Field and classroom initiatives for portable sequence-based monitoring of dengue virus in Brazil

巴西登革病毒便携式序列监测的实地和课堂项目

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作者：Adelino,Talita Émile Ribeiro,Giovanetti,Marta,Fonseca,Vagner,Xavier,Joilson,de Abreu,Álvaro Salgado,do Nascimento,Valdinete Alves,Demarchi,Luiz Henrique Ferraz,Oliveira,Marluce Aparecida Assunção,da Silva,Vinícius Lemes,de Mello,Arabela Leal E Silva,Cunha,Gabriel Muricy,Santos,Roselene Hans,de Oliveira,Elaine Cristina,Júnior,Jorge Antônio Chamon,de Melo Iani,Felipe Campos,de Filippis,Ana Maria Bispo,de Abreu,André Luiz,de Jesus,Ronaldo,de Albuquerque,Carlos Frederico Campelo,Rico,Jairo Mendez,do Carmo Said,Rodrigo Fabiano,Silva,Joscélio Aguiar,de Moura,Noely Fabiana Oliveira,Leite,Priscila,Frutuoso,Lívia Carla Vinhal,Haddad,Simone Kashima,Martínez,Alexander,Barreto,Fernanda Khouri,Vazquez,Cynthia Carolina,da Cunha,Rivaldo Venâncio,Araújo,Emerson Luiz Lima,de Oliveira Tosta,Stephane Fraga,de Araújo Fabri,Allison,Chalhoub,Flávia Löwen Levy,da Silva Lemos,Poliana,de Bruycker-Nogueira,Fernanda,de Castro Lichs,Gislene Garcia,Zardin,Marina Castilhos Souza Umaki,Segovia,Fátima María Cardozo,Gonçalves,Crhistinne Cavalheiro Maymone,Grillo,Zoraida Del Carmen Fernandez,Slavov,Svetoslav Nanev,Pereira,Luiz Augusto,Mendonça,Ana Flávia,Pereira,Felicidade Mota,de Magalhães,Jurandy Júnior Ferraz,Dos Santos Júnior,Agenor de Castro Moreira,de Lima,Maricélia Maia,Nogueira,Rita Maria Ribeiro,Góes-Neto,Aristóteles,de Carvalho Azevedo,Vasco Ariston,Ramalho,Dario Brock,Oliveira,Wanderson Kleber,Macario,Eduardo Marques,de Medeiros,Arnaldo Correia,Pimentel,Victor,Holmes,Edward C,de Oliveira,Tulio,Lourenço,José,Alcantara,Luiz Carlos Junior
期刊：Nature Communications影响因子：15.700
时间：2021起止号：2021 Apr 16;12(1):2296
doi：10.1038/s41467-021-22607-0

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.

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