Expression profiles of circular RNAs in sheep skeletal muscle
Expression profiles of circular RNAs in sheep skeletal muscle
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绵羊骨骼肌中环状RNA的表达谱
DOI：
10.5713/ajas.17.0563
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发表时间：
2018-10-01
期刊：
影响因子：
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通讯作者：
Hu, Sheng-Wei
中科院分区：
文献类型：
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作者：
Cao, Yang;You, Shuang;Hu, Sheng-Wei
目的环状RNA（Circular RNA，circRNA）是在动植物中发现的一类新的非编码RNA。近年来的研究发现，circRNA在细胞发育过程中的增殖、分化、自噬和凋亡等过程中发挥着重要作用。然而，关于家畜肌肉发育相关的circRNA的研究报道较少。方法利用RNA测序技术对绵羊背最长肌中的circRNA进行鉴定和注释。逆转录，然后实时定量（q）聚合酶链反应（PCR）分析验证了这些circRNA的存在。利用Targetscan7.0和米兰达分析circRNA-microRNA（miRNA）的相互作用。为了研究circRNA的功能，进行实验以使用基因本体（GO）和基因和基因组的京都百科全书（KEGG）途径进行富集分析circRNA的宿主基因。结果从绵羊骨骼肌RNA文库中获得约7550万条序列。这些序列被映射到绵羊参考基因组中的729个基因。我们鉴定了886个circRNA，包括许多环状内含子RNA和外显子circRNA。逆转录PCR（RT-PCR）和DNA测序分析证实了几种circRNA的存在。实时RT-PCR分析显示绵羊circRNA对RNase R消化的抗性。我们发现许多circRNA与参与肌肉生长和发育的肌肉特异性miRNA相互作用，特别是circ 776。GO和KEGG富集分析表明，circRNA的宿主基因参与了肌肉细胞的发育和信号通路。结论本研究提供了绵羊骨骼肌circRNA的完整表达谱。我们的研究提供了大量的circRNA，以促进更好地了解它们在肌肉生长中的作用。同时，我们建议在未来的研究中可以对circ 776进行分析。
Objective Circular RNAs (circRNAs) are a newfound class of non-coding RNA in animals and plants. Recent studies have revealed that circRNAs play important roles in cell proliferation, differentiation, autophagy and apoptosis during development. However, there are few reports about muscle development-related circRNAs in livestock. Methods RNA sequencing analysis was employed to identify and annotate circRNAs from longissimus dorsi of sheep. Reverse transcription followed by real-time quantitative (q) polymerase chain reaction (PCR) analysis verified the presence of these circRNAs. Targetscan7.0 and miRanda were used to analyse the interaction of circRNA-microRNA (miRNA). To investigate the function of circRNAs, an experiment was conducted to perform enrichment analysis hosting genes of circRNAs using gene ontology (GO) and Kyoto encyclopedia of genes and genomes (KEGG) pathways. Results About 75.5 million sequences were obtained from RNA libraries of sheep skeletal muscle. These sequences were mapped to 729 genes in the sheep reference genome. We identified 886 circRNAs, including numerous circular intronic RNAs and exonic circRNAs. Reverse transcription PCR (RT-PCR) and DNA sequencing analysis confirmed the presence of several circRNAs. Real-Time RT-PCR analysis exhibited resistance of sheep circRNAs to RNase R digestion. We found that many circRNAs interacted with muscle-specific miRNAs involved in growth and development of muscle, especially circ776. The GO and KEGG enrichment analysis showed that hosting genes of circRNAs was involved in muscle cell development and signaling pathway. Conclusion The study provides comprehensive expression profiles of circRNAs in sheep skeletal muscle. Our study offers a large number of circRNAs to facilitate a better understanding of their roles in muscle growth. Meanwhile, we suggested that circ776 could be analyzed in future study.