Dataset Information

Convergent genomic signatures of high-altitude adaptation among domestic mammals.

ABSTRACT: Abundant and diverse domestic mammals living on the Tibetan Plateau provide useful materials for investigating adaptive evolution and genetic convergence. Here, we used 327 genomes from horses, sheep, goats, cattle, pigs and dogs living at both high and low altitudes, including 73 genomes generated for this study, to disentangle the genetic mechanisms underlying local adaptation of domestic mammals. Although molecular convergence is comparatively rare at the DNA sequence level, we found convergent signature of positive selection at the gene level, particularly the EPAS1 gene in these Tibetan domestic mammals. We also reported a potential function in response to hypoxia for the gene C10orf67, which underwent positive selection in three of the domestic mammals. Our data provide an insight into adaptive evolution of high-altitude domestic mammals, and should facilitate the search for additional novel genes involved in the hypoxia response pathway.

SUBMITTER: Wu DD

PROVIDER: S-EPMC8288980 | biostudies-literature | 2020 Jun

REPOSITORIES: biostudies-literature

ACCESS DATA

Publications

Convergent genomic signatures of high-altitude adaptation among domestic mammals.

Wu Dong-Dong DD Yang Cui-Ping CP Wang Ming-Shan MS Dong Kun-Zhe KZ Yan Da-Wei DW Hao Zi-Qian ZQ Fan Song-Qing SQ Chu Shu-Zhou SZ Shen Qiu-Shuo QS Jiang Li-Ping LP Li Yan Y Zeng Lin L Liu He-Qun HQ Xie Hai-Bing HB Ma Yun-Fei YF Kong Xiao-Yan XY Yang Shu-Li SL Dong Xin-Xing XX Esmailizadeh Ali A Irwin David M DM Xiao Xiao X Li Ming M Dong Yang Y Wang Wen W Shi Peng P Li Hai-Peng HP Ma Yue-Hui YH Gou Xiao X Chen Yong-Bin YB Zhang Ya-Ping YP

National science review 20191219 6

Abundant and diverse domestic mammals living on the Tibetan Plateau provide useful materials for investigating adaptive evolution and genetic convergence. Here, we used 327 genomes from horses, sheep, goats, cattle, pigs and dogs living at both high and low altitudes, including 73 genomes generated for this study, to disentangle the genetic mechanisms underlying local adaptation of domestic mammals. Although molecular convergence is comparatively rare at the DNA sequence level, we found converge ...[more]

PMID: 34692117

Similar Datasets

Project description:Both genomics- and proteomics-based investigations have identified several essential genes, proteins, and pathways that may facilitate human adaptive genotype/phenotype in a population-specific manner. This comprehensive review provides an up-to-date list of genes and proteins identified for human adaptive responses to high altitudes. Genomics studies for indigenous high-altitude populations like Tibetans, Andeans, Ethiopians, and Sherpas have identified 169 genes under positive natural selection. Similarly, global proteomics studies have identified 258 proteins (± 1.2-fold or more) for Tibetan, Sherpa, and Ladakhi highlanders. The primary biological processes identified for genetic signatures include hypoxia-inducible factor (HIF)-mediated oxygen sensing, angiogenesis, and erythropoiesis. In contrast, major biological processes identified for proteomics signatures include 14–3-3 mediated sirtuin signaling, integrin-linked kinase (ILK), phosphoinositide 3-kinase (PI3K)/protein kinase B (AKT), and integrin signaling. Comparing genetic and protein signatures, we identified 7 common genes/proteins (HBB/hemoglobin subunit beta, TF/serotransferrin, ANGPTL4/angiopoietin-related protein 4, CDC42/cell division control protein 42 homolog, GC/vitamin D-binding protein, IGFBP1/insulin-like growth factor-binding protein 1, and IGFBP2/insulin-like growth factor-binding protein 2) involved in crucial molecular functions like IGF-1 signaling, LXR/RXR activation, ferroptosis signaling, iron homeostasis signaling and regulation of cell cycle. Our combined multi-omics analysis identifies common molecular targets and pathways for human adaptation to high altitude. These observations further corroborate convergent positive selection of hypoxia-responsive molecular pathways in humans and advocate using multi-omics techniques for deciphering human adaptive responses to high altitude. Supplementary Information The online version contains supplementary material available at 10.1186/s40246-022-00395-y.

Dataset Information

Convergent genomic signatures of high-altitude adaptation among domestic mammals.

Publications

Convergent genomic signatures of high-altitude adaptation among domestic mammals.

Similar Datasets

OmicsDI is part of the ELIXIR infrastructure

Tweets