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

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2024

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Li, Chao
Chen, Bingchun
Langda, Suo
Pu, Peng
Zhu, Xiaojia
Zhou, Shiwei
Wang, Yutao
Pausch, Hubert
Wang, Xiaolong
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Genomics, Proteomics & Bioinformatic. Oxford University Press (OUP). 2024, 22(2), qzae030. ISSN 1672-0229. eISSN 2210-3244. Verfügbar unter: doi: 10.1093/gpbjnl/qzae030

Zusammenfassung

Sheep 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.

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570 Biowissenschaften, Biologie

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ISO 690LI, Chao, Bingchun CHEN, Suo LANGDA, Peng PU, Xiaojia ZHU, Shiwei ZHOU, Ming LI, Yutao WANG, Hubert PAUSCH, Xiaolong WANG, 2024. Multi-omic Analyses Shed Light on The Genetic Control of High-altitude Adaptation in Sheep. In: Genomics, Proteomics & Bioinformatic. Oxford University Press (OUP). 2024, 22(2), qzae030. ISSN 1672-0229. eISSN 2210-3244. Verfügbar unter: doi: 10.1093/gpbjnl/qzae030
BibTex
@article{Li2024-07-03Multi-70743,
  year={2024},
  doi={10.1093/gpbjnl/qzae030},
  title={Multi-omic Analyses Shed Light on The Genetic Control of High-altitude Adaptation in Sheep},
  number={2},
  volume={22},
  issn={1672-0229},
  journal={Genomics, Proteomics & Bioinformatic},
  author={Li, Chao and Chen, Bingchun and Langda, Suo and Pu, Peng and Zhu, Xiaojia and Zhou, Shiwei and Li, Ming and Wang, Yutao and Pausch, Hubert and Wang, Xiaolong},
  note={Article Number: qzae030}
}
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