Abstract: Many of the known infectious pathogens that pose a challenge to available treatment methods because of their antibiotic resistant properties, belong to the phylum Proteobacteria. A method and system for combating infections due to pathogens belonging to phylum Proteobacteria is provided. The system is configured to provide strategies to combat pathogenic infections caused by multi-drug resistant (MDR) and extensively drug resistant (XDR) strains of pathogens belonging to phylum Proteobacteria. It is possible to target multiple pathogens simultaneously using a single target site as these pathogens belong to the same phylum and share similarities in their genetic signature. The strategy involves identifying potential target sites in the pathogen, which can be utilized to compromise its multiple virulence or essential functions at the same time.

Abstract: Mycobacterium tuberculosis is the most common pathogenic agent responsible for tuberculosis (TB) infection. Over a period of time, the methods used for combating TB have become more challenging by the prevalence of multi-drug resistant and extensively drug resistant strains. The disclosure relates generally to method and system for combating infections due to Mycobacterium tuberculosis. The system provides strategies to combat pathogenic infections caused by multi-drug resistant (MDR) and extensively drug resistant (XDR) strains of Mycobacterium tuberculosis. The strategy involves identifying potential target sites in a pathogen, which can be utilized to compromise its multiple virulence or essential functions at the same time.

Abstract: Bacterial plant pathogens such as Xanthomonas sp. and Pseudomonas syringae are developing resistance to various classes of antibiotics. A method and system for combating plant pathogenic bacterial infections have been provided. The system is configured to provide strategies to combat infections in plants caused by multi-drug resistant (MDR) plant pathogens. The strategy involves identifying potential target sites in the plant pathogen, which can be utilized to compromise its multiple virulence or essential functions at the same time. The idea used in this disclosure utilizes the fact that a conserved stretch of nucleotide sequence occurring multiple times on a pathogen genome in genomic neighborhood of genes encoding virulence factors or in vicinity of genes essential for pathogen survival encoded within the genome of the candidate pathogen can be targeted to disrupt the overall genetic machinery of the plant pathogen.

Abstract: A system and method for identification of target sites in a pathogenic genome and combating a pathogenic infection have been provided. The present disclosure utilizes the fact that a conserved stretch of nucleotide sequence in genomic neighborhood of genes important for bacteria can be targeted to disrupt the overall functioning of the pathogen. The method involves identification of nucleotide repeat sequences in the DNA. The method and system also involve administration of a cocktail comprising antimicrobial drugs, biofilm inhibitors and a construct. The genomic neighborhood or vicinity or ‘flanking genes’ refers to regions lying within a predefined number of genes to the identified conserved stretch of nucleotide repeat sequence (or its reverse complement) on the candidate pathogen genome or within a distance of predefined number of bases with respect to the conserved stretch of nucleotide repeat sequence (or its reverse complement) on the candidate pathogen genome.

Abstract: Co-infection of Pseudomonas aeruginosa and Staphylococcus aureus, exacerbates the virulence gene expression as well as shows higher antibacterial resistance than when they cause infections individually thereby making the infection extremely difficult to combat. A method and system for combating infections due to Pseudomonas aeruginosa and Staphylococcus aureus has been provided. The system provides strategies to combat pathogenic infections caused by multi-drug resistant (MDR) and extensively drug resistant (XDR) strains of Pseudomonas aeruginosa and Staphylococcus aureus. The strategy involves identifying potential target sites, which can be utilized to compromise its multiple virulence or essential functions at the same time.

Abstract: Nosocomial infections are a major threat to the health sector. A specific category of these are the infections caused by antibiotic induced susceptibility to various pathogenic bacteria. This disclosure relates generally to method and system for combating infections due to antibiotic induced pathogens. The system provides strategies to combat pathogenic infections caused by multi-drug resistant (MDR) and extensively drug resistant (XDR) strains of antibiotic induced pathogens. The idea used in this disclosure utilizes the fact that multiple occurrences of a conserved stretch of nucleotide sequence on a pathogen genome and surrounded by genes encoding virulence factors or which are in vicinity of genes essential for survival of the candidate pathogen can be targeted to disrupt the overall genetic machinery of the pathogen. The present disclosure has been explained on sequenced genomes of Clostridium difficile and vancomycin-resistant Enterococcus sp.

Abstract: A method and system for identification of target sites in protein coding regions for combating pathogens has been provided. The method relates to identifying a set of nucleotide repeat sequences that occur within the complete coding region of a specific protein that is involved in the pathogenicity of the infectious bacteria and which occurs in multiple copies on the pathogen genome and utilizing various laboratory acceptable methods to debilitate the identified target sequence on the pathogen genome, as well as use of enzymatic machinery to target and cleave its flanking genes on the genome. The set of nucleotide repeat sequences forming a part of or the complete coding region of a specific protein on the pathogen genome may be flanked by genes on either side that can be targeted as well. The present disclosure further includes administration of a cocktail comprising antimicrobial drugs, biofilm inhibitors and the novel construct.

Abstract: Contamination of environment by a multitude of pollutants is becoming a global health concern. Lot of methods are being used for bioremediation of those pollutants. A method and system for one or more pollutants has been provided. The sample is collected from a site containing pollutants. Pollutants are then isolated from the sample. Further, a knowledgebase various types of degraders of those pollutant is created. Using this knowledgebase a map of microbes is created. The map of microbes is then used to design a first microbial consortia and a second microbial consortia which together contributes genes, proteins and enzymes required for degradation of the pollutants. And finally, a concoction of the first and/or second microbial consortia is administered on the site. The method further comprises the checking the efficacy of the administered consortia and further comprise re-administration of the concoction.