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Evolutionary Dynamics and Dissemination Pattern of the SARS-CoV-2 Lineage B.1.1.33 During the Early Pandemic Phase in Brazil.
Resende, Paola Cristina; Delatorre, Edson; Gräf, Tiago; Mir, Daiana; Motta, Fernando Couto; Appolinario, Luciana Reis; da Paixão, Anna Carolina Dias; Mendonça, Ana Carolina da Fonseca; Ogrzewalska, Maria; Caetano, Braulia; Wallau, Gabriel Luz; Docena, Cássia; Dos Santos, Mirleide Cordeiro; de Almeida Ferreira, Jessylene; Sousa Junior, Edivaldo Costa; da Silva, Sandro Patroca; Fernandes, Sandra Bianchini; Vianna, Lucas Alves; Souza, Larissa da Costa; Ferro, Jean F G; Nardy, Vanessa B; Santos, Cliomar A; Riediger, Irina; do Carmo Debur, Maria; Croda, Júlio; Oliveira, Wanderson K; Abreu, André; Bello, Gonzalo; Siqueira, Marilda M.
  • Resende PC; Laboratory of Respiratory Viruses and Measles, Oswaldo Cruz Institute (IOC), Oswaldo Cruz Foundation (FIOCRUZ), SARS-CoV-2 National Reference Laboratory for the Brazilian Ministry of Health (MoH) and Regional Reference Laboratory in Americas for the Pan-American Health Organization (PAHO/WHO), Rio d
  • Delatorre E; Departamento de Biologia, Centro de Ciencias Exatas, Naturais e da Saude, Universidade Federal do Espirito Santo, Alegre, Brazil.
  • Gräf T; Instituto Gonçalo Moniz, Fundação Oswaldo Cruz, Salvador, Brazil.
  • Mir D; Unidad de Genomica y Bioinformatica, Centro Universitario Regional del Litoral Norte, Universidad de la Republica, Salto, Uruguay.
  • Motta FC; Laboratory of Respiratory Viruses and Measles, Oswaldo Cruz Institute (IOC), Oswaldo Cruz Foundation (FIOCRUZ), SARS-CoV-2 National Reference Laboratory for the Brazilian Ministry of Health (MoH) and Regional Reference Laboratory in Americas for the Pan-American Health Organization (PAHO/WHO), Rio d
  • Appolinario LR; Laboratory of Respiratory Viruses and Measles, Oswaldo Cruz Institute (IOC), Oswaldo Cruz Foundation (FIOCRUZ), SARS-CoV-2 National Reference Laboratory for the Brazilian Ministry of Health (MoH) and Regional Reference Laboratory in Americas for the Pan-American Health Organization (PAHO/WHO), Rio d
  • da Paixão ACD; Laboratory of Respiratory Viruses and Measles, Oswaldo Cruz Institute (IOC), Oswaldo Cruz Foundation (FIOCRUZ), SARS-CoV-2 National Reference Laboratory for the Brazilian Ministry of Health (MoH) and Regional Reference Laboratory in Americas for the Pan-American Health Organization (PAHO/WHO), Rio d
  • Mendonça ACDF; Laboratory of Respiratory Viruses and Measles, Oswaldo Cruz Institute (IOC), Oswaldo Cruz Foundation (FIOCRUZ), SARS-CoV-2 National Reference Laboratory for the Brazilian Ministry of Health (MoH) and Regional Reference Laboratory in Americas for the Pan-American Health Organization (PAHO/WHO), Rio d
  • Ogrzewalska M; Laboratory of Respiratory Viruses and Measles, Oswaldo Cruz Institute (IOC), Oswaldo Cruz Foundation (FIOCRUZ), SARS-CoV-2 National Reference Laboratory for the Brazilian Ministry of Health (MoH) and Regional Reference Laboratory in Americas for the Pan-American Health Organization (PAHO/WHO), Rio d
  • Caetano B; Laboratory of Respiratory Viruses and Measles, Oswaldo Cruz Institute (IOC), Oswaldo Cruz Foundation (FIOCRUZ), SARS-CoV-2 National Reference Laboratory for the Brazilian Ministry of Health (MoH) and Regional Reference Laboratory in Americas for the Pan-American Health Organization (PAHO/WHO), Rio d
  • Wallau GL; Instituto Aggeu Magalhaes, Fundação Oswaldo Cruz, Recife, Brazil.
  • Docena C; Instituto Aggeu Magalhaes, Fundação Oswaldo Cruz, Recife, Brazil.
  • Dos Santos MC; Instituto Evandro Chagas, Belem, Para.
  • de Almeida Ferreira J; Instituto Evandro Chagas, Belem, Para.
  • Sousa Junior EC; Instituto Evandro Chagas, Belem, Para.
  • da Silva SP; Instituto Evandro Chagas, Belem, Para.
  • Fernandes SB; Laboratorio Central de Saude Publica do Estado de Santa Catarina (LACEN-SC), Florianopolis, Brazil.
  • Vianna LA; Laboratorio Central de Saude Publica do Estado Espirito Santo (LACEN-ES), Vitoria, Brazil.
  • Souza LDC; Laboratorio Central de Saude Publica do Distrito Federal (LACEN-DF), Brazilia, Brazil.
  • Ferro JFG; Laboratorio Central de Saude Publica de Alagoas (LACEN-AL), Maceio, Brazil.
  • Nardy VB; Laboratorio Central de Saude Publica da Bahia (LACEN-BA), Salvador, Brazil.
  • Santos CA; Laboratorio Central de Saude Publica de Sergipe (LACEN-SE), Aracaju, Brazil.
  • Riediger I; Laboratorio Central de Saude Publica de Parana (LACEN-PR), Curitiba, Brazil.
  • do Carmo Debur M; Laboratorio Central de Saude Publica de Parana (LACEN-PR), Curitiba, Brazil.
  • Croda J; Fiocruz Mato Grosso do Sul, Campo Grande, Brazil.
  • Oliveira WK; Universidade Federal de Mato Grosso do Sul - UFMS, Campo Grande, Brazil.
  • Abreu A; Hospital das Forças Armadas, Ministério da Defesa, Brasília, Brazil.
  • Bello G; Coordenadoria Geral de Laboratorios - Ministério da Saude, Brazilia, Brazil.
  • Siqueira MM; Laboratorio de AIDS e Imunologia Molecular, Instituto Oswaldo Cruz, Fiocruz, Rio de Janeiro, Brazil.
Front Microbiol ; 11: 615280, 2020.
Article in English | MEDLINE | ID: covidwho-1120950
ABSTRACT
A previous study demonstrates that most of severe acute respiratory syndrome coronavirus-2 (SARS-CoV-2) Brazilian strains fell in three local clades that were introduced from Europe around late February 2020. Here we investigated in more detail the origin of the major and most widely disseminated SARS-CoV-2 Brazilian lineage B.1.1.33. We recovered 190 whole viral genomes collected from 13 Brazilian states from February 29 to April 31, 2020 and combined them with other B.1.1 genomes collected globally. Our genomic survey confirms that lineage B.1.1.33 is responsible for a variable fraction of the community viral transmissions in Brazilian states, ranging from 2% of all SARS-CoV-2 genomes from Pernambuco to 80% of those from Rio de Janeiro. We detected a moderate prevalence (5-18%) of lineage B.1.1.33 in some South American countries and a very low prevalence (<1%) in North America, Europe, and Oceania. Our study reveals that lineage B.1.1.33 evolved from an ancestral clade, here designated B.1.1.33-like, that carries one of the two B.1.1.33 synapomorphic mutations. The B.1.1.33-like lineage may have been introduced from Europe or arose in Brazil in early February 2020 and a few weeks later gave origin to the lineage B.1.1.33. These SARS-CoV-2 lineages probably circulated during February 2020 and reached all Brazilian regions and multiple countries around the world by mid-March, before the implementation of air travel restrictions in Brazil. Our phylodynamic analysis also indicates that public health interventions were partially effective to control the expansion of lineage B.1.1.33 in Rio de Janeiro because its median effective reproductive number (R e ) was drastically reduced by about 66% during March 2020, but failed to bring it to below one. Continuous genomic surveillance of lineage B.1.1.33 might provide valuable information about epidemic dynamics and the effectiveness of public health interventions in some Brazilian states.
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Full text: Available Collection: International databases Database: MEDLINE Type of study: Observational study Country/Region as subject: South America / Brazil Language: English Journal: Front Microbiol Year: 2020 Document Type: Article

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Full text: Available Collection: International databases Database: MEDLINE Type of study: Observational study Country/Region as subject: South America / Brazil Language: English Journal: Front Microbiol Year: 2020 Document Type: Article