ArticlePLoS neglected tropical diseases2019
Genomic, epidemiological and digital surveillance of Chikungunya virus in the Brazilian Amazon.
Article in PLoS neglected tropical diseases, 2019. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 60 papers, 3 of them syntheses that pooled it.
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Who cites it
60 citing papers in PubMed, 3 syntheses or guidelines pooled it, 115 citations in OpenAlex.
- SARS-CoV-2 Genomic Surveillance in Brazil: A Systematic Review with Scientometric Analysis.Viruses · 2022Pooled it
- The global epidemiology of chikungunya from 1999 to 2020: A systematic literature review to inform the development and introduction of vaccines.PLoS neglected tropical diseases · 2022Pooled it
- Electronic data collection, management and analysis tools used for outbreak response in low- and middle-income countries: a systematic review and stakeholder survey.BMC public health · 2021Pooled it
- Circulation of chikungunya virus East/Central/South African lineage in Rio de Janeiro, Brazil.PloS one · 2019Trial
- Differentiated mosquito adaptive strategies underlie regional dominance of three ECSA sub-lineages in chikungunya virus.PLoS pathogens · 2026Article
- Vector competence of Aedes albopictus from Northern, Southeastern, and Southern Brazil for locally circulating East-Central-South African and Asian genotypes of Chikungunya virus.PLoS neglected tropical diseases · 2026Article
- Integrated surveillance of arboviruses in febrile patients from the Brazilian Amazon reveals complex co-circulation dynamics and hidden viral diversity.Revista da Sociedade Brasileira de Medicina Tropical · 2026Article
- A Review of the Biology of Chikungunya Virus Highlighting the Development of Current Novel Therapeutic and Prevention Approaches.Pathogens (Basel, Switzerland) · 2025Review
- SMART-RNA-Metavirome: a practical RNA metavirome platform compatible with high-throughput sequencing of both short and long reads.Infectious diseases of poverty · 2025Article
- Epidemiology of Chikungunya Hospitalizations, Brazil, 2014-2024.Emerging infectious diseases · 2025Article
- The Frontier of Entomo-Virology: Applications and Tools for Virus and Vector Surveillance.Pathogens (Basel, Switzerland) · 2025Review
- Retrospective epidemiologic and genomic surveillance of arboviruses in 2023 in Brazil reveals high co-circulation of chikungunya and dengue viruses.BMC medicine · 2024Article
- EpiFusion: Joint inference of the effective reproduction number by integrating phylodynamic and epidemiological modelling with particle filtering.PLoS computational biology · 2024Article
- Understanding the Transmission Dynamics of the Chikungunya Virus in Africa.Pathogens (Basel, Switzerland) · 2024Review
- Molecular characterization of Chikungunya virus recovered from patients in the Maranhão state, Brazil.Molecular biology reports · 2024Article
- Chikungunya: a decade of burden in the Americas.Lancet regional health. Americas · 2024Review
- Spatial-temporal distribution of chikungunya virus in Brazil: a review on the circulating viral genotypes andFrontiers in public health · 2024Review
- A Multiplex Nanopore Sequencing Approach for the Detection of Multiple Arboviral Species.Viruses · 2023Article
- Serological and Molecular Epidemiology of Chikungunya Virus Infection in Vietnam, 2017-2019.Viruses · 2023Article
- Reconstruction of the molecular evolution of Usutu virus in Germany: Insights into virus emersion and circulation.PLoS neglected tropical diseases · 2023Article
Corrections and comments
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Authors and funding
43 authors at 11 institutions in 3 countries.
Funding
Abstract
backgroundSince its first detection in the Caribbean in late 2013, chikungunya virus (CHIKV) has affected 51 countries in the Americas. The CHIKV epidemic in the Americas was caused by the CHIKV-Asian genotype. In August 2014, local transmission of the CHIKV-Asian genotype was detected in the Brazilian Amazon region. However, a distinct lineage, the CHIKV-East-Central-South-America (ECSA)-genotype, was detected nearly simultaneously in Feira de Santana, Bahia state, northeast Brazil. The genomic diversity and the dynamics of CHIKV in the Brazilian Amazon region remains poorly understood despite its importance to better understand the epidemiological spread and public health impact of CHIKV in the country. METHODOLOGY/PRINCIPAL
findingsWe report a large CHIKV outbreak (5,928 notified cases between August 2014 and August 2018) in Boa vista municipality, capital city of Roraima's state, located in the Brazilian Amazon region. We generated 20 novel CHIKV-ECSA genomes from the Brazilian Amazon region using MinION portable genome sequencing. Phylogenetic analyses revealed that despite an early introduction of the Asian genotype in 2015 in Roraima, the large CHIKV outbreak in 2017 in Boa Vista was caused by an ECSA-lineage most likely introduced from northeastern Brazil. Epidemiological analyses suggest a basic reproductive number of R0 of 1.66, which translates in an estimated 39 (95% CI: 36 to 45) % of Roraima's population infected with CHIKV-ECSA. Finally, we find a strong association between Google search activity and the local laboratory-confirmed CHIKV cases in Roraima. CONCLUSIONS/SIGNIFICANCE: This study highlights the potential of combining traditional surveillance with portable genome sequencing technologies and digital epidemiology to inform public health surveillance in the Amazon region. Our data reveal a large CHIKV-ECSA outbreak in Boa Vista, limited potential for future CHIKV outbreaks, and indicate a replacement of the Asian genotype by the ECSA genotype in the Amazon region.
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