The Tetracentron genome provides insight into the early evolution of eudicots and the formation of vessel elements

doi:10.1186/s13059-020-02198-7

CORC > 植物研究所 > 中国科学院植物研究所 > 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, Shuai 18; Jia, Kaihua 18; Jiang, Chen-Kun ; He, Jian 15
刊名	GENOME BIOLOGY
	2020
卷号	21 期号:1
关键词	Tetracentron sinense Vessel Phylogenomic Whole genome duplication VND7 Resequencing Genetic diversity
ISSN号	1474-760X
DOI	10.1186/s13059-020-02198-7
文献子类	Article
英文摘要	Background 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.
学科主题	Biotechnology & Applied Microbiology ; Genetics & Heredity
出版地	LONDON
WOS关键词	MULTIPLE SEQUENCE ALIGNMENT ; TRANSCRIPTION FACTORS ; WALL BIOSYNTHESIS ; WASHINGTON-STATE ; GENE-EXPRESSION ; DIRECT TARGET ; TROCHODENDRACEAE ; PROTEIN ; PHYLOGENY ; XYLEM
WOS研究方向	Biotechnology & Applied Microbiology ; Genetics & Heredity
语种	英语
出版者	BMC
WOS记录号	WOS:000595383800001
资助机构	National 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]
内容类型	期刊论文
源URL	[http://ir.ibcas.ac.cn/handle/2S10CLM1/21504]
专题	系统与进化植物学国家重点实验室
作者单位	1.Chinese Acad Sci, Kunming Inst Bot, Yunnan Key Lab Integrat Conservat Plant Species, Kunming 650201, Yunnan, Peoples R China 2.Dixon, Richard A.] Univ North Texas, Dept Biol Sci, Denton, TX 76203 USA 3.Dixon, Richard A.] Univ North Texas, BioDiscovery Inst, Denton, TX 76203 USA 4.Chinese Acad Sci, Inst Bot, Beijing 100093, Peoples R China 5.China Agr Univ, Coll Biol Sci, Beijing 100193, Peoples R China 6.Peking Univ, Coll Life Sci, State Key Lab Prot & Plant Gene Res, Beijing 100871, Peoples R China 7.Palacky Univ, Fac Sci, Ct Reg Hana Biotechnol & Agr Res, Olomouc 78301, Czech Republic 8.Univ Bonn, Inst Cellular & Mol Bot IZMB, Kirschallee 1, D-53115 Bonn, Germany 9.Henan Normal Univ, Coll Life Sci, Xinxiang 453007, Henan, Peoples R China 10.Yangzhou Univ, Coll Hort & Plant Protect, Yangzhou 225009, Jiangsu, Peoples R China
推荐引用方式 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).