Integrating influenza antigenic dynamics with molecular evolution

eLife

Gytis Dudas¹  Philippe Lemey²  Marc A Suchard³  Victoria Gregory⁴  Derek J Smith⁵  Colin A Russell⁵  John W McCauley⁵  Alan J Hay⁶  Trevor Bedford⁶  Andrew Rambaut⁷ 

[1] Department of Biostatistics, UCLA Fielding School of Public Health, University of California, Los Angeles, Los Angeles, United States;Department of Human Genetics, David Geffen School of Medicine, University of California, Los Angeles, Los Angeles, United States;Department of Biomathematics, David Geffen School of Medicine, University of California, Los Angeles, Los Angeles, United States;Department of Microbiology and Immunology, Rega Institute, Katholieke Universiteit Leuven, Leuven, Belgium;Division of Virology, MRC National Institute for Medical Research, London, United Kingdom;Institute of Evolutionary Biology, University of Edinburgh, Edinburgh, United Kingdom;WHO Collaborating Centre for Modeling, Evolution and Control of Emerging Infectious Diseases, University of Cambridge, Cambridge, United Kingdom;

关键词: influenza;    evolution;    antigenic cartography;    phylogenetic;    Bayesian inference;    multidimensional scaling;   

DOI  :  10.7554/eLife.01914

来源: DOAJ

【 摘 要 】

Influenza viruses undergo continual antigenic evolution allowing mutant viruses to evade host immunity acquired to previous virus strains. Antigenic phenotype is often assessed through pairwise measurement of cross-reactivity between influenza strains using the hemagglutination inhibition (HI) assay. Here, we extend previous approaches to antigenic cartography, and simultaneously characterize antigenic and genetic evolution by modeling the diffusion of antigenic phenotype over a shared virus phylogeny. Using HI data from influenza lineages A/H3N2, A/H1N1, B/Victoria and B/Yamagata, we determine patterns of antigenic drift across viral lineages, showing that A/H3N2 evolves faster and in a more punctuated fashion than other influenza lineages. We also show that year-to-year antigenic drift appears to drive incidence patterns within each influenza lineage. This work makes possible substantial future advances in investigating the dynamics of influenza and other antigenically-variable pathogens by providing a model that intimately combines molecular and antigenic evolution.

【 授权许可】

Unknown