Analysis of distribution and significance of simple sequence repeats in enteric bacteria Shigella dysenteriae SD197

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Title	*Analysis of distribution and significance of simple sequence repeats in enteric bacteria Shigella dysenteriae* SD197**
Authors	Batwal Saurabh¹, Sitaraman Sneha¹, Ranade Suvidya²*, Khandekar Pramod³, Bajaj Shailesh²
Affiliation	¹Sinhagad College of Engineering, Wadgaon BK, Pune - 411041; ²Department of chemistry, University of Pune, Maharashtra India; ³Biotechnology Chair, University of Pune
Email	suvidya@chem.unipune.ac.in; *Corresponding author
Article Type	Hypothesis
Date	Received June 13, 2011; Accepted June 28, 2011; Published July 19, 2011
Abstract	We have explored the possible role of SSR density in genome to generate biological information. In our study, we have checked the SSR (simple sequence repeats) status in virulent and non virulent genes of enteric bacteria to see whether the SSRs distribution contributes to virulence. The genome, plasmid and virulent genes sequences in fasta format were downloaded from NCBI GenBank and VFDB. The sequences were subjected to SSR analysis using software tool ssr.exe. The resulting data was pasted in excel sheet and further analyzed for percentage of each type of SSR. Higher nucleotide repeats have been observed in our study. Overall high density of SSRs can enhance antigenic variance of the pathogen population in a strategy that counteracts the host immune response. Frequency of A and T repeats is higher in the chromosome, plasmid and the virulence genes. However, in dinucleotide repeats the frequencies of GC/CG repeats are higher in genome, whereas plasmid has more of AT/TA repeats. Genome has trinucleotide repeats having predominantly G and C whereas plasmid has trinucleotide repeats having predominantly A and T. The repeat number obtained and percentage of repeats is higher in virulence genes as compared to other gene families. Due to the presence of this large number of SSRs, the organism has an enormous potential for generating this genomic and phenotypic diversity.
Citation	*Saurabh et al.* Bioinformation 6(9): 348-351 (2011)
Edited by	P Kangueane
ISSN	0973-2063
Publisher	Biomedical Informatics
License	This is an Open Access article which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly credited. This is distributed under the terms of the Creative Commons Attribution License.