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Data from: Evolution and epidemic spread of SARS-CoV-2 in Brazil

Data from: Evolution and epidemic spread of SARS-CoV-2 in Brazil
Data from: Evolution and epidemic spread of SARS-CoV-2 in Brazil
Brazil currently has one of the fastest growing SARS-CoV-2 epidemics in the world. Owing to limited available data, assessments of the impact of non-pharmaceutical interventions (NPIs) on virus spread remain challenging. Using a mobility-driven transmission model, we show that NPIs reduced the reproduction number from >3 to 1–1.6 in São Paulo and Rio de Janeiro. Sequencing of 427 new genomes and analysis of a geographically representative genomic dataset identified >100 international virus introductions in Brazil. We estimate that most (76%) of the Brazilian strains fell in three clades that were introduced from Europe between 22 February11 March 2020. During the early epidemic phase, we found that SARS-CoV-2 spread mostly locally and within-state borders. After this period, despite sharp decreases in air travel, we estimated multiple exportations from large urban centers that coincided with a 25% increase in average travelled distances in national flights. This study sheds new light on the epidemic transmission and evolutionary trajectories of SARS-CoV-2 lineages in Brazil, and provide evidence that current interventions remain insufficient to keep virus transmission under control in the country.
Zenodo
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(2020) Data from: Evolution and epidemic spread of SARS-CoV-2 in Brazil. Zenodo doi:10.5061/dryad.rxwdbrv5z [Dataset]

Record type: Dataset

Abstract

Brazil currently has one of the fastest growing SARS-CoV-2 epidemics in the world. Owing to limited available data, assessments of the impact of non-pharmaceutical interventions (NPIs) on virus spread remain challenging. Using a mobility-driven transmission model, we show that NPIs reduced the reproduction number from >3 to 1–1.6 in São Paulo and Rio de Janeiro. Sequencing of 427 new genomes and analysis of a geographically representative genomic dataset identified >100 international virus introductions in Brazil. We estimate that most (76%) of the Brazilian strains fell in three clades that were introduced from Europe between 22 February11 March 2020. During the early epidemic phase, we found that SARS-CoV-2 spread mostly locally and within-state borders. After this period, despite sharp decreases in air travel, we estimated multiple exportations from large urban centers that coincided with a 25% increase in average travelled distances in national flights. This study sheds new light on the epidemic transmission and evolutionary trajectories of SARS-CoV-2 lineages in Brazil, and provide evidence that current interventions remain insufficient to keep virus transmission under control in the country.

This record has no associated files available for download.

More information

Published date: 5 August 2020
Related URLs:

Identifiers

Local EPrints ID: 449439
URI: http://eprints.soton.ac.uk/id/eprint/449439
DOI: doi:10.5061/dryad.rxwdbrv5z
PURE UUID: b7dc992c-67d1-40b9-bebc-45cd59344caf
ORCID for Neil M Ferguson: ORCID iD orcid.org/0000-0001-5955-7477
ORCID for Chieh-Hsi Wu: ORCID iD orcid.org/0000-0001-9386-725X

Catalogue record

Date deposited: 28 May 2021 16:32
Last modified: 23 Aug 2023 01:57

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Contributors

Contributor: Camila L. Simeoni
Contributor: Renato S. Aguiar
Contributor: Patricia A. F. Leme
Contributor: Erika R. Manuli
Contributor: Mauricio W. Perroud
Contributor: Louis du Plessis
Contributor: Ana Tereza R. Vasconcelos
Contributor: Pedro S. Peixoto
Contributor: Thaís M. Coletti
Contributor: Renan P. Souza
Contributor: Cristiano X. Lima
Contributor: Nuno R. Faria
Contributor: Camila A. M. da Silva
Contributor: Mariene R. Amorim
Contributor: Darlan S. Candido
Contributor: Jordan Ashworth
Contributor: Giulia M. Ferreira
Contributor: Flavia C. S. Sales
Contributor: Filipe R. R. Moreira
Contributor: Ingra M. Claro
Contributor: Luciana C. Resende-Moreira
Contributor: Nick J. Loman
Contributor: Maria Luiza Moretti
Contributor: Thomas A. Mellan
Contributor: Celso Granato
Contributor: Alexandra L. Gerber
Contributor: Marcilio J. Fumagalli
Contributor: Henrique H. Hoeltgebaum
Contributor: William M. Souza
Contributor: Luiz Almeida
Contributor: Mariana S. Ramundo
Contributor: José Eduardo Levi
Contributor: Camila Zolini de Sá
Contributor: Carolina M. Voloch
Contributor: Jaqueline G. de Jesus
Contributor: Carlos K.V. Braga
Contributor: Ester C. Sabino
Contributor: Silvia F. Costa
Contributor: Sarah C. Hill
Contributor: Julia Forato
Contributor: Philippe Lemey
Contributor: Maurício L. Nogueira
Contributor: Ana Paula de C. Guimarães
Contributor: Helder I. Nakaya
Contributor: Samuel M. Nicholls
Contributor: Angelica Z. Schreiber
Contributor: Mariane T. Menezes
Contributor: Carolina S. Lazari
Contributor: Átila D. Rossi
Contributor: Alessandro C.S. Ferreira
Contributor: Ronaldo S. Francisco
Contributor: Andreza Aruska de Souza Santos
Contributor: Swapnil Mishra
Contributor: Samir Bhatt
Contributor: Simon Dellicour
Contributor: Nelson Gaburo
Contributor: Magnun N. N. Santos
Contributor: Neil M Ferguson ORCID iD
Contributor: Terezinha M. P. P. Castiñeiras
Contributor: Lewis F. Buss
Contributor: Rafael H. M. Pereira
Contributor: Andrew Rambaut
Contributor: Chieh-Hsi Wu ORCID iD
Contributor: Cecila Salete Alencar
Contributor: Mandev S. Gill
Contributor: Oliver G. Pybus
Contributor: Marcia T. Garcia
Contributor: Carlos A. Prete
Contributor: Amilcar Tanuri
Contributor: José Luiz Proenca-Modena
Contributor: Luiz M. Carvalho
Contributor: Oliver J. Brady
Contributor: Andrei C. Sposito
Contributor: Julien Thézé
Contributor: Fabiana Granja
Contributor: Mauro M. Teixeira
Contributor: Josy Hubner
Contributor: Rennan G Moreira

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