[小鼠雌性生殖系干细胞中可变多聚腺苷酸化的全基因组分析]
[Genome-wide profiling of alternative polyadenylation in mouse female germline stem cells].
作者信息
Shen Ting-Ting, Zhang Xiao-Li, Zhang Pan, Kang Ya-Ni, Tian Jing, Zhao Xiao-Dong
机构信息
Shanghai Center of Systems Biomedicine, Key Laboratory of Systems Biomedicine of Ministry of Education, Shanghai Jiaotong University, Shanghai 200240, China. E-mail:
出版信息
Nan Fang Yi Ke Da Xue Xue Bao. 2016 Feb;36(2):157-62.
OBJECTIVE
To perform a genome-wide alternative polyadenylation (APA) profiling in both mouse female germline stem cells (FGSCs) and embryonic stem cells (ESCs) and explore the role of germline-specific APA in the biological behaviors of FGSCs.
METHODS
We used a high-throughput sequencing-based method 3T-Seq to profile the genome-wide 3' termini of the transcripts and delineate all the APA sites in mouse FGSCs and ESCs. The genes with altered APA sites in FGSCs compared with ESCs were analyzed with DAVID Gene Ontology tool for their biological roles.
RESULTS
We identified a total of 50243 APA sites in 16973 genes. In FGSCs, 1148 genes were shown to have alterations in 3'UTR length, among which 795 ( 66%) genes had shortened and 353 (34%) had lengthened 3'UTR. Some of the genes with shortened 3'UTR were involved in germ cell development.
CONCLUSIONS
Our genome-wide APA profiling analysis reveals a cell type-specific APA alternation in FGSCs, and APA-mediated 3'UTR alteration contributes to germline-related biological process. This study provides a framework for understanding the post-transcriptional regulation mechanisms in FGSCs.
目的
在小鼠雌性生殖系干细胞（FGSCs）和胚胎干细胞（ESCs）中进行全基因组范围的可变聚腺苷酸化（APA）分析，探讨生殖系特异性APA在FGSCs生物学行为中的作用。
方法
我们使用基于高通量测序的3T-Seq方法对转录本的全基因组3'末端进行分析，并确定小鼠FGSCs和ESCs中的所有APA位点。利用DAVID基因本体工具分析与ESCs相比，FGSCs中APA位点发生改变的基因的生物学作用。
结果
我们在16973个基因中总共鉴定出50243个APA位点。在FGSCs中，有1148个基因的3'UTR长度发生改变，其中795个（66%）基因的3'UTR缩短，353个（34%）基因的3'UTR延长。一些3'UTR缩短的基因参与生殖细胞发育。
结论
我们的全基因组APA分析揭示了FGSCs中细胞类型特异性的APA变化，且APA介导的3'UTR改变有助于生殖系相关生物学过程。本研究为理解FGSCs中的转录后调控机制提供了一个框架。
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