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Evolutionary Patterns of RNA-Based Duplication in Non-Mammalian Chordates
Chen, Ming; Zou, Ming; Fu, Beide; Li, Xin; Vibranovski, Maria D.; Gan, Xiaoni; Wang, Dengqiang; Wang, Wen; Long, Manyuan; He, Shunping; Chen, M (reprint author), Chinese Acad Sci, Inst Hydrobiol, Key Lab Aquat Biodivers & Conservat, Wuhan, Peoples R China; mlong@uchicago.edu; clad@ihb.ac.cn
2011
Source PublicationPLOS ONE
ISSN1932-6203
Volume6Issue:7Pages:e21466
AbstractThe role of RNA-based duplication, or retroposition, in the evolution of new gene functions in mammals, plants, and Drosophila has been widely reported. However, little is known about RNA-based duplication in non-mammalian chordates. In this study, we screened ten non-mammalian chordate genomes for retrocopies and investigated their evolutionary patterns. We identified numerous retrocopies in these species. Examination of the age distribution of these retrocopies revealed no burst of young retrocopies in ancient chordate species. Upon comparing these non-mammalian chordate species to the mammalian species, we observed that a larger fraction of the non-mammalian retrocopies was under strong evolutionary constraints than mammalian retrocopies are, as evidenced by signals of purifying selection and expression profiles. For the Western clawed frog, Medaka, and Sea squirt, many retrogenes have evolved gonad and brain expression patterns, similar to what was observed in human. Testing of retrogene movement in the Medaka genome, where the nascent sex chrosomes have been well assembled, did not reveal any significant gene movement. Taken together, our analyses demonstrate that RNA-based duplication generates many functional genes and can make a significant contribution to the evolution of non-mammalian genomes.
KeywordNon-ltr Retrotransposons Human Genome Processed Pseudogenes Sex-chromosomes Gene Drosophila Dna Reveals Fish Retrogenes
Department[Chen, Ming; Zou, Ming; Fu, Beide; Gan, Xiaoni; Wang, Dengqiang; He, Shunping] Chinese Acad Sci, Inst Hydrobiol, Key Lab Aquat Biodivers & Conservat, Wuhan, Peoples R China; [Li, Xin; Wang, Wen] Chinese Acad Sci, Kunming Inst Zool, Kunming, Yunnan Province, Peoples R China; [Vibranovski, Maria D.; Long, Manyuan] Univ Chicago, Dept Ecol & Evolut, Chicago, IL 60637 USA; [Chen, Ming; Zou, Ming; Fu, Beide; Gan, Xiaoni; Wang, Dengqiang] Chinese Acad Sci, Grad Univ, Beijing, Peoples R China; [Wang, Dengqiang] Chinese Acad Fisheries Sci, Yangtze River Fisheries Res Inst, Wuhan, Peoples R China
Subject AreaLife Sciences & Biomedicine - Other Topics
Funding OrganizationNational Natural Science Foundation of China[2007CB411601] ; National Natural Science Foundation of China[2007CB411601] ; National Natural Science Foundation of China[2007CB411601] ; National Natural Science Foundation of China[2007CB411601]
Indexed BySCI
Language英语
WOS IDWOS:000292680900006
Funding OrganizationNational Natural Science Foundation of China[2007CB411601] ; National Natural Science Foundation of China[2007CB411601] ; National Natural Science Foundation of China[2007CB411601] ; National Natural Science Foundation of China[2007CB411601]
Citation statistics
Cited Times:36[WOS]   [WOS Record]     [Related Records in WOS]
Document Type期刊论文
Identifierhttp://ir.ihb.ac.cn/handle/342005/16399
Collection水生生物多样性与资源保护研究中心_期刊论文
Corresponding AuthorChen, M (reprint author), Chinese Acad Sci, Inst Hydrobiol, Key Lab Aquat Biodivers & Conservat, Wuhan, Peoples R China; mlong@uchicago.edu; clad@ihb.ac.cn
Recommended Citation
GB/T 7714
Chen, Ming,Zou, Ming,Fu, Beide,et al. Evolutionary Patterns of RNA-Based Duplication in Non-Mammalian Chordates[J]. PLOS ONE,2011,6(7):e21466.
APA Chen, Ming.,Zou, Ming.,Fu, Beide.,Li, Xin.,Vibranovski, Maria D..,...&clad@ihb.ac.cn.(2011).Evolutionary Patterns of RNA-Based Duplication in Non-Mammalian Chordates.PLOS ONE,6(7),e21466.
MLA Chen, Ming,et al."Evolutionary Patterns of RNA-Based Duplication in Non-Mammalian Chordates".PLOS ONE 6.7(2011):e21466.
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