Phylogenetic and mutational analysis of 2008, 2009 & 2010 neuraminidase of H1N1 influenza A

ABSTRACT

The A/H1N1/2009 is considered to be a Pandemic outbreak and the severity of the disease depends on the mutation in hemagglutinin/HA and neuraminidase/NA surface proteins. Therefore we study the Neuraminidase protein, its sequence and structure analysis was carried out to predict the phylogeny, mutational patterns and the drug binding sites for H1N1/2008, H1N1/2009 and H1N1/2010 sequences. Since 2009 was a pandemic, its predecessor influenza A/H1N1/2008 virus and its successor influenza A/H1N1/2010 virus was selected in our study. Analyzing the evolutionary relationship of the 76 representative sequences, the phylogenetic tree is constructed in which two groups were identified. The group 1 consists of sequences from the year 2009 and 2010 H1N1 and group 2 consists of sequences from 2008 and 2009 H1N1. Structure modeling and docking results for the 4 representative sequences of the clusters reveals that the binding sites are located in the active pocket and the mutations do not interfere with the active binding sites. The binding of the currently used neuraminidase inhibitor, oseltamivir is used to check the effectiveness over the three years for the drugs to remain effective in treatment. We can infer that the mutations occurred do not affect the drug binding pocket.

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