Comparative transcriptomic analysis of porcine epidemic diarrhea virus epidemic and classical strains in IPEC-J2 cells

Yue Zhang; Huijie Chen; Jia Yu; Rui Feng; Zhao Chen; Xiaolin Zhang; Yudong Ren; Guijun Yang; Xiaodan Huang; Guangxing Li

doi:10.1016/j.vetmic.2022.109540

Comparative transcriptomic analysis of porcine epidemic diarrhea virus epidemic and classical strains in IPEC-J2 cells

Vet Microbiol. 2022 Oct:273:109540. doi: 10.1016/j.vetmic.2022.109540. Epub 2022 Aug 8.

Authors

Yue Zhang¹, Huijie Chen², Jia Yu¹, Rui Feng¹, Zhao Chen¹, Xiaolin Zhang¹, Yudong Ren³, Guijun Yang¹, Xiaodan Huang⁴, Guangxing Li⁵

Affiliations

¹ Veterinary Pathology Laboratory, College of Veterinary Medicine, Heilongjiang Key Laboratory for Animal and Comparative Medicine, Northeast Agricultural University, Harbin, China.
² Veterinary Pathology Laboratory, College of Veterinary Medicine, Heilongjiang Key Laboratory for Animal and Comparative Medicine, Northeast Agricultural University, Harbin, China; College of Biological and Pharmaceutical Engineering, Jilin Agriculture Science and Technology University, Jilin, China.
³ Department of Computer Science and Technology, College of Electrical and Information Technology, Northeast Agricultural University, Harbin 150030, China.
⁴ Veterinary Pathology Laboratory, College of Veterinary Medicine, Heilongjiang Key Laboratory for Animal and Comparative Medicine, Northeast Agricultural University, Harbin, China. Electronic address: hxd790125@neau.edu.cn.
⁵ Veterinary Pathology Laboratory, College of Veterinary Medicine, Heilongjiang Key Laboratory for Animal and Comparative Medicine, Northeast Agricultural University, Harbin, China. Electronic address: ligx@neau.edu.cn.

PMID: 35987184
DOI: 10.1016/j.vetmic.2022.109540

Abstract

In recent years, porcine epidemic diarrhea (PED) has become widespread and caused huge economic losses for the global pig industry. There is growing evidence that frequent outbreaks of diarrhea are caused by the variants of porcine epidemic diarrhea virus (PEDV) with high pathogenicity. Herein, an epidemic strain of PEDV HLJ strain was isolated and characterized from Heilongjiang Province of China, and the whole genomic expression profile of intestinal porcine epithelial cells (IPEC-J2) infected with HLJ strain was investigated in comparison with classical CV777 strain. A total of 26,851 genes were identified, of these, 25,880 were known genes and 971 were novel genes. There were 258 differentially expressed genes (DEGs) identified between PEDV HLJ-infected and uninfected cells at 24 h post infection (hpi), and 201 DEGs between PEDV HLJ and CV777 infection. A comparative analysis revealed that 258 DEGs were enriched in 468 gene ontology (GO) terms and mapped to 179 KEGG pathways, and 201 DEGs in 1120 GO terms and mapped to 115 KEGG pathways for HLJ-infected cells in contrast to the uninfected and CV777-infected cells, respectively. Specifically, PEDV HLJ strain could activate anti-viral innate immune response and inflammation more intensively than CV777, in which mRNA levels of interferon (IFN-β), chemokines (CCL5 and CXCL10) and pro-inflammatory cytokines (IL-8 and TNF-α) were induced earlier and more strongly. Subsequently, 20 DEGs and 5 proteins were selected and validated by real-time fluorescence quantitative PCR (RT-qPCR) and western blot, and the results were consistent with the transcriptomic analysis. Overall, this study may be helpful for understanding the pathogenesis mechanism of PEDV variants, and contribute to the effective prevention and control of PEDV infection.

Keywords: Cytokines; IPEC-J2; Immunity; PEDV; RNA-seq.

MeSH terms

Animals
Coronavirus Infections* / epidemiology
Coronavirus Infections* / veterinary
Diarrhea / veterinary
Porcine epidemic diarrhea virus* / physiology
Swine
Swine Diseases*
Transcriptome