1. Field and classroom initiatives for portable sequence-based monitoring of dengue virus in Brazil
- Author
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Adelino, Talita ?mile Ribeiro, Giovanetti, Marta, Fonseca, Vagner, Xavier, Joilson, Abreu, ?lvaro Salgado de, Nascimento, Valdinete Alves do, Demarchi, Luiz Henrique Ferraz, Oliveira, Marluce Aparecida Assun??o, Silva, Vin?cius Lemos da, Mello, Arabela Leal e Silva de, Cunha, Gabriel Muricy, Santos, Roselene Hans, Oliveira, Elaine Cristina de, Chamon J?nior, Jorge Ant?nio, Iani, Felipe Campos de Melo, Filippis, Ana Maria Bispo de, Abreu, Andr? Luiz de, Jesus, Ronaldo de, Albuquerque, Carlos Frederico Campelo de, Rico, Jairo Mendez, Said, Rodrigo Fabiano do Carmo, Silva, Josc?lio Aguiar, Moura, Noely Fabiana Oliveira de, Leite, Priscila, Frutuoso, L?via Carla Vinhal, Haddad, Simone Kashima, Mart?nez, Alexander, Barreto, Fernanda Khouri, Vazquez, Cynthia Carolina, Cunha, Rivaldo Ven?ncio da, Ara?jo, Emerson Luiz Lima, Tosta, Stephane Fraga de Oliveira, Fabri, Allison de Ara?jo, Chalhoub, Fl?via Lowen Levy, Lemos, Poliana da Silva, Bruycker-Nogueira, Fernanda de, Lichs, Gislene Garcia de Castro, Zardin, Marina Castilho Souza Umaki, Segovia, F?tima Mar?a Cardozo, Gon?alves, Crhistinne Cavalheiro Maymone, Grillo, Zoraida Del Carmen Fernandez, Slavov, Svetoslav Nanev, Pereira, Luiz Augusto, Mendon?a, Ana Fl?via, Pereira, Felicidade Mota, Magalh?es, Jurandy J?nior Ferraz de, Santos J?nior, Agenor de Castro Moreira dos, Lima, Maric?lia Maia de, Nogueira, Rita Maria Ribeiro, G?es-Neto, Arist?teles, Azevedo, Vasco Ariston de Carvalho, Ramalho, Dario Brock, Oliveira, Wanderson Kleber, Macario, Eduardo Marques, Medeiros, Arnaldo Correia de, Pimentel, Victor, Holmes, Edward C, Oliveira, Tulio de, Louren?o, Jos?, Alcantara, Luiz Carlos Junior, Cerqueira, Erenilde Marques de, Graf, Tiago, Ramalho, Walter, Navegantes, Wildo, Reis, Renato Barbosa, Duarte, Clara Guerra, Pereira, Maria Alves, Silva, Paulo Eduardo de Souza da, Souza, Raoni Almeida de, Pauvolid-Corr?a, Alex, Paiva, Anne Aline Pereira de, Fritsch, Hegger Machado, Mares-Guia, Maria Ang?lica, Torres, Maria Celeste, Lima, Maur?cio Teixeira, Sequeira, Patr?cia, Marques, William de Almeida, Jesus, Jorlan Fernandes de, Naveca, Felipe Gomes, Silva, Alessandra Lima, Pinto, Anne Cybelle, Jaiswal, Arun Kumar, Lopes, ?lisson Nogueira, Costa, Francielly Morais Rodrigues da, Quintanilha-Peixoto, Gabriel, Soares, Gilson Carlos, Fonseca, Paula Luize Camargos, Souza, Renan Pedra de, Kato, Rodrigo Bentes, Santos, Rodrigo Profeta Silveira, Tiwari, Sandeep, Nogueira, Wylerson Guimar?es, Santos, Beatriz Senra ?lvares da Silva, Bueno, Bruna Lopes, Siqueira, Isadora Cristina de, Valle, Lourdes Farre, Borba, Melina Mosquera Navarro, Mazzetto, Alix Sandra, Aguiar, Francisco de Assis Ara?jo, Gomes, Irenio da Silva, Abrantes, Jayra Juliana Paiva Alves, Watanabe, Luiz Takao, Rego, Marta Ferreira da Silva, Nardy, Vanessa Brand?o, Aguiar, Shirlei Ferreira de, Santos, Fabiana Cristina Pereira dos, Queiroz, Alice Louize Nunes, Nunes, Bruno Tardelli Diniz, Martins, L?via Car?cio, Nunes, Marcio Roberto Teixeira, Salles, Fl?via Cristina da Silva, Claro, Ingra Morales, Jesus, Jaqueline Goes de, C?ndido, Darlan da Silva, Fabbri, Cintia Marcela, Gonz?lez, Claudia, Sa?z, Lisseth, Chen-Germ?n, Mar?a, Barrera, Jaime Lagos, Ram?rez-Gonz?lez, Jos? Ernesto, Campos, Josefina, Faller, Noelia Morel, Villalobos, Marta Eugenia V?quez, Kaslin, Roberto, Cisneros, Silvia Paola Salgado, Aburjaile, Fl?via Figueira, Amaral, Carolina Dourado, Freire, Danielle Bandeira Costa de Sousa, Cruz, Laura Nogueira, Mattos, Daniel, Landeira, Leandro Ferreira Lopes, Menezes, Mariane Talon de, Orioli, Ieda Maria, Ferraz, Ariane Coelho, Oliveira, Daiane Teixeira de, Reis, Alexandre Barbosa, Cota, Renata Guerra de S?, Bezerra, Rafael dos Santos, Falc?o, Melissa Barreto, and Carvalho, Rodrigo Dias de Oliveira
- Subjects
0106 biological sciences ,0301 basic medicine ,Sequenciamento por Nanoporos ,Lineage (evolution) ,General Physics and Astronomy ,Dengue virus ,medicine.disease_cause ,01 natural sciences ,Dengue fever ,law.invention ,Dengue ,law ,Clade ,Phylogeny ,Molecular Epidemiology ,Multidisciplinary ,V?rus da Dengue / patogenicidade ,Varia??o Estrutural do Genoma ,Phylogenetics ,Transmission (mechanics) ,Geography ,Epidemiological Monitoring ,RNA, Viral ,Brazil ,Science ,Genome, Viral ,Real-Time Polymerase Chain Reaction ,010603 evolutionary biology ,Proof of Concept Study ,General Biochemistry, Genetics and Molecular Biology ,Article ,Dengue / virologia ,03 medical and health sciences ,medicine ,Humans ,Epidemics ,Retrospective Studies ,Whole genome sequencing ,Whole Genome Sequencing ,Genetic Variation ,Dengue / transmiss?o ,General Chemistry ,Dengue Virus ,medicine.disease ,Molecular Typing ,030104 developmental biology ,Evolutionary biology ,Feasibility Studies ,Nanopore sequencing ,Mobile Health Units - Abstract
Brazil experienced a large dengue virus (DENV) epidemic in 2019, highlighting a continuous struggle with effective control and public health preparedness. Using Oxford Nanopore sequencing, we led field and classroom initiatives for the monitoring of DENV in Brazil, generating 227 novel genome sequences of DENV1-2 from 85 municipalities (2015–2019). This equated to an over 50% increase in the number of DENV genomes from Brazil available in public databases. Using both phylogenetic and epidemiological models we retrospectively reconstructed the recent transmission history of DENV1-2. Phylogenetic analysis revealed complex patterns of transmission, with both lineage co-circulation and replacement. We identified two lineages within the DENV2 BR-4 clade, for which we estimated the effective reproduction number and pattern of seasonality. Overall, the surveillance outputs and training initiative described here serve as a proof-of-concept for the utility of real-time portable sequencing for research and local capacity building in the genomic surveillance of emerging viruses., Here, the authors present results of the ZiBRA-2 project (https://www.zibra2project.org) which is an arbovirus surveillance project, across the Midwest of Brazil using a mobile genomics laboratory, combined with a genomic surveillance training program that targeted post-graduate students, laboratory technicians, and health practitioners in universities and laboratories.
- Published
- 2021