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dc.contributor.author | Zhang, Ticao![]() |
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dc.contributor.author | Qiao, Qin![]() |
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dc.contributor.author | Novikova, Polina Yu.![]() |
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dc.contributor.author | Wang, Qia![]() |
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dc.contributor.author | Yue, Jipei![]() |
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dc.contributor.author | Guan, Yanlong![]() |
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dc.contributor.author | Ming, Shengping![]() |
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dc.contributor.author | Liu, Tianmeng![]() |
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dc.contributor.author | De, Ji![]() |
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dc.contributor.author | Liu, Yixuan![]() |
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dc.contributor.author | Al-Shehbaz, Ihsan A.![]() |
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dc.contributor.author | Sun, Hang![]() |
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dc.contributor.author | Van Montagu, Marc![]() |
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dc.contributor.author | Huang, Jinling![]() |
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dc.contributor.author | Van de Peer, Yves![]() |
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dc.contributor.author | Qiong, La![]() |
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dc.date.accessioned | 2020-03-09T12:55:26Z | |
dc.date.available | 2020-03-09T12:55:26Z | |
dc.date.issued | 2019-04 | |
dc.description.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 clade 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 S-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. | en_ZA |
dc.description.department | Biochemistry | en_ZA |
dc.description.department | Genetics | en_ZA |
dc.description.department | Microbiology and Plant Pathology | en_ZA |
dc.description.librarian | hj2020 | en_ZA |
dc.description.sponsorship | National Natural Science Foundation of China Grants 31770408, 31590823, 31760082, 31760127, U1802232, and 91131901 (to T.Z., H.S., Q.Q., and L.Q.), National Key R & D Program of China Grant 2017YF0505200 (to H.S.), the Strategic Priority Research Program of Chinese Academy of Sciences Grant XDA 20050203 (to H.S.), National High Technology Research and Development Program of China Grant 2014AA020528 (to T.Z.), the Chinese Academy of Sciences “Light of West China” Program (J.H.), and European Union Seventh Framework Programme Grant FP7/2007-2013 under European Research Council Advanced Grant Agreement 322739 – DOUBLEUP (to Y.V.d.P.). P.Y.N. is a postdoctoral fellow of the Research Foundation–Flanders (12S9618N). | en_ZA |
dc.description.uri | http://www.pnas.org | en_ZA |
dc.identifier.citation | Zhang, T., Qiao, Q., Novikova, P.Y. et al. 2019, 'Genome of Crucihimalaya himalaica, a close relative of Arabidopsis, shows ecological adaptation to high altitude', Proceedings of National Academy of Sciences of United States of America, vol. 116, no. 14, pp. 7137-7146. | en_ZA |
dc.identifier.issn | 0027-8424 (print) | |
dc.identifier.issn | 1091-6490 (online) | |
dc.identifier.other | 10.1073/pnas.1817580116 | |
dc.identifier.uri | http://hdl.handle.net/2263/73690 | |
dc.language.iso | en | en_ZA |
dc.publisher | National Academy of Sciences | en_ZA |
dc.rights | © 2019 the Author(s). Published by PNAS. This open access article is distributed under Creative Commons Attribution-NonCommercial-NoDerivatives License 4.0 (CC BY-NC-ND). | en_ZA |
dc.subject | Adaptive evolution | en_ZA |
dc.subject | Natural selection | en_ZA |
dc.subject | Extreme environment | en_ZA |
dc.subject | Qinghai–Tibet Plateau | en_ZA |
dc.subject | S-locus | en_ZA |
dc.title | Genome of Crucihimalaya himalaica, a close relative of Arabidopsis, shows ecological adaptation to high altitude | en_ZA |
dc.type | Article | en_ZA |