IB-CAS  > 系统与进化植物学国家重点实验室
A genome for gnetophytes and early evolution of seed plants
Wan, Tao; Liu, Zhi-Ming; Li, Ling-Fei; Leitch, Andrew R.; Leitch, Ilia J.; Lohaus, Rolf5,6; Liu, Zhong-Jian; Xin, Hai-Ping; Gong, Yan-Bing; Liu, Yang; Wang, Wen-Cai; Chen, Ling-Yun; Yang, Yong12; Kelly, Laura J.; Yang, Ji13; Huang, Jin-Ling; Li, Zhen5,6; Liu, Ping; Zhang, Li; Liu, Hong-Mei; Wang, Hui; Deng, Shu-Han; Liu, Meng; Li, Ji; Ma, Lu3; Liu, Yan; Lei, Yang; Xu, Wei; Wu, Ling-Qing; Liu, Fan; Ma, Qian10; Yu, Xin-Ran; Jiang, Zhi; Zhang, Guo-Qiang; Li, Shao-Hua; Li, Rui-Qiang; Zhang, Shou-Zhou; Wang, Qing-Feng; Van de Peer, Yves5,6,17; Zhang, Jin-Bo; Wang, Xiao-Ming
2018
Source PublicationNATURE PLANTS
ISSN2055-026X
Volume4Issue:2Pages:82-89
AbstractGnetophytes are an enigmatic gymnosperm lineage comprising three genera, Gnetum, Welwitschia and Ephedra, which are morphologically distinct from all other seed plants. Their distinctiveness has triggered much debate as to their origin, evolution and phylogenetic placement among seed plants. To increase our understanding of the evolution of gnetophytes, and their relation to other seed plants, we report here a high-quality draft genome sequence for Gnetum montanum, the first for any gnetophyte. By using a novel genome assembly strategy to deal with high levels of heterozygosity, we assembled >4 Gb of sequence encoding 27,491 protein-coding genes. Comparative analysis of the G. montanum genome with other gymnosperm genomes unveiled some remarkable and distinctive genomic features, such as a diverse assemblage of retrotransposons with evidence for elevated frequencies of elimination rather than accumulation, considerable differences in intron architecture, including both length distribution and proportions of (retro) transposon elements, and distinctive patterns of proliferation of functional protein domains. Furthermore, a few gene families showed Gnetum-specific copy number expansions (for example, cellulose synthase) or contractions (for example, Late Embryogenesis Abundant protein), which could be connected with Gnetum's distinctive morphological innovations associated with their adaptation to warm, mesic environments. Overall, the G. montanum genome enables a better resolution of ancestral genomic features within seed plants, and the identification of genomic characters that distinguish Gnetum from other gymnosperms.
Subject AreaPlant Sciences
DOI10.1038/s41477-017-0097-2
Indexed BySCI
Language英语
WOS KeywordGENE FAMILY ; COLD STRESS ; ORIGIN ; SEQUENCE ; ANGIOSPERMS ; POLYPLOIDY ; EXPRESSION ; PHYLOGENY ; DIVERSITY ; SIZE
WOS IDWOS:000425119600012
PublisherNATURE PUBLISHING GROUP
SubtypeArticle
Publication PlaceLONDON
EISSN2055-0278
Funding OrganizationNovogene Bioinformatics Institute, Beijing, China [NHT140016, NVT140016004] ; Scientific Project of Shenzhen Urban Administration [201519] ; Innovation of Science and Technology Commission of Shenzhen [JSGG20140515164852417] ; Sino-Africa Joint Research Center [SAJL201607] ; Ghent UniversityGhent University [01MR0310W] ; European Union Seventh Framework Programme under European Research Council [322739-DOUBLEUP]
Corresponding Author Emailqfwang@wbgcas.cn ; yves.vandepeer@psb.vib-ugent.be ; zhangjinbo@novogene.com ; 719921868@qq.com
OAGreen Published, hybrid, Green Submitted
Citation statistics
Cited Times:77[WOS]   [WOS Record]     [Related Records in WOS]
Document Type期刊论文
Identifierhttp://ir.ibcas.ac.cn/handle/2S10CLM1/20437
Collection系统与进化植物学国家重点实验室
Affiliation1.Shenzhen & Chinese Acad Sci, Fairy Lake Bot Garden, Key Lab Southern Subtrop Plant Divers, Shenzhen, Peoples R China
2.Chinese Acad Sci, Sinoafrica Joint Res Ctr, Wuhan, Hubei, Peoples R China
3.Novogene Bioinformat Inst, Beijing, Peoples R China
4.Queen Mary Univ London, Sch Biol & Chem Sci, London, England
5.Leitch, Ilia J.] Royal Bot Gardens, Jodrell Lab, Richmond, England
6.Univ Ghent, Dept Plant Biotechnol & Bioinformat, Ghent, Belgium
7.Ctr Plant Syst Biol VIB, Ghent, Belgium
8.Natl Orchid Conservat Ctr China, Shenzhen Key Lab Orchid Conservat & Utilizat, Shenzhen, Peoples R China
9.Orchid Conservat & Res Ctr, Shenzhen, Peoples R China
10.Chinese Acad Sci, Wuhan Bot Garden, Key Lab Plant Germplasm Enhancement & Specialty A, Wuhan, Hubei, Peoples R China
11.Wuhan Univ, Coll Life Sci, State Key Lab Hybrid Rice, Wuhan, Hubei, Peoples R China
12.Chinese Acad Sci, Wuhan Bot Garden, Key Lab Aquat Bot & Watershed Ecol, Wuhan, Hubei, Peoples R China
13.Chinese Acad Sci, Inst Bot, State Key Lab Systemat & Evolutionary Bot, Beijing, Peoples R China
14.Fudan Univ, Educ Key Lab Biodivers Sci & Ecol Engn, Shanghai, Peoples R China
15.Henan Univ, State Key Lab Cotton Biol, Inst Plant Stress Biol, Kaifeng, Peoples R China
16.East Carolina Univ, Dept Biol, Greenville, NC USA
17.Chinese Acad Sci, Inst Bot, Beijing Key Lab Grape Sci & Enol, Beijing, Peoples R China
18.Univ Pretoria, Genom Res Inst, Pretoria, South Africa
Recommended Citation
GB/T 7714
Wan, Tao,Liu, Zhi-Ming,Li, Ling-Fei,et al. A genome for gnetophytes and early evolution of seed plants[J]. NATURE PLANTS,2018,4(2):82-89.
APA Wan, Tao.,Liu, Zhi-Ming.,Li, Ling-Fei.,Leitch, Andrew R..,Leitch, Ilia J..,...&Wang, Xiao-Ming.(2018).A genome for gnetophytes and early evolution of seed plants.NATURE PLANTS,4(2),82-89.
MLA Wan, Tao,et al."A genome for gnetophytes and early evolution of seed plants".NATURE PLANTS 4.2(2018):82-89.
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