong Li
dc.creatorPing Zhou
dc.creatorXin-Hua Wang
dc.creatorMin Shen
dc.creatorLei Gao
dc.creatorJing-Quan Yang
dc.creatorHua Yang
dc.creatorYong-Lin Yang
dc.creatorChang-Bin Liu
dc.creatorPeng-Cheng Wan
dc.creatorYun-Sheng Zhang
dc.creatorWen-Hui Pi
dc.creatorYan-Ling Ren
dc.creatorZhi-Qiang Shen
dc.creatorFeng Wang
dc.creatorYu-Tao Wang
dc.creatorJin-Quan Li
dc.creatorSalehian-Dehkordi, H.
dc.creatorEer Hehua
dc.creatorYong-Gang Liu
dc.creatorJian-Fei Chen
dc.creatorJian-Kui Wang
dc.creatorXue-Mei Deng
dc.creatorEsmailizadeh, A.
dc.creatorDehghani-Antezana, M.
dc.creatorCharati, H.
dc.creatorNosrati, M.
dc.creatorŠtěpánek, O.
dc.creatorRushdi, H.E.
dc.creatorOlsaker, I.
dc.creatorCurik, I.
dc.creatorGorkhali, N.A.
dc.creatorPaiva, S.R.
dc.creatorCaetano, A.R.
dc.creatorCiani, E.
dc.creatorAmills, M.
dc.creatorWeimann, C.
dc.creatorErhardt, G.
dc.creatorAmane, A.
dc.creatorMwacharo, Joram M.
dc.creatorHan Jianlin
dc.creatorHanotte, Olivier H.
dc.creatorPeriasamy, K.
dc.creatorJohansson, A.M.
dc.creatorHallsson, J.H.
dc.creatorKantanen, J.
dc.creatorColtman, D.W.
dc.creatorBruford, M.W.
dc.creatorLenstra, J.A.
dc.creatorMeng-Hua Li
dc.date2022-02-03
dc.date2021-12-14T10:11:06Z
dc.date2021-12-14T10:11:06Z
dc.date.accessioned2026-06-27T14:23:46Z
dc.descriptionDomestic sheep and their wild relatives harbor substantial genetic variants that can form the backbone of molecular breeding, but their genome landscapes remain understudied. Here, we present a comprehensive genome resource for wild ovine species, landraces and improved breeds of domestic sheep, comprising high-coverage (∼16.10×) whole genomes of 810 samples from 7 wild species and 158 diverse domestic populations. We detected, in total, ∼121.2 million single nucleotide polymorphisms, ∼61 million of which are novel. Some display significant (P < 0.001) differences in frequency between wild and domestic species, or are private to continent-wide or individual sheep populations. Retained or introgressed wild gene variants in domestic populations have contributed to local adaptation, such as the variation in the HBB associated with plateau adaptation. We identified novel and previously reported targets of selection on morphological and agronomic traits such as stature, horn, tail configuration, and wool fineness. We explored the genetic basis of wool fineness and unveiled a novel mutation (chr25: T7,068,586C) in the 3′-UTR of IRF2BP2 as plausible causal variant for fleece fiber diameter. We reconstructed prehistorical migrations from the Near Eastern domestication center to South-and-Southeast Asia and found two main waves of migrations across the Eurasian Steppe and the Iranian Plateau in the Early and Late Bronze Ages. Our findings refine our understanding of genome variation as shaped by continental migrations, introgression, adaptation, and selection of sheep.
dc.identifierhttps://hdl.handle.net/10568/116684
dc.identifier.urihttp://hdl.handle.net/123456789/78451
dc.languageen
dc.publisherOxford University Press
dc.rightsOpen Access
dc.sourceFeng-Hua Lv, Yin-Hong Cao, Guang-Jian Liu, Ling-Yun Luo, Ran Lu, Ming-Jun Liu, Wen-Rong Li, Ping Zhou, Xin-Hua Wang, Min Shen, Lei Gao, Jing-Quan Yang, Hua Yang, Yong-Lin Yang, Chang-Bin Liu, Peng-Cheng Wan, Yun-Sheng Zhang, Wen-Hui Pi, Yan-Ling Ren, Zhi-Qiang Shen, Feng Wang, Yu-Tao Wang, Jin-Quan Li, Hosein Salehian-Dehkordi, Eer Hehua, Yong-Gang Liu, Jian-Fei Chen, Jian-Kui Wang, Xue-Mei Deng, Ali Esmailizadeh, Mostafa Dehghani-Qanatqestani, Hadi Charati, Maryam Nosrati, Ondřej Štěpánek, Hossam E Rushdi, Ingrid Olsaker, Ino Curik, Neena A Gorkhali, Samuel R Paiva, Alexandre R Caetano, Elena Ciani, Marcel Amills, Christina Weimann, Georg Erhardt, Agraw Amane, Joram M Mwacharo, Jian-Lin Han, Olivier Hanotte, Kathiravan Periasamy, Anna M Johansson, Jón H Hallsson, Juha Kantanen, David W Coltman, Michael W Bruford, Johannes A Lenstra, Meng-Hua Li. 2022. Whole-Genome Resequencing of Worldwide Wild and Domestic Sheep Elucidates Genetic Diversity, Introgression, and Agronomically Important Loci. Molecular Biology and Evolution 39(2):msab353.
dc.subjectgenomes
dc.subjectgenetics
dc.subjectanimal breeding
dc.subjectsheep
dc.subjectsmall ruminants
dc.subjectloci
dc.titleWhole-genome resequencing of worldwide wild and domestic sheep elucidates genetic diversity, introgression and agronomically important loci
dc.typeJournal Article

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Centro Internacional para la Investigación Agrícola en las Áreas Secas (ICARDA)