Identification and functional analysis of long intergenic noncoding RNA genes in porcine pre-implantation embryonic development.
Identification and functional analysis of long intergenic noncoding RNA genes in porcine pre-implantation embryonic development.
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猪植入前胚胎发育中长基因间非编码RNA基因的鉴定和功能分析。
DOI：
10.1038/srep38333
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发表时间：
2016-12-06
影响因子：
4.6
通讯作者：
Liu Z
中科院分区：
文献类型：
--
作者：
Li J;Gao Z;Wang X;Liu H;Zhang Y;Liu Z
Genome-wide transcriptome studies have identified thousands of long intergenic noncoding RNAs (lincRNAs), some of which play important roles in pre-implantation embryonic development (PED). Pig is an ideal model for reproduction, however, porcine lincRNAs are still poorly characterized and it is unknown if they are associated with porcine PED. Here we reconstructed 195,531 transcripts in 122,007 loci, and identified 7,618 novel lincRNAs from 4,776 loci based on published RNA-seq data. These lincRNAs show low exon number, short length, low expression level, tissue-specific expression and cis-acting, which is consistent with previous reports in other species. By weighted co-expression network analysis, we identified 5 developmental stages specific co-expression modules. Gene ontology enrichment analysis of these specific co-expression modules suggested that many lincRNAs are associated with cell cycle regulation, transcription and metabolism to regulate the process of zygotic genome activation. Futhermore, we identified hub lincRNAs in each co-expression modules, and found two lincRNAs TCONS_00166370 and TCONS_00020255 may play a vital role in porcine PED. This study systematically analyze lincRNAs in pig and provides the first catalog of lincRNAs that might function as gene regulatory factors of porcine PED.
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影响因子：
4.8
作者：
Bai, Qiang;Assou, Said;Haouzi, Delphine;Ramirez, Jean-Marie;Monzo, Cecile;Becker, Fabienne;Gerbal-Chaloin, Sabine;Hamamah, Samir;De Vos, John
通讯作者：
De Vos, John
影响因子：
64.5
作者：
Huarte M;Guttman M;Feldser D;Garber M;Koziol MJ;Kenzelmann-Broz D;Khalil AM;Zuk O;Amit I;Rabani M;Attardi LD;Regev A;Lander ES;Jacks T;Rinn JL
通讯作者：
Rinn JL
WGCNA：用于加权相关网络分析的 R 包。
影响因子：
3
作者：
Langfelder P;Horvath S
通讯作者：
Horvath S
影响因子：
3.7
作者：
Galán A;Montaner D;Póo ME;Valbuena D;Ruiz V;Aguilar C;Dopazo J;Simón C
通讯作者：
Simón C
影响因子：
4.4
作者：
Cao S;Han J;Wu J;Li Q;Liu S;Zhang W;Pei Y;Ruan X;Liu Z;Wang X;Lim B;Li N
通讯作者：
Li N