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Characterization of structural and free energy properties of promoters associated with Primary and Operon TSS in Helicobacter pylori genome and their orthologs

Kumar, Aditya and Bansal, Manju (2012) Characterization of structural and free energy properties of promoters associated with Primary and Operon TSS in Helicobacter pylori genome and their orthologs. In: JOURNAL OF BIOSCIENCES, 37 (3). pp. 423-431.

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Official URL: http://dx.doi.org/10.1007/s12038-012-9214-6

Abstract

Promoter regions in the genomes of all domains of life show similar trends in several structural properties such as stability, bendability, curvature, etc. In current study we analysed the stability and bendability of various classes of promoter regions (based on the recent identification of different classes of transcription start sites) of Helicobacter pylori 26695 strain. It is found that primary TSS and operon-associated TSS promoters show significantly strong features in their promoter regions. DNA free-energy-based promoter prediction tool PromPredict was used to annotate promoters of different classes, and very high recall values (similar to 80%) are obtained for primary TSS. Orthologous genes from other strains of H. pylori show conservation of structural properties in promoter regions as well as coding regions. PromPredict annotates promoters of orthologous genes with very high recall and precision.

Item Type: Journal Article
Additional Information: Copyright for this article belongs to the Indian Academy of Sciences
Keywords: Helicobacter pylori;operons;orthologs;promoters
Department/Centre: Division of Biological Sciences > Molecular Biophysics Unit
Date Deposited: 27 Aug 2012 04:49
Last Modified: 27 Aug 2012 04:50
URI: http://eprints.iisc.ernet.in/id/eprint/44980

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