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Unveiling Viruses Associated with Gastroenteritis Using a Metagenomics Approach

Acute infectious gastroenteritis is an important illness worldwide, especially on children, with viruses accounting for approximately 70% of the acute cases. A high number of these cases have an unknown etiological agent and the rise of next generation sequencing technologies has opened new opportun...

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Autores principales: Fernandez-Cassi, Xavier, Martínez-Puchol, Sandra, Silva-Sales, Marcelle, Cornejo, Thais, Bartolome, Rosa, Bofill-Mas, Silvia, Girones, Rosina
Formato: Online Artículo Texto
Lenguaje:English
Publicado: MDPI 2020
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7764520/
https://www.ncbi.nlm.nih.gov/pubmed/33322135
http://dx.doi.org/10.3390/v12121432
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author Fernandez-Cassi, Xavier
Martínez-Puchol, Sandra
Silva-Sales, Marcelle
Cornejo, Thais
Bartolome, Rosa
Bofill-Mas, Silvia
Girones, Rosina
author_facet Fernandez-Cassi, Xavier
Martínez-Puchol, Sandra
Silva-Sales, Marcelle
Cornejo, Thais
Bartolome, Rosa
Bofill-Mas, Silvia
Girones, Rosina
author_sort Fernandez-Cassi, Xavier
collection PubMed
description Acute infectious gastroenteritis is an important illness worldwide, especially on children, with viruses accounting for approximately 70% of the acute cases. A high number of these cases have an unknown etiological agent and the rise of next generation sequencing technologies has opened new opportunities for viral pathogen detection and discovery. Viral metagenomics in routine clinical settings has the potential to identify unexpected or novel variants of viral pathogens that cause gastroenteritis. In this study, 124 samples from acute gastroenteritis patients from 2012–2014 previously tested negative for common gastroenteritis pathogens were pooled by age and analyzed by next generation sequencing (NGS) to elucidate unidentified viral infections. The most abundant sequences detected potentially associated to acute gastroenteritis were from Astroviridae and Caliciviridae families, with the detection of norovirus GIV and sapoviruses. Lower number of contigs associated to rotaviruses were detected. As expected, other viruses that may be associated to gastroenteritis but also produce persistent infections in the gut were identified including several Picornaviridae members (EV, parechoviruses, cardioviruses) and adenoviruses. According to the sequencing data, astroviruses, sapoviruses and NoV GIV should be added to the list of viral pathogens screened in routine clinical analysis.
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spelling pubmed-77645202020-12-27 Unveiling Viruses Associated with Gastroenteritis Using a Metagenomics Approach Fernandez-Cassi, Xavier Martínez-Puchol, Sandra Silva-Sales, Marcelle Cornejo, Thais Bartolome, Rosa Bofill-Mas, Silvia Girones, Rosina Viruses Article Acute infectious gastroenteritis is an important illness worldwide, especially on children, with viruses accounting for approximately 70% of the acute cases. A high number of these cases have an unknown etiological agent and the rise of next generation sequencing technologies has opened new opportunities for viral pathogen detection and discovery. Viral metagenomics in routine clinical settings has the potential to identify unexpected or novel variants of viral pathogens that cause gastroenteritis. In this study, 124 samples from acute gastroenteritis patients from 2012–2014 previously tested negative for common gastroenteritis pathogens were pooled by age and analyzed by next generation sequencing (NGS) to elucidate unidentified viral infections. The most abundant sequences detected potentially associated to acute gastroenteritis were from Astroviridae and Caliciviridae families, with the detection of norovirus GIV and sapoviruses. Lower number of contigs associated to rotaviruses were detected. As expected, other viruses that may be associated to gastroenteritis but also produce persistent infections in the gut were identified including several Picornaviridae members (EV, parechoviruses, cardioviruses) and adenoviruses. According to the sequencing data, astroviruses, sapoviruses and NoV GIV should be added to the list of viral pathogens screened in routine clinical analysis. MDPI 2020-12-13 /pmc/articles/PMC7764520/ /pubmed/33322135 http://dx.doi.org/10.3390/v12121432 Text en © 2020 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
Fernandez-Cassi, Xavier
Martínez-Puchol, Sandra
Silva-Sales, Marcelle
Cornejo, Thais
Bartolome, Rosa
Bofill-Mas, Silvia
Girones, Rosina
Unveiling Viruses Associated with Gastroenteritis Using a Metagenomics Approach
title Unveiling Viruses Associated with Gastroenteritis Using a Metagenomics Approach
title_full Unveiling Viruses Associated with Gastroenteritis Using a Metagenomics Approach
title_fullStr Unveiling Viruses Associated with Gastroenteritis Using a Metagenomics Approach
title_full_unstemmed Unveiling Viruses Associated with Gastroenteritis Using a Metagenomics Approach
title_short Unveiling Viruses Associated with Gastroenteritis Using a Metagenomics Approach
title_sort unveiling viruses associated with gastroenteritis using a metagenomics approach
topic Article
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7764520/
https://www.ncbi.nlm.nih.gov/pubmed/33322135
http://dx.doi.org/10.3390/v12121432
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