Historical Introgression from Wild Relatives Enhanced Climatic Adaptation any Resistance to Pneumonia in Sheep

被引:56
作者
Cao, Yin-Hong [1 ,2 ]
Xu, Song-Song [1 ,2 ]
Shen, Min [3 ,4 ]
Chen, Ze-Hui [1 ,2 ]
Gao, Lei [3 ,4 ]
Lv, Feng-Hua [1 ,5 ]
Xie, Xing-Long [1 ,2 ]
Wang, Xin-Hua [3 ,4 ]
Yang, Hua [3 ,4 ]
Liu, Chang-Bin [3 ,4 ]
Zhou, Ping [3 ,4 ]
Wan, Peng-Cheng [3 ,4 ]
Zhang, Yun-Sheng [3 ,4 ]
Yang, Jing-Quan [3 ,4 ]
Pi, Wen-Hui [3 ,4 ]
Hehua, EEr [6 ]
Berry, Donagh P. [7 ]
Barbato, Mario [8 ]
Esmailizadeh, Ali [9 ]
Nosrati, Maryam [10 ]
Salehian-Dehkordi, Hosein [1 ,2 ]
Dehghani-Qanatqestani, Mostafa [9 ]
Dotsev, Arsen, V [11 ]
Deniskova, Tatiana E. [11 ]
Zinovieva, Natalia A. [11 ]
Brem, Gottfried [12 ]
Stepanek, Ondrej [13 ]
Ciani, Elena [14 ]
Weimann, Christina [15 ]
Erhardt, Georg [15 ]
Mwacharo, Joram M. [16 ]
Ahbara, Abulgasim [17 ]
Han, Jian-Lin [18 ,19 ]
Hanotte, Olivier [17 ,20 ,21 ]
Miller, Joshua M. [22 ]
Sim, Zijian [22 ,23 ]
Coltman, David [22 ]
Kantanen, Juha [24 ]
Bruford, Michael W. [25 ,26 ]
Lenstra, Johannes A. [27 ]
Kijas, James [28 ]
Li, Meng-Hua [1 ,5 ]
机构
[1] Chinese Acad Sci, Inst Zool, CAS Key Lab Anim Ecol & Conservat Biol, Beijing, Peoples R China
[2] Univ Chinese Acad Sci UCAS, Coll Life Sci, Beijing, Peoples R China
[3] Xinjiang Acad Agr & Reclamat Sci, Inst Anim Husb & Vet Med, Shihezi, Peoples R China
[4] Xinjiang Acad Agr & Reclamat Sci, State Key Lab Sheep Genet Improvement & Hlth Bree, Shihezi, Peoples R China
[5] China Agr Univ, Coll Anim Sci & Technol, Beijing, Peoples R China
[6] Ningxia Acad Agr & Forestry Sci, Inst Anim Sci, Yinchuan, Ningxia, Peoples R China
[7] TEAGASC, Anim & Grassland Res & Innovat Ctr, Moorepk, Fermoy, Cork, Ireland
[8] Univ Cattolica Sacro Cuore, Dept Anim Sci Food & Nutr, Piacenza, Italy
[9] Shahid Bahonar Univ Kerman, Fac Agr, Dept Anim Sci, Kerman, Iran
[10] Payame Noor Univ, Dept Agr, Tehran, Iran
[11] LK Ernst Fed Sci Ctr Anim Husb, Moscow, Podolsk, Russia
[12] Univ Vet Med, Inst Anim Breeding & Genet, Vienna, Austria
[13] State Vet Inst Jihlava, Dept Virol, Jihlava, Czech Republic
[14] Univ Bari Aldo, Dipartimento Biosci Biotecnol & Biofarmaceut, 24 Moro, Bari, Italy
[15] Justus Liebig Univ Giessen, Dept Anim Breeding & Genet, Giessen, Germany
[16] Int Ctr Agr Res Dry Areas ICARDA, Small Ruminant Genom, Addis Ababa, Ethiopia
[17] Univ Nottingham, Sch Life Sci, Univ Pk, Nottingham, England
[18] Chinese Acad Agr Sci CAAS, Inst Anim Sci, CAAS ILRI Joint Lab Livestock & Forage Genet Reso, Beijing, Peoples R China
[19] Int Livestock Res Inst ILRI, Livestock Genet Program, Nairobi, Kenya
[20] Int Livestock Res Inst ILRI, Livestock Genet Program, Addis Ababa, Ethiopia
[21] Univ Edinburgh, Ctr Trop Livestock Genet & Hlth CTLGH, Roslin Inst, Easter Bush, Midlothian, Scotland
[22] Univ Alberta, Dept Biol Sci, Edmonton, AB, Canada
[23] Govt Alberta, Fish & Wildlife Enforcement Branch Forens Unit, Edmonton, AB, Canada
[24] Nat Resources Inst Finland Luke, Prod Syst, Jokioinen, Finland
[25] Cardiff Univ, Sch Biosci, Cathays Pk, Cardiff, Wales
[26] Cardiff Univ, Sustainable Pl Res Inst, Cardiff, Wales
[27] Univ Utrecht, Fac Vet Med, Utrecht, Netherlands
[28] Queensland Biosci Precinct, Commonwealth Sci & Ind Res Org Agr & Food, Brisbane, Qld, Australia
基金
中国国家自然科学基金;
关键词
climate adaptation; genome-wide SNPs; whole-genome sequences; introgression; ovine; pneumonia; ADAPTIVE INTROGRESSION; GENOME ANALYSIS; POPULATION; ASSOCIATION; ANCESTRY; HYBRIDIZATION; DOMESTICATION; ADMIXTURE; RECONSTRUCTION; REPRODUCTION;
D O I
10.1093/molbev/msaa236
中图分类号
Q5 [生物化学]; Q7 [分子生物学];
学科分类号
071010 ; 081704 ;
摘要
How animals, particularly livestock, adapt to various climates and environments over short evolutionary time is of fundamental biological interest. Further, understanding the genetic mechanisms of adaptation in indigenous livestock populations is important for designing appropriate breeding programs to cope with the impacts of changing climate. Here, we conducted a comprehensive genomic analysis of diversity, interspecies introgression, and climate-mediated selective signatures in a global sample of sheep and their wild relatives. By examining GOOK and 50K genome-wide single nucleotide polymorphism data from 3,447 samples representing 111 domestic sheep populations and 403 samples from all their seven wild relatives (argali, Asiatic mouflon, European mouflon, urial, snow sheep, bighorn, and thinhorn sheep), coupled with 88 whole-genome sequences, we detected clear signals of common introgression from wild relatives into sympatric domestic populations, thereby increasing their genomic diversities. The introgressions provided beneficial genetic variants in native populations, which were significantly associated with local climatic adaptation. We observed common introgression signals of alleles in olfactory-related genes (e.g., ADCY3 and TRPV1) and the PADI gene family including in particular PADI2, which is associated with antibacterial innate immunity. Further analyses of whole-genome sequences showed that the introgressed alleles in a specific region of PADI2 (chr2: 248,302,667-248,306,614) correlate with resistance to pneumonia. We conclude that wild introgression enhanced climatic adaptation and resistance to pneumonia in sheep. This has enabled them to adapt to varying climatic and environmental conditions after domestication.
引用
收藏
页码:838 / 855
页数:18
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