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Phylogenetic relationships and genome divergence among the AA- genome species of the genus Oryza as revealed by 53 nuclear genes and 16 intergenic regions
Zhu, Ting1,2; Xu, Ping-Zhen1; Liu, Jiang-Peng1; Peng, Sheng1; Mo, Xin-Chun1,2; Gao, Li-Zhi1
2014
发表期刊MOLECULAR PHYLOGENETICS AND EVOLUTION
ISSN1055-7903
卷号70页码:348-361
摘要Rapid radiations have long been regarded as the most challenging issue for elucidating poorly resolved phylogenies in evolutionary biology. The eight diploid AA- genome species in the genus Oryza represent a typical example of a closely spaced series of recent speciation events in plants. However, questions regarding when and how they diversified have long been an issue of extensive interest but remain a mystery. Here, a data set comprising >60 kb of 53 singleton fragments and 16 intergenic regions is used to perform phylogenomic analyses of all eight AA- genome species plus four diploid Oryza species with BB-, CC-, EE- and GG- genomes. We fully reconstruct phylogenetic relationships of AA- genome species with confidence. Oryza meridionalis, native to Australia, is found to be the earliest divergent lineage around 2.93 mya, whereas O. punctata, a BB- genome species, serves as the best outgroup to distinguish their phylogenetic relationships. They separated from O. punctata approximately 9.11 mya during the Miocene epoch, and subsequently radiated to generate the entire AA- genome lineage diversity. The success in resolving the phylogeny of AA- genome species highlights the potential of phylogenomics to determine their divergence and evolutionary histories. (C) 2013 Elsevier Inc. All rights reserved.
关键词Oryza Aa-genome Phylogenomics Genome Divergence Evolutionary History Rapid Recent Speciation
资助信息Talents Program of Yunnan Province [20080A009]; Hundreds Oversea Talents Program of Yunnan Province; Natural Science Foundation of Yunnan [2010CC011]; Hundreds Talents Program of the Chinese Academy of Sciences (CAS); Chinese Academy of Science [KSCX2-YW-N-029]; Chinese Department of Science and Technology (973 Program) [2007CB815703]; Kunming Institute of Botany, CAS
学科领域Biochemistry & Molecular Biology ; Evolutionary Biology ; Genetics & Heredity
DOI10.1016/j.ympev.2013.10.008
收录类别SCI
语种英语
WOS研究方向Biochemistry & Molecular Biology ; Evolutionary Biology ; Genetics & Heredity
WOS类目Biochemistry & Molecular Biology ; Evolutionary Biology ; Genetics & Heredity
WOS记录号WOS:000328441100034
引用统计
文献类型期刊论文
条目标识符http://ir.kib.ac.cn/handle/151853/17949
专题中国西南野生生物种质资源库
作者单位1.Chinese Acad Sci, Kunming Inst Bot, Plant Germplasm & Genom Ctr, Germplasm Bank Wild Species Southwest China, Kunming 650204, Peoples R China
2.Univ Chinese Acad Sci, Beijing 100039, Peoples R China
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Zhu, Ting,Xu, Ping-Zhen,Liu, Jiang-Peng,et al. Phylogenetic relationships and genome divergence among the AA- genome species of the genus Oryza as revealed by 53 nuclear genes and 16 intergenic regions[J]. MOLECULAR PHYLOGENETICS AND EVOLUTION,2014,70:348-361.
APA Zhu, Ting,Xu, Ping-Zhen,Liu, Jiang-Peng,Peng, Sheng,Mo, Xin-Chun,&Gao, Li-Zhi.(2014).Phylogenetic relationships and genome divergence among the AA- genome species of the genus Oryza as revealed by 53 nuclear genes and 16 intergenic regions.MOLECULAR PHYLOGENETICS AND EVOLUTION,70,348-361.
MLA Zhu, Ting,et al."Phylogenetic relationships and genome divergence among the AA- genome species of the genus Oryza as revealed by 53 nuclear genes and 16 intergenic regions".MOLECULAR PHYLOGENETICS AND EVOLUTION 70(2014):348-361.
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