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The Apostasia genome and the evolution of orchids
Zhang, Guo-Qiang; Liu, Ke-Wei; Li, Zhen; Lohaus, Rolf; Hsiao, Yu-Yun; Niu, Shan-Ce; Wang, Jie-Yu; Lin, Yao-Cheng; Xu, Qing; Chen, Li-Jun; Yoshida, Kouki8; Fujiwara, Sumire; Wang, Zhi-Wen; Zhang, Yong-Qiang; Mitsuda, Nobutaka; Wang, Meina; Liu, Guo-Hui; Pecoraro, Lorenzo; Huang, Hui-Xia; Xiao, Xin-Ju; Lin, Min; Wu, Xin-Yi; Wu, Wan-Lin; Chen, You-Yi; Chang, Song-Bin; Sakamoto, Shingo; Ohme-Takagi, Masaru; Yagi, Masafumi12; Zeng, Si-Jin; Shen, Ching-Yu; Yeh, Chuan-Ming; Luo, Yi-Bo; Tsai, Wen-Chieh; Van de Peer, Yves2,3,14; Liu, Zhong-Jian
Source PublicationNATURE
AbstractConstituting approximately 10% of flowering plant species, orchids (Orchidaceae) display unique flower morphologies, possess an extraordinary diversity in lifestyle, and have successfully colonized almost every habitat on Earth(1-3). Here we report the draft genome sequence of Apostasia shenzhenica(4), a representative of one of two genera that form a sister lineage to the rest of the Orchidaceae, providing a reference for inferring the genome content and structure of the most recent common ancestor of all extant orchids and improving our understanding of their origins and evolution. In addition, we present transcriptome data for representatives of Vanilloideae, Cypripedioideae and Orchidoideae, and novel third-generation genome data for two species of Epidendroideae, covering all five orchid subfamilies. A. shenzhenica shows clear evidence of a whole-genome duplication, which is shared by all orchids and occurred shortly before their divergence. Comparisons between A. shenzhenica and other orchids and angiosperms also permitted the reconstruction of an ancestral orchid gene toolkit. We identify new gene families, gene family expansions and contractions, and changes within MADS-box gene classes, which control a diverse suite of developmental processes, during orchid evolution. This study sheds new light on the genetic mechanisms underpinning key orchid innovations, including the development of the labellum and gynostemium, pollinia, and seeds without endosperm, as well as the evolution of epiphytism; reveals relationships between the Orchidaceae subfamilies; and helps clarify the evolutionary history of orchids within the angiosperms.
Subject AreaBiotechnology & Applied Microbiology ; Microbiology
Indexed BySCI
WOS IDWOS:000395610300006
Publication PlaceBERLIN
Funding OrganizationFunds for Environmental Project of Shenzhen, China [2013-02] ; State Forestry Administration P. R. China [2011-4-53] ; Funds for Forestry Science and Technology Innovation Project of Guangdong, China [2016KJCX025, 2013KJCX014-05] ; Fundamental Research Project of Shenzhen, China [JCYJ20170307170746099, JCYJ20150403150235943] ; Guangdong Natural Science FoundationNational Natural Science Foundation of Guangdong Province [2017A030312004] ; Multidisciplinary Research Partnership 'Bioinformatics: from nucleotides to networks' Project of Ghent University [01MR0310W] ; European Union under European Research Council [322739-DOUBLEUP]
Corresponding Author Emailcmyeh@mail.saitama-u.ac.jp ; luoyb@ibcas.ac.cn ; tsaiwc@mail.ncku.edu.tw ; yves.vandepeer@psb.vib-ugent.be ; liuzj@sinicaorchid.org
Citation statistics
Cited Times:23[WOS]   [WOS Record]     [Related Records in WOS]
Document Type期刊论文
Affiliation1.Natl Orchid Conservat Ctr China, Shenzhen Key Lab Orchid Conservat & Utilizat, Shenzhen 518114, Peoples R China
2.Orchid Conservat & Res Ctr Shenzhen, Shenzhen 518114, Peoples R China
3.Univ Ghent, Dept Plant Biotechnol & Bioinformat, B-9052 Ghent, Belgium
4.VIB Ctr Plant Syst Biol, B-9052 Ghent, Belgium
5.Natl Cheng Kung Univ, Orchid Res & Dev Ctr, Tainan 701, Taiwan
6.Natl Cheng Kung Univ, Dept Life Sci, Tainan 701, Taiwan
7.Chinese Acad Sci, Inst Bot, State Key Lab Systemat & Evolutionary Bot, Beijing 100093, Peoples R China
8.South China Agr Univ, Coll Forestry, Guangzhou 510640, Guangdong, Peoples R China
9.Taisei Corp, Technol Ctr, Totsuka Ku, Nase Cho 344-1, Yokohama, Kanagawa 2450051, Japan
10.Natl Inst Adv Ind Sci & Technol, Bioprod Res Inst, Cent 6,Higashi 1-1-1, Tsukuba, Ibaraki 3058562, Japan
11.PubBiotech Serv Corp, Wuhan 430070, Hubei, Peoples R China
12.Saitama Univ, Grad Sch Sci & Engn, Sakura Ku, 255 Shimo Okubo, Saitama 3388570, Japan
13.NIFS, 2-1 Fujimoto, Tsukuba, Ibaraki 3058519, Japan
14.Natl Cheng Kung Univ, Inst Trop Plant Sci, Tainan 701, Taiwan
15.Genom Res Inst, Dept Genet, ZA-0028 Pretoria, South Africa
16.Fujian Agr & Forestry Univ, Coll Landscape Architecture, Fuzhou 350002, Fujian, Peoples R China
17.Tsinghua Univ, Grad Sch Shenzhen, Ctr Biotechnol & BioMed, Shenzhen 518055, Peoples R China
18.Acad Sinica, Biotechnol Ctr Southern Taiwan, Agr Biotechnol Res Ctr, Tainan 741, Taiwan
Recommended Citation
GB/T 7714
Zhang, Guo-Qiang,Liu, Ke-Wei,Li, Zhen,et al. The Apostasia genome and the evolution of orchids[J]. NATURE,2017,549(7672):379+.
APA Zhang, Guo-Qiang.,Liu, Ke-Wei.,Li, Zhen.,Lohaus, Rolf.,Hsiao, Yu-Yun.,...&Liu, Zhong-Jian.(2017).The Apostasia genome and the evolution of orchids.NATURE,549(7672),379+.
MLA Zhang, Guo-Qiang,et al."The Apostasia genome and the evolution of orchids".NATURE 549.7672(2017):379+.
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