Phylogenetic-based inference reveals distinct transmission dynamics of SARS-CoV-2 lineages Gamma and P.2 in Brazil

Detalhes bibliográficos
Autor(a) principal: Graf, Tiago
Data de Publicação: 2022
Outros Autores: Bello, Gonzalo, Naveca, Felipe Gomes, Gomes, Marcelo, Cardoso, Vanessa Leiko Oikawa, Silva, Alexandre Freitas da, Dezordi, Filipe Zimmer, Santos, Mirleide Cordeiro dos, Santos, Katia Correa de Oliveira, Batista, Érika Lopes Rocha, Magalhães, Alessandro Leonardo Álvares, Vinhal, Fernando, Miyajima, Fábio, Faoro, Helisson, Khouri, Ricardo, Wallau, Gabriel Luz, Delatorre, Edson, Siqueira, Marilda Mendonça, Resende, Paola Cristina
Tipo de documento: Artigo
Idioma: por
Título da fonte: Repositório Institucional da FIOCRUZ (ARCA)
Texto Completo: https://www.arca.fiocruz.br/handle/icict/52502
Resumo: Fundação Oswaldo Cruz. Instituto Gonçalo Moniz. Salvador, BA, Brasil.
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spelling Graf, TiagoBello, GonzaloNaveca, Felipe GomesGomes, MarceloCardoso, Vanessa Leiko OikawaSilva, Alexandre Freitas daDezordi, Filipe ZimmerSantos, Mirleide Cordeiro dosSantos, Katia Correa de OliveiraBatista, Érika Lopes RochaMagalhães, Alessandro Leonardo ÁlvaresVinhal, FernandoMiyajima, FábioFaoro, HelissonKhouri, RicardoWallau, Gabriel LuzDelatorre, EdsonSiqueira, Marilda MendonçaResende, Paola Cristina2022-05-02T16:17:12Z2022-05-02T16:17:12Z2022GRAF, Tiago et al. Phylogenetic-based inference reveals distinct transmission dynamics of SARS-CoV-2 lineages Gamma and P.2 in Brazil. iScience, v. 25 n. 104156 , p. 1–16, 2022.2589-0042https://www.arca.fiocruz.br/handle/icict/5250210.1016/ j.isci.2022.104156porCell PressSARS-CoV-2COVID-19Linhagem P.2Linhagem GammaLineage P.2Lineage GammaDisease Transmission, InfectiousPandemicsCommunicable PeriodTransmisión de Enfermedad InfecciosaPandemiasPeriodo de TransmisiónTransmission de maladie infectieusePandémiesPériode de TransmissionTransmissão de Doença InfecciosaPandemiasPeríodo de TransmissibilidadePhylogenetic-based inference reveals distinct transmission dynamics of SARS-CoV-2 lineages Gamma and P.2 in Brazilinfo:eu-repo/semantics/publishedVersioninfo:eu-repo/semantics/articleFundação Oswaldo Cruz. Instituto Gonçalo Moniz. Salvador, BA, Brasil.Fundação Oswaldo Cruz. Instituto Oswaldo Cruz. Laboratório de AIDS e Imunologia Molecular. Rio de Janeiro, RJ, Brasil.Fundação Oswaldo Cruz. Instituto Leônidas e Maria Deane. Laboratório de Ecologia de Doenças Transmissíveis na Amazônia. Manaus, AM, Brasil.Fundação Oswaldo Cruz. Presidência. Programa de Computação Científica. Grupo de Métodos Analíticos em Vigilância Epidemiológica. Rio de Janeiro, RJ, Brasil.Fundação Oswaldo Cruz. Instituto Gonçalo Moniz. Salvador, BA, Brasil.Fundação Oswaldo Cruz. Instituto Aggeu Magalhães. Recife, PE, Brasil.Fundação Oswaldo Cruz. Instituto Aggeu Magalhães. Recife, PE, Brasil.Instituto Nacional de Infectologia Evandro Chagas. Belém, PA, Brasil.Instituto Adolfo Lutz. São Paulo, SP, Brasil.Secretaria Municipal de Saúde de Aparecida de Goiânia. Aparecida de Goiânia, GO, Brasil.Secretaria Municipal de Saúde de Aparecida de Goiânia. Aparecida de Goiânia, GO, Brasil.Lab HLAGYN. Goiânia. GO, Brasil.Fundação Oswaldo Cruz. Fiocruz Ceará. Eusébio, CE, Brasil.Fundação Oswaldo Cruz. Instituto Carlos Chagas. Curitiba, PR, Brasil.Fundação Oswaldo Cruz. Instituto Gonçalo Moniz. Salvador, BA, Brasil.Fundação Oswaldo Cruz. Instituto Aggeu Magalhães. Recife, PE, Brasil.Universidade Federal do Espírito Santo. Centro de Ciencias Exatas, Naturais e da Saude. Departamento de Biologia. Alegre, ES, Brasil.Fundação Oswaldo Cruz. Instituto Oswaldo Cruz. Laboratório de Vírus Respiratórios e Sarampo. Rio de Janeiro, RJ, Brasil.Fundação Oswaldo Cruz. Instituto Oswaldo Cruz. Laboratório de Vírus Respiratórios e Sarampo. Rio de Janeiro, RJ, Brasil.The COVID-19 epidemic in Brazil experienced two major lineage replacements until mid-2021. The first was driven by lineage P.2, in late 2020, and the second by lineage Gamma, in early 2021. To understand how these SARS-CoV-2 lineages spread in Brazil, we analyzed 11,724 genomes collected throughout the country between September 2020 and April 2021. Our findings indicate that lineage P.2 probably emerged in July 2020 in the Rio de Janeiro state and Gamma in November 2020 in the Amazonas state. Both states were the main hubs of viral disseminations to other Brazilian locations. We estimate that Gamma was 1.56– 3.06 times more transmissible than P.2 in Rio de Janeiro and that the median effective reproductive number (Re) of Gamma varied according to the geographic context (Re = 1.59–3.55). In summary, our findings support that lineage Gamma was more transmissible and spread faster than P.2 in Brazil.info:eu-repo/semantics/openAccessreponame:Repositório Institucional da FIOCRUZ (ARCA)instname:Fundação Oswaldo Cruz (FIOCRUZ)instacron:FIOCRUZLICENSElicense.txtlicense.txttext/plain; charset=utf-83084https://www.arca.fiocruz.br/bitstream/icict/52502/1/license.txt783568c2893d2e25a99990b126be1772MD51ORIGINALmainOK.pdfmainOK.pdfapplication/pdf15681123https://www.arca.fiocruz.br/bitstream/icict/52502/2/mainOK.pdf1ecd440fbfc1ba57fdb483a31d976d44MD52icict/525022023-07-14 11:27:26.272oai:www.arca.fiocruz.br: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ório InstitucionalPUBhttps://www.arca.fiocruz.br/oai/requestrepositorio.arca@fiocruz.bropendoar:21352023-07-14T14:27:26Repositório Institucional da FIOCRUZ (ARCA) - Fundação Oswaldo Cruz (FIOCRUZ)false
dc.title.pt_BR.fl_str_mv Phylogenetic-based inference reveals distinct transmission dynamics of SARS-CoV-2 lineages Gamma and P.2 in Brazil
title Phylogenetic-based inference reveals distinct transmission dynamics of SARS-CoV-2 lineages Gamma and P.2 in Brazil
spellingShingle Phylogenetic-based inference reveals distinct transmission dynamics of SARS-CoV-2 lineages Gamma and P.2 in Brazil
Graf, Tiago
SARS-CoV-2
COVID-19
Linhagem P.2
Linhagem Gamma
Lineage P.2
Lineage Gamma
Disease Transmission, Infectious
Pandemics
Communicable Period
Transmisión de Enfermedad Infecciosa
Pandemias
Periodo de Transmisión
Transmission de maladie infectieuse
Pandémies
Période de Transmission
Transmissão de Doença Infecciosa
Pandemias
Período de Transmissibilidade
title_short Phylogenetic-based inference reveals distinct transmission dynamics of SARS-CoV-2 lineages Gamma and P.2 in Brazil
title_full Phylogenetic-based inference reveals distinct transmission dynamics of SARS-CoV-2 lineages Gamma and P.2 in Brazil
title_fullStr Phylogenetic-based inference reveals distinct transmission dynamics of SARS-CoV-2 lineages Gamma and P.2 in Brazil
title_full_unstemmed Phylogenetic-based inference reveals distinct transmission dynamics of SARS-CoV-2 lineages Gamma and P.2 in Brazil
title_sort Phylogenetic-based inference reveals distinct transmission dynamics of SARS-CoV-2 lineages Gamma and P.2 in Brazil
author Graf, Tiago
author_facet Graf, Tiago
Bello, Gonzalo
Naveca, Felipe Gomes
Gomes, Marcelo
Cardoso, Vanessa Leiko Oikawa
Silva, Alexandre Freitas da
Dezordi, Filipe Zimmer
Santos, Mirleide Cordeiro dos
Santos, Katia Correa de Oliveira
Batista, Érika Lopes Rocha
Magalhães, Alessandro Leonardo Álvares
Vinhal, Fernando
Miyajima, Fábio
Faoro, Helisson
Khouri, Ricardo
Wallau, Gabriel Luz
Delatorre, Edson
Siqueira, Marilda Mendonça
Resende, Paola Cristina
author_role author
author2 Bello, Gonzalo
Naveca, Felipe Gomes
Gomes, Marcelo
Cardoso, Vanessa Leiko Oikawa
Silva, Alexandre Freitas da
Dezordi, Filipe Zimmer
Santos, Mirleide Cordeiro dos
Santos, Katia Correa de Oliveira
Batista, Érika Lopes Rocha
Magalhães, Alessandro Leonardo Álvares
Vinhal, Fernando
Miyajima, Fábio
Faoro, Helisson
Khouri, Ricardo
Wallau, Gabriel Luz
Delatorre, Edson
Siqueira, Marilda Mendonça
Resende, Paola Cristina
author2_role author
author
author
author
author
author
author
author
author
author
author
author
author
author
author
author
author
author
dc.contributor.author.fl_str_mv Graf, Tiago
Bello, Gonzalo
Naveca, Felipe Gomes
Gomes, Marcelo
Cardoso, Vanessa Leiko Oikawa
Silva, Alexandre Freitas da
Dezordi, Filipe Zimmer
Santos, Mirleide Cordeiro dos
Santos, Katia Correa de Oliveira
Batista, Érika Lopes Rocha
Magalhães, Alessandro Leonardo Álvares
Vinhal, Fernando
Miyajima, Fábio
Faoro, Helisson
Khouri, Ricardo
Wallau, Gabriel Luz
Delatorre, Edson
Siqueira, Marilda Mendonça
Resende, Paola Cristina
dc.subject.other.pt_BR.fl_str_mv SARS-CoV-2
COVID-19
Linhagem P.2
Linhagem Gamma
topic SARS-CoV-2
COVID-19
Linhagem P.2
Linhagem Gamma
Lineage P.2
Lineage Gamma
Disease Transmission, Infectious
Pandemics
Communicable Period
Transmisión de Enfermedad Infecciosa
Pandemias
Periodo de Transmisión
Transmission de maladie infectieuse
Pandémies
Période de Transmission
Transmissão de Doença Infecciosa
Pandemias
Período de Transmissibilidade
dc.subject.en.pt_BR.fl_str_mv Lineage P.2
Lineage Gamma
Disease Transmission, Infectious
Pandemics
Communicable Period
dc.subject.es.pt_BR.fl_str_mv Transmisión de Enfermedad Infecciosa
Pandemias
Periodo de Transmisión
dc.subject.fr.pt_BR.fl_str_mv Transmission de maladie infectieuse
Pandémies
Période de Transmission
dc.subject.decs.pt_BR.fl_str_mv Transmissão de Doença Infecciosa
Pandemias
Período de Transmissibilidade
description Fundação Oswaldo Cruz. Instituto Gonçalo Moniz. Salvador, BA, Brasil.
publishDate 2022
dc.date.accessioned.fl_str_mv 2022-05-02T16:17:12Z
dc.date.available.fl_str_mv 2022-05-02T16:17:12Z
dc.date.issued.fl_str_mv 2022
dc.type.status.fl_str_mv info:eu-repo/semantics/publishedVersion
dc.type.driver.fl_str_mv info:eu-repo/semantics/article
format article
status_str publishedVersion
dc.identifier.citation.fl_str_mv GRAF, Tiago et al. Phylogenetic-based inference reveals distinct transmission dynamics of SARS-CoV-2 lineages Gamma and P.2 in Brazil. iScience, v. 25 n. 104156 , p. 1–16, 2022.
dc.identifier.uri.fl_str_mv https://www.arca.fiocruz.br/handle/icict/52502
dc.identifier.issn.pt_BR.fl_str_mv 2589-0042
dc.identifier.doi.none.fl_str_mv 10.1016/ j.isci.2022.104156
identifier_str_mv GRAF, Tiago et al. Phylogenetic-based inference reveals distinct transmission dynamics of SARS-CoV-2 lineages Gamma and P.2 in Brazil. iScience, v. 25 n. 104156 , p. 1–16, 2022.
2589-0042
10.1016/ j.isci.2022.104156
url https://www.arca.fiocruz.br/handle/icict/52502
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dc.rights.driver.fl_str_mv info:eu-repo/semantics/openAccess
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dc.publisher.none.fl_str_mv Cell Press
publisher.none.fl_str_mv Cell Press
dc.source.none.fl_str_mv reponame:Repositório Institucional da FIOCRUZ (ARCA)
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institution FIOCRUZ
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