Automated genomic context analysis and experimental validation platform for discovery of prokaryote transcriptional regulator functions.

ABSTRACT:

Background

The clustering of genes in a pathway and the co-location of functionally related genes is widely recognized in prokaryotes. We used these characteristics to predict the metabolic involvement for a Transcriptional Regulator (TR) of unknown function, identified and confirmed its biological activity.

Results

A software tool that identifies the genes encoded within a defined genomic neighborhood for the subject TR and its homologs was developed. The output lists of genes in the genetic neighborhoods, their annotated functions, the reactants/products, and identifies the metabolic pathway in which the encoded-proteins function. When a set of TRs of known function was analyzed, we observed that their homologs frequently had conserved genomic neighborhoods that co-located

SUBMITTER: Marti-Arbona R 

PROVIDER: S-EPMC4349456 | biostudies-literature | 2014 Dec

REPOSITORIES: biostudies-literature