1
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de La-Roque DGL, Santos EV, Oliveira RAM, Slavov SN, Rodrigues ES, Fonseca V, Martins AJ, Giomo DB, Torres PMA, Gentil DCD, Catoia EA, Chiquito NDC, Medeiros APSS, Yamamoto AY, Passos LMR, Calado RT, Barros CRDS, Elias MC, Sampaio SC, Giovanetti M, Junior Alcantara LC, Covas DT, Kashima S. DENV-1 genotype V circulation during the nonepidemic period in the Northeast of São Paulo State endemic area. J Med Virol 2024; 96:e29526. [PMID: 38483059 DOI: 10.1002/jmv.29526] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/27/2023] [Revised: 01/29/2024] [Accepted: 02/29/2024] [Indexed: 04/21/2024]
Affiliation(s)
- Debora Glenda Lima de La-Roque
- Blood Center of Ribeirão Preto, Ribeirão Preto, São Paulo, Brazil
- Medical School of Ribeirão Preto, Ribeirão Preto, São Paulo, Brazil
| | - Elaine Vieira Santos
- Blood Center of Ribeirão Preto, Ribeirão Preto, São Paulo, Brazil
- Butantan Institute, São Paulo, Brazil
| | | | - Svetoslav Nanev Slavov
- Blood Center of Ribeirão Preto, Ribeirão Preto, São Paulo, Brazil
- Butantan Institute, São Paulo, Brazil
| | | | - Vagner Fonseca
- Pan-American Health Organization (PAHO)/World Health Organization (WHO), Brasilia, Brazil
| | | | - Denise Bergamaschi Giomo
- Departamento de Vigilância em Saúde, Divisão de Vigilância Epidemiológica, Ribeirão Preto, Brazil
| | | | | | - Erika Aparecida Catoia
- Departamento de Vigilância em Saúde, Divisão de Vigilância Epidemiológica, Ribeirão Preto, Brazil
| | | | | | | | | | - Rodrigo Tocantins Calado
- Blood Center of Ribeirão Preto, Ribeirão Preto, São Paulo, Brazil
- Medical School of Ribeirão Preto, Ribeirão Preto, São Paulo, Brazil
| | | | | | | | - Marta Giovanetti
- Sciences and Technologies for Sustainable Development and One Health, University of Campus Bio-Medico, Rome, Italy
- Universidade Federal de Minas Gerais, Belo Horizonte, Brazil
| | | | - Dimas T Covas
- Blood Center of Ribeirão Preto, Ribeirão Preto, São Paulo, Brazil
- Medical School of Ribeirão Preto, Ribeirão Preto, São Paulo, Brazil
| | - Simone Kashima
- Blood Center of Ribeirão Preto, Ribeirão Preto, São Paulo, Brazil
- Medical School of Ribeirão Preto, Ribeirão Preto, São Paulo, Brazil
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2
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Banho CA, de Carvalho Marques B, Sacchetto L, Sepedro Lima AK, Pereira Parra MC, Jeronimo Lima AR, Ribeiro G, Jorge Martins A, dos Santos Barros CR, Carolina Elias M, Coccuzzo Sampaio S, Nanev Slavov S, Strazza Rodrigues E, Vieira Santos E, Tadeu Covas D, Kashima S, Augusto Brassaloti R, Petry B, Gaspar Clemente L, Lehmann Coutinho L, Akemi Assato P, da Silva da Costa FA, Souza-Neto JA, Maria Tommasini Grotto R, Daiana Poleti M, Cristina Chagas Lesbon J, Chicaroni Mattos E, Fukumasu H, Giovanetti M, Carlos Junior Alcantara L, Rahal P, Pessoa Araújo JF, Althouse BM, Vasilakis N, Lacerda Nogueira M. Dynamic clade transitions and the influence of vaccine rollout on the spatiotemporal circulation of SARS-CoV-2 variants in São Paulo, Brazil. Res Sq 2024:rs.3.rs-3788142. [PMID: 38343798 PMCID: PMC10854302 DOI: 10.21203/rs.3.rs-3788142/v1] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Indexed: 02/21/2024]
Abstract
Since 2021, the emergence of variants of concern (VOC) has led Brazil to experience record numbers of in COVID-19 cases and deaths. The expanded spread of the SARS-CoV-2 combined with a low vaccination rate has contributed to the emergence of new mutations that may enhance viral fitness, leading to the persistence of the disease. Due to limitations in the real-time genomic monitoring of new variants in some Brazilian states, we aimed to investigate whether genomic surveillance, coupled with epidemiological data and SARS-CoV-2 variants spatiotemporal spread in a smaller region, can reflect the pandemic progression at a national level. Our findings revealed three SARS-CoV-2 variant replacements from 2021 to early 2022, corresponding to the introduction and increase in the frequency of Gamma, Delta, and Omicron variants, as indicated by peaks of the Effective Reproductive Number (Reff). These distinct clade replacements triggered two waves of COVID-19 cases, influenced by the increasing vaccine uptake over time. Our results indicated that the effectiveness of vaccination in preventing new cases during the Delta and Omicron circulations was six and eleven times higher, respectively, than during the period when Gamma was predominant, and it was highly efficient in reducing the number of deaths. Furthermore, we demonstrated that genomic monitoring at a local level can reflect the national trends in the spread and evolution of SARS-CoV-2.
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Affiliation(s)
- Cecília Artico Banho
- Laboratório de Pesquisas em Virologia, Faculdade de Medicina de São José do Rio Preto; São José do Rio Preto, São Paulo, Brazil
| | - Beatriz de Carvalho Marques
- Laboratório de Pesquisas em Virologia, Faculdade de Medicina de São José do Rio Preto; São José do Rio Preto, São Paulo, Brazil
| | - Lívia Sacchetto
- Laboratório de Pesquisas em Virologia, Faculdade de Medicina de São José do Rio Preto; São José do Rio Preto, São Paulo, Brazil
| | - Ana Karoline Sepedro Lima
- Laboratório de Pesquisas em Virologia, Faculdade de Medicina de São José do Rio Preto; São José do Rio Preto, São Paulo, Brazil
| | - Maisa Carla Pereira Parra
- Laboratório de Pesquisas em Virologia, Faculdade de Medicina de São José do Rio Preto; São José do Rio Preto, São Paulo, Brazil
| | - Alex Ranieri Jeronimo Lima
- Center for Viral Surveillance and Serological Assessment (CeVIVAS), Butantan Institute, São Paulo, Brazil
| | - Gabriela Ribeiro
- Center for Viral Surveillance and Serological Assessment (CeVIVAS), Butantan Institute, São Paulo, Brazil
| | - Antonio Jorge Martins
- Center for Viral Surveillance and Serological Assessment (CeVIVAS), Butantan Institute, São Paulo, Brazil
| | | | - Maria Carolina Elias
- Center for Viral Surveillance and Serological Assessment (CeVIVAS), Butantan Institute, São Paulo, Brazil
| | - Sandra Coccuzzo Sampaio
- Center for Viral Surveillance and Serological Assessment (CeVIVAS), Butantan Institute, São Paulo, Brazil
| | - Svetoslav Nanev Slavov
- Center for Viral Surveillance and Serological Assessment (CeVIVAS), Butantan Institute, São Paulo, Brazil
- University of São Paulo, Ribeirão Preto Medical School, Blood Center of Ribeirão Preto, Ribeirão Preto, SP, Brazil
| | - Evandra Strazza Rodrigues
- University of São Paulo, Ribeirão Preto Medical School, Blood Center of Ribeirão Preto, Ribeirão Preto, SP, Brazil
| | - Elaine Vieira Santos
- University of São Paulo, Ribeirão Preto Medical School, Blood Center of Ribeirão Preto, Ribeirão Preto, SP, Brazil
| | - Dimas Tadeu Covas
- Center for Viral Surveillance and Serological Assessment (CeVIVAS), Butantan Institute, São Paulo, Brazil
- University of São Paulo, Ribeirão Preto Medical School, Blood Center of Ribeirão Preto, Ribeirão Preto, SP, Brazil
| | - Simone Kashima
- University of São Paulo, Ribeirão Preto Medical School, Blood Center of Ribeirão Preto, Ribeirão Preto, SP, Brazil
| | | | - Bruna Petry
- University of São Paulo, Centro de Genômica Funcional da ESALQ, Piracicaba, SP, Brazil
| | - Luan Gaspar Clemente
- University of São Paulo, Centro de Genômica Funcional da ESALQ, Piracicaba, SP, Brazil
| | - Luiz Lehmann Coutinho
- University of São Paulo, Centro de Genômica Funcional da ESALQ, Piracicaba, SP, Brazil
| | - Patricia Akemi Assato
- São Paulo State University (UNESP), School of Agricultural Sciences, Department of Bioprocesses and Biotechnology, Botucatu, Brazil
| | - Felipe Allan da Silva da Costa
- São Paulo State University (UNESP), School of Agricultural Sciences, Department of Bioprocesses and Biotechnology, Botucatu, Brazil
| | - Jayme A. Souza-Neto
- São Paulo State University (UNESP), School of Agricultural Sciences, Botucatu, Brazil
| | - Rejane Maria Tommasini Grotto
- São Paulo State University (UNESP), School of Agricultural Sciences, Botucatu, Brazil
- Molecular Biology Laboratory, Applied Biotechnology Laboratory, Clinical Hospital of the Botucatu Medical School, Brazil
| | - Mirele Daiana Poleti
- Department of Veterinary Medicine, School of Animal Science and Food Engineering, University of São Paulo, Pirassununga, São Paulo, Brazil
| | - Jessika Cristina Chagas Lesbon
- Department of Veterinary Medicine, School of Animal Science and Food Engineering, University of São Paulo, Pirassununga, São Paulo, Brazil
| | - Elisangela Chicaroni Mattos
- Department of Veterinary Medicine, School of Animal Science and Food Engineering, University of São Paulo, Pirassununga, São Paulo, Brazil
| | - Heidge Fukumasu
- Department of Veterinary Medicine, School of Animal Science and Food Engineering, University of São Paulo, Pirassununga, São Paulo, Brazil
| | - Marta Giovanetti
- Oswaldo Cruz Foundation, FIOCRUZ, Rio de Janeiro, Brazil
- Climate Amplified Diseases And Epidemics (CLIMADE), Brazil, Americas
- Sciences and Technologies for Sustainable Development and One Health, Universita Campus Bio-Medico di Roma, Italy
| | - Luiz Carlos Junior Alcantara
- Oswaldo Cruz Foundation, FIOCRUZ, Rio de Janeiro, Brazil
- Climate Amplified Diseases And Epidemics (CLIMADE), Brazil, Americas
| | - Paula Rahal
- Laboratório de Estudos Genômicos, Departamento de Biologia, Instituto de Biociências Letras e Ciências Exatas (IBILCE), Universidade Estadual Paulista (Unesp), São José do Rio Preto, Brazil
| | - João Fernando Pessoa Araújo
- Instituto de Biotecnologia, Universidade Estadual Paulista (Unesp), Botucatu, Brazil
- Laboratório de Microbiologia Molecular, Instituto de Ciências da Saúde, Universidade Feevale, Novo Hamburgo, Brazil
| | - Benjamin M. Althouse
- Department of Biology, New Mexico State University, Las Cruces, NM
- Information School, University of Washington, Seattle, WA
| | - Nikos Vasilakis
- Department of Pathology, University of Texas Medical Branch; Galveston, Texas, United States of America
- Center for Vector-Borne and Zoonotic Diseases, University of Texas Medical Branch, Galveston, Texas, United States of America
- Institute for Human Infection and Immunity, University of Texas Medical Branch, Galveston, Texas, United States of America
| | - Maurício Lacerda Nogueira
- Laboratório de Pesquisas em Virologia, Faculdade de Medicina de São José do Rio Preto; São José do Rio Preto, São Paulo, Brazil
- Department of Pathology, University of Texas Medical Branch; Galveston, Texas, United States of America
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3
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Assato PA, Clemente LG, Giovanetti M, Ribeiro G, Lima ARJ, Palmieri M, de Moraes LN, Kashima S, Fukumasu H, Nogueira ML, Alcantara LCJ, Nicolodelli AL, Martins AJ, Petry B, Banho CA, Dos Santos Barros CR, Moncau-Gadbem CT, Moretti DB, De La Roque DGL, Marqueze EC, Mattos EC, Silva FEVD, Da Costa FADS, Cacherik G, De Souza Todao Bernardino J, Lesbon JCC, Sacchetto L, De Lima LPO, Caldeira LAV, Martininghi M, Moraes MM, Poleti MD, Cattony Neto PDQ, Cassano RDLRC, Brassaloti RA, Slavov SN, Viala VL, Coutinho LL, Grotto RMT, Neto RM, Covas DT, Sampaio SC, Elias MC, Souza-Neto JA. Retrospective Insights of the COVID-19 Epidemic in the Major Latin American City, São Paulo, Southeastern Brazil. Viruses 2023; 15:327. [PMID: 36851541 PMCID: PMC9965911 DOI: 10.3390/v15020327] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/14/2022] [Revised: 01/11/2023] [Accepted: 01/12/2023] [Indexed: 01/26/2023] Open
Abstract
São Paulo is the financial center of Brazil, with a population of over 12 million, that receives travelers from all over the world for business and tourism. It was the first city in Brazil to report a case of COVID-19 that rapidly spread across the city despite the implementation of the restriction measures. Despite many reports, much is still unknown regarding the genomic diversity and transmission dynamics of this virus in the city of São Paulo. Thus, in this study, we provide a retrospective overview of the COVID-19 epidemic in São Paulo City, Southeastern, Brazil, by generating a total of 9995 near-complete genome sequences from all the city's different macro-regions (North, West, Central, East, South, and Southeast). Our analysis revealed that multiple independent introduction events of different variants (mainly Gamma, Delta, and Omicron) occurred throughout time. Additionally, our estimates of viral movement within the different macro-regions further suggested that the East and the Southeast regions were the largest contributors to the Gamma and Delta viral exchanges to other regions. Meanwhile, the North region had a higher contribution to the dispersion of the Omicron variant. Together, our results reinforce the importance of increasing SARS-CoV-2 genomic monitoring within the city and the country to track the real-time evolution of the virus and to detect earlier any eventual emergency of new variants of concern that could undermine the fight against COVID-19 in Brazil and worldwide.
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Affiliation(s)
- Patricia Akemi Assato
- School of Agricultural Sciences, São Paulo State University (UNESP), Botucatu 18610-034, Brazil
| | - Luan Gaspar Clemente
- Centro de Genômica Funcional da ESALQ, University of São Paulo, Piracicaba 13418-900, Brazil
| | - Marta Giovanetti
- Instituto Oswaldo Cruz, FIOCRUZ, Rio de Janeiro 21040-360, Brazil
- Instituto de Ciências Biológicas, Universidade Federal de Minas Gerais, Belo Horizonte 31270-901, Brazil
- Department of Science and Technology for Humans and the Environment, University of Campus Bio-Medico di Roma, 00128 Rome, Italy
| | | | | | - Melissa Palmieri
- Health Surveillance Coordination, Sao Paulo Municipal Health Department—Coordenadoria de Vigilância em Saúde—Secretaria Municipal de São Paulo, Sao Paulo 05579-000, Brazil
| | | | - Simone Kashima
- Ribeirão Preto Medical School, Blood Center of Ribeirão Preto, University of São Paulo, Ribeirão Preto 14051-140, Brazil
| | - Heidge Fukumasu
- Department of Veterinary Medicine, School of Animal Science and Food Engineering, University of Sao Paulo, Pirassununga 13635-900, Brazil
| | | | - Luiz Carlos Junior Alcantara
- Instituto Oswaldo Cruz, FIOCRUZ, Rio de Janeiro 21040-360, Brazil
- Instituto de Ciências Biológicas, Universidade Federal de Minas Gerais, Belo Horizonte 31270-901, Brazil
| | - Aline Lais Nicolodelli
- Primary Care Coordination/Sao Paulo Municipal Health Department—Coordenadoria de Atenção Básica—Secretaria Municipal de São Paulo, Sao Paulo 05579-000, Brazil
| | | | - Bruna Petry
- Centro de Genômica Funcional da ESALQ, University of São Paulo, Piracicaba 13418-900, Brazil
| | - Cecilia Artico Banho
- Faculdade de Medicina de São José do Rio Preto (FAMERP), São José do Rio Preto 15090-000, Brazil
| | | | | | | | - Debora Glenda Lima De La Roque
- Ribeirão Preto Medical School, Blood Center of Ribeirão Preto, University of São Paulo, Ribeirão Preto 14051-140, Brazil
| | | | - Elisangela Chicaroni Mattos
- Department of Veterinary Medicine, School of Animal Science and Food Engineering, University of Sao Paulo, Pirassununga 13635-900, Brazil
| | - Fabiana Erica Vilanova Da Silva
- Primary Care Coordination/Sao Paulo Municipal Health Department—Coordenadoria de Atenção Básica—Secretaria Municipal de São Paulo, Sao Paulo 05579-000, Brazil
| | | | - Giselle Cacherik
- Primary Care Coordination/Sao Paulo Municipal Health Department—Coordenadoria de Atenção Básica—Secretaria Municipal de São Paulo, Sao Paulo 05579-000, Brazil
| | | | - Jessika Cristina Chagas Lesbon
- Department of Veterinary Medicine, School of Animal Science and Food Engineering, University of Sao Paulo, Pirassununga 13635-900, Brazil
| | - Lívia Sacchetto
- Faculdade de Medicina de São José do Rio Preto (FAMERP), São José do Rio Preto 15090-000, Brazil
| | | | - Luiz Artur Vieira Caldeira
- Health Surveillance Coordination, Sao Paulo Municipal Health Department—Coordenadoria de Vigilância em Saúde—Secretaria Municipal de São Paulo, Sao Paulo 05579-000, Brazil
| | - Maiara Martininghi
- Health Surveillance Coordination, Sao Paulo Municipal Health Department—Coordenadoria de Vigilância em Saúde—Secretaria Municipal de São Paulo, Sao Paulo 05579-000, Brazil
| | - Marília Mazzi Moraes
- Faculdade de Medicina de São José do Rio Preto (FAMERP), São José do Rio Preto 15090-000, Brazil
| | - Mirele Daiana Poleti
- Department of Veterinary Medicine, School of Animal Science and Food Engineering, University of Sao Paulo, Pirassununga 13635-900, Brazil
| | | | | | | | - Svetoslav Nanev Slavov
- Ribeirão Preto Medical School, Blood Center of Ribeirão Preto, University of São Paulo, Ribeirão Preto 14051-140, Brazil
| | | | - Luiz Lehmann Coutinho
- Centro de Genômica Funcional da ESALQ, University of São Paulo, Piracicaba 13418-900, Brazil
| | - Rejane Maria Tommasini Grotto
- School of Agricultural Sciences, São Paulo State University (UNESP), Botucatu 18610-034, Brazil
- Genomic Surveillance Network, São Paulo State University (UNESP), Sao Paulo 01049-010, Brazil
| | | | - Dimas Tadeu Covas
- Butantan Institute, Sao Paulo 05508-040, Brazil
- Ribeirão Preto Medical School, Blood Center of Ribeirão Preto, University of São Paulo, Ribeirão Preto 14051-140, Brazil
| | | | | | - Jayme A. Souza-Neto
- School of Agricultural Sciences, São Paulo State University (UNESP), Botucatu 18610-034, Brazil
- Genomic Surveillance Network, São Paulo State University (UNESP), Sao Paulo 01049-010, Brazil
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4
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Elias MC, Slavov SN, Lima ARJ, Martins AJ, Barros CRDS, Moretti DB, Araujo EL, Marqueze EC, Ribeiro G, Ribeiro GMF, Bernardino JST, Koser JR, Clemente LG, Crispin LAC, Alcantara LCJ, Coutinho LL, Giovanetti M, Silva QO, Neto RM, Haddad R, Kashima S, Viala VL, Covas DT, Sampaio SC. A traveling SARS-CoV-2 laboratory as part of a pandemic response among vulnerable Brazilian populations. BMC Public Health 2023; 23:15. [PMID: 36597102 PMCID: PMC9810251 DOI: 10.1186/s12889-022-14867-2] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/30/2022] [Accepted: 12/13/2022] [Indexed: 01/05/2023] Open
Abstract
BACKGROUND Brazil has been dramatically hit by the SARS-CoV-2 pandemic and is a world leader in COVID-19 morbidity and mortality. Additionally, the largest country of Latin America has been a continuous source of SARS-CoV-2 variants and shows extraordinary variability of the pandemic strains probably related to the country´s outstanding position as a Latin American economical and transportation hub. Not all regions of the country show sufficient infrastructure for SARS-CoV-2 diagnosis and genotyping which can negatively impact the pandemic response. METHODS Due to this reason and to disburden the diagnostic system of the inner São Paulo State, the Butantan Institute established the Mobile Laboratory (in Portuguese: LabMovel) for SARS-CoV-2 testing which started a trip of the most important "hotspots" of the most populous Brazilian region. The LabMovel initiated in two important cities of the State: Aparecida do Norte (an important religious center) and the Baixada Santista region which incorporates the port of Santos, the busiest in Latin America. The LabMovel was fully equipped with an automatized system for SARS-CoV-2 diagnosis and sequencing/genotyping. It also integrated the laboratory systems for patient records and results divulgation including in the Federal Brazilian Healthcare System. RESULTS Currently,16,678 samples were tested, among them 1,217 from Aparecida and 4,564 from Baixada Santista. We tracked the delta introductio in the tested regions with its high diversification. The established mobile SARS-CoV-2 laboratory had a major impact on the Public Health System of the included cities including timely delivery of the results to the healthcare agents and the Federal Healthcare system, evaluation of the vaccination status of the positive individuals in the background of exponential vaccination process in Brazil and scientific and technological divulgation of the fieldwork to the most vulnerable populations. CONCLUSIONS The SARS-CoV-2 pandemic has demonstrated worldwide the importance of science to fight against this viral agent and the LabMovel shows that it is possible to integrate researchers, clinicians, healthcare workers and patients to take rapid actions that can in fact mitigate this and other epidemiological situations.
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Affiliation(s)
- Maria Carolina Elias
- Instituto Butantan, São Paulo, Brazil. .,Center of Toxins, Immune Response and Cell Signaling - CeTICSInstituto Butantan, São Paulo, 05503-900, Brazil.
| | - Svetoslav Nanev Slavov
- grid.11899.380000 0004 1937 0722University of São Paulo, Ribeirão Preto Medical School, Blood Center of Ribeirão Preto, Ribeirão Preto, Brazil
| | | | | | | | | | | | | | - Gabriela Ribeiro
- grid.418514.d0000 0001 1702 8585Instituto Butantan, São Paulo, Brazil
| | | | | | | | | | | | - Luiz Carlos Junior Alcantara
- grid.418068.30000 0001 0723 0931Instituto René Rachou, Fundação Oswaldo Cruz, Belo Horizonte, Minas Gerais Brazil
| | | | - Marta Giovanetti
- grid.418068.30000 0001 0723 0931Instituto René Rachou, Fundação Oswaldo Cruz, Belo Horizonte, Minas Gerais Brazil
| | | | - Raul Machado Neto
- grid.418514.d0000 0001 1702 8585Instituto Butantan, São Paulo, Brazil
| | - Ricardo Haddad
- grid.418514.d0000 0001 1702 8585Instituto Butantan, São Paulo, Brazil
| | - Simone Kashima
- grid.11899.380000 0004 1937 0722University of São Paulo, Ribeirão Preto Medical School, Blood Center of Ribeirão Preto, Ribeirão Preto, Brazil
| | | | - Dimas Tadeu Covas
- grid.418514.d0000 0001 1702 8585Instituto Butantan, São Paulo, Brazil ,grid.11899.380000 0004 1937 0722University of São Paulo, Ribeirão Preto Medical School, Blood Center of Ribeirão Preto, Ribeirão Preto, Brazil
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5
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Lesbon JCC, Poleti MD, de Mattos Oliveira EC, Patané JSL, Clemente LG, Viala VL, Ribeiro G, Giovanetti M, de Alcantara LCJ, Teixeira O, Nonato MC, de Lima LPO, Martins AJ, dos Santos Barros CR, Marqueze EC, de Souza Todão Bernardino J, Moretti DB, Brassaloti RA, de Lello Rocha Campos Cassano R, Mariani PDSC, Slavov SN, dos Santos RB, Rodrigues ES, Santos EV, Borges JS, de La Roque DGL, Kitajima JP, Santos B, Assato PA, da Silva da Costa FA, Banho CA, Sacchetto L, Moraes MM, Palmieri M, da Silva FEV, Grotto RMT, Souza-Neto JA, Nogueira ML, Coutinho LL, Calado RT, Neto RM, Covas DT, Kashima S, Elias MC, Sampaio SC, Fukumasu H. Correction: Lesbon et al. Nucleocapsid (N) Gene Mutations of SARS-CoV-2 Can Affect Real-Time RT-PCR Diagnostic and Impact False-Negative Results. Viruses 2021, 13, 2474. Viruses 2022; 14:v14091967. [PMID: 36146888 PMCID: PMC9506407 DOI: 10.3390/v14091967] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Download PDF] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/25/2022] [Accepted: 08/26/2022] [Indexed: 11/16/2022] Open
Abstract
The authors hereby request the inclusion of two authors (Olivia Teixeira and Maria Cristina Nonato) in the recently published article in Viruses entitled “Nucleocapsid (N) gene mutations of SARS-CoV-2 can affect real-time RT-PCR diagnostic and impact false-negative results” [...]
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Affiliation(s)
- Jéssika Cristina Chagas Lesbon
- Laboratory of Comparative and Translational Oncology, Department of Veterinary Medicine, School of Animal Science and Food Engineering, University of Sao Paulo, Pirassununga 13635-900, São Paulo, Brazil
| | - Mirele Daiana Poleti
- Laboratory of Comparative and Translational Oncology, Department of Veterinary Medicine, School of Animal Science and Food Engineering, University of Sao Paulo, Pirassununga 13635-900, São Paulo, Brazil
| | - Elisângela Chicaroni de Mattos Oliveira
- Laboratory of Comparative and Translational Oncology, Department of Veterinary Medicine, School of Animal Science and Food Engineering, University of Sao Paulo, Pirassununga 13635-900, São Paulo, Brazil
| | | | - Luan Gaspar Clemente
- Functional Genomic Center, Department of Animal Science, Luiz de Queiroz School of Agriculture, University of Sao Paulo, Piracicaba 13418-900, São Paulo, Brazil
| | | | | | - Marta Giovanetti
- Fundação Oswaldo Cruz, FIOCRUZ, Manguinhos 21040-900, Rio de Janeiro, Brazil
- Institute of Biological Sciences, Federal University of Minas Gerais, Belo Horizonte 31270-901, Minas Gerais, Brazil
| | | | - Olivia Teixeira
- Ribeirao Preto Protein Crystallography Laboratory, School of Pharmaceutical Sciences, University of São Paulo, Ribeirao Preto 14040-903, São Paulo, Brazil
| | - Maria Cristina Nonato
- Ribeirao Preto Protein Crystallography Laboratory, School of Pharmaceutical Sciences, University of São Paulo, Ribeirao Preto 14040-903, São Paulo, Brazil
| | | | | | | | | | | | | | - Ricardo Augusto Brassaloti
- Functional Genomic Center, Department of Animal Science, Luiz de Queiroz School of Agriculture, University of Sao Paulo, Piracicaba 13418-900, São Paulo, Brazil
| | - Raquel de Lello Rocha Campos Cassano
- Functional Genomic Center, Department of Animal Science, Luiz de Queiroz School of Agriculture, University of Sao Paulo, Piracicaba 13418-900, São Paulo, Brazil
| | | | - Svetoslav Nanev Slavov
- Blood Center of Ribeirão Preto, Ribeirão Preto Medical School, University of São Paulo, Ribeirão Preto 14051-060, São Paulo, Brazil
| | - Rafael Bezerra dos Santos
- Blood Center of Ribeirão Preto, Ribeirão Preto Medical School, University of São Paulo, Ribeirão Preto 14051-060, São Paulo, Brazil
| | - Evandra Strazza Rodrigues
- Blood Center of Ribeirão Preto, Ribeirão Preto Medical School, University of São Paulo, Ribeirão Preto 14051-060, São Paulo, Brazil
| | - Elaine Vieira Santos
- Blood Center of Ribeirão Preto, Ribeirão Preto Medical School, University of São Paulo, Ribeirão Preto 14051-060, São Paulo, Brazil
| | - Josiane Serrano Borges
- Blood Center of Ribeirão Preto, Ribeirão Preto Medical School, University of São Paulo, Ribeirão Preto 14051-060, São Paulo, Brazil
| | - Debora Glenda Lima de La Roque
- Blood Center of Ribeirão Preto, Ribeirão Preto Medical School, University of São Paulo, Ribeirão Preto 14051-060, São Paulo, Brazil
| | | | - Bibiana Santos
- Mendelics Genomic Analysis, São Paulo 02511-000, São Paulo, Brazil
| | - Patricia Akemi Assato
- School of Agricultural Sciences, São Paulo State University, Botucatu 18618-970, São Paulo, Brazil
| | | | - Cecilia Artico Banho
- Laboratório de Pesquisas em Virologia, Departamento de Doenças Dermatológicas, Infecciosas e Parasitárias, Faculdade de Medicina de São José do Rio Preto, São José do Rio Preto 15090-000, São Paulo, Brazil
| | - Livia Sacchetto
- Laboratório de Pesquisas em Virologia, Departamento de Doenças Dermatológicas, Infecciosas e Parasitárias, Faculdade de Medicina de São José do Rio Preto, São José do Rio Preto 15090-000, São Paulo, Brazil
| | - Marilia Mazzi Moraes
- Laboratório de Pesquisas em Virologia, Departamento de Doenças Dermatológicas, Infecciosas e Parasitárias, Faculdade de Medicina de São José do Rio Preto, São José do Rio Preto 15090-000, São Paulo, Brazil
| | - Melissa Palmieri
- Coordenação de Vigilância em Saúde—Secretaria Municipal da Saúde, São Paulo 01223-906, São Paulo, Brazil
| | | | | | - Jayme A. Souza-Neto
- School of Agricultural Sciences, São Paulo State University, Botucatu 18618-970, São Paulo, Brazil
| | - Mauricio Lacerda Nogueira
- Laboratório de Pesquisas em Virologia, Departamento de Doenças Dermatológicas, Infecciosas e Parasitárias, Faculdade de Medicina de São José do Rio Preto, São José do Rio Preto 15090-000, São Paulo, Brazil
| | - Luiz Lehman Coutinho
- Functional Genomic Center, Department of Animal Science, Luiz de Queiroz School of Agriculture, University of Sao Paulo, Piracicaba 13418-900, São Paulo, Brazil
| | - Rodrigo Tocantins Calado
- Blood Center of Ribeirão Preto, Ribeirão Preto Medical School, University of São Paulo, Ribeirão Preto 14051-060, São Paulo, Brazil
| | | | - Dimas Tadeu Covas
- Butantan Institute, São Paulo 05503-000, São Paulo, Brazil
- Blood Center of Ribeirão Preto, Ribeirão Preto Medical School, University of São Paulo, Ribeirão Preto 14051-060, São Paulo, Brazil
| | - Simone Kashima
- Blood Center of Ribeirão Preto, Ribeirão Preto Medical School, University of São Paulo, Ribeirão Preto 14051-060, São Paulo, Brazil
| | | | | | - Heidge Fukumasu
- Laboratory of Comparative and Translational Oncology, Department of Veterinary Medicine, School of Animal Science and Food Engineering, University of Sao Paulo, Pirassununga 13635-900, São Paulo, Brazil
- Correspondence: ; Tel.: +55-19-35656864
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6
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Giovanetti M, Slavov SN, Fonseca V, Wilkinson E, Tegally H, Patané JSL, Viala VL, San EJ, Rodrigues ES, Santos EV, Aburjaile F, Xavier J, Fritsch H, Adelino TER, Pereira F, Leal A, Iani FCDM, de Carvalho Pereira G, Vazquez C, Sanabria GME, Oliveira ECD, Demarchi L, Croda J, Dos Santos Bezerra R, Paola Oliveira de Lima L, Martins AJ, Renata Dos Santos Barros C, Marqueze EC, de Souza Todao Bernardino J, Moretti DB, Brassaloti RA, de Lello Rocha Campos Cassano R, Mariani PDSC, Kitajima JP, Santos B, Proto-Siqueira R, Cantarelli VV, Tosta S, Nardy VB, Reboredo de Oliveira da Silva L, Gómez MKA, Lima JG, Ribeiro AA, Guimarães NR, Watanabe LT, Barbosa Da Silva L, da Silva Ferreira R, da Penha MPF, Ortega MJ, de la Fuente AG, Villalba S, Torales J, Gamarra ML, Aquino C, Figueredo GPM, Fava WS, Motta-Castro ARC, Venturini J, do Vale Leone de Oliveira SM, Gonçalves CCM, do Carmo Debur Rossa M, Becker GN, Giacomini MP, Marques NQ, Riediger IN, Raboni S, Mattoso G, Cataneo AD, Zanluca C, Duarte Dos Santos CN, Assato PA, Allan da Silva da Costa F, Poleti MD, Lesbon JCC, Mattos EC, Banho CA, Sacchetto L, Moraes MM, Grotto RMT, Souza-Neto JA, Nogueira ML, Fukumasu H, Coutinho LL, Calado RT, Neto RM, Bispo de Filippis AM, Venancio da Cunha R, Freitas C, Peterka CRL, de Fátima Rangel Fernandes C, Navegantes W, do Carmo Said RF, Campelo de A E Melo CF, Almiron M, Lourenço J, de Oliveira T, Holmes EC, Haddad R, Sampaio SC, Elias MC, Kashima S, Junior de Alcantara LC, Covas DT. Genomic epidemiology of the SARS-CoV-2 epidemic in Brazil. Nat Microbiol 2022; 7:1490-1500. [PMID: 35982313 PMCID: PMC9417986 DOI: 10.1038/s41564-022-01191-z] [Citation(s) in RCA: 40] [Impact Index Per Article: 20.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/07/2021] [Accepted: 06/28/2022] [Indexed: 01/01/2023]
Abstract
The high numbers of COVID-19 cases and deaths in Brazil have made Latin America an epicentre of the pandemic. SARS-CoV-2 established sustained transmission in Brazil early in the pandemic, but important gaps remain in our understanding of virus transmission dynamics at a national scale. We use 17,135 near-complete genomes sampled from 27 Brazilian states and bordering country Paraguay. From March to November 2020, we detected co-circulation of multiple viral lineages that were linked to multiple importations (predominantly from Europe). After November 2020, we detected large, local transmission clusters within the country. In the absence of effective restriction measures, the epidemic progressed, and in January 2021 there was emergence and onward spread, both within and abroad, of variants of concern and variants under monitoring, including Gamma (P.1) and Zeta (P.2). We also characterized a genomic overview of the epidemic in Paraguay and detected evidence of importation of SARS-CoV-2 ancestor lineages and variants of concern from Brazil. Our findings show that genomic surveillance in Brazil enabled assessment of the real-time spread of emerging SARS-CoV-2 variants.
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Affiliation(s)
- Marta Giovanetti
- Laboratório de Flavivirus, Fundacao Oswaldo Cruz, Rio de Janeiro, Brazil
- Laboratório de Genética Celular e Molecular, Instituto de Ciências Biologicas, Universidade Federal de Minas Gerais, Belo Horizonte, Minas Gerais, Brazil
- Department of Science and Technology for Humans and the Environment, University of Campus Bio-Medico di Roma, Rome, Italy
| | - Svetoslav Nanev Slavov
- Blood Center of Ribeirão Preto, Ribeirão Preto Medical School, University of São Paulo, Ribeirão Preto, São Paulo, Brazil
- Butantan Institute, São Paulo, Brazil
| | - Vagner Fonseca
- Laboratório de Genética Celular e Molecular, Instituto de Ciências Biologicas, Universidade Federal de Minas Gerais, Belo Horizonte, Minas Gerais, Brazil
- Pan American Health Organization (PAHO)/World Health Organization (WHO), Brasilia, Distrito Federal, Brazil
- Centre for Epidemic Response and Innovation (CERI), School of Data Science and Computational Thinking, Stellenbosch University, Stellenbosch, South Africa
- KwaZulu-Natal Research Innovation and Sequencing Platform (KRISP), School of Laboratory Medicine and Medical Sciences, University of KwaZulu-Natal, Durban, South Africa
| | - Eduan Wilkinson
- Centre for Epidemic Response and Innovation (CERI), School of Data Science and Computational Thinking, Stellenbosch University, Stellenbosch, South Africa
- KwaZulu-Natal Research Innovation and Sequencing Platform (KRISP), School of Laboratory Medicine and Medical Sciences, University of KwaZulu-Natal, Durban, South Africa
| | - Houriiyah Tegally
- Centre for Epidemic Response and Innovation (CERI), School of Data Science and Computational Thinking, Stellenbosch University, Stellenbosch, South Africa
- KwaZulu-Natal Research Innovation and Sequencing Platform (KRISP), School of Laboratory Medicine and Medical Sciences, University of KwaZulu-Natal, Durban, South Africa
| | | | | | - Emmanuel James San
- Centre for Epidemic Response and Innovation (CERI), School of Data Science and Computational Thinking, Stellenbosch University, Stellenbosch, South Africa
- KwaZulu-Natal Research Innovation and Sequencing Platform (KRISP), School of Laboratory Medicine and Medical Sciences, University of KwaZulu-Natal, Durban, South Africa
| | - Evandra Strazza Rodrigues
- Blood Center of Ribeirão Preto, Ribeirão Preto Medical School, University of São Paulo, Ribeirão Preto, São Paulo, Brazil
| | - Elaine Vieira Santos
- Blood Center of Ribeirão Preto, Ribeirão Preto Medical School, University of São Paulo, Ribeirão Preto, São Paulo, Brazil
| | - Flavia Aburjaile
- Laboratório de Genética Celular e Molecular, Instituto de Ciências Biologicas, Universidade Federal de Minas Gerais, Belo Horizonte, Minas Gerais, Brazil
| | - Joilson Xavier
- Laboratório de Genética Celular e Molecular, Instituto de Ciências Biologicas, Universidade Federal de Minas Gerais, Belo Horizonte, Minas Gerais, Brazil
- Laboratório Central de Saúde Pública do Estado de Minas Gerais (LACEN-MG), Fundação Ezequiel Dias, Belo Horizonte, Minas Gerais, Brazil
| | - Hegger Fritsch
- Laboratório de Genética Celular e Molecular, Instituto de Ciências Biologicas, Universidade Federal de Minas Gerais, Belo Horizonte, Minas Gerais, Brazil
- Laboratório Central de Saúde Pública do Estado de Minas Gerais (LACEN-MG), Fundação Ezequiel Dias, Belo Horizonte, Minas Gerais, Brazil
| | - Talita Emile Ribeiro Adelino
- Laboratório de Genética Celular e Molecular, Instituto de Ciências Biologicas, Universidade Federal de Minas Gerais, Belo Horizonte, Minas Gerais, Brazil
- Laboratório Central de Saúde Pública do Estado de Minas Gerais (LACEN-MG), Fundação Ezequiel Dias, Belo Horizonte, Minas Gerais, Brazil
| | - Felicidade Pereira
- Laboratório Central de Saúde Pública do Estado da Bahia (LACEN-BA), Salvador, Bahia, Brazil
| | - Arabela Leal
- Laboratório Central de Saúde Pública do Estado da Bahia (LACEN-BA), Salvador, Bahia, Brazil
| | - Felipe Campos de Melo Iani
- Laboratório Central de Saúde Pública do Estado de Minas Gerais (LACEN-MG), Fundação Ezequiel Dias, Belo Horizonte, Minas Gerais, Brazil
| | - Glauco de Carvalho Pereira
- Laboratório Central de Saúde Pública do Estado de Minas Gerais (LACEN-MG), Fundação Ezequiel Dias, Belo Horizonte, Minas Gerais, Brazil
| | | | - Gladys Mercedes Estigarribia Sanabria
- Laboratório Central de Salud Pública, Asunción, Paraguay
- Instituto Regional de Investigación em Salud, Universidad Nacional del Caaguazú, Caaguazú, Paraguay
- Laboratório de Biología Molecular, Hospital Regional de Coronel Oviedo, Ministerio de Salud Pública y Bienestar Social, Asunción, Paraguay
| | | | - Luiz Demarchi
- Laboratório Central de Saúde Pública do Estado de Mato Grosso do Sul (LACEN-MS), Campo Grande, Mato Grosso do Sul, Brazil
| | - Julio Croda
- Universidade Federal do Mato Grosso do Sul, Campo Grande, Mato Grosso do Sul, Brazil
| | - Rafael Dos Santos Bezerra
- Blood Center of Ribeirão Preto, Ribeirão Preto Medical School, University of São Paulo, Ribeirão Preto, São Paulo, Brazil
| | | | | | | | | | | | | | | | | | | | | | | | | | - Vlademir Vicente Cantarelli
- Universidade Federal de Ciencias da Saúde de Porto Alegre (UFCSPA), Universidade Feevale, Grupo Exame Laboratórios, Rio Grande do Sul, Brazil
| | - Stephane Tosta
- Laboratório de Genética Celular e Molecular, Instituto de Ciências Biologicas, Universidade Federal de Minas Gerais, Belo Horizonte, Minas Gerais, Brazil
- Laboratório Central de Saúde Pública do Estado da Bahia (LACEN-BA), Salvador, Bahia, Brazil
| | - Vanessa Brandão Nardy
- Laboratório Central de Saúde Pública do Estado da Bahia (LACEN-BA), Salvador, Bahia, Brazil
| | | | | | - Jaqueline Gomes Lima
- Laboratório Central de Saúde Pública do Estado da Bahia (LACEN-BA), Salvador, Bahia, Brazil
| | - Adriana Aparecida Ribeiro
- Laboratório Central de Saúde Pública do Estado de Minas Gerais (LACEN-MG), Fundação Ezequiel Dias, Belo Horizonte, Minas Gerais, Brazil
| | - Natália Rocha Guimarães
- Laboratório Central de Saúde Pública do Estado de Minas Gerais (LACEN-MG), Fundação Ezequiel Dias, Belo Horizonte, Minas Gerais, Brazil
| | - Luiz Takao Watanabe
- Laboratório Central de Saúde Pública do Estado de Mato Grosso (LACEN-MT), Cuiabá, Mato Grosso, Brazil
| | - Luana Barbosa Da Silva
- Laboratório Central de Saúde Pública do Estado de Mato Grosso (LACEN-MT), Cuiabá, Mato Grosso, Brazil
| | - Raquel da Silva Ferreira
- Laboratório Central de Saúde Pública do Estado de Mato Grosso (LACEN-MT), Cuiabá, Mato Grosso, Brazil
| | | | | | | | | | - Juan Torales
- Laboratório Central de Salud Pública, Asunción, Paraguay
| | | | | | - Gloria Patricia Martínez Figueredo
- Laboratório Central de Salud Pública, Asunción, Paraguay
- Instituto Regional de Investigación em Salud, Universidad Nacional del Caaguazú, Caaguazú, Paraguay
- Laboratório de Biología Molecular, Hospital Regional de Coronel Oviedo, Ministerio de Salud Pública y Bienestar Social, Asunción, Paraguay
| | | | | | - James Venturini
- Universidade Federal do Mato Grosso do Sul, Campo Grande, Mato Grosso do Sul, Brazil
| | | | | | | | - Guilherme Nardi Becker
- Laboratório Central de Saúde Pública do Estado do Paraná (Lacen-PR), Curitiba, Paraná, Brazil
| | | | - Nelson Quallio Marques
- Laboratório Central de Saúde Pública do Estado do Paraná (Lacen-PR), Curitiba, Paraná, Brazil
| | | | - Sonia Raboni
- Hospital de Clínicas da Universidade Federal do Paraná, Curitiba, Paraná, Brazil
| | - Gabriela Mattoso
- Laboratório de Virologia Molecular, Instituto Carlos Chagas/Fiocruz-PR, Curitiba, Paraná, Brazil
| | - Allan D Cataneo
- Laboratório de Virologia Molecular, Instituto Carlos Chagas/Fiocruz-PR, Curitiba, Paraná, Brazil
| | - Camila Zanluca
- Laboratório de Virologia Molecular, Instituto Carlos Chagas/Fiocruz-PR, Curitiba, Paraná, Brazil
| | | | - Patricia Akemi Assato
- Department of Bioprocesses and Biotechnology, School of Agricultural Sciences, São Paulo State University (UNESP), Botucatu, São Paulo, Brazil
| | - Felipe Allan da Silva da Costa
- Department of Bioprocesses and Biotechnology, School of Agricultural Sciences, São Paulo State University (UNESP), Botucatu, São Paulo, Brazil
| | - Mirele Daiana Poleti
- Department of Veterinary Medicine, School of Animal Science and Food Engineering, University of São Paulo, Pirassununga, São Paulo, Brazil
| | - Jessika Cristina Chagas Lesbon
- Department of Veterinary Medicine, School of Animal Science and Food Engineering, University of São Paulo, Pirassununga, São Paulo, Brazil
| | - Elisangela Chicaroni Mattos
- Department of Veterinary Medicine, School of Animal Science and Food Engineering, University of São Paulo, Pirassununga, São Paulo, Brazil
| | - Cecilia Artico Banho
- Medicine School of São José do Rio Preto (FAMERP), São José do Rio Preto, São Paulo, Brazil
| | - Lívia Sacchetto
- Medicine School of São José do Rio Preto (FAMERP), São José do Rio Preto, São Paulo, Brazil
| | - Marília Mazzi Moraes
- Medicine School of São José do Rio Preto (FAMERP), São José do Rio Preto, São Paulo, Brazil
| | - Rejane Maria Tommasini Grotto
- Department of Bioprocesses and Biotechnology, School of Agricultural Sciences, São Paulo State University (UNESP), Botucatu, São Paulo, Brazil
- Molecular Biology Laboratory, Applied Biotechnology Laboratory, Clinical Hospital of the Botucatu Medical School, São Paulo, Brazil
| | - Jayme A Souza-Neto
- Department of Bioprocesses and Biotechnology, School of Agricultural Sciences, São Paulo State University (UNESP), Botucatu, São Paulo, Brazil
| | | | - Heidge Fukumasu
- Department of Veterinary Medicine, School of Animal Science and Food Engineering, University of São Paulo, Pirassununga, São Paulo, Brazil
| | - Luiz Lehmann Coutinho
- Centro de Genômica Funcional da ESALQ, University of São Paulo, Piracicaba, São Paulo, Brazil
| | - Rodrigo Tocantins Calado
- Blood Center of Ribeirão Preto, Ribeirão Preto Medical School, University of São Paulo, Ribeirão Preto, São Paulo, Brazil
| | | | | | | | - Carla Freitas
- Coordenação Geral dos Laboratórios de Saúde Pública/Secretaria de Vigilância em Saúde, Ministério da Saúde, (CGLAB/SVS-MS), Brasília, Distrito Federal, Brazil
| | - Cassio Roberto Leonel Peterka
- Coordenação Geral das Arboviroses, Secretaria de Vigilância em Saúde/Ministério da Saúde (CGARB/SVS-MS), Brasília, Distrito Federal, Brazil
| | - Cássia de Fátima Rangel Fernandes
- Departamento de Imunização e Doenças Transmissíveisa/Secretaria de Vigilancia em Saude, Ministerio da Saude, Brasılia, Distrito Federal, Brazil
| | - Wildo Navegantes
- Pan American Health Organization (PAHO)/World Health Organization (WHO), Brasilia, Distrito Federal, Brazil
| | | | | | - Maria Almiron
- Pan American Health Organization (PAHO)/World Health Organization (WHO), Brasilia, Distrito Federal, Brazil
| | - José Lourenço
- Department of Zoology, University of Oxford, Oxford, UK
- Biosystems and Integrative Sciences Institute, Universidade de Lisboa, Lisboa, Portugal
| | - Tulio de Oliveira
- KwaZulu-Natal Research Innovation and Sequencing Platform (KRISP), School of Laboratory Medicine and Medical Sciences, University of KwaZulu-Natal, Durban, South Africa
- Laboratório Central de Saúde Pública do Estado de Minas Gerais (LACEN-MG), Fundação Ezequiel Dias, Belo Horizonte, Minas Gerais, Brazil
- Centre for the AIDS Programme of Research in South Africa (CAPRISA), Durban, South Africa
- Department of Global Health, University of Washington, Seattle, WA, USA
| | - Edward C Holmes
- Marie Bashir Institute for Infectious Diseases and Biosecurity, School of Life and Environmental Sciences and School of Medical Sciences, University of Sydney, Sydney, New South Wales, Australia
| | | | | | | | - Simone Kashima
- Blood Center of Ribeirão Preto, Ribeirão Preto Medical School, University of São Paulo, Ribeirão Preto, São Paulo, Brazil.
| | - Luiz Carlos Junior de Alcantara
- Laboratório de Flavivirus, Fundacao Oswaldo Cruz, Rio de Janeiro, Brazil.
- Laboratório de Genética Celular e Molecular, Instituto de Ciências Biologicas, Universidade Federal de Minas Gerais, Belo Horizonte, Minas Gerais, Brazil.
| | - Dimas Tadeu Covas
- Blood Center of Ribeirão Preto, Ribeirão Preto Medical School, University of São Paulo, Ribeirão Preto, São Paulo, Brazil.
- Butantan Institute, São Paulo, Brazil.
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7
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Viala VL, Slavov SN, de Lima LPO, Lima ARJ, Ribeiro G, Martins AJ, Petry B, Banho CA, Barros CRDS, Moncau CT, Moretti DB, de La-Roque DGL, Marqueze EC, Mattos EC, da Costa FADS, Fukumasu H, Bernardino JDST, Souza-Neto JA, Lesbon JCC, Kayanoki LP, Bernardo LL, Sacchetto L, Clemente LG, Alcantara LCJ, Coutinho LL, Marques BDC, Giovanetti M, Nogueira ML, Poleti MD, Assato PA, Cattony Neto PDQ, Cassano RDLRC, Neto RM, Grotto RMT, Brassaloti RA, Kashima S, Covas DT, Elias MC, Sampaio SC. The Divergent Pattern of SARS-CoV-2 Variant Predominance and Transmission Dynamics in the Brazilian Island of Ilhabela. Viruses 2022; 14:v14071481. [PMID: 35891460 PMCID: PMC9323713 DOI: 10.3390/v14071481] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/18/2022] [Revised: 06/19/2022] [Accepted: 06/30/2022] [Indexed: 02/04/2023] Open
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.
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Affiliation(s)
- Vincent Louis Viala
- Butantan Institute, São Paulo 05503-900, SP, Brazil; (L.P.O.d.L.); (A.R.J.L.); (G.R.); (A.J.M.); (C.R.d.S.B.); (D.B.M.); (E.C.M.); (J.d.S.T.B.); (P.D.Q.C.N.); (R.M.N.); (D.T.C.)
- Correspondence: (V.L.V.); (M.C.E.); (S.C.S.)
| | - Svetoslav Nanev Slavov
- Blood Center of Ribeirão Preto, Ribeirão Preto Medical School, University of São Paulo, Ribeirão Preto 14049-900, SP, Brazil; (S.N.S.); (D.G.L.d.L.-R.); (S.K.)
| | - Loyze Paola Oliveira de Lima
- Butantan Institute, São Paulo 05503-900, SP, Brazil; (L.P.O.d.L.); (A.R.J.L.); (G.R.); (A.J.M.); (C.R.d.S.B.); (D.B.M.); (E.C.M.); (J.d.S.T.B.); (P.D.Q.C.N.); (R.M.N.); (D.T.C.)
| | - Alex Ranieri Jeronimo Lima
- Butantan Institute, São Paulo 05503-900, SP, Brazil; (L.P.O.d.L.); (A.R.J.L.); (G.R.); (A.J.M.); (C.R.d.S.B.); (D.B.M.); (E.C.M.); (J.d.S.T.B.); (P.D.Q.C.N.); (R.M.N.); (D.T.C.)
| | - Gabriela Ribeiro
- Butantan Institute, São Paulo 05503-900, SP, Brazil; (L.P.O.d.L.); (A.R.J.L.); (G.R.); (A.J.M.); (C.R.d.S.B.); (D.B.M.); (E.C.M.); (J.d.S.T.B.); (P.D.Q.C.N.); (R.M.N.); (D.T.C.)
| | - Antonio Jorge Martins
- Butantan Institute, São Paulo 05503-900, SP, Brazil; (L.P.O.d.L.); (A.R.J.L.); (G.R.); (A.J.M.); (C.R.d.S.B.); (D.B.M.); (E.C.M.); (J.d.S.T.B.); (P.D.Q.C.N.); (R.M.N.); (D.T.C.)
| | - Bruna Petry
- Centro de Genômica Funcional da ESALQ, University of São Paulo, Piracicaba 13418-900, SP, Brazil; (B.P.); (C.T.M.); (L.G.C.); (L.L.C.); (R.d.L.R.C.C.); (R.A.B.)
| | - Cecilia Artico Banho
- Medicine School of São José do Rio Preto (FAMERP), São José do Rio Preto 15090-000, SP, Brazil; (C.A.B.); (L.S.); (B.d.C.M.); (M.L.N.)
| | - Claudia Renata dos Santos Barros
- Butantan Institute, São Paulo 05503-900, SP, Brazil; (L.P.O.d.L.); (A.R.J.L.); (G.R.); (A.J.M.); (C.R.d.S.B.); (D.B.M.); (E.C.M.); (J.d.S.T.B.); (P.D.Q.C.N.); (R.M.N.); (D.T.C.)
| | - Cristina Tschorny Moncau
- Centro de Genômica Funcional da ESALQ, University of São Paulo, Piracicaba 13418-900, SP, Brazil; (B.P.); (C.T.M.); (L.G.C.); (L.L.C.); (R.d.L.R.C.C.); (R.A.B.)
| | - Debora Botequio Moretti
- Butantan Institute, São Paulo 05503-900, SP, Brazil; (L.P.O.d.L.); (A.R.J.L.); (G.R.); (A.J.M.); (C.R.d.S.B.); (D.B.M.); (E.C.M.); (J.d.S.T.B.); (P.D.Q.C.N.); (R.M.N.); (D.T.C.)
| | - 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; (S.N.S.); (D.G.L.d.L.-R.); (S.K.)
| | - Elaine Cristina Marqueze
- Butantan Institute, São Paulo 05503-900, SP, Brazil; (L.P.O.d.L.); (A.R.J.L.); (G.R.); (A.J.M.); (C.R.d.S.B.); (D.B.M.); (E.C.M.); (J.d.S.T.B.); (P.D.Q.C.N.); (R.M.N.); (D.T.C.)
| | - Elisangela Chicaroni Mattos
- Department of Veterinary Medicine, School of Animal Science and Food Engineering, University of Sao Paulo, Pirassununga 13635-900, SP, Brazil; (E.C.M.); (H.F.); (J.C.C.L.); (M.D.P.)
| | - 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; (F.A.d.S.d.C.); (P.A.A.)
| | - Heidge Fukumasu
- Department of Veterinary Medicine, School of Animal Science and Food Engineering, University of Sao Paulo, Pirassununga 13635-900, SP, Brazil; (E.C.M.); (H.F.); (J.C.C.L.); (M.D.P.)
| | - Jardelina de Souza Todao Bernardino
- Butantan Institute, São Paulo 05503-900, SP, Brazil; (L.P.O.d.L.); (A.R.J.L.); (G.R.); (A.J.M.); (C.R.d.S.B.); (D.B.M.); (E.C.M.); (J.d.S.T.B.); (P.D.Q.C.N.); (R.M.N.); (D.T.C.)
| | - Jayme A. Souza-Neto
- School of Agricultural Sciences, São Paulo State University (UNESP), Botucatu 18610-034, SP, Brazil; (J.A.S.-N.); (R.M.T.G.)
| | - Jessika Cristina Chagas Lesbon
- Department of Veterinary Medicine, School of Animal Science and Food Engineering, University of Sao Paulo, Pirassununga 13635-900, SP, Brazil; (E.C.M.); (H.F.); (J.C.C.L.); (M.D.P.)
| | | | | | - Lívia Sacchetto
- Medicine School of São José do Rio Preto (FAMERP), São José do Rio Preto 15090-000, SP, Brazil; (C.A.B.); (L.S.); (B.d.C.M.); (M.L.N.)
| | - Luan Gaspar Clemente
- Centro de Genômica Funcional da ESALQ, University of São Paulo, Piracicaba 13418-900, SP, Brazil; (B.P.); (C.T.M.); (L.G.C.); (L.L.C.); (R.d.L.R.C.C.); (R.A.B.)
| | - Luiz Carlos Júnior Alcantara
- Instituto de Ciências Biológicas, Universidade Federal de Minas Gerais, Belo Horizonte 31270-901, MG, Brazil;
- Instituto Oswaldo Cruz, FIOCRUZ, Rio de Janeiro 21040-360, RJ, Brazil
| | - Luiz Lehmann Coutinho
- Centro de Genômica Funcional da ESALQ, University of São Paulo, Piracicaba 13418-900, SP, Brazil; (B.P.); (C.T.M.); (L.G.C.); (L.L.C.); (R.d.L.R.C.C.); (R.A.B.)
| | - Beatriz de Carvalho Marques
- Medicine School of São José do Rio Preto (FAMERP), São José do Rio Preto 15090-000, SP, Brazil; (C.A.B.); (L.S.); (B.d.C.M.); (M.L.N.)
| | - Marta Giovanetti
- Reference Laboratory of Flavivirus, Oswaldo Cruz Foundation, Rio de Janeiro 21040-360, RJ, Brazil;
- Department of Science and Technology for Humans and the Environment, University of Campus Bio-Medico di Roma, 00128 Rome, Italy
| | - Maurício Lacerda Nogueira
- Medicine School of São José do Rio Preto (FAMERP), São José do Rio Preto 15090-000, SP, Brazil; (C.A.B.); (L.S.); (B.d.C.M.); (M.L.N.)
| | - Mirele Daiana Poleti
- Department of Veterinary Medicine, School of Animal Science and Food Engineering, University of Sao Paulo, Pirassununga 13635-900, SP, Brazil; (E.C.M.); (H.F.); (J.C.C.L.); (M.D.P.)
| | - Patricia Akemi Assato
- Department of Bioprocesses and Biotechnology, School of Agricultural Sciences, São Paulo State University (UNESP), Botucatu 18610-034, SP, Brazil; (F.A.d.S.d.C.); (P.A.A.)
| | - Pedro De Queiroz Cattony Neto
- Butantan Institute, São Paulo 05503-900, SP, Brazil; (L.P.O.d.L.); (A.R.J.L.); (G.R.); (A.J.M.); (C.R.d.S.B.); (D.B.M.); (E.C.M.); (J.d.S.T.B.); (P.D.Q.C.N.); (R.M.N.); (D.T.C.)
| | - Raquel de Lello Rocha Campos Cassano
- Centro de Genômica Funcional da ESALQ, University of São Paulo, Piracicaba 13418-900, SP, Brazil; (B.P.); (C.T.M.); (L.G.C.); (L.L.C.); (R.d.L.R.C.C.); (R.A.B.)
| | - Raul Machado Neto
- Butantan Institute, São Paulo 05503-900, SP, Brazil; (L.P.O.d.L.); (A.R.J.L.); (G.R.); (A.J.M.); (C.R.d.S.B.); (D.B.M.); (E.C.M.); (J.d.S.T.B.); (P.D.Q.C.N.); (R.M.N.); (D.T.C.)
| | - Rejane Maria Tommasini Grotto
- School of Agricultural Sciences, São Paulo State University (UNESP), Botucatu 18610-034, SP, Brazil; (J.A.S.-N.); (R.M.T.G.)
- Molecular Biology and Applied Biotechnology Laboratory, Clinical Hospital of the Botucatu Medical School, Botucatu 18610-034, SP, Brazil
| | - Ricardo Augusto Brassaloti
- Centro de Genômica Funcional da ESALQ, University of São Paulo, Piracicaba 13418-900, SP, Brazil; (B.P.); (C.T.M.); (L.G.C.); (L.L.C.); (R.d.L.R.C.C.); (R.A.B.)
| | - Simone Kashima
- Blood Center of Ribeirão Preto, Ribeirão Preto Medical School, University of São Paulo, Ribeirão Preto 14049-900, SP, Brazil; (S.N.S.); (D.G.L.d.L.-R.); (S.K.)
| | - Dimas Tadeu Covas
- Butantan Institute, São Paulo 05503-900, SP, Brazil; (L.P.O.d.L.); (A.R.J.L.); (G.R.); (A.J.M.); (C.R.d.S.B.); (D.B.M.); (E.C.M.); (J.d.S.T.B.); (P.D.Q.C.N.); (R.M.N.); (D.T.C.)
- Blood Center of Ribeirão Preto, Ribeirão Preto Medical School, University of São Paulo, Ribeirão Preto 14049-900, SP, Brazil; (S.N.S.); (D.G.L.d.L.-R.); (S.K.)
| | - Maria Carolina Elias
- Butantan Institute, São Paulo 05503-900, SP, Brazil; (L.P.O.d.L.); (A.R.J.L.); (G.R.); (A.J.M.); (C.R.d.S.B.); (D.B.M.); (E.C.M.); (J.d.S.T.B.); (P.D.Q.C.N.); (R.M.N.); (D.T.C.)
- Correspondence: (V.L.V.); (M.C.E.); (S.C.S.)
| | - Sandra Coccuzzo Sampaio
- Butantan Institute, São Paulo 05503-900, SP, Brazil; (L.P.O.d.L.); (A.R.J.L.); (G.R.); (A.J.M.); (C.R.d.S.B.); (D.B.M.); (E.C.M.); (J.d.S.T.B.); (P.D.Q.C.N.); (R.M.N.); (D.T.C.)
- Correspondence: (V.L.V.); (M.C.E.); (S.C.S.)
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8
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Giovanetti M, Slavov SN, Fonseca V, Wilkinson E, Tegally H, Patané JSL, Viala VL, San JE, Rodrigues ES, Santos EV, Aburjaile F, Xavier J, Fritsch H, Adelino TER, Pereira F, Leal A, de Melo Iani FC, de Carvalho Pereira G, Vazquez C, Mercedes Estigarribia Sanabria G, de Oliveira EC, Demarchi L, Croda J, dos Santos Bezerra R, de Lima LPO, Martins AJ, dos Santos Barros CR, Marqueze EC, de Souza Todao Bernardino J, Moretti DB, Brassaloti RA, de Lello Rocha Campos Cassano R, Mariani PDSC, Kitajima JP, Santos B, Proto-Siqueira R, Cantarelli VV, Tosta S, Nardy VB, de Oliveira da Silva LR, Kelly Astete Gómez M, Lima JG, Ribeiro AA, Guimarães NR, Watanabe LT, Da Silva LB, da Silva Ferreira R, da Penha MPF, Ortega MJ, de la Fuente AG, Villalba S, Torales J, Gamarra ML, Aquino C, Martínez Figueredo GP, Fava WS, Motta-Castro ARC, Venturini J, de Oliveira SMDVL, Gonçalves CCM, do Carmo Debur Rossa M, Becker GN, Presibella MM, Marques NQ, Riediger IN, Raboni S, Coelho GM, Cataneo AHD, Zanluca C, dos Santos CND, Assato PA, da Costa FADS, Poleti MD, Lesbon JCC, Mattos EC, Banho CA, Sacchetto L, Moraes MM, Grotto RMT, Souza-Neto JA, Nogueira ML, Fukumasu H, Coutinho LL, Calado RT, Neto RM, de Filippis AMB, da Cunha RV, Freitas C, Peterka CRL, de Fátima Rangel Fernandes C, de Araújo WN, do Carmo Said RF, Almiron M, de Albuquerque e Melo CFC, Lourenço J, de Oliveira T, Holmes EC, Haddad R, Sampaio SC, Elias MC, Kashima S, de Alcantara LCJ, Covas DT. Genomic epidemiology reveals the impact of national and international restrictions measures on the SARS-CoV-2 epidemic in Brazil. medRxiv 2022:2021.10.07.21264644. [PMID: 35378755 PMCID: PMC8978948 DOI: 10.1101/2021.10.07.21264644] [Citation(s) in RCA: 4] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Grants] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Indexed: 01/03/2023]
Abstract
Brazil has experienced some of the highest numbers of COVID-19 cases and deaths globally and from May 2021 made Latin America a pandemic epicenter. Although SARS-CoV-2 established sustained transmission in Brazil early in the pandemic, important gaps remain in our understanding of virus transmission dynamics at the national scale. Here, we describe the genomic epidemiology of SARS-CoV-2 using near-full genomes sampled from 27 Brazilian states and a bordering country - Paraguay. We show that the early stage of the pandemic in Brazil was characterised by the co-circulation of multiple viral lineages, linked to multiple importations predominantly from Europe, and subsequently characterized by large local transmission clusters. As the epidemic progressed under an absence of effective restriction measures, there was a local emergence and onward international spread of Variants of Concern (VOC) and Variants Under Monitoring (VUM), including Gamma (P.1) and Zeta (P.2). In addition, we provide a preliminary genomic overview of the epidemic in Paraguay, showing evidence of importation from Brazil. These data reinforce the usefulness and need for the implementation of widespread genomic surveillance in South America as a toolkit for pandemic monitoring that provides a means to follow the real-time spread of emerging SARS-CoV-2 variants with possible implications for public health and immunization strategies.
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Affiliation(s)
- Marta Giovanetti
- Laboratório de Flavivírus, Fundação Oswaldo Cruz, Rio de Janeiro, Brazil
- Laboratório de Genética Celular e Molecular, Instituto de Ciências Biológicas, Universidade Federal de Minas Gerais, Belo Horizonte, Minas Gerais, Brazil
| | - Svetoslav Nanev Slavov
- University of São Paulo, Ribeirão Preto Medical School, Blood Center of Ribeirão Preto, Ribeirão Preto, SP, Brazil
- Butantan Institute, São Paulo, Brazil
| | - Vagner Fonseca
- Laboratório de Flavivírus, Fundação Oswaldo Cruz, Rio de Janeiro, Brazil
- Coordenação Geral de Laboratórios de Saúde Pública/Secretaria de Vigilância em Saúde, Ministério da Saúde (CGLAB/SVS-MS) Brasília, Distrito Federal, Brazil
- KwaZulu-Natal Research Innovation and Sequencing Platform (KRISP), School of Laboratory Medicine and Medical Sciences, College of Health Sciences, University of KwaZulu-Natal, Durban, South Africa
- Centre for Epidemic Response and Innovation (CERI), School of Data Science and Computational Thinking, Stellenbosch University; Stellenbosch, South Africa
| | - Eduan Wilkinson
- KwaZulu-Natal Research Innovation and Sequencing Platform (KRISP), School of Laboratory Medicine and Medical Sciences, College of Health Sciences, University of KwaZulu-Natal, Durban, South Africa
- Centre for Epidemic Response and Innovation (CERI), School of Data Science and Computational Thinking, Stellenbosch University; Stellenbosch, South Africa
| | - Houriiyah Tegally
- KwaZulu-Natal Research Innovation and Sequencing Platform (KRISP), School of Laboratory Medicine and Medical Sciences, College of Health Sciences, University of KwaZulu-Natal, Durban, South Africa
- Centre for Epidemic Response and Innovation (CERI), School of Data Science and Computational Thinking, Stellenbosch University; Stellenbosch, South Africa
| | | | | | - James Emmanuel San
- KwaZulu-Natal Research Innovation and Sequencing Platform (KRISP), School of Laboratory Medicine and Medical Sciences, College of Health Sciences, University of KwaZulu-Natal, Durban, South Africa
- Centre for Epidemic Response and Innovation (CERI), School of Data Science and Computational Thinking, Stellenbosch University; Stellenbosch, South Africa
| | - Evandra Strazza Rodrigues
- University of São Paulo, Ribeirão Preto Medical School, Blood Center of Ribeirão Preto, Ribeirão Preto, SP, Brazil
| | - Elaine Vieira Santos
- University of São Paulo, Ribeirão Preto Medical School, Blood Center of Ribeirão Preto, Ribeirão Preto, SP, Brazil
| | - Flavia Aburjaile
- Laboratório de Genética Celular e Molecular, Instituto de Ciências Biológicas, Universidade Federal de Minas Gerais, Belo Horizonte, Minas Gerais, Brazil
- Laboratório Central de Saúde Pública do Estado de Minas Gerais, Fundac ão Ezequiel Dias, Belo Horizonte, Minas Gerais, Brazil
| | - Joilson Xavier
- Laboratório de Flavivírus, Fundação Oswaldo Cruz, Rio de Janeiro, Brazil
- Laboratório Central de Saúde Pública do Estado de Minas Gerais, Fundac ão Ezequiel Dias, Belo Horizonte, Minas Gerais, Brazil
| | - Hegger Fritsch
- Laboratório de Flavivírus, Fundação Oswaldo Cruz, Rio de Janeiro, Brazil
- Laboratório Central de Saúde Pública do Estado de Minas Gerais, Fundac ão Ezequiel Dias, Belo Horizonte, Minas Gerais, Brazil
| | - Talita Emile Ribeiro Adelino
- Laboratório de Flavivírus, Fundação Oswaldo Cruz, Rio de Janeiro, Brazil
- Laboratório Central de Saúde Pública do Estado de Minas Gerais, Fundac ão Ezequiel Dias, Belo Horizonte, Minas Gerais, Brazil
| | - Felicidade Pereira
- Laboratorio Central de Saude Publica da Bahia–LACEN-BA, Salvador, Bahia, Brazil
| | - Arabela Leal
- Laboratorio Central de Saude Publica da Bahia–LACEN-BA, Salvador, Bahia, Brazil
| | - Felipe Campos de Melo Iani
- Laboratório Central de Saúde Pública do Estado de Minas Gerais, Fundac ão Ezequiel Dias, Belo Horizonte, Minas Gerais, Brazil
| | - Glauco de Carvalho Pereira
- Laboratório Central de Saúde Pública do Estado de Minas Gerais, Fundac ão Ezequiel Dias, Belo Horizonte, Minas Gerais, Brazil
| | | | - Gladys Mercedes Estigarribia Sanabria
- Universidad Nacional del Caaguazú, Instituto Regional de Investigación en Salud
- Laboratorio de Biología Molecular, Hospital Regional de Coronel Oviedo
- Ministerio de Salud Pública y Bienestar Social
| | | | - Luiz Demarchi
- Laboratório Central de Saúde Pública do Estado de Mato Grosso do Sul, Campo Grande, Mato Grosso do Sul, Brazil
| | | | - Rafael dos Santos Bezerra
- University of São Paulo, Ribeirão Preto Medical School, Blood Center of Ribeirão Preto, Ribeirão Preto, SP, Brazil
| | | | | | | | | | | | | | | | | | | | | | | | | | - Vlademir Vicente Cantarelli
- Universidade Federal de Ciências da Saúde de Porto Alegre (UFCSPA), Universidade Feevale, Grupo Exame Laboratórios, Rio Grande do Sul, Brazil
| | - Stephane Tosta
- Laboratório de Genética Celular e Molecular, Instituto de Ciências Biológicas, Universidade Federal de Minas Gerais, Belo Horizonte, Minas Gerais, Brazil
- Laboratorio Central de Saude Publica da Bahia–LACEN-BA, Salvador, Bahia, Brazil
| | | | | | | | | | - Adriana Aparecida Ribeiro
- Laboratório Central de Saúde Pública do Estado de Minas Gerais, Fundac ão Ezequiel Dias, Belo Horizonte, Minas Gerais, Brazil
| | - Natália Rocha Guimarães
- Laboratório Central de Saúde Pública do Estado de Minas Gerais, Fundac ão Ezequiel Dias, Belo Horizonte, Minas Gerais, Brazil
| | - Luiz Takao Watanabe
- Laboratório Central de Saúde Pública do Estado de Mato Grosso, Cuiabá, Brazil
| | | | | | | | | | | | | | - Juan Torales
- Laboratorio Central de Salud Pública, Asunción, Paraguay
| | | | | | - Gloria Patricia Martínez Figueredo
- Universidad Nacional del Caaguazú, Instituto Regional de Investigación en Salud
- Laboratorio de Biología Molecular, Hospital Regional de Coronel Oviedo
- Ministerio de Salud Pública y Bienestar Social
| | | | | | | | | | | | | | | | | | | | | | - Sonia Raboni
- Hospital de Clínicas da Universidade Federal do Paraná, Curitiba, PR
| | | | | | - Camila Zanluca
- Laboratório de Virologia Molecular - Instituto Carlos Chagas/Fiocruz PR, Curitiba, PR
| | | | - Patricia Akemi Assato
- São Paulo State University (UNESP), School of Agricultural Sciences, Department of Bioprocesses and Biotechnology, Botucatu, Brazil
| | - Felipe Allan da Silva da Costa
- São Paulo State University (UNESP), School of Agricultural Sciences, Department of Bioprocesses and Biotechnology, Botucatu, Brazil
| | - Mirele Daiana Poleti
- Department of Veterinary Medicine, School of Animal Science and Food Engineering, University of Sao Paulo, Pirassununga, São Paulo, Brazil
| | - Jessika Cristina Chagas Lesbon
- Department of Veterinary Medicine, School of Animal Science and Food Engineering, University of Sao Paulo, Pirassununga, São Paulo, Brazil
| | - Elisangela Chicaroni Mattos
- Department of Veterinary Medicine, School of Animal Science and Food Engineering, University of Sao Paulo, Pirassununga, São Paulo, Brazil
| | - Cecilia Artico Banho
- Laboratório de Pesquisas em Virologia, Departamento de Doenças Dermatológicas, Infecciosas e Parasitárias, Faculdade de Medicina de São José do Rio Preto
| | - Lívia Sacchetto
- Laboratório de Pesquisas em Virologia, Departamento de Doenças Dermatológicas, Infecciosas e Parasitárias, Faculdade de Medicina de São José do Rio Preto
| | - Marília Mazzi Moraes
- Laboratório de Pesquisas em Virologia, Departamento de Doenças Dermatológicas, Infecciosas e Parasitárias, Faculdade de Medicina de São José do Rio Preto
| | - Rejane Maria Tommasini Grotto
- São Paulo State University (UNESP), School of Agricultural Sciences, Department of Bioprocesses and Biotechnology, Botucatu, Brazil
- Molecular Biology Laboratory, Applied Biotechnology Laboratory, Clinical Hospital of the Botucatu Medical School, Brazil
| | - Jayme A. Souza-Neto
- São Paulo State University (UNESP), School of Agricultural Sciences, Department of Bioprocesses and Biotechnology, Botucatu, Brazil
| | - Maurício Lacerda Nogueira
- Laboratório de Pesquisas em Virologia, Departamento de Doenças Dermatológicas, Infecciosas e Parasitárias, Faculdade de Medicina de São José do Rio Preto
| | - Heidge Fukumasu
- Department of Veterinary Medicine, School of Animal Science and Food Engineering, University of Sao Paulo, Pirassununga, São Paulo, Brazil
| | - Luiz Lehmann Coutinho
- University of São Paulo, Centro de Genômica Funcional da ESALQ, Piracicaba, SP, Brazil
| | - Rodrigo Tocantins Calado
- University of São Paulo, Ribeirão Preto Medical School, Blood Center of Ribeirão Preto, Ribeirão Preto, SP, Brazil
| | | | | | | | - Carla Freitas
- Coordenação Geral de Laboratórios de Saúde Pública/Secretaria de Vigilância em Saúde, Ministério da Saúde (CGLAB/SVS-MS) Brasília, Distrito Federal, Brazil
| | - Cassio Roberto Leonel Peterka
- Coordenação Geral das Arboviroses, Secretaria de Vigilaçncia em Saúde/Ministério da Saúde (CGARB/SVS-MS), Brasília, Distrito Federal, Brazil
| | - Cássia de Fátima Rangel Fernandes
- Departamento de Imunização e Doenças Transmissíveisa/Secretaria de Vigilância em Saúde, Ministério da Saúde, Brasília, Distrito Federal, Brazil
| | | | | | - Maria Almiron
- Organização Pan-Americana da Saúde/Organização Mundial da Saúde, Brasília, Distrito Federal, Brazil
| | | | - José Lourenço
- Department of Zoology, Peter Medawar Building, University of Oxford, Oxford, UK
- Biosystems and Integrative Sciences Institute, Universidade de Lisboa, Lisboa, Portugal
| | - Tulio de Oliveira
- KwaZulu-Natal Research Innovation and Sequencing Platform (KRISP), School of Laboratory Medicine and Medical Sciences, College of Health Sciences, University of KwaZulu-Natal, Durban, South Africa
- Centre for Epidemic Response and Innovation (CERI), School of Data Science and Computational Thinking, Stellenbosch University; Stellenbosch, South Africa
- Centre for the AIDS Programme of Research in South Africa (CAPRISA), Durban, South Africa
- Department of Global Health, University of Washington, Seattle, WA, USA
| | - Edward C. Holmes
- Sydney Institute for Infectious Diseases, School of Life and Environmental Sciences and School of Medical Sciences, University of Sydney, Sydney, NSW, Australia
| | | | | | | | - Simone Kashima
- University of São Paulo, Ribeirão Preto Medical School, Blood Center of Ribeirão Preto, Ribeirão Preto, SP, Brazil
| | - Luiz Carlos Junior de Alcantara
- Laboratório de Flavivírus, Fundação Oswaldo Cruz, Rio de Janeiro, Brazil
- Laboratório de Genética Celular e Molecular, Instituto de Ciências Biológicas, Universidade Federal de Minas Gerais, Belo Horizonte, Minas Gerais, Brazil
| | - Dimas Tadeu Covas
- University of São Paulo, Ribeirão Preto Medical School, Blood Center of Ribeirão Preto, Ribeirão Preto, SP, Brazil
- Butantan Institute, São Paulo, Brazil
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9
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Lima ARJ, Ribeiro G, Viala VL, Lima LPOD, Martins AJ, Barros CRDS, Marqueze EC, Bernardino JDST, Moretti DB, Rodrigues ES, Santos EV, Brassaloti RA, Cassano RDLRC, Mariani PDSC, Clemente LG, Assato PA, Costa FADSD, Poleti MD, Lesbon JCC, Mattos EC, Banho CA, Sacchetto L, Moraes MM, Palmieri M, Martininghi M, Caldeira LAV, Silva FEVD, Grotto RMT, Souza-Neto JA, Giovanetti M, Alcantara LCJ, Nogueira ML, Fukumasu H, Coutinho LL, Kashima S, Neto RM, Covas DT, Slavov SN, Sampaio SC, Elias MC. SARS-COV-2 GENOMIC MONITORING IN THE STATE OF SÃO PAULO UNVEILS TWO EMERGING AY.43 SUBLINEAGES. J Med Virol 2022; 94:3394-3398. [PMID: 35229308 PMCID: PMC9088347 DOI: 10.1002/jmv.27674] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/10/2021] [Revised: 01/24/2022] [Accepted: 02/21/2022] [Indexed: 11/17/2022]
Abstract
Delta VOC is highly diverse with more than 120 sublineages already described as of November 30, 2021. In this study, through active monitoring of circulating severe acute respiratory syndrome coronavirus‐2 (SARS‐CoV‐2) variants in the state of São Paulo, southeast Brazil, we identified two emerging sublineages from the ancestral AY.43 strain which were classified as AY.43.1 and AY.43.2. These sublineages were defined by the following characteristic nonsynonymous mutations ORF1ab:A4133V and ORF3a:T14I for the AY.43.1 and ORF1ab:G1155C for the AY.43.2 and our analysis reveals that they might have a likely‐Brazilian origin. Much is still unknown regarding their dissemination in the state of São Paulo and Brazil as well as their potential impact on the ongoing vaccination process. However, the results obtained in this study reinforce the importance of genomic surveillance activity for timely identification of emerging SARS‐CoV‐2 variants which can impact the ongoing SARS‐CoV‐2 vaccination and public health policies.
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Affiliation(s)
| | | | | | | | | | | | | | | | | | - Evandra Strazza Rodrigues
- University of São Paulo, Ribeirão Preto Medical School, Blood Center of Ribeirão Preto, Ribeirão Preto, SP, Brazil
| | - Elaine Vieira Santos
- University of São Paulo, Ribeirão Preto Medical School, Blood Center of Ribeirão Preto, Ribeirão Preto, SP, Brazil
| | | | | | | | - Luan Gaspar Clemente
- University of São Paulo, Centro de Genômica Funcional da ESALQ, Piracicaba, SP, Brazil
| | - Patricia Akemi Assato
- São Paulo State University (UNESP), School of Agricultural Sciences, Department of Bioprocesses and Biotechnology, Botucatu, Brazil
| | - Felipe Allan da Silva da Costa
- São Paulo State University (UNESP), School of Agricultural Sciences, Department of Bioprocesses and Biotechnology, Botucatu, Brazil
| | - Mirele Daiana Poleti
- Department of Veterinary Medicine, School of Animal Science and Food Engineering, University of Sao Paulo, Pirassununga, Sao Paulo, Brazil
| | - Jessika Cristina Chagas Lesbon
- Department of Veterinary Medicine, School of Animal Science and Food Engineering, University of Sao Paulo, Pirassununga, Sao Paulo, Brazil
| | - Elisangela Chicaroni Mattos
- Department of Veterinary Medicine, School of Animal Science and Food Engineering, University of Sao Paulo, Pirassununga, Sao Paulo, Brazil
| | - Cecilia Artico Banho
- Medicine School of São José do Rio Preto (FAMERP), São José do Rio Preto, São Paulo, Brazil
| | - Lívia Sacchetto
- Medicine School of São José do Rio Preto (FAMERP), São José do Rio Preto, São Paulo, Brazil
| | - Marília Mazzi Moraes
- Medicine School of São José do Rio Preto (FAMERP), São José do Rio Preto, São Paulo, Brazil
| | - Melissa Palmieri
- Coordenação de Vigilância em Saúde - Secretaria Municipal da Saúde, São Paulo, Brazil
| | | | | | | | - Rejane Maria Tommasini Grotto
- São Paulo State University (UNESP), School of Agricultural Sciences, Department of Bioprocesses and Biotechnology, Botucatu, Brazil.,Molecular Biology Laboratory, Applied Biotechnology Laboratory, Clinical Hospital of the Botucatu Medical School, Brazil
| | - Jayme A Souza-Neto
- São Paulo State University (UNESP), School of Agricultural Sciences, Department of Bioprocesses and Biotechnology, Botucatu, Brazil
| | - Marta Giovanetti
- Instituto de Ciências Biológicas, Universidade Federal de Minas Gerais, Belo Horizonte, Minas Gerais, Brazil.,Instituto Oswaldo Cruz, FIOCRUZ, Rio de Janeiro, Brazil
| | - Luiz Carlos Junior Alcantara
- Instituto de Ciências Biológicas, Universidade Federal de Minas Gerais, Belo Horizonte, Minas Gerais, Brazil.,Instituto Oswaldo Cruz, FIOCRUZ, Rio de Janeiro, Brazil
| | | | - Heidge Fukumasu
- Department of Veterinary Medicine, School of Animal Science and Food Engineering, University of Sao Paulo, Pirassununga, Sao Paulo, Brazil
| | - Luiz Lehmann Coutinho
- University of São Paulo, Centro de Genômica Funcional da ESALQ, Piracicaba, SP, Brazil
| | - Simone Kashima
- University of São Paulo, Ribeirão Preto Medical School, Blood Center of Ribeirão Preto, Ribeirão Preto, SP, Brazil
| | | | - Dimas Tadeu Covas
- Butantan Institute, São Paulo, Brazil.,University of São Paulo, Ribeirão Preto Medical School, Blood Center of Ribeirão Preto, Ribeirão Preto, SP, Brazil
| | - Svetoslav Nanev Slavov
- University of São Paulo, Ribeirão Preto Medical School, Blood Center of Ribeirão Preto, Ribeirão Preto, SP, Brazil
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Slavov SN, Bezerra RDS, Rodrigues ES, Santos EV, Borges JS, de la Roque DGL, Patané JSL, Lima ARJ, Ribeiro G, Viala VL, de Lima LPO, Martins AJ, Dos Santos Barros CR, Marqueze EC, Bernardino JDST, Moretti DB, Brassaloti RA, Cassano RDLRC, Mariani PDSC, Kitajima JP, Santos B, Assato PA, da Silva da Costa FA, Poleti MD, Lesbon JCC, Mattos EC, Banho CA, Sacchetto L, Moraes MM, Grotto RMT, Souza-Neto JA, Giovanetti M, de Alcantara LCJ, Nogueira ML, Fukumasu H, Coutinho LL, Calado RT, Neto RM, Covas DT, Coccuzzo Sampaio S, Elias MC, Kashima S. Genomic monitoring of the SARS-CoV-2 B1.1.7 (WHO VOC Alpha) in the Sao Paulo state, Brazil. Virus Res 2022; 308:198643. [PMID: 34848213 PMCID: PMC8636783 DOI: 10.1016/j.virusres.2021.198643] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/17/2021] [Revised: 11/16/2021] [Accepted: 11/18/2021] [Indexed: 12/22/2022]
Abstract
The SARS-CoV-2 alpha VOC (also known as lineage B.1.1.7) initially described in the autumn, 2020 in UK, rapidly became the dominant lineage across much of Europe. Despite multiple studies reporting molecular evidence suggestive of its circulation in Brazil, much is still unknown about its genomic diversity in the state of São Paulo, the main Brazilian economic and transportation hub. To get more insight regarding its transmission dynamics into the State we performed phylogenetic analysis on all alpha VOC strains obtained between February and August 2021 from the Sao Paulo state Network for Pandemic Alert of Emerging SARS-CoV-2 variants. The performed phylogenetic analysis showed that most of the alpha VOC genomes were interspersed with viral strains sampled from different Brazilian states and other countries suggesting that multiple independent Alpha VOC introductions from Brazil and overseas have occurred in the São Paulo State over time. Nevertheless, large monophyletic clusters were also observed especially from the Central-West part of the São Paulo State (the city of Bauru) and the metropolitan region of the São Paulo city. Our results highlight the Alpha VOC molecular epidemiology in the São Paulo state and reinforce the need for continued genomic surveillance strategies for the real-time monitoring of potential emerging SARS-CoV-2 variants during the ever-growing vaccination process.
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Affiliation(s)
- Svetoslav Nanev Slavov
- University of São Paulo, Ribeirão Preto Medical School, Blood Center of Ribeirão Preto, Ribeirão Preto, SP, Brazil; Butantan Institute, São Paulo, Brazil.
| | - Rafael Dos Santos Bezerra
- University of São Paulo, Ribeirão Preto Medical School, Blood Center of Ribeirão Preto, Ribeirão Preto, SP, Brazil
| | - Evandra Strazza Rodrigues
- University of São Paulo, Ribeirão Preto Medical School, Blood Center of Ribeirão Preto, Ribeirão Preto, SP, Brazil
| | - Elaine Vieira Santos
- University of São Paulo, Ribeirão Preto Medical School, Blood Center of Ribeirão Preto, Ribeirão Preto, SP, Brazil
| | - Joseane Serrano Borges
- University of São Paulo, Ribeirão Preto Medical School, Blood Center of Ribeirão Preto, Ribeirão Preto, SP, Brazil
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | - Patricia Akemi Assato
- São Paulo State University (UNESP), School of Agricultural Sciences, Department of Bioprocesses and Biotechnology, Botucatu, Brazil
| | - Felipe Allan da Silva da Costa
- São Paulo State University (UNESP), School of Agricultural Sciences, Department of Bioprocesses and Biotechnology, Botucatu, Brazil
| | - Mirele Daiana Poleti
- Department of Veterinary Medicine, School of Animal Science and Food Engineering, University of Sao Paulo, Pirassununga, Sao Paulo, Brazil
| | - Jessika Cristina Chagas Lesbon
- Department of Veterinary Medicine, School of Animal Science and Food Engineering, University of Sao Paulo, Pirassununga, Sao Paulo, Brazil
| | - Elisangela Chicaroni Mattos
- Department of Veterinary Medicine, School of Animal Science and Food Engineering, University of Sao Paulo, Pirassununga, Sao Paulo, Brazil
| | - Cecilia Artico Banho
- Medicine School of São José do Rio Preto (FAMERP), São José do Rio Preto, São Paulo 15090-000, Brazil
| | - Lívia Sacchetto
- Medicine School of São José do Rio Preto (FAMERP), São José do Rio Preto, São Paulo 15090-000, Brazil
| | - Marília Mazzi Moraes
- Medicine School of São José do Rio Preto (FAMERP), São José do Rio Preto, São Paulo 15090-000, Brazil
| | - Rejane Maria Tommasini Grotto
- São Paulo State University (UNESP), School of Agricultural Sciences, Department of Bioprocesses and Biotechnology, Botucatu, Brazil; Molecular Biology Laboratory, Applied Biotechnology Laboratory, Clinical Hospital of the Botucatu Medical School, Brazil
| | - Jayme A Souza-Neto
- São Paulo State University (UNESP), School of Agricultural Sciences, Department of Bioprocesses and Biotechnology, Botucatu, Brazil
| | - Marta Giovanetti
- Instituto de Ciências Biológicas, Universidade Federal de Minas Gerais, Belo Horizonte, Minas Gerais, Brazil; Instituto Oswaldo Cruz, FIOCRUZ, Rio de Janeiro, Brazil
| | - Luiz Carlos Junior de Alcantara
- Instituto de Ciências Biológicas, Universidade Federal de Minas Gerais, Belo Horizonte, Minas Gerais, Brazil; Instituto Oswaldo Cruz, FIOCRUZ, Rio de Janeiro, Brazil
| | - Maurício Lacerda Nogueira
- Medicine School of São José do Rio Preto (FAMERP), São José do Rio Preto, São Paulo 15090-000, Brazil
| | - Heidge Fukumasu
- Department of Veterinary Medicine, School of Animal Science and Food Engineering, University of Sao Paulo, Pirassununga, Sao Paulo, Brazil
| | | | - Rodrigo Tocantins Calado
- University of São Paulo, Ribeirão Preto Medical School, Blood Center of Ribeirão Preto, Ribeirão Preto, SP, Brazil; University of São Paulo, Ribeirão Preto Medical School, Ribeirão Preto, SP, Brazil
| | | | - Dimas Tadeu Covas
- University of São Paulo, Ribeirão Preto Medical School, Blood Center of Ribeirão Preto, Ribeirão Preto, SP, Brazil; Butantan Institute, São Paulo, Brazil; University of São Paulo, Ribeirão Preto Medical School, Ribeirão Preto, SP, Brazil
| | | | | | - Simone Kashima
- University of São Paulo, Ribeirão Preto Medical School, Blood Center of Ribeirão Preto, Ribeirão Preto, SP, Brazil
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11
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Lesbon JCC, Poleti MD, de Mattos Oliveira EC, Patané JSL, Clemente LG, Viala VL, Ribeiro G, Giovanetti M, de Alcantara LCJ, Teixeira O, Nonato MC, de Lima LPO, Martins AJ, dos Santos Barros CR, Marqueze EC, de Souza Todão Bernardino J, Moretti DB, Brassaloti RA, de Lello Rocha Campos Cassano R, Mariani PDSC, Slavov SN, dos Santos RB, Rodrigues ES, Santos EV, Borges JS, de La Roque DGL, Kitajima JP, Santos B, Assato PA, da Silva da Costa FA, Banho CA, Sacchetto L, Moraes MM, Palmieri M, da Silva FEV, Grotto RMT, Souza-Neto JA, Nogueira ML, Coutinho LL, Calado RT, Neto RM, Covas DT, Kashima S, Elias MC, Sampaio SC, Fukumasu H. Nucleocapsid (N) Gene Mutations of SARS-CoV-2 Can Affect Real-Time RT-PCR Diagnostic and Impact False-Negative Results. Viruses 2021; 13:v13122474. [PMID: 34960743 PMCID: PMC8707239 DOI: 10.3390/v13122474] [Citation(s) in RCA: 11] [Impact Index Per Article: 3.7] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/27/2021] [Revised: 11/30/2021] [Accepted: 12/01/2021] [Indexed: 01/17/2023] Open
Abstract
The current COVID-19 pandemic demands massive testing by Real-time RT-PCR (Reverse Transcription Polymerase Chain Reaction), which is considered the gold standard diagnostic test for the detection of the SARS-CoV-2 virus. However, the virus continues to evolve with mutations that lead to phenotypic alterations as higher transmissibility, pathogenicity or vaccine evasion. Another big issue are mutations in the annealing sites of primers and probes of RT-PCR diagnostic kits leading to false-negative results. Therefore, here we identify mutations in the N (Nucleocapsid) gene that affects the use of the GeneFinder COVID-19 Plus RealAmp Kit. We sequenced SARS-CoV-2 genomes from 17 positive samples with no N gene detection but with RDRP (RNA-dependent RNA polymerase) and E (Envelope) genes detection, and observed a set of three different mutations affecting the N detection: a deletion of 18 nucleotides (Del28877-28894), a substitution of GGG to AAC (28881-28883) and a frameshift mutation caused by deletion (Del28877-28878). The last one cause a deletion of six AAs (amino acids) located in the central intrinsic disorder region at protein level. We also found this mutation in 99 of the 14,346 sequenced samples by the Sao Paulo state Network for Pandemic Alert of Emerging SARS-CoV-2 variants, demonstrating the circulation of the mutation in Sao Paulo, Brazil. Continuous monitoring and characterization of mutations affecting the annealing sites of primers and probes by genomic surveillance programs are necessary to maintain the effectiveness of the diagnosis of COVID-19.
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Affiliation(s)
- Jéssika Cristina Chagas Lesbon
- Laboratory of Comparative and Translational Oncology, Department of Veterinary Medicine, School of Animal Science and Food Engineering, University of Sao Paulo, Pirassununga 13635-900, São Paulo, Brazil; (J.C.C.L.); (M.D.P.); (E.C.d.M.O.)
| | - Mirele Daiana Poleti
- Laboratory of Comparative and Translational Oncology, Department of Veterinary Medicine, School of Animal Science and Food Engineering, University of Sao Paulo, Pirassununga 13635-900, São Paulo, Brazil; (J.C.C.L.); (M.D.P.); (E.C.d.M.O.)
| | - Elisângela Chicaroni de Mattos Oliveira
- Laboratory of Comparative and Translational Oncology, Department of Veterinary Medicine, School of Animal Science and Food Engineering, University of Sao Paulo, Pirassununga 13635-900, São Paulo, Brazil; (J.C.C.L.); (M.D.P.); (E.C.d.M.O.)
| | - José Salvatore Leister Patané
- Butantan Institute, São Paulo 05503-000, São Paulo, Brazil; (J.S.L.P.); (V.L.V.); (G.R.); (L.P.O.d.L.); (A.J.M.); (C.R.d.S.B.); (E.C.M.); (J.d.S.T.B.); (D.B.M.); (R.M.N.); (D.T.C.); (M.C.E.); (S.C.S.)
| | - Luan Gaspar Clemente
- Functional Genomic Center, Department of Animal Science, Luiz de Queiroz School of Agriculture, University of Sao Paulo, Piracicaba 13418-900, São Paulo, Brazil; (L.G.C.); (R.A.B.); (R.d.L.R.C.C.); (L.L.C.)
| | - Vincent Louis Viala
- Butantan Institute, São Paulo 05503-000, São Paulo, Brazil; (J.S.L.P.); (V.L.V.); (G.R.); (L.P.O.d.L.); (A.J.M.); (C.R.d.S.B.); (E.C.M.); (J.d.S.T.B.); (D.B.M.); (R.M.N.); (D.T.C.); (M.C.E.); (S.C.S.)
| | - Gabriela Ribeiro
- Butantan Institute, São Paulo 05503-000, São Paulo, Brazil; (J.S.L.P.); (V.L.V.); (G.R.); (L.P.O.d.L.); (A.J.M.); (C.R.d.S.B.); (E.C.M.); (J.d.S.T.B.); (D.B.M.); (R.M.N.); (D.T.C.); (M.C.E.); (S.C.S.)
| | - Marta Giovanetti
- Fundação Oswaldo Cruz, FIOCRUZ, Manguinhos 21040-900, Rio de Janeiro, Brazil; (M.G.); (L.C.J.d.A.)
- Institute of Biological Sciences, Federal University of Minas Gerais, Belo Horizonte 31270-901, Minas Gerais, Brazil
| | | | - Olivia Teixeira
- Ribeirao Preto Protein Crystallography Laboratory, School of Pharmaceutical Sciences, University of São Paulo, Ribeirao Preto 14040-903, São Paulo, Brazil; (O.T.); (M.C.N.)
| | - Maria Cristina Nonato
- Ribeirao Preto Protein Crystallography Laboratory, School of Pharmaceutical Sciences, University of São Paulo, Ribeirao Preto 14040-903, São Paulo, Brazil; (O.T.); (M.C.N.)
| | - Loyze Paola Oliveira de Lima
- Butantan Institute, São Paulo 05503-000, São Paulo, Brazil; (J.S.L.P.); (V.L.V.); (G.R.); (L.P.O.d.L.); (A.J.M.); (C.R.d.S.B.); (E.C.M.); (J.d.S.T.B.); (D.B.M.); (R.M.N.); (D.T.C.); (M.C.E.); (S.C.S.)
| | - Antonio Jorge Martins
- Butantan Institute, São Paulo 05503-000, São Paulo, Brazil; (J.S.L.P.); (V.L.V.); (G.R.); (L.P.O.d.L.); (A.J.M.); (C.R.d.S.B.); (E.C.M.); (J.d.S.T.B.); (D.B.M.); (R.M.N.); (D.T.C.); (M.C.E.); (S.C.S.)
| | - Claudia Renata dos Santos Barros
- Butantan Institute, São Paulo 05503-000, São Paulo, Brazil; (J.S.L.P.); (V.L.V.); (G.R.); (L.P.O.d.L.); (A.J.M.); (C.R.d.S.B.); (E.C.M.); (J.d.S.T.B.); (D.B.M.); (R.M.N.); (D.T.C.); (M.C.E.); (S.C.S.)
| | - Elaine Cristina Marqueze
- Butantan Institute, São Paulo 05503-000, São Paulo, Brazil; (J.S.L.P.); (V.L.V.); (G.R.); (L.P.O.d.L.); (A.J.M.); (C.R.d.S.B.); (E.C.M.); (J.d.S.T.B.); (D.B.M.); (R.M.N.); (D.T.C.); (M.C.E.); (S.C.S.)
| | - Jardelina de Souza Todão Bernardino
- Butantan Institute, São Paulo 05503-000, São Paulo, Brazil; (J.S.L.P.); (V.L.V.); (G.R.); (L.P.O.d.L.); (A.J.M.); (C.R.d.S.B.); (E.C.M.); (J.d.S.T.B.); (D.B.M.); (R.M.N.); (D.T.C.); (M.C.E.); (S.C.S.)
| | - Debora Botequio Moretti
- Butantan Institute, São Paulo 05503-000, São Paulo, Brazil; (J.S.L.P.); (V.L.V.); (G.R.); (L.P.O.d.L.); (A.J.M.); (C.R.d.S.B.); (E.C.M.); (J.d.S.T.B.); (D.B.M.); (R.M.N.); (D.T.C.); (M.C.E.); (S.C.S.)
| | - Ricardo Augusto Brassaloti
- Functional Genomic Center, Department of Animal Science, Luiz de Queiroz School of Agriculture, University of Sao Paulo, Piracicaba 13418-900, São Paulo, Brazil; (L.G.C.); (R.A.B.); (R.d.L.R.C.C.); (L.L.C.)
| | - Raquel de Lello Rocha Campos Cassano
- Functional Genomic Center, Department of Animal Science, Luiz de Queiroz School of Agriculture, University of Sao Paulo, Piracicaba 13418-900, São Paulo, Brazil; (L.G.C.); (R.A.B.); (R.d.L.R.C.C.); (L.L.C.)
| | | | - Svetoslav Nanev Slavov
- Blood Center of Ribeirão Preto, Ribeirão Preto Medical School, University of São Paulo, Ribeirão Preto 14051-060, São Paulo, Brazil; (S.N.S.); (R.B.d.S.); (E.S.R.); (E.V.S.); (J.S.B.); (D.G.L.d.L.R.); (R.T.C.); (S.K.)
| | - Rafael Bezerra dos Santos
- Blood Center of Ribeirão Preto, Ribeirão Preto Medical School, University of São Paulo, Ribeirão Preto 14051-060, São Paulo, Brazil; (S.N.S.); (R.B.d.S.); (E.S.R.); (E.V.S.); (J.S.B.); (D.G.L.d.L.R.); (R.T.C.); (S.K.)
| | - Evandra Strazza Rodrigues
- Blood Center of Ribeirão Preto, Ribeirão Preto Medical School, University of São Paulo, Ribeirão Preto 14051-060, São Paulo, Brazil; (S.N.S.); (R.B.d.S.); (E.S.R.); (E.V.S.); (J.S.B.); (D.G.L.d.L.R.); (R.T.C.); (S.K.)
| | - Elaine Vieira Santos
- Blood Center of Ribeirão Preto, Ribeirão Preto Medical School, University of São Paulo, Ribeirão Preto 14051-060, São Paulo, Brazil; (S.N.S.); (R.B.d.S.); (E.S.R.); (E.V.S.); (J.S.B.); (D.G.L.d.L.R.); (R.T.C.); (S.K.)
| | - Josiane Serrano Borges
- Blood Center of Ribeirão Preto, Ribeirão Preto Medical School, University of São Paulo, Ribeirão Preto 14051-060, São Paulo, Brazil; (S.N.S.); (R.B.d.S.); (E.S.R.); (E.V.S.); (J.S.B.); (D.G.L.d.L.R.); (R.T.C.); (S.K.)
| | - Debora Glenda Lima de La Roque
- Blood Center of Ribeirão Preto, Ribeirão Preto Medical School, University of São Paulo, Ribeirão Preto 14051-060, São Paulo, Brazil; (S.N.S.); (R.B.d.S.); (E.S.R.); (E.V.S.); (J.S.B.); (D.G.L.d.L.R.); (R.T.C.); (S.K.)
| | - Joao Paulo Kitajima
- Mendelics Genomic Analysis, São Paulo 02511-000, São Paulo, Brazil; (J.P.K.); (B.S.)
| | - Bibiana Santos
- Mendelics Genomic Analysis, São Paulo 02511-000, São Paulo, Brazil; (J.P.K.); (B.S.)
| | - Patricia Akemi Assato
- School of Agricultural Sciences, São Paulo State University, Botucatu 18618-970, São Paulo, Brazil; (P.A.A.); (F.A.d.S.d.C.); (R.M.T.G.); (J.A.S.-N.)
| | - Felipe Allan da Silva da Costa
- School of Agricultural Sciences, São Paulo State University, Botucatu 18618-970, São Paulo, Brazil; (P.A.A.); (F.A.d.S.d.C.); (R.M.T.G.); (J.A.S.-N.)
| | - Cecilia Artico Banho
- Laboratório de Pesquisas em Virologia, Departamento de Doenças Dermatológicas, Infecciosas e Parasitárias, Faculdade de Medicina de São José do Rio Preto, São José do Rio Preto 15090-000, São Paulo, Brazil; (C.A.B.); (L.S.); (M.M.M.); (M.L.N.)
| | - Livia Sacchetto
- Laboratório de Pesquisas em Virologia, Departamento de Doenças Dermatológicas, Infecciosas e Parasitárias, Faculdade de Medicina de São José do Rio Preto, São José do Rio Preto 15090-000, São Paulo, Brazil; (C.A.B.); (L.S.); (M.M.M.); (M.L.N.)
| | - Marilia Mazzi Moraes
- Laboratório de Pesquisas em Virologia, Departamento de Doenças Dermatológicas, Infecciosas e Parasitárias, Faculdade de Medicina de São José do Rio Preto, São José do Rio Preto 15090-000, São Paulo, Brazil; (C.A.B.); (L.S.); (M.M.M.); (M.L.N.)
| | - Melissa Palmieri
- Coordenação de Vigilância em Saúde—Secretaria Municipal da Saúde, São Paulo 01223-906, São Paulo, Brazil;
| | | | - Rejane Maria Tommasini Grotto
- School of Agricultural Sciences, São Paulo State University, Botucatu 18618-970, São Paulo, Brazil; (P.A.A.); (F.A.d.S.d.C.); (R.M.T.G.); (J.A.S.-N.)
| | - Jayme A. Souza-Neto
- School of Agricultural Sciences, São Paulo State University, Botucatu 18618-970, São Paulo, Brazil; (P.A.A.); (F.A.d.S.d.C.); (R.M.T.G.); (J.A.S.-N.)
| | - Mauricio Lacerda Nogueira
- Laboratório de Pesquisas em Virologia, Departamento de Doenças Dermatológicas, Infecciosas e Parasitárias, Faculdade de Medicina de São José do Rio Preto, São José do Rio Preto 15090-000, São Paulo, Brazil; (C.A.B.); (L.S.); (M.M.M.); (M.L.N.)
| | - Luiz Lehman Coutinho
- Functional Genomic Center, Department of Animal Science, Luiz de Queiroz School of Agriculture, University of Sao Paulo, Piracicaba 13418-900, São Paulo, Brazil; (L.G.C.); (R.A.B.); (R.d.L.R.C.C.); (L.L.C.)
| | - Rodrigo Tocantins Calado
- Blood Center of Ribeirão Preto, Ribeirão Preto Medical School, University of São Paulo, Ribeirão Preto 14051-060, São Paulo, Brazil; (S.N.S.); (R.B.d.S.); (E.S.R.); (E.V.S.); (J.S.B.); (D.G.L.d.L.R.); (R.T.C.); (S.K.)
| | - Raul Machado Neto
- Butantan Institute, São Paulo 05503-000, São Paulo, Brazil; (J.S.L.P.); (V.L.V.); (G.R.); (L.P.O.d.L.); (A.J.M.); (C.R.d.S.B.); (E.C.M.); (J.d.S.T.B.); (D.B.M.); (R.M.N.); (D.T.C.); (M.C.E.); (S.C.S.)
| | - Dimas Tadeu Covas
- Butantan Institute, São Paulo 05503-000, São Paulo, Brazil; (J.S.L.P.); (V.L.V.); (G.R.); (L.P.O.d.L.); (A.J.M.); (C.R.d.S.B.); (E.C.M.); (J.d.S.T.B.); (D.B.M.); (R.M.N.); (D.T.C.); (M.C.E.); (S.C.S.)
- Blood Center of Ribeirão Preto, Ribeirão Preto Medical School, University of São Paulo, Ribeirão Preto 14051-060, São Paulo, Brazil; (S.N.S.); (R.B.d.S.); (E.S.R.); (E.V.S.); (J.S.B.); (D.G.L.d.L.R.); (R.T.C.); (S.K.)
| | - Simone Kashima
- Blood Center of Ribeirão Preto, Ribeirão Preto Medical School, University of São Paulo, Ribeirão Preto 14051-060, São Paulo, Brazil; (S.N.S.); (R.B.d.S.); (E.S.R.); (E.V.S.); (J.S.B.); (D.G.L.d.L.R.); (R.T.C.); (S.K.)
| | - Maria Carolina Elias
- Butantan Institute, São Paulo 05503-000, São Paulo, Brazil; (J.S.L.P.); (V.L.V.); (G.R.); (L.P.O.d.L.); (A.J.M.); (C.R.d.S.B.); (E.C.M.); (J.d.S.T.B.); (D.B.M.); (R.M.N.); (D.T.C.); (M.C.E.); (S.C.S.)
| | - Sandra Coccuzzo Sampaio
- Butantan Institute, São Paulo 05503-000, São Paulo, Brazil; (J.S.L.P.); (V.L.V.); (G.R.); (L.P.O.d.L.); (A.J.M.); (C.R.d.S.B.); (E.C.M.); (J.d.S.T.B.); (D.B.M.); (R.M.N.); (D.T.C.); (M.C.E.); (S.C.S.)
| | - Heidge Fukumasu
- Laboratory of Comparative and Translational Oncology, Department of Veterinary Medicine, School of Animal Science and Food Engineering, University of Sao Paulo, Pirassununga 13635-900, São Paulo, Brazil; (J.C.C.L.); (M.D.P.); (E.C.d.M.O.)
- Correspondence: ; Tel.: +55-19-35656864
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Viana-Medeiros PF, Bellinato DF, Martins AJ, Valle D. Insecticide resistance, associated mechanisms and fitness aspects in two Brazilian Stegomyia aegypti (= Aedes aegypti) populations. Med Vet Entomol 2017; 31:340-350. [PMID: 28752548 DOI: 10.1111/mve.12241] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/23/2016] [Revised: 03/13/2017] [Accepted: 03/24/2017] [Indexed: 06/07/2023]
Abstract
In Brazil, insecticide resistance in Stegomyia aegypti (= Aedes aegypti) (Diptera: Culicidae) populations to pyrethroids and to the organophosphate (OP) temephos is disseminated. Currently, insect growth regulators (IGRs) and the OP malathion are employed against larvae and adults, respectively. Bioassays with mosquitoes from two northeast municipalities, Crato and Aracaju, revealed, in both populations, susceptibility to IGRs and malathion (RR95 ≤ 2.0), confirming the effectiveness of these compounds. By contrast, temephos and deltamethrin (pyrethroid) resistance levels were high (RR95 > 10), which is consistent with the use of intense chemical control. In Crato, RR95 values were > 50 for both compounds. Knock-down-resistant (kdr) mutants in the voltage-gated sodium channel, the pyrethroid target site, were found in 43 and 32%, respectively, of Aracaju and Crato mosquitoes. Biochemical assays revealed higher metabolic resistance activity (esterases, mixed function oxidases and glutathione-S-transferases) at Aracaju. With respect to fitness aspects, mating effectiveness was equivalently impaired in both populations, but Aracaju mosquitoes showed more damaging effects in terms of longer larval development, decreased bloodmeal acceptance, reduced engorgement and lower numbers of eggs laid per female. Compared with mosquitoes in Crato, Aracaju mosquitoes exhibited lower OP and pyrethroid RR95 , increased activity of detoxifying enzymes and greater effect on fitness. The potential relationship between insecticide resistance mechanisms and mosquito viability is discussed.
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Affiliation(s)
- P F Viana-Medeiros
- Laboratório de Biologia Molecular de Flavivírus, Instituto Oswaldo Cruz (Fiocruz), Rio de Janeiro, Brazil
| | - D F Bellinato
- Laboratório de Biologia Molecular de Flavivírus, Instituto Oswaldo Cruz (Fiocruz), Rio de Janeiro, Brazil
| | - A J Martins
- Laboratório de Fisiologia e Controle de Artrópodes Vetores, Instituto Oswaldo Cruz (Fiocruz), Rio de Janeiro, Brazil
- Instituto Nacional de Ciência e Tecnologia em Entomologia Molecular (INCT-EM), Rio de Janeiro, Brazil
| | - D Valle
- Laboratório de Biologia Molecular de Flavivírus, Instituto Oswaldo Cruz (Fiocruz), Rio de Janeiro, Brazil
- Instituto Nacional de Ciência e Tecnologia em Entomologia Molecular (INCT-EM), Rio de Janeiro, Brazil
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Dolabella SS, Santos RLC, Silva MCN, Steffler LM, Ribolla PEM, Cavalcanti SCH, Jain S, Martins AJ. Detection and Distribution of V1016Ikdr Mutation in the Voltage-Gated Sodium Channel Gene in Aedes aegypti (Diptera: Culicidae) Populations From Sergipe State, Northeast Brazil. J Med Entomol 2016; 53:967-971. [PMID: 27113110 DOI: 10.1093/jme/tjw053] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/14/2015] [Accepted: 03/23/2016] [Indexed: 06/05/2023]
Abstract
Aedes aegypti (L.) resistance to pyrethroids was recorded in Brazil few years after its introduction as the adulticide in the National Dengue Control Program campaigns. Altered susceptibility to pyrethroids had been reported in the state of Sergipe, northeast Brazil, through biological assays, even before its use against Ae. aegypti in the state. Metabolic and target-site resistance mechanisms were also revealed in samples from Aracaju, the capital of Sergipe. Herein, we investigated the presence and distribution of the kdr mutation V1016Ikdr in Ae. aegypti populations from different municipalities of the state. Aedes aegypti eggs were collected from seven municipalities located in areas showing different climatic types and infestation levels. Approximately 20 Ae. aegypti females from each municipality (total of 135 subjects) were individually submitted to allele-specific polymerase chain reaction (AS-PCR) for the 1016 site of the voltage-gated sodium channel (NaV). The V1016Ikdr mutation was found in subjects from all the municipalities under study with a high frequency of heterozygotes in several locations. Homozygous recessive subjects (resistant kdr genotype) were found only in one municipality. The results suggest a wide distribution of the V1016Ikdr mutation in the northeast Brazil, which indicates urgent need for monitoring the effectiveness of the pyrethroids currently used for vector control.
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Affiliation(s)
- S S Dolabella
- Laboratório de Entomologia e Parasitologia Tropical, Departamento de Morfologia, Universidade Federal de Sergipe, São Cristóvão, Sergipe, Brazil (; ; ; ; ),
| | - R L C Santos
- Laboratório de Entomologia e Parasitologia Tropical, Departamento de Morfologia, Universidade Federal de Sergipe, São Cristóvão, Sergipe, Brazil (; ; ; ; )
- Laboratório de Entomologia e Parasitologia Tropical, Departamento de Morfologia, Universidade Federal de Sergipe, São Cristóvão, Sergipe, Brazil (; ; ; ; )
| | - M C N Silva
- Laboratório de Entomologia e Parasitologia Tropical, Departamento de Morfologia, Universidade Federal de Sergipe, São Cristóvão, Sergipe, Brazil (; ; ; ; )
| | - L M Steffler
- Laboratório de Entomologia e Parasitologia Tropical, Departamento de Morfologia, Universidade Federal de Sergipe, São Cristóvão, Sergipe, Brazil (; ; ; ; )
| | - P E M Ribolla
- Departamento de Parasitologia, Instituto de Biociências, Universidade Estadual Paulista, Botucatu, São Paulo, Brazil
| | - S C H Cavalcanti
- Laboratório de Química Medicinal, Departamento de Farmácia, Universidade Federal de Sergipe, São Cristóvão, Sergipe, Brazil , and
| | - S Jain
- Laboratório de Entomologia e Parasitologia Tropical, Departamento de Morfologia, Universidade Federal de Sergipe, São Cristóvão, Sergipe, Brazil (; ; ; ; )
| | - A J Martins
- Laboratório de Fisiologia e Controle de Artrópodes Vetores, IOC - Fiocruz, Rio de Janeiro, Brazil
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Teixeira V, Soares P, Martins AJ, Carneiro J, Cerqueira F. Nanocomposite metal amorphous-carbon thin films deposited by hybrid PVD and PECVD technique. J Nanosci Nanotechnol 2009; 9:4061-4066. [PMID: 19916409 DOI: 10.1166/jnn.2009.m11] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/28/2023]
Abstract
Carbon based films can combine the properties of solid lubricating graphite structure and hard diamond crystal structure, i.e., high hardness, chemical inertness, high thermal conductivity and optical transparency without the crystalline structure of diamond. Issues of fundamental importance associated with nanocarbon coatings are reducing stress, improving adhesion and compatibility with substrates. In this work new nanocomposite coatings with improved toughness based in nanocrystalline phases of metals and ceramics embedded in amorphous carbon matrix are being developed within the frame of a research project: nc-MeNxCy/a-C(Me) with Me = Mo, Si, Al, Ti, etc. Carbide forming metal/carbon (Me/C) composite films with Me = Mo, W or Ti possess appropriate properties to overcome the limitation of pure DLC films. These novel coating architectures will be adopted with the objective to decrease residual stress, improve adherence and fracture toughness, obtain low friction coefficient and high wear-resistance. Nanocomposite DLC's films were deposited by hybrid technique using a PVD-Physically Vapor Deposition (magnetron sputtering) and Plasma Enhanced Chemical Vapor Deposition (PECVD), by the use of CH4 gas. The parameters varied were: deposition time, substrate temperature (180 degrees C) and dopant (Si + Mo) of the amorphous carbon matrix. All the depositions were made on silicon wafers and steel substrates precoated with a silicon inter-layer. The characterisation of the film's physico-mechanical properties will be presented in order to understand the influence of the deposition parameters and metal content used within the a-C matrix in the thin film properties. Film microstructure and film hybridization state was characterized by Raman Spectroscopy. In order to characterize morphology SEM and AFM will be used. Film composition was measured by Energy-Dispersive X-ray analysis (EDS) and by X-ray photoelectron spectroscopy (XPS). The contact angle for the produced DLC's on silicon substrates were also measured. Thin film adherence was studied by micro-scratch test. Residual stresses in the produced coatings will be analysed by bending technique.
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Affiliation(s)
- V Teixeira
- Physics Department, University of Minho, Campus de Azurem, 4800-058 Guimaraes, Portugal
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Martins AJ, Nunes C, Brites MJ, Prates ML, Teixeira V, Carvalho MJ. Novel nanocomposite coatings with dispersed organic nanoparticles for solar absorbers. J Nanosci Nanotechnol 2009; 9:3401-3405. [PMID: 19504860 DOI: 10.1166/jnn.2009.ns08] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/27/2023]
Abstract
A natural pigment (Anthocyanin extracted from Sambucus nigra L. fruit) was incorporated by dipping sputtered titanium oxide films into a pigment solution. The pigment solution has red colour and an absorption peak located in the wavelength range of 520 to 540 nm. Titanium oxide thin films were prepared by reactive DC magnetron sputtering and reactive pulsing DC magnetron sputtering from a Titanium target in O2 + Ar atmosphere onto glass slides. Pigment incorporation in thin films was found dependent of both morphology and composition, which depends on deposition parameters, like pulsing frequency and oxygen flow rate. The incorporation of this pigment in TiOx thin films increases the final solar absorption and decreases the final average roughness of these films. The effect in solar absorption is higher in films prepared by DC and pulsed DC at pulsing frequency of 200 kHz.
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Affiliation(s)
- A J Martins
- Physics Department, University of Minho, Campus Gualtar 4710-057 Braga, Portugal
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Crema E, Benelli AG, Silva AV, Martins AJ, Pastore R, Kujavao GH, Silva AA, Santana JR. Assessment of pulmonary function in patients before and after laparoscopic and open esophagogastric surgery. Surg Endosc 2004; 19:133-6. [PMID: 15549632 DOI: 10.1007/s00464-004-8102-z] [Citation(s) in RCA: 8] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/09/2004] [Accepted: 07/14/2004] [Indexed: 11/29/2022]
Abstract
BACKGROUND Laparoscopy is a technique used in various surgical procedures. Few studies in the literature compare stress between laparoscopic and open surgery used for esophagogastric surgical procedures. Pulmonary function is known to be significantly affected in open surgeries, increasing postoperative morbidity and mortality. The current study aimed to assess pulmonary function in patients before and after open and laparoscopic esophagogastric surgery. METHODS For this study, 75 patients were divided into two groups: 50 patients undergoing laparoscopy and 25 patients undergoing open surgery. The following parameters were determined by spirometry before and after surgery: forced expiratory volume in the first second (FEV(1)), forced vital capacity (FVC), and forced expiratory flow in the midexpiratory phase (FEF(25-75%)). RESULTS A decrease in FEV(1,) FVC, and FEF((25-75%)) was observed in the two groups on postoperative days 2, 3, and 4, as compared with the preoperative period. Likewise, FEV(1) and FVC showed a significant reduction on postoperative days 2, 3, and 4 in the patients who underwent to open surgery, but only on the day 2 in those who underwent to laparoscopic surgery. A significant decrease in FEF((25-75%)) was observed only on postoperative day 2 in the group that underwent open surgery. Significant differences in FEV(1) between the groups were observed on postoperative days 2, 3, and 4. No significant difference in FVC was noted between the groups, and a difference in FEF((25-75%)) was observed only on postoperative day 4. CONCLUSIONS Postoperative pulmonary dysfunction was more important for the patients undergoing open surgery than for those undergoing laparoscopic surgery.
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Affiliation(s)
- E Crema
- The Academic Unit of Surgery, Federal School of Medicine of Triângulo Minerio, Uberaba, MG, Brazil.
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Lopes A, de Melo JS, Martins AJ, Macanita AL, Pina FS, Wamhoff H, Melo E. Partition of Pesticides of the Coumarin Family between Water and Amphiphilic Aggregates. Environ Sci Technol 1995; 29:562-570. [PMID: 22200263 DOI: 10.1021/es00003a002] [Citation(s) in RCA: 13] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/31/2023]
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Kowler E, Martins AJ, Pavel M. The effect of expectations on slow oculomotor control--IV. Anticipatory smooth eye movements depend on prior target motions. Vision Res 1984; 24:197-210. [PMID: 6719834 DOI: 10.1016/0042-6989(84)90122-6] [Citation(s) in RCA: 126] [Impact Index Per Article: 3.2] [Reference Citation Analysis] [What about the content of this article? (0)] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/21/2023]
Abstract
Prior work had shown that smooth eye movements depend both on the motion of the target on the retina and on the subject's expectations about future target motion (Kowler and Steinman, 1979a,b). Effects of expectation cannot be eliminated by making target motions unpredictable (Kowler and Steinman, 1981). The experiment reported here shows that effects of expectations on smooth eye movement depend in a lawful way on the history of prior target motions. Anticipatory smooth eye movements (involuntary drifts in the direction of future target motion) were measured while subjects fixated a stationary target that was expected to step in an unpredictable direction (right or left). Anticipatory smooth eye movement velocity depended on the sequence of steps in prior trials, e.g. velocity was faster to the right when the prior steps were to the right. The influence of prior steps diminished the further back into the past the step occurred. Sequential dependencies were also observed for the saccades used to track the target steps. Anticipatory smooth eye movement velocity was predicted by a two-state Markov model developed by Falmagne et al. (1975) for similar sequential dependencies observed in a manual reaction-time task (button-pressing). The model uses the prior sequence of target motions to predict the subject's expectation, and assumes that the expectation determines anticipatory smooth eye movement velocity. The fit of the model to the data was good which shows that taking expectations into account is both necessary and feasible. Taking expectations into account, quantitatively, allows accurate predictions about smooth eye movement velocity when target motions are unpredictable.
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Collewijn H, Martins AJ, Steinman RM. Compensatory eye movements during active and passive head movements: fast adaptation to changes in visual magnification. J Physiol 1983; 340:259-86. [PMID: 6604152 PMCID: PMC1199209 DOI: 10.1113/jphysiol.1983.sp014762] [Citation(s) in RCA: 123] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/21/2023] Open
Abstract
Rotational eye and head movements were recorded with great precision with scleral and cranial search coils in a rotating magnetic field. Compensatory eye movements were recorded in light and darkness during active as well as passive head movements in the frequency range 0.33-1.33 Hz. From the recorded, nominal gaze movements the effective gaze was reconstructed taking into account magnification or reduction factors of corrective spectacles. Effective gain was calculated as the ratio between the velocities of the effective corrective eye movements and the head movements. In the light, effective gain of compensatory eye movements during active head motion was mostly between 0.97 and 1.03. It was never precisely unity and differed systematically between subjects and between the two eyes of each subject. During passive head motion in the light, gain was lower by about 3% than during active motion. During active head movement in the dark, gain was mostly between 0.92 and 1.00; values were about 5% lower than during active motion in the light. During passive head movement in the dark, gain was about 13% lower than during active motion, and the variability of the oculomotor response increased. Adaptation of these base-line conditions was induced by fitting the subjects with magnifying or reducing spectacles for periods of 40 min to 24 h. The largest required change in amplitude of eye movements was 36%. When active head movements were made, the amplitude of compensatory eye movements in the light as well as in the dark adjusted rapidly. Most of the adaptation of the vestibulo-ocular reflex in the dark was completed in about 30 min. This rate is much faster than that found in previous experiments requiring larger adaptive changes. Differential adaptation to unequal demands for the two eyes proved to be very hard or impossible. In a mild conflict situation the system adjusted to an intermediate level, distributing the error symmetrically between the eyes. When the discrepancy was large, the adaptive process of both eyes was controlled by the one eye which provided the most meaningful information. It is concluded that the system generating compensatory eye movements performs best during active rather than passive head movements, and that adaptation to moderate changes in optimal gain are made very rapidly.
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Abstract
Accurate recordings of eye movements of children 4 and 5 years old show that their eye movements differed from those of adults. During maintained fixation, saccades were large (1 degree to 2 degrees) and smooth eye movement speeds were high (45 minutes of arc per second). Saccade latencies were highly variable during target step tracking. Smooth pursuit latencies were longer than those of adults. These hitherto unknown characteristics limit a child's ability to use eye movements to acquire visual information.
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