ANALYSING SINGLE NUCLEOTIDE VARIATION IN DRUG RESISTANT STRAINS OF MYCROBACTERIUM TUBERCULOSIS USING BOWTIE & SAMTOOLS

Abstract

The occurrence of drug resistance in Mycobacterium tuberculosis, the causative agent of tuberculosis (TB), is hampering the management and control of TB in the world. Genome-wide scans for genetic variation have been conducted with the aim of clarifying the genetic basis of disease, and recent advancements in DNA genotyping technologies have revealed many susceptibility genes and variants for common diseases. It examines the variations among the different strains of same species and relate with trait. The Single Nucleotide Variation in different strains of Mycobacterium tuberculosis were identified using BOWTIE & SAMTools and then examines the impact of SNVs on the virulence and pathogenicity. For this analysis, genome sequences of three strains of Mycobacterium tuberculosis: AAKR, AMXW and AQQC were analyzed for the single nucleotide variations with reference to the H37Rv, a pathogenic laboratory strain. The SNVs were found more in the genic region than in intergenic region. Transition to transversion ratios (Ts/Tv ratio) were also calculated in each strain and analysis of SNVs supports the transitional bias in all the strains. Then further categories the SNVs in different functional categories of TubercuList under lipid metabolism, information pathways, cell wall and cell processes, stable RNAs, insertion seqs and phages. PE/PPE, intermediary metabolism and respiration, regulatory protein, conserved hypotheticals etc. The results suggest that the drug resistant phenotype may be due to changes in a number of genes. This result will further give light on the evolution of drug resistant strains.