Genomic monitoring unveil the early detection of the SARS‐CoV‐2 B.1.351 (beta) variant (20H/501Y.V2) in Brazil
| Autor(a) principal: | |
|---|---|
| Data de Publicação: | 2021 |
| Outros Autores: | , , , , , , , , , , , , , , , , , , , , , , , |
| Tipo de documento: | Artigo |
| Idioma: | eng |
| Título da fonte: | Repositório Institucional da FIOCRUZ (ARCA) |
| Texto Completo: | https://www.arca.fiocruz.br/handle/icict/50786 |
Resumo: | Universidade de São Paulo. Escola de Medicina de Ribeirão Preto. Hemocentro de Ribeirão Preto. Ribeirão Preto, SP, Brasil. |
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Slavov, Svetoslav N.Patané, José S. L.Bezerra, Rafael dos SantosGiovanetti, MartaFonseca, VagnerMartins, Antonio J.Viala, Vincent L.Rodrigues, Evandra S.Santos, Elaine V.Barros, Claudia R. S.Marqueze, Elaine C.Santos, BibianaAburjaile, FlaviaM. Neto, RaulMoretti, Debora B.Haddad, RicardoCalado, Rodrigo T.Kitajima, João P.Freitas, ErikaSchlesinger, DavidAlcantara, Luiz C. Junior deElias, Maria C.Sampaio, Sandra C.Kashima, SimoneCovas, Dimas T.2022-01-17T15:05:28Z2022-01-17T15:05:28Z2021SLAVOV, Svetoslav N. et al. Genomic monitoring unveil the early detection of the SARS‐CoV‐2 B.1.351 (beta) variant (20H/501Y.V2) in Brazil. Journal of Medical Virology, p. 1-6, July 2021.1056-9071https://www.arca.fiocruz.br/handle/icict/5078610.1002/jmv.27190engWileySARS‐CoV‐2B.1.351 linhagemFilogeografiaVariante de preocupaçãoB.1.351 lineagePhylogeographySARS‐CoV‐2Variant of concernGenomic monitoring unveil the early detection of the SARS‐CoV‐2 B.1.351 (beta) variant (20H/501Y.V2) in Brazilinfo:eu-repo/semantics/publishedVersioninfo:eu-repo/semantics/articleUniversidade de São Paulo. Escola de Medicina de Ribeirão Preto. Hemocentro de Ribeirão Preto. Ribeirão Preto, SP, Brasil.Instituto Butantan. São Paulo, SP. Brasil.Universidade de São Paulo. Escola de Medicina de Ribeirão Preto. Hemocentro de Ribeirão Preto. Ribeirão Preto, SP, Brasil.Fundação Oswaldo Cruz. Instituto Oswaldo Cruz. Rio de Janeiro, RJ, Brasil / Universidade Federal de Minas Gerais. Instituto de Ciências Biológicas. Belo Horizonte, MG, Brasil.Universidade Federal de Minas Gerais. Instituto de Ciências Biológicas. Belo Horizonte, MG, Brasil / Ministério da Saúde. Secretaria de Vigilância em Saúde. Coordenação Geral de Laboratórios de Saúde Pública; Brasíllia, DF, Brasil / 6KwaZulu‐Natal Research Innovation and Sequencing Platform (KRISP), University of KwaZulu‐Natal. Durban, South Africa.Instituto Butantan. São Paulo, SP. Brasil.Instituto Butantan. São Paulo, SP. Brasil.Universidade de São Paulo. Escola de Medicina de Ribeirão Preto. Hemocentro de Ribeirão Preto. Ribeirão Preto, SP, Brasil.Universidade de São Paulo. Escola de Medicina de Ribeirão Preto. Hemocentro de Ribeirão Preto. Ribeirão Preto, SP, Brasil.Instituto Butantan. São Paulo, SP. Brasil.Instituto Butantan. São Paulo, SP. Brasil.Mendelics Analise Genomica SA. Sao Paulo, SP, Brasil.Universidade Federal de Minas Gerais. Instituto de Ciências Biológicas. Belo Horizonte, MG, Brasil.Instituto Butantan. São Paulo, SP. Brasil.Instituto Butantan. São Paulo, SP. Brasil.Instituto Butantan. São Paulo, SP. Brasil.Universidade de São Paulo. Escola de Medicina de Ribeirão Preto. Hemocentro de Ribeirão Preto. Ribeirão Preto, SP, Brasil / Universidade de São Paulo. Faculdade de Medicina de Ribeirão Preto, Ribeirão Preto, SP, Brasil.Mendelics Analise Genomica SA. Sao Paulo, Brasil.Mendelics Analise Genomica SA. Sao Paulo, Brasil.Mendelics Analise Genomica SA. Sao Paulo, Brasil.Fundação Oswaldo Cruz. Instituto Oswaldo Cruz. Rio de Janeiro, RJ, Brasil / Universidade Federal de Minas Gerais. Instituto de Ciências Biológicas. Belo Horizonte, MG, Brasil.Instituto Butantan. São Paulo, SP. Brasil.Instituto Butantan. São Paulo, SP. Brasil.Universidade de São Paulo. Escola de Medicina de Ribeirão Preto. Hemocentro de Ribeirão Preto. Ribeirão Preto, SP, Brasil.Universidade de São Paulo. Escola de Medicina de Ribeirão Preto. Hemocentro de Ribeirão Preto. Ribeirão Preto, SP, Brasil / Instituto Butantan. São Paulo, SP. Brasil / Universidade de São Paulo. Escola de Medicina de Ribeirão Preto. Ribeirão Preto, SP, Brasil.Sao Paulo State, currently experiences a second COVID‐19 wave overwhelming the healthcare system. Due to the paucity of SARS‐CoV‐2 complete genome sequencing, we established a Network for Pandemic Alert of Emerging SARS‐CoV‐2 Variants to rapidly understand and monitor the spread of SARS‐CoV‐2 variants into the state. Through analysis of 210 SARS‐CoV‐2 complete genomes obtained from the largest regional health departments we identified cocirculation of multiple SARS‐CoV‐2 lineages such as B.1.1 (0.5%), B.1.1.28 (23.2%), B.1.1.7 (alpha variant, 6.2%), B.1.566 (1.4%), B.1.544 (0.5%), C.37 (0.5%) P.1 (gamma variant, 66.2%), and P.2 (zeta variant, 1.0%). Our analysis allowed also the detection, for the first time in Brazil, the South African B.1.351 (beta) variant of concern, B.1.351 (501Y.V2) (0.5%), characterized by the following mutations: ORF1ab: T265I, R724K, S1612L, K1655N, K3353R, SGF 3675_F3677del, P4715L, E5585D; spike: D80A, D215G, L242_L244del, A262D, K417N, E484K, N501Y, D614G, A701V, C1247F; ORF3a: Q57H, S171L, E: P71L; ORF7b: Y10F, N: T205I; ORF14: L52F. The most recent common ancestor of the identified strain was inferred to be mid‐October to late December 2020. Our analysis demonstrated the P.1 lineage predominance and allowed the early detection of the South African strain for the first time in Brazil. We highlight the importance of SARS‐CoV‐2 active monitoring to ensure the rapid detection of potential variants for pandemic control and vaccination strategies. Highlights Identification of B.1.351 (beta) variant of concern in the Sao Paulo State. Dissemination of SARS‐CoV‐2 variants of concern and interest in the Sao Paulo State. Mutational Profile of the circulating variants of concern and interest.info:eu-repo/semantics/openAccessreponame:Repositório Institucional da FIOCRUZ (ARCA)instname:Fundação Oswaldo Cruz (FIOCRUZ)instacron:FIOCRUZLICENSElicense.txtlicense.txttext/plain; charset=utf-82991https://www.arca.fiocruz.br/bitstream/icict/50786/1/license.txt5a560609d32a3863062d77ff32785d58MD51ORIGINAL4 - Slavov_Svetoslav_etal_IOC_COVID-19_2021.pdf4 - Slavov_Svetoslav_etal_IOC_COVID-19_2021.pdfapplication/pdf1222283https://www.arca.fiocruz.br/bitstream/icict/50786/2/4%20-%20Slavov_Svetoslav_etal_IOC_COVID-19_2021.pdf905fd1f6baea7661d958361187e6f9efMD52icict/507862022-01-17 21:33:04.779oai:www.arca.fiocruz.br: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ório InstitucionalPUBhttps://www.arca.fiocruz.br/oai/requestrepositorio.arca@fiocruz.bropendoar:21352022-01-18T00:33:04Repositório Institucional da FIOCRUZ (ARCA) - Fundação Oswaldo Cruz (FIOCRUZ)false |
| dc.title.pt_BR.fl_str_mv |
Genomic monitoring unveil the early detection of the SARS‐CoV‐2 B.1.351 (beta) variant (20H/501Y.V2) in Brazil |
| title |
Genomic monitoring unveil the early detection of the SARS‐CoV‐2 B.1.351 (beta) variant (20H/501Y.V2) in Brazil |
| spellingShingle |
Genomic monitoring unveil the early detection of the SARS‐CoV‐2 B.1.351 (beta) variant (20H/501Y.V2) in Brazil Slavov, Svetoslav N. SARS‐CoV‐2 B.1.351 linhagem Filogeografia Variante de preocupação B.1.351 lineage Phylogeography SARS‐CoV‐2 Variant of concern |
| title_short |
Genomic monitoring unveil the early detection of the SARS‐CoV‐2 B.1.351 (beta) variant (20H/501Y.V2) in Brazil |
| title_full |
Genomic monitoring unveil the early detection of the SARS‐CoV‐2 B.1.351 (beta) variant (20H/501Y.V2) in Brazil |
| title_fullStr |
Genomic monitoring unveil the early detection of the SARS‐CoV‐2 B.1.351 (beta) variant (20H/501Y.V2) in Brazil |
| title_full_unstemmed |
Genomic monitoring unveil the early detection of the SARS‐CoV‐2 B.1.351 (beta) variant (20H/501Y.V2) in Brazil |
| title_sort |
Genomic monitoring unveil the early detection of the SARS‐CoV‐2 B.1.351 (beta) variant (20H/501Y.V2) in Brazil |
| author |
Slavov, Svetoslav N. |
| author_facet |
Slavov, Svetoslav N. Patané, José S. L. Bezerra, Rafael dos Santos Giovanetti, Marta Fonseca, Vagner Martins, Antonio J. Viala, Vincent L. Rodrigues, Evandra S. Santos, Elaine V. Barros, Claudia R. S. Marqueze, Elaine C. Santos, Bibiana Aburjaile, Flavia M. Neto, Raul Moretti, Debora B. Haddad, Ricardo Calado, Rodrigo T. Kitajima, João P. Freitas, Erika Schlesinger, David Alcantara, Luiz C. Junior de Elias, Maria C. Sampaio, Sandra C. Kashima, Simone Covas, Dimas T. |
| author_role |
author |
| author2 |
Patané, José S. L. Bezerra, Rafael dos Santos Giovanetti, Marta Fonseca, Vagner Martins, Antonio J. Viala, Vincent L. Rodrigues, Evandra S. Santos, Elaine V. Barros, Claudia R. S. Marqueze, Elaine C. Santos, Bibiana Aburjaile, Flavia M. Neto, Raul Moretti, Debora B. Haddad, Ricardo Calado, Rodrigo T. Kitajima, João P. Freitas, Erika Schlesinger, David Alcantara, Luiz C. Junior de Elias, Maria C. Sampaio, Sandra C. Kashima, Simone Covas, Dimas T. |
| author2_role |
author author author author author author author author author author author author author author author author author author author author author author author author |
| dc.contributor.author.fl_str_mv |
Slavov, Svetoslav N. Patané, José S. L. Bezerra, Rafael dos Santos Giovanetti, Marta Fonseca, Vagner Martins, Antonio J. Viala, Vincent L. Rodrigues, Evandra S. Santos, Elaine V. Barros, Claudia R. S. Marqueze, Elaine C. Santos, Bibiana Aburjaile, Flavia M. Neto, Raul Moretti, Debora B. Haddad, Ricardo Calado, Rodrigo T. Kitajima, João P. Freitas, Erika Schlesinger, David Alcantara, Luiz C. Junior de Elias, Maria C. Sampaio, Sandra C. Kashima, Simone Covas, Dimas T. |
| dc.subject.other.pt_BR.fl_str_mv |
SARS‐CoV‐2 B.1.351 linhagem Filogeografia Variante de preocupação |
| topic |
SARS‐CoV‐2 B.1.351 linhagem Filogeografia Variante de preocupação B.1.351 lineage Phylogeography SARS‐CoV‐2 Variant of concern |
| dc.subject.en.pt_BR.fl_str_mv |
B.1.351 lineage Phylogeography SARS‐CoV‐2 Variant of concern |
| description |
Universidade de São Paulo. Escola de Medicina de Ribeirão Preto. Hemocentro de Ribeirão Preto. Ribeirão Preto, SP, Brasil. |
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2021 |
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2021 |
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2022-01-17T15:05:28Z |
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2022-01-17T15:05:28Z |
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info:eu-repo/semantics/publishedVersion |
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SLAVOV, Svetoslav N. et al. Genomic monitoring unveil the early detection of the SARS‐CoV‐2 B.1.351 (beta) variant (20H/501Y.V2) in Brazil. Journal of Medical Virology, p. 1-6, July 2021. |
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https://www.arca.fiocruz.br/handle/icict/50786 |
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1056-9071 |
| dc.identifier.doi.none.fl_str_mv |
10.1002/jmv.27190 |
| identifier_str_mv |
SLAVOV, Svetoslav N. et al. Genomic monitoring unveil the early detection of the SARS‐CoV‐2 B.1.351 (beta) variant (20H/501Y.V2) in Brazil. Journal of Medical Virology, p. 1-6, July 2021. 1056-9071 10.1002/jmv.27190 |
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Wiley |
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Wiley |
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