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Biotechnology
  Year: 2009 | Volume: 8 | Issue: 4 | Page No.: 434-441
DOI: 10.3923/biotech.2009.434.441
 
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In Silico Analysis of Evolution in Swine Flu Viral Genomes Through Re-assortment by Promulgation and Mutation
S. Sur, G. Sen, S. Thakur, A.K. Bothra and A. Sen

Abstract:
Availability of the sequences of latest strains of H1N1 virus and their comparison with other viral strains may provide significant clues to the nature of H1N1. The objective of the study was to look into the characteristics of genes and proteins of the swine flu and related viruses to understand their lifestyle and evolutionary relationship. Sequences of genome segments were analysed using ACUA, Codon W and DAMBE. Evolutionary relationships were determined via condensed matrix method. CAI values were quite high in the studied viruses and pI values of proteins showed a bi-modal distribution. All HIN1 strains as well as Influenza C, H3N2 and H2N2 had pI in the range greater than 8.1 with H1N1 CAL07/2009 having pI value of 8.87. Positive correlations of GC3 and GC content with CAI values were noticed. Hydropathy and aromaticity levels increased with the decrease of GC3. Phylogram revealed a rooted tree, which shows two major clades, Clade A and Clade B with subclades. Majority of H1N1 lie together in the same clade with the exception of H1N1 CAL04/2009 that lies in a different clade altogether along with H1N1 Puerto-Rico. Mutational bias is the main factor driving codon usage variation. High expression of pathogenicity related genes confirm its role as pathogen. Most of the H1N1 basic proteomes are influenced by mutational pressure. Genes associated with the hydrophilic proteins are favoured by translationally optimal codons. Phylogenetic analysis portrays the role played by reassortment in controlling the evolution of the studied strains.
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How to cite this article:

S. Sur, G. Sen, S. Thakur, A.K. Bothra and A. Sen, 2009. In Silico Analysis of Evolution in Swine Flu Viral Genomes Through Re-assortment by Promulgation and Mutation. Biotechnology, 8: 434-441.

DOI: 10.3923/biotech.2009.434.441

URL: https://scialert.net/abstract/?doi=biotech.2009.434.441

COMMENTS
30 August, 2009
shigha t:
Is this H1N1 virus is influensed by anyother viruses
31 August, 2009
Saubashya Sur:

It has been found that HIN1 viral strains are not influenced by any other viruses. We studied the neuraminidase and hemagglitinin genes from H1N1 viruses and found that other viruses do not influence them.

 
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