Genetic characterization of influenza A(H3N2) viruses circulating in coastal Kenya, 2009‐2017
Autor: | D. Collins Owuor, James R. Otieno, Festus M. Nyasimi, Joyce U. Nyiro, D. James Nokes, Charles N. Agoti, Joyce M. Ngoi, Grieven P. Otieno, Sandra S. Chaves |
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Rok vydání: | 2020 |
Předmět: |
Adult
Male Pulmonary and Respiratory Medicine Adolescent coastal Kenya Epidemiology viruses next‐generation sequencing Hemagglutinin (influenza) Kilifi 030312 virology Genome influenza A(H3N2) virus Epitope Virus DNA sequencing Young Adult 03 medical and health sciences Immune system Antigen Influenza Human evolution Humans Amino Acid Sequence hemagglutinin Child Clade Phylogeny Aged QR355 0303 health sciences biology Influenza A Virus H3N2 Subtype Public Health Environmental and Occupational Health Genetic Variation Infant virus diseases Original Articles Middle Aged Kenya Virology 3. Good health Infectious Diseases Amino Acid Substitution Child Preschool biology.protein Female Original Article Sequence Alignment |
Zdroj: | Influenza and Other Respiratory Viruses |
ISSN: | 1750-2659 1750-2640 |
Popis: | Background\ud Influenza viruses evolve rapidly and undergo immune driven selection, especially in the hemagglutinin (HA) protein. We report amino acid changes affecting antigenic epitopes and receptor‐binding sites of A(H3N2) viruses circulating in Kilifi, Kenya, from 2009 to 2017.\ud \ud Methods\ud Next‐generation sequencing (NGS) was used to generate A(H3N2) virus genomic data from influenza‐positive specimens collected from hospital admissions and health facility outpatients presenting with acute respiratory illness to health facilities within the Kilifi Health and Demographic Surveillance System. Full‐length HA sequences were utilized to characterize A(H3N2) virus genetic and antigenic changes.\ud \ud Results\ud From 186 (90 inpatient and 96 outpatient) influenza A virus‐positive specimens processed, 101 A(H3N2) virus whole genomes were obtained. Among viruses identified in inpatient specimens from 2009 to 2015, divergence of circulating A(H3N2) viruses from the vaccine strains A/Perth/16/2009, A/Texas/50/2012, and A/Switzerland/9715293/2013 formed 6 genetic clades (A/Victoria/208/2009‐like, 3B, 3C, 3C.2a, 4, and 7). Among viruses identified in outpatient specimens from 2015 to 2017, divergence of circulating A(H3N2) viruses from vaccine strain A/Hong Kong/4801/2014 formed clade 3C.2a, subclades 3C.2a2 and 3C.2a3, and subgroup 3C.2a1b. Several amino acid substitutions were associated with the continued genetic evolution of A(H3N2) strains in circulation.\ud \ud Conclusions\ud Our results suggest continuing evolution of currently circulating A(H3N2) viruses in Kilifi, coastal Kenya and suggest the need for continuous genetic and antigenic viral surveillance of circulating seasonal influenza viruses with broad geographic representation to facilitate prompt and efficient selection of influenza strains for inclusion in future influenza vaccines. |
Databáze: | OpenAIRE |
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