Multi-omic Analyses Shed Light on The Genetic Control of High-altitude Adaptation in Sheep

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dc.creatorChao Li
dc.creatorBingchun Chen
dc.creatorSuo Langda
dc.creatorPeng Pu
dc.creatorXiaojia Zhu
dc.creatorShiwei Zhou
dc.creatorKalds, P.
dc.creatorAwang Cuoji
dc.creatorXiran Wang
dc.creatorHaolin Zhu
dc.creatorYujiang Wu
dc.creatorRenqin Cuomu
dc.creatorBa Gui
dc.creatorMing Li
dc.creatorYutao Wang
dc.creatorYan Li
dc.creatorWenwen Fang
dc.creatorTing Jia
dc.creatorTianchun Pu
dc.creatorXiangyu Pan
dc.creatorYudong Cai
dc.creatorChong He
dc.creatorLiming Wang
dc.creatorYu Jiang
dc.creatorHan Jianlin
dc.creatorYulin Chen
dc.creatorPing Zhou
dc.creatorPausch, H.
dc.creatorXiaolong Wang
dc.date2024-07-03
dc.date2024-08-25T18:18:32Z
dc.date2024-08-25T18:18:32Z
dc.date.accessioned2026-06-27T16:55:26Z
dc.descriptionSheep were domesticated in the Fertile Crescent and then spread globally, where they have been encountering various environmental conditions. The Tibetan sheep has adapted to high altitudes on the Qinghai-Tibet Plateau over the past 3000 years. To explore genomic variants associated with high-altitude adaptation in Tibetan sheep, we analyzed Illumina short-reads of 994 whole genomes representing ∼ 60 sheep breeds/populations at varied altitudes, PacBio High fidelity (HiFi) reads of 13 breeds, and 96 transcriptomes from 12 sheep organs. Association testing between the inhabited altitudes and 34,298,967 variants was conducted to investigate the genetic architecture of altitude adaptation. Highly accurate HiFi reads were used to complement the current ovine reference assembly at the most significantly associated β-globin locus and to validate the presence of two haplotypes A and B among 13 sheep breeds. The haplotype A carried two homologous gene clusters: (1) HBE1, HBE2, HBB-like, and HBBC, and (2) HBE1-like, HBE2-like, HBB-like, and HBB; while the haplotype B lacked the first cluster. The high-altitude sheep showed highly frequent or nearly fixed haplotype A, while the low-altitude sheep dominated by haplotype B. We further demonstrated that sheep with haplotype A had an increased hemoglobin–O2 affinity compared with those carrying haplotype B. Another highly associated genomic region contained the EGLN1 gene which showed varied expression between high-altitude and low-altitude sheep. Our results provide evidence that the rapid adaptive evolution of advantageous alleles play an important role in facilitating the environmental adaptation of Tibetan sheep.
dc.identifierhttps://hdl.handle.net/10568/151842
dc.identifier.urihttp://hdl.handle.net/123456789/137168
dc.languageen
dc.publisherOxford University Press
dc.rightsOpen Access
dc.sourceChao Li, Bingchun Chen, Suo Langda, Peng Pu, Xiaojia Zhu, Shiwei Zhou, Kalds, P., Ke Zhang, Bhati, M., Leonard, A., Shuhong Huang, Ran Li, Awang Cuoji, Xiran Wang, Haolin Zhu, Yujiang Wu, Renqin Cuomu, Ba Gui, Ming Li, Yutao Wang, Yan Li, Wenwen Fang, Ting Jia, Tianchun Pu, Xiangyu Pan, Yudong Cai, Chong He, Liming Wang, Yu Jiang, Jian-Lin Han, Yulin Chen, Ping Zhou, Pausch, H. and Xiaolong Wang. 2024. Multi-omic Analyses Shed Light on The Genetic Control of High-altitude Adaptation in Sheep. Genomics, Proteomics & Bioinformatics 22(2):qzae030.
dc.subjectsheep
dc.subjectgenetics
dc.subjectanimal breeding
dc.subjectadaptation
dc.subjectbreeds
dc.subjectgenomes
dc.subjecttesting
dc.subjectevolution
dc.subjectvariants
dc.subjectalleles
dc.subjectgene
dc.subjectaltitude
dc.subjectgenetic
dc.subjecthaplotypes
dc.subjectgenetic control
dc.titleMulti-omic Analyses Shed Light on The Genetic Control of High-altitude Adaptation in Sheep
dc.typeJournal Article

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Instituto Internacional de Investigaciones Pecuarias (ILRI)