ArticlePLoS pathogens2012
Components of selection in the evolution of the influenza virus: linkage effects beat inherent selection.
Article in PLoS pathogens, 2012. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 24 papers.
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The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
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Who cites it
24 citing papers in PubMed, 37 citations in OpenAlex.
- Predicting the antigenic evolution of seasonal influenza viruses using phylogenetic convergence.bioRxiv : the preprint server for biology · 2026Article
- Putting BASIL in a BLT: A Bayesian filtering method for estimating the fitness effects of nascent adaptive mutations.PLoS computational biology · 2026Article
- Predictive evolutionary modelling for influenza virus by site-based dynamics of mutations.Nature communications · 2024Article
- Complete Genome Sequence, Molecular Characterization and Phylogenetic Relationships of a Novel Tern Atadenovirus.Microorganisms · 2021Article
- Limited Predictability of Amino Acid Substitutions in Seasonal Influenza Viruses.Molecular biology and evolution · 2021Article
- The evolutionary origin of the universal distribution of mutation fitness effect.PLoS computational biology · 2021Article
- Genomic diversity of SARS-CoV-2 in Malaysia.PeerJ · 2021Article
- Decomposing the sources of SARS-CoV-2 fitness variation in the United States.Virus evolution · 2021Article
- Modeling the selective advantage of new amino acids on the hemagglutinin of H1N1 influenza viruses using their patient age distributions.Virus evolution · 2021Article
- A de novo approach to inferring within-host fitness effects during untreated HIV-1 infection.PLoS pathogens · 2020Article
- Linking influenza virus evolution within and between human hosts.Virus evolution · 2020Article
- Coupling adaptive molecular evolution to phylodynamics using fitness-dependent birth-death models.eLife · 2019Article
- Mutational load causes stochastic evolutionary outcomes in acute RNA viral infection.Virus evolution · 2019Article
- A novel framework for inferring parameters of transmission from viral sequence data.PLoS genetics · 2018Article
- Predictive Modeling of Influenza Shows the Promise of Applied Evolutionary Biology.Trends in microbiology · 2018Review
- Clonal Heterogeneity Influences the Fate of New Adaptive Mutations.Cell reports · 2017Article
- Selection on non-antigenic gene segments of seasonal influenza A virus and its impact on adaptive evolution.Virus evolution · 2017Article
- The effective rate of influenza reassortment is limited during human infection.PLoS pathogens · 2017Article
- Widespread Historical Contingency in Influenza Viruses.Genetics · 2017Article
- The effects of a deleterious mutation load on patterns of influenza A/H3N2's antigenic evolution in humans.eLife · 2015Article
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Authors and funding
2 authors at 1 institution in 1 country.
Funding
Abstract
The influenza virus is an important human pathogen, with a rapid rate of evolution in the human population. The rate of homologous recombination within genes of influenza is essentially zero. As such, where two alleles within the same gene are in linkage disequilibrium, interference between alleles will occur, whereby selection acting upon one allele has an influence upon the frequency of the other. We here measured the relative importance of selection and interference effects upon the evolution of influenza. We considered time-resolved allele frequency data from the global evolutionary history of the haemagglutinin gene of human influenza A/H3N2, conducting an in-depth analysis of sequences collected since 1996. Using a model that accounts for selection-caused interference between alleles in linkage disequilibrium, we estimated the inherent selective benefit of individual polymorphisms in the viral population. These inherent selection coefficients were in turn used to calculate the total selective effect of interference acting upon each polymorphism, considering the effect of the initial background upon which a mutation arose, and the subsequent effect of interference from other alleles that were under selection. Viewing events in retrospect, we estimated the influence of each of these components in determining whether a mutant allele eventually fixed or died in the global viral population. Our inherent selection coefficients, when combined across different regions of the protein, were consistent with previous measurements of dN/dS for the same system. Alleles going on to fix in the global population tended to be under more positive selection, to arise on more beneficial backgrounds, and to avoid strong negative interference from other alleles under selection. However, on average, the fate of a polymorphism was determined more by the combined influence of interference effects than by its inherent selection coefficient.
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Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.