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Genome-wide analysis of circular RNAs in goat skin fibroblast cells in response to Orf virus infection

Orf, caused by Orf virus (ORFV), is a globally distributed zoonotic disease responsible for serious economic losses in the agricultural sector. However, the mechanism underlying ORFV infection remains largely unknown. Circular RNAs (circRNAs), a novel type of endogenous non-coding RNAs, play importa...

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Autores principales: Pang, Feng, Zhang, Mengmeng, Yang, Xiaojian, Li, Guohua, Zhu, Shu, Nie, Xin, Cao, Ruiyong, Yang, Xiaohong, Zhang, Zhenxing, Huang, Haifeng, Li, Baobao, Wang, Chengqiang, Du, Li, Wang, Fengyang
Formato: Online Artículo Texto
Lenguaje:English
Publicado: PeerJ Inc. 2019
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6346991/
https://www.ncbi.nlm.nih.gov/pubmed/30697481
http://dx.doi.org/10.7717/peerj.6267
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author Pang, Feng
Zhang, Mengmeng
Yang, Xiaojian
Li, Guohua
Zhu, Shu
Nie, Xin
Cao, Ruiyong
Yang, Xiaohong
Zhang, Zhenxing
Huang, Haifeng
Li, Baobao
Wang, Chengqiang
Du, Li
Wang, Fengyang
author_facet Pang, Feng
Zhang, Mengmeng
Yang, Xiaojian
Li, Guohua
Zhu, Shu
Nie, Xin
Cao, Ruiyong
Yang, Xiaohong
Zhang, Zhenxing
Huang, Haifeng
Li, Baobao
Wang, Chengqiang
Du, Li
Wang, Fengyang
author_sort Pang, Feng
collection PubMed
description Orf, caused by Orf virus (ORFV), is a globally distributed zoonotic disease responsible for serious economic losses in the agricultural sector. However, the mechanism underlying ORFV infection remains largely unknown. Circular RNAs (circRNAs), a novel type of endogenous non-coding RNAs, play important roles in various pathological processes but their involvement in ORFV infection and host response is unclear. In the current study, whole transcriptome sequencing and small RNA sequencing were performed in ORFV-infected goat skin fibroblast cells and uninfected cells. A total of 151 circRNAs, 341 messenger RNAs (mRNAs), and 56 microRNAs (miRNAs) were differently expressed following ORFV infection. Four circRNAs: circRNA1001, circRNA1684, circRNA3127 and circRNA7880 were validated by qRT-PCR and Sanger sequencing. Gene ontology (GO) analysis indicated that host genes of differently expressed circRNAs were significantly enriched in regulation of inflammatory response, epithelial structure maintenance, positive regulation of cell migration, positive regulation of ubiquitin-protein transferase activity, regulation of ion transmembrane transport, etc. The constructed circRNA-miRNA-mRNA network suggested that circRNAs may function as miRNA sponges indirectly regulating gene expression following ORFV infection. Our study presented the first comprehensive profiles of circRNAs in response to ORFV infection, thus providing new clues for the mechanisms of interactions between ORFV and the host.
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spelling pubmed-63469912019-01-29 Genome-wide analysis of circular RNAs in goat skin fibroblast cells in response to Orf virus infection Pang, Feng Zhang, Mengmeng Yang, Xiaojian Li, Guohua Zhu, Shu Nie, Xin Cao, Ruiyong Yang, Xiaohong Zhang, Zhenxing Huang, Haifeng Li, Baobao Wang, Chengqiang Du, Li Wang, Fengyang PeerJ Bioinformatics Orf, caused by Orf virus (ORFV), is a globally distributed zoonotic disease responsible for serious economic losses in the agricultural sector. However, the mechanism underlying ORFV infection remains largely unknown. Circular RNAs (circRNAs), a novel type of endogenous non-coding RNAs, play important roles in various pathological processes but their involvement in ORFV infection and host response is unclear. In the current study, whole transcriptome sequencing and small RNA sequencing were performed in ORFV-infected goat skin fibroblast cells and uninfected cells. A total of 151 circRNAs, 341 messenger RNAs (mRNAs), and 56 microRNAs (miRNAs) were differently expressed following ORFV infection. Four circRNAs: circRNA1001, circRNA1684, circRNA3127 and circRNA7880 were validated by qRT-PCR and Sanger sequencing. Gene ontology (GO) analysis indicated that host genes of differently expressed circRNAs were significantly enriched in regulation of inflammatory response, epithelial structure maintenance, positive regulation of cell migration, positive regulation of ubiquitin-protein transferase activity, regulation of ion transmembrane transport, etc. The constructed circRNA-miRNA-mRNA network suggested that circRNAs may function as miRNA sponges indirectly regulating gene expression following ORFV infection. Our study presented the first comprehensive profiles of circRNAs in response to ORFV infection, thus providing new clues for the mechanisms of interactions between ORFV and the host. PeerJ Inc. 2019-01-22 /pmc/articles/PMC6346991/ /pubmed/30697481 http://dx.doi.org/10.7717/peerj.6267 Text en ©2019 Pang et al. http://creativecommons.org/licenses/by/4.0/ This is an open access article distributed under the terms of the Creative Commons Attribution License (http://creativecommons.org/licenses/by/4.0/) , which permits unrestricted use, distribution, reproduction and adaptation in any medium and for any purpose provided that it is properly attributed. For attribution, the original author(s), title, publication source (PeerJ) and either DOI or URL of the article must be cited.
spellingShingle Bioinformatics
Pang, Feng
Zhang, Mengmeng
Yang, Xiaojian
Li, Guohua
Zhu, Shu
Nie, Xin
Cao, Ruiyong
Yang, Xiaohong
Zhang, Zhenxing
Huang, Haifeng
Li, Baobao
Wang, Chengqiang
Du, Li
Wang, Fengyang
Genome-wide analysis of circular RNAs in goat skin fibroblast cells in response to Orf virus infection
title Genome-wide analysis of circular RNAs in goat skin fibroblast cells in response to Orf virus infection
title_full Genome-wide analysis of circular RNAs in goat skin fibroblast cells in response to Orf virus infection
title_fullStr Genome-wide analysis of circular RNAs in goat skin fibroblast cells in response to Orf virus infection
title_full_unstemmed Genome-wide analysis of circular RNAs in goat skin fibroblast cells in response to Orf virus infection
title_short Genome-wide analysis of circular RNAs in goat skin fibroblast cells in response to Orf virus infection
title_sort genome-wide analysis of circular rnas in goat skin fibroblast cells in response to orf virus infection
topic Bioinformatics
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6346991/
https://www.ncbi.nlm.nih.gov/pubmed/30697481
http://dx.doi.org/10.7717/peerj.6267
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