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Hepatitis C and HIV detection by blood RNA-sequencing in cohort of smokers
Detection of viruses by RNA and DNA sequencing has improved the understanding of the human virome. We sought to identify blood viral signatures through secondary use of RNA-sequencing (RNA-seq) data in a large study cohort. The ability to reveal undiagnosed infections with public health implications...
Autores principales: | , , , , , , |
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Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
Nature Publishing Group UK
2023
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Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9873751/ https://www.ncbi.nlm.nih.gov/pubmed/36693932 http://dx.doi.org/10.1038/s41598-023-28156-4 |
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author | Morrow, Jarrett D. Castaldi, Peter J. Chase, Robert P. Yun, Jeong H. Kinney, Gregory L. Silverman, Edwin K. Hersh, Craig P. |
author_facet | Morrow, Jarrett D. Castaldi, Peter J. Chase, Robert P. Yun, Jeong H. Kinney, Gregory L. Silverman, Edwin K. Hersh, Craig P. |
author_sort | Morrow, Jarrett D. |
collection | PubMed |
description | Detection of viruses by RNA and DNA sequencing has improved the understanding of the human virome. We sought to identify blood viral signatures through secondary use of RNA-sequencing (RNA-seq) data in a large study cohort. The ability to reveal undiagnosed infections with public health implications among study subjects with available sequencing data could enable epidemiologic surveys and may lead to diagnosis and therapeutic interventions, leveraging existing research data in a clinical context. We detected viral RNA in peripheral blood RNA-seq data from a COPD-enriched population of current and former smokers. Correlation between viral detection and both reported infections and relevant disease outcomes was evaluated. We identified Hepatitis C virus RNA in 228 subjects and HIV RNA in 30 subjects. Overall, we observed 31 viral species, including Epstein-Barr virus and Cytomegalovirus. We observed an enrichment of Hepatitis C and HIV infections among subjects reporting liver disease and HIV infections, respectively. Higher interferon expression scores were observed in the subjects with Hepatitis C and HIV infections. Through secondary use of RNA-seq from a cohort of current and former smokers, we detected peripheral blood viral signatures. We identified HIV and Hepatitis C virus (HCV), highlighting potential public health implications for the approach described this study. We observed correlations with reported infections, chronic infection outcomes and the host transcriptomic response, providing evidence to support the validity of the approach. |
format | Online Article Text |
id | pubmed-9873751 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2023 |
publisher | Nature Publishing Group UK |
record_format | MEDLINE/PubMed |
spelling | pubmed-98737512023-01-26 Hepatitis C and HIV detection by blood RNA-sequencing in cohort of smokers Morrow, Jarrett D. Castaldi, Peter J. Chase, Robert P. Yun, Jeong H. Kinney, Gregory L. Silverman, Edwin K. Hersh, Craig P. Sci Rep Article Detection of viruses by RNA and DNA sequencing has improved the understanding of the human virome. We sought to identify blood viral signatures through secondary use of RNA-sequencing (RNA-seq) data in a large study cohort. The ability to reveal undiagnosed infections with public health implications among study subjects with available sequencing data could enable epidemiologic surveys and may lead to diagnosis and therapeutic interventions, leveraging existing research data in a clinical context. We detected viral RNA in peripheral blood RNA-seq data from a COPD-enriched population of current and former smokers. Correlation between viral detection and both reported infections and relevant disease outcomes was evaluated. We identified Hepatitis C virus RNA in 228 subjects and HIV RNA in 30 subjects. Overall, we observed 31 viral species, including Epstein-Barr virus and Cytomegalovirus. We observed an enrichment of Hepatitis C and HIV infections among subjects reporting liver disease and HIV infections, respectively. Higher interferon expression scores were observed in the subjects with Hepatitis C and HIV infections. Through secondary use of RNA-seq from a cohort of current and former smokers, we detected peripheral blood viral signatures. We identified HIV and Hepatitis C virus (HCV), highlighting potential public health implications for the approach described this study. We observed correlations with reported infections, chronic infection outcomes and the host transcriptomic response, providing evidence to support the validity of the approach. Nature Publishing Group UK 2023-01-24 /pmc/articles/PMC9873751/ /pubmed/36693932 http://dx.doi.org/10.1038/s41598-023-28156-4 Text en © The Author(s) 2023 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 Morrow, Jarrett D. Castaldi, Peter J. Chase, Robert P. Yun, Jeong H. Kinney, Gregory L. Silverman, Edwin K. Hersh, Craig P. Hepatitis C and HIV detection by blood RNA-sequencing in cohort of smokers |
title | Hepatitis C and HIV detection by blood RNA-sequencing in cohort of smokers |
title_full | Hepatitis C and HIV detection by blood RNA-sequencing in cohort of smokers |
title_fullStr | Hepatitis C and HIV detection by blood RNA-sequencing in cohort of smokers |
title_full_unstemmed | Hepatitis C and HIV detection by blood RNA-sequencing in cohort of smokers |
title_short | Hepatitis C and HIV detection by blood RNA-sequencing in cohort of smokers |
title_sort | hepatitis c and hiv detection by blood rna-sequencing in cohort of smokers |
topic | Article |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9873751/ https://www.ncbi.nlm.nih.gov/pubmed/36693932 http://dx.doi.org/10.1038/s41598-023-28156-4 |
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