Whole-Genome Resequencing of Worldwide Wild and Domestic Sheep Elucidates Genetic Diversity, Introgression, and Agronomically Important Loci.

Autor:	Lv FH; College of Animal Science and Technology, China Agricultural University, Beijing, China., Cao YH; CAS Key Laboratory of Animal Ecology and Conservation Biology, Institute of Zoology, Chinese Academy of Sciences (CAS), Beijing, China.; College of Life Sciences, University of Chinese Academy of Sciences (UCAS), Beijing, China., Liu GJ; Novogene Bioinformatics Institute, Beijing, China., Luo LY; College of Animal Science and Technology, China Agricultural University, Beijing, China., Lu R; College of Animal Science and Technology, China Agricultural University, Beijing, China., Liu MJ; Animal Biotechnological Research Center, Xinjiang Academy of Animal Science, Urumqi, China., Li WR; Animal Biotechnological Research Center, Xinjiang Academy of Animal Science, Urumqi, China., Zhou P; Institute of Animal Husbandry and Veterinary Medicine, Xinjiang Academy of Agricultural and Reclamation Sciences, Shihezi, China.; State Key Laboratory of Sheep Genetic Improvement and Healthy Production, Xinjiang Academy of Agricultural and Reclamation Sciences, Shihezi, China., Wang XH; Institute of Animal Husbandry and Veterinary Medicine, Xinjiang Academy of Agricultural and Reclamation Sciences, Shihezi, China.; State Key Laboratory of Sheep Genetic Improvement and Healthy Production, Xinjiang Academy of Agricultural and Reclamation Sciences, Shihezi, China., Shen M; Institute of Animal Husbandry and Veterinary Medicine, Xinjiang Academy of Agricultural and Reclamation Sciences, Shihezi, China.; State Key Laboratory of Sheep Genetic Improvement and Healthy Production, Xinjiang Academy of Agricultural and Reclamation Sciences, Shihezi, China., Gao L; Institute of Animal Husbandry and Veterinary Medicine, Xinjiang Academy of Agricultural and Reclamation Sciences, Shihezi, China.; State Key Laboratory of Sheep Genetic Improvement and Healthy Production, Xinjiang Academy of Agricultural and Reclamation Sciences, Shihezi, China., Yang JQ; Institute of Animal Husbandry and Veterinary Medicine, Xinjiang Academy of Agricultural and Reclamation Sciences, Shihezi, China.; State Key Laboratory of Sheep Genetic Improvement and Healthy Production, Xinjiang Academy of Agricultural and Reclamation Sciences, Shihezi, China., Yang H; Institute of Animal Husbandry and Veterinary Medicine, Xinjiang Academy of Agricultural and Reclamation Sciences, Shihezi, China.; State Key Laboratory of Sheep Genetic Improvement and Healthy Production, Xinjiang Academy of Agricultural and Reclamation Sciences, Shihezi, China., Yang YL; Institute of Animal Husbandry and Veterinary Medicine, Xinjiang Academy of Agricultural and Reclamation Sciences, Shihezi, China.; State Key Laboratory of Sheep Genetic Improvement and Healthy Production, Xinjiang Academy of Agricultural and Reclamation Sciences, Shihezi, China., Liu CB; Institute of Animal Husbandry and Veterinary Medicine, Xinjiang Academy of Agricultural and Reclamation Sciences, Shihezi, China.; State Key Laboratory of Sheep Genetic Improvement and Healthy Production, Xinjiang Academy of Agricultural and Reclamation Sciences, Shihezi, China., Wan PC; Institute of Animal Husbandry and Veterinary Medicine, Xinjiang Academy of Agricultural and Reclamation Sciences, Shihezi, China.; State Key Laboratory of Sheep Genetic Improvement and Healthy Production, Xinjiang Academy of Agricultural and Reclamation Sciences, Shihezi, China., Zhang YS; Institute of Animal Husbandry and Veterinary Medicine, Xinjiang Academy of Agricultural and Reclamation Sciences, Shihezi, China.; State Key Laboratory of Sheep Genetic Improvement and Healthy Production, Xinjiang Academy of Agricultural and Reclamation Sciences, Shihezi, China., Pi WH; Institute of Animal Husbandry and Veterinary Medicine, Xinjiang Academy of Agricultural and Reclamation Sciences, Shihezi, China.; State Key Laboratory of Sheep Genetic Improvement and Healthy Production, Xinjiang Academy of Agricultural and Reclamation Sciences, Shihezi, China., Ren YL; Shandong Binzhou Academy of Animal Science and Veterinary Medicine, Binzhou, China., Shen ZQ; Shandong Binzhou Academy of Animal Science and Veterinary Medicine, Binzhou, China., Wang F; Institute of Sheep and Goat Science, Nanjing Agricultural University, Nanjing, China., Wang YT; College of Life and Geographic Sciences, Kashi University, Kashi, China., Li JQ; College of Animal Science, Inner Mongolia Agricultural University, Hohhot, China., Salehian-Dehkordi H; CAS Key Laboratory of Animal Ecology and Conservation Biology, Institute of Zoology, Chinese Academy of Sciences (CAS), Beijing, China.; College of Life Sciences, University of Chinese Academy of Sciences (UCAS), Beijing, China., Hehua E; Grass-Feeding Livestock Engineering Technology Research Center, Ningxia Academy of Agriculture and Forestry Sciences, Yinchuan, China., Liu YG; College of Animal Science and Technology, Yunnan Agricultural University, Kunming, China., Chen JF; College of Animal Science and Technology, China Agricultural University, Beijing, China., Wang JK; College of Animal Science and Technology, China Agricultural University, Beijing, China., Deng XM; College of Animal Science and Technology, China Agricultural University, Beijing, China., Esmailizadeh A; Department of Animal Science, Faculty of Agriculture, Shahid Bahonar University of Kerman, Kerman, Iran., Dehghani-Qanatqestani M; Department of Animal Science, Faculty of Agriculture, Shahid Bahonar University of Kerman, Kerman, Iran., Charati H; Department of Animal Science, Faculty of Agriculture, Shahid Bahonar University of Kerman, Kerman, Iran., Nosrati M; Department of Agriculture, Payame Noor University, Tehran, Iran., Štěpánek O; Department of Virology, State Veterinary Institute Jihlava, Jihlava, Czech Republic., Rushdi HE; Department of Animal Production, Faculty of Agriculture, Cairo University, 12613 Giza, Egypt., Olsaker I; Department of Preclinical Sciences and Pathology, Faculty of Veterinary Medicine, Norwegian University of Life Sciences, Ås, Norway., Curik I; Department of Animal Science, Faculty of Agriculture, University of Zagreb, Zagreb, Croatia., Gorkhali NA; Animal Breeding Division, National Animal Science Institute, Nepal Agriculture Research Council (NARC), Kathmandu, Nepal., Paiva SR; Embrapa Recursos Genéticos e Biotecnologia, Parque Estação Biológica, PqEB, Brasília, DF, Brazil., Caetano AR; Embrapa Recursos Genéticos e Biotecnologia, Parque Estação Biológica, PqEB, Brasília, DF, Brazil., Ciani E; Dipartimento di Bioscienze, Biotecnologie e Biofarmaceutica, Università degli Studi di Bari Aldo 24 Moro, Bari, Italy., Amills M; Department of Animal Genetics, Center for Research in Agricultural Genomics (CRAG), CSIC-IRTA-UAB-UB, Campus de la Universitat Autònoma de Barcelona, Bellaterra, Spain.; Department of Animal Sciences, Universitat Autònoma de Barcelona, Bellaterra, Spain., Weimann C; Department of Animal Breeding and Genetics, Justus-Liebig-University Giessen, Giessen, Germany., Erhardt G; Department of Animal Breeding and Genetics, Justus-Liebig-University Giessen, Giessen, Germany., Amane A; Department of Microbial, Cellular and Molecular Biology, Addis Ababa University, Addis Ababa, Ethiopia.; LiveGene Program, International Livestock Research Institute, Addis Ababa, Ethiopia., Mwacharo JM; Small Ruminant Genomics, International Centre for Agricultural Research in the Dry Areas (ICARDA), Addis Ababa, Ethiopia.; CTLGH and SRUC, The Roslin Institute Building, Easter Bush Campus, Edinburgh, Scotland., Han JL; CAAS-ILRI Joint Laboratory on Livestock and Forage Genetic Resources, Institute of Animal Science, Chinese Academy of Agricultural Sciences (CAAS), Beijing, China.; Livestock Genetics Program, International Livestock Research Institute (ILRI), Nairobi, Kenya., Hanotte O; LiveGene Program, International Livestock Research Institute, Addis Ababa, Ethiopia.; School of Life Sciences, University of Nottingham, University Park, Nottingham, United Kingdom., Periasamy K; Animal Production and Health Laboratory, Joint FAO/IAEA Division, International Atomic Energy Agency (IAEA), Vienna, Austria., Johansson AM; Department of Animal Breeding and Genetics, Faculty of Veterinary Medicine and Animal Science, Swedish University of Agricultural Sciences, Uppsala, Sweden., Hallsson JH; Faculty of Natural Resources and Environmental Sciences, Agricultural University of Iceland, Borgarnes, Iceland., Kantanen J; Production Systems, Natural Resources Institute Finland (Luke), Jokioinen, Finland., Coltman DW; Department of Biological Sciences, University of Alberta, Edmonton, Alberta, Canada., Bruford MW; School of Biosciences, Cardiff University, Cathays Park, Cardiff, Wales, United Kingdom.; Sustainable Places Research Institute, Cardiff University, Wales, United Kingdom., Lenstra JA; Faculty of Veterinary Medicine, Utrecht University, Utrecht, the Netherlands., Li MH; College of Animal Science and Technology, China Agricultural University, Beijing, China.
Jazyk:	angličtina
Zdroj:	Molecular biology and evolution [Mol Biol Evol] 2022 Feb 03; Vol. 39 (2).
DOI:	10.1093/molbev/msab353
Abstrakt:	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. (© The Author(s) 2021. Published by Oxford University Press on behalf of the Society for Molecular Biology and Evolution.)
Databáze:	MEDLINE
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