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

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.

Año de publicación:

2021

Keywords:

    Fuente:

    scopusscopus

    Tipo de documento:

    Article

    Estado:

    Acceso abierto

    Áreas de conocimiento:

    • Epidemiología
    • Salud pública

    Áreas temáticas:

    • Farmacología y terapéutica
    • Microorganismos, hongos y algas
    • Medicina forense; incidencia de enfermedades

    Contribuidores:

    Bueno B.L.Bueno B.L.
    de Albuquerque C.F.C.de Albuquerque C.F.C.
    de Castro Lichs G.G.de Castro Lichs G.G.
    Chalhoub F.L.L.Chalhoub F.L.L.
    da Silva Lemos P.da Silva Lemos P.
    Adelino T.É.R.Adelino T.É.R.
    Demarchi L.H.F.Demarchi L.H.F.
    Haddad S.K.Haddad S.K.
    do Nascimento V.A.do Nascimento V.A.
    de Medeiros A.C.de Medeiros A.C.
    Cunha G.M.Cunha G.M.
    de Abreu Á.S.de Abreu Á.S.
    Lima M.T.Lima M.T.
    Pereira L.A.Pereira L.A.
    Mazzetto A.S.Mazzetto A.S.
    Pauvolid-Corrêa A.Pauvolid-Corrêa A.
    de Mello A.L.e.S.de Mello A.L.e.S.
    Tiwari S.Tiwari S.
    Gonçalves C.C.M.Gonçalves C.C.M.
    Fonseca P.L.C.Fonseca P.L.C.
    Duarte C.G.Duarte C.G.
    Leite P.Leite P.
    Soares G.C.Soares G.C.
    Nogueira R.M.R.Nogueira R.M.R.
    Nogueira W.G.Nogueira W.G.
    de Bruycker-Nogueira F.de Bruycker-Nogueira F.
    Ramalho W.M.Ramalho W.M.
    Pereira M.A.Pereira M.A.
    Watanabe L.T.Watanabe L.T.
    Santos R.H.Santos R.H.
    Góes-Neto A.Góes-Neto A.
    de Jesus R.de Jesus R.
    Borba M.M.N.Borba M.M.N.
    Frutuoso L.C.V.Frutuoso L.C.V.
    De Filippis A.M.B.De Filippis A.M.B.
    Graf T.Graf T.
    Aguiar F.d.A.A.Aguiar F.d.A.A.
    Oliveira W.K.Oliveira W.K.
    de Oliveira Tosta S.F.de Oliveira Tosta S.F.
    Silva A.L.Silva A.L.
    Kato R.B.Kato R.B.
    de Moura N.F.O.de Moura N.F.O.
    Xavier J.Xavier J.
    Mares-Guia M.A.Mares-Guia M.A.
    Mendonça A.F.Mendonça A.F.
    Quintanilha-Peixoto G.Quintanilha-Peixoto G.
    Isadora Cristina de SiqueiraIsadora Cristina de Siqueira
    Silva J.A.Silva J.A.
    da Silva Rego M.F.da Silva Rego M.F.
    de Magalhães J.J.F.de Magalhães J.J.F.
    de Oliveira E.C.de Oliveira E.C.
    de Almeida Marques W.de Almeida Marques W.
    Pinto A.C.Pinto A.C.
    Jaiswal A.K.Jaiswal A.K.
    da Silva V.L.da Silva V.L.
    de Souza da Silva P.E.de Souza da Silva P.E.
    de Jesus J.F.de Jesus J.F.
    da Silva Gomes I.da Silva Gomes I.
    Vallve L.F.Vallve L.F.
    Júnior J.A.C.Júnior J.A.C.
    Fritsch H.M.Fritsch H.M.
    Rodrigues da Costa F.M.Rodrigues da Costa F.M.
    da Silva Santos B.S.Á.da Silva Santos B.S.Á.
    Macário E.M.Macário E.M.
    Lopes É.N.Lopes É.N.
    Grillo Z.D.C.F.Grillo Z.D.C.F.
    Zardin M.C.S.U.Zardin M.C.S.U.
    Reis R.B.Reis R.B.
    Oliveira M.A.A.Oliveira M.A.A.
    Araújo E.L.L.Araújo E.L.L.
    Nardy V.B.Nardy V.B.
    Pereira F.M.Pereira F.M.
    dos Santos Júnior A.d.C.M.dos Santos Júnior A.d.C.M.
    Giovanetti M.Giovanetti M.
    de Abreu A.L.de Abreu A.L.
    Segovia F.M.C.Segovia F.M.C.
    Fonseca V.Fonseca V.
    Ramalho D.B.Ramalho D.B.
    de Lima M.M.de Lima M.M.
    Slavov S.N.Slavov S.N.
    Martínez A.Martínez A.
    Da Cunha R.V.Da Cunha R.V.
    de Cerqueira E.M.de Cerqueira E.M.
    Torres M.C.Torres M.C.
    Barreto F.K.Barreto F.K.
    Sequeira P.Sequeira P.
    Navegantes W.Navegantes W.
    Souza R.P.Souza R.P.
    Naveca F.G.Naveca F.G.
    Rico J.M.Rico J.M.
    Santos R.P.S.Santos R.P.S.
    Pereira de Paiva A.A.Pereira de Paiva A.A.
    do Carmo Said R.F.do Carmo Said R.F.
    de Melo Iani F.C.de Melo Iani F.C.
    Vazquez C.C.Vazquez C.C.
    de Souza R.A.de Souza R.A.
    Abrantes J.J.P.A.Abrantes J.J.P.A.
    Pimentel V.Pimentel V.
    de Carvalho Azevedo V.A.de Carvalho Azevedo V.A.
    de Araújo Fabri A.de Araújo Fabri A.