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Proc Natl Acad Sci U S A. 2016 Mar 7. pii: 201525578. [Epub ahead of print]
Prediction, dynamics, and visualization of antigenic phenotypes of seasonal influenza viruses.
Neher RA1, Bedford T2, Daniels RS3, Russell CA4, Shraiman BI5.
Author information
Abstract
Human seasonal influenza viruses evolve rapidly, enabling the virus population to evade immunity and reinfect previously infected individuals. Antigenic properties are largely determined by the surface glycoprotein hemagglutinin (HA), and amino acid substitutions at exposed epitope sites in HA mediate loss of recognition by antibodies. Here, we show that antigenic differences measured through serological assay data are well described by a sum of antigenic changes along the path connecting viruses in a phylogenetic tree. This mapping onto the tree allows prediction of antigenicity from HA sequence data alone. The mapping can further be used to make predictions about the makeup of the future A(H3N2) seasonal influenza virus population, and we compare predictions between models with serological and sequence data. To make timely model output readily available, we developed a web browser-based application that visualizes antigenic data on a continuously updated phylogeny.
KEYWORDS:
antigenic distance; evolution; phylogenetic tree
PMID: 26951657 [PubMed - as supplied by publisher]
Prediction, dynamics, and visualization of antigenic phenotypes of seasonal influenza viruses.
Neher RA1, Bedford T2, Daniels RS3, Russell CA4, Shraiman BI5.
Author information
Abstract
Human seasonal influenza viruses evolve rapidly, enabling the virus population to evade immunity and reinfect previously infected individuals. Antigenic properties are largely determined by the surface glycoprotein hemagglutinin (HA), and amino acid substitutions at exposed epitope sites in HA mediate loss of recognition by antibodies. Here, we show that antigenic differences measured through serological assay data are well described by a sum of antigenic changes along the path connecting viruses in a phylogenetic tree. This mapping onto the tree allows prediction of antigenicity from HA sequence data alone. The mapping can further be used to make predictions about the makeup of the future A(H3N2) seasonal influenza virus population, and we compare predictions between models with serological and sequence data. To make timely model output readily available, we developed a web browser-based application that visualizes antigenic data on a continuously updated phylogeny.
KEYWORDS:
antigenic distance; evolution; phylogenetic tree
PMID: 26951657 [PubMed - as supplied by publisher]