Dynamic landscape of tandem 3′ UTRs during zebrafish development

被引：58

作者：

Li, Yuxin ^{[1
]}

Sun, Yu ^{[1
]}

Fu, Yonggui ^{[1
]}

Li, Mengzhen ^{[1
]}

Huang, Guangrui ^{[1
]}

Zhang, Chenxu ^{[1
]}

Liang, Jiahui ^{[1
]}

Huang, Shengfeng ^{[1
]}

Shen, Gaoyang ^{[1
]}

Yuan, Shaochun ^{[1
]}

Chen, Liangfu ^{[1
]}

Chen, Shangwu ^{[1
]}

Xu, Anlong ^{[1
]}

机构：

[1] Sun Yat Sen Univ, State Key Lab Biocontrol,Higher Educ Mega Ctr, Natl Engn Ctr S China Sea Marine Biotechnol,Coll, Guangdong Prov Key Lab Pharmaceut Funct Genes,Dep, Guangzhou 510006, Guangdong, Peoples R China

来源：

GENOME RESEARCH | 2012年 / 22卷 / 10期

基金：

中国博士后科学基金; 中国国家自然科学基金;

关键词：

TRANSLATIONAL CONTROL; MESSENGER-RNAS; ALTERNATIVE POLYADENYLATION; EMBRYONIC-DEVELOPMENT; UNTRANSLATED REGIONS; EXPRESSION; CLEARANCE; MICRORNAS; MECHANISM; CELLS;

D O I：

10.1101/gr.128488.111

中图分类号：

Q5 [生物化学]; Q7 [分子生物学];

学科分类号：

071010 ; 081704 ;

摘要：

Tandem 3' untranslated regions (UTRs), produced by alternative polyadenylation (APA) in the terminal exon of a gene, could have critical roles in regulating gene networks. Here we profiled tandem poly(A) events on a genome-wide scale during the embryonic development of zebrafish (Dania rerio) using a recently developed SAPAS method. We showed that 43% of the expressed protein-coding genes have tandem 3' UTRs. The average 3' UTR length follows a V-shaped dynamic pattern during early embryogenesis, in which the 3' UTRs are first shortened at zygotic genome activation, and then quickly lengthened during gastrulation. Over 4000 genes are found to switch tandem APA sites, and the distinct functional roles of these genes are indicated by Gene Ontology analysis. Three families of cis-elements, including miR-430 seed, U-rich element, and canonical poly(A) signal, are enriched in 3' UTR-shortened/lengthened genes in a stage-specific manner, suggesting temporal regulation coordinated by APA and trans-acting factors. Our results highlight the regulatory role of tandem 3' UTR control in early embryogenesis and suggest that APA may represent a new epigenetic paradigm of physiological regulations.

引用

页码：1899 / 1906

页数：8

共 46 条

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