A comprehensive atlas of pig RNA editome across 23 tissues reveals RNA editing affecting interaction mRNA-miRNAs

文献类型： 外文期刊

第一作者： Long, Jiajia

作者： Long, Jiajia;Liu, Weiwei;Yang, Xiaogan;Tang, Zhonglin;Long, Jiajia;Liu, Weiwei;Fan, Xinhao;Yang, Xiaogan;Tang, Zhonglin;Long, Jiajia;Liu, Weiwei;Fan, Xinhao;Yang, Yalan;Yang, Xiaogan;Tang, Zhonglin;Fan, Xinhao;Tang, Zhonglin;Fan, Xinhao;Tang, Zhonglin

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关键词： pig; RNA editing; multiple tissue; skeletal muscle; miRNA

期刊名称：G3-GENES GENOMES GENETICS （ 影响因子：2.1； 五年影响因子：2.5 ）

ISSN： 2160-1836

年卷期： 2024 年

页码：

收录情况： SCI

摘要： RNA editing is a co-transcriptional/post-transcriptional modification that is mediated by the ADAR enzyme family. Profiling of RNA editing is very limited in pigs. In this study, we collated 3813 RNA-seq data from the public repositories across 23 tissues and carried out comprehensive profiling of RNA editing in pigs. In total, 127,927 A-to-I RNA-editing sites were detected. Our analysis showed that 98.2% of RNA-editing sites were located within repeat regions, primarily within the pig-specific SINE retrotransposon PRE-1/Pre0_SS elements. Subsequently, we focused on analyzing specific RNA-editing sites (SESs) in skeletal muscle tissues. Functional enrichment analyses suggested that they were enriched in signaling pathways associated with muscle cell differentiation, including DMD, MYOD1, and CAV1 genes. Furthermore, we discovered that RNA editing event in the 3 ' UTR of CFLAR mRNA influenced miR-708-5p binding in this region. In this study, the panoramic RNA-editing landscape of different tissues of pigs was systematically mapped, and RNA-editing sites and genes involved in muscle cell differentiation were identified. In summary, we identified modifications to pig RNA-editing sites and provided candidate targets for further validation.

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