Genomic and epidemiological monitoring of yellow fever virus transmission potential
Despite the existence of an effective vaccine for yellow fever, there are still almost 80,000 fatalities from this infection each year. Since 2016, there has been a resurgence of cases in Africa and South America—and this at a time when the vaccine is in short supply. The worry is that yellow fever...
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| Published in | Science (American Association for the Advancement of Science) Vol. 361; no. 6405; pp. 894 - 899 |
|---|---|
| Main Authors | , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , |
| Format | Journal Article |
| Language | English |
| Published |
United States
The American Association for the Advancement of Science
31.08.2018
American Association for the Advancement of Science (AAAS) |
| Subjects | |
| Online Access | Get full text |
| ISSN | 0036-8075 1095-9203 1095-9203 |
| DOI | 10.1126/science.aat7115 |
Cover
| Abstract | Despite the existence of an effective vaccine for yellow fever, there are still almost 80,000 fatalities from this infection each year. Since 2016, there has been a resurgence of cases in Africa and South America—and this at a time when the vaccine is in short supply. The worry is that yellow fever will spread from the forests to the cities, because its vector,
Aedes
spp. mosquitoes, are globally ubiquitous. Faria
et al.
integrate genomic, epidemiological, and case distribution data from Brazil to estimate patterns of geographic spread, the risks of virus exposure, and the contributions of rural versus urban transmission (see the Perspective by Barrett). Currently, the yellow fever epidemic in Brazil seems to be driven by infections acquired while visiting forested areas and indicates spillover from susceptible wild primates.
Science
, this issue p.
894
; see also p.
847
MinION genomic and case data on a recent yellow fever epidemic indicate that most infections occurred during visits to forest regions.
The yellow fever virus (YFV) epidemic in Brazil is the largest in decades. The recent discovery of YFV in Brazilian
Aedes
species mosquitos highlights a need to monitor the risk of reestablishment of urban YFV transmission in the Americas. We use a suite of epidemiological, spatial, and genomic approaches to characterize YFV transmission. We show that the age and sex distribution of human cases is characteristic of sylvatic transmission. Analysis of YFV cases combined with genomes generated locally reveals an early phase of sylvatic YFV transmission and spatial expansion toward previously YFV-free areas, followed by a rise in viral spillover to humans in late 2016. Our results establish a framework for monitoring YFV transmission in real time that will contribute to a global strategy to eliminate future YFV epidemics. |
|---|---|
| AbstractList | Despite the existence of an effective vaccine for yellow fever, there are still almost 80,000 fatalities from this infection each year. Since 2016, there has been a resurgence of cases in Africa and South America—and this at a time when the vaccine is in short supply. The worry is that yellow fever will spread from the forests to the cities, because its vector,
Aedes
spp. mosquitoes, are globally ubiquitous. Faria
et al.
integrate genomic, epidemiological, and case distribution data from Brazil to estimate patterns of geographic spread, the risks of virus exposure, and the contributions of rural versus urban transmission (see the Perspective by Barrett). Currently, the yellow fever epidemic in Brazil seems to be driven by infections acquired while visiting forested areas and indicates spillover from susceptible wild primates.
Science
, this issue p.
894
; see also p.
847
MinION genomic and case data on a recent yellow fever epidemic indicate that most infections occurred during visits to forest regions.
The yellow fever virus (YFV) epidemic in Brazil is the largest in decades. The recent discovery of YFV in Brazilian
Aedes
species mosquitos highlights a need to monitor the risk of reestablishment of urban YFV transmission in the Americas. We use a suite of epidemiological, spatial, and genomic approaches to characterize YFV transmission. We show that the age and sex distribution of human cases is characteristic of sylvatic transmission. Analysis of YFV cases combined with genomes generated locally reveals an early phase of sylvatic YFV transmission and spatial expansion toward previously YFV-free areas, followed by a rise in viral spillover to humans in late 2016. Our results establish a framework for monitoring YFV transmission in real time that will contribute to a global strategy to eliminate future YFV epidemics. The yellow fever virus (YFV) epidemic in Brazil is the largest in decades. The recent discovery of YFV in Brazilian species mosquitos highlights a need to monitor the risk of reestablishment of urban YFV transmission in the Americas. We use a suite of epidemiological, spatial, and genomic approaches to characterize YFV transmission. We show that the age and sex distribution of human cases is characteristic of sylvatic transmission. Analysis of YFV cases combined with genomes generated locally reveals an early phase of sylvatic YFV transmission and spatial expansion toward previously YFV-free areas, followed by a rise in viral spillover to humans in late 2016. Our results establish a framework for monitoring YFV transmission in real time that will contribute to a global strategy to eliminate future YFV epidemics. The yellow fever virus (YFV) epidemic in Brazil is the largest in decades. The recent discovery of YFV in Brazilian Aedes species mosquitos highlights a need to monitor the risk of reestablishment of urban YFV transmission in the Americas. We use a suite of epidemiological, spatial, and genomic approaches to characterize YFV transmission. We show that the age and sex distribution of human cases is characteristic of sylvatic transmission. Analysis of YFV cases combined with genomes generated locally reveals an early phase of sylvatic YFV transmission and spatial expansion toward previously YFV-free areas, followed by a rise in viral spillover to humans in late 2016. Our results establish a framework for monitoring YFV transmission in real time that will contribute to a global strategy to eliminate future YFV epidemics. The yellow fever virus (YFV) epidemic in Brazil is the largest in decades. The recent discovery of YFV in Brazilian Aedes species mosquitos highlights a need to monitor the risk of reestablishment of urban YFV transmission in the Americas. We use a suite of epidemiological, spatial, and genomic approaches to characterize YFV transmission. We show that the age and sex distribution of human cases is characteristic of sylvatic transmission. Analysis of YFV cases combined with genomes generated locally reveals an early phase of sylvatic YFV transmission and spatial expansion toward previously YFV-free areas, followed by a rise in viral spillover to humans in late 2016. Our results establish a framework for monitoring YFV transmission in real time that will contribute to a global strategy to eliminate future YFV epidemics.The yellow fever virus (YFV) epidemic in Brazil is the largest in decades. The recent discovery of YFV in Brazilian Aedes species mosquitos highlights a need to monitor the risk of reestablishment of urban YFV transmission in the Americas. We use a suite of epidemiological, spatial, and genomic approaches to characterize YFV transmission. We show that the age and sex distribution of human cases is characteristic of sylvatic transmission. Analysis of YFV cases combined with genomes generated locally reveals an early phase of sylvatic YFV transmission and spatial expansion toward previously YFV-free areas, followed by a rise in viral spillover to humans in late 2016. Our results establish a framework for monitoring YFV transmission in real time that will contribute to a global strategy to eliminate future YFV epidemics. Arbovirus risk in BrazilDespite the existence of an effective vaccine for yellow fever, there are still almost 80,000 fatalities from this infection each year. Since 2016, there has been a resurgence of cases in Africa and South America—and this at a time when the vaccine is in short supply. The worry is that yellow fever will spread from the forests to the cities, because its vector, Aedes spp. mosquitoes, are globally ubiquitous. Faria et al. integrate genomic, epidemiological, and case distribution data from Brazil to estimate patterns of geographic spread, the risks of virus exposure, and the contributions of rural versus urban transmission (see the Perspective by Barrett). Currently, the yellow fever epidemic in Brazil seems to be driven by infections acquired while visiting forested areas and indicates spillover from susceptible wild primates.Science, this issue p. 894; see also p. 847The yellow fever virus (YFV) epidemic in Brazil is the largest in decades. The recent discovery of YFV in Brazilian Aedes species mosquitos highlights a need to monitor the risk of reestablishment of urban YFV transmission in the Americas. We use a suite of epidemiological, spatial, and genomic approaches to characterize YFV transmission. We show that the age and sex distribution of human cases is characteristic of sylvatic transmission. Analysis of YFV cases combined with genomes generated locally reveals an early phase of sylvatic YFV transmission and spatial expansion toward previously YFV-free areas, followed by a rise in viral spillover to humans in late 2016. Our results establish a framework for monitoring YFV transmission in real time that will contribute to a global strategy to eliminate future YFV epidemics. The yellow fever virus (YFV) epidemic in Brazil is the largest in decades. The recent discovery of YFV in Brazilian Aedes sp. mosquitos highlights a need to monitor the risk of re-establishment of urban YFV transmission in the Americas. We use a suite of epidemiological, spatial and genomic approaches to characterize YFV transmission. We show that the age- and sex-distribution of human cases is characteristic of sylvatic transmission. Analysis of YFV cases combined with genomes generated locally reveals an early phase of sylvatic YFV transmission and spatial expansion towards previously YFV-free areas, followed by a rise in viral spillover to humans in late 2016. Our results establish a framework for monitoring YFV transmission in real-time that will contribute to a global strategy to eliminate future YFV epidemics. |
| Author | Quick, J. dos Santos, F. C. P. Wint, G. R. W. Pereira, M. A. da Costa, A. C. Souza, R. P. Nikolay, B. Kraemer, M. U. G. Said, R. F. C. Araujo, E. S. M. de Oliveira, T. Abade, L. Santana, L. F. Loman, N. J. Arruda, M. B. Faria, N. R. Abreu, A. L. Iani, F. C. M. Cunha, M. S. Baele, G. Oliveira, M. A. A. Trindade, G. S. Adelino, T. E. R. Suchard, M. A. Filippis, A. M. B. Sacchetto, L. Ferraz, M. L. Figueiredo, P. O. Sequeira, P. C. Alcantara, L. C. J. Silveira, P. P. Tanuri, A. Okumoto, O. Goes de Jesus, J. Azevedo, V. Yi, D. Carroll, M. Dellicour, S. Carvalho, R. D. O. Aguiar, R. S. Lemey, P. Cauchemez, S. Nogueira, R. M. R. Fonseca, V. Pullan, S. T. Nogueira, J. S. Chieppe, A. O. Mendonça, M. C. L. Giovanetti, M. du Plessis, L. Thézé, J. de Albuquerque, C. F. C. Obolski, U. Sabino, E. C. Mello, E. M. Mares-Guia, A. M. Xavier, J. Santos, D. A. dos Santos, C. C. Rocco, I. M. Funk, S. Wu, C.-H. Garcia, M. H. O. Pereira, G. C. Komninakis, S. C. V. Shearer, F. M. Lewandowski, K. Rezende, I. M. Menezes, M. T. Drumond, B. P. Vasylyeva, T. I. Weiss, D. J. Brindeiro |
| AuthorAffiliation | 24 Departamento de Vigilância das Doenças Transmissíveis da Secretaria de Vigilância em Saúde, Ministério da Saúde, Brasília-DF, Brazil 28 NIHR HPRU in Emerging and Zoonotic Infections, Public Health England, UK 7 Institute of Microbiology and Infection, University of Birmingham, B15 2TT, UK 10 Department of Statistics, University of Oxford, OX1 3LB, UK 11 The Global Health Network, University of Oxford, UK 25 Secretaria de Vigilância em Saúde, Coordenação Geral de Laboratórios de Saúde Pública, Ministério da Saúde, Brasília-DF, Brazil 8 Instituto de Ciências Biológicas, Universidade Federal de Minas Gerais, Belo Horizonte, MG, Brazil 1 Department of Zoology, University of Oxford, OX1 3PS, UK 21 Instituto de Medicina Tropical e Faculdade de Medicina da Universidade de São Paulo, São Paulo, Brazil 6 Laboratório de Flavivírus, Instituto Oswaldo Cruz, FIOCRUZ, Rio de Janeiro, Brazil 3 Laboratório de Flavivírus, Instituto Oswaldo Cruz, FIOCRUZ Bahia, Salvador, Brazil 14 London School of Tropical Medi |
| AuthorAffiliation_xml | – name: 27 Public Health England, National Infections Service, Porton Down, UK – name: 20 Núcleo de Doenças de Transmissão Vetorial, Instituto Adolfo Lutz, São Paulo, Brazil – name: 23 Coordenação de Vigilância Epidemiológica do Estado do Rio de Janeiro, Brazil – name: 10 Department of Statistics, University of Oxford, OX1 3LB, UK – name: 15 Mathematical Modelling of Infectious Diseases and Center of Bioinformatics, Institut Pasteur, Paris, France – name: 29 Centre for the AIDS Programme of Research in South Africa (CAPRISA), Durban, South Africa – name: 4 Laboratory of Molecular Virology, Departamento de Genética, Instituto de Biologia, Rio De Janeiro, Brazil – name: 14 London School of Tropical Medicine and Hygiene, London, UK – name: 26 Organização Pan - Americana da Saúde - OPAS/OMS, Brasília-DF, Brazil – name: 5 Laboratório Central de Saúde Pública, Instituto Octávio Magalhães, FUNED, Belo Horizonte, Minas Gerais, Brazil – name: 30 Department of Biostatistics, UCLA Fielding School of Public Health, University of California, Los Angeles, CA, USA – name: 18 Secretaria de Estado de Saúde de Minas Gerais, Belo Horizonte, Minas Gerais, Brazil – name: 8 Instituto de Ciências Biológicas, Universidade Federal de Minas Gerais, Belo Horizonte, MG, Brazil – name: 6 Laboratório de Flavivírus, Instituto Oswaldo Cruz, FIOCRUZ, Rio de Janeiro, Brazil – name: 28 NIHR HPRU in Emerging and Zoonotic Infections, Public Health England, UK – name: 19 Laboratory of Medical Virology, Departamento de Genética Instituto de Biologia, Rio de Janeiro, Brazil – name: 11 The Global Health Network, University of Oxford, UK – name: 1 Department of Zoology, University of Oxford, OX1 3PS, UK – name: 3 Laboratório de Flavivírus, Instituto Oswaldo Cruz, FIOCRUZ Bahia, Salvador, Brazil – name: 2 Computational Epidemiology Lab, Boston Children's Hospital, Boston, USA and Harvard Medical School, Boston, USA – name: 12 Department of Statistics, Harvard University, Cambridge, MA, USA – name: 16 CNRS UMR2000: Génomique évolutive, modélisation et santé, Institut Pasteur, Paris, France – name: 17 KwaZulu-Natal Research, Innovation and Sequencing Platform (KRISP), School of Laboratory Medicine and Medical Sciences, University of KwaZulu-Natal, South Africa – name: 25 Secretaria de Vigilância em Saúde, Coordenação Geral de Laboratórios de Saúde Pública, Ministério da Saúde, Brasília-DF, Brazil – name: 21 Instituto de Medicina Tropical e Faculdade de Medicina da Universidade de São Paulo, São Paulo, Brazil – name: 24 Departamento de Vigilância das Doenças Transmissíveis da Secretaria de Vigilância em Saúde, Ministério da Saúde, Brasília-DF, Brazil – name: 9 Department of Microbiology and Immunology, Rega Institute, KU Leuven – University of Leuven, Herestraat 49, 3000 Leuven, Belgium – name: 22 Retrovirology Laboratory, Federal University of São Paulo, Brazil, School of Medicine of ABC (FMABC), Clinical Immunology Laboratory, Santo André, São Paulo, Brazil – name: 7 Institute of Microbiology and Infection, University of Birmingham, B15 2TT, UK – name: 13 Malaria Atlas Project, Big Data Institute, Nuffield Department of Medicine, University of Oxford, Roosevelt Drive, Oxford OX3 7FY, UK – name: 31 Department of Biomathematics and Human Genetics, David Geffen School of Medicine at UCLA, University of California, Los Angeles, CA, USA |
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| ContentType | Journal Article |
| Copyright | Copyright © 2018, American Association for the Advancement of Science. Copyright © 2018, American Association for the Advancement of Science Distributed under a Creative Commons Attribution 4.0 International License |
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| DOI | 10.1126/science.aat7115 |
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| Snippet | Despite the existence of an effective vaccine for yellow fever, there are still almost 80,000 fatalities from this infection each year. Since 2016, there has... The yellow fever virus (YFV) epidemic in Brazil is the largest in decades. The recent discovery of YFV in Brazilian species mosquitos highlights a need to... Arbovirus risk in BrazilDespite the existence of an effective vaccine for yellow fever, there are still almost 80,000 fatalities from this infection each year.... The yellow fever virus (YFV) epidemic in Brazil is the largest in decades. The recent discovery of YFV in Brazilian Aedes species mosquitos highlights a need... The yellow fever virus (YFV) epidemic in Brazil is the largest in decades. The recent discovery of YFV in Brazilian Aedes sp. mosquitos highlights a need to... |
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| SubjectTerms | Aedes Aedes - virology Age composition Age Factors Animals Aquatic insects Brazil - epidemiology Disease Outbreaks - prevention & control Disease Outbreaks - statistics & numerical data Disease transmission Epidemics Epidemiological Monitoring Epidemiology Evolution, Molecular Fever Genomes Genomics Genomics - methods Humans Life Sciences Monitoring Mosquitoes Phylogeny Polymerase Chain Reaction Primates Risk Rural Urban Differences Sex Factors Spatio-Temporal Analysis Vaccines Vector-borne diseases Viruses Yellow Fever - epidemiology Yellow Fever - prevention & control Yellow Fever - transmission Yellow Fever - virology Yellow fever virus - classification Yellow fever virus - genetics Yellow fever virus - isolation & purification |
| Title | Genomic and epidemiological monitoring of yellow fever virus transmission potential |
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