Host-dependent editing of SARS-CoV-2 in COVID-19 patients
A common trait among RNA viruses is their high capability to acquire genetic variability due to viral and host mechanisms. Next-generation sequencing (NGS) analysis enables the deep study of the viral quasispecies in samples from infected individuals. In this study, the viral quasispecies complexity...
| Autores: | , , , , , , , , , , , , , , , , , , , , |
|---|---|
| Tipo de documento: | artigo |
| Data de publicação: | 2021 |
| País: | España |
| Recursos: | Universitat Autònoma de Barcelona |
| Repositório: | Dipòsit Digital de Documents de la UAB |
| Idioma: | inglês |
| OAI Identifier: | oai:dnet:uabarcelona_::34cf18eff9b6b94fd8233361340efbd0 |
| Acesso em linha: | https://ddd.uab.cat/record/327703 https://dx.doi.org/urn:doi:10.1080/22221751.2021.1969868 |
| Access Level: | Acceso aberto |
| Palavra-chave: | ADAR1 SARS-CoV-2 Editing Mutations Quasispecies |
| id |
ES_cb845c1e76adfc56ea38ef41f9fe59de |
|---|---|
| oai_identifier_str |
oai:dnet:uabarcelona_::34cf18eff9b6b94fd8233361340efbd0 |
| network_acronym_str |
ES |
| network_name_str |
España |
| repository_id_str |
|
| spelling |
Host-dependent editing of SARS-CoV-2 in COVID-19 patientsGregori i Font, Josep|||0000-0002-4253-8015Cortese, Maria Francesca|||0000-0002-4318-532XPiñana, Maria|||0000-0002-4766-2613Campos, Carolina|||0000-0002-0132-7027Garcia-Cehic, D.|||0000-0002-0009-038XAndrés, Cristina|||0000-0002-3200-0895Abril, Josep Francesc|||0000-0001-7793-589XCodina, María Gema|||0000-0002-5313-5086Rando-Segura, Ariadna|||0000-0003-4555-7286Esperalba, Juliana|||0000-0003-1326-1341Sulleiro, Elena|||0000-0002-9783-6060Joseph-Munné, JoanSaubi, Narcis|||0000-0001-5493-1044Colomer-Castell, Sergi|||0000-0002-0307-7455Martin, Mari Carmen|||0000-0003-1327-8813Castillo, CarlaEsteban Mur, Juan Ignacio|||0000-0001-5085-917XPumarola Suñé, Tomàs|||0000-0002-5171-7461Rodríguez Frías, Francisco|||0000-0002-9128-7013Antón Pagarolas, Andrés, 1976-|||0000-0002-1476-0815Quer, Josep|||0000-0003-0014-084XADAR1SARS-CoV-2EditingMutationsQuasispeciesA common trait among RNA viruses is their high capability to acquire genetic variability due to viral and host mechanisms. Next-generation sequencing (NGS) analysis enables the deep study of the viral quasispecies in samples from infected individuals. In this study, the viral quasispecies complexity and single nucleotide polymorphisms of the SARS-CoV-2 spike gene of coronavirus disease 2019 (COVID-19) patients with mild or severe disease were investigated using next-generation sequencing (Illumina platform). SARS-CoV-2 spike variability was higher in patients with long-lasting infection. Most substitutions found were present at frequencies lower than 1%, and had an A → G or T → C pattern, consistent with variants caused by adenosine deaminase acting on RNA-1 (ADAR1). ADAR1 affected a small fraction of replicating genomes, but produced multiple, mainly non-synonymous mutations. ADAR1 editing during replication rather than the RNA-dependent RNA polymerase (nsp12) was the predominant mechanism generating SARS-CoV-2 genetic variability. However, the mutations produced are not fixed in the infected human population, suggesting that ADAR1 may have an antiviral role, whereas nsp12-induced mutations occurring in patients with high viremia and persistent infection are the main source of new SARS-CoV-2 variants. 22021-01-0120212021-01-01Articlehttp://purl.org/coar/resource_type/c_6501VoRhttp://purl.org/coar/version/c_970fb48d4fbd8a85info:eu-repo/semantics/articleapplication/pdfhttps://ddd.uab.cat/record/327703https://dx.doi.org/urn:doi:10.1080/22221751.2021.1969868reponame:Dipòsit Digital de Documents de la UABinstname:Universitat Autònoma de BarcelonaInglésengMinisterio de Economía y Competitividad https://doi.org/10.13039/501100003329 RD16/0016/0003Instituto de Salud Carlos III https://doi.org/10.13039/501100004587 PI19/00301open accesshttp://purl.org/coar/access_right/c_abf2Aquest document està subjecte a una llicència d'ús Creative Commons. Es permet la reproducció total o parcial, la distribució, la comunicació pública de l'obra i la creació d'obres derivades, fins i tot amb finalitats comercials, sempre i quan es reconegui l'autoria de l'obra original.https://creativecommons.org/licenses/by/4.0/info:eu-repo/semantics/openAccessoai:dnet:uabarcelona_::34cf18eff9b6b94fd8233361340efbd02026-06-06T12:50:31Z |
| dc.title.none.fl_str_mv |
Host-dependent editing of SARS-CoV-2 in COVID-19 patients |
| title |
Host-dependent editing of SARS-CoV-2 in COVID-19 patients |
| spellingShingle |
Host-dependent editing of SARS-CoV-2 in COVID-19 patients Gregori i Font, Josep|||0000-0002-4253-8015 ADAR1 SARS-CoV-2 Editing Mutations Quasispecies |
| title_short |
Host-dependent editing of SARS-CoV-2 in COVID-19 patients |
| title_full |
Host-dependent editing of SARS-CoV-2 in COVID-19 patients |
| title_fullStr |
Host-dependent editing of SARS-CoV-2 in COVID-19 patients |
| title_full_unstemmed |
Host-dependent editing of SARS-CoV-2 in COVID-19 patients |
| title_sort |
Host-dependent editing of SARS-CoV-2 in COVID-19 patients |
| dc.creator.none.fl_str_mv |
Gregori i Font, Josep|||0000-0002-4253-8015 Cortese, Maria Francesca|||0000-0002-4318-532X Piñana, Maria|||0000-0002-4766-2613 Campos, Carolina|||0000-0002-0132-7027 Garcia-Cehic, D.|||0000-0002-0009-038X Andrés, Cristina|||0000-0002-3200-0895 Abril, Josep Francesc|||0000-0001-7793-589X Codina, María Gema|||0000-0002-5313-5086 Rando-Segura, Ariadna|||0000-0003-4555-7286 Esperalba, Juliana|||0000-0003-1326-1341 Sulleiro, Elena|||0000-0002-9783-6060 Joseph-Munné, Joan Saubi, Narcis|||0000-0001-5493-1044 Colomer-Castell, Sergi|||0000-0002-0307-7455 Martin, Mari Carmen|||0000-0003-1327-8813 Castillo, Carla Esteban Mur, Juan Ignacio|||0000-0001-5085-917X Pumarola Suñé, Tomàs|||0000-0002-5171-7461 Rodríguez Frías, Francisco|||0000-0002-9128-7013 Antón Pagarolas, Andrés, 1976-|||0000-0002-1476-0815 Quer, Josep|||0000-0003-0014-084X |
| author |
Gregori i Font, Josep|||0000-0002-4253-8015 |
| author_facet |
Gregori i Font, Josep|||0000-0002-4253-8015 Cortese, Maria Francesca|||0000-0002-4318-532X Piñana, Maria|||0000-0002-4766-2613 Campos, Carolina|||0000-0002-0132-7027 Garcia-Cehic, D.|||0000-0002-0009-038X Andrés, Cristina|||0000-0002-3200-0895 Abril, Josep Francesc|||0000-0001-7793-589X Codina, María Gema|||0000-0002-5313-5086 Rando-Segura, Ariadna|||0000-0003-4555-7286 Esperalba, Juliana|||0000-0003-1326-1341 Sulleiro, Elena|||0000-0002-9783-6060 Joseph-Munné, Joan Saubi, Narcis|||0000-0001-5493-1044 Colomer-Castell, Sergi|||0000-0002-0307-7455 Martin, Mari Carmen|||0000-0003-1327-8813 Castillo, Carla Esteban Mur, Juan Ignacio|||0000-0001-5085-917X Pumarola Suñé, Tomàs|||0000-0002-5171-7461 Rodríguez Frías, Francisco|||0000-0002-9128-7013 Antón Pagarolas, Andrés, 1976-|||0000-0002-1476-0815 Quer, Josep|||0000-0003-0014-084X |
| author_role |
author |
| author2 |
Cortese, Maria Francesca|||0000-0002-4318-532X Piñana, Maria|||0000-0002-4766-2613 Campos, Carolina|||0000-0002-0132-7027 Garcia-Cehic, D.|||0000-0002-0009-038X Andrés, Cristina|||0000-0002-3200-0895 Abril, Josep Francesc|||0000-0001-7793-589X Codina, María Gema|||0000-0002-5313-5086 Rando-Segura, Ariadna|||0000-0003-4555-7286 Esperalba, Juliana|||0000-0003-1326-1341 Sulleiro, Elena|||0000-0002-9783-6060 Joseph-Munné, Joan Saubi, Narcis|||0000-0001-5493-1044 Colomer-Castell, Sergi|||0000-0002-0307-7455 Martin, Mari Carmen|||0000-0003-1327-8813 Castillo, Carla Esteban Mur, Juan Ignacio|||0000-0001-5085-917X Pumarola Suñé, Tomàs|||0000-0002-5171-7461 Rodríguez Frías, Francisco|||0000-0002-9128-7013 Antón Pagarolas, Andrés, 1976-|||0000-0002-1476-0815 Quer, Josep|||0000-0003-0014-084X |
| author2_role |
author author author author author author author author author author author author author author author author author author author author |
| dc.subject.none.fl_str_mv |
ADAR1 SARS-CoV-2 Editing Mutations Quasispecies |
| topic |
ADAR1 SARS-CoV-2 Editing Mutations Quasispecies |
| description |
A common trait among RNA viruses is their high capability to acquire genetic variability due to viral and host mechanisms. Next-generation sequencing (NGS) analysis enables the deep study of the viral quasispecies in samples from infected individuals. In this study, the viral quasispecies complexity and single nucleotide polymorphisms of the SARS-CoV-2 spike gene of coronavirus disease 2019 (COVID-19) patients with mild or severe disease were investigated using next-generation sequencing (Illumina platform). SARS-CoV-2 spike variability was higher in patients with long-lasting infection. Most substitutions found were present at frequencies lower than 1%, and had an A → G or T → C pattern, consistent with variants caused by adenosine deaminase acting on RNA-1 (ADAR1). ADAR1 affected a small fraction of replicating genomes, but produced multiple, mainly non-synonymous mutations. ADAR1 editing during replication rather than the RNA-dependent RNA polymerase (nsp12) was the predominant mechanism generating SARS-CoV-2 genetic variability. However, the mutations produced are not fixed in the infected human population, suggesting that ADAR1 may have an antiviral role, whereas nsp12-induced mutations occurring in patients with high viremia and persistent infection are the main source of new SARS-CoV-2 variants. |
| publishDate |
2021 |
| dc.date.none.fl_str_mv |
2 2021-01-01 2021 2021-01-01 |
| dc.type.none.fl_str_mv |
Article http://purl.org/coar/resource_type/c_6501 VoR http://purl.org/coar/version/c_970fb48d4fbd8a85 |
| dc.type.openaire.fl_str_mv |
info:eu-repo/semantics/article |
| format |
article |
| dc.identifier.none.fl_str_mv |
https://ddd.uab.cat/record/327703 https://dx.doi.org/urn:doi:10.1080/22221751.2021.1969868 |
| url |
https://ddd.uab.cat/record/327703 https://dx.doi.org/urn:doi:10.1080/22221751.2021.1969868 |
| dc.language.none.fl_str_mv |
Inglés eng |
| language_invalid_str_mv |
Inglés |
| language |
eng |
| dc.relation.none.fl_str_mv |
Ministerio de Economía y Competitividad https://doi.org/10.13039/501100003329 RD16/0016/0003 Instituto de Salud Carlos III https://doi.org/10.13039/501100004587 PI19/00301 |
| dc.rights.none.fl_str_mv |
open access http://purl.org/coar/access_right/c_abf2 https://creativecommons.org/licenses/by/4.0/ |
| dc.rights.openaire.fl_str_mv |
info:eu-repo/semantics/openAccess |
| rights_invalid_str_mv |
open access http://purl.org/coar/access_right/c_abf2 https://creativecommons.org/licenses/by/4.0/ |
| eu_rights_str_mv |
openAccess |
| dc.format.none.fl_str_mv |
application/pdf |
| dc.source.none.fl_str_mv |
reponame:Dipòsit Digital de Documents de la UAB instname:Universitat Autònoma de Barcelona |
| instname_str |
Universitat Autònoma de Barcelona |
| reponame_str |
Dipòsit Digital de Documents de la UAB |
| collection |
Dipòsit Digital de Documents de la UAB |
| repository.name.fl_str_mv |
|
| repository.mail.fl_str_mv |
|
| _version_ |
1869419595317641216 |
| score |
15,81155 |