Phylogenomic Analysis Resolves the Formerly Intractable Adaptive Diversification of the Endemic Clade of East Asian Cyprinidae (Cypriniformes)

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	Phylogenomic Analysis Resolves the Formerly Intractable Adaptive Diversification of the Endemic Clade of East Asian Cyprinidae (Cypriniformes)
	Tao, Wenjing 1,2; Zou, Ming 1,2; Wang, Xuzhen 1,2; Gan, Xiaoni 1,2; Mayden, Richard L.3; He, Shunping 1
刊名	PLOS ONE
	2010-10-20
卷号	5 期号:10 页码:-
关键词	ORDER CYPRINIFORMES DIVERGENCE TIME NUCLEAR GENE CICHLID FISH MITOCHONDRIAL EVOLUTIONARY MODEL TELEOSTEI SEQUENCES ACTINOPTERYGII
ISSN号	1932-6203
通讯作者	Tao, WJ, Chinese Acad Sci, Inst Hydrobiol, Key Lab Aquat Biodivers & Conservat, Wuhan, Peoples R China
中文摘要	Despite their great diversity and biological importance, evolutionary relationships among the endemic clade of East Asian Cyprinidae remain ambiguous. Understanding the phylogenetic history of this group involves many challenges. For instance, ecomorphological convergence may confound morphology-based phylogenetic inferences, and previous molecular phylogenetic studies based on single genes have often yielded contradictory and poorly supported trees. We assembled a comprehensive data matrix of 100 nuclear gene segments (similar to 71132 base pairs) for representative species of the endemic East Asian cyprinid fauna and recovered a robust phylogeny from this genome-wide signal supported by multiple analytical methods, including maximum parsimony, maximum likelihood and Bayesian inference. Relaxed molecular clock analyses indicated species radiations of this clade concentrated at approximately 1.9-7.6 MYA. We provide evidence that the bursts of diversification in this fauna are directly linked to major paleoenvironmental events associated with monsoon evolution occurring from late Miocene to Pliocene. Ancestral state reconstruction reveals convergent morphological characters are hypothesized to be independent products of similar selective pressures in ecosystems. Our study is the first comprehensive phylogenetic study of the enigmatic East-Asian cyprinids. The explicit molecular phylogeny provides a valuable framework for future research in genome evolution, adaptation and speciation of cyprinids.
英文摘要	Despite their great diversity and biological importance, evolutionary relationships among the endemic clade of East Asian Cyprinidae remain ambiguous. Understanding the phylogenetic history of this group involves many challenges. For instance, ecomorphological convergence may confound morphology-based phylogenetic inferences, and previous molecular phylogenetic studies based on single genes have often yielded contradictory and poorly supported trees. We assembled a comprehensive data matrix of 100 nuclear gene segments (similar to 71132 base pairs) for representative species of the endemic East Asian cyprinid fauna and recovered a robust phylogeny from this genome-wide signal supported by multiple analytical methods, including maximum parsimony, maximum likelihood and Bayesian inference. Relaxed molecular clock analyses indicated species radiations of this clade concentrated at approximately 1.9-7.6 MYA. We provide evidence that the bursts of diversification in this fauna are directly linked to major paleoenvironmental events associated with monsoon evolution occurring from late Miocene to Pliocene. Ancestral state reconstruction reveals convergent morphological characters are hypothesized to be independent products of similar selective pressures in ecosystems. Our study is the first comprehensive phylogenetic study of the enigmatic East-Asian cyprinids. The explicit molecular phylogeny provides a valuable framework for future research in genome evolution, adaptation and speciation of cyprinids.
学科主题	Biology; Multidisciplinary Sciences
WOS标题词	Science & Technology
类目[WOS]	Multidisciplinary Sciences
研究领域[WOS]	Science & Technology - Other Topics
关键词[WOS]	ORDER CYPRINIFORMES ; DIVERGENCE TIME ; NUCLEAR GENE ; CICHLID FISH ; MITOCHONDRIAL ; EVOLUTIONARY ; MODEL ; TELEOSTEI ; SEQUENCES ; ACTINOPTERYGII
收录类别	SCI
资助信息	Major State Basic Research Development Program of China (973 Program) [2007CB411601, 2004CB117400]; United States National Science Foundation (NSF) [EF-0431326]
语种	英语
WOS记录号	WOS:000283216400015
公开日期	2010-12-23
内容类型	期刊论文
源URL	[http://ir.ihb.ac.cn/handle/342005/13459]
专题	水生生物研究所_水生生物多样性与资源保护研究中心_期刊论文
作者单位	1.Chinese Acad Sci, Inst Hydrobiol, Key Lab Aquat Biodivers & Conservat, Wuhan, Peoples R China 2.Chinese Acad Sci, Grad Univ, Beijing, Peoples R China 3.St Louis Univ, Dept Biol, Lab Integrated Genom Biodivers & Conservat, St Louis, MO 63103 USA
推荐引用方式 GB/T 7714	Tao, Wenjing,Zou, Ming,Wang, Xuzhen,et al. Phylogenomic Analysis Resolves the Formerly Intractable Adaptive Diversification of the Endemic Clade of East Asian Cyprinidae (Cypriniformes)[J]. PLOS ONE,2010,5(10):-.
APA	Tao, Wenjing,Zou, Ming,Wang, Xuzhen,Gan, Xiaoni,Mayden, Richard L.,&He, Shunping.(2010).Phylogenomic Analysis Resolves the Formerly Intractable Adaptive Diversification of the Endemic Clade of East Asian Cyprinidae (Cypriniformes).PLOS ONE,5(10),-.
MLA	Tao, Wenjing,et al."Phylogenomic Analysis Resolves the Formerly Intractable Adaptive Diversification of the Endemic Clade of East Asian Cyprinidae (Cypriniformes)".PLOS ONE 5.10(2010):-.