Circular RNA expression profiles and features in NAFLD mice: a study using RNA-seq data

• DOI: 10.1186/s12967-020-02637-w
• Publication Date: 2020-12-11T12:18:49Z
• Authors: Xinlu Yuan; Jianjun Diao; Anqing Du; Song Wen; Ligang Zhou; Yangbin Pan
• Keywords: Research; Gene Expression Profiling; R; Computational Biology; RNA, Circular; Regulatory network; Tissue specificity; 3. Good health; Mice; MicroRNAs; Expression profile; Non-alcoholic Fatty Liver Disease; Medicine; Animals; RNA; RNA-Seq; Nonalcoholic fatty liver disease; circular RNA

Abstract Background Nonalcoholic fatty liver disease (NAFLD) is primarily characterized by the hepatic cholesterol accumulation. Circular RNA (circRNA), one of noncoding RNA, involves in many liver diseases progression. However, no recent studies on circRNA expression profiles in NAFLD have been reported previously.

Methods A NAFLD mouse model was constructed by providing high-fat diet (HFD) for 32 weeks. The circRNAs expression profile in normal mice and NAFLD mice were determined using high-output RNA sequencing method and bioinformatics methods, while the differentially expressed circRNAs were confirmed using Sanger sequencing and qRT-PCR. The circRNA-miRNA network was also predicted. The biological functions of circRNAs were annotated by Gene Ontology (GO) and Kyoto Encyclopedia of Genes and Genomes (KEGG).

Results The results demonstrated the successful construction of NAFLD mice model by immunohistology and serology assay. In total, 93 dysregulated circRNAs were observed, including 57 upregulated circRNAs and 36 downregulated circRNAs, in the NAFLD group. The circRNA-miRNA network revealed the complex interaction between circRNAs and its potential miRNA targets in NAFLD. The characteristic of tissue-specific expression in circRNA was demonstrated. The differentially expressed circRNAs with important biological function were also annotated using GO and KEGG. Both DDAH1 and VAV3 genes were found to be associated with the NAFLD development.

Conclusions Taken together, this study demonstrated the circRNAs expression profile and features in NAFLD, which may provide potential biological markers for the pathogenesis of NAFLD.