ArticlePLoS genetics2014
Intrasubtype reassortments cause adaptive amino acid replacements in H3N2 influenza genes.
Article in PLoS genetics, 2014. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 32 papers.
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32 citing papers in PubMed, 52 citations in OpenAlex.
- Assessing the impact of phylogenetic reconstruction error on genetic reassortment inference in segmented viruses.PloS one · 2026Article
- Pandemic risk stemming from the bovine H5N1 outbreak: an account of the knowns and unknowns.Journal of virology · 2025Review
- Multiple transatlantic incursions of highly pathogenic avian influenza clade 2.3.4.4b A(H5N5) virus into North America and spillover to mammals.Cell reports · 2024Article
- Molecular characterization of the whole genome of H9N2 avian influenza virus isolated from Egyptian poultry farms.Archives of virology · 2024Article
- Characterizing a century of genetic diversity and contemporary antigenic diversity of N1 neuraminidase in influenza A virus from North American swine.Virus evolution · 2023Article
- TreeKnit: Inferring ancestral reassortment graphs of influenza viruses.PLoS computational biology · 2022Article
- Genome-Wide Reassortment Analysis of Influenza A H7N9 Viruses Circulating in China during 2013-2019.Viruses · 2022Article
- Whole-genome analysis to determine the rate and patterns of intra-subtype reassortment among influenza type-A viruses in Africa.Virus evolution · 2022Article
- Whole-genome-based phylogenomic analysis of the Belgian 2016-2017 influenza A(H3N2) outbreak season allows improved surveillance.Microbial genomics · 2021Article
- Article
- Spatial and temporal coevolution of N2 neuraminidase and H1 and H3 hemagglutinin genes of influenza A virus in US swine.Virus evolution · 2021Article
- Allele-specific nonstationarity in evolution of influenza A virus surface proteins.Proceedings of the National Academy of Sciences of the United States of America · 2019Article
- Evolution and rapid spread of a reassortant A(H3N2) virus that predominated the 2017-2018 influenza season.Virus evolution · 2019Review
- Mutation and Epistasis in Influenza Virus Evolution.Viruses · 2018Review
- Adaptive evolution during the establishment of European avian-like H1N1 influenza A virus in swine.Evolutionary applications · 2018Article
- Datamonkey 2.0: A Modern Web Application for Characterizing Selective and Other Evolutionary Processes.Molecular biology and evolution · 2018Article
- Predictive Modeling of Influenza Shows the Promise of Applied Evolutionary Biology.Trends in microbiology · 2018Review
- Integrating patient and whole-genome sequencing data to provide insights into the epidemiology of seasonal influenza A(H3N2) viruses.Microbial genomics · 2018Article
- Implications of segment mismatch for influenza A virus evolution.The Journal of general virology · 2018Review
- Fitness cost of reassortment in human influenza.PLoS pathogens · 2017Article
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Authors and funding
4 authors at 3 institutions in 2 countries.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Reassortments and point mutations are two major contributors to diversity of Influenza A virus; however, the link between these two processes is unclear. It has been suggested that reassortments provoke a temporary increase in the rate of amino acid changes as the viral proteins adapt to new genetic environment, but this phenomenon has not been studied systematically. Here, we use a phylogenetic approach to infer the reassortment events between the 8 segments of influenza A H3N2 virus since its emergence in humans in 1968. We then study the amino acid replacements that occurred in genes encoded in each segment subsequent to reassortments. In five out of eight genes (NA, M1, HA, PB1 and NS1), the reassortment events led to a transient increase in the rate of amino acid replacements on the descendant phylogenetic branches. In NA and HA, the replacements following reassortments were enriched with parallel and/or reversing replacements; in contrast, the replacements at sites responsible for differences between antigenic clusters (in HA) and at sites under positive selection (in NA) were underrepresented among them. Post-reassortment adaptive walks contribute to adaptive evolution in Influenza A: in NA, an average reassortment event causes at least 2.1 amino acid replacements in a reassorted gene, with, on average, 0.43 amino acid replacements per evolving post-reassortment lineage; and at least ~9% of all amino acid replacements are provoked by reassortments.
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