Journal of Biosciences

, Volume 37, Issue 3, pp 433–444

DNA-energetics-based analyses suggest additional genes in prokaryotes

Article

DOI: 10.1007/s12038-012-9221-7

Cite this article as:
Khandelwal, G., Gupta, J. & Jayaram, B. J Biosci (2012) 37: 433. doi:10.1007/s12038-012-9221-7

Abstract

We present here a novel methodology for predicting new genes in prokaryotic genomes on the basis of inherent energetics of DNA. Regions of higher thermodynamic stability were identified, which were filtered based on already known annotations to yield a set of potentially new genes. These were then processed for their compatibility with the stereo-chemical properties of proteins and tripeptide frequencies of proteins in Swissprot data, which results in a reliable set of new genes in a genome. Quite surprisingly, the methodology identifies new genes even in well-annotated genomes. Also, the methodology can handle genomes of any GC-content, size and number of annotated genes.

Keywords

DNA energetics gene prediction prokaryotes 

Copyright information

© Indian Academy of Sciences 2012

Authors and Affiliations

  1. 1.Department of ChemistryIndian Institute of TechnologyNew DelhiIndia
  2. 2.Supercomputing Facility for Bioinformatics and Computational BiologyIndian Institute of TechnologyNew DelhiIndia
  3. 3.Kusuma School of Biological SciencesIndian Institute of TechnologyNew DelhiIndia