Cargando…

Identifying Circular RNAs in HepG2 Expressing Genotype IV Swine Hepatitis E Virus ORF3 Via Whole Genome Sequencing

Swine hepatitis E (SHE) is a new type of zoonotic infectious disease caused by swine hepatitis E virus (SHEV). Open reading frame 3 (ORF3) is a key regulatory and virulent protein of SHEV. Circular RNAs (circRNAs) are a special kind of non-coding RNA molecule, which has a closed ring structure. In t...

Descripción completa

Detalles Bibliográficos
Autores principales: Jiao, Hanwei, Zhao, Yu, Zhou, Zhixiong, Li, Wenjie, Li, Bowen, Gu, Guojing, Luo, Yichen, Shuai, Xuehong, Fan, Cailiang, Wu, Li, Chen, Jixuan, Huang, Qingzhou, Wang, Fengyang, Liu, Juan
Formato: Online Artículo Texto
Lenguaje:English
Publicado: SAGE Publications 2021
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8552397/
https://www.ncbi.nlm.nih.gov/pubmed/34699255
http://dx.doi.org/10.1177/09636897211055042
_version_ 1784591368195145728
author Jiao, Hanwei
Zhao, Yu
Zhou, Zhixiong
Li, Wenjie
Li, Bowen
Gu, Guojing
Luo, Yichen
Shuai, Xuehong
Fan, Cailiang
Wu, Li
Chen, Jixuan
Huang, Qingzhou
Wang, Fengyang
Liu, Juan
author_facet Jiao, Hanwei
Zhao, Yu
Zhou, Zhixiong
Li, Wenjie
Li, Bowen
Gu, Guojing
Luo, Yichen
Shuai, Xuehong
Fan, Cailiang
Wu, Li
Chen, Jixuan
Huang, Qingzhou
Wang, Fengyang
Liu, Juan
author_sort Jiao, Hanwei
collection PubMed
description Swine hepatitis E (SHE) is a new type of zoonotic infectious disease caused by swine hepatitis E virus (SHEV). Open reading frame 3 (ORF3) is a key regulatory and virulent protein of SHEV. Circular RNAs (circRNAs) are a special kind of non-coding RNA molecule, which has a closed ring structure. In this study, to identify the circRNA profile in host cells affected by SHEV ORF3, adenovirus ADV4-ORF3 mediated the overexpression of ORF3 in HepG2 cells, whole genome sequencing was used to investigate the differentially expressed circRNAs, GO and KEGG were performed to enrichment analyze of differentially expressed circRNA-hosting gene, and Targetscan and miRanda softwares were used to analyze the interaction between circRNA and miRNA. The results showed adenovirus successfully mediated the overexpression of ORF3 in HepG2 cells, 1,105 up-regulation circRNAs and 1,556 down-regulation circRNAs were identified in ADV4-ORF3 infection group compared with the control. GO function enrichment analysis of differentially expressed circRNAs-hosting genes classified three main categories (cellular component, biological process and molecular function). KEGG pathway enrichment analysis scatter plot showed the pathway term of top20. The circRNAs with top10 number of BS sites for qRT-PCR validation were selected to confirmed, the results indicated that the up-regulated hsa_circ_0001423 and hsa_circ_0006404, and down-regulated of hsa_circ_0004833 and hsa_circ_0007444 were consistent with the sequencing data. Our findings first preliminarily found that ORF3 protein may affect triglyceride activation (GO:0006642) and riboflavin metabolism (ko00740) in HepG2 cells, which provides a scientific basis for further elucidating the effect of ORF3 on host lipid metabolism and the mechanism of SHEV infection.
format Online
Article
Text
id pubmed-8552397
institution National Center for Biotechnology Information
language English
publishDate 2021
publisher SAGE Publications
record_format MEDLINE/PubMed
spelling pubmed-85523972021-10-29 Identifying Circular RNAs in HepG2 Expressing Genotype IV Swine Hepatitis E Virus ORF3 Via Whole Genome Sequencing Jiao, Hanwei Zhao, Yu Zhou, Zhixiong Li, Wenjie Li, Bowen Gu, Guojing Luo, Yichen Shuai, Xuehong Fan, Cailiang Wu, Li Chen, Jixuan Huang, Qingzhou Wang, Fengyang Liu, Juan Cell Transplant Original Article Swine hepatitis E (SHE) is a new type of zoonotic infectious disease caused by swine hepatitis E virus (SHEV). Open reading frame 3 (ORF3) is a key regulatory and virulent protein of SHEV. Circular RNAs (circRNAs) are a special kind of non-coding RNA molecule, which has a closed ring structure. In this study, to identify the circRNA profile in host cells affected by SHEV ORF3, adenovirus ADV4-ORF3 mediated the overexpression of ORF3 in HepG2 cells, whole genome sequencing was used to investigate the differentially expressed circRNAs, GO and KEGG were performed to enrichment analyze of differentially expressed circRNA-hosting gene, and Targetscan and miRanda softwares were used to analyze the interaction between circRNA and miRNA. The results showed adenovirus successfully mediated the overexpression of ORF3 in HepG2 cells, 1,105 up-regulation circRNAs and 1,556 down-regulation circRNAs were identified in ADV4-ORF3 infection group compared with the control. GO function enrichment analysis of differentially expressed circRNAs-hosting genes classified three main categories (cellular component, biological process and molecular function). KEGG pathway enrichment analysis scatter plot showed the pathway term of top20. The circRNAs with top10 number of BS sites for qRT-PCR validation were selected to confirmed, the results indicated that the up-regulated hsa_circ_0001423 and hsa_circ_0006404, and down-regulated of hsa_circ_0004833 and hsa_circ_0007444 were consistent with the sequencing data. Our findings first preliminarily found that ORF3 protein may affect triglyceride activation (GO:0006642) and riboflavin metabolism (ko00740) in HepG2 cells, which provides a scientific basis for further elucidating the effect of ORF3 on host lipid metabolism and the mechanism of SHEV infection. SAGE Publications 2021-10-26 /pmc/articles/PMC8552397/ /pubmed/34699255 http://dx.doi.org/10.1177/09636897211055042 Text en © The Author(s) 2021 https://creativecommons.org/licenses/by-nc/4.0/This article is distributed under the terms of the Creative Commons Attribution-NonCommercial 4.0 License (https://creativecommons.org/licenses/by-nc/4.0/) which permits non-commercial use, reproduction and distribution of the work without further permission provided the original work is attributed as specified on the SAGE and Open Access pages (https://us.sagepub.com/en-us/nam/open-access-at-sage).
spellingShingle Original Article
Jiao, Hanwei
Zhao, Yu
Zhou, Zhixiong
Li, Wenjie
Li, Bowen
Gu, Guojing
Luo, Yichen
Shuai, Xuehong
Fan, Cailiang
Wu, Li
Chen, Jixuan
Huang, Qingzhou
Wang, Fengyang
Liu, Juan
Identifying Circular RNAs in HepG2 Expressing Genotype IV Swine Hepatitis E Virus ORF3 Via Whole Genome Sequencing
title Identifying Circular RNAs in HepG2 Expressing Genotype IV Swine Hepatitis E Virus ORF3 Via Whole Genome Sequencing
title_full Identifying Circular RNAs in HepG2 Expressing Genotype IV Swine Hepatitis E Virus ORF3 Via Whole Genome Sequencing
title_fullStr Identifying Circular RNAs in HepG2 Expressing Genotype IV Swine Hepatitis E Virus ORF3 Via Whole Genome Sequencing
title_full_unstemmed Identifying Circular RNAs in HepG2 Expressing Genotype IV Swine Hepatitis E Virus ORF3 Via Whole Genome Sequencing
title_short Identifying Circular RNAs in HepG2 Expressing Genotype IV Swine Hepatitis E Virus ORF3 Via Whole Genome Sequencing
title_sort identifying circular rnas in hepg2 expressing genotype iv swine hepatitis e virus orf3 via whole genome sequencing
topic Original Article
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8552397/
https://www.ncbi.nlm.nih.gov/pubmed/34699255
http://dx.doi.org/10.1177/09636897211055042
work_keys_str_mv AT jiaohanwei identifyingcircularrnasinhepg2expressinggenotypeivswinehepatitisevirusorf3viawholegenomesequencing
AT zhaoyu identifyingcircularrnasinhepg2expressinggenotypeivswinehepatitisevirusorf3viawholegenomesequencing
AT zhouzhixiong identifyingcircularrnasinhepg2expressinggenotypeivswinehepatitisevirusorf3viawholegenomesequencing
AT liwenjie identifyingcircularrnasinhepg2expressinggenotypeivswinehepatitisevirusorf3viawholegenomesequencing
AT libowen identifyingcircularrnasinhepg2expressinggenotypeivswinehepatitisevirusorf3viawholegenomesequencing
AT guguojing identifyingcircularrnasinhepg2expressinggenotypeivswinehepatitisevirusorf3viawholegenomesequencing
AT luoyichen identifyingcircularrnasinhepg2expressinggenotypeivswinehepatitisevirusorf3viawholegenomesequencing
AT shuaixuehong identifyingcircularrnasinhepg2expressinggenotypeivswinehepatitisevirusorf3viawholegenomesequencing
AT fancailiang identifyingcircularrnasinhepg2expressinggenotypeivswinehepatitisevirusorf3viawholegenomesequencing
AT wuli identifyingcircularrnasinhepg2expressinggenotypeivswinehepatitisevirusorf3viawholegenomesequencing
AT chenjixuan identifyingcircularrnasinhepg2expressinggenotypeivswinehepatitisevirusorf3viawholegenomesequencing
AT huangqingzhou identifyingcircularrnasinhepg2expressinggenotypeivswinehepatitisevirusorf3viawholegenomesequencing
AT wangfengyang identifyingcircularrnasinhepg2expressinggenotypeivswinehepatitisevirusorf3viawholegenomesequencing
AT liujuan identifyingcircularrnasinhepg2expressinggenotypeivswinehepatitisevirusorf3viawholegenomesequencing