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A multiplex-NGS approach to identifying respiratory RNA viruses during the COVID-19 pandemic

A methodological approach based on reverse transcription (RT)-multiplex PCR followed by next-generation sequencing (NGS) was implemented to identify multiple respiratory RNA viruses simultaneously. A convenience sampling from respiratory surveillance and SARS-CoV-2 diagnosis in 2020 and 2021 in Mont...

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Autores principales: Ramos, Natalia, Panzera, Yanina, Frabasile, Sandra, Tomás, Gonzalo, Calleros, Lucía, Marandino, Ana, Goñi, Natalia, Techera, Claudia, Grecco, Sofía, Fuques, Eddie, Coppola, Leticia, Ramas, Viviana, Morel, Maria Noelia, Mogdasy, Cristina, Chiparelli, Héctor, Arbiza, Juan, Pérez, Ruben, Delfraro, Adriana
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Springer Vienna 2023
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9926447/
https://www.ncbi.nlm.nih.gov/pubmed/36786897
http://dx.doi.org/10.1007/s00705-023-05717-6
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author Ramos, Natalia
Panzera, Yanina
Frabasile, Sandra
Tomás, Gonzalo
Calleros, Lucía
Marandino, Ana
Goñi, Natalia
Techera, Claudia
Grecco, Sofía
Fuques, Eddie
Coppola, Leticia
Ramas, Viviana
Morel, Maria Noelia
Mogdasy, Cristina
Chiparelli, Héctor
Arbiza, Juan
Pérez, Ruben
Delfraro, Adriana
author_facet Ramos, Natalia
Panzera, Yanina
Frabasile, Sandra
Tomás, Gonzalo
Calleros, Lucía
Marandino, Ana
Goñi, Natalia
Techera, Claudia
Grecco, Sofía
Fuques, Eddie
Coppola, Leticia
Ramas, Viviana
Morel, Maria Noelia
Mogdasy, Cristina
Chiparelli, Héctor
Arbiza, Juan
Pérez, Ruben
Delfraro, Adriana
author_sort Ramos, Natalia
collection PubMed
description A methodological approach based on reverse transcription (RT)-multiplex PCR followed by next-generation sequencing (NGS) was implemented to identify multiple respiratory RNA viruses simultaneously. A convenience sampling from respiratory surveillance and SARS-CoV-2 diagnosis in 2020 and 2021 in Montevideo, Uruguay, was analyzed. The results revealed the cocirculation of SARS-CoV-2 with human rhinovirus (hRV) A, B and C, human respiratory syncytial virus (hRSV) B, influenza A virus, and metapneumovirus B1. SARS-CoV-2 coinfections with hRV or hRSV B and influenza A virus coinfections with hRV C were identified in adults and/or children. This methodology combines the benefits of multiplex genomic amplification with the sensitivity and information provided by NGS. An advantage is that additional viral targets can be incorporated, making it a helpful tool to investigate the cocirculation and coinfections of respiratory viruses in pandemic and post-pandemic contexts. SUPPLEMENTARY INFORMATION: The online version contains supplementary material available at 10.1007/s00705-023-05717-6.
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spelling pubmed-99264472023-02-14 A multiplex-NGS approach to identifying respiratory RNA viruses during the COVID-19 pandemic Ramos, Natalia Panzera, Yanina Frabasile, Sandra Tomás, Gonzalo Calleros, Lucía Marandino, Ana Goñi, Natalia Techera, Claudia Grecco, Sofía Fuques, Eddie Coppola, Leticia Ramas, Viviana Morel, Maria Noelia Mogdasy, Cristina Chiparelli, Héctor Arbiza, Juan Pérez, Ruben Delfraro, Adriana Arch Virol Brief Report A methodological approach based on reverse transcription (RT)-multiplex PCR followed by next-generation sequencing (NGS) was implemented to identify multiple respiratory RNA viruses simultaneously. A convenience sampling from respiratory surveillance and SARS-CoV-2 diagnosis in 2020 and 2021 in Montevideo, Uruguay, was analyzed. The results revealed the cocirculation of SARS-CoV-2 with human rhinovirus (hRV) A, B and C, human respiratory syncytial virus (hRSV) B, influenza A virus, and metapneumovirus B1. SARS-CoV-2 coinfections with hRV or hRSV B and influenza A virus coinfections with hRV C were identified in adults and/or children. This methodology combines the benefits of multiplex genomic amplification with the sensitivity and information provided by NGS. An advantage is that additional viral targets can be incorporated, making it a helpful tool to investigate the cocirculation and coinfections of respiratory viruses in pandemic and post-pandemic contexts. SUPPLEMENTARY INFORMATION: The online version contains supplementary material available at 10.1007/s00705-023-05717-6. Springer Vienna 2023-02-14 2023 /pmc/articles/PMC9926447/ /pubmed/36786897 http://dx.doi.org/10.1007/s00705-023-05717-6 Text en © The Author(s), under exclusive licence to Springer-Verlag GmbH Austria, part of Springer Nature 2023 This article is made available via the PMC Open Access Subset for unrestricted research re-use and secondary analysis in any form or by any means with acknowledgement of the original source. These permissions are granted for the duration of the World Health Organization (WHO) declaration of COVID-19 as a global pandemic.
spellingShingle Brief Report
Ramos, Natalia
Panzera, Yanina
Frabasile, Sandra
Tomás, Gonzalo
Calleros, Lucía
Marandino, Ana
Goñi, Natalia
Techera, Claudia
Grecco, Sofía
Fuques, Eddie
Coppola, Leticia
Ramas, Viviana
Morel, Maria Noelia
Mogdasy, Cristina
Chiparelli, Héctor
Arbiza, Juan
Pérez, Ruben
Delfraro, Adriana
A multiplex-NGS approach to identifying respiratory RNA viruses during the COVID-19 pandemic
title A multiplex-NGS approach to identifying respiratory RNA viruses during the COVID-19 pandemic
title_full A multiplex-NGS approach to identifying respiratory RNA viruses during the COVID-19 pandemic
title_fullStr A multiplex-NGS approach to identifying respiratory RNA viruses during the COVID-19 pandemic
title_full_unstemmed A multiplex-NGS approach to identifying respiratory RNA viruses during the COVID-19 pandemic
title_short A multiplex-NGS approach to identifying respiratory RNA viruses during the COVID-19 pandemic
title_sort multiplex-ngs approach to identifying respiratory rna viruses during the covid-19 pandemic
topic Brief Report
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9926447/
https://www.ncbi.nlm.nih.gov/pubmed/36786897
http://dx.doi.org/10.1007/s00705-023-05717-6
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