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Composite Analysis of the Virome and Bacteriome of HIV/HPV Co-Infected Women Reveals Proxies for Immunodeficiency

The human cervical microbiome is complex, and its role in health and disease has just begun to be elucidated. In this study, 57 cervical swab samples from 19 HIV/HPV co-infected women were analyzed for both virome and bacteriome composition. Virome analysis focused on circular DNA viruses through ro...

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Autores principales: Siqueira, Juliana D., Curty, Gislaine, Xutao, Deng, Hofer, Cristina B., Machado, Elizabeth S., Seuánez, Héctor N., Soares, Marcelo A., Delwart, Eric, Soares, Esmeralda A.
Formato: Online Artículo Texto
Lenguaje:English
Publicado: MDPI 2019
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6563245/
https://www.ncbi.nlm.nih.gov/pubmed/31067713
http://dx.doi.org/10.3390/v11050422
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author Siqueira, Juliana D.
Curty, Gislaine
Xutao, Deng
Hofer, Cristina B.
Machado, Elizabeth S.
Seuánez, Héctor N.
Soares, Marcelo A.
Delwart, Eric
Soares, Esmeralda A.
author_facet Siqueira, Juliana D.
Curty, Gislaine
Xutao, Deng
Hofer, Cristina B.
Machado, Elizabeth S.
Seuánez, Héctor N.
Soares, Marcelo A.
Delwart, Eric
Soares, Esmeralda A.
author_sort Siqueira, Juliana D.
collection PubMed
description The human cervical microbiome is complex, and its role in health and disease has just begun to be elucidated. In this study, 57 cervical swab samples from 19 HIV/HPV co-infected women were analyzed for both virome and bacteriome composition. Virome analysis focused on circular DNA viruses through rolling circle amplification followed by next-generation sequencing (NGS). Data were assigned to virus families and genera, and HPV types were identified. NGS data of bacterial 16S from a subset of 24 samples were assigned to operational taxonomic units and classified according to vaginal microbiome community state types (CSTs). Four viral families were found: Papillomaviridae, Anelloviridae, Genomoviridae, and Herpesviridae. Papillomavirus reads were more abundant in women with premalignant cervical lesions, which were also strongly associated with multiple (≥3) high-risk HPV infection. Anellovirus read abundance was negatively correlated with host CD4+ T-cell counts. The bacteriome revealed the presence of CST III and CST IV, and women with ≥1% frequency of genomovirus or herpesvirus reads displayed an increased risk of carrying CST IV. By characterizing the composition of the cervical circular DNA viruses and the bacteriome of HIV/HPV co-infected women, we identified putative interactions between these two microorganism communities and their associations with patients’ clinical characteristics, notably immunodeficiency status.
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spelling pubmed-65632452019-06-17 Composite Analysis of the Virome and Bacteriome of HIV/HPV Co-Infected Women Reveals Proxies for Immunodeficiency Siqueira, Juliana D. Curty, Gislaine Xutao, Deng Hofer, Cristina B. Machado, Elizabeth S. Seuánez, Héctor N. Soares, Marcelo A. Delwart, Eric Soares, Esmeralda A. Viruses Article The human cervical microbiome is complex, and its role in health and disease has just begun to be elucidated. In this study, 57 cervical swab samples from 19 HIV/HPV co-infected women were analyzed for both virome and bacteriome composition. Virome analysis focused on circular DNA viruses through rolling circle amplification followed by next-generation sequencing (NGS). Data were assigned to virus families and genera, and HPV types were identified. NGS data of bacterial 16S from a subset of 24 samples were assigned to operational taxonomic units and classified according to vaginal microbiome community state types (CSTs). Four viral families were found: Papillomaviridae, Anelloviridae, Genomoviridae, and Herpesviridae. Papillomavirus reads were more abundant in women with premalignant cervical lesions, which were also strongly associated with multiple (≥3) high-risk HPV infection. Anellovirus read abundance was negatively correlated with host CD4+ T-cell counts. The bacteriome revealed the presence of CST III and CST IV, and women with ≥1% frequency of genomovirus or herpesvirus reads displayed an increased risk of carrying CST IV. By characterizing the composition of the cervical circular DNA viruses and the bacteriome of HIV/HPV co-infected women, we identified putative interactions between these two microorganism communities and their associations with patients’ clinical characteristics, notably immunodeficiency status. MDPI 2019-05-07 /pmc/articles/PMC6563245/ /pubmed/31067713 http://dx.doi.org/10.3390/v11050422 Text en © 2019 by the authors. Licensee MDPI, Basel, Switzerland. This article is an open access article distributed under the terms and conditions of the Creative Commons Attribution (CC BY) license (http://creativecommons.org/licenses/by/4.0/).
spellingShingle Article
Siqueira, Juliana D.
Curty, Gislaine
Xutao, Deng
Hofer, Cristina B.
Machado, Elizabeth S.
Seuánez, Héctor N.
Soares, Marcelo A.
Delwart, Eric
Soares, Esmeralda A.
Composite Analysis of the Virome and Bacteriome of HIV/HPV Co-Infected Women Reveals Proxies for Immunodeficiency
title Composite Analysis of the Virome and Bacteriome of HIV/HPV Co-Infected Women Reveals Proxies for Immunodeficiency
title_full Composite Analysis of the Virome and Bacteriome of HIV/HPV Co-Infected Women Reveals Proxies for Immunodeficiency
title_fullStr Composite Analysis of the Virome and Bacteriome of HIV/HPV Co-Infected Women Reveals Proxies for Immunodeficiency
title_full_unstemmed Composite Analysis of the Virome and Bacteriome of HIV/HPV Co-Infected Women Reveals Proxies for Immunodeficiency
title_short Composite Analysis of the Virome and Bacteriome of HIV/HPV Co-Infected Women Reveals Proxies for Immunodeficiency
title_sort composite analysis of the virome and bacteriome of hiv/hpv co-infected women reveals proxies for immunodeficiency
topic Article
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6563245/
https://www.ncbi.nlm.nih.gov/pubmed/31067713
http://dx.doi.org/10.3390/v11050422
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