Discovery of long non-coding RNAs in naïve CD4+ T cells in response to initiating antiretroviral therapy at acute or chronic phase of HIV-1 infection
Long non-coding RNAs (lncRNAs) have gained prominence due to their involvement in various cellular processes, but their specific roles remain elusive. Dysregulation of lncRNAs has been implicated in the pathogenesis of several diseases. In this study, we aimed to shed light on the role of lncRNAs in...
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| Format: | Article |
| Language: | English |
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Frontiers Media S.A.
2024-04-01
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| Series: | Acta Virologica |
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| Online Access: | https://www.frontierspartnerships.org/articles/10.3389/av.2024.11572/full |
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| author | Niloofar Farsiu Abozar Ghorbani Thomas P. Karbanowicz Negar Mottaghi-Dastjerdi Pierangelo Veltri Pietro Hiram Guzzi |
| author_facet | Niloofar Farsiu Abozar Ghorbani Thomas P. Karbanowicz Negar Mottaghi-Dastjerdi Pierangelo Veltri Pietro Hiram Guzzi |
| author_sort | Niloofar Farsiu |
| collection | DOAJ |
| description | Long non-coding RNAs (lncRNAs) have gained prominence due to their involvement in various cellular processes, but their specific roles remain elusive. Dysregulation of lncRNAs has been implicated in the pathogenesis of several diseases. In this study, we aimed to shed light on the role of lncRNAs in individuals infected with human immunodeficiency virus type 1 (HIV-1) by examining their changes in the expression patterns related to the initiation of antiretroviral therapy (ART) during acute or chronic phases of infection, compared to healthy controls. We found 316 differentially expressed (DE) lncRNAs in patients receiving long-term ART, shedding light on their potential roles. We also observed interactions between these DE lncRNAs and specific microRNAs (miRNAs). Some of these miRNAs, such as hsa-miR-574-5p, hsa-miR-765, hsa-miR-6165, hsa-miR-1207-5p, and hsa-miR-378i, are associated with cancer progression or suppression, while others, including hsa-miR-328-5p, hsa-miR-4753-3p, and MiR-664, play roles in immune system regulation. Furthermore, our study revealed substantial enrichment in distinct Kyoto Encyclopedia of Genes and Genomes (KEGG) pathways, such as axon guidance, PI3K-Akt signaling, and MAPK signaling pathways. Although our results indicate possible molecular processes impacted by the discovered lncRNAs, we cannot explicitly establish causality or specific connections between lncRNAs and genes in these pathways, fostering more specific studies. Furthermore, Gene Ontology (GO) analysis highlighted terms such as cytoskeletal protein binding, ion channel function, synaptic processes, neuron projection, and the somatodendritic compartment, underscoring the relevance of lncRNAs in these cellular components within the context of HIV-1 infection and ART treatment. In conclusion, our study emphasizes the need for further exploration of lncRNAs as potential biomarkers and therapeutic targets in HIV-1-infected patients, with a particular focus on CD4+ T cells. Understanding the functions of lncRNAs in these contexts may pave the way for novel treatment strategies and improved patient outcomes, aligning with the broader goals of our research. |
| first_indexed | 2024-04-24T11:05:59Z |
| format | Article |
| id | doaj.art-13c215bbeb644bf3b0fd879c2cf94a9a |
| institution | Directory Open Access Journal |
| issn | 1336-2305 |
| language | English |
| last_indexed | 2024-04-24T11:05:59Z |
| publishDate | 2024-04-01 |
| publisher | Frontiers Media S.A. |
| record_format | Article |
| series | Acta Virologica |
| spelling | doaj.art-13c215bbeb644bf3b0fd879c2cf94a9a2024-04-11T16:04:54ZengFrontiers Media S.A.Acta Virologica1336-23052024-04-016810.3389/av.2024.1157211572Discovery of long non-coding RNAs in naïve CD4+ T cells in response to initiating antiretroviral therapy at acute or chronic phase of HIV-1 infectionNiloofar Farsiu0Abozar Ghorbani1Thomas P. Karbanowicz2Negar Mottaghi-Dastjerdi3Pierangelo Veltri4Pietro Hiram Guzzi5Department of Microbiology and Virology, Kerman University of Medical Sciences, Kerman, IranNuclear Agriculture Research School, Nuclear Science and Technology Research Institute (NSTRI), Karaj, IranAustralian Red Cross Lifeblood, West Melbourne, VIC, AustraliaDepartment of Pharmacognosy and Pharmaceutical Biotechnology, School of Pharmacy, Iran University of Medical Sciences, Tehran, IranDepartment of Computer Science, Modeling, Electronics and Systems Engineering (DIMES), University of Calabria, Rende, Province of Cosenza, ItalyDepartment of Surgical and Medical Sciences, Magna Graecia University of Catanzaro, Catanzaro, ItalyLong non-coding RNAs (lncRNAs) have gained prominence due to their involvement in various cellular processes, but their specific roles remain elusive. Dysregulation of lncRNAs has been implicated in the pathogenesis of several diseases. In this study, we aimed to shed light on the role of lncRNAs in individuals infected with human immunodeficiency virus type 1 (HIV-1) by examining their changes in the expression patterns related to the initiation of antiretroviral therapy (ART) during acute or chronic phases of infection, compared to healthy controls. We found 316 differentially expressed (DE) lncRNAs in patients receiving long-term ART, shedding light on their potential roles. We also observed interactions between these DE lncRNAs and specific microRNAs (miRNAs). Some of these miRNAs, such as hsa-miR-574-5p, hsa-miR-765, hsa-miR-6165, hsa-miR-1207-5p, and hsa-miR-378i, are associated with cancer progression or suppression, while others, including hsa-miR-328-5p, hsa-miR-4753-3p, and MiR-664, play roles in immune system regulation. Furthermore, our study revealed substantial enrichment in distinct Kyoto Encyclopedia of Genes and Genomes (KEGG) pathways, such as axon guidance, PI3K-Akt signaling, and MAPK signaling pathways. Although our results indicate possible molecular processes impacted by the discovered lncRNAs, we cannot explicitly establish causality or specific connections between lncRNAs and genes in these pathways, fostering more specific studies. Furthermore, Gene Ontology (GO) analysis highlighted terms such as cytoskeletal protein binding, ion channel function, synaptic processes, neuron projection, and the somatodendritic compartment, underscoring the relevance of lncRNAs in these cellular components within the context of HIV-1 infection and ART treatment. In conclusion, our study emphasizes the need for further exploration of lncRNAs as potential biomarkers and therapeutic targets in HIV-1-infected patients, with a particular focus on CD4+ T cells. Understanding the functions of lncRNAs in these contexts may pave the way for novel treatment strategies and improved patient outcomes, aligning with the broader goals of our research.https://www.frontierspartnerships.org/articles/10.3389/av.2024.11572/fullantiretroviral therapyHIV-1long non-coding RNARNA-seqT-Lymphocytes |
| spellingShingle | Niloofar Farsiu Abozar Ghorbani Thomas P. Karbanowicz Negar Mottaghi-Dastjerdi Pierangelo Veltri Pietro Hiram Guzzi Discovery of long non-coding RNAs in naïve CD4+ T cells in response to initiating antiretroviral therapy at acute or chronic phase of HIV-1 infection Acta Virologica antiretroviral therapy HIV-1 long non-coding RNA RNA-seq T-Lymphocytes |
| title | Discovery of long non-coding RNAs in naïve CD4+ T cells in response to initiating antiretroviral therapy at acute or chronic phase of HIV-1 infection |
| title_full | Discovery of long non-coding RNAs in naïve CD4+ T cells in response to initiating antiretroviral therapy at acute or chronic phase of HIV-1 infection |
| title_fullStr | Discovery of long non-coding RNAs in naïve CD4+ T cells in response to initiating antiretroviral therapy at acute or chronic phase of HIV-1 infection |
| title_full_unstemmed | Discovery of long non-coding RNAs in naïve CD4+ T cells in response to initiating antiretroviral therapy at acute or chronic phase of HIV-1 infection |
| title_short | Discovery of long non-coding RNAs in naïve CD4+ T cells in response to initiating antiretroviral therapy at acute or chronic phase of HIV-1 infection |
| title_sort | discovery of long non coding rnas in naive cd4 t cells in response to initiating antiretroviral therapy at acute or chronic phase of hiv 1 infection |
| topic | antiretroviral therapy HIV-1 long non-coding RNA RNA-seq T-Lymphocytes |
| url | https://www.frontierspartnerships.org/articles/10.3389/av.2024.11572/full |
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