[1]房路京,肖世俊,王志勇.大黄鱼转录组水平miRNA的生物信息学分析[J].集美大学学报(自然版),2017,22(3):8-17.
 FANG Lujing,XIAO Shijun,WANG Zhiyong.Transcriptome-wide Bioinformatics Analysis of miRNA in Large Yellow Croaker Larimichthys crocea[J].Journal of Jimei University,2017,22(3):8-17.
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大黄鱼转录组水平miRNA的生物信息学分析()
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《集美大学学报(自然版)》[ISSN:1007-7405/CN:35-1186/N]

卷:
第22卷
期数:
2017年第3期
页码:
8-17
栏目:
水产、食品与生物技术
出版日期:
2017-05-28

文章信息/Info

Title:
Transcriptome-wide Bioinformatics Analysis of miRNA in Large Yellow Croaker Larimichthys crocea
作者:
房路京12肖世俊12王志勇12
(1.集美大学水产学院,福建 厦门 361021;2.农业部东海海水健康养殖重点实验室,福建 厦门 361021)
Author(s):
FANG Lujing1XIAO Shijun1WANG Zhiyong1
(1.Fisheries College,Jimei University,Xiamen 361021,China;2.Key Laboratory of Healthy Mariculture for the East China Sea,Ministry of Agriculture,Xiamen 361021,China)
关键词:
miRNA大黄鱼转录组生物信息
Keywords:
miRNALarimichthys croceatranscriptomebioinformatics
文献标志码:
A
摘要:
根据成熟miRNA序列在物种间高度保守的特性,miRNA前体可以形成茎环状的二级结构,以及miRNA非编码的特性,搭建出了miRNA挖掘的生物信息学流程,并利用此流程在大黄鱼全转录组中进行miRNA的挖掘,得到54条成熟miRNA序列以及54条前体序列(pre-miRNA),根据其种子区的序列将其归为29个miRNA家族。通过对预测得到的miRNA前体序列同其他物种中相同家族的miRNA前体序列构建系统进化树,揭示出同一家族的miRNA前体在不同物种之间的保守性和多样性。利用两种靶基因预测软件,对成熟miRNA进行靶基因预测,共得到2360个靶基因,并对这些靶基因使用BLAST2GO做了进一步的GO注释和富集分析。
Abstract:
In this study,a miRNA prediction bioinformatics pipeline was designed according to three basic criteria,mature miRNA sequences are highly conserved among different species,miRNA precursors could form stem loop secondary structure and miRNAs are non-coding sequences.The large yellow croaker transcriptome sequences were used to predict miRNA by this pipeline.At last,54 mature miRNAs,which belong to 29 miRNA families according to seed region , as well as 54 pre-miRNA sequences were gained.When compared with other animals'miRNA precursors,the phylogenetic analysis reveals conservation and diversification of large yellow croaker miRNA precursors among diverse animal species.2360 miRNA target genes were gained by using two miRNA target gene prediction tools, and BLAST2GO was also used to GO annotation for target genes.

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更新日期/Last Update: 2017-09-10