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基于深度测序的绵羊骨骼肌中微小RNA的表达谱分析

Expression profiles of microRNAs in skeletal muscle of sheep by deep sequencing.

作者信息

Liu Zhijin, Li Cunyuan, Li Xiaoyue, Yao Yang, Ni Wei, Zhang Xiangyu, Cao Yang, Hazi Wureli, Wang Dawei, Quan Renzhe, Yu Shuting, Wu Yuyu, Niu Songmin, Cui Yulong, Khan Yaseen, Hu Shengwei

机构信息

College of Life Sciences, Shihezi University, Shihezi, Xinjiang 832003, China.

College of Animal Science and Technology, Shihezi University, Shihezi, Xinjiang, 832003, China.

出版信息

Asian-Australas J Anim Sci. 2019 Jun;32(6):757-766. doi: 10.5713/ajas.18.0473. Epub 2018 Nov 27.

DOI:10.5713/ajas.18.0473
PMID:30477295
原文链接:https://pmc.ncbi.nlm.nih.gov/articles/PMC6498074/
Abstract

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.

摘要

目的

微小RNA是一类内源性小调节RNA，可调节细胞增殖、分化和凋亡。近期关于微小RNA的研究主要集中在小鼠、人类和猪上。然而，关于绵羊骨骼肌中微小RNA的研究并不全面。

方法

采用RNA测序技术对绵羊产前和产后骨骼肌中的微小RNA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微小RNA与信使核糖核酸的相互作用。为进一步研究微小RNA的功能，利用基因本体论（GO）和京都基因与基因组百科全书（KEGG）富集对候选靶基因进行富集分析。

结果

结果显示，在绵羊产前和产后骨骼肌中总共检测到1086个已知微小RNA和40个新的候选微小RNA。此外，有345个微小RNA（151个上调，94个下调）差异表达。而且，使用miRanda软件预测微小RNA的靶基因，共得到2833个预测靶点，尤其是靶向多个肌肉相关信使核糖核酸的miR-381。此外，GO和KEGG通路分析证实微小RNA的靶基因参与骨骼肌的发育。

结论

本研究补充了绵羊的微小RNA数据库，为进一步研究微小RNA在绵羊骨骼肌中的生物学功能提供了有价值的信息。

https://cdn.ncbi.nlm.nih.gov/pmc/blobs/93a0/6498074/fb3bf1e77f28/ajas-18-0473f7.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/93a0/6498074/6a91fd1e2e9e/ajas-18-0473f1.jpg
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https://cdn.ncbi.nlm.nih.gov/pmc/blobs/93a0/6498074/025a9f01bbfd/ajas-18-0473f5.jpg
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https://cdn.ncbi.nlm.nih.gov/pmc/blobs/93a0/6498074/fb3bf1e77f28/ajas-18-0473f7.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/93a0/6498074/6a91fd1e2e9e/ajas-18-0473f1.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/93a0/6498074/a2bd03aa73a8/ajas-18-0473f2.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/93a0/6498074/33de85bda42d/ajas-18-0473f3.jpg
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