IB-CAS  > 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, Arief5; Wu, Sha-Sha; Jin, Xiao-Hua
2019
Source PublicationMOLECULAR PHYLOGENETICS AND EVOLUTION
ISSN1055-7903
Volume139
AbstractTo 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.
KeywordCypripedioideae Mitochondrial genome Mycoheterotrophic orchids Orchidaceae Plastid genome Vanilloideae
Subject AreaBiochemistry & Molecular Biology ; Evolutionary Biology ; Genetics & Heredity
DOI10.1016/j.ympev.2019.106540
Indexed BySCI
Language英语
WOS KeywordMYCOHETEROTROPHIC ORCHID ; PHYLOGENETIC ANALYSIS ; PLANT MITOCHONDRIAL ; NUCLEAR GENOMES ; GENE-SEQUENCES ; TREE ; CHLOROPLAST ; DIVERSIFICATION ; EPIDENDROIDEAE ; GASTRODIEAE
WOS Research AreaBiochemistry & Molecular Biology ; Evolutionary Biology ; Genetics & Heredity
WOS IDWOS:000485041900024
PublisherACADEMIC PRESS INC ELSEVIER SCIENCE
SubtypeArticle
Publication PlaceSAN DIEGO
EISSN1095-9513
Funding OrganizationNational 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
Corresponding Author Emailxiaohuajin@ibcas.ac.cn
Citation statistics
Cited Times:15[WOS]   [WOS Record]     [Related Records in WOS]
Document Type期刊论文
Identifierhttp://ir.ibcas.ac.cn/handle/2S10CLM1/19449
Collection系统与进化植物学国家重点实验室
Affiliation1.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
Recommended Citation
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).
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