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In Silico Analysis of Evolution in Swine Flu Viral Genomes Through Re-assortment by Promulgation and Mutation |
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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
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| COMMENTS |
30 August, 2009
shigha t:
Is this H1N1 virus is influensed by anyother viruses |
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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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