Exploration of Long Non-coding RNAs and Circular RNAs in Porcine Milk Exosomes
Exploration of Long Non-coding RNAs and Circular RNAs in Porcine Milk Exosomes
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猪乳外泌体中长链非编码RNA和环状RNA的探索
DOI：
10.3389/fgene.2020.00652
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发表时间：
2020-07-02
影响因子：
3.7
通讯作者：
Zhang, Yongliang
中科院分区：
文献类型：
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作者：
Zeng, Bin;Chen, Ting;Zhang, Yongliang
乳外泌体中的RNA可被哺乳动物肠道吸收并参与基因表达调控。我们之前的工作表明，猪乳外泌体（PME）含有大量的mirna和mrna。越来越多的证据表明，鉴于长链非编码rna （lncRNAs）和环状rna （circRNAs）在动物多种生物过程中的关键作用，它们受到了特别的关注。然而，lncrna和circrna在PME中的表达谱和潜在功能仍然未知。在本研究中，我们通过超离心分离PME，并通过RNA测序对PME中的lncRNA和circRNA进行了综合分析。结果，在PME中鉴定出2,466个新的lncrna， 809个注释lncrna和61个环状rna。lncrna在长度、外显子数量和开放阅读框方面与其他哺乳动物具有相似的特征。但lncRNAs的表达水平高于mrna。选取PME中的8个lncrna和5个circrna进行PCR鉴定。对lncRNAs靶基因的功能富集分析表明，这些基因参与细胞大分子代谢、RNA代谢和免疫过程。环状rna宿主基因在核酸结合和粘附连接处富集。我们还评估了miRNAs与PME lncRNAs或circRNAs之间潜在的相互作用靶点，结果表明PME lncRNAs和circRNAs具有高密度的miRNA靶点。前20个高表达的lncrna被发现与增殖相关的mirna相互作用，并且circrna可能靶向许多与肠屏障相关的mirna。本研究首次为猪乳的lncRNA和circRNA研究提供了资源。此外，还揭示了lncRNA/circRNA和miRNA之间潜在的相互作用。本研究扩大了我们对牛奶中非编码rna的认识，需要进一步的研究来证实它们的确切生理功能。
RNA in milk exosomes can be absorbed in the mammalian intestinal tract and function in gene expression regulations. Our previous work demonstrated that porcine milk exosomes (PME) contain large amounts of miRNAs and mRNAs. Increasing evidence suggests that long non-coding RNAs (lncRNAs) and circular RNAs (circRNAs) are of particular interest, given their key role in diverse biological processes of animals. However, the expression profiles and the potential functions of lncRNAs and circRNAs in PME are still unknown. In the present study, we isolated PME by ultracentrifugation and performed a comprehensive analysis of lncRNA and circRNA in PME by using RNA sequencing. As a result, 2,466 novel lncRNAs, 809 annotated lncRNAs, and 61 circRNAs were identified in PME. The lncRNAs shared similar characteristics with other mammals in terms of length, exon number, and open reading frames. However, lncRNAs showed a higher level compared with mRNAs. Eight lncRNAs and five circRNAs in PME were selected for PCR identification. A functional enrichment analysis on the target genes of lncRNAs indicated that these genes were involved in cellular macromolecule metabolic, RNA metabolic, and immune processes. The circRNAs host genes were enriched in nucleic acid binding and adherence junction. We also evaluated the potential interaction targets between miRNAs and PME lncRNAs or circRNAs, and the results showed that the PME lncRNAs and the circRNAs have a high density of miRNA target sites. The top 20 highly expressed lncRNAs were found to interact with the proliferation-related miRNAs, and the circRNAs potentially targeted many miRNAs that are associated with the intestinal barrier. This study is the first to provide a resource for lncRNA and circRNA research of porcine milk. Moreover, the potential interaction between lncRNA/circRNA and miRNA is revealed. The present study expands our knowledge of non-coding RNAs in milk, and additional research is necessary to confirm their exactly physiological functions.