Phylogenomics of Orchidaceae based on plastid and mitochondrial genomes

doi:10.1016/j.ympev.2019.106540

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

	Phylogenomics of Orchidaceae based on plastid and mitochondrial genomes
	Li, Yun-Xia ; Li, Zhang-Hai ; Schuiteman, Andre ; Chase, Mark W.; Li, Jian-Wu ; Huang, Wei-Chang ; Hidayat, Arief 5; Wu, Sha-Sha ; Jin, Xiao-Hua
刊名	MOLECULAR PHYLOGENETICS AND EVOLUTION
	2019
卷号	139
关键词	Cypripedioideae Mitochondrial genome Mycoheterotrophic orchids Orchidaceae Plastid genome Vanilloideae
ISSN号	1055-7903
DOI	10.1016/j.ympev.2019.106540
文献子类	Article
英文摘要	To advance our knowledge of orchid relationships and timing of their relative divergence, we used 76 protein-coding genes from plastomes (ptCDS) and 38 protein-coding genes from mitochondrial genomes (mtCDS) of 74 orchids representing the five subfamilies and 18 tribes of Orchidaceae, to reconstruct the phylogeny and temporal evolution of the Orchidaceae. In our results, the backbone of orchid tree well supported with both datasets, but there are conflicts between these trees. The phylogenetic positions of two subfamilies (Vanilloideae and Cypripedioideae) are reversed in these two analyses. The phylogenetic positions of several tribes and subtribes, such as Epipogiinae, Gastrodieae, Nerviliinae, and Tropidieae, are well resolved in mtCDS tree. Thaieae have a different position among higher Epidendroideae, instead of sister to the higher Epidendroideae. Interrelationships of several recently radiated tribes within Epidendroideae, including Vandeae, Collabieae, Cymbidieae, Epidendreae, Podochileae, and Vandeae, have good support in the ptCDS tree, but most are not resolved in the mtCDS tree. Conflicts between the two datasets may be attributed to the different substitution rates in these two genomes and heterogeneity of substitution rate of plastome. Molecular dating indicated that the first three subfamilies, Apostasioideae, Cypripedioideae and Vanilloideae, diverged relatively quickly, and then there was a longer period before the last two subfamilies, Orchidoideae and Epidendroideae, began to radiate. Most mycoheterotrophic clades of Orchidaceae evolved in the last 30 million years with the exception of Gastrodieae.
学科主题	Biochemistry & Molecular Biology ; Evolutionary Biology ; Genetics & Heredity
电子版国际标准刊号	1095-9513
出版地	SAN DIEGO
WOS关键词	MYCOHETEROTROPHIC ORCHID ; PHYLOGENETIC ANALYSIS ; PLANT MITOCHONDRIAL ; NUCLEAR GENOMES ; GENE-SEQUENCES ; TREE ; CHLOROPLAST ; DIVERSIFICATION ; EPIDENDROIDEAE ; GASTRODIEAE
WOS研究方向	Biochemistry & Molecular Biology ; Evolutionary Biology ; Genetics & Heredity
语种	英语
出版者	ACADEMIC PRESS INC ELSEVIER SCIENCE
WOS记录号	WOS:000485041900024
资助机构	National Natural Science Foundation of China, ChinaNational Natural Science Foundation of China (NSFC) [31870195, 31670194] ; Chinese Academy of Sciences, ChinaChinese Academy of Sciences [Y4ZK111B01] ; Shanghai Administration Department of Afforestation and City Appearance, China [F122432] ; Southeast Asia Biodiversity Research Institute, China
内容类型	期刊论文
源URL	[http://ir.ibcas.ac.cn/handle/2S10CLM1/19449]
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, Inst Bot, State Key Lab Systemat & Evolutionary Bot, Beijing, Peoples R China 2.Schuiteman, Andre; Chase, Mark W.] Royal Bot Gardens, Richmond TW9 3AB, Surrey, England 3.Chase, Mark W.] Univ Western Australia, Sch Plant Biol, Perth, WA 6009, Australia 4.Chinese Acad Sci, Xishuangbanna Trop Bot Garden, Mengla 666303, Yunnan, Peoples R China 5.Chenshan Shanghai Bot Garden, Shanghai, Songjiang, Peoples R China 6.Indonesian Inst Sci LIPI, Res Ctr Plant Conservat & Bot Gardens, Cibinong 16911, Indonesia 7.Fujian Agr & Forestry Univ, Shangxia St 15, Fuzhou, Fujian, Peoples R China 8.Chinese Acad Sci, SEABRI, Southeast Asia Biodivers Res Inst, Beijing, Peoples R China
推荐引用方式 GB/T 7714	Li, Yun-Xia,Li, Zhang-Hai,Schuiteman, Andre,et al. Phylogenomics of Orchidaceae based on plastid and mitochondrial genomes[J]. MOLECULAR PHYLOGENETICS AND EVOLUTION,2019,139.
APA	Li, Yun-Xia.,Li, Zhang-Hai.,Schuiteman, Andre.,Chase, Mark W..,Li, Jian-Wu.,...&Jin, Xiao-Hua.(2019).Phylogenomics of Orchidaceae based on plastid and mitochondrial genomes.MOLECULAR PHYLOGENETICS AND EVOLUTION,139.
MLA	Li, Yun-Xia,et al."Phylogenomics of Orchidaceae based on plastid and mitochondrial genomes".MOLECULAR PHYLOGENETICS AND EVOLUTION 139(2019).