TY - JOUR
T1 - Historical introgression from wild relatives enhanced climatic adaptation and resistance to pneumonia in sheep
AU - Cao, Yin-Hong
AU - Xu, Song-Song
AU - Shen, Min
AU - Chen, Ze-Hui
AU - Gao, Lei
AU - Lv, Feng-Hua
AU - Xie, Xing-Long
AU - Wang, Xin-Hua
AU - Yang, Hua
AU - Liu, Chang-Bin
AU - Zhou, Ping
AU - Wan, Peng-Cheng
AU - Zhang, Yun-Sheng
AU - Yang, Jing-Quan
AU - Pi, Wen-Hui
AU - Hehua, Eer
AU - Berry, Donagh P
AU - Barbato, Mario
AU - Esmailizadeh, Ali
AU - Nosrati, Maryam
AU - Salehian-Dehkordi, Hosein
AU - Dehghani-Qanatqestani, Mostafa
AU - Dotsev, Arsen V
AU - Deniskova, Tatiana E
AU - Zinovieva, Natalia A
AU - Brem, Gottfried
AU - Štěpánek, Ondřej
AU - Ciani, Elena
AU - Weimann, Christina
AU - Erhardt, Georg
AU - Mwacharo, Joram M
AU - Ahbara, Abulgasim
AU - Han, Jian-Lin
AU - Hanotte, Olivier
AU - Miller, Joshua M
AU - Sim, Zijian
AU - Coltman, David
AU - Kantanen, Juha
AU - Bruford, Michael W
AU - Lenstra, Johannes A
AU - Kijas, James
AU - Li, Meng-Hua
PY - 2020
Y1 - 2020
N2 - 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 600k and 50k genome-wide SNP data from 3447 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: 248302667-248306614) 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.
AB - 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 600k and 50k genome-wide SNP data from 3447 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: 248302667-248306614) 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.
KW - climate adaptation
KW - genome-wide SNPs
KW - introgression
KW - ovine
KW - pneumonia
KW - whole-genome sequences
KW - climate adaptation
KW - genome-wide SNPs
KW - introgression
KW - ovine
KW - pneumonia
KW - whole-genome sequences
UR - http://hdl.handle.net/10807/161656
U2 - 10.1093/molbev/msaa236
DO - 10.1093/molbev/msaa236
M3 - Article
SN - 0737-4038
SP - N/A-N/A
JO - Molecular Biology and Evolution
JF - Molecular Biology and Evolution
ER -