Differing epidemiological dynamics of Chikungunya virus in the Americas during the 2014-2015 epidemic

Autor: Aubree Gordon, Suman R. Das, Laura D. Kramer, Rebecca A. Halpin, Vinita Puri, Lihui Hu, Yi Tan, Nadia Fedorova, Alexander T. Ciota, Eva Harris, Paolo Amedeo, Marshall R. Cone, Lea Heberlein-Larson, Reed S. Shabman, Susmita Shrivastava, Lionel Gresh, Brett E. Pickett, Angel Balmaseda, Matthew P. LaPointe
Jazyk: angličtina
Rok vydání: 2018
Předmět:
0301 basic medicine
RNA viruses
Male
Epidemiology
Nicaragua
medicine.disease_cause
Pathology and Laboratory Medicine
Geographical locations
Genotype
Medicine and Health Sciences
Chikungunya
Clade
Child
Phylogeny
Data Management
Travel
Chikungunya Virus
Phylogenetic tree
Geography
lcsh:Public aspects of medicine
virus diseases
Phylogenetic Analysis
3. Good health
Phylogenetics
Phylogeography
Infectious Diseases
Biogeography
Medical Microbiology
Viral Pathogens
Genetic Epidemiology
Child
Preschool
Viruses
Florida
Female
Pathogens
Research Article
Computer and Information Sciences
lcsh:Arctic medicine. Tropical medicine
Asia
Adolescent
lcsh:RC955-962
Alphaviruses
Genome
Viral
Biology
Microbiology
Togaviruses
03 medical and health sciences
Young Adult
medicine
Genetics
Humans
Evolutionary Systematics
Epidemics
Microbial Pathogens
Taxonomy
Caribbean
Genetic diversity
Evolutionary Biology
Biology and life sciences
Population Biology
Ecology and Environmental Sciences
Public Health
Environmental and Occupational Health
Organisms
Outbreak
Genetic Variation
lcsh:RA1-1270
Central America
United States
030104 developmental biology
Evolutionary biology
North America
Earth Sciences
Chikungunya Fever
People and places
Population Genetics
Zdroj: PLoS Neglected Tropical Diseases
PLoS Neglected Tropical Diseases, Vol 12, Iss 7, p e0006670 (2018)
ISSN: 1935-2735
1935-2727
Popis: Chikungunya virus (CHIKV) has been detected sporadically since the 1950s and includes three distinct co-circulating genotypes. In late 2013, the Asian genotype of CHIKV was responsible for the Caribbean outbreak (CO) that rapidly became an epidemic throughout the Americas. There is a limited understanding of the molecular evolution of CHIKV in the Americas during this epidemic. We sequenced 185 complete CHIKV genomes collected mainly from Nicaragua in Central America and Florida in the United States during the 2014–2015 Caribbean/Americas epidemic. Our comprehensive phylogenetic analyses estimated the epidemic history of the Asian genotype and the recent Caribbean outbreak (CO) clade, revealed considerable genetic diversity within the CO clade, and described different epidemiological dynamics of CHIKV in the Americas. Specifically, we identified multiple introductions in both Nicaragua and Florida, with rapid local spread of viruses in Nicaragua but limited autochthonous transmission in Florida in the US. Our phylogenetic analysis also showed phylogeographic clustering of the CO clade. In addition, we identified the significant amino acid substitutions that were observed across the entire Asian genotype during its evolution and examined amino acid changes that were specific to the CO clade. Deep sequencing analysis identified specific minor variants present in clinical specimens below-consensus levels. Finally, we investigated the association between viral phylogeny and geographic/clinical metadata in Nicaragua. To date, this study represents the largest single collection of CHIKV complete genomes during the Caribbean/Americas epidemic and significantly expands our understanding of the emergence and evolution of CHIKV CO clade in the Americas.
Author summary Chikungunya is an arboviral disease that causes fever and acute viral febrile illness, which may be followed by months or years of debilitating joint pain in humans. There are currently no vaccines or anti-viral drugs to prevent or treat chikungunya virus (CHIKV) infection. In late 2013, CHIKV was introduced into the Caribbean and spread rapidly throughout the Americas. CHIKV infections in the United States were primarily reported in Florida, with sporadic cases of traveler-associated infection reported in other states. However, little is known about the molecular evolution of the virus during this epidemic. Here, we sequenced a large number of CHIKV strains from Nicaragua, Florida and New York. Despite multiple introductions, limited local transmission was documented in Florida; in contrast, in Nicaragua, rapid local dissemination was observed. This study greatly increases the number of publicly-available CHIKV complete genome sequences from the Americas and provides a more comprehensive insight into the evolution of CHIKV during a geographically-diverse epidemic. This may have important implications for the control and prevention of other mosquito-borne viruses in the Americas, such as Zika, dengue, and West Nile viruses.
Databáze: OpenAIRE
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