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Latency-associated DNA methylation patterns among HIV-1 infected individuals with distinct disease progression courses or antiretroviral virologic response

DNA methylation is one of the epigenetic modifications that configures gene transcription programs. This study describes the DNA methylation profile of HIV-infected individuals with distinct characteristics related to natural and artificial viremia control. Sheared DNA from circulating mononuclear c...

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Autores principales: Mantovani, Nathalia, Defelicibus, Alexandre, da Silva, Israel Tojal, Cicero, Maira Ferreira, Santana, Luiz Claudio, Arnold, Rafael, de Castro, Daniela Funayama, Duro, Rodrigo Lopes Sanz, Nishiyama-Jr, Milton Yutaka, Junqueira-de-Azevedo, Inácio Loiola Meirelles, da Silva, Bosco Christiano Maciel, da Silva Duarte, Alberto José, Casseb, Jorge, de Barros Tenore, Simone, Hunter, James, Diaz, Ricardo Sobhie, Komninakis, Shirley Cavalcante Vasconcelos
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Nature Publishing Group UK 2021
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8626465/
https://www.ncbi.nlm.nih.gov/pubmed/34837007
http://dx.doi.org/10.1038/s41598-021-02463-0
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author Mantovani, Nathalia
Defelicibus, Alexandre
da Silva, Israel Tojal
Cicero, Maira Ferreira
Santana, Luiz Claudio
Arnold, Rafael
de Castro, Daniela Funayama
Duro, Rodrigo Lopes Sanz
Nishiyama-Jr, Milton Yutaka
Junqueira-de-Azevedo, Inácio Loiola Meirelles
da Silva, Bosco Christiano Maciel
da Silva Duarte, Alberto José
Casseb, Jorge
de Barros Tenore, Simone
Hunter, James
Diaz, Ricardo Sobhie
Komninakis, Shirley Cavalcante Vasconcelos
author_facet Mantovani, Nathalia
Defelicibus, Alexandre
da Silva, Israel Tojal
Cicero, Maira Ferreira
Santana, Luiz Claudio
Arnold, Rafael
de Castro, Daniela Funayama
Duro, Rodrigo Lopes Sanz
Nishiyama-Jr, Milton Yutaka
Junqueira-de-Azevedo, Inácio Loiola Meirelles
da Silva, Bosco Christiano Maciel
da Silva Duarte, Alberto José
Casseb, Jorge
de Barros Tenore, Simone
Hunter, James
Diaz, Ricardo Sobhie
Komninakis, Shirley Cavalcante Vasconcelos
author_sort Mantovani, Nathalia
collection PubMed
description DNA methylation is one of the epigenetic modifications that configures gene transcription programs. This study describes the DNA methylation profile of HIV-infected individuals with distinct characteristics related to natural and artificial viremia control. Sheared DNA from circulating mononuclear cells was subjected to target enrichment bisulfite sequencing designed to cover CpG-rich genomic regions. Gene expression was assessed through RNA-seq. Hypermethylation in virologic responders was highly distributed closer to Transcription Start Sites (p-value = 0.03). Hyper and hypomethylation levels within TSS adjacencies varied according to disease progression status (Kruskal–Wallis, p < 0.001), and specific differentially methylated regions associated genes were identified for each group. The lower the promoter methylation, the higher the gene expression in subjects undergoing virologic failure (R = − 0.82, p = 0.00068). Among the inversely correlated genes, those supporting glycolysis and its related pathways were hypomethylated and up-regulated in virologic failures. Disease progression heterogeneity was associated with distinct DNA methylation patterns in terms of rates and distribution. Methylation was associated with the expression of genes sustaining intracellular glucose metabolism in subjects undergoing antiretroviral virologic failure. Our findings highlight that DNA methylation is associated with latency, disease progression, and fundamental cellular processes.
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spelling pubmed-86264652021-11-29 Latency-associated DNA methylation patterns among HIV-1 infected individuals with distinct disease progression courses or antiretroviral virologic response Mantovani, Nathalia Defelicibus, Alexandre da Silva, Israel Tojal Cicero, Maira Ferreira Santana, Luiz Claudio Arnold, Rafael de Castro, Daniela Funayama Duro, Rodrigo Lopes Sanz Nishiyama-Jr, Milton Yutaka Junqueira-de-Azevedo, Inácio Loiola Meirelles da Silva, Bosco Christiano Maciel da Silva Duarte, Alberto José Casseb, Jorge de Barros Tenore, Simone Hunter, James Diaz, Ricardo Sobhie Komninakis, Shirley Cavalcante Vasconcelos Sci Rep Article DNA methylation is one of the epigenetic modifications that configures gene transcription programs. This study describes the DNA methylation profile of HIV-infected individuals with distinct characteristics related to natural and artificial viremia control. Sheared DNA from circulating mononuclear cells was subjected to target enrichment bisulfite sequencing designed to cover CpG-rich genomic regions. Gene expression was assessed through RNA-seq. Hypermethylation in virologic responders was highly distributed closer to Transcription Start Sites (p-value = 0.03). Hyper and hypomethylation levels within TSS adjacencies varied according to disease progression status (Kruskal–Wallis, p < 0.001), and specific differentially methylated regions associated genes were identified for each group. The lower the promoter methylation, the higher the gene expression in subjects undergoing virologic failure (R = − 0.82, p = 0.00068). Among the inversely correlated genes, those supporting glycolysis and its related pathways were hypomethylated and up-regulated in virologic failures. Disease progression heterogeneity was associated with distinct DNA methylation patterns in terms of rates and distribution. Methylation was associated with the expression of genes sustaining intracellular glucose metabolism in subjects undergoing antiretroviral virologic failure. Our findings highlight that DNA methylation is associated with latency, disease progression, and fundamental cellular processes. Nature Publishing Group UK 2021-11-26 /pmc/articles/PMC8626465/ /pubmed/34837007 http://dx.doi.org/10.1038/s41598-021-02463-0 Text en © The Author(s) 2021 https://creativecommons.org/licenses/by/4.0/Open Access This article is licensed under a Creative Commons Attribution 4.0 International License, which permits use, sharing, adaptation, distribution and reproduction in any medium or format, as long as you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons licence, and indicate if changes were made. The images or other third party material in this article are included in the article's Creative Commons licence, unless indicated otherwise in a credit line to the material. If material is not included in the article's Creative Commons licence and your intended use is not permitted by statutory regulation or exceeds the permitted use, you will need to obtain permission directly from the copyright holder. To view a copy of this licence, visit http://creativecommons.org/licenses/by/4.0/ (https://creativecommons.org/licenses/by/4.0/) .
spellingShingle Article
Mantovani, Nathalia
Defelicibus, Alexandre
da Silva, Israel Tojal
Cicero, Maira Ferreira
Santana, Luiz Claudio
Arnold, Rafael
de Castro, Daniela Funayama
Duro, Rodrigo Lopes Sanz
Nishiyama-Jr, Milton Yutaka
Junqueira-de-Azevedo, Inácio Loiola Meirelles
da Silva, Bosco Christiano Maciel
da Silva Duarte, Alberto José
Casseb, Jorge
de Barros Tenore, Simone
Hunter, James
Diaz, Ricardo Sobhie
Komninakis, Shirley Cavalcante Vasconcelos
Latency-associated DNA methylation patterns among HIV-1 infected individuals with distinct disease progression courses or antiretroviral virologic response
title Latency-associated DNA methylation patterns among HIV-1 infected individuals with distinct disease progression courses or antiretroviral virologic response
title_full Latency-associated DNA methylation patterns among HIV-1 infected individuals with distinct disease progression courses or antiretroviral virologic response
title_fullStr Latency-associated DNA methylation patterns among HIV-1 infected individuals with distinct disease progression courses or antiretroviral virologic response
title_full_unstemmed Latency-associated DNA methylation patterns among HIV-1 infected individuals with distinct disease progression courses or antiretroviral virologic response
title_short Latency-associated DNA methylation patterns among HIV-1 infected individuals with distinct disease progression courses or antiretroviral virologic response
title_sort latency-associated dna methylation patterns among hiv-1 infected individuals with distinct disease progression courses or antiretroviral virologic response
topic Article
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8626465/
https://www.ncbi.nlm.nih.gov/pubmed/34837007
http://dx.doi.org/10.1038/s41598-021-02463-0
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