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Comparative Sequence Analysis on Different Strains of Swine Influenza Virus Sub-type H1N1 for Neuraminidase and Hemagglutinin

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Author(s): Deepak Kumar Sharma | Anil Kumar Rawat | Shipra Srivastava | Rajeev Srivastava | Ajay Kumar

Journal: Journal of Proteomics & Bioinformatics
ISSN 0974-276X

Volume: 03;
Issue: 02;
Start page: 055;
Date: 2010;
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Keywords: Neuraminidase | Hemagglutinin | Mutation | Swine flu | H1N1 | Influenza A virus | PROTMUTATION

ABSTRACT
The swine flu is an infectious disease of swine and human,causing a huge amount of death to both. The aim ofthis study was to analyse the mutation possibility of swineinfluenza virus sub-type A/Swine/Nebraska/(H1N1) fromswine of Nebraska. The H1N1 amino acid sequences ofneuraminidase (GenBank Acc. No: ABR28650) and hemagglutinin(GenBank Acc. No: ABR28647) were analyzedfor mutations using BLASTP and ClustalW programs.Our in silico analysis predicted that hemagglutininand neuraminidase of swine influenza virus are sensitiveto mutations at positions 225, 283 and 240, 451 respectively.These mutations were significant for its pathogenicnature because they are involved in change in polarity orhydrophobicity. Domain and motif search shows that mutationswere detected in NA (T240A, G451S) and HA(I283V) at a predicted site of N-myristoylation. Secondarystructure analysis predicted that no structural conformationchanges were observed in HA and NA at positions225, 283 and 240, 451 respectively. The programPROTMUTATION was developed in Perl CGI programmingusing Needleman-Wunsch algorithm for global sequencealignment. This program was used to monitor themutations and predicts the trend of mutations.
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