IB-CAS  > 系统与进化植物学国家重点实验室
The Tetracentron genome provides insight into the early evolution of eudicots and the formation of vessel elements
Liu, Ping-Li; Zhang, Xi; Mao, Jian-Feng; Hong, Yan-Ming; Zhang, Ren-Gang; Yilan, E.; Nie, Shuai1; Jia, Kaihua1; Jiang, Chen-Kun; He, Jian4; Shen, Weiwei1; He, Qizouhong1; Zheng, Wenqing1; Abbas, Samar1; Jewaria, Pawan Kumar1; Tian, Xuechan1; Liu, Chang-jun; Jiang, Xiaomei6,7; Yin, Yafang6,7; Liu, Bo6,7; Wang, Li8; Jin, Biao8; Ma, Yongpeng9; Qiu, Zongbo10; Baluska, Frantisek11; Samaj, Jozef12; He, Xinqiang13; Niu, Shihui1; Xie, Jianbo1; Xie, Lei4; Xu, Huimin14; Kong, Hongzhi15; Ge, Song15; Dixon, Richard A.; Jiao, Yuannian15; Lin, Jinxing1
2020
Source PublicationGENOME BIOLOGY
ISSN1474-760X
Volume21Issue:1
AbstractBackground Tetracentron sinense is an endemic and endangered deciduous tree. It belongs to the Trochodendrales, one of four early diverging lineages of eudicots known for having vesselless secondary wood. Sequencing and resequencing of the T. sinense genome will help us understand eudicot evolution, the genetic basis of tracheary element development, and the genetic diversity of this relict species. Results Here, we report a chromosome-scale assembly of the T. sinense genome. We assemble the 1.07 Gb genome sequence into 24 chromosomes and annotate 32,690 protein-coding genes. Phylogenomic analyses verify that the Trochodendrales and core eudicots are sister lineages and showed that two whole-genome duplications occurred in the Trochodendrales approximately 82 and 59 million years ago. Synteny analyses suggest that the gamma event, resulting in paleohexaploidy, may have only happened in core eudicots. Interestingly, we find that vessel elements are present in T. sinense, which has two orthologs of AtVND7, the master regulator of vessel formation. T. sinense also has several key genes regulated by or regulating TsVND7.2 and their regulatory relationship resembles that in Arabidopsis thaliana. Resequencing and population genomics reveals high levels of genetic diversity of T. sinense and identifies four refugia in China. Conclusions The T. sinense genome provides a unique reference for inferring the early evolution of eudicots and the mechanisms underlying vessel element formation. Population genomics analysis of T. sinense reveals its genetic diversity and geographic structure with implications for conservation.
KeywordTetracentron sinense Vessel Phylogenomic Whole genome duplication VND7 Resequencing Genetic diversity
Subject AreaBiotechnology & Applied Microbiology ; Genetics & Heredity
DOI10.1186/s13059-020-02198-7
Indexed BySCI
Language英语
WOS KeywordMULTIPLE SEQUENCE ALIGNMENT ; TRANSCRIPTION FACTORS ; WALL BIOSYNTHESIS ; WASHINGTON-STATE ; GENE-EXPRESSION ; DIRECT TARGET ; TROCHODENDRACEAE ; PROTEIN ; PHYLOGENY ; XYLEM
WOS Research AreaBiotechnology & Applied Microbiology ; Genetics & Heredity
WOS IDWOS:000595383800001
PublisherBMC
SubtypeArticle
Publication PlaceLONDON
Funding OrganizationNational Natural Science Foundation of ChinaNational Natural Science Foundation of China (NSFC) [31530084] ; Fundamental Research Funds for the Central UniversitiesFundamental Research Funds for the Central Universities [2019ZY28] ; Program of Introducing Talents of Discipline to UniversitiesMinistry of Education, China - 111 Project [B13007] ; National Science Foundation for Young Scientists of China [32000558]
Corresponding Author Emailjiaoyn@ibcas.ac.cn ; linjx@ibcas.ac.cn
OAGreen Published, gold
Citation statistics
Cited Times:4[WOS]   [WOS Record]     [Related Records in WOS]
Document Type期刊论文
Identifierhttp://ir.ibcas.ac.cn/handle/2S10CLM1/21504
Collection系统与进化植物学国家重点实验室
Affiliation1.Beijing Forestry Univ, Beijing Adv Innovat Ctr Tree Breeding Mol Design, Beijing 100083, Peoples R China
2.Beijing Forestry Univ, Coll Biol Sci & Biotechnol, Beijing 100083, Peoples R China
3.Beijing Ori Gene Sci & Technol Co Ltd, Beijing 102206, Peoples R China
4.Peking Univ, Coll Life Sci, Beijing 100871, Peoples R China
5.Beijing Forestry Univ, Sch Ecol & Nat Conservat, Beijing 100083, Peoples R China
6.Brookhaven Natl Lab, Biol Dept, Upton, NY 11973 USA
7.Chinese Acad Forestry, Wood Collect WOODPEDIA, Beijing 100091, Peoples R China
8.Chinese Acad Forestry, Res Inst Wood Ind, Dept Wood Anat & Utilizat, Beijing 100091, Peoples R China
9.Yangzhou Univ, Coll Hort & Plant Protect, Yangzhou 225009, Jiangsu, Peoples R China
10.Chinese Acad Sci, Kunming Inst Bot, Yunnan Key Lab Integrat Conservat Plant Species, Kunming 650201, Yunnan, Peoples R China
11.Henan Normal Univ, Coll Life Sci, Xinxiang 453007, Henan, Peoples R China
12.Univ Bonn, Inst Cellular & Mol Bot IZMB, Kirschallee 1, D-53115 Bonn, Germany
13.Palacky Univ, Fac Sci, Ct Reg Hana Biotechnol & Agr Res, Olomouc 78301, Czech Republic
14.Peking Univ, Coll Life Sci, State Key Lab Prot & Plant Gene Res, Beijing 100871, Peoples R China
15.China Agr Univ, Coll Biol Sci, Beijing 100193, Peoples R China
16.Chinese Acad Sci, Inst Bot, Beijing 100093, Peoples R China
17.Dixon, Richard A.] Univ North Texas, BioDiscovery Inst, Denton, TX 76203 USA
18.Dixon, Richard A.] Univ North Texas, Dept Biol Sci, Denton, TX 76203 USA
Recommended Citation
GB/T 7714
Liu, Ping-Li,Zhang, Xi,Mao, Jian-Feng,et al. The Tetracentron genome provides insight into the early evolution of eudicots and the formation of vessel elements[J]. GENOME BIOLOGY,2020,21(1).
APA Liu, Ping-Li.,Zhang, Xi.,Mao, Jian-Feng.,Hong, Yan-Ming.,Zhang, Ren-Gang.,...&Lin, Jinxing.(2020).The Tetracentron genome provides insight into the early evolution of eudicots and the formation of vessel elements.GENOME BIOLOGY,21(1).
MLA Liu, Ping-Li,et al."The Tetracentron genome provides insight into the early evolution of eudicots and the formation of vessel elements".GENOME BIOLOGY 21.1(2020).
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