COMPARATIVE GENOME ANALYSIS OF SHORT SEQUENCE REPEATS IN PATHOGENIC AND NON PATHOGENIC LEPTOSPIRA- A STATISTICAL APPROACH

INDUMATHI B. KAMATCHI¹*, SUNIL ABRAHAM², ANGELA ASIR VICTOR RAMASAMY³, S. SANTRA⁴, H. RAHMAN⁵, RAVI KIRAN GORTI⁶, K.P. SURESH^7
1Department of Epidemiology and Biostatistics, National Institute of Veterinary Epidemiology and Disease Informatics (NIVEDI), Bengaluru, Karnataka, India
²School of Biological Sciences, Madurai Kamaraj University, Madurai-625019, Tamilnadu, India
³School of Biological Sciences, Madurai Kamaraj University, Madurai-625019, Tamilnadu, India
⁴Department of Epidemiology and Biostatistics, National Institute of Veterinary Epidemiology and Disease Informatics (NIVEDI), Bengaluru, Karnataka, India
⁵ICAR-National Institute of Veterinary Epidemiology and Disease Informatics (NIVEDI), Bengaluru, Karnataka, India
⁶ICAR-National Institute of Animal Nutrition and Physiology, Bengaluru,Karnataka, India
⁷Department of Epidemiology and Biostatistics, National Institute of Veterinary Epidemiology and Disease Informatics (NIVEDI), Bengaluru, Karnataka, India
* Corresponding Author : indumathi_28@yahoo.com

Received : 02-12-2015     Accepted : 08-04-2016     Published : 28-04-2016
Volume : 8     Issue : 1       Pages : 180 - 185
Genetics 8.1 (2016):180-185

Keywords : Short sequence repeats; Leptospira; Chromosome I and II; microsatellites; Statistical analysis
Academic Editor : Lin Kang, Kun Zhou, Tungadri Bose, O. Uziel, Martha Olivera Angel
Conflict of Interest : None declared
Acknowledgements/Funding : None declared
Author Contribution : None declared

Leptospira is a pathogenic bacteria, which causes Leptospirosis in humans and animals. The genome sequence of Leptospira interrogans Lai (Pathogenic) and Leptospira biflexa Patoc (Non-Pathogenic) were retrieved and examined for the presence of Short Sequence Repeats (SSR) (n=1,2,3)in Chromosome I and Chromosome II. SSRs or microsatellites extensively exist in genomes of prokaryotes and eukaryotes. Simple sequence repeats are the genetic loci where the bases are tandemly repeated for varying number of times. Comparative genome analysis will provide a better understanding in the identification of the evolutionary relationship between pathogenic and non-pathogenic species. SSRs in genome sequences (pathogenic and non- pathogenic) were found using ‘R’ script, which was implemented in R packages. It was observed that the pathogenic sequence contains a number of tandem repeats in both the chromosomes. Meanwhile, the occurrence of C/G or G/C has more difference in their frequencies between pathogenic and non-pathogenic sequences. In both the chromosomes, dinucleotide repeats are frequent, but in the case of TC in both the chromosomes and GA in chromosome II are found to be less significant. Additionally, trinucleotide repeats are longer in pathogenic, whereas in non-pathogenic they are shorter. The statistical analysis of the microsatellites in both the sequences indicates the highly significant pattern of nucleotide repeats. The more number of genes in the pathogenic species may be acquired to the virulence in their course of evolution. This work partially suggests that SSRs plays a major role in genetic diversity, gene evolution and also in understanding the genomic instability.