Natural product databases

Abstract

An annotated selection of World Wide Web sites relevant to the topics in microbial biotechnology antiSMASH bacterial version http://antismash.secondarymetabolites.org Bacterial antiSMASH is a computational tool for identification and analysis of secondary metabolic biosynthetic gene clusters in bacterial genomes. antiSMASH fungal version https://fungismash.secondarymetabolites.org/#!/start Fungal antiSMASH is a computational tool for identification and analysis of secondary metabolic biosynthetic gene clusters in fungal genomes. antiSMASH 4.0 https://www.ncbi.nlm.nih.gov/pubmed/28460038 This review article on antiSMASH describes improvements in chemistry prediction and gene cluster identifications. Computational approaches to mine for secondary metabolites https://academic.oup.com/bib/advance-article/doi/10. 1093/bib/bbx146/4590131 This article describes the use of antiSMASH databases for mining natural product gene clusters. RODEO for microbial biosynthetic potential https://www.igb.illinois.edu/article/new-tool-rodeo-capture s-breadth-microbial-biosynthetic-potential RODEO is a tool for searching microbial genomes to identify natural product biosynthetic gene clusters. Beta-lactone tool z.umn.edu/bltool This new database is focused on natural product beta-lactone compounds. A growing number of beta-lactone molecules are showing anticancer and antibiotic activities. Tools for biosynthetic gene cluster mining http://www.secondarymetabolites.org/mining/ This page contains a compilation of secondary metabo-lite gene mining tools with links to the original databases. eSNaPD v.2.0 http://esnapd2.rockefeller.edu eSNaPD stands for environmental Survey of Natural Product Diversity which is a tool to analyse crude metagenomic samples or bacterial culture collections for natural product gene clusters. NaPDoS http://napdos.ucsd.edu This is a tool for finding natural product genes, particularly those encoding C and KS domains. SANDPUMA https://bitbucket.org/chevrm/sandpuma This tool is focused on finding genes and proteins involved in the biosynthesis of non-ribosomally synthesized peptides.