sRNAbase: A Web Resource for Small RNAs in Enterobacteriaceae\m{1}

Article type: Research Article

Authors: Sathesh-Kumar, Sivasankaran | Sridhar, Jayavel | Rafi, Ziauddin Ahamed

Affiliations: Centre of Excellence in Bioinformatics, Department of Genetic Engineering, School of Biotechnology, Madurai Kamaraj University, Madurai, India

Note: [] Corresponding author. Tel.: +91 452 2459141; Fax: +91 452 2459105; E-mail: [email protected], [email protected]

Abstract: Bacterial small RNAs (sRNAs) have gained considerable attention due to their multivalent roles in the survival and pathogenesis of bacteria and mostly identified through bio-computational methods. A manually curated web-resource, sRNAbase has been constructed to give comprehensive and exhaustive information on non-coding small RNAs excluding tRNAs and rRNAs in Enterobacteriaceae family. The sRNA entries curated in sRNAbase contain experimentally verified small RNAs available in the literature and their partial/non-homologs reported within the related genomes from our earlier studies. The sRNAbase aims to facilitate the scientific community by providing information on the physical genomic location of the non-coding small RNAs, its alias names, sequences, strand orientation, gene identification numbers of the conserved genes that sandwiches the particular sRNA with possible functional role and a link to the PubMed literatures. Currently, sRNAbase holding information on 1986 entries belongs to 80 sRNA families spread over 45 Enterobacteriaceae genomes. The sRNAbase is accessible on the web at http://bicmku.in:8081/srnabase/.

Keywords: sRNAs, Enterobacteriaceae, flanking genes

DOI: 10.3233/ISB-2010-0424

Journal: In Silico Biology, vol. 10, no. 3-4, pp. 155-161, 2010