Whole-Genome Resequencing of Worldwide Wild and Domestic Sheep Elucidates Genetic Diversity, Introgression, and Agronomically Important Loci
Lv, Feng-Hua (China Agricultural University. College of Animal Science and Technology)
Cao, Yin-Hong (University of Chinese Academy of Sciences . College of Life Sciences)
Liu, Guang-Jian (Novogene Bioinformatics Institute)
Luo, Ling-Yun (China Agricultural University. College of Animal Science and Technology)
Lu, Ran (China Agricultural University. College of Animal Science and Technology)
Liu, Ming-Jun (Xinjiang Academy of Animal Science. Animal Biotechnological Research Center)
Li, Wen-Rong (Xinjiang Academy of Animal Science. Animal Biotechnological Research Center)
Zhou, Ping (Xinjiang Academy of Agricultural and Reclamation Sciences. State Key Laboratory of Sheep Genetic Improvement and Healthy Production)
Wang, Xin-Hua (Xinjiang Academy of Agricultural and Reclamation Sciences. State Key Laboratory of Sheep Genetic Improvement and Healthy Production)
Shen, Min (Xinjiang Academy of Agricultural and Reclamation Sciences. State Key Laboratory of Sheep Genetic Improvement and Healthy Production)
Gao, Lei (Xinjiang Academy of Agricultural and Reclamation Sciences. State Key Laboratory of Sheep Genetic Improvement and Healthy Production)
Yang, Jing-Quan (Xinjiang Academy of Agricultural and Reclamation Sciences. State Key Laboratory of Sheep Genetic Improvement and Healthy Production)
Yang, Hua (Xinjiang Academy of Agricultural and Reclamation Sciences. State Key Laboratory of Sheep Genetic Improvement and Healthy Production)
Yang, Yong-Lin (Xinjiang Academy of Agricultural and Reclamation Sciences. State Key Laboratory of Sheep Genetic Improvement and Healthy Production)
Liu, Chang-Bin (Xinjiang Academy of Agricultural and Reclamation Sciences. State Key Laboratory of Sheep Genetic Improvement and Healthy Production)
Wan, Peng-Cheng (Xinjiang Academy of Agricultural and Reclamation Sciences. State Key Laboratory of Sheep Genetic Improvement and Healthy Production)
Zhang, Yun-Sheng (Xinjiang Academy of Agricultural and Reclamation Sciences. State Key Laboratory of Sheep Genetic Improvement and Healthy Production)
Pi, Wen-Hui (Xinjiang Academy of Agricultural and Reclamation Sciences. State Key Laboratory of Sheep Genetic Improvement and Healthy Production)
Ren, Yan-Ling (Shandong Binzhou Academy of Animal Science and Veterinary Medicine)
Shen, Zhi-Qiang (Shandong Binzhou Academy of Animal Science and Veterinary Medicine)
Wang, Feng (Nanjing Agricultural University. Institute of Sheep and Goat Science)
Wang, Yu-Tao (Kashi University. College of Life and Geographic Sciences)
Li, Jin-Quan (Inner Mongolia Agricultural University. College of Animal Science)
Salehian-Dehkordi, Hosein (University of Chinese Academy of Sciences. College of Life Sciences)
Hehua, Eer (Ningxia Academy of Agriculture and Forestry Sciences. Grass-Feeding Livestock Engineering Technology Research Center)
Liu, Yong-Gang (Yunnan Agricultural University. College of Animal Science and Technology)
Chen, Jian-Fei (China Agricultural University. College of Animal Science and Technology)
Wang, Jian-Kui (China Agricultural University. College of Animal Science and Technology)
Deng, Xue-Mei (China Agricultural University. College of Animal Science and Technology)
Esmailizadeh, Ali (Shahid Bahonar University of Kerman. Department of Animal Science)
Dehghani-Qanatqestani, Mostafa (Shahid Bahonar University of Kerman. Department of Animal Science)
Charati, Hadi (Shahid Bahonar University of Kerman. Department of Animal Science)
Nosrati, Maryam (Payame Noor University. Department of Agriculture)
Štěpánek, Ondřej (State Veterinary Institute Jihlava. Department of Virology)
Rushdi, Hossam E (Cairo University. Department of Animal Production)
Olsaker, Ingrid (Norwegian University of Life Sciences. Department of Preclinical Sciences and Pathology)
Curik, Ino (University of Zagreb. Department of Animal Science)
Gorkhali, Neena A (Nepal Agriculture Research Council. Animal Breeding Division, National Animal Science Institute)
Paiva, Samuel R (Embrapa Recursos Genéticos e Biotecnologia)
Caetano, Alexandre R (Embrapa Recursos Genéticos e Biotecnologia)
Ciani, Elena (Università degli Studi di Bari. Dipartimento di Bioscienze, Biotecnologie e Biofarmaceutica)
Amills i Eras, Marcel (Universitat Autònoma de Barcelona. Departament de Ciència Animal i dels Aliments)
Weimann, Christina (Justus-Liebig-University Giessen. Department of Animal Breeding and Genetics)
Erhardt, Georg (Justus-Liebig-University Giessen. Department of Animal Breeding and Genetics)
Amane, Agraw (International Livestock Research Institute)
Mwacharo, Joram M (The Roslin Institute Building)
Han, Jian-Lin (International Livestock Research Institute (Nairobi, Kènia))
Hanotte, Olivier (University of Nottingham. School of Life Sciences)
Periasamy, Kathiravan (International Atomic Energy Agency. Animal Production and Health Laboratory)
Johansson, Anna M (Swedish University of Agricultural Sciences. Department of Animal Breeding and Genetics)
Hallsson, Jón H (Agricultural University of Iceland. Faculty of Natural Resources and Environmental Sciences)
Kantanen, Juha (Natural Resources Institute Finland. Production Systems)
Coltman, David W (University of Alberta. Department of Biological Sciences)
Bruford, Michael W (Cardiff University. Sustainable Places Research Institute)
Lenstra, Johannes A (Utrecht University. Faculty of Veterinary Medicine)
Li, Meng-Hua (China Agricultural University. College of Animal Science and Technology)

Date:	2021
Abstract:	Domestic 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.
Rights:	Aquest document està subjecte a una llicència d'ús Creative Commons. Es permet la reproducció total o parcial, la distribució, la comunicació pública de l'obra i la creació d'obres derivades, fins i tot amb finalitats comercials, sempre i quan es reconegui l'autoria de l'obra original.
Language:	Anglès
Document:	Article ; recerca ; Versió publicada
Subject:	Whole-genome sequences ; Genetic diversity ; Adaptive introgression ; Genetic selection ; Agronomic traits ; Migration
Published in:	Molecular biology and evolution, Vol. 39 (december 2021) , ISSN 1537-1719

DOI: 10.1093/molbev/msab353
PMID: 34893856

26 p, 12.8 MB

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