antiSMASH 6.0: improving cluster detection and comparison capabilities

Nucleic Acids Research, vol. 49, pp. W29–W35

Abstract

Many microorganisms produce natural products that form the basis of antimicrobials, antivirals, and other drugs. Genome mining is routinely used to complement screening-based workflows to discover novel natural products. Since 2011, the "antibiotics and secondary metabolite analysis shell-antiSMASH" (https://antismash.secondarymetabolites.org/) has supported researchers in their microbial genome mining tasks, both as a free-to-use web server and as a standalone tool under an OSI-approved open-source license. It is currently the most widely used tool for detecting and characterising biosynthetic gene clusters (BGCs) in bacteria and fungi. Here, we present the updated version 6 of antiSMASH. antiSMASH 6 increases the number of supported cluster types from 58 to 71, displays the modular structure of multi-modular BGCs, adds a new BGC comparison algorithm, allows for the integration of results from other prediction tools, and more effectively detects tailoring enzymes in RiPP clusters.

Authors 6

1. Kai Blin corresponding

   Novo Nordisk Foundation · Technical University of Denmark

   Affiliation as printed

   The Novo Nordisk Foundation Center for Biosustainability, Technical University of Denmark, Kgs. Lyngby, Denmark

2. Alexander Kloosterman Aachen Institute of Biology, Leiden University

   Leiden University

   Affiliation as printed

   Institute of Biology, Leiden University, Leiden, The Netherlands

3. Zachary Charlop–Powers
   Affiliation as printed

   Bioinformatics, Lodo Therapeutics, New York, USA

4. Gilles P. van Wezel Aachen Institute of Biology, Leiden University

   Leiden University · Netherlands Institute of Ecology

   Affiliation as printed

   Institute of Biology, Leiden University, Leiden, The Netherlands

   Netherlands Institute of Ecology (NIOO-KNAW), Wageningen, The Netherlands

5. Marnix H. Medema corresponding Aachen Institute of Biology, Leiden University

   Leiden University · Wageningen University & Research

   Affiliation as printed

   Bioinformatics Group, Wageningen University, Wageningen, The Netherlands

   Institute of Biology, Leiden University, Leiden, The Netherlands

6. Tilmann Weber corresponding

   Novo Nordisk Foundation · Technical University of Denmark

   Affiliation as printed

   The Novo Nordisk Foundation Center for Biosustainability, Technical University of Denmark, Kgs. Lyngby, Denmark