Multilocus estimation of divergence times and ancestral effective population sizes of Oryza species and implications for the rapid diversification of the genus

doi:10.1111/nph.12230

	Multilocus estimation of divergence times and ancestral effective population sizes of Oryza species and implications for the rapid diversification of the genus
	Zou, Xin-Hui ; Yang, Ziheng 1,2; Doyle, Jeff J.; Ge, Song
	2013
发表期刊	NEW PHYTOLOGIST
ISSN	0028-646X
卷号	198 期号:4 页码:1155-1164
摘要	Despite substantial investigations into Oryza phylogeny and evolution, reliable estimates of the divergence times and ancestral effective population sizes of major lineages in Oryza are challenging. We sampled sequences of 106 single-copy nuclear genes from all six diploid genomes of Oryza to investigate the divergence times through extensive relaxed molecular clock analyses and estimated the ancestral effective population sizes using maximum likelihood and Bayesian methods. We estimated that Oryza originated in the middle Miocene (c. 1315 million years ago; Ma) and obtained an explicit time frame for two rapid diversifications in this genus. The first diversification involving the extant F-/G-genomes and possibly the extinct H-/J-/K-genomes occurred in the middle Miocene immediately after (within <1Myr) the origin of Oryza. The second giving rise to the A-/B-/C-genomes happened c. 56 Ma. We found that ancestral effective population sizes were much larger than those of extant species in Oryza. We suggest that the climate fluctuations during the period from the middle Miocene to Pliocene may have contributed to the two rapid diversifications of Oryza species. Such information helps better understand the evolutionary history of Oryza and provides further insights into the pattern and mechanism of diversification in plants in general.
关键词	divergence time Oryza population size rapid diversification relaxed clock
学科领域	Plant Sciences
DOI	10.1111/nph.12230
收录类别	SCI
语种	英语
WOS关键词	FOSSIL CALIBRATIONS ; MOLECULAR EVOLUTION ; BAYESIAN-ESTIMATION ; PRIMATE LINEAGE ; SPECIATION ; RADIATION ; GENOMES ; NUCLEAR ; HISTORY ; FOREST
WOS研究方向	Science Citation Index Expanded (SCI-EXPANDED)
WOS记录号	WOS:000318634400019
出版者	WILEY
文献子类	Article
出版地	HOBOKEN
EISSN	1469-8137
资助机构	National Natural Science Foundation of China(National Natural Science Foundation of China (NSFC))
引用统计	被引频次：29[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/2S10CLM1/28174
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 100093, Peoples R China 2.Chinese Acad Sci, Inst Zool, Ctr Computat & Evolutionary Biol, Beijing 100101, Peoples R China 3.UCL, Dept Genet Evolut & Environm, London WC1E 6BT, England 4.Doyle, Jeff J.] Cornell Univ, Dept Plant Biol, Ithaca, NY 14853 USA
推荐引用方式 GB/T 7714	Zou, Xin-Hui,Yang, Ziheng,Doyle, Jeff J.,et al. Multilocus estimation of divergence times and ancestral effective population sizes of Oryza species and implications for the rapid diversification of the genus[J]. NEW PHYTOLOGIST,2013,198(4):1155-1164.
APA	Zou, Xin-Hui,Yang, Ziheng,Doyle, Jeff J.,&Ge, Song.(2013).Multilocus estimation of divergence times and ancestral effective population sizes of Oryza species and implications for the rapid diversification of the genus.NEW PHYTOLOGIST,198(4),1155-1164.
MLA	Zou, Xin-Hui,et al."Multilocus estimation of divergence times and ancestral effective population sizes of Oryza species and implications for the rapid diversification of the genus".NEW PHYTOLOGIST 198.4(2013):1155-1164.

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