Comparison of Whole transcriptome sequence of Clinical E.coli Strain (EC555)-with WTS of an antibiotic agent namely PPEF treated EC555

We have observed PPEF as the most potent one which could inhibit the growth of a number of broad-spectrum bacteria irrespective of the nature of their cell wall. PPEF synthesis and bactericidal effects are published in JMC (Synthesis and biological evaluation of novel bisbenzimidazoles as Escherichia coli topoisomerase IA inhibitors and potential antibacterial agents. Nimesh H, Sur S, Sinha D, Yadav P, Anand P, Bajaj P, Virdi JS, Tandon V.J Med Chem. 2014 Jun 26;57:5238-57.) and Scientific Reports (Synergistic efficacy of Bisbenzimidazole and Carbonyl Cyanide 3-Chlorophenylhydrazone combination against MDR bacterial strains. Sinha D, Pandey S, Singh R, Tiwari V, Sad K, Tandon V. Sci Rep. 2017 Mar 17;7:44419.) by our group. In the present project we want to evaluate the effect of PPEF on the genome of clinical strain EC555 which is multidrug resistant. In order to understand the mechanism of action of this molecule the trancriptome was analyzed.We want to see other than topoisomerase IA , what are the other genes in the bacteria are getting altered, mutated, any particular pathway is being upregulated or downregulated. We have observed that PPEF did not cause any mutation in topoisomerase IA, hence it becomes imperative to see is it stopping the source of energy to bacteria, because of that E. coli bacteria are dying. We can further modify or suggest the medicinal chemists that this particular set of molecules effect the particular genes which can be utilized to modulate an existing antibiotic to become more effective.