[1]蒋洋洋,朱浩,张海.人类与小鼠同源lncRNA基因及其表观遗传调控靶基因分析[J].南方医科大学学报,2018,(06):731.
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人类与小鼠同源lncRNA基因及其表观遗传调控靶基因分析()
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《南方医科大学学报》[ISSN:1673-4254/CN:44-1627/R]

卷:
期数:
2018年06期
页码:
731
栏目:
出版日期:
2018-06-30

文章信息/Info

Title:
Analysis of orthologous lncRNAs in humans and mice and their species-specific epigenetic target genes
作者:
蒋洋洋朱浩张海
关键词:
长链非编码RNA直系同源基因表观遗传调控人类小鼠
Keywords:
long non-coding RNA orthologous genes epigenetic regulation human mice
摘要:
目的分析人类与小鼠lncRNA中的同源与种系特异性lncRNA,揭示人类与小鼠表观遗传调控的种系差异。方法根据同 源lncRNA序列搜索和人类/小鼠全基因组双序列比对确定GENCODE项目首期报道的13562个人类lncRNA和10481个小鼠 lncRNA中的同源lncRNA基因,用lncRNA/DNA结合分析软件LongTarget预测lncRNA的DNA结合位点和表观遗传调控靶基 因,根据Gene Ontology 数据库分析靶基因的功能。结果仅158 对人类和小鼠lncRNA 被识别为同源lncRNA,这些同源 lncRNA在人类与小鼠基因组有种系特异性的DNA结合位点和靶基因,Gene Ontology分析提示这些同源lncRNA对靶基因的 种系特异性调控可能对人类和小鼠的表型差异有重要影响。结论仅极少数人类和小鼠lncRNA是同源的,这些同源lncRNA 有种系特异性的表观遗传调控靶基因,lncRNA和表观遗传调控的种系特异性对人类和小鼠的差异(包括疾病模型的差异)有重 要影响。
Abstract:
Objective To identify orthologous lncRNAs in human and mice and the species specificity of their epigenetic regulatory functions. Methods The human/mouse whole-genome pairwise alignment (hg19/mm10, genome.UCSC.edu) was used to identify the orthologues in 13 562 and 10 481 GENCODE-annotated human and mouse lncRNAs. The Infernal program was used to search the orthologous sequences of all the exons of the 13562 human lncRNAs in mouse genome (mm10) to identify the highly conserved orthologues in mice. LongTarget program was used to predict the DNA binding sites of the orthologous lncRNAs in their local genomic regions. Gene Ontology analysis was carried out to examine the functions of genes. Results Only 158 orthologous lncRNAs were identified in humans and mice, and many of these orthologues had species- specific DNA binding sites and epigenetic target genes. Some of the epigenetic target genes executed important functions in determining human and mouse phenotypes. Conclusions Only a few human and mouse lncRNAs are orthologues, and most of lncRNAs are species-specific. The orthologous lncRNAs have species-specific epigenetic target genes, and species-specific epigenetic regulation greatly contributes to the differences between humans and mice.

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更新日期/Last Update: 1900-01-01