Comprehensive analysis of lncRNA expression profiles in cytopathic biotype BVDV-infected MDBK cells provides an insight into biological contexts of host–BVDV interactions
Bovine viral diarrhea virus (BVDV) is the causative agent of bovine viral diarrhea-mucosal disease, which significantly affects the production performance of cattle, causing serious economic losses to the cattle industries worldwide. Up to now, some mechanisms involved in host–BVDV interaction are s...
| Main Authors: | , , , , , , , , , |
|---|---|
| Format: | Article |
| Language: | English |
| Published: |
Taylor & Francis Group
2021-12-01
|
| Series: | Virulence |
| Subjects: | |
| Online Access: | http://dx.doi.org/10.1080/21505594.2020.1857572 |
| _version_ | 1828125682177146880 |
|---|---|
| author | Xuwen Gao Chao Niu Zhuo Wang Shuo Jia Meijing Han Yingying Ma Xueting Guan Li Wang Xinyuan Qiao Yigang Xu |
| author_facet | Xuwen Gao Chao Niu Zhuo Wang Shuo Jia Meijing Han Yingying Ma Xueting Guan Li Wang Xinyuan Qiao Yigang Xu |
| author_sort | Xuwen Gao |
| collection | DOAJ |
| description | Bovine viral diarrhea virus (BVDV) is the causative agent of bovine viral diarrhea-mucosal disease, which significantly affects the production performance of cattle, causing serious economic losses to the cattle industries worldwide. Up to now, some mechanisms involved in host–BVDV interaction are still not fully understood. The discovery of long non-coding RNAs (lncRNAs) has provided a new perspective on gene regulation in diverse biological contexts, particularly in viral infection and host immune responses. However, little is known about the profiles and functions of lncRNAs in host cells in response to BVDV infection. Here, we utilized Illumina sequencing to explore lncRNAs profiles in cytopathic (CP) biotype BVDV-infected MDBK cells to further reveal the potential roles of lncRNAs in BVDV infection and host–BVDV interaction with integrated analysis of lncRNAs and mRNA expression profiles. A total of 1747 significantly differentially expressed genes, DEGs (156 lncRNAs and 1591 mRNAs) were obtained via RNA-seq in BVDV-infected MDBK cells compared to mock-infected cells. Next, these DE lncRNAs and mRNAs were subjected to construct lncRNAs-mRNAs co-expression network followed by the prediction of potential functions of the DE lncRNAs. Co-expression network analysis elucidated that DE lncRNAs were significant enrichment in NOD-like receptor, TNF, NF-ĸB, ErbB, Ras, apoptosis, and fatty acid biosynthesis pathways, indicating that DE lncRNAs play important roles in host–BVDV interactions. Our data give an overview of changes in transcriptome and potential roles of lncRNAs, providing molecular biology basis for further exploring the mechanisms of host–BVDV interaction. |
| first_indexed | 2024-04-11T15:24:15Z |
| format | Article |
| id | doaj.art-082fa6bc3b3d48768f530dc82d21642b |
| institution | Directory Open Access Journal |
| issn | 2150-5594 2150-5608 |
| language | English |
| last_indexed | 2024-04-11T15:24:15Z |
| publishDate | 2021-12-01 |
| publisher | Taylor & Francis Group |
| record_format | Article |
| series | Virulence |
| spelling | doaj.art-082fa6bc3b3d48768f530dc82d21642b2022-12-22T04:16:18ZengTaylor & Francis GroupVirulence2150-55942150-56082021-12-01121203410.1080/21505594.2020.18575721857572Comprehensive analysis of lncRNA expression profiles in cytopathic biotype BVDV-infected MDBK cells provides an insight into biological contexts of host–BVDV interactionsXuwen Gao0Chao Niu1Zhuo Wang2Shuo Jia3Meijing Han4Yingying Ma5Xueting Guan6Li Wang7Xinyuan Qiao8Yigang Xu9Northeast Agricultural UniversityNortheast Agricultural UniversityNortheast Agricultural UniversityNortheast Agricultural UniversityNortheast Agricultural UniversityNortheast Agricultural UniversityNortheast Agricultural UniversityNortheast Agricultural UniversityNortheast Agricultural UniversityNortheast Agricultural UniversityBovine viral diarrhea virus (BVDV) is the causative agent of bovine viral diarrhea-mucosal disease, which significantly affects the production performance of cattle, causing serious economic losses to the cattle industries worldwide. Up to now, some mechanisms involved in host–BVDV interaction are still not fully understood. The discovery of long non-coding RNAs (lncRNAs) has provided a new perspective on gene regulation in diverse biological contexts, particularly in viral infection and host immune responses. However, little is known about the profiles and functions of lncRNAs in host cells in response to BVDV infection. Here, we utilized Illumina sequencing to explore lncRNAs profiles in cytopathic (CP) biotype BVDV-infected MDBK cells to further reveal the potential roles of lncRNAs in BVDV infection and host–BVDV interaction with integrated analysis of lncRNAs and mRNA expression profiles. A total of 1747 significantly differentially expressed genes, DEGs (156 lncRNAs and 1591 mRNAs) were obtained via RNA-seq in BVDV-infected MDBK cells compared to mock-infected cells. Next, these DE lncRNAs and mRNAs were subjected to construct lncRNAs-mRNAs co-expression network followed by the prediction of potential functions of the DE lncRNAs. Co-expression network analysis elucidated that DE lncRNAs were significant enrichment in NOD-like receptor, TNF, NF-ĸB, ErbB, Ras, apoptosis, and fatty acid biosynthesis pathways, indicating that DE lncRNAs play important roles in host–BVDV interactions. Our data give an overview of changes in transcriptome and potential roles of lncRNAs, providing molecular biology basis for further exploring the mechanisms of host–BVDV interaction.http://dx.doi.org/10.1080/21505594.2020.1857572cp biotype bvdvlong non-coding rnas (lncrnas)co-expression networksfunctional enrichmentsignaling pathway |
| spellingShingle | Xuwen Gao Chao Niu Zhuo Wang Shuo Jia Meijing Han Yingying Ma Xueting Guan Li Wang Xinyuan Qiao Yigang Xu Comprehensive analysis of lncRNA expression profiles in cytopathic biotype BVDV-infected MDBK cells provides an insight into biological contexts of host–BVDV interactions Virulence cp biotype bvdv long non-coding rnas (lncrnas) co-expression networks functional enrichment signaling pathway |
| title | Comprehensive analysis of lncRNA expression profiles in cytopathic biotype BVDV-infected MDBK cells provides an insight into biological contexts of host–BVDV interactions |
| title_full | Comprehensive analysis of lncRNA expression profiles in cytopathic biotype BVDV-infected MDBK cells provides an insight into biological contexts of host–BVDV interactions |
| title_fullStr | Comprehensive analysis of lncRNA expression profiles in cytopathic biotype BVDV-infected MDBK cells provides an insight into biological contexts of host–BVDV interactions |
| title_full_unstemmed | Comprehensive analysis of lncRNA expression profiles in cytopathic biotype BVDV-infected MDBK cells provides an insight into biological contexts of host–BVDV interactions |
| title_short | Comprehensive analysis of lncRNA expression profiles in cytopathic biotype BVDV-infected MDBK cells provides an insight into biological contexts of host–BVDV interactions |
| title_sort | comprehensive analysis of lncrna expression profiles in cytopathic biotype bvdv infected mdbk cells provides an insight into biological contexts of host bvdv interactions |
| topic | cp biotype bvdv long non-coding rnas (lncrnas) co-expression networks functional enrichment signaling pathway |
| url | http://dx.doi.org/10.1080/21505594.2020.1857572 |
| work_keys_str_mv | AT xuwengao comprehensiveanalysisoflncrnaexpressionprofilesincytopathicbiotypebvdvinfectedmdbkcellsprovidesaninsightintobiologicalcontextsofhostbvdvinteractions AT chaoniu comprehensiveanalysisoflncrnaexpressionprofilesincytopathicbiotypebvdvinfectedmdbkcellsprovidesaninsightintobiologicalcontextsofhostbvdvinteractions AT zhuowang comprehensiveanalysisoflncrnaexpressionprofilesincytopathicbiotypebvdvinfectedmdbkcellsprovidesaninsightintobiologicalcontextsofhostbvdvinteractions AT shuojia comprehensiveanalysisoflncrnaexpressionprofilesincytopathicbiotypebvdvinfectedmdbkcellsprovidesaninsightintobiologicalcontextsofhostbvdvinteractions AT meijinghan comprehensiveanalysisoflncrnaexpressionprofilesincytopathicbiotypebvdvinfectedmdbkcellsprovidesaninsightintobiologicalcontextsofhostbvdvinteractions AT yingyingma comprehensiveanalysisoflncrnaexpressionprofilesincytopathicbiotypebvdvinfectedmdbkcellsprovidesaninsightintobiologicalcontextsofhostbvdvinteractions AT xuetingguan comprehensiveanalysisoflncrnaexpressionprofilesincytopathicbiotypebvdvinfectedmdbkcellsprovidesaninsightintobiologicalcontextsofhostbvdvinteractions AT liwang comprehensiveanalysisoflncrnaexpressionprofilesincytopathicbiotypebvdvinfectedmdbkcellsprovidesaninsightintobiologicalcontextsofhostbvdvinteractions AT xinyuanqiao comprehensiveanalysisoflncrnaexpressionprofilesincytopathicbiotypebvdvinfectedmdbkcellsprovidesaninsightintobiologicalcontextsofhostbvdvinteractions AT yigangxu comprehensiveanalysisoflncrnaexpressionprofilesincytopathicbiotypebvdvinfectedmdbkcellsprovidesaninsightintobiologicalcontextsofhostbvdvinteractions |