Mapping the Antigenic and Genetic Evolution of Influenza Virus

By Derek J. Smith, A. Lapedes, J. D. de Jong, T. Bestebroer, G. Rimmelzwaan, A. Osterhaus, R. Fouchier. 2004

1,890 citations recorded by the source corpus.

Subfields: Agronomy and Crop Science, Epidemiology, Molecular Biology

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Citations in the corpus

Mapping person-to-person variation in viral mutations that escape polyclonal serum targeting influenza hemagglutinin (2019, background): “Immune selection by ferret sera is consistent and different from human sera The antigenicity of influenza viral strains is currently characterized mostly using sera from ferrets (Smith et al., 2004).”
Evidence for adaptive evolution in the receptor-binding domain of seasonal coronaviruses OC43 and 229e (2020, positive): “Antigenic evolution, or antigenic drift, leaves a characteristic mark of positively selected epitopes within the viral proteins most exposed to the host immune system (Smith et al. 2004).”
Integrating influenza antigenic dynamics with molecular evolution (2013, methodology): “Antigenic maps produced by these methods have proven useful in categorizing virus phenotypes [7], but the extension of these methods to integrate genetic data remains notably lacking.”
Accurate Measurement of the Effects of All Amino-Acid Mutations on Influenza Hemagglutinin (2016, background): “Seasonal influenza is a recurrent threat to human health, largely because it rapidly accumulates amino-acid mutations in proteins targeted by the immune system [1].”
Viral Phylodynamics (2013, background): “Work by Koelle and colleagues [5] revisited the dynamics of influenza A/H3N2 evolution following the publication of a paper by Smith and colleagues [50], which showed that the antigenic evolution of the virus occurred in a punctuated manner.”
Absolute Humidity and the Seasonal Onset of Influenza in the Continental United States (2010, background): “These seasonal epidemics are maintained by the gradual antigenic drift of surface antigens, which enables the influenza virus to evade host immune response [2].”
What's in a grade? The multidimensional nature of what teacher-assigned grades assess in high school (2011, methodology): “MDS has been used in many research fields, including global health and medicine, higher education, education finance and policy, and K-12 education (Bowers, 2009; Enserink, 2008; Glass, 1967; Pincus & Schmelkin, 2003; Russell et al., 2008; Smith et al., 2004; Song & Miskel, 2007).”
Bayesian phylogenetic and phylodynamic data integration using BEAST 1.10 (2018, background): “The landscapes can also represent other spaces, and integration of antibody binding assay data have extended ‘antigenic cartography’ (Smith et al. 2004) approaches to model simultaneous antigenic and genetic evolution and infer the viral trajectories in the immunological space generated by the host ”
The inherent mutational tolerance and antigenic evolvability of influenza hemagglutinin (2014, background): “The virus evades these antibodies primarily by accumulating amino-acid substitutions in HA's antigenic sites (Smith et al., 2004; Das et al., 2013; Koel et al., 2013; Bedford et al., 2014).”
Deep mutational scanning of SARS-CoV-2 receptor binding domain reveals constraints on folding and ACE2 binding (2020, positive): “One important area where our maps do have clear relevance is assessing the potential for SARS-CoV-2 to undergo antigenic drift by fixing mutations at sites targeted by antibodies, as occurs for some other viruses such as influenza (Smith et al., 2004).”
Predicting evolution from the shape of genealogical trees (2014, background): “, 2013), that have been responsible for the observed stepwise replacement of antigenic variants over time (Smith et al., 2004).”
Antibody landscapes after influenza virus infection or vaccination (2014, positive): “S1)(1), with antigenically similar viruses circulating for a few years before strains with related but novel antigenic characteristics replace them (2).”