IHB OpenIR  > 水生生物多样性与资源保护研究中心  > 期刊论文
The rapid generation of chimerical genes expanding protein diversity in zebrafish
Fu, Beide; Chen, Ming; Zou, Ming; Long, Manyuan; He, Shunping; He, SP, Chinese Acad Sci, Key Lab Aquat Biodivers & Conservat, Inst Hydrobiol, Wuhan 430072, Peoples R China; heshunping@gmail.com
2010
Source PublicationBMC GENOMICS
ISSN1471-2164
Volume11Pages:657-
AbstractBackground: Variation of gene number among species indicates that there is a general process of new gene origination. One of the major mechanism providing raw materials for the origin of new genes is gene duplication. Retroposition, as a special type of gene duplication-the RNA-based duplication, has been found to play an important role in new gene evolution in mammals and plants, but little is known about the process in the teleostei genome. Results: Here we screened the zebrafish genome for identification of retrocopies and new chimerical retrogenes and investigated their origination and evolution. We identified 652 retrocopies, of which 440 are intact retrogenes and 212 are pseudogenes. Retrocopies have long been considered evolutionary dead ends without functional significance due to the presumption that retrocopies lack the regulatory element needed for expression. However, 437 transcribed retrocopies were identified from all of the retrocopies. This discovery combined with the substitution analysis suggested that the majority of all retrocopies are subject to negative selection, indicating that most of the retrocopies may be functional retrogenes. Moreover, we found that 95 chimerical retrogenes had recruited new sequences from neighboring genomic regions that formed de novo splice sites, thus generating new intron-containing chimeric genes. Based on our analysis of 38 pairs of orthologs between Cyprinus carpio and Danio rerio, we found that the synonymous substitution rate of zebrafish genes is 4.13x10(-9) substitution per silent site per year. We also found 10 chimerical retrogenes that were created in the last 10 million years, which is 7.14 times the rate of 0.14 chimerical retrogenes per million years in the primate lineage toward human and 6.25 times the rate of 0.16 chimerical genes per million years in Drosophila. This is among the most rapid rates of generation of chimerical genes, just next to the rice. Conclusion: There is compelling evidence that much of the extensive transcriptional activity of retrogenes does not represent transcriptional "noise" but indicates the functionality of these retrogenes. Our results indicate that retroposition created a large amount of new genes in the zebrafish genome, which has contributed significantly to the evolution of the fish genome.
Department[Fu, Beide; Chen, Ming; Zou, Ming; He, Shunping] Chinese Acad Sci, Key Lab Aquat Biodivers & Conservat, Inst Hydrobiol, Wuhan 430072, Peoples R China; [Fu, Beide; Chen, Ming; Zou, Ming] Chinese Acad Sci, Grad Univ, Beijing 100039, Peoples R China; [Long, Manyuan] Univ Chicago, Dept Ecol & Evolut, Chicago, IL 60637 USA
Subject AreaBiotechnology & Applied Microbiology ; Genetics & Heredity
Funding OrganizationNatural Science Foundation on China [2007CB411601] ; Natural Science Foundation on China [2007CB411601] ; Natural Science Foundation on China [2007CB411601] ; Natural Science Foundation on China [2007CB411601]
Indexed BySCI
Language英语
WOS IDWOS:000285253800002
Funding OrganizationNatural Science Foundation on China [2007CB411601] ; Natural Science Foundation on China [2007CB411601] ; Natural Science Foundation on China [2007CB411601] ; Natural Science Foundation on China [2007CB411601]
Citation statistics
Document Type期刊论文
Identifierhttp://ir.ihb.ac.cn/handle/342005/15462
Collection水生生物多样性与资源保护研究中心_期刊论文
Corresponding AuthorHe, SP, Chinese Acad Sci, Key Lab Aquat Biodivers & Conservat, Inst Hydrobiol, Wuhan 430072, Peoples R China; heshunping@gmail.com
Recommended Citation
GB/T 7714
Fu, Beide,Chen, Ming,Zou, Ming,et al. The rapid generation of chimerical genes expanding protein diversity in zebrafish[J]. BMC GENOMICS,2010,11:657-.
APA Fu, Beide.,Chen, Ming.,Zou, Ming.,Long, Manyuan.,He, Shunping.,...&heshunping@gmail.com.(2010).The rapid generation of chimerical genes expanding protein diversity in zebrafish.BMC GENOMICS,11,657-.
MLA Fu, Beide,et al."The rapid generation of chimerical genes expanding protein diversity in zebrafish".BMC GENOMICS 11(2010):657-.
Files in This Item:
File Name/Size DocType Version Access License
The rapid generation(379KB) 开放获取--View Application Full Text
Related Services
Recommend this item
Bookmark
Usage statistics
Export to Endnote
Google Scholar
Similar articles in Google Scholar
[Fu, Beide]'s Articles
[Chen, Ming]'s Articles
[Zou, Ming]'s Articles
Baidu academic
Similar articles in Baidu academic
[Fu, Beide]'s Articles
[Chen, Ming]'s Articles
[Zou, Ming]'s Articles
Bing Scholar
Similar articles in Bing Scholar
[Fu, Beide]'s Articles
[Chen, Ming]'s Articles
[Zou, Ming]'s Articles
Terms of Use
No data!
Social Bookmark/Share
File name: The rapid generation of chimerical genes expanding protein diversity in zebrafish.pdf
Format: Adobe PDF
All comments (0)
No comment.
 

Items in the repository are protected by copyright, with all rights reserved, unless otherwise indicated.