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1. Genomic epidemiology of the SARS-CoV-2 epidemic in Brazil

Author

Giovanetti, Marta, Slavov, Svetoslav Nanev, Fonseca, Vagner, Wilkinson, Eduan, Tegally, Houriiyah, Patané, José Salvatore Leister, Viala, Vincent Louis, San, Emmanuel James, Rodrigues, Evandra Strazza, Santos, Elaine Vieira, Aburjaile, Flavia, Xavier, Joilson, Fritsch, Hegger, Adelino, Talita Emile Ribeiro, Pereira, Felicidade, Leal, Arabela, Iani, Felipe Campos de Melo, de Carvalho Pereira, Glauco, Vazquez, Cynthia, Sanabria, Gladys Mercedes Estigarribia, Oliveira, Elaine Cristina de, Demarchi, Luiz, Croda, Julio, dos Santos Bezerra, Rafael, Paola Oliveira de Lima, Loyze, Martins, Antonio Jorge, Renata dos Santos Barros, Claudia, Marqueze, Elaine Cristina, de Souza Todao Bernardino, Jardelina, Moretti, Debora Botequio, Brassaloti, Ricardo Augusto, de Lello Rocha Campos Cassano, Raquel, Mariani, Pilar Drummond Sampaio Corrêa, Kitajima, João Paulo, Santos, Bibiana, Proto-Siqueira, Rodrigo, Cantarelli, Vlademir Vicente, Tosta, Stephane, Nardy, Vanessa Brandão, Reboredo de Oliveira da Silva, Luciana, Gómez, Marcela Kelly Astete, Lima, Jaqueline Gomes, Ribeiro, Adriana Aparecida, Guimarães, Natália Rocha, Watanabe, Luiz Takao, Barbosa Da Silva, Luana, da Silva Ferreira, Raquel, da Penha, Mara Patricia F., Ortega, María José, de la Fuente, Andrea Gómez, Villalba, Shirley, Torales, Juan, Gamarra, María Liz, Aquino, Carolina, Figueredo, Gloria Patricia Martínez, Fava, Wellington Santos, Motta-Castro, Ana Rita C., Venturini, James, do Vale Leone de Oliveira, Sandra Maria, Gonçalves, Crhistinne Cavalheiro Maymone, do Carmo Debur Rossa, Maria, Becker, Guilherme Nardi, Giacomini, Mayra Presibella, Marques, Nelson Quallio, Riediger, Irina Nastassja, Raboni, Sonia, Mattoso, Gabriela, Cataneo, Allan D., Zanluca, Camila, Duarte dos Santos, Claudia N., Assato, Patricia Akemi, Allan da Silva da Costa, Felipe, Poleti, Mirele Daiana, Lesbon, Jessika Cristina Chagas, Mattos, Elisangela Chicaroni, Banho, Cecilia Artico, Sacchetto, Lívia, Moraes, Marília Mazzi, Grotto, Rejane Maria Tommasini, Souza-Neto, Jayme A., Nogueira, Maurício Lacerda, Fukumasu, Heidge, Coutinho, Luiz Lehmann, Calado, Rodrigo Tocantins, Neto, Raul Machado, Bispo de Filippis, Ana Maria, Venancio da Cunha, Rivaldo, Freitas, Carla, Peterka, Cassio Roberto Leonel, de Fátima Rangel Fernandes, Cássia, Navegantes, Wildo, do Carmo Said, Rodrigo Fabiano, Campelo de A e Melo, Carlos F., Almiron, Maria, Lourenço, José, de Oliveira, Tulio, Holmes, Edward C., Haddad, Ricardo, Sampaio, Sandra Coccuzzo, Elias, Maria Carolina, Kashima, Simone, Junior de Alcantara, Luiz Carlos, and Covas, Dimas Tadeu

Published
2022
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2. Fatal Oropouche Virus Infections in Nonendemic Region, Brazil, 2024.

Author

Carlos Bandeira, Antonio, Mota Pereira, Felicidade, Leal, Arabela, P. O. Santos, Sara, Claudia Barbosa, Ana, Leal Souza, Marcia Sao Pedro, Ribeiro de Souza, Daniele, Guimaraes, Natalia, Fonseca, Vagner, Giovanetti, Marta, Junior Alcantara, Luiz Carlos, A. Lessa, André Alvarez, Costa Saavedra, Ramon, R. Tomé, Luiz Marcelo, M. Iani, Felipe Campos, Mary Barros, Rivia, O. Purificação, Sandra Maria, Prado de Jesus, Jaciara, Rosário Fonseca, Ricardo, and Valença Araújo, Marcio Luis

Subjects
VIRUS diseases, NEGLECTED diseases, BASIC needs, EPIDEMIOLOGY, PARACOCCIDIOIDOMYCOSIS
Abstract

We report acute Oropouche virus infections in 2 previously healthy women from a nonendemic region of Brazil outside the Amazon Basin. Infections rapidly progressed to hemorrhagic manifestations and fatal outcomes in 4-5 days. These cases highlight the critical need for enhanced surveillance to clarify epidemiology of this neglected disease. [ABSTRACT FROM AUTHOR]

Published
2024
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3. Correction: Short Report: Early genomic detection of SARS-CoV-2 P.1 variant in Northeast Brazil

Author

Tosta, Stephane, primary, Giovanetti, Marta, additional, Brandão Nardy, Vanessa, additional, Reboredo de Oliveira da Silva, Luciana, additional, Kelly Astete Gómez, Marcela, additional, Gomes Lima, Jaqueline, additional, Wanderley Cardoso, Cristiane, additional, Oliveira Silva, Tarcisio, additional, São Pedro Leal de Souza, Marcia, additional, Presta Dias, Pedro Henrique, additional, Fonseca, Vagner, additional, de Oliveira, Tulio, additional, Lourenço, José, additional, Carlos Junior Alcantara, Luiz, additional, Pereira, Felicidade, additional, and Leal, Arabela, additional

Published
2022
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4. Genomic epidemiology reveals how restriction measures shaped the SARS-CoV-2 epidemic in Brazil

Author

Giovanetti, Marta, primary, Nanev Slavov, Svetoslav, additional, Fonseca, Vagner, additional, Wilkinson, Eduan, additional, Tegally, Houriiyah, additional, Patane, Jose, additional, Viala, Vincent Louis, additional, San, Emmanuel James, additional, Strazza Rodrigues, Evandra, additional, Vieira Santos, Elaine, additional, Aburjaile, Flavia, additional, Xavier, Joilson, additional, Fritsch, Hegger, additional, Ribeiro Adelino, Talita Emile, additional, Pereira, Felicidade, additional, Leal, Arabela, additional, Campos de Melo Iani, Felipe, additional, de Carvalho Pereira, Glauco, additional, Vazquez, Cynthia, additional, Mercedes Estigarribia Sanabria, Gladys, additional, Cristina de Oliveira, Elaine, additional, Demarchi, Luiz, additional, Croda, Julio, additional, Bezerra, Rafael Dos Santos, additional, Oliveira de Lima, Loyze Paola, additional, Martins, Antonio Jorge, additional, dos Santos Barros, Claudia Renata, additional, Marqueze, Elaine Cristina, additional, de Souza Todao Bernardino, Jardelina, additional, Botequio Moretti, Debora, additional, Brassaloti, Ricardo Augusto, additional, de Lello Rocha Campos Cassano, Raquel, additional, Drummond Sampaio Correa Mariani, Pilar, additional, Paulo Kitajima, Joao, additional, Santos, Bibiana, additional, Proto Siqueira, Rodrigo, additional, Cantarelli, Vlademir Vicente, additional, Tosta, Stephane, additional, Brandao Nardy, Vanessa, additional, Reboredo de Oliveira da Silva, Luciana, additional, Astete Gomez, Marcela Kelly, additional, Gomes Lima, Jaqueline, additional, Ribeiro, Adriana Aparecida, additional, Rocha Guimaraes, Natalia, additional, Takao Watanabe, Luiz, additional, Barbosa Da Silva, Luana, additional, da Silva Ferreira, Raquel, additional, F. da Penha, Mara Patricia, additional, Ortega, Maria Jose, additional, Gomez de la Fuente, Andrea, additional, Villalba, Shirley, additional, Torales, Juan, additional, Gamarra, Maria Liz, additional, Aquino, Carolina, additional, Martinez Figueredo, Gloria Patricia, additional, Santos Fava, Wellington, additional, Motta Castro, Ana Rita C., additional, Venturini, James, additional, do Vale Leone de Oliveira, Sandra Maria, additional, Cavalheiro Maymone Goncalves, Crhistinne, additional, do Carmo Debur Rossa, Maria, additional, Nardi Becker, Guilherme, additional, Marinho Presibella, Mayra, additional, Quallio Marques, Nelson, additional, Nastassja Riediger, Irina, additional, Raboni, Sonia, additional, Mattoso, Gabriela, additional, Cataneo, Allan D., additional, Zanluca, Camila, additional, Duarte dos Santos, Claudia N, additional, Akemi Assato, Patricia, additional, da Silva da Costa, Felipe Allan, additional, Poleti, Mirele Daiana, additional, Chagas Lesbon, Jessika Cristina, additional, Chicaroni Mattos, Elisangela, additional, Artico Banho, Cecilia, additional, Sacchetto, Livia S, additional, Mazzi Moraes, Marilia, additional, Tommasini Grotto, Rejane Maria, additional, Souza-Neto, Jayme A., additional, Nogueira, Mauricio L, additional, Fukumasu, Heidge, additional, Lehmann Coutinho, Luiz, additional, Tocantins Calado, Rodrigo, additional, Machado Neto, Raul, additional, Bispo de Filippis, Ana Maria, additional, Venancio da Cunha, Rivaldo, additional, Freitas, Carla, additional, Leonel Peterka, Cassio Roberto, additional, Rangel Fernandes, Cassia de Fatima, additional, Navegantes, Wildo, additional, do Carmo Said, Rodrigo Fabiano, additional, Almiron, Maria, additional, Campelo de A e Melo, Carlos F, additional, Lourenco, Jose, additional, de Oliveira, Tulio, additional, Holmes, Edward C, additional, Haddad, Ricardo, additional, Sampaio, Sandra Coccuzzo, additional, Elias, Maria Carolina, additional, Kashima, Simone, additional, Alcantara, Luiz Carlos Junior, additional, and Covas, Dimas Tadeu, additional

Published
2021
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5. Short Report: Early genomic detection of SARS-CoV-2 P.1 variant in Northeast Brazil

Author

Tosta, Stephane, primary, Giovanetti, Marta, additional, Brandão Nardy, Vanessa, additional, Reboredo de Oliveira da Silva, Luciana, additional, Kelly Astete Gómez, Marcela, additional, Gomes Lima, Jaqueline, additional, Wanderley Cardoso, Cristiane, additional, Oliveira Silva, Tarcisio, additional, São Pedro Leal de Souza, Marcia, additional, Presta Dia, Pedro Henrique, additional, Fonseca, Vagner, additional, de Oliveira, Tulio, additional, Lourenço, José, additional, Carlos Junior Alcantara, Luiz, additional, Pereira, Felicidade, additional, and Leal, Arabela, additional

Published
2021
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6. Genomic epidemiology reveals how restriction measures shaped the SARS-CoV-2 epidemic in Brazil

Author

Giovanetti, Marta, Slavov, Svetoslav Nanev, Fonseca, Vagner, Wilkinson, Eduan, Tegally, Houriiyah, Patané, José Salvatore Leister, Viala, Vincent Louis, San, Emmanuel James, Rodrigues, Evandra Strazza, Santos, Elaine Vieira, Aburjaile, Flavia, Xavier, Joilson, Fritsch, Hegger, Adelino, Talita Emile Ribeiro, Pereira, Felicidade, Leal, Arabela, de Melo Iani, Felipe Campos, de Carvalho Pereira, Glauco, Vazquez, Cynthia, Sanabria, Gladys Mercedes Estigarribia, de Oliveira, Elaine Cristina, Demarchi, Luiz, Croda, Julio, dos Santos Bezerra, Rafael, de Lima, Loyze Paola Oliveira, Martins, Antonio Jorge, dos Santos Barros, Claudia Renata, Marqueze, Elaine Cristina, de Souza Todao Bernardino, Jardelina, Moretti, Debora Botequio, Brassaloti, Ricardo Augusto, de Lello Rocha Campos Cassano, Raquel, Mariani, Pilar Drummond Sampaio Corrêa, Kitajima, João Paulo, Santos, Bibiana, Proto-Siqueira, Rodrigo, Cantarelli, Vlademir Vicente, Tosta, Stephane, Nardy, Vanessa Brandão, da Silva, Luciana Reboredo de Oliveira, Gómez, Marcela Kelly Astete, Lima, Jaqueline Gomes, Ribeiro, Adriana Aparecida, Guimarães, Natália Rocha, Watanabe, Luiz Takao, Da Silva, Luana Barbosa, da Silva Ferreira, Raquel, da Penha, Mara Patricia F., Ortega, María José, de la Fuente, Andrea Gómez, Villalba, Shirley, Torales, Juan, Gamarra, María Liz, Aquino, Carolina, Figueredo, Gloria Patricia Martínez, Fava, Wellington Santos, Motta-Castro, Ana Rita C., Venturini, James, de Oliveira, Sandra Maria do Vale Leone, Gonçalves, Crhistinne Cavalheiro Maymone, do Carmo Debur Rossa, Maria, Becker, Guilherme Nardi, Presibella, Mayra Marinho, Marques, Nelson Quallio, Riediger, Irina Nastassja, Raboni, Sonia, Coelho, Gabriela Mattoso, Cataneo, Allan Henrique Depieri, Zanluca, Camila, dos Santos, Claudia N Duarte, Assato, Patricia Akemi, Allan Costa, Felipe da Silva da, Poleti, Mirele Daiana, Lesbon, Jessika Cristina Chagas, Mattos, Elisangela Chicaroni, Banho, Cecilia Artico, Sacchetto, Lívia, Moraes, Marília Mazzi, Grotto, Rejane Maria Tommasini, Souza-Neto, Jayme A., Nogueira, Maurício Lacerda, Fukumasu, Heidge, Coutinho, Luiz Lehmann, Calado, Rodrigo Tocantins, Neto, Raul Machado, de Filippis, Ana Maria Bispo, da Cunha, Rivaldo Venancio, Freitas, Carla, Peterka, Cassio Roberto Leonel, de Fátima Rangel Fernandes, Cássia, de Araújo, Wildo Navegantes, do Carmo Said, Rodrigo Fabiano, Almiron, Maria, de Albuquerque e Melo, Carlos Frederico Campelo, Lourenço, José, de Oliveira, Tulio, Holmes, Edward C., Haddad, Ricardo, Sampaio, Sandra Coccuzzo, Elias, Maria Carolina, Kashima, Simone, de Alcantara, Luiz Carlos Junior, and Covas, Dimas Tadeu

Subjects
Coronavirus, COVID-19
Abstract

Brazil has experienced some of the highest numbers of COVID-19 infections and deaths globally and made Latin America a pandemic epicenter from May 2021. Although SARS-CoV-2 established sustained transmission in Brazil early in the pandemic, important gaps remain in our understanding of local virus transmission dynamics. Here, we describe the genomic epidemiology of SARS-CoV-2 using near-full genomes sampled from 27 Brazilian states and an adjacent 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, the absence of effective restriction measures led to the local emergence and international spread of Variants of Concern (VOC) and under monitoring (VUM), including the Gamma (P.1) and Zeta (P.2) variants. In addition, we provide a preliminary genomic overview of the epidemic in Paraguay, showing evidence of importation from Brazil. These data reinforce the need for the implementation of widespread genomic surveillance in South America as a toolkit for pandemic monitoring and providing a means to follow the real-time spread of emerging SARS-CoV-2 variants with possible implications for public health and immunization strategies.

Published
2021

7. Genomic surveillance activities unveil the introduction of the SARS‐CoV‐2 B.1.525 variant of interest in Brazil: Case report

Author

Pereira, Felicidade, primary, Tosta, Stephane, additional, Lima, Maricélia M., additional, Reboredo de Oliveira da Silva, Luciana, additional, Nardy, Vanessa B., additional, Gómez, Marcela K. A., additional, Lima, Jaqueline G., additional, Fonseca, Vagner, additional, Oliveira, Tulio, additional, Lourenço, Jose, additional, Alcantara, Luiz C., additional, Giovanetti, Marta, additional, and Leal, Arabela, additional

Published
2021
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8. Early genomic detection of SARS-CoV-2 P.1 variant in Northeast Brazil

Author

Tosta, Stephane, primary, Giovanetti, Marta, additional, Brandão Nardy, Vanessa, additional, de Oliveira da Silva, Luciana Reboredo, additional, Gómez, Marcela Kelly Astete, additional, Lima, Jaqueline Gomes, additional, Cardoso, Cristiane Wanderley, additional, Silva, Tarcisio Oliveira, additional, São Pedro Leal de Souza, Marcia, additional, Dia, Pedro H. Presta, additional, Fonseca, Vagner, additional, Lourenço, José, additional, Alcantara, Luiz Carlos Junior, additional, Pereira, Felicidade, additional, and Leal, Arabela, additional

Published
2021
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9. Fatal Oropouche Virus Infections in Nonendemic Region, Brazil, 2024.

Author

Bandeira AC, Pereira FM, Leal A, Santos SPO, Barbosa AC, Souza MSPL, de Souza DR, Guimaraes N, Fonseca V, Giovanetti M, Alcantara LCJ, Lessa AAA, Saavedra RC, Tomé LMR, Iani FCM, Barros RM, Purificação SMO, de Jesus JP, Fonseca RR, and Araújo MLV

Subjects
Humans, Brazil epidemiology, Female, Fatal Outcome, Adult, Middle Aged, Bunyaviridae Infections epidemiology, Orthobunyavirus
Abstract

We report acute Oropouche virus infections in 2 previously healthy women from a nonendemic region of Brazil outside the Amazon Basin. Infections rapidly progressed to hemorrhagic manifestations and fatal outcomes in 4-5 days. These cases highlight the critical need for enhanced surveillance to clarify epidemiology of this neglected disease.

Published
2024
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10. Genomic epidemiology reveals the impact of national and international restrictions measures on the SARS-CoV-2 epidemic in Brazil.

Author

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, and Covas DT

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.

Published
2022
Full Text
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