Profiling and functional analysis of differentially expressed circular RNAs identified in foot-and-mouth disease virus infected PK-15 cells

• Published in: Veterinary research (Paris) Vol. 53; no. 1; p. 24
• Main Authors: Yang, JinKe, Yang, Bo, Wang, Yong, Zhang, Ting, Hao, Yu, Cui, HuiMei, Zhao, DengShuai, Yuan, XingGuo, Chen, XueHui, Shen, ChaoChao, Yan, WenQian, Zheng, HaiXue, Zhang, KeShan, Liu, Xiangtao
• Format: Journal Article
• Language: English
• Published: England BioMed Central Ltd 21-03-2022; BioMed Central; BMC
• Subjects: analysis; Animals; Antisense RNA; circRNA; differential expression; FMDV; Foot & mouth disease; Foot-and-mouth disease; Foot-and-Mouth Disease Virus - genetics; Gene expression; Gene Expression Profiling - veterinary; Gene Ontology; Genes; Genomes; Genomics; Health aspects; Infections; Laboratories; MicroRNAs - genetics; Ontology; PK-15 cells; Proteins; RNA sequencing; RNA, Circular - genetics; RNA-Seq; Swine flu; Viral infections; Viruses; United States > US; China; FMDV; differential expression; PK-15 cells; circRNA; analysis; RNA-Seq
• ISSN: 1297-9716; 0928-4249; 1297-9716
• DOI: 10.1186/s13567-022-01037-w

Circular RNAs (circRNAs) are a new type of endogenous noncoding RNA that exhibit a variety of biological functions. However, it is not clear whether they are involved in foot-and-mouth disease virus (FMDV) infection and host response. In this study, we established circRNA expression profiles in FMDV-infected PK-15 cells using RNA-seq (RNA-sequencing) technology analysis. The biological function of the differentially expressed circRNAs was determined by protein interaction network, Gene Ontology (GO), and Kyoto Encyclopedia of Gene and Genome (KEGG) pathway enrichment. We found 1100 differentially expressed circRNAs (675 downregulated and 425 upregulated) which were involved in various biological processes such as protein ubiquitination modification, cell cycle regulation, RNA transport, and autophagy. We also found that circRNAs identified after FMDV infection may be involved in the host cell immune response. RNA-Seq results were validated by circRNAs qRT-PCR. In this study, we analyzed for the first time circRNAs expression profile and the biological function of these genes after FMDV infection of host cells. The results provide new insights into the interactions between FMDV and host cells.