Genomic Epidemiology of the 2025 Guangdong CHIKV Outbreak-Implication for CHIKV intervention
Yi, L.; xiang, s.; Huang, X.; Huang, J.; Chen, M.; Long, H.; He, Y.; Zeng, C.; Zhu, G.; Tan, S.; Peng, X.; Liu, Z.; Gao, S.; Lu, J.
Show abstract
Chikungunya virus (CHIKV) causes recurrent epidemics across tropical and subtropical regions globally. In 2025, Guangdong reported mainland China's largest documented CHIKV outbreak, with 23,464 cases across all 21 prefecture-level cities. Integrating epidemiological, genomic, and phylodynamic analyses, we investigated the outbreak's origins, transmission, and viral adaptation. The Guangdong strain belonged to the ECSA-MAL lineage, exhibiting a long internal branch that highlights significant global surveillance gaps. Phylodynamic modeling estimated viral introduction in early April 2025, revealing ~2.5 months of cryptic transmission alongside rising vector densities. Spatial case distribution was moderately associated with human mobility from the epicenters. Globally, phylogenetic analysis identified 33 potential adaptive mutations across nine proteins and 14 epidemic lineages, including validated and 15 novel mutations. Twelve novel mutations occurred in the Asian Urban lineage (AUL), predominantly affecting NSP3. This study underscores the need for enhanced pre-peak surveillance and continuous monitoring of viral adaptation across ecological regions.
Matching journals
The top 6 journals account for 50% of the predicted probability mass.
Similar papers in this journal
- A phylogenetic contribution to understanding the panzootic spread of African swine fever: from the global to the local scale 96%
- High Resolution analysis of Transmission Dynamics of Sars-Cov-2 in Two Major Hospital Outbreaks in South Africa Leveraging Intrahost Diversity 95%
- Emergence and spread of a sub-lineage of SARS-CoV-2 Alpha variant B.1.1.7 in Europe, and with further evolution of spike mutation accumulations shared with the Beta and Gamma variants 94%
Similar papers in this journal
- Genomic epidemiology and evolution of rhinovirus in western Washington State, 2021-22 94%
- Introduction and Establishment of SARS-CoV-2 Gamma Variant in New York City in Early 2021 93%
- Atypical hyperendemicity of Rift Valley fever in Southwestern Uganda associated with the rapidly evolving lineage C viruses 92%
Similar papers in this journal
- Genomic and eco-epidemiological investigations in Uruguay reveal local Chikungunya virus transmission dynamics during its expansion across the Americas in 2023 97%
- SARS-CoV-2 genomic characterization and clinical manifestation of the COVID-19 outbreak in Uruguay 96%
- Detection of anti-premembrane antibody as a specific marker of four flavivirus serocomplexes and its application to serosurveillance in endemic regions 93%
Similar papers in this journal
- The evolutionary and molecular history of a chikungunya virus outbreak lineage 96%
- Characterization of the First Complete Genome Sequence of Yellow Fever Virus (YFV) isolate in Sierra Leone: Implications for Public Health 94%
- The epidemiology of Mayaro virus in the Americas: A systematic review and key parameter estimates for outbreak modelling 93%
Similar papers in this journal
- Increased interregional virus exchange and nucleotide diversity outline the expansion of the chikungunya virus ECSA lineage in Brazil 95%
- High transmissibility and fetal pathogenicity of recent Zika virus strains from the African lineage 94%
- Tracing the international arrivals of SARS-CoV-2 Omicron variants after Aotearoa New Zealand reopened its border 93%
"Similar papers" are the closest papers from that journal in the model's embedding space. They show what the match is built on, but the ranking comes mostly from a classifier over the whole training set, not from these examples alone.