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Identification and integrated analysis of lncRNAs and miRNAs in IPEC-J2 cells provide novel insight into the regulation of the innate immune response by PDCoV infection

文献类型： 外文期刊

作者： Jiang, Shan 1 ; Chen, Jianfei 3 ; Li, Xiuli 1 ; Ren, Weike 1 ; Li, Fengxiang 4 ; Wang, Ting 5 ; Li, Cheng 1 ; Dong, Zhimin 1 ; Tian, Xiangxue 1 ; Zhang, Li 1 ; Wang, Lili 1 ; Lu, Chao 1 ; Chi, Jingjing 1 ; Feng, Li 3 ; Yan, Minghua 1 ;

作者机构： 1.Tianjin Acad Agr Sci, Tianjin Inst Anim Husb & Vet Med, Tianjin 300381, Peoples R China

2.Tianjin Observat & Expt Site Natl Anim Hlth, Tianjin 300381, Peoples R China

3.Chinese Acad Agr Sci, Harbin Vet Res Inst, State Key Lab Vet Biotechnol, Harbin 150069, Peoples R China

4.Nankai Univ, Coll Environm Sci & Engn, Key Lab Pollut Proc & Environm Criteria, Minist Educ, Tianjin 300071, Peoples R China

5.Jiangxi Agr Univ, Inst Pathogen Microorganism, Nanchang 330045, Jiangxi, Peoples R China

6.Jiangxi Agr Univ, Coll Biosci & Engn, Nanchang 330045, Jiangxi, Peoples R China

关键词： PDCoV; miRNA; lncRNA; Pathogenesis; Host defense response; Intestinal porcine epithelial cells; Li Feng and Minghua Yan contributed equally to this work

期刊名称：BMC GENOMICS （ 影响因子：4.547； 五年影响因子：4.931 ）

ISSN： 1471-2164

年卷期： 2022 年 23 卷 1 期

页码：

收录情况： SCI

摘要： Background Noncoding RNAs (ncRNAs), including microRNAs (miRNAs) and long noncoding RNAs (lncRNAs), are pivotal regulators involved in the pathogenic mechanism of multiple coronaviruses. Porcine deltacoronavirus (PDCoV) has evolved multiple strategies to escape the innate immune response of host cells, but whether ncRNAs are involved in this process during PDCoV infection is still unknown. Results In this study, the expression profiles of miRNAs, lncRNAs and mRNAs in IPEC-J2 cells infected with PDCoV at 0, 12 and 24 hours postinfection (hpi) were identified through small RNA and RNA sequencing. The differentially expressed miRNAs (DEmiRNAs), lncRNAs (DElncRNAs) and mRNAs (DEmRNAs) were screened from the comparison group of IPEC-J2 cells at 0 and 12 hpi as well as the comparison group of IPEC-J2 cells at 12 and 24 hpi. The target genes of these DEncRNAs were predicted. The bioinformatics analysis of the target genes revealed multiple significantly enriched functions and pathways. Among them, the genes that were associated with innate immunity were specifically screened. The expression of innate immunity-related ncRNAs and mRNAs was validated by RT-qPCR. Competing endogenous RNA (ceRNA) regulatory networks among innate immunity-related ncRNAs and their target mRNAs were established. Moreover, we found that the replication of PDCoV was significantly inhibited by two innate immunity-related miRNAs, ssc-miR-30c-3p and ssc-miR-374b-3p, in IPEC-J2 cells. Conclusions This study provides a data platform to conduct studies of the pathogenic mechanism of PDCoV from a new perspective and will be helpful for further elucidation of the functional role of ncRNAs involved in PDCoV escaping the innate immune response.

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[1]Identification and integrated analysis of lncRNAs and miRNAs in IPEC-J2 cells provide novel insight into the regulation of the innate immune response by PDCoV infection. Jiang, Shan,Li, Xiuli,Ren, Weike,Li, Cheng,Dong, Zhimin,Tian, Xiangxue,Zhang, Li,Wang, Lili,Lu, Chao,Chi, Jingjing,Yan, Minghua,Jiang, Shan,Li, Xiuli,Ren, Weike,Li, Cheng,Dong, Zhimin,Tian, Xiangxue,Zhang, Li,Wang, Lili,Lu, Chao,Chi, Jingjing,Yan, Minghua,Chen, Jianfei,Feng, Li,Li, Fengxiang,Wang, Ting,Wang, Ting. 2022

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