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Whole-genome resequencing of wild and domestic sheep identifies genes associated with morphological and agronomic traits

文献类型： 外文期刊

作者： Li, Xin 1 ; Yang, Ji 1 ; Shen, Min 4 ; Xie, Xing-Long 1 ; Liu, Guang-Jian 6 ; Xu, Ya-Xi 1 ; Lv, Feng-Hua 1 ; Yang, Hua 4 ; Y 1 ;

作者机构： 1.Chinese Acad Sci, Inst Zool, CAS Key Lab Anim Ecol & Conservat Biol, Beijing 100101, Peoples R China

2.Univ Chinese Acad Sci UCAS, Beijing 100049, Peoples R China

3.China Agr Univ, Coll Anim Sci & Technol, Beijing 100193, Peoples R China

4.Xinjiang Acad Agr & Reclamat Sci, Inst Anim Husb & Vet Med, Shihezi 832000, Peoples R China

5.Xinjiang Acad Agr & Reclamat Sci, State Key Lab Sheep Genet Improvement & Hlth Bree, Shihezi 832000, Peoples R China

6.Novogene Bioinformat Inst, Beijing 100083, Peoples R China

7.Shandong Binzhou Acad Anim Sci & Vet Med, Binzhou 256600, Peoples R China

8.Nanjing Agr Univ, Inst Sheep & Goat Sci, Nanjing 210095, Peoples R China

9.Sichuan Agr Univ, Coll Anim Sci & Technol, Chengdu 611130, Peoples R China

10.Ningxia Acad Agr & Forestry Sci, Grass Feeding Livestock Engn Technol Res Ctr, Yinchuan, Ningxia, Peoples R China

11.Shahid Bahonar Univ Kerman, Fac Agr, Dept Anim Sci, Kerman, Iran

12.ASCR, Inst Mol Genet, Vvi, Videnska 1083, Prague 14220 4, Czech Republic

13.Justus Liebig Univ, Inst Anim Breeding & Genet, Giessen, Germany

14.Addis Ababa Univ, Dept Microbial Cellular & Mol Biol, Addis Ababa, Ethiopia

15.Int Livestock Res Inst, LiveGene Program, Addis Ababa, Ethiopia

16.Int Ctr Agr Res Dry Areas ICARDA, Small Ruminant Genom, Addis Ababa, Ethiopia

17.Chinese Acad Agr Sci CAAS, Inst Anim Sci, CAAS ILRI Joint Lab Livestock & Forage Genet Reso, Beijing, Peoples R China

18.Int Livestock Res Inst ILRI, Livestock Genet Program, Nairobi, Kenya

19.Univ Nottingham, Sch Life Sci, Univ Pk, Nottingham NG7 2RD, England

20.Univ Edinburgh, Roslin Inst, Ctr Trop Livestock Genet & Hlth CTLGH, Easter Bush EH25 9RG, Midlothian, Scotland

21.Univ Utrecht, Fac Vet Med, Utrecht, Netherlands

22.Nat Resources Inst Finland Luke, Prod Syst, FI-31600 Jokioinen, Finland

23.Univ Alberta, Dept Biol Sci, Edmonton, AB T6G 2E9, Canada

24.CSIRO Livestock Ind, Brisbane, Qld, Australia

25.Cardiff Univ, Sch Biosci, Cathays Pk, Cardiff CF10 3AX, Wales

26.Cardiff Univ, Sustainable Pl Res Inst, Cardiff CF10 3BA, Wales

27.IAEA, Joint FAO IAEA Div Nucl Tech Food & Agr, Anim Prod & Hlth Lab, Vienna, Austria

期刊名称：NATURE COMMUNICATIONS （ 影响因子：14.919； 五年影响因子：15.805 ）

ISSN： 2041-1723

年卷期： 2020 年 11 卷 1 期

页码：

收录情况： SCI

摘要： Understanding the genetic changes underlying phenotypic variation in sheep (Ovis aries) may facilitate our efforts towards further improvement. Here, we report the deep resequencing of 248 sheep including the wild ancestor (O. orientalis), landraces, and improved breeds. We explored the sheep variome and selection signatures. We detected genomic regions harboring genes associated with distinct morphological and agronomic traits, which may be past and potential future targets of domestication, breeding, and selection. Furthermore, we found non-synonymous mutations in a set of plausible candidate genes and significant differences in their allele frequency distributions across breeds. We identified PDGFD as a likely causal gene for fat deposition in the tails of sheep through transcriptome, RT-PCR, qPCR, and Western blot analyses. Our results provide insights into the demographic history of sheep and a valuable genomic resource for future genetic studies and improved genome-assisted breeding of sheep and other domestic animals. Genetic resources for livestock are valuable for understanding their demography and past selection, and may inform future breeding programs and agricultural improvement. Here, the authors present deep resequencing of 248 wild and domestic sheep, with associated data and analysis.

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