Genome-Wide Analysis of Long Noncoding RNA Profiles in Seneca Valley Virus-Infected PK15 Cells.

Jianguo Dong,Pandeng Zhao,Dan Rao,Li Huang,Mingrui Chen

doi:10.3389/fvets.2022.825150

Abstract

Long noncoding RNAs (lncRNAs) have been demonstrated to play key roles in various biological processes. However, the contributions of lncRNAs to Seneca Valley virus (SVV) infection and host defense remain largely unknown. In this study, differentially expressed lncRNAs and mRNAs in SVV-infected PK15 cells were detected by genome-wide analysis. A total of 14,127 lncRNAs and 63,562 mRNAs were identified, and 1,780 lncRNAs were differentially expressed. The functional prediction of SVV-induced lncRNAs showed high associations with biological regulation and many immunity-related signaling pathways, including the B-cell receptor pathway, RIG-I-like receptor signaling pathway, and NF-kappa B (NF-κB) signaling pathway. We next screened lncRNAs and target genes related to immune response pathways and further demonstrated their differential expression in SVV-infected PK15 cells. Our study investigated the function of lncRNAs involved in SVV infection and provided new insight into the pathogenic mechanisms of SVV.

Highlights

Seneca Valley virus (SVV) is a nonenveloped, single-stranded RNA virus with a genome length of 7.3 kb that belongs to the genus Senecavirus in the family Picornaviridae and causes a disease characterized by vesicles, coronary band hyperemia, and lameness [1]
PK15 cells cultured at 37◦C and 5% CO2 were infected with SVV CHhb17 at a multiplicity of infection (MOI) of 0.01
The expression profiles of Long noncoding RNAs (lncRNAs) and mRNAs in the mock-infected and SVV-infected PK15 cells were analyzed by hierarchical clustering

Summary

Introduction

Seneca Valley virus (SVV) is a nonenveloped, single-stranded RNA virus with a genome length of 7.3 kb that belongs to the genus Senecavirus in the family Picornaviridae and causes a disease characterized by vesicles, coronary band hyperemia, and lameness [1]. And recently, many countries have reported SVV infection associated with porcine idiopathic vesicular disease (PIVD), and its outbreak affects the productivity and economics of the pork industry to some extent [2–4]. Since the first SVV was isolated from swine in Guangdong Province, China, in 2015 [2], researchers have paid great attention to monitoring its prevalence and clarifying the clinical characteristics of different district-isolated strains. From 2015 to 2019, many provinces in China reported SVV infection in swine herds [5–7]. Further understanding of the mechanism is crucial for the prevention and control of SVV-induced disease

Methods

Results

Conclusion