Expression profiles of microRNAs in skeletal muscle of sheep by deep sequencing
Expression profiles of microRNAs in skeletal muscle of sheep by deep sequencing
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通过深度测序研究绵羊骨骼肌中 microRNA 的表达谱
DOI：
10.5713/ajas.18.0473
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发表时间：
2019-06-01
期刊：
影响因子：
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通讯作者：
Hu, Shengwei
中科院分区：
文献类型：
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作者：
Liu, Zhijin;Li, Cunyuan;Hu, Shengwei
目的MicroRNAs是一类内源性小调控rna，可调控细胞增殖、分化和凋亡。目前对mirna的研究主要集中在小鼠、人和猪身上。然而，关于mirna在绵羊骨骼肌中的研究并不全面。方法采用RNA-seq技术对绵羊产前和产后骨骼肌mirna进行基因组分析。使用miRanda软件预测靶基因，并通过定量实时聚合酶链反应验证miRNA-mRNA相互作用。为了进一步研究mirna的功能，利用基因本体（GO）和京都基因与基因组百科全书（KEGG）富集对候选靶向基因进行富集分析。结果在绵羊产前和产后骨骼肌中共检测到1086个已知mirna和40个新的候选mirna。此外，345个mirna（151个上调，94个下调）存在差异表达。此外，我们使用miRanda软件预测miRNAs的靶基因，共预测了2833个靶标，尤其是miR-381靶向多个肌肉相关的mrna。此外，GO和KEGG通路分析证实了mirna的靶基因参与了骨骼肌的发育。结论本研究补充了绵羊miRNA数据库，为进一步研究绵羊骨骼肌miRNA的生物学功能提供了有价值的信息。
Objective MicroRNAs are a class of endogenous small regulatory RNAs that regulate cell proliferation, differentiation and apoptosis. Recent studies on miRNAs are mainly focused on mice, human and pig. However, the studies on miRNAs in skeletal muscle of sheep are not comprehensive. Methods RNA-seq technology was used to perform genomic analysis of miRNAs in prenatal and postnatal skeletal muscle of sheep. Targeted genes were predicted using miRanda software and miRNA-mRNA interactions were verified by quantitative real-time polymerase chain reaction. To further investigate the function of miRNAs, candidate targeted genes were enriched for analysis using gene ontology (GO) and Kyoto encyclopedia of genes and genomes (KEGG) enrichment. Results The results showed total of 1,086 known miRNAs and 40 new candidate miRNAs were detected in prenatal and postnatal skeletal muscle of sheep. In addition, 345 miRNAs (151 up-regulated, 94 down-regulated) were differentially expressed. Moreover, miRanda software was performed to predict targeted genes of miRNAs, resulting in a total of 2,833 predicted targets, especially miR-381 which targeted multiple muscle-related mRNAs. Furthermore, GO and KEGG pathway analysis confirmed that targeted genes of miRNAs were involved in development of skeletal muscles. Conclusion This study supplements the miRNA database of sheep, which provides valuable information for further study of the biological function of miRNAs in sheep skeletal muscle.