Literature DB >> 34280196

Short Report: Early genomic detection of SARS-CoV-2 P.1 variant in Northeast Brazil.

Stephane Tosta1,2, Marta Giovanetti1,3, Vanessa Brandão Nardy2, Luciana Reboredo de Oliveira da Silva2, Marcela Kelly Astete Gómez2, Jaqueline Gomes Lima2, Cristiane Wanderley Cardoso4, Tarcisio Oliveira Silva5, Marcia São Pedro Leal de Souza6, Pedro Henrique Presta Dia7, Vagner Fonseca1,8,9, Tulio de Oliveira9, José Lourenço10, Luiz Carlos Junior Alcantara1,3, Felicidade Pereira2, Arabela Leal2.   

Abstract

Tracking the spread of SARS-CoV-2 variants of concern is crucial to inform public health efforts and control the ongoing pandemic. Here, we report genetic evidence for circulation of the P.1 variant in Northeast Brazil. We advocate for increased active surveillance to ensure adequate control of this variant throughout the country.

Entities:  

Year:  2021        PMID： 34280196     DOI： 10.1371/journal.pntd.0009591

Source DB:  PubMed          Journal:  PLoS Negl Trop Dis        ISSN： 1935-2727


  8 in total

1.  COVID-19 in Amazonas, Brazil, was driven by the persistence of endemic lineages and P.1 emergence.

Authors:  Felipe Gomes Naveca; Valdinete Nascimento; Victor Costa de Souza; André de Lima Corado; Fernanda Nascimento; George Silva; Ágatha Costa; Débora Duarte; Karina Pessoa; Matilde Mejía; Maria Júlia Brandão; Michele Jesus; Luciana Gonçalves; Cristiano Fernandes da Costa; Vanderson Sampaio; Daniel Barros; Marineide Silva; Tirza Mattos; Gemilson Pontes; Ligia Abdalla; João Hugo Santos; Ighor Arantes; Filipe Zimmer Dezordi; Marilda Mendonça Siqueira; Gabriel Luz Wallau; Paola Cristina Resende; Edson Delatorre; Tiago Gräf; Gonzalo Bello
Journal:  Nat Med       Date:  2021-05-25       Impact factor: 53.440

2.  Detection of a SARS-CoV-2 variant of concern in South Africa.

Authors:  Houriiyah Tegally; Eduan Wilkinson; Marta Giovanetti; Arash Iranzadeh; Vagner Fonseca; Jennifer Giandhari; Deelan Doolabh; Sureshnee Pillay; Emmanuel James San; Nokukhanya Msomi; Koleka Mlisana; Anne von Gottberg; Sibongile Walaza; Mushal Allam; Arshad Ismail; Thabo Mohale; Allison J Glass; Susan Engelbrecht; Gert Van Zyl; Wolfgang Preiser; Francesco Petruccione; Alex Sigal; Diana Hardie; Gert Marais; Nei-Yuan Hsiao; Stephen Korsman; Mary-Ann Davies; Lynn Tyers; Innocent Mudau; Denis York; Caroline Maslo; Dominique Goedhals; Shareef Abrahams; Oluwakemi Laguda-Akingba; Arghavan Alisoltani-Dehkordi; Adam Godzik; Constantinos Kurt Wibmer; Bryan Trevor Sewell; José Lourenço; Luiz Carlos Junior Alcantara; Sergei L Kosakovsky Pond; Steven Weaver; Darren Martin; Richard J Lessells; Jinal N Bhiman; Carolyn Williamson; Tulio de Oliveira
Journal:  Nature       Date:  2021-03-09       Impact factor: 49.962

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

Authors:  Nuno R Faria; Thomas A Mellan; Charles Whittaker; Ingra M Claro; Darlan da S Candido; Swapnil Mishra; Oliver G Pybus; Seth Flaxman; Samir Bhatt; Ester C Sabino; Myuki A E Crispim; Flavia C S Sales; Iwona Hawryluk; John T McCrone; Ruben J G Hulswit; Lucas A M Franco; Mariana S Ramundo; Jaqueline G de Jesus; Pamela S Andrade; Thais M Coletti; Giulia M Ferreira; Camila A M Silva; Erika R Manuli; Rafael H M Pereira; Pedro S Peixoto; Moritz U G Kraemer; Nelson Gaburo; Cecilia da C Camilo; Henrique Hoeltgebaum; William M Souza; Esmenia C Rocha; Leandro M de Souza; Mariana C de Pinho; Leonardo J T Araujo; Frederico S V Malta; Aline B de Lima; Joice do P Silva; Danielle A G Zauli; Alessandro C de S Ferreira; Ricardo P Schnekenberg; Daniel J Laydon; Patrick G T Walker; Hannah M Schlüter; Ana L P Dos Santos; Maria S Vidal; Valentina S Del Caro; Rosinaldo M F Filho; Helem M Dos Santos; Renato S Aguiar; José L Proença-Modena; Bruce Nelson; James A Hay; Mélodie Monod; Xenia Miscouridou; Helen Coupland; Raphael Sonabend; Michaela Vollmer; Axel Gandy; Carlos A Prete; Vitor H Nascimento; Marc A Suchard; Thomas A Bowden; Sergei L K Pond; Chieh-Hsi Wu; Oliver Ratmann; Neil M Ferguson; Christopher Dye; Nick J Loman; Philippe Lemey; Andrew Rambaut; Nelson A Fraiji; Maria do P S S Carvalho
Journal:  Science       Date:  2021-04-14       Impact factor: 47.728

4.  Parallelization of MAFFT for large-scale multiple sequence alignments.

Authors:  Tsukasa Nakamura; Kazunori D Yamada; Kentaro Tomii; Kazutaka Katoh
Journal:  Bioinformatics       Date:  2018-07-15       Impact factor: 6.937

5.  Genome Detective: an automated system for virus identification from high-throughput sequencing data.

Authors:  Michael Vilsker; Yumna Moosa; Sam Nooij; Vagner Fonseca; Yoika Ghysens; Korneel Dumon; Raf Pauwels; Luiz Carlos Alcantara; Ewout Vanden Eynden; Anne-Mieke Vandamme; Koen Deforche; Tulio de Oliveira
Journal:  Bioinformatics       Date:  2019-03-01       Impact factor: 6.937

6.  IQ-TREE 2: New Models and Efficient Methods for Phylogenetic Inference in the Genomic Era.

Authors:  Bui Quang Minh; Heiko A Schmidt; Olga Chernomor; Dominik Schrempf; Michael D Woodhams; Arndt von Haeseler; Robert Lanfear
Journal:  Mol Biol Evol       Date:  2020-05-01       Impact factor: 16.240

7.  Escape from neutralizing antibodies by SARS-CoV-2 spike protein variants.

Authors:  Yiska Weisblum; Fabian Schmidt; Fengwen Zhang; Justin DaSilva; Daniel Poston; Julio Cc Lorenzi; Frauke Muecksch; Magdalena Rutkowska; Hans-Heinrich Hoffmann; Eleftherios Michailidis; Christian Gaebler; Marianna Agudelo; Alice Cho; Zijun Wang; Anna Gazumyan; Melissa Cipolla; Larry Luchsinger; Christopher D Hillyer; Marina Caskey; Davide F Robbiani; Charles M Rice; Michel C Nussenzweig; Theodora Hatziioannou; Paul D Bieniasz
Journal:  Elife       Date:  2020-10-28       Impact factor: 8.140

8.  Genomic Evidence of SARS-CoV-2 Reinfection Involving E484K Spike Mutation, Brazil.

Authors:  Carolina K V Nonaka; Marília Miranda Franco; Tiago Gräf; Camila Araújo de Lorenzo Barcia; Renata Naves de Ávila Mendonça; Karoline Almeida Felix de Sousa; Leila M C Neiva; Vagner Fosenca; Ana V A Mendes; Renato Santana de Aguiar; Marta Giovanetti; Bruno Solano de Freitas Souza
Journal:  Emerg Infect Dis       Date:  2021-02-19       Impact factor: 6.883
  8 in total
  4 in total

1.  Structural factors contributing to SARS-CoV-2 infection risk in the urban slum setting.

Authors:  Mariam O Fofana; Nivison Nery; Juan P Aguilar Ticona; Emilia M M A Belitardo; Renato Victoriano; Rôsangela O Anjos; Moyra M Portilho; Mayara C de Santana; Laiara L Dos Santos; Daiana de Oliveira; Jaqueline S Cruz; M Cate Muencker; Ricardo Khouri; Elsio A Wunder; Matthew D T Hitchings; Olatunji Johnson; Mitermayer G Reis; Guilherme S Ribeiro; Derek A T Cummings; Federico Costa; Albert I Ko
Journal:  medRxiv       Date:  2022-02-15

2.  SARS-CoV-2 variant of concern P.1 (Gamma) infection in young and middle-aged patients admitted to the intensive care units of a single hospital in Salvador, Northeast Brazil, February 2021.

Authors:  Carolina Kymie Vasques Nonaka; Tiago Gräf; Camila Araújo de Lorenzo Barcia; Vanessa Ferreira Costa; Janderson Lopes de Oliveira; Rogério da Hora Passos; Iasmin Nogueira Bastos; Maria Clara Brito de Santana; Ian Marinho Santos; Karoline Almeida Felix de Sousa; Thamires Gomes Lopes Weber; Isadora Cristina de Siqueira; Clarissa Araújo Gurgel Rocha; Ana Verena Almeida Mendes; Bruno Solano de Freitas Souza
Journal:  Int J Infect Dis       Date:  2021-08-11       Impact factor: 3.623

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

Authors:  Tiago Gräf; Gonzalo Bello; Felipe Gomes Naveca; Marcelo Gomes; Vanessa Leiko Oikawa Cardoso; Alexandre Freitas da Silva; Filipe Zimmer Dezordi; Mirleide Cordeiro Dos Santos; Katia Correa de Oliveira Santos; Érika Lopes Rocha Batista; Alessandro Leonardo Álvares Magalhães; Fernando Vinhal; Fábio Miyajima; Helisson Faoro; Ricardo Khouri; Gabriel Luz Wallau; Edson Delatorre; Marilda Mendonça Siqueira; Paola Cristina Resende
Journal:  iScience       Date:  2022-03-26

4.  Tracking the turnover of SARS-CoV-2 VOCs Gamma to Delta in a Brazilian state (Minas Gerais) with a high-vaccination status.

Authors:  Paula L C Fonseca; Filipe R R Moreira; Rafael M de Souza; Natália R Guimarães; Nara O Carvalho; Talita E R Adelino; Hugo J Alves; Luige B Alvim; Darlan S Candido; Helena P Coelho; Alana V B Costa; Walyson C Costa; Alex F de Carvalho; Bruna W F de Faria; Aline B de Lima; Eneida S de Oliveira; Carolina S A de Souza; Fernanda G de Souza; Rillery C Dias; Victor E V Geddes; Igor P Godinho; Alessandro L Gonçalves; Karine L Lourenço; Rubens D M Magalhães; Frederico S V Malta; Eva L A Medeiros; Fernanda S Mendes; Pedro H B de P Mendes; Cristiane P T B Mendonça; Andre L Menezes; Diego Menezes; Mariane T Menezes; Lucyene Miguita; Rennan G Moreira; Renata B Peixoto; Daniel C Queiroz; Adriana A Ribeiro; Ana Paula de B Ribeiro; Juliana W Saliba; Hugo I Sato; Joice do P Silva; Natiely P Silva; Nuno R Faria; Santuza M R Teixeira; Flávio G da Fonseca; Ana Paula S M Fernandes; Danielle A G Zauli; José Nélio Januario; Jaqueline S de Oliveira; Felipe C de M Iani; Renato S de Aguiar; Renan P de Souza
Journal:  Virus Evol       Date:  2022-07-27
  4 in total

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