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Structural features of DNA are conserved in the promoter region of orthologous genes across different strains of Helicobacter pylori

Kumar, Aditya and Manivelan, Vasumathi and Bansal, Manju (2016) Structural features of DNA are conserved in the promoter region of orthologous genes across different strains of Helicobacter pylori. In: FEMS MICROBIOLOGY LETTERS, 363 (18).

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Official URL: http://dx.doi.org/10.1093/femsle/fnw207

Abstract

Promoter regions play a key role in the process of transcription initiation and gene expression, hence promoter identification is an inherent component of the genome annotation process. Identification and characterization of promoters in fully sequenced genomes is a challenging and complex task. An analysis of sequence-dependent DNA structural properties in the promoter region of orthologous and non-orthologous genes can help in characterizing promoters and also provide insights into transcription initiation. Various structural properties, such as duplex stability, protein-induced bendability and intrinsic curvature of promoter sequences have been calculated and compared for 10 different strains of Helicobacter pylori genomes, and it is found that promoter regions in orthologous and non-orthologous genes show distinct trends for these properties, with orthologous genes showing sharper low-stability peak, lower bendability and higher curvature. The average GC content of orthologous genes is higher than that of non-orthologous genes, and relative stability-based promoter annotation tool PromPredict performs better for orthologous genes than non-orthologous genes. The characteristic sequence-dependent structural properties of promoters show significant differences between orthologous and non-orthologous genes. Interestingly, these structural properties of promoters are conserved, but the genes themselves vary in their evolutionary selection rate.

Item Type: Journal Article
Additional Information: Copy right for this article belongs to the OXFORD UNIV PRESS, GREAT CLARENDON ST, OXFORD OX2 6DP, ENGLAND
Department/Centre: Division of Biological Sciences > Molecular Biophysics Unit
Depositing User: Id for Latest eprints
Date Deposited: 30 Dec 2016 07:11
Last Modified: 30 Dec 2016 07:11
URI: http://eprints.iisc.ac.in/id/eprint/55650

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