Detailed genetic analyses of the HN gene in human respirovirus 3 detected in children with acute respiratory illness in the Iwate Prefecture, Japan
2018
Abstract We performed detailed genetic analyses of the partial
hemagglutinin–neuraminidase( HN ) gene in 34 human
respirovirus3 (HRV3) strains from children with acute respiratory illness during 2013–2015 in Iwate Prefecture, Japan. In addition, we performed analyses of the evolutionary timescale of the gene using the Bayesian Markov chain Monte Carlo (MCMC) method. Furthermore, we analyzed pairwise distances and performed selective pressure analyses followed by
linear B-cell
epitope mappingand N-glycosylation and phylodynamic analyses. A phylogenetic tree showed that the strains diversified at around 1939, and the rate of
molecular evolutionwas 7.6 × 10 −4 substitutions/site/year. Although the pairwise distances were relatively short (0.03 ± 0.018 [mean ± standard deviation, SD]), two positive selection sites (Cys544Trp and Leu555Ser) and no amino acid substitutions were found in the active/catalytic sites. Six
epitopeswere estimated in this study, and three mouse monoclonal antibody binding sites (amino acid positions 278, 281, and 461) overlapped with two
epitopesbelonging to subcluster C3 strains. Bayesian
skylineplot analyses indicated that subcluster C3 strains have been increasing from 2004, whereas subcluster C1 strains have declined from 2004. Based on these results, Iwate strains were divided into two subclusters and each subcluster evolved independently. Moreover, our results suggested that some predicted
linear epitopes(
epitopes3 and 5) are candidates for an HRV3 vaccine motif. To better understand the details of the
molecular evolutionof HRV, further studies are needed.
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