iScience (Jan 2019)
Hypoxic and Cold Adaptation Insights from the Himalayan Marmot Genome
- Liang Bai,
- Baoning Liu,
- Changmian Ji,
- Sihai Zhao,
- Siyu Liu,
- Rong Wang,
- Weirong Wang,
- Pu Yao,
- Xuming Li,
- Xiaojun Fu,
- Haiyan Yu,
- Min Liu,
- Fengming Han,
- Ning Guan,
- Hui Liu,
- Dongyuan Liu,
- Yuanqing Tao,
- Zhongdong Wang,
- Shunsheng Yan,
- Greg Florant,
- Michael T. Butcher,
- Jifeng Zhang,
- Hongkun Zheng,
- Jianglin Fan,
- Enqi Liu
Affiliations
- Liang Bai
- Laboratory Animal Center, Xi'an Jiaotong University Health Science Center, No.76, Yanta West Road, Xi'an, Shaanxi 710061, China; Research Institute of Atherosclerotic Disease, Xi'an Jiaotong University Cardiovascular Research Center, Xi'an, Shaanxi 710061, China
- Baoning Liu
- Laboratory Animal Center, Xi'an Jiaotong University Health Science Center, No.76, Yanta West Road, Xi'an, Shaanxi 710061, China; Research Institute of Atherosclerotic Disease, Xi'an Jiaotong University Cardiovascular Research Center, Xi'an, Shaanxi 710061, China
- Changmian Ji
- Biomarker Technologies Corporation, Beijing 101200, China
- Sihai Zhao
- Laboratory Animal Center, Xi'an Jiaotong University Health Science Center, No.76, Yanta West Road, Xi'an, Shaanxi 710061, China; Research Institute of Atherosclerotic Disease, Xi'an Jiaotong University Cardiovascular Research Center, Xi'an, Shaanxi 710061, China
- Siyu Liu
- Department of Computational Medicine and Bioinformatics, University of Michigan, Ann Arbor, MI 48109, USA
- Rong Wang
- Laboratory Animal Center, Xi'an Jiaotong University Health Science Center, No.76, Yanta West Road, Xi'an, Shaanxi 710061, China; Research Institute of Atherosclerotic Disease, Xi'an Jiaotong University Cardiovascular Research Center, Xi'an, Shaanxi 710061, China
- Weirong Wang
- Laboratory Animal Center, Xi'an Jiaotong University Health Science Center, No.76, Yanta West Road, Xi'an, Shaanxi 710061, China; Research Institute of Atherosclerotic Disease, Xi'an Jiaotong University Cardiovascular Research Center, Xi'an, Shaanxi 710061, China
- Pu Yao
- Biomarker Technologies Corporation, Beijing 101200, China
- Xuming Li
- Biomarker Technologies Corporation, Beijing 101200, China
- Xiaojun Fu
- Biomarker Technologies Corporation, Beijing 101200, China
- Haiyan Yu
- Biomarker Technologies Corporation, Beijing 101200, China
- Min Liu
- Biomarker Technologies Corporation, Beijing 101200, China
- Fengming Han
- Biomarker Technologies Corporation, Beijing 101200, China
- Ning Guan
- Biomarker Technologies Corporation, Beijing 101200, China
- Hui Liu
- Biomarker Technologies Corporation, Beijing 101200, China
- Dongyuan Liu
- Biomarker Technologies Corporation, Beijing 101200, China
- Yuanqing Tao
- Qinghai Institute for Endemic Disease Prevention and Control, Xining, Qinghai 811602, China
- Zhongdong Wang
- Qinghai Institute for Endemic Disease Prevention and Control, Xining, Qinghai 811602, China
- Shunsheng Yan
- Centers for Disease Control and Prevention, Urumqi, Xinjiang 830054, China
- Greg Florant
- Department of Biology, Colorado State University, Ft. Collins, CO 80523, USA
- Michael T. Butcher
- Department of Biological Sciences, Youngstown State University, Youngstown, OH 44555, USA
- Jifeng Zhang
- Center for Advanced Models for Translational Sciences and Therapeutics, University of Michigan Medical Center, Ann Arbor, MI 48109, USA
- Hongkun Zheng
- Biomarker Technologies Corporation, Beijing 101200, China; Corresponding author
- Jianglin Fan
- Department of Molecular Pathology, Faculty of Medicine, Interdisciplinary Graduate School of Medicine, University of Yamanashi, 1110, Shimokato, Chuo, Yamanashi 409-3898, Japan; Corresponding author
- Enqi Liu
- Laboratory Animal Center, Xi'an Jiaotong University Health Science Center, No.76, Yanta West Road, Xi'an, Shaanxi 710061, China; Research Institute of Atherosclerotic Disease, Xi'an Jiaotong University Cardiovascular Research Center, Xi'an, Shaanxi 710061, China; Corresponding author
- Journal volume & issue
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Vol. 11
pp. 519 – 530
Abstract
Summary: The Himalayan marmot (Marmota himalayana) is a hibernating mammal that inhabits the high-elevation regions of the Himalayan mountains. Here we present a draft genome of the Himalayan marmot, with a total assembly length of 2.47 Gb. Phylogenetic analyses showed that the Himalayan marmot diverged from the Mongolian marmot approximately 1.98 million years ago. Transcriptional changes during hibernation included genes responsible for fatty acid metabolism in liver and genes involved in complement and coagulation cascades and stem cell pluripotency pathways in brain. Two selective sweep genes, Slc25a14 and ψAamp, showed apparent genotyping differences between low- and high-altitude populations. As a processed pseudogene, ψAamp may be biologically active to influence the stability of Aamp through competitive microRNA binding. These findings shed light on the molecular and genetic basis underlying adaptation to extreme environments in the Himalayan marmot. : Physiology; Genetics; Evolutionary Biology; Bioinformatics; Omics Subject Areas: Physiology, Genetics, Evolutionary Biology, Bioinformatics, Omics
