| Genome of Crucihimalaya himalaica, a close relative of Arabidopsis, shows ecological adaptation to high altitude | |
Zhang, Ticao1,2; Qiao, Qin3; Novikova, Polina Yu.4,5; Wang, Qia1; Yue, Jipei1; Guan, Yanlong1; Ming, Shengping6; Liu, Tianmeng6; De, Ji6; Liu, Yixuan6; Al-Shehbaz, Ihsan A.7; Sun, Hang2 ; Van Montagu, Marc4,5; Huang, Jinling1,8,9; Van de Peer, Yves4,5,10; Qiong, La6
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| Corresponding Author | Van Montagu, Marc(marc.vanmontagu@vib-ugent.be) ; Huang, Jinling(huangj@ecu.edu) ; Van de Peer, Yves(yves.vandepeer@psb.vib-ugent.be) ; Qiong, La(lhagchong@163.com) |
| 2019-04-02 | |
| Source Publication | PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
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| ISSN | 0027-8424 |
| Volume | 116Issue:14Pages:7137-7146 |
| Abstract | Crucihimalaya himalaica, a close relative of Arabidopsis and Capsella, grows on the Qinghai-Tibet Plateau (QTP) about 4,000 m above sea level and represents an attractive model system for studying speciation and ecological adaptation in extreme environments. We assembled a draft genome sequence of 234.72 Mb encoding 27,019 genes and investigated its origin and adaptive evolutionary mechanisms. Phylogenomic analyses based on 4,586 single-copy genes revealed that C. himalaica is most closely related to Capsella (estimated divergence 8.8 to 12.2 Mya), whereas both species form a sister Glade to Arabidopsis thaliana and Arabidopsis lyrata, from which they diverged between 12.7 and 17.2 Mya. LTR retrotransposons in C. himalaica proliferated shortly after the dramatic uplift and climatic change of the Himalayas from the Late Pliocene to Pleistocene. Compared with closely related species, C himalaica showed significant contraction and pseudogenization in gene families associated with disease resistance and also significant expansion in gene families associated with ubiquitin-mediated proteolysis and DNA repair. We identified hundreds of genes involved in DNA repair, ubiquitin-mediated proteolysis, and reproductive processes with signs of positive selection. Gene families showing dramatic changes in size and genes showing signs of positive selection are likely candidates for C himalaica's adaptation to intense radiation, low temperature, and pathogen-depauperate environments in the QTP. Loss of function at the 5-locus, the reason for the transition to self-fertilization of C himalaica, might have enabled its QTP occupation. Overall, the genome sequence of C. himalaica provides insights into the mechanisms of plant adaptation to extreme environments. |
| Keyword | adaptive evolution natural selection extreme environment Qinghai-Tibet Plateau S-locus |
| DOI | 10.1073/pnas.1817580116 |
| Indexed By | SCI |
| Language | 英语 |
| WOS ID | WOS:000463069900097 |
| Citation statistics | |
| Document Type | 期刊论文 |
| Identifier | http://ir.kib.ac.cn/handle/151853/66169 |
| Collection | 中国科学院东亚植物多样性与生物地理学重点实验室 |
| Corresponding Author | Van Montagu, Marc; Huang, Jinling; Van de Peer, Yves; Qiong, La |
| Affiliation | 1.Chinese Acad Sci, Kunming Inst Bot, Key Lab Plant Divers & Biogeog East Asia, Kunming 650201, Yunnan, Peoples R China 2.Yunnan Univ Chinese Med, Coll Chinese Mat Med, Kunming 650500, Yunnan, Peoples R China 3.Yunnan Univ, Sch Agr, Kunming 650091, Yunnan, Peoples R China 4.Univ Ghent, Dept Plant Biotechnol & Bioinformat, B-9052 Ghent, Belgium 5.VIB, Ctr Plant Syst Biol, B-9052 Ghent, Belgium 6.Tibet Univ, Coll Sci, Inst Biodivers Sci & Geobiol, Lhasa 850012, Peoples R China 7.Missouri Bot Garden, Pob 299, St Louis, MO 63166 USA 8.East Carolina Univ, Dept Biol, Greenville, NC 27858 USA 9.Henan Univ, Sch Life Sci, State Key Lab Cotton Biol, Inst Plant Stress Biol, Kaifeng 475001, Peoples R China 10.Univ Pretoria, Dept Biochem Genet & Microbiol, ZA-0028 Pretoria, South Africa |
| Recommended Citation GB/T 7714 | Zhang, Ticao,Qiao, Qin,Novikova, Polina Yu.,et al. Genome of Crucihimalaya himalaica, a close relative of Arabidopsis, shows ecological adaptation to high altitude[J]. PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA,2019,116(14):7137-7146. |
| APA | Zhang, Ticao.,Qiao, Qin.,Novikova, Polina Yu..,Wang, Qia.,Yue, Jipei.,...&Qiong, La.(2019).Genome of Crucihimalaya himalaica, a close relative of Arabidopsis, shows ecological adaptation to high altitude.PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA,116(14),7137-7146. |
| MLA | Zhang, Ticao,et al."Genome of Crucihimalaya himalaica, a close relative of Arabidopsis, shows ecological adaptation to high altitude".PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA 116.14(2019):7137-7146. |
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| Zhang-2019-Genome of（1711KB） | 期刊论文 | 出版稿 | 开放获取 | CC BY-NC-SA | View Download | |
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