{"about":{"site":"https://codewithpapers.app","non_affiliation":"Code with Papers and Syntology are not affiliated with, endorsed by, or sponsored by Papers with Code, Meta, or the pwc-archive mirror.","licence":"CC BY-SA 4.0","licence_url":"https://creativecommons.org/licenses/by-sa/4.0/legalcode","attribution":"https://codewithpapers.app/attribution","modified":"archive material modified by Syntology; see the attribution page"},"url":"/paper/a-large-scale-prediction-of-bacteriocin-gene","title":"A large scale prediction of bacteriocin gene blocks suggests a wide functional spectrum for bacteriocins","arxiv_id":"1510.06008","date":"2015-10-20","proceeding":null,"authors":[],"abstract":"Bacteriocins are peptide-derived molecules produced by bacteria, whose\nrecently-discovered functions include virulence factors and signalling\nmolecules as well as their better known roles as antibiotics. To date, close to\nfive hundred bacteriocins have been identified and classified. Recent\ndiscoveries have shown that bacteriocins are highly diverse and widely\ndistributed among bacterial species. Given the heterogeneity of bacteriocin\ncompounds, many tools struggle with identifying novel bacteriocins due to their\nvast sequence and structural diversity. Many bacteriocins undergo\npost-translational processing or modifications necessary for the biosynthesis\nof the final mature form. Enzymatic modification of bacteriocins as well as\ntheir export is achieved by proteins whose genes are often located in a\ndiscrete gene cluster proximal to the bacteriocin precursor gene, referred to\nas \\textit{context genes} in this study. Although bacteriocins themselves are\nstructurally diverse, context genes have been shown to be largely conserved\nacross unrelated species. Using this knowledge, we set out to identify new\ncandidates for context genes which may clarify how bacteriocins are\nsynthesized, and identify new candidates for bacteriocins that bear no sequence\nsimilarity to known toxins. To achieve these goals, we have developed a\nsoftware tool, Bacteriocin Operon and gene block Associator (BOA) that can\nidentify homologous bacteriocin associated gene clusters and predict novel\nones. We discover that several phyla have a strong preference for bactericon\ngenes, suggesting distinct functions for this group of molecules. Availability:\nhttps://github.com/idoerg/BOA","url_abs":"http://arxiv.org/abs/1510.06008v1","url_pdf":"http://arxiv.org/pdf/1510.06008v1.pdf","source":{"archive":"pwc-archive (Hugging Face), CC BY-SA 4.0","snapshot":"2025-07-28","licence_url":"https://creativecommons.org/licenses/by-sa/4.0/legalcode","row_kind":"abstracts"},"code_links":[{"paper_slug":"a-large-scale-prediction-of-bacteriocin-gene","repo_url":"https://github.com/idoerg/BOA","is_official":1,"mentioned_in_paper":1,"mentioned_in_github":0,"framework":"none","reach":null}],"tasks":[],"methods":[],"datasets_introduced":[],"methods_introduced":[],"results":[],"syntology":{"syntology_url":null,"atlas_url":null,"mcp":null,"developers":"https://syntology.ai/developers"},"arxiv_metadata":null,"syntology_extracted_results":null}