Draft genome sequence of the Tibetan antelope

Ri Li Ge; Qingle Cai; Yong Yi Shen; A. San; Lan Ma; Yong Zhang; Xin Yi; Yan Chen; Lingfeng Yang; Ying Huang; Rongjun He; Yuanyuan Hui; Meirong Hao; Yue Li; Bo Wang; Xiaohua Ou; Jiaohui Xu; Yongfen Zhang; Kui Wu; Chunyu Geng; Weiping Zhou; Taicheng Zhou; David M. Irwin; Yingzhong Yang; Liu Ying; Haihua Bao; Jaebum Kim; Denis M. Larkin; Jian Ma; Harris A. Lewin; Jinchuan Xing; Roy N. Platt; David A. Ray; Loretta Auvil; Boris Capitanu; Xiufeng Zhang; Guojie Zhang; Robert W. Murphy; Jun Wang; Ya Ping Zhang; Jian Wang

doi:10.1038/ncomms2860

Draft genome sequence of the Tibetan antelope

Ri Li Ge, Qingle Cai, Yong Yi Shen, A. San, Lan Ma, Yong Zhang, Xin Yi, Yan Chen, Lingfeng Yang, Ying Huang, Rongjun He, Yuanyuan Hui, Meirong Hao, Yue Li, Bo Wang, Xiaohua Ou, Jiaohui Xu, Yongfen Zhang, Kui Wu, Chunyu GengWeiping Zhou, Taicheng Zhou, David M. Irwin, Yingzhong Yang, Liu Ying, Haihua Bao, Jaebum Kim, Denis M. Larkin, Jian Ma, Harris A. Lewin, Jinchuan Xing, Roy N. Platt, David A. Ray, Loretta Auvil, Boris Capitanu, Xiufeng Zhang, Guojie Zhang, Robert W. Murphy, Jun Wang, Ya Ping Zhang, Jian Wang

Research output: Contribution to journal › Article › peer-review

Abstract

The Tibetan antelope (Pantholops hodgsonii) is endemic to the extremely inhospitable high-altitude environment of the Qinghai-Tibetan Plateau, a region that has a low partial pressure of oxygen and high ultraviolet radiation. Here we generate a draft genome of this artiodactyl and use it to detect the potential genetic bases of highland adaptation. Compared with other plain-dwelling mammals, the genome of the Tibetan antelope shows signals of adaptive evolution and gene-family expansion in genes associated with energy metabolism and oxygen transmission. Both the highland American pika, and the Tibetan antelope have signals of positive selection for genes involved in DNA repair and the production of ATPase. Genes associated with hypoxia seem to have experienced convergent evolution. Thus, our study suggests that common genetic mechanisms might have been utilized to enable high-altitude adaptation.

Original language	English (US)
Article number	1858
Journal	Nature communications
Volume	4
DOIs	https://doi.org/10.1038/ncomms2860
State	Published - 2013

ASJC Scopus subject areas

General Chemistry
General Biochemistry, Genetics and Molecular Biology
General Physics and Astronomy

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10.1038/ncomms2860

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Ge, RL, Cai, Q, Shen, YY, San, A, Ma, L, Zhang, Y, Yi, X, Chen, Y, Yang, L, Huang, Y, He, R, Hui, Y, Hao, M, Li, Y, Wang, B, Ou, X, Xu, J, Zhang, Y, Wu, K, Geng, C, Zhou, W, Zhou, T, Irwin, DM, Yang, Y, Ying, L, Bao, H, Kim, J, Larkin, DM, Ma, J, Lewin, HA, Xing, J, Platt, RN, Ray, DA, Auvil, L, Capitanu, B, Zhang, X, Zhang, G, Murphy, RW, Wang, J, Zhang, YP & Wang, J 2013, 'Draft genome sequence of the Tibetan antelope', Nature communications, vol. 4, 1858. https://doi.org/10.1038/ncomms2860

@article{1dbdd462a16a49f699de1fc499a729e1,

title = "Draft genome sequence of the Tibetan antelope",

abstract = "The Tibetan antelope (Pantholops hodgsonii) is endemic to the extremely inhospitable high-altitude environment of the Qinghai-Tibetan Plateau, a region that has a low partial pressure of oxygen and high ultraviolet radiation. Here we generate a draft genome of this artiodactyl and use it to detect the potential genetic bases of highland adaptation. Compared with other plain-dwelling mammals, the genome of the Tibetan antelope shows signals of adaptive evolution and gene-family expansion in genes associated with energy metabolism and oxygen transmission. Both the highland American pika, and the Tibetan antelope have signals of positive selection for genes involved in DNA repair and the production of ATPase. Genes associated with hypoxia seem to have experienced convergent evolution. Thus, our study suggests that common genetic mechanisms might have been utilized to enable high-altitude adaptation.",

author = "Ge, {Ri Li} and Qingle Cai and Shen, {Yong Yi} and A. San and Lan Ma and Yong Zhang and Xin Yi and Yan Chen and Lingfeng Yang and Ying Huang and Rongjun He and Yuanyuan Hui and Meirong Hao and Yue Li and Bo Wang and Xiaohua Ou and Jiaohui Xu and Yongfen Zhang and Kui Wu and Chunyu Geng and Weiping Zhou and Taicheng Zhou and Irwin, {David M.} and Yingzhong Yang and Liu Ying and Haihua Bao and Jaebum Kim and Larkin, {Denis M.} and Jian Ma and Lewin, {Harris A.} and Jinchuan Xing and Platt, {Roy N.} and Ray, {David A.} and Loretta Auvil and Boris Capitanu and Xiufeng Zhang and Guojie Zhang and Murphy, {Robert W.} and Jun Wang and Zhang, {Ya Ping} and Jian Wang",

note = "Funding Information: This work was supported by National Basic Research Program of China (No.2006CB504100, 2007CB411600 and 2012CB518200), Basic Science Research Foundation of Bureau of Science and Technology in Qinghai Provinces (2010-1456), Program of International S&T Cooperation of China (No.0S2012GR0195), National Nature Science Foundation of China (No.30393133), Bureau of Science and Technology of Yunnan Province, Chinese Academy of Sciences and Natural Sciences and Engineering Research Council (Discovery Grant 3148). We greatly appreciate the cooperation of Mongolian nomads of the Wu Tuo-Meren Village for their cooperation and hospitality. Without their help, capture of the antelope at this extremely high-altitude would have been impossible. We thank L. Goodman for editing the manuscript.",

year = "2013",

doi = "10.1038/ncomms2860",

language = "English (US)",

volume = "4",

journal = "Nature communications",

issn = "2041-1723",

publisher = "Nature Publishing Group",

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TY - JOUR

T1 - Draft genome sequence of the Tibetan antelope

AU - Ge, Ri Li

AU - Cai, Qingle

AU - Shen, Yong Yi

AU - San, A.

AU - Ma, Lan

AU - Zhang, Yong

AU - Yi, Xin

AU - Chen, Yan

AU - Yang, Lingfeng

AU - Huang, Ying

AU - He, Rongjun

AU - Hui, Yuanyuan

AU - Hao, Meirong

AU - Li, Yue

AU - Wang, Bo

AU - Ou, Xiaohua

AU - Xu, Jiaohui

AU - Zhang, Yongfen

AU - Wu, Kui

AU - Geng, Chunyu

AU - Zhou, Weiping

AU - Zhou, Taicheng

AU - Irwin, David M.

AU - Yang, Yingzhong

AU - Ying, Liu

AU - Bao, Haihua

AU - Kim, Jaebum

AU - Larkin, Denis M.

AU - Ma, Jian

AU - Lewin, Harris A.

AU - Xing, Jinchuan

AU - Platt, Roy N.

AU - Ray, David A.

AU - Auvil, Loretta

AU - Capitanu, Boris

AU - Zhang, Xiufeng

AU - Zhang, Guojie

AU - Murphy, Robert W.

AU - Wang, Jun

AU - Zhang, Ya Ping

AU - Wang, Jian

N1 - Funding Information: This work was supported by National Basic Research Program of China (No.2006CB504100, 2007CB411600 and 2012CB518200), Basic Science Research Foundation of Bureau of Science and Technology in Qinghai Provinces (2010-1456), Program of International S&T Cooperation of China (No.0S2012GR0195), National Nature Science Foundation of China (No.30393133), Bureau of Science and Technology of Yunnan Province, Chinese Academy of Sciences and Natural Sciences and Engineering Research Council (Discovery Grant 3148). We greatly appreciate the cooperation of Mongolian nomads of the Wu Tuo-Meren Village for their cooperation and hospitality. Without their help, capture of the antelope at this extremely high-altitude would have been impossible. We thank L. Goodman for editing the manuscript.

PY - 2013

Y1 - 2013

N2 - The Tibetan antelope (Pantholops hodgsonii) is endemic to the extremely inhospitable high-altitude environment of the Qinghai-Tibetan Plateau, a region that has a low partial pressure of oxygen and high ultraviolet radiation. Here we generate a draft genome of this artiodactyl and use it to detect the potential genetic bases of highland adaptation. Compared with other plain-dwelling mammals, the genome of the Tibetan antelope shows signals of adaptive evolution and gene-family expansion in genes associated with energy metabolism and oxygen transmission. Both the highland American pika, and the Tibetan antelope have signals of positive selection for genes involved in DNA repair and the production of ATPase. Genes associated with hypoxia seem to have experienced convergent evolution. Thus, our study suggests that common genetic mechanisms might have been utilized to enable high-altitude adaptation.

AB - The Tibetan antelope (Pantholops hodgsonii) is endemic to the extremely inhospitable high-altitude environment of the Qinghai-Tibetan Plateau, a region that has a low partial pressure of oxygen and high ultraviolet radiation. Here we generate a draft genome of this artiodactyl and use it to detect the potential genetic bases of highland adaptation. Compared with other plain-dwelling mammals, the genome of the Tibetan antelope shows signals of adaptive evolution and gene-family expansion in genes associated with energy metabolism and oxygen transmission. Both the highland American pika, and the Tibetan antelope have signals of positive selection for genes involved in DNA repair and the production of ATPase. Genes associated with hypoxia seem to have experienced convergent evolution. Thus, our study suggests that common genetic mechanisms might have been utilized to enable high-altitude adaptation.

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U2 - 10.1038/ncomms2860

DO - 10.1038/ncomms2860

M3 - Article

C2 - 23673643

AN - SCOPUS:84878718523

SN - 2041-1723

VL - 4

JO - Nature communications

JF - Nature communications

M1 - 1858

ER -

Draft genome sequence of the Tibetan antelope

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