Comparative genomics reveals `novel' Fur regulated sRNAs and coding genes in diverse proteobacteria

Sridhar, Jayavel and Sabarinathan, Radhakrishnan and Gunasekaran, Paramasamy and Sekar, Kanagaraj (2013) Comparative genomics reveals `novel' Fur regulated sRNAs and coding genes in diverse proteobacteria. In: GENE, 516 (2). pp. 335-344.

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Abstract

Ferric uptake regulator (Fur) is a transcriptional regulator controlling the expression of genes involved in iron homeostasis and plays an important role in pathogenesis. Fur-regulated sRNAs/CDSs were found to have upstream Fur Binding Sites (FBS). We have constructed a Positional Weight Matrix from 100 known FBS (19 nt) and tracked the `Orphan' FBSs. Possible Fur regulated sRNAs and CDSs were identified by comparing their genomic locations with the `Orphan' FBSs identified. Thirty-eight `novel' and all known Fur regulated sRNAs in nine proteobacteria were identified. In addition, we identified high scoring FBSs in the promoter regions of the 304 CDSs and 68 of them were involved in siderophore biosynthesis, iron-transporters, two-component system, starch/sugar metabolism, sulphur/methane metabolism, etc. The present study shows that the Fur regulator controls the expression of genes involved in diverse metabolic activities and it is not limited to iron metabolism alone. (C) 2012 Elsevier B.V. All rights reserved.

Item Type:	Journal Article
Publication:	GENE
Publisher:	ELSEVIER SCIENCE BV
Additional Information:	Copyright for this article belongs to ELSEVIER SCIENCE BV, NETHERLANDS
Keywords:	Non-coding RNA;Intergenic;RyhB;Metabolic pathways;Fur
Department/Centre:	Division of Interdisciplinary Sciences > Supercomputer Education & Research Centre
Date Deposited:	28 Mar 2013 11:51
Last Modified:	28 Mar 2013 11:51
URI:	http://eprints.iisc.ac.in/id/eprint/46241

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