Exploring the diversity of coronavirus in sewage during COVID-19 pandemic: Don't miss the forest for the trees.

In the wake of the COVID-19 pandemic, the use of next generation sequencing (NGS) has proved to be an important tool for the genetic characterization of SARS-CoV-2 from clinical samples. The use of different available NGS tools applied to wastewater samples could be the key for an in-depth study of...

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Authors: Martínez-Puchol, Sandra, Itarte, Marta, Rusiñol Arantegui, Marta, Forés, Eva, Mejías-Molina, Cristina, Andrés, Cristina, Antón, Andrés, Quer, Josep, Abril Ferrando, Josep Francesc, 1970-, Gironès Llop, Rosina, Bofill Mas, Silvia
Format: article
Status:Published version
Publication Date:2021
Country:España
Institution:Varias* (Consorci de Biblioteques Universitáries de Catalunya, Centre de Serveis Científics i Acadèmics de Catalunya)
Repository:Recercat. Dipósit de la Recerca de Catalunya
OAI Identifier:oai:recercat.cat:2445/182973
Online Access:https://hdl.handle.net/2445/182973
Access Level:Open access
Keyword:Coronavirus
Aigües residuals
Metagenòmica
Coronaviruses
Sewage
Metagenomics
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spelling Exploring the diversity of coronavirus in sewage during COVID-19 pandemic: Don't miss the forest for the trees.Martínez-Puchol, SandraItarte, MartaRusiñol Arantegui, MartaForés, EvaMejías-Molina, CristinaAndrés, CristinaAntón, AndrésQuer, JosepAbril Ferrando, Josep Francesc, 1970-Gironès Llop, RosinaBofill Mas, SilviaCoronavirusAigües residualsMetagenòmicaCoronavirusesSewageMetagenomicsIn the wake of the COVID-19 pandemic, the use of next generation sequencing (NGS) has proved to be an important tool for the genetic characterization of SARS-CoV-2 from clinical samples. The use of different available NGS tools applied to wastewater samples could be the key for an in-depth study of the excreted virome, not only focusing on SARS-CoV-2 circulation and typing, but also to detect other potentially pandemic viruses within the same family. With this aim, 24-hours composite wastewater samples from March and July 2020 were sequenced by applying specific viral NGS as well as target enrichment NGS. The full virome of the analyzed samples was obtained, with human Coronaviridae members (CoV) present in one of those samples after applying the enrichment. One contig was identified as HCoV-OC43 and 8 contigs as SARS-CoV-2. CoVs from other animal hosts were also detected when applying this technique. These contigs were compared with those obtained from contemporary clinical specimens by applying the same target enrichment approach. The results showed that there is a co-circulation in urban areas of human and animal coronaviruses infecting domestic animals and rodents. NGS enrichment-based protocols might be crucial to describe the occurrence and genetic characteristics of SARS-CoV-2 and other Coronaviridae family members within the excreted virome present in wastewater.Elsevier B.V.2022202220212022info:eu-repo/semantics/articleinfo:eu-repo/semantics/publishedVersion7 p.application/pdfhttps://hdl.handle.net/2445/182973Articles publicats en revistes (Genètica, Microbiologia i Estadística)reponame:Recercat. Dipósit de la Recerca de Catalunyainstname:Varias* (Consorci de Biblioteques Universitáries de Catalunya, Centre de Serveis Científics i Acadèmics de Catalunya)InglésReproducció del document publicat a: https://doi.org/10.1016/j.scitotenv.2021.149562Science of the Total Environment, 2021, vol. 800, p. 149562https://doi.org/10.1016/j.scitotenv.2021.149562cc-by-nc-nd (c) Martínez-Puchol, Sandra et al., 2021https://creativecommons.org/licenses/by-nc-nd/4.0/info:eu-repo/semantics/openAccessoai:recercat.cat:2445/1829732026-05-29T05:05:01Z
dc.title.none.fl_str_mv Exploring the diversity of coronavirus in sewage during COVID-19 pandemic: Don't miss the forest for the trees.
title Exploring the diversity of coronavirus in sewage during COVID-19 pandemic: Don't miss the forest for the trees.
spellingShingle Exploring the diversity of coronavirus in sewage during COVID-19 pandemic: Don't miss the forest for the trees.
Martínez-Puchol, Sandra
Coronavirus
Aigües residuals
Metagenòmica
Coronaviruses
Sewage
Metagenomics
title_short Exploring the diversity of coronavirus in sewage during COVID-19 pandemic: Don't miss the forest for the trees.
title_full Exploring the diversity of coronavirus in sewage during COVID-19 pandemic: Don't miss the forest for the trees.
title_fullStr Exploring the diversity of coronavirus in sewage during COVID-19 pandemic: Don't miss the forest for the trees.
title_full_unstemmed Exploring the diversity of coronavirus in sewage during COVID-19 pandemic: Don't miss the forest for the trees.
title_sort Exploring the diversity of coronavirus in sewage during COVID-19 pandemic: Don't miss the forest for the trees.
dc.creator.none.fl_str_mv Martínez-Puchol, Sandra
Itarte, Marta
Rusiñol Arantegui, Marta
Forés, Eva
Mejías-Molina, Cristina
Andrés, Cristina
Antón, Andrés
Quer, Josep
Abril Ferrando, Josep Francesc, 1970-
Gironès Llop, Rosina
Bofill Mas, Silvia
author Martínez-Puchol, Sandra
author_facet Martínez-Puchol, Sandra
Itarte, Marta
Rusiñol Arantegui, Marta
Forés, Eva
Mejías-Molina, Cristina
Andrés, Cristina
Antón, Andrés
Quer, Josep
Abril Ferrando, Josep Francesc, 1970-
Gironès Llop, Rosina
Bofill Mas, Silvia
author_role author
author2 Itarte, Marta
Rusiñol Arantegui, Marta
Forés, Eva
Mejías-Molina, Cristina
Andrés, Cristina
Antón, Andrés
Quer, Josep
Abril Ferrando, Josep Francesc, 1970-
Gironès Llop, Rosina
Bofill Mas, Silvia
author2_role author
author
author
author
author
author
author
author
author
author
dc.subject.none.fl_str_mv Coronavirus
Aigües residuals
Metagenòmica
Coronaviruses
Sewage
Metagenomics
topic Coronavirus
Aigües residuals
Metagenòmica
Coronaviruses
Sewage
Metagenomics
description In the wake of the COVID-19 pandemic, the use of next generation sequencing (NGS) has proved to be an important tool for the genetic characterization of SARS-CoV-2 from clinical samples. The use of different available NGS tools applied to wastewater samples could be the key for an in-depth study of the excreted virome, not only focusing on SARS-CoV-2 circulation and typing, but also to detect other potentially pandemic viruses within the same family. With this aim, 24-hours composite wastewater samples from March and July 2020 were sequenced by applying specific viral NGS as well as target enrichment NGS. The full virome of the analyzed samples was obtained, with human Coronaviridae members (CoV) present in one of those samples after applying the enrichment. One contig was identified as HCoV-OC43 and 8 contigs as SARS-CoV-2. CoVs from other animal hosts were also detected when applying this technique. These contigs were compared with those obtained from contemporary clinical specimens by applying the same target enrichment approach. The results showed that there is a co-circulation in urban areas of human and animal coronaviruses infecting domestic animals and rodents. NGS enrichment-based protocols might be crucial to describe the occurrence and genetic characteristics of SARS-CoV-2 and other Coronaviridae family members within the excreted virome present in wastewater.
publishDate 2021
dc.date.none.fl_str_mv 2021
2022
2022
2022
dc.type.none.fl_str_mv info:eu-repo/semantics/article
info:eu-repo/semantics/publishedVersion
format article
status_str publishedVersion
dc.identifier.none.fl_str_mv https://hdl.handle.net/2445/182973
url https://hdl.handle.net/2445/182973
dc.language.none.fl_str_mv Inglés
language_invalid_str_mv Inglés
dc.relation.none.fl_str_mv Reproducció del document publicat a: https://doi.org/10.1016/j.scitotenv.2021.149562
Science of the Total Environment, 2021, vol. 800, p. 149562
https://doi.org/10.1016/j.scitotenv.2021.149562
dc.rights.none.fl_str_mv cc-by-nc-nd (c) Martínez-Puchol, Sandra et al., 2021
https://creativecommons.org/licenses/by-nc-nd/4.0/
info:eu-repo/semantics/openAccess
rights_invalid_str_mv cc-by-nc-nd (c) Martínez-Puchol, Sandra et al., 2021
https://creativecommons.org/licenses/by-nc-nd/4.0/
eu_rights_str_mv openAccess
dc.format.none.fl_str_mv 7 p.
application/pdf
dc.publisher.none.fl_str_mv Elsevier B.V.
publisher.none.fl_str_mv Elsevier B.V.
dc.source.none.fl_str_mv Articles publicats en revistes (Genètica, Microbiologia i Estadística)
reponame:Recercat. Dipósit de la Recerca de Catalunya
instname:Varias* (Consorci de Biblioteques Universitáries de Catalunya, Centre de Serveis Científics i Acadèmics de Catalunya)
instname_str Varias* (Consorci de Biblioteques Universitáries de Catalunya, Centre de Serveis Científics i Acadèmics de Catalunya)
reponame_str Recercat. Dipósit de la Recerca de Catalunya
collection Recercat. Dipósit de la Recerca de Catalunya
repository.name.fl_str_mv
repository.mail.fl_str_mv
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score 15,812429

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