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Genomics and epidemiology of the P.1 SARS-CoV-2 lineage in Manaus, Brazil.
Faria, Nuno R; Mellan, Thomas A; Whittaker, Charles; Claro, Ingra M; Candido, Darlan da S; Mishra, Swapnil; Crispim, Myuki A E; Sales, Flavia C S; Hawryluk, Iwona; McCrone, John T; Hulswit, Ruben J G; Franco, Lucas A M; Ramundo, Mariana S; de Jesus, Jaqueline G; Andrade, Pamela S; Coletti, Thais M; Ferreira, Giulia M; Silva, Camila A M; Manuli, Erika R; Pereira, Rafael H M; Peixoto, Pedro S; Kraemer, Moritz U G; Gaburo, Nelson; Camilo, Cecilia da C; Hoeltgebaum, Henrique; Souza, William M; Rocha, Esmenia C; de Souza, Leandro M; de Pinho, Mariana C; Araujo, Leonardo J T; Malta, Frederico S V; de Lima, Aline B; Silva, Joice do P; Zauli, Danielle A G; Ferreira, Alessandro C de S; Schnekenberg, Ricardo P; Laydon, Daniel J; Walker, Patrick G T; Schlüter, Hannah M; Dos Santos, Ana L P; Vidal, Maria S; Del Caro, Valentina S; Filho, Rosinaldo M F; Dos Santos, Helem M; Aguiar, Renato S; Proença-Modena, José L; Nelson, Bruce; Hay, James A; Monod, Mélodie; Miscouridou, Xenia.
  • Faria NR; MRC Centre for Global Infectious Disease Analysis, School of Public Health, Imperial College London, London, UK. n.faria@imperial.ac.uk samir.bhatt@sund.ku.dk sabinoec@usp.br.
  • Mellan TA; The Abdul Latif Jameel Institute for Disease and Emergency Analytics (J-IDEA), School of Public Health, Imperial College London, London, UK.
  • Whittaker C; Instituto de Medicina Tropical, Faculdade de Medicina da Universidade de São Paulo, São Paulo, Brazil.
  • Claro IM; Department of Zoology, University of Oxford, Oxford, UK.
  • Candido DDS; MRC Centre for Global Infectious Disease Analysis, School of Public Health, Imperial College London, London, UK.
  • Mishra S; The Abdul Latif Jameel Institute for Disease and Emergency Analytics (J-IDEA), School of Public Health, Imperial College London, London, UK.
  • Crispim MAE; MRC Centre for Global Infectious Disease Analysis, School of Public Health, Imperial College London, London, UK.
  • Sales FCS; The Abdul Latif Jameel Institute for Disease and Emergency Analytics (J-IDEA), School of Public Health, Imperial College London, London, UK.
  • Hawryluk I; Instituto de Medicina Tropical, Faculdade de Medicina da Universidade de São Paulo, São Paulo, Brazil.
  • McCrone JT; Departamento de Moléstias Infecciosas e Parasitárias, Faculdade de Medicina da Universidade de São Paulo, São Paulo, Brazil.
  • Hulswit RJG; Instituto de Medicina Tropical, Faculdade de Medicina da Universidade de São Paulo, São Paulo, Brazil.
  • Franco LAM; Department of Zoology, University of Oxford, Oxford, UK.
  • Ramundo MS; MRC Centre for Global Infectious Disease Analysis, School of Public Health, Imperial College London, London, UK.
  • de Jesus JG; The Abdul Latif Jameel Institute for Disease and Emergency Analytics (J-IDEA), School of Public Health, Imperial College London, London, UK.
  • Andrade PS; Fundação Hospitalar de Hematologia e Hemoterapia, Manaus, Brazil.
  • Coletti TM; Diretoria de Ensino e Pesquisa, Fundação Hospitalar de Hematologia e Hemoterapia, Manaus, Brazil.
  • Ferreira GM; Instituto de Medicina Tropical, Faculdade de Medicina da Universidade de São Paulo, São Paulo, Brazil.
  • Silva CAM; Departamento de Moléstias Infecciosas e Parasitárias, Faculdade de Medicina da Universidade de São Paulo, São Paulo, Brazil.
  • Manuli ER; MRC Centre for Global Infectious Disease Analysis, School of Public Health, Imperial College London, London, UK.
  • Pereira RHM; The Abdul Latif Jameel Institute for Disease and Emergency Analytics (J-IDEA), School of Public Health, Imperial College London, London, UK.
  • Peixoto PS; Institute of Evolutionary Biology, University of Edinburgh, Edinburgh, UK.
  • Kraemer MUG; Division of Structural Biology, Wellcome Centre for Human Genetics, University of Oxford, Oxford, UK.
  • Gaburo N; Instituto de Medicina Tropical, Faculdade de Medicina da Universidade de São Paulo, São Paulo, Brazil.
  • Camilo CDC; Departamento de Moléstias Infecciosas e Parasitárias, Faculdade de Medicina da Universidade de São Paulo, São Paulo, Brazil.
  • Hoeltgebaum H; Instituto de Medicina Tropical, Faculdade de Medicina da Universidade de São Paulo, São Paulo, Brazil.
  • Souza WM; Departamento de Moléstias Infecciosas e Parasitárias, Faculdade de Medicina da Universidade de São Paulo, São Paulo, Brazil.
  • Rocha EC; Instituto de Medicina Tropical, Faculdade de Medicina da Universidade de São Paulo, São Paulo, Brazil.
  • de Souza LM; Departamento de Moléstias Infecciosas e Parasitárias, Faculdade de Medicina da Universidade de São Paulo, São Paulo, Brazil.
  • de Pinho MC; Departamento de Epidemiologia, Faculdade de Saúde Pública da Universidade de São Paulo, Sao Paulo, Brazil.
  • Araujo LJT; Instituto de Medicina Tropical, Faculdade de Medicina da Universidade de São Paulo, São Paulo, Brazil.
  • Malta FSV; Departamento de Moléstias Infecciosas e Parasitárias, Faculdade de Medicina da Universidade de São Paulo, São Paulo, Brazil.
  • de Lima AB; Laboratório de Virologia, Instituto de Ciências Biomédicas, Universidade Federal de Uberlândia, Uberlândia, Brazil.
  • Silva JDP; Instituto de Medicina Tropical, Faculdade de Medicina da Universidade de São Paulo, São Paulo, Brazil.
  • Zauli DAG; Departamento de Moléstias Infecciosas e Parasitárias, Faculdade de Medicina da Universidade de São Paulo, São Paulo, Brazil.
  • Ferreira ACS; Instituto de Medicina Tropical, Faculdade de Medicina da Universidade de São Paulo, São Paulo, Brazil.
  • Schnekenberg RP; Departamento de Moléstias Infecciosas e Parasitárias, Faculdade de Medicina da Universidade de São Paulo, São Paulo, Brazil.
  • Laydon DJ; Institute for Applied Economic Research-Ipea, Brasília, Brazil.
  • Walker PGT; Institute of Mathematics and Statistics, University of São Paulo, São Paulo, Brazil.
  • Schlüter HM; Department of Zoology, University of Oxford, Oxford, UK.
  • Dos Santos ALP; DB Diagnósticos do Brasil, São Paulo, Brazil.
  • Vidal MS; DB Diagnósticos do Brasil, São Paulo, Brazil.
  • Del Caro VS; Department of Mathematics, Imperial College London, London, UK.
  • Filho RMF; Virology Research Centre, Ribeirão Preto Medical School, University of São Paulo, Ribeirão Preto, SP, Brazil.
  • Dos Santos HM; Instituto de Medicina Tropical, Faculdade de Medicina da Universidade de São Paulo, São Paulo, Brazil.
  • Aguiar RS; Departamento de Moléstias Infecciosas e Parasitárias, Faculdade de Medicina da Universidade de São Paulo, São Paulo, Brazil.
  • Proença-Modena JL; Instituto de Medicina Tropical, Faculdade de Medicina da Universidade de São Paulo, São Paulo, Brazil.
  • Nelson B; Departamento de Moléstias Infecciosas e Parasitárias, Faculdade de Medicina da Universidade de São Paulo, São Paulo, Brazil.
  • Hay JA; Instituto de Medicina Tropical, Faculdade de Medicina da Universidade de São Paulo, São Paulo, Brazil.
  • Monod M; Departamento de Moléstias Infecciosas e Parasitárias, Faculdade de Medicina da Universidade de São Paulo, São Paulo, Brazil.
  • Miscouridou X; Laboratory of Quantitative Pathology, Center of Pathology, Adolfo Lutz Institute, São Paulo, Brazil.
Science ; 372(6544): 815-821, 2021 05 21.
Article in English | MEDLINE | ID: covidwho-1186201
Semantic information from SemMedBD (by NLM)
1. ACE2 gene|ACE2 PART_OF Homo sapiens
Subject
ACE2 gene|ACE2
Predicate
PART_OF
Object
Homo sapiens
2. Mutation PROCESS_OF M Protei
Subject
Mutation
Predicate
PROCESS_OF
Object
M Protei
3. ACE2 gene|ACE2 PART_OF Homo sapiens
Subject
ACE2 gene|ACE2
Predicate
PART_OF
Object
Homo sapiens
4. Mutation PROCESS_OF M Protein, multiple myeloma
Subject
Mutation
Predicate
PROCESS_OF
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M Protein, multiple myeloma
ABSTRACT
Cases of severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) infection in Manaus, Brazil, resurged in late 2020 despite previously high levels of infection. Genome sequencing of viruses sampled in Manaus between November 2020 and January 2021 revealed the emergence and circulation of a novel SARS-CoV-2 variant of concern. Lineage P.1 acquired 17 mutations, including a trio in the spike protein (K417T, E484K, and N501Y) associated with increased binding to the human ACE2 (angiotensin-converting enzyme 2) receptor. Molecular clock analysis shows that P.1 emergence occurred around mid-November 2020 and was preceded by a period of faster molecular evolution. Using a two-category dynamical model that integrates genomic and mortality data, we estimate that P.1 may be 1.7- to 2.4-fold more transmissible and that previous (non-P.1) infection provides 54 to 79% of the protection against infection with P.1 that it provides against non-P.1 lineages. Enhanced global genomic surveillance of variants of concern, which may exhibit increased transmissibility and/or immune evasion, is critical to accelerate pandemic responsiveness.
Subject(s)

Full text: Available Collection: International databases Database: MEDLINE Main subject: Communicable Diseases, Emerging / Spike Glycoprotein, Coronavirus / SARS-CoV-2 / COVID-19 Type of study: Screening study Topics: Variants Limits: Humans Country/Region as subject: South America / Brazil Language: English Journal: Science Year: 2021 Document Type: Article

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Full text: Available Collection: International databases Database: MEDLINE Main subject: Communicable Diseases, Emerging / Spike Glycoprotein, Coronavirus / SARS-CoV-2 / COVID-19 Type of study: Screening study Topics: Variants Limits: Humans Country/Region as subject: South America / Brazil Language: English Journal: Science Year: 2021 Document Type: Article