Global genetic diversity, introgression, and evolutionary adaptation of indicine cattle revealed by whole genome sequencing
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Global genetic diversity, introgression, and evolutionary adaptation of indicine cattle revealed by whole genome sequencing. / Chen, Ningbo; Xia, Xiaoting; Hanif, Quratulain; Zhang, Fengwei; Dang, Ruihua; Huang, Bizhi; Lyu, Yang; Luo, Xiaoyu; Zhang, Hucai; Yan, Huixuan; Wang, Shikang; Wang, Fuwen; Chen, Jialei; Guan, Xiwen; Liu, Yangkai; Li, Shuang; Jin, Liangliang; Wang, Pengfei; Sun, Luyang; Zhang, Jicai; Liu, Jianyong; Qu, Kaixing; Cao, Yanhong; Sun, Junli; Liao, Yuying; Xiao, Zhengzhong; Cai, Ming; Mu, Lan; Siddiki, Amam Zonaed; Asif, Muhammad; Mansoor, Shahid; Babar, Masroor Ellahi; Hussain, Tanveer; Silva, Gamamada Liyanage Lalanie Pradeepa; Gorkhali, Neena Amatya; Terefe, Endashaw; Belay, Gurja; Tijjani, Abdulfatai; Zegeye, Tsadkan; Gebre, Mebrate Genet; Ma, Yun; Wang, Yu; Huang, Yongzhen; Lan, Xianyong; Chen, Hong; Migliore, Nicola Rambaldi; Colombo, Giulia; Semino, Ornella; Achilli, Alessandro; Sinding, Mikkel Holger S.; Lenstra, Johannes A.; Cheng, Haijian; Lu, Wenfa; Hanotte, Olivier; Han, Jianlin; Jiang, Yu; Lei, Chuzhao.
In: Nature Communications, Vol. 14, No. 1, 7803, 2023.Research output: Contribution to journal › Journal article › Research › peer-review
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TY - JOUR
T1 - Global genetic diversity, introgression, and evolutionary adaptation of indicine cattle revealed by whole genome sequencing
AU - Chen, Ningbo
AU - Xia, Xiaoting
AU - Hanif, Quratulain
AU - Zhang, Fengwei
AU - Dang, Ruihua
AU - Huang, Bizhi
AU - Lyu, Yang
AU - Luo, Xiaoyu
AU - Zhang, Hucai
AU - Yan, Huixuan
AU - Wang, Shikang
AU - Wang, Fuwen
AU - Chen, Jialei
AU - Guan, Xiwen
AU - Liu, Yangkai
AU - Li, Shuang
AU - Jin, Liangliang
AU - Wang, Pengfei
AU - Sun, Luyang
AU - Zhang, Jicai
AU - Liu, Jianyong
AU - Qu, Kaixing
AU - Cao, Yanhong
AU - Sun, Junli
AU - Liao, Yuying
AU - Xiao, Zhengzhong
AU - Cai, Ming
AU - Mu, Lan
AU - Siddiki, Amam Zonaed
AU - Asif, Muhammad
AU - Mansoor, Shahid
AU - Babar, Masroor Ellahi
AU - Hussain, Tanveer
AU - Silva, Gamamada Liyanage Lalanie Pradeepa
AU - Gorkhali, Neena Amatya
AU - Terefe, Endashaw
AU - Belay, Gurja
AU - Tijjani, Abdulfatai
AU - Zegeye, Tsadkan
AU - Gebre, Mebrate Genet
AU - Ma, Yun
AU - Wang, Yu
AU - Huang, Yongzhen
AU - Lan, Xianyong
AU - Chen, Hong
AU - Migliore, Nicola Rambaldi
AU - Colombo, Giulia
AU - Semino, Ornella
AU - Achilli, Alessandro
AU - Sinding, Mikkel Holger S.
AU - Lenstra, Johannes A.
AU - Cheng, Haijian
AU - Lu, Wenfa
AU - Hanotte, Olivier
AU - Han, Jianlin
AU - Jiang, Yu
AU - Lei, Chuzhao
N1 - Publisher Copyright: © 2023, The Author(s).
PY - 2023
Y1 - 2023
N2 - Indicine cattle, also referred to as zebu (Bos taurus indicus), play a central role in pastoral communities across a wide range of agro-ecosystems, from extremely hot semiarid regions to hot humid tropical regions. However, their adaptive genetic changes following their dispersal into East Asia from the Indian subcontinent have remained poorly documented. Here, we characterize their global genetic diversity using high-quality whole-genome sequencing data from 354 indicine cattle of 57 breeds/populations, including major indicine phylogeographic groups worldwide. We reveal their probable migration into East Asia was along a coastal route rather than inland routes and we detected introgression from other bovine species. Genomic regions carrying morphology-, immune-, and heat-tolerance-related genes underwent divergent selection according to Asian agro-ecologies. We identify distinct sets of loci that contain promising candidate variants for adaptation to hot semi-arid and hot humid tropical ecosystems. Our results indicate that the rapid and successful adaptation of East Asian indicine cattle to hot humid environments was promoted by localized introgression from banteng and/or gaur. Our findings provide insights into the history and environmental adaptation of indicine cattle.
AB - Indicine cattle, also referred to as zebu (Bos taurus indicus), play a central role in pastoral communities across a wide range of agro-ecosystems, from extremely hot semiarid regions to hot humid tropical regions. However, their adaptive genetic changes following their dispersal into East Asia from the Indian subcontinent have remained poorly documented. Here, we characterize their global genetic diversity using high-quality whole-genome sequencing data from 354 indicine cattle of 57 breeds/populations, including major indicine phylogeographic groups worldwide. We reveal their probable migration into East Asia was along a coastal route rather than inland routes and we detected introgression from other bovine species. Genomic regions carrying morphology-, immune-, and heat-tolerance-related genes underwent divergent selection according to Asian agro-ecologies. We identify distinct sets of loci that contain promising candidate variants for adaptation to hot semi-arid and hot humid tropical ecosystems. Our results indicate that the rapid and successful adaptation of East Asian indicine cattle to hot humid environments was promoted by localized introgression from banteng and/or gaur. Our findings provide insights into the history and environmental adaptation of indicine cattle.
U2 - 10.1038/s41467-023-43626-z
DO - 10.1038/s41467-023-43626-z
M3 - Journal article
C2 - 38016956
AN - SCOPUS:85178062335
VL - 14
JO - Nature Communications
JF - Nature Communications
SN - 2041-1723
IS - 1
M1 - 7803
ER -
ID: 375723639