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Title

 

 

 

 

 

Genome subtraction for novel target definition in Salmonella typhi

 

Authors

 

Bhawna Rathi, Aditya N. Sarangi, Nidhi Trivedi

Affiliation

 

Biomedical Informatics Centre, Sanjay Gandhi Postgraduate Institute of Medical Sciences, Lucknow 226014, India

Email

 

bhawna_rathi3@rediffmail.com

Article Type

 

Hypothesis

Date

 

Received May 07, 2009; Revised August 24, 2009; Accepted September 11, 2009; Published October 11, 2009

Abstract

Large genomic sequencing projects of pathogens as well as human genome leads to immense genomic and proteomic data which would be very beneficial for the novel target identification in pathogens. Subtractive genomic approach is one of the most useful strategies helpful in identification of potential targets. The approach works by subtracting the genes or proteins homologous to both host and the pathogen and identify those set of gene or proteins  which are  essential  for  the  pathogen  and are  exclusively  present  in the  pathogen. Subtractive genomic approach is employed to identify novel target in salmonella typhi. The pathogen has 4718 proteins out of which 300 are found to be essential (“indispensable to support cellular life”) in the pathogen with no human homolog. Metabolic pathway analyses of these 300 essential proteins revealed that 149 proteins are exclusively involved in several metabolic pathway of S. typhi. 8 metabolic pathways are found to be present exclusively in the pathogen comprising of 27 enzymes unique to the pathogen. Thus, these 27 proteins may serve as prospective drug targets. Sub-cellular localization prediction of the 300 essential proteins was done which reveals that 11 proteins lie on the outer membrane of the pathogen which could be probable vaccine candidates.

 

Keywords

Subtractive genomics approach, proteome, drug targets.

Citation

 

Rathi et al., Bioinformation 4(4): 143-150 (2009)

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.