BACTIBASE second release: a database and tool platform for bacteriocin characterization

Abstract

BackgroundBACTIBASE is an integrated open-access database designed for the characterization of bacterial antimicrobial peptides, commonly known as bacteriocins.DescriptionFor its second release, BACTIBASE has been expanded and equipped with additional functions aimed at both casual and power users. The number of entries has been increased by 44% and includes data collected from published literature as well as high-throughput datasets. The database provides a manually curated annotation of bacteriocin sequences. Improvements brought to BACTIBASE include incorporation of various tools for bacteriocin analysis, such as homology search, multiple sequence alignments, Hidden Markov Models, molecular modelling and retrieval through our taxonomy Browser.ConclusionThe provided features should make BACTIBASE a useful tool in food preservation or food safety applications and could have implications for the development of new drugs for medical use. BACTIBASE is available at http://bactibase.pfba-lab-tun.org.

High content analysis to determine cytotoxicity of the antimicrobial peptide, melittin and selected structural analogs

“…The number of natural peptides listed in AMP databases is into the thousands, and increases year-on-year [25,26], and there is potential for even larger numbers of AMPs to arise from synthetic AMPs generated rationally or by serendipity from recombinant micro-organisms (e.g. of lantibiotics [27]) or from synthetic combinatorial libraries [28].…”

Probiotics and Antimicrobial Peptides: The Creatures’ and Substances’ Future in the Twenty-First Century: An Opinion Letter

“…All of these and particularly growing number of reports on synergy of bacteriocins with other stressors have catalyzed the exploration of bacteriocins as ''helpers'' with conventional antibiotics, wherein antimicrobial proteins can improve the activity of the drug and decrease the rate of the targeted microorganisms' resistance to combinational therapy (e.g., [28,29]). The availability and convenience of using database on antimicrobial proteins is of a great assistance in these studies [30]. Since bacteriocins are biodegradable and most of them are overall positively charged, hydrophobic substances, to assure their efficiency in challenging environment of eukaryotic organisms, proper delivery systems should be considered [31].…”

Antagonistic effect of brevicin on Gram positive and Gram negative food borne bacteria and its biopreservative efficacy in milk

“…Bacterial antagonism is of vital importance for the application of probiotic lactic acid bacteria (LAB). LAB that produce antimicrobial substances like lactic acid, hydrogen peroxide, diacetyl and small heat stable inhibitory peptides (bacteriocin) have considerable advantage in the competition with other microorganisms including pathogens (Venema et al, 1993;Hammami et al, 2010). Bacteriocins are riboso-*Corresponding author.…”