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Evolutionary patterns of RNA-based gene duplicates in Caenorhabditis nematodes coincide with their genomic features
Zou,Ming1,2; Wang,Guoxiu3; He,Shunping1
Corresponding AuthorHe,Shunping(clad@ihb.ac.cn)
2012-08-01
Source PublicationBMC Research Notes
ISSN1756-0500
Volume5Issue:1
AbstractAbstractBackgroundRNA-based gene duplicates (retrocopies) played pivotal roles in many physiological processes. Nowadays, functional retrocopies have been systematically identified in several mammals, fruit flies, plants, zebrafish and other chordates, etc. However, studies about this kind of duplication in Caenorhabditis nematodes have not been reported.FindingsWe identified 43, 48, 43, 9, and 42 retrocopies, of which 6, 15, 18, 3, and 13 formed chimeric genes in C. brenneri, C. briggsae, C. elegans, C. japonica, and C. remanei, respectively. At least 5 chimeric types exist in Caenorhabditis species, of which retrocopy recruiting both N and C terminus is the commonest one. Evidences from different analyses demonstrate many retrocopies and almost all chimeric genes may be functional in these species. About half of retrocopies in each species has coordinates in other species, and we suggest that retrocopies in closely related species may be helpful in identifying retrocopies for one certain species.ConclusionsA number of retrocopies and chimeric genes exist in Caenorhabditis genomes, and some of them may be functional. The evolutionary patterns of these genes may correlate with their genomic features, such as the activity of retroelements, the high rate of mutation and deletion rate, and a large proportion of genes subject to trans-splicing.
KeywordRetrocopy Chimeric gene Caenorhabditis Evolutionary pattern
DOI10.1186/1756-0500-5-398
Language英语
WOS IDBMC:10.1186/1756-0500-5-398
PublisherBioMed Central
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Document Type期刊论文
Identifierhttp://ir.ihb.ac.cn/handle/342005/28578
Collection期刊论文
Corresponding AuthorHe,Shunping
Affiliation1.Institute of Hydrobiology, Chinese Academy of Sciences; The key Laboratory of Aquatic Biodiversity and Conservation of Chinese Academy of Sciences
2.University of the Chinese Academy of Sciences
3.HuaZhong Normal University; Hubei Key Laboratory of Genetic Regulation and Integrative Biology
Recommended Citation
GB/T 7714
Zou,Ming,Wang,Guoxiu,He,Shunping. Evolutionary patterns of RNA-based gene duplicates in Caenorhabditis nematodes coincide with their genomic features[J]. BMC Research Notes,2012,5(1).
APA Zou,Ming,Wang,Guoxiu,&He,Shunping.(2012).Evolutionary patterns of RNA-based gene duplicates in Caenorhabditis nematodes coincide with their genomic features.BMC Research Notes,5(1).
MLA Zou,Ming,et al."Evolutionary patterns of RNA-based gene duplicates in Caenorhabditis nematodes coincide with their genomic features".BMC Research Notes 5.1(2012).
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