Advanced search
Start date
Betweenand
(Reference retrieved automatically from Web of Science through information on FAPESP grant and its corresponding number as mentioned in the publication by the authors.)

Genomics and epidemiology of the P.1 SARS-CoV-2 lineage in Manaus, Brazil

Full text
Author(s):
Show less -
Faria, Nuno R. [1, 2, 3, 4] ; Mellan, Thomas A. [2, 4] ; Whittaker, Charles [2, 4] ; Claro, Ingra M. [3, 5] ; Candido, Darlan da S. [1, 3] ; Mishra, Swapnil [2, 4] ; Crispim, Myuki A. E. [6, 7] ; Sales, Flavia C. [3, 5] ; Hawryluk, Iwona [2, 4] ; McCrone, John T. [8] ; Hulswit, Ruben J. G. [9] ; Franco, Lucas A. M. [3, 5] ; Ramundo, Mariana S. [3, 5] ; de Jesus, Jaqueline G. [3, 5] ; Andrade, Pamela S. [10] ; Coletti, Thais M. [3, 5] ; Ferreira, Giulia M. [11] ; Silva, Camila A. M. [3, 5] ; Manuli, Erika R. [3, 5] ; Pereira, Rafael H. M. [12] ; Peixoto, Pedro S. [13] ; Kraemer, Moritz U. [1] ; Gaburo, Jr., Nelson [14] ; Camilo, Cecilia da C. [14] ; Hoeltgebaum, Henrique [15] ; Souza, William M. [16] ; Rocha, Esmenia C. [3, 5] ; de Souza, Leandro M. [3, 5] ; de Pinho, Mariana C. [3, 5] ; Araujo, Leonardo J. T. [17] ; Malta, V, Frederico S. ; de Lima, Aline B. [18] ; Silva, Joice do P. [18] ; Zauli, Danielle A. G. [18] ; Ferreira, Alessandro C. de S. [18] ; Schnekenberg, Ricardo P. [19] ; Laydon, Daniel J. [2, 4] ; Walker, Patrick G. T. [2, 4] ; Schlueter, Hannah M. [15] ; dos Santos, Ana L. P. [20] ; Vidal, Maria S. [20] ; Del Caro, Valentina S. [20] ; Filho, Rosinaldo M. F. [20] ; dos Santos, Helem M. [20] ; Aguiar, Renato S. [21] ; Proenca-Modena, Jose L. P. [22] ; Nelson, Bruce [23] ; Hay, James A. [24, 25] ; Monod, Melodie [15] ; Miscouridou, Xenia [15] ; Coupland, Helen [2, 4] ; Sonabend, Raphael [2, 4] ; Vollmer, Michaela [2, 4] ; Gandy, Axel [15] ; Prete, Jr., Carlos A. [26] ; Nascimento, Vitor H. [26] ; Suchard, Marc A. [27, 28] ; Bowden, Thomas A. [9] ; Pond, Sergei L. K. [29] ; Wu, Chieh-Hsi [30] ; Ratmann, Oliver [15] ; Ferguson, Neil M. [2, 4] ; Dye, Christopher [1] ; Loman, Nick J. [31] ; Lemey, Philippe [32] ; Rambaut, Andrew [8] ; Fraiji, Nelson A. [33, 6] ; Carvalho, Maria do P. S. S. [33, 6] ; Pybus, Oliver G. [1, 34] ; Flaxman, Seth [15] ; Bhatt, Samir [2, 4, 35] ; Sabino, Ester C. [3, 5]
Total Authors: 72
Affiliation:
Show less -
[1] Univ Oxford, Dept Zool, Oxford - England
[2] Imperial Coll London, MRC Ctr Global Infect Dis Anal, Sch Publ Hlth, London - England
[3] Univ Sao Paulo, Inst Med Trop, Fac Med, Sao Paulo - Brazil
[4] Imperial Coll London, Abdul Latif Lamed Inst Dis & Emergency Analyt J I, Sch Publ Hlth, London - England
[5] Univ Sao Paulo, Fac Med, Dept Molestias Infecciosas & Parasitaries, Sao Paulo - Brazil
[6] Fundacao Hosp Hematol & Hemoterapia, Manaus, Amazonas - Brazil
[7] Fundacao Hosp Hematol & Hemoterapia, Ensino & Pesquisa, Manaus, Amazonas - Brazil
[8] Univ Edinburgh, Inst Evolutionary Biol, Edinburgh, Midlothian - Scotland
[9] Univ Oxford, Wellcome Ctr Human Genet, Div Struct Biol, Oxford - England
[10] Univ Sao Paulo, Fac Saude Publ, Dept Epidemiol, Sao Paulo - Brazil
[11] Univ Fed Uberlandia, Inst Ciencias Biomed, Lab Virol, Uberlandia, MG - Brazil
[12] Inst Appl Econ Res IPEA, Brasilia, DF - Brazil
[13] Univ Sao Paulo, Inst Math & Stat, Sao Paulo - Brazil
[14] DB Diagndst Brasil, Sao Paulo - Brazil
[15] Imperial Coll London, Dept Math, London - England
[16] Univ Sao Paulo, Ribeirao Preto Med Sch, Virol Res Ctr, Ribeirao Preto, SP - Brazil
[17] Adolfo Lutz Inst, Ctr Pathol, Lab Quantitat Pathol, Sao Paulo - Brazil
[18] Malta, Frederico S., V, Inst Hermes Pardini, Belo Horizonte, MG - Brazil
[19] Univ Oxford, Nuffield Dept Clin Neurosci, Oxford - England
[20] CDL Lab Santos & Vidal, Manaus, Amazonas - Brazil
[21] Univ Fed Minas Gerais, Inst Ciencias Biol, Dept Genet Ecol & Evolucao, Belo Horizonte, MG - Brazil
[22] Univ Estadual Campinas, UNICAMP, Inst Biol, Dept Genet Evolut Microbiol & Immunol, Lab Emergin, Sao Paulo - Brazil
[23] Inst Nacl de Pesquisas da Amazonia, Manaus, Amazonas - Brazil
[24] Harvard TH Chan Sch Publ Hlth, Dept Epidemiol, Boston, MA - USA
[25] Harvard TH Chan Sch Publ Hlth, Ctr Communicable Dis Dynam, Boston, MA - USA
[26] Univ Sao Paulo, Escola Politecn, Dept Engn Sistemas Eletron, Sao Paulo - Brazil
[27] Univ Calif Los Angeles, Dept Biomath, Dept Blostat, Los Angeles, CA - USA
[28] Univ Calif Los Angeles, Dept Human Genet, Los Angeles, CA - USA
[29] Temple Univ, Inst Genom & Evolutionary Med, Philadelphia, PA 19122 - USA
[30] Univ Southampton, Math Sci, Southampton, Hants - England
[31] Univ Birmingham, Inst Microbiol & Infect, Birmingham, W Midlands - England
[32] Katholieke Univ Leuven, Rega Inst, Dept Microbiol Immunol & Transplantat, Leuven - Belgium
[33] Fundacao Hosp Hematol & Hemoterapia Amazonas, Manaus, Amazonas - Brazil
[34] Royal Vet Coll, Dept Pathobiol & Populat Sci, London - England
[35] Univ Copenhagen, Sect Epidemiol, Dept Publ Hlth, Copenhagen - Denmark
Total Affiliations: 35
Document type: Journal article
Source: Science; v. 372, n. 6544, p. 815+, MAY 21 2021.
Web of Science Citations: 90
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. (AU)

FAPESP's process: 18/12579-7 - ELIOT: enabling technologies for IoT
Grantee:Vitor Heloiz Nascimento
Support type: Research Projects - Thematic Grants
FAPESP's process: 17/13981-0 - Characterization, genomics and diagnostic of viruses with importance for public health in Brazil by high throughput sequencing
Grantee:William Marciel de Souza
Support type: Scholarships in Brazil - Post-Doctorate
FAPESP's process: 19/12000-1 - Modeling of the spatiotemporal dispersion of emergent arboviruses using heterogeneous data sources in the State of São Paulo
Grantee:Jaqueline Goes de Jesus
Support type: Scholarships in Brazil - Post-Doctorate
FAPESP's process: 20/04558-0 - Characterization of intrinsic risk factors and the development of new diagnostic and treatment alternatives for COVID-19
Grantee:José Luiz Proença Módena
Support type: Regular Research Grants
FAPESP's process: 19/21568-1 - Identification of Yellow Fever and Chikungunya in mosquitoes captured in the state of Sao Paulo
Grantee:Mariana Cardoso de Pinho
Support type: Scholarships in Brazil - Scientific Initiation
FAPESP's process: 16/18445-7 - Numerical methods for the next generation weather and climate models
Grantee:Pedro da Silva Peixoto
Support type: Research Grants - Young Investigators Grants
FAPESP's process: 19/21301-5 - Flavivirus and Alphavirus identification in mosquitoes (Diptera: Culicidae) collected in the city of São Paulo
Grantee:Camila Alves Maia da Silva
Support type: Scholarships in Brazil - Scientific Initiation
FAPESP's process: 18/17176-8 - Real-time, rapid detection and sequencing of arboviruses in Brazil: Zika, Dengue, Chikungunya and Yellow Fever
Grantee:Ingra Morales Claro
Support type: Scholarships in Brazil - Doctorate (Direct)
FAPESP's process: 19/24251-9 - Multi-omic approaches for the study of Chikungunya disease
Grantee:William Marciel de Souza
Support type: Scholarships abroad - Research Internship - Post-doctor
FAPESP's process: 19/21858-0 - Combinations of rank-one Volterra models
Grantee:Carlos Augusto Prete Junior
Support type: Scholarships in Brazil - Doctorate
FAPESP's process: 18/14389-0 - Brazil-UK Centre for Arbovirus Discovery, Diagnosis, Genomics and Epidemiology (CADDE)
Grantee:Ester Cerdeira Sabino
Support type: Research Projects - Thematic Grants
FAPESP's process: 19/07544-2 - Mosquito field collections and COI barcode identification using MinION technology
Grantee:Thaís de Moura Coletti
Support type: Scholarships in Brazil - Technical Training Program - Technical Training
FAPESP's process: 20/04272-9 - Viral genetics for the identification of arboviruses in the State of São Paulo
Grantee:Leandro Menezes de Souza
Support type: Scholarships in Brazil - Technical Training Program - Technical Training
FAPESP's process: 18/25468-9 - Analysis of the human endogenous retrovirus in HTLV infected patients
Grantee:Flavia Cristina da Silva Sales
Support type: Scholarships in Brazil - Master