Host-dependent editing of SARS-CoV-2 in COVID-19 patients
| Autor: | Tomás Pumarola, Elena Sulleiro, Narcís Saubi, Mari Carmen Martin, Ariadna Rando, Juliana Esperalba, Juan Ignacio Esteban, Josep F. Abril, Joan Joseph, Josep Gregori, Francisco Rodriguez-Frias, Maria Piñana, Josep Quer, Sergi Colomer-Castell, Andrés Antón, Cristina Andrés, Carla Castillo, Carolina Campos, Damir Garcia-Cehic, Maria Francesca Cortese, Maria Gema Codina |
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| Přispěvatelé: | Institut Català de la Salut, [Gregori J] Vall d’Hebron Institut de Recerca (VHIR), Barcelona, Spain. Servei de Malalties Hepàtiques-Hepatitis Viral, Unitat del Fetge, Vall d’Hebron Hospital Universitari, Barcelona, Spain. Centro de Investigación Biomédica en Red de Enfermedades Hepáticas y Digestivas (CIBERehd), Instituto de Salud Carlos III, Madrid, Spain. Roche Diagnostics SL, Barcelona, Spain. [Cortese MF, Saubí N] Vall d’Hebron Institut de Recerca (VHIR), Barcelona, Spain. Servei de Bioquímica i Microbiologia, Vall d’Hebron Hospital Universitari, Barcelona, Spain. [Piñana M, Andrés C, Martin MC, Castillo C] Vall d’Hebron Institut de Recerca (VHIR), Barcelona, Spain. Unitat de Virus Respiratoris, Servei de Microbiologia, Vall d’Hebron Hospital Universitari, Barcelona, Spain. [Campos C, Garcia-Cehic D, Quer J] Vall d’Hebron Institut de Recerca (VHIR), Barcelona, Spain. Servei de Malalties Hepàtiques-Hepatitis Viral, Unitat del Fetge, Vall d’Hebron Hospital Universitari, Barcelona, Spain. Centro de Investigación Biomédica en Red de Enfermedades Hepáticas y Digestivas (CIBERehd), Instituto de Salud Carlos III, Madrid, Spain. [Codina MG, Rando A, Esperalba J, Sulleiro E, Joseph J] Servei de Microbiologia, Vall d’Hebron Hospital Universitari, Barcelona, Spain. [Colomer-Castell S, Esteban JI] Vall d’Hebron Institut de Recerca (VHIR), Barcelona, Spain. Servei de Malalties Hepàtiques-Hepatitis Viral, Unitat del Fetge, Vall d’Hebron Hospital Universitari, Barcelona, Spain. [Pumarola T] Servei de Microbiologia, Vall d’Hebron Hospital Universitari, Barcelona, Spain. Universitat Autònoma de Barcelona, Bellaterra, Spain. [Rodriguez-Frias F ] Centro de Investigación Biomédica en Red de Enfermedades Hepáticas y Digestivas (CIBERehd), Instituto de Salud Carlos III, Madrid, Spain. Vall d’Hebron Institut de Recerca (VHIR), Barcelona, Spain. Servei de Bioquímica i Microbiologia, Vall d’Hebron Hospital Universitari, Barcelona, Spain. Universitat Autònoma de Barcelona, Bellaterra, Spain. [Antón A] Vall d’Hebron Institut de Recerca (VHIR), Barcelona, Spain. Unitat de Virus Respiratoris, Servei de Microbiologia, Vall d’Hebron Hospital Universitari, Barcelona, Spain. Universitat Autònoma de Barcelona, Bellaterra, Spain, Vall d'Hebron Barcelona Hospital Campus |
| Jazyk: | angličtina |
| Rok vydání: | 2021 |
| Předmět: |
Male
Virologia Epidemiology Protein Conformation viruses Genoma humà Virus Replication COVID-19 (Malaltia) Chemical Phenomena::Biochemical Phenomena::Molecular Structure::Amino Acid Sequence [PHENOMENA AND PROCESSES] Protein structure Drug Discovery virosis::infecciones por virus ARN::infecciones por Nidovirales::infecciones por Coronaviridae::infecciones por Coronavirus [ENFERMEDADES] Peptide sequence Genetics Virus Diseases::RNA Virus Infections::Nidovirales Infections::Coronaviridae Infections::Coronavirus Infections [DISEASES] General Medicine Middle Aged Infectious Diseases Host-Pathogen Interactions Spike Glycoprotein Coronavirus Female Research Article Adult Other subheadings::Other subheadings::Other subheadings::/virology [Other subheadings] Immunology Viral quasispecies Biology Microbiology Seqüència d'aminoàcids Virology Genetic variation ADAR1 Humans Genetic variability Amino Acid Sequence Human genome Otros calificadores::Otros calificadores::Otros calificadores::/virología [Otros calificadores] Base Sequence Host (biology) SARS-CoV-2 editing Mutació (Biologia) RNA COVID-19 Genetic Variation quasispecies Mutation (Biology) mutations Viral replication fenómenos químicos::fenómenos bioquímicos::estructura molecular::secuencia de aminoácidos [FENÓMENOS Y PROCESOS] Parasitology |
| Zdroj: | Emerging Microbes & Infections article-version (VoR) Version of Record Scientia |
| ISSN: | 2222-1751 |
| Popis: | SARS-CoV-2; Mutacions; Quasiespècie SARS-CoV-2; Mutaciones; Cuasiespecie SARS-CoV-2; Mutations; Quasispecies 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. This study was supported by the Direcció General de Recerca i Innovació en Salut (DGRIS) of the Catalan Health Ministry, Generalitat de Catalunya, through the Vall d’Hebron Institut de Recerca (VHIR); the European Regional Development Fund (ERDF) “A way to achieve Europe” by the Spanish Network for Research in Infectious Diseases [grant number REIPI RD16/0016/0003]; Instituto de Salud Carlos III [grant number FIS PI19/00301]; and Centro para el Desarrollo Tecnologico Industrial (CDTI) from the Ministry of Economic Affairs and Digital Transformation [grant number IDI-20200297]. |
| Databáze: | OpenAIRE |
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