Viruses (Jul 2022)
The Divergent Pattern of SARS-CoV-2 Variant Predominance and Transmission Dynamics in the Brazilian Island of Ilhabela
- Vincent Louis Viala,
- Svetoslav Nanev Slavov,
- Loyze Paola Oliveira de Lima,
- Alex Ranieri Jeronimo Lima,
- Gabriela Ribeiro,
- Antonio Jorge Martins,
- Bruna Petry,
- Cecilia Artico Banho,
- Claudia Renata dos Santos Barros,
- Cristina Tschorny Moncau,
- Debora Botequio Moretti,
- Debora Glenda Lima de La-Roque,
- Elaine Cristina Marqueze,
- Elisangela Chicaroni Mattos,
- Felipe Allan da Silva da Costa,
- Heidge Fukumasu,
- Jardelina de Souza Todao Bernardino,
- Jayme A. Souza-Neto,
- Jessika Cristina Chagas Lesbon,
- Lara Passos Kayanoki,
- Leandro Lombo Bernardo,
- Lívia Sacchetto,
- Luan Gaspar Clemente,
- Luiz Carlos Júnior Alcantara,
- Luiz Lehmann Coutinho,
- Beatriz de Carvalho Marques,
- Marta Giovanetti,
- Maurício Lacerda Nogueira,
- Mirele Daiana Poleti,
- Patricia Akemi Assato,
- Pedro De Queiroz Cattony Neto,
- Raquel de Lello Rocha Campos Cassano,
- Raul Machado Neto,
- Rejane Maria Tommasini Grotto,
- Ricardo Augusto Brassaloti,
- Simone Kashima,
- Dimas Tadeu Covas,
- Maria Carolina Elias,
- Sandra Coccuzzo Sampaio
Affiliations
- Vincent Louis Viala
- Butantan Institute, São Paulo 05503-900, SP, Brazil
- Svetoslav Nanev Slavov
- Blood Center of Ribeirão Preto, Ribeirão Preto Medical School, University of São Paulo, Ribeirão Preto 14049-900, SP, Brazil
- Loyze Paola Oliveira de Lima
- Butantan Institute, São Paulo 05503-900, SP, Brazil
- Alex Ranieri Jeronimo Lima
- Butantan Institute, São Paulo 05503-900, SP, Brazil
- Gabriela Ribeiro
- Butantan Institute, São Paulo 05503-900, SP, Brazil
- Antonio Jorge Martins
- Butantan Institute, São Paulo 05503-900, SP, Brazil
- Bruna Petry
- Centro de Genômica Funcional da ESALQ, University of São Paulo, Piracicaba 13418-900, SP, Brazil
- Cecilia Artico Banho
- Medicine School of São José do Rio Preto (FAMERP), São José do Rio Preto 15090-000, SP, Brazil
- Claudia Renata dos Santos Barros
- Butantan Institute, São Paulo 05503-900, SP, Brazil
- Cristina Tschorny Moncau
- Centro de Genômica Funcional da ESALQ, University of São Paulo, Piracicaba 13418-900, SP, Brazil
- Debora Botequio Moretti
- Butantan Institute, São Paulo 05503-900, SP, Brazil
- Debora Glenda Lima de La-Roque
- Blood Center of Ribeirão Preto, Ribeirão Preto Medical School, University of São Paulo, Ribeirão Preto 14049-900, SP, Brazil
- Elaine Cristina Marqueze
- Butantan Institute, São Paulo 05503-900, SP, Brazil
- Elisangela Chicaroni Mattos
- Department of Veterinary Medicine, School of Animal Science and Food Engineering, University of Sao Paulo, Pirassununga 13635-900, SP, Brazil
- Felipe Allan da Silva da Costa
- Department of Bioprocesses and Biotechnology, School of Agricultural Sciences, São Paulo State University (UNESP), Botucatu 18610-034, SP, Brazil
- Heidge Fukumasu
- Department of Veterinary Medicine, School of Animal Science and Food Engineering, University of Sao Paulo, Pirassununga 13635-900, SP, Brazil
- Jardelina de Souza Todao Bernardino
- Butantan Institute, São Paulo 05503-900, SP, Brazil
- Jayme A. Souza-Neto
- School of Agricultural Sciences, São Paulo State University (UNESP), Botucatu 18610-034, SP, Brazil
- Jessika Cristina Chagas Lesbon
- Department of Veterinary Medicine, School of Animal Science and Food Engineering, University of Sao Paulo, Pirassununga 13635-900, SP, Brazil
- Lara Passos Kayanoki
- Vigilância Epidemiológica de Ilhabela, Ilhabela 11630-000, SP, Brazil
- Leandro Lombo Bernardo
- Hospital Mario Covas Junior, Ilhabela 11630-000, SP, Brazil
- Lívia Sacchetto
- Medicine School of São José do Rio Preto (FAMERP), São José do Rio Preto 15090-000, SP, Brazil
- Luan Gaspar Clemente
- Centro de Genômica Funcional da ESALQ, University of São Paulo, Piracicaba 13418-900, SP, Brazil
- Luiz Carlos Júnior Alcantara
- Instituto de Ciências Biológicas, Universidade Federal de Minas Gerais, Belo Horizonte 31270-901, MG, Brazil
- Luiz Lehmann Coutinho
- Centro de Genômica Funcional da ESALQ, University of São Paulo, Piracicaba 13418-900, SP, Brazil
- Beatriz de Carvalho Marques
- Medicine School of São José do Rio Preto (FAMERP), São José do Rio Preto 15090-000, SP, Brazil
- Marta Giovanetti
- Reference Laboratory of Flavivirus, Oswaldo Cruz Foundation, Rio de Janeiro 21040-360, RJ, Brazil
- Maurício Lacerda Nogueira
- Medicine School of São José do Rio Preto (FAMERP), São José do Rio Preto 15090-000, SP, Brazil
- Mirele Daiana Poleti
- Department of Veterinary Medicine, School of Animal Science and Food Engineering, University of Sao Paulo, Pirassununga 13635-900, SP, Brazil
- Patricia Akemi Assato
- Department of Bioprocesses and Biotechnology, School of Agricultural Sciences, São Paulo State University (UNESP), Botucatu 18610-034, SP, Brazil
- Pedro De Queiroz Cattony Neto
- Butantan Institute, São Paulo 05503-900, SP, Brazil
- Raquel de Lello Rocha Campos Cassano
- Centro de Genômica Funcional da ESALQ, University of São Paulo, Piracicaba 13418-900, SP, Brazil
- Raul Machado Neto
- Butantan Institute, São Paulo 05503-900, SP, Brazil
- Rejane Maria Tommasini Grotto
- School of Agricultural Sciences, São Paulo State University (UNESP), Botucatu 18610-034, SP, Brazil
- Ricardo Augusto Brassaloti
- Centro de Genômica Funcional da ESALQ, University of São Paulo, Piracicaba 13418-900, SP, Brazil
- Simone Kashima
- Blood Center of Ribeirão Preto, Ribeirão Preto Medical School, University of São Paulo, Ribeirão Preto 14049-900, SP, Brazil
- Dimas Tadeu Covas
- Butantan Institute, São Paulo 05503-900, SP, Brazil
- Maria Carolina Elias
- Butantan Institute, São Paulo 05503-900, SP, Brazil
- Sandra Coccuzzo Sampaio
- Butantan Institute, São Paulo 05503-900, SP, Brazil
- DOI
- https://doi.org/10.3390/v14071481
- Journal volume & issue
-
Vol. 14,
no. 7
p. 1481
Abstract
Our effort in SARS-CoV-2 genomic surveillance in Brazil has detected the Alpha Variant of Concern with a predominance higher than 75% in the population of Ilhabela island (São Paulo State) at a time when the Gamma VOC was already predominating the mainland raised concerns for closer surveillance on this island. Therefore, we intensified the surveillance for 24 weeks by generating data from 34% of local positive cases. Our data show that the patterns of VOC predominance dynamics and infection rates were in general distinct from the mainland. We report here the first known case of Alpha predominance in a Brazilian population, a delay greater than 3 months for the Gamma to dominate the previous variants compared to the mainland, and a faster dispersion rate of Gamma and Delta VOCs compared to the mainland. Phylogenetic analysis revealed the SARS-CoV-2 transmission dynamics in Ilhabela were characterized by multiple independent introduction events of Gamma and Delta, with a few events of Alpha introduction, two of them followed by community transmission. This study evidenced the peculiar behavior of SARS-CoV-2 variants in an isolated population and brought to light the importance of specific programs for SARS-CoV-2 genomic surveillance in isolated populations.
Keywords
