Genomic epidemiology unveils the dynamics and spatial corridor behind the Yellow Fever virus outbreak in Southern Brazil-Reference-Cited by-同舟云学术

Genomic epidemiology unveils the dynamics and spatial corridor behind the Yellow Fever virus outbreak in Southern Brazil

Published:2023-09 Issue:35 Volume:9 Page:
ISSN:2375-2548
Container-title:Science Advances
language:en
Short-container-title:Sci. Adv.

Author:

Giovanetti Marta¹²³^ORCID,Pinotti Francesco⁴^ORCID,Zanluca Camila⁵^ORCID,Fonseca Vagner⁶^ORCID,Nakase Taishi⁷^ORCID,Koishi Andrea C.⁵^ORCID,Tscha Marcel⁵,Soares Guilherme⁵,Dorl Gisiane Gruber⁵^ORCID,Marques Antônio Ernesto M.L⁵^ORCID,Sousa Renato⁸^ORCID,Adelino Talita Emile Ribeiro⁹^ORCID,Xavier Joilson²¹⁰^ORCID,de Oliveira Carla¹²^ORCID,Patroca Sandro¹¹,Guimaraes Natalia Rocha⁹^ORCID,Fritsch Hegger²¹⁰^ORCID,Mares-Guia Maria Angélica¹^ORCID,Levy Flavia¹,Passos Pedro Henrique¹²^ORCID,da Silva Vinicius Leme¹³,Pereira Luiz Augusto¹³^ORCID,Mendonça Ana Flávia¹³^ORCID,de Macêdo Isabel Luana¹⁴,Ribeiro de Sousa Davi Emanuel¹⁴^ORCID,Rodrigues de Toledo Costa Gabriela¹⁵,Botelho de Castro Marcio¹⁴¹⁶,de Souza Andrade Miguel¹⁷,de Abreu Filipe Vieira Santos¹⁸,Campos Fabrício Souza¹⁹^ORCID,Iani Felipe Campos de Melo⁹,Pereira Maira Alves⁹,Cavalcante Karina Ribeiro Leite Jardim¹²^ORCID,de Freitas Andre Ricardo Ribas²⁰^ORCID,Campelo de Albuquerque Carlos Frederico⁶^ORCID,Macário Eduardo Marques²¹,dos Anjos Marlei Pickler Debiasi²²^ORCID,Ramos Rosane Campanher²³^ORCID,Campos Aline Alves Scarpellini²⁴^ORCID,Pinter Adriano²⁵^ORCID,Chame Marcia²⁶^ORCID,Abdalla Livia²⁶^ORCID,Riediger Irina Nastassja²⁷^ORCID,Ribeiro Sérvio Pontes²⁸,Bento Ana I.²⁹,de Oliveira Tulio³⁰^ORCID,Freitas Carla³¹,Oliveira de Moura Noely Fabiana³²,Fabri Allison¹,dos Santos Rodrigues Cintia Damasceno¹,Dos Santos Carolina Cardoso¹,Barreto de Almeida Marco Antonio²⁴,dos Santos Edmilson²⁴^ORCID,Cardoso Jader²⁴^ORCID,Augusto Douglas Adriano³³^ORCID,Krempser Eduardo³³^ORCID,Mucci Luís Filipe³⁴³⁵³⁶^ORCID,Gatti Renata Rispoli³⁷^ORCID,Cardoso Sabrina Fernandes³⁷³⁸^ORCID,Fuck João Augusto Brancher³⁹,Lopes Maria Goretti David⁴⁰,Belmonte Ivana Lucia⁴⁰,Mayoral Pedroso da Silva Gabriela⁴⁰^ORCID,Soares Maiane Regina Ferreira⁴⁰,de Castilhos Marilia de Melo Santos⁴⁰,de Souza e Silva Joseana Cardoso⁴⁰^ORCID,Bisetto Junior Alceu⁴⁰,Pouzato Emanuelle Gemin⁴⁰,Tanabe Laurina Setsuko⁴⁰^ORCID,Arita Daniele Akemi⁴⁰^ORCID,Matsuo Ricardo⁴⁰,dos Santos Raymundo Josiane⁴⁰,Silva Paula Cristina Linder⁴⁰^ORCID,Santana Araújo Ferreira Silva Ana⁴⁰^ORCID,Samila Sandra⁴⁰^ORCID,Carvalho Glauco⁹^ORCID,Stabeli Rodrigo⁶^ORCID,Navegantes Wildo⁶,Moreira Luciano Andrade⁴¹^ORCID,Ferreira Alvaro Gil A.⁴¹^ORCID,Pinheiro Guilherme Garcia²^ORCID,Nunes Bruno Tardelli Diniz¹¹^ORCID,de Almeida Medeiros Daniele Barbosa¹¹^ORCID,Cruz Ana Cecília Ribeiro¹¹,Venâncio da Cunha Rivaldo⁴²,Van Voorhis Wes⁴³^ORCID,Bispo de Filippis Ana Maria¹,Almiron Maria⁴⁴,Holmes Edward C.⁴⁵^ORCID,Ramos Daniel Garkauskas¹²^ORCID,Romano Alessandro¹²^ORCID,Lourenço José⁴⁶^ORCID,Alcantara Luiz Carlos Junior¹²^ORCID,Duarte dos Santos Claudia Nunes⁵^ORCID

Affiliation:

1. Laboratório de Flavivírus, Instituto Oswaldo Cruz, Fundação Oswaldo Cruz, Rio de Janeiro, Brazil.

2. Instituto Rene Rachou, Fundação Oswaldo Cruz, Belo Horizonte, Minas Gerais, Brazil.

3. Department of Science and Technology for Humans and the Environment, Università of Campus Bio-Medico di Roma, Italy.

4. Department of Zoology, University of Oxford, Oxford, OX3 7BN, UK.

5. Laboratório de Virologia Molecular, Instituto Carlos Chagas/Fiocruz-PR, Curitiba, Paraná, Brazil.

6. Organização Pan-Americana da Saúde/Organização Mundial da Saúde, Brasília, Distrito Federal, Brazil.

7. Nuffield Department of Medicine, University of Oxford, Oxford, OX3 7BN, UK.

8. Laboratório de Patologia Veterinária, Hospital Veterinário UFPR, PR Brazil.

9. Laboratório Central de Saúde Pública do Estado de Minas Gerais, Fundação Ezequiel Dias, Belo Horizonte, Minas Gerais, Brazil.

10. Universidade Federal de Minas Gerais, Belo Horizonte, Minas Gerais, Brazil.

11. Evandro Chagas Institute, Para, Brazil.

12. Coordenação Geral das Arboviroses, Secretaria de Vigilância em Saúde/Ministério da Saúde (CGARB/SVS-MS), Brasília, Distrito Federal, Brazil.

13. Laboratório Central de Saúde Pública Dr Giovanni Cysneiros, Goiânia, Goiás, Brazil.

14. Veterinary Pathology Laboratory, Campus Darcy Ribeiro, University of Brasília, Brasília, DF 70636- 200, Brazil.

15. Environmental Health Surveillance, Directorate of the Federal District (DIVAL), DF 70790-060, Brazil.

16. Graduate Program in Animal Sciences, College of Agronomy and Veterinary Medicine, University of Brasília, Brasília, DF 70910-900, Brazil.

17. Baculovirus Laboratory, Department of Cell Biology, Institute of Biological Sciences, University of Brasilia, Brasília 70910-900, DF, Brazil.

18. Insect Behavior Laboratory, Federal Institute of Northern Minas Gerais, Salinas 39560-000, MG, Brazil.

19. Institute of Basic Health Sciences, Federal University of Rio Grande do Sul, Porto Alegre 90035-003, RS, Brazil.

20. Faculdade de Medicina São Leopoldo Mandic, Campinas, SP, Brazil.

21. Superintendência de Vigilância em Saúde – SES – Santa Catarina, South Brazil.

22. Laboratorio central de Saude Publica de Santa Catarina, Superintendência de Vigilância em Saúde – SES – Santa Catarina, South Brazil.

23. Laboratório Central de Saúde Pública do Estado do Rio Grande do Sul, Superintendência de Vigilância em Saúde – SES – Santa Catarina, South Brazil.

24. Secretaria Estadual de Saúde do Rio Grande do Sul, Centro Estadual de Vigilância em Saúde, Porto Alegre, RS, Brazil.

25. Departamento de Medicina Veterinária Preventiva e Saúde Animal, Faculdade de Medicina Veterinária e Zootecnia, Universidade de São Paulo, São Paulo, 05508-000, Brazil.

26. Oswaldo Cruz Foundation, Biodiversity, Wildlife Health Institutional Platform (PIBSS/Fiocruz), Rio de Janeiro, Brazil.

27. Laboratório Central de Saúde Pública do Estado do Paraná (Lacen-PR), Curitiba, Paraná, Brazil.

28. Laboratory of Ecology of Diseases & Forests, NUPEB/ICEB, Federal University of Ouro Preto, Minas Gerais, Brazil.

29. Pandemic Prevention Initiative, The Rockefeller Foundation, Washington DC, USA.

30. School for Data Science and Computational Thinking, Faculty of Science and Faculty of Medicine and Health Sciences, Stellenbosch University, South Africa.

31. Secretaria de Vigilância em Saúde, SVS, Brazilian Ministry of Health, Brasilia, Federal District, Brazil.

32. Oswaldo Cruz Foundation, Fiocruz, Brasilia, Federal District, Brazil.

33. Plataforma Institucional Biodiversidade e Saúde Silvestre - Centro de Informação em Saúde Silvestre (CISS) - Fiocruz/RJ, Avenida Brasil, 4365. Manguinhos - Rio de Janeiro - RJ Cep: 21.040-360.

34. Secretaria da Saúde (São Paulo - Estado), Av Dr. Enéas Carvalho de Aguiar, 188 - Cerqueira César, São Paulo - SP, 05403-000, Brazil.

35. Coordenadoria de Controle de Doenças (CCD), Av. Dr. Enéas Carvalho de Aguiar, 188 - Cerqueira César, São Paulo - SP, 05403-000, Brazil.

36. Instituto Pasteur (IP), Av. Paulista, 363 Cerqueira Cesar – São Paulo- SP – CEP:01311-000.

37. Secretaria de Estado da Saude de Santa Catarina, R. Esteves Júnior, 160 - Centro, Florianópolis - SC, 88015-130, Brazil.

38. Department of Cell Biology, Embryology and Genetics, Federal University of Santa Catarina (UFSC), Florianópolis, Brazil.

39. Diretoria de Vigilância Epidemiológica da Secretaria de Estado da Saúde de Santa Catarina, R. Esteves Júnior, 160 - Centro, Florianópolis - SC, 88015-130, Brazil.

40. Secretaria de Estado da Saúde do Paraná, Brazil, R. Piquiri, 170 - Rebouças, Curitiba - PR, 80230-140.

41. Mosquitos Vetores: Endossimbiontes e Interação Patógeno-Vetor, Instituto René Rachou–Fiocruz, Belo Horizonte 30190-002, MG, Brazil.

42. Fundação Oswaldo Cruz, Bio-Manguinhos, Rio de Janeiro, Rio de Janeiro, Brazil.

43. Center for Emerging and Re-emerging Infectious Diseases (CERID), University of Washington, Seattle, WA, USA.

44. Pan American Health Organization/World Health Organization, Washington, DC, USA.

45. Marie Bashir Institute for Infectious Diseases and Biosecurity, School of Life and Environmental Sciences and School of Medical Sciences, University of Sydney, Sydney, NSW, Australia.

46. BioISI (Biosystems and Integrative Sciences Institute), Faculdade de Ciências da Universidade de Lisboa, Campo Grande, 1749-016 Lisboa Portugal.

Abstract

Despite the considerable morbidity and mortality of yellow fever virus (YFV) infections in Brazil, our understanding of disease outbreaks is hampered by limited viral genomic data. Here, through a combination of phylogenetic and epidemiological models, we reconstructed the recent transmission history of YFV within different epidemic seasons in Brazil. A suitability index based on the highly domesticated Aedes aegypti was able to capture the seasonality of reported human infections. Spatial modeling revealed spatial hotspots with both past reporting and low vaccination coverage, which coincided with many of the largest urban centers in the Southeast. Phylodynamic analysis unraveled the circulation of three distinct lineages and provided proof of the directionality of a known spatial corridor that connects the endemic North with the extra-Amazonian basin. This study illustrates that genomics linked with eco-epidemiology can provide new insights into the landscape of YFV transmission, augmenting traditional approaches to infectious disease surveillance and control.

Publisher

American Association for the Advancement of Science (AAAS)

Subject

Multidisciplinary

Link

https://www.science.org/doi/pdf/10.1126/sciadv.adg9204

Reference81 articles.

1. B. T. Lindenbach C. L. Murray H.-J. Thiel C. Rice Flaviviridae in Fields Virology D. M. Knipe P. M. Howley Eds. (Lippincott Williams & Wilkins Philadelphia 2013) pp. 712–746.

2. Yellow fever

3. Recent sylvatic yellow fever virus transmission in Brazil: the news from an old disease

4. Genetic Divergence and Dispersal of Yellow Fever Virus, Brazil

5. Re-emergence of yellow fever in the neotropics - quo vadis?;Sacchetto L.;Emerg. Top. Life Sci.,2020

Cited by 8 articles. 订阅此论文施引文献订阅此论文施引文献，注册后可以免费订阅5篇论文的施引文献，订阅后可以查看论文全部施引文献

1. Population at risk of dengue virus transmission has increased due to coupled climate factors and population growth;Communications Earth & Environment;2024-08-30

2. Rapid Viral Expansion Beyond the Amazon Basin: Increased Epidemic Activity of Oropouche Virus Across the Americas;2024-08-04

3. Modeling zoonotic and vector-borne viruses;Current Opinion in Virology;2024-08

4. Development and Validation of RT-LAMP for Detecting Yellow Fever Virus in Non- Human Primates Samples from Brazil;2024-07-27

5. Viral sequencing to inform the global elimination of dog-mediated rabies - a systematic review;One Health & Implementation Research;2024-05-31