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	Divergence of exonic splicing elements after gene duplication and the impact on gene structures
	Zhang, Zhenguo1,2,3; Zhou, Li1,2,3; Wang, Ping1,2,3; Liu, Yang1,2,3; Chen, Xianfeng1,2,3; Hu, Landian1,2,4; Kong, Xiangyin1,2,4
刊名	Genome biology
	2009
卷号	10期号:11页码:14
ISSN号	1474-760X
DOI	10.1186/gb-2009-10-11-r120
通讯作者	Kong, xiangyin(xykong@sibs.ac.cn)
英文摘要	Background: the origin of new genes and their contribution to functional novelty has been the subject of considerable interest. there has been much progress in understanding the mechanisms by which new genes originate. here we examine a novel way that new gene structures could originate, namely through the evolution of new alternative splicing isoforms after gene duplication. results: we studied the divergence of exonic splicing enhancers and silencers after gene duplication and the contributions of such divergence to the generation of new splicing isoforms. we found that exonic splicing enhancers and exonic splicing silencers diverge especially fast shortly after gene duplication. about 10% and 5% of paralogous exons undergo significantly asymmetric evolution of exonic splicing enhancers and silencers, respectively. when compared to pre-duplication ancestors, we found that there is a significant overall loss of exonic splicing enhancers and the magnitude increases with duplication age. detailed examination reveals net gains and losses of exonic splicing enhancers and silencers in different copies and paralog clusters after gene duplication. furthermore, we found that exonic splicing enhancer and silencer changes are mainly caused by synonymous mutations, though nonsynonymous changes also contribute. finally, we found that exonic splicing enhancer and silencer divergence results in exon splicing state transitions (from constitutive to alternative or vice versa), and that the proportion of paralogous exon pairs with different splicing states also increases over time, consistent with previous predictions. conclusions: our results suggest that exonic splicing enhancer and silencer changes after gene duplication have important roles in alternative splicing divergence and that these changes contribute to the generation of new gene structures.
WOS关键词	MESSENGER-RNA DECAY ; REGULATORY ELEMENTS ; SEQUENCE MOTIFS ; CODING REGIONS ; EVOLUTION ; PROTEIN ; EXPRESSION ; DATABASE ; GENOME ; ORIGIN
WOS研究方向	Biotechnology & Applied Microbiology ; Genetics & Heredity
WOS类目	Biotechnology & Applied Microbiology ; Genetics & Heredity
语种	英语
出版者	BIOMED CENTRAL LTD
WOS记录号	WOS:000273344600007
内容类型	期刊论文
URI标识	http://www.corc.org.cn/handle/1471x/2403638
专题	中国科学院大学
通讯作者	Kong, Xiangyin
作者单位	1.Chinese Acad Sci, SIBS, Inst Hlth Sci, Key Lab Stem Cell Biol, Shanghai 200025, Peoples R China 2.Shanghai Jiao Tong Univ, Sch Med, Shanghai 200025, Peoples R China 3.Chinese Acad Sci, Grad Sch, Beijing 100049, Peoples R China 4.Shanghai Jiao Tong Univ, Ruijin Hosp, State Key Lab Med Genom, Shanghai 200025, Peoples R China
推荐引用方式 GB/T 7714	Zhang, Zhenguo,Zhou, Li,Wang, Ping,et al. Divergence of exonic splicing elements after gene duplication and the impact on gene structures[J]. Genome biology,2009,10(11):14.
APA	Zhang, Zhenguo.,Zhou, Li.,Wang, Ping.,Liu, Yang.,Chen, Xianfeng.,...&Kong, Xiangyin.(2009).Divergence of exonic splicing elements after gene duplication and the impact on gene structures.Genome biology,10(11),14.
MLA	Zhang, Zhenguo,et al."Divergence of exonic splicing elements after gene duplication and the impact on gene structures".Genome biology 10.11(2009):14.

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