Revisiting the phylogeny of Ranunculeae: Implications for divergence time estimation and historical biogeography

doi:10.1111/jse.12101

	Revisiting the phylogeny of Ranunculeae: Implications for divergence time estimation and historical biogeography
	Wang, Wei ; Li, Hong-Lei ; Xiang, Xiao-Guo ; Chen, Zhi-Duan
	2014
发表期刊	JOURNAL OF SYSTEMATICS AND EVOLUTION
ISSN	1674-4918
卷号	52 期号:5 页码:551-565
摘要	Previous studies based on different molecular datasets have generated conflicting topologies for Ranunculeae. Here, we revisit the phylogeny of Ranunculeae by analyzing the individual matK/trnK, psbJ-petA, and internal transcribed spacer (ITS) data, the combined matK/trnK, psbJ-petA, and ITS dataset, and the combined rbcL, trnL-F, matK/trnK, psbJ-petA, and ITS dataset. Based on the tree-based comparisons, BLAST searches against NCBI of the sequences, and close examination of the alignment, we found that 10 psbJ-petA sequences previously used were questionable (erroneous or problematic) and responsible for previous conflicting topologies. After omitting these questionable sequences, we provide a new phylogeny for Ranunculeae, in which Beckwithia-Cyrtorhyncha, Kumlienia, and Peltocalathos were replaced. These new replacements are supported by corresponding morphological characters. Moreover, three previously proposed intercontinental disjunct distributions within Ranunculus were also refuted. In our framework, our divergence time and biogeographic analyses indicate that divergence time estimates and the ancestral areas reconstructed for 10 of the 15 nodes in the genus-level phylogeny were influenced by elimination of the questionable sequences. The most recent common ancestor of Ranunculeae was inferred to be present in Europe and North America during the late Eocene. Clades I and II began to diversify in Europe and North America, respectively, and subsequently migrated to other continents. This study shows that it is necessary to analyze individual chloroplast DNA region datasets separately to detect questionable sequences early in the study. The combined dataset including the questionable sequences resulted in an erroneous phylogenetic tree, and the use of this tree subsequently affected age estimates and biogeographic analyses.
关键词	biogeography combined analysis divergence-time estimates phylogeny Ranunculeae
学科领域	Plant Sciences
DOI	10.1111/jse.12101
收录类别	SCI
语种	英语
WOS关键词	DISPERSAL-VICARIANCE ANALYSIS ; MOLECULAR PHYLOGENY ; DATA SETS ; EVOLUTIONARY ; NUCLEAR ; ORIGIN ; DIVERSIFICATION ; MENISPERMACEAE ; MITOCHONDRIAL ; SEQUENCES
WOS研究方向	Plant Sciences
WOS记录号	WOS:000342853300002
出版者	WILEY
文献子类	Article
出版地	HOBOKEN
EISSN	1759-6831
资助机构	National Natural Science Foundation of China [31270269, 30800059] ; Chinese Academy of Sciences' Visiting Professorship for Senior International Scientists [2011T1S24]
作者邮箱	wangwei1127@ibcas.ac.cn
引用统计	被引频次：7[WOS] [WOS记录] [WOS相关记录]
文献类型	期刊论文
条目标识符	http://ir.ibcas.ac.cn/handle/2S10CLM1/27247
专题	系统与进化植物学国家重点实验室
作者单位	1.[Wang, Wei 2.Li, Hong-Lei 3.Xiang, Xiao-Guo 4.Chinese Acad Sci, Inst Bot, State Key Lab Systemat & Evolutionary Bot, Beijing 100093, Peoples R China
推荐引用方式 GB/T 7714	Wang, Wei,Li, Hong-Lei,Xiang, Xiao-Guo,et al. Revisiting the phylogeny of Ranunculeae: Implications for divergence time estimation and historical biogeography[J]. JOURNAL OF SYSTEMATICS AND EVOLUTION,2014,52(5):551-565.
APA	Wang, Wei,Li, Hong-Lei,Xiang, Xiao-Guo,&Chen, Zhi-Duan.(2014).Revisiting the phylogeny of Ranunculeae: Implications for divergence time estimation and historical biogeography.JOURNAL OF SYSTEMATICS AND EVOLUTION,52(5),551-565.
MLA	Wang, Wei,et al."Revisiting the phylogeny of Ranunculeae: Implications for divergence time estimation and historical biogeography".JOURNAL OF SYSTEMATICS AND EVOLUTION 52.5(2014):551-565.

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