Transcriptomic study reveals changes of lncRNAs in PBMCs from HIV-1 patients before and after ART
Abstract Long noncoding RNAs (lncRNAs) play important roles in regulating HIV-1 infection and virus-host interactions. However, it is unclear whether and how ART alters lncRNAs in HIV-infected patients. In the present study, we investigated changes of lncRNAs in PBMCs from HIV-1 patients pre- and po...
| Main Authors: | , , , , , , , |
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| Format: | Article |
| Language: | English |
| Published: |
Nature Portfolio
2023-12-01
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| Series: | Scientific Reports |
| Online Access: | https://doi.org/10.1038/s41598-023-49595-z |
| _version_ | 1797377015572070400 |
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| author | Yingying Zhou Yuqing Huang Xiaoping Chen Tielong Chen Wenjia Hu Wei Hou Qi Zhang Yong Xiong |
| author_facet | Yingying Zhou Yuqing Huang Xiaoping Chen Tielong Chen Wenjia Hu Wei Hou Qi Zhang Yong Xiong |
| author_sort | Yingying Zhou |
| collection | DOAJ |
| description | Abstract Long noncoding RNAs (lncRNAs) play important roles in regulating HIV-1 infection and virus-host interactions. However, it is unclear whether and how ART alters lncRNAs in HIV-infected patients. In the present study, we investigated changes of lncRNAs in PBMCs from HIV-1 patients pre- and post-ART. We identified a total of 974 lncRNAs whose expression was restored to normal levels after ART. Cis-acting analysis showed that six lncRNAs have cis-regulated target genes, among which RP11-290F5.1 and interferon regulatory factor 2 (IRF2) were reported to promote HIV replication. Furthermore, we found that lncRNA CTB-119C2.1, which regulates most mRNAs with differential expression in PBMCs from HIV-1 infected patients after ART, was significantly upregulated by RNA-seq and qRT-PCR assays. KEGG analysis of CTB-119C2.1-associated genes revealed that most of the genes are involved in the p53 signaling pathway and pathways related to cell cycle and DNA replication. Our findings thus reveal the dynamic change of lncRNAs in people living with HIV-1 pre- and post-ART and warrant further investigation of the role of lncRNAs in HIV-1 pathogenesis and treatment. |
| first_indexed | 2024-03-08T19:47:53Z |
| format | Article |
| id | doaj.art-f6e648adf3f8475dace59e7c6e43bee7 |
| institution | Directory Open Access Journal |
| issn | 2045-2322 |
| language | English |
| last_indexed | 2024-03-08T19:47:53Z |
| publishDate | 2023-12-01 |
| publisher | Nature Portfolio |
| record_format | Article |
| series | Scientific Reports |
| spelling | doaj.art-f6e648adf3f8475dace59e7c6e43bee72023-12-24T12:17:34ZengNature PortfolioScientific Reports2045-23222023-12-0113111210.1038/s41598-023-49595-zTranscriptomic study reveals changes of lncRNAs in PBMCs from HIV-1 patients before and after ARTYingying Zhou0Yuqing Huang1Xiaoping Chen2Tielong Chen3Wenjia Hu4Wei Hou5Qi Zhang6Yong Xiong7Department of Infectious Diseases, Zhongnan Hospital of Wuhan UniversityState Key Laboratory of Virology, Modern Virology Research Center, College of Life Sciences, Wuhan UniversityDepartment of Infectious Diseases, Zhongnan Hospital of Wuhan UniversityDepartment of Infectious Diseases, Zhongnan Hospital of Wuhan UniversityDepartment of Infectious Diseases, Zhongnan Hospital of Wuhan UniversityState Key Laboratory of Virology/Institute of Medical Virology/Hubei Province Key Laboratory of Allergy and Immunology, School of Basic Medical Sciences, Wuhan UniversityState Key Laboratory of Virology, Modern Virology Research Center, College of Life Sciences, Wuhan UniversityDepartment of Infectious Diseases, Zhongnan Hospital of Wuhan UniversityAbstract Long noncoding RNAs (lncRNAs) play important roles in regulating HIV-1 infection and virus-host interactions. However, it is unclear whether and how ART alters lncRNAs in HIV-infected patients. In the present study, we investigated changes of lncRNAs in PBMCs from HIV-1 patients pre- and post-ART. We identified a total of 974 lncRNAs whose expression was restored to normal levels after ART. Cis-acting analysis showed that six lncRNAs have cis-regulated target genes, among which RP11-290F5.1 and interferon regulatory factor 2 (IRF2) were reported to promote HIV replication. Furthermore, we found that lncRNA CTB-119C2.1, which regulates most mRNAs with differential expression in PBMCs from HIV-1 infected patients after ART, was significantly upregulated by RNA-seq and qRT-PCR assays. KEGG analysis of CTB-119C2.1-associated genes revealed that most of the genes are involved in the p53 signaling pathway and pathways related to cell cycle and DNA replication. Our findings thus reveal the dynamic change of lncRNAs in people living with HIV-1 pre- and post-ART and warrant further investigation of the role of lncRNAs in HIV-1 pathogenesis and treatment.https://doi.org/10.1038/s41598-023-49595-z |
| spellingShingle | Yingying Zhou Yuqing Huang Xiaoping Chen Tielong Chen Wenjia Hu Wei Hou Qi Zhang Yong Xiong Transcriptomic study reveals changes of lncRNAs in PBMCs from HIV-1 patients before and after ART Scientific Reports |
| title | Transcriptomic study reveals changes of lncRNAs in PBMCs from HIV-1 patients before and after ART |
| title_full | Transcriptomic study reveals changes of lncRNAs in PBMCs from HIV-1 patients before and after ART |
| title_fullStr | Transcriptomic study reveals changes of lncRNAs in PBMCs from HIV-1 patients before and after ART |
| title_full_unstemmed | Transcriptomic study reveals changes of lncRNAs in PBMCs from HIV-1 patients before and after ART |
| title_short | Transcriptomic study reveals changes of lncRNAs in PBMCs from HIV-1 patients before and after ART |
| title_sort | transcriptomic study reveals changes of lncrnas in pbmcs from hiv 1 patients before and after art |
| url | https://doi.org/10.1038/s41598-023-49595-z |
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