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antiSMASH 6.0: improving cluster detection and comparison capabilities
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—antiS...
Autores principales: | , , , , , , |
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Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
Oxford University Press
2021
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Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8262755/ https://www.ncbi.nlm.nih.gov/pubmed/33978755 http://dx.doi.org/10.1093/nar/gkab335 |
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author | Blin, Kai Shaw, Simon Kloosterman, Alexander M Charlop-Powers, Zach van Wezel, Gilles P Medema, Marnix H Weber, Tilmann |
author_facet | Blin, Kai Shaw, Simon Kloosterman, Alexander M Charlop-Powers, Zach van Wezel, Gilles P Medema, Marnix H Weber, Tilmann |
author_sort | Blin, Kai |
collection | PubMed |
description | 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. |
format | Online Article Text |
id | pubmed-8262755 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2021 |
publisher | Oxford University Press |
record_format | MEDLINE/PubMed |
spelling | pubmed-82627552021-07-08 antiSMASH 6.0: improving cluster detection and comparison capabilities Blin, Kai Shaw, Simon Kloosterman, Alexander M Charlop-Powers, Zach van Wezel, Gilles P Medema, Marnix H Weber, Tilmann Nucleic Acids Res Web Server Issue 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. Oxford University Press 2021-05-12 /pmc/articles/PMC8262755/ /pubmed/33978755 http://dx.doi.org/10.1093/nar/gkab335 Text en © The Author(s) 2021. Published by Oxford University Press on behalf of Nucleic Acids Research. https://creativecommons.org/licenses/by/4.0/This is an Open Access article distributed under the terms of the Creative Commons Attribution License (http://creativecommons.org/licenses/by/4.0/ (https://creativecommons.org/licenses/by/4.0/) ), which permits unrestricted reuse, distribution, and reproduction in any medium, provided the original work is properly cited. |
spellingShingle | Web Server Issue Blin, Kai Shaw, Simon Kloosterman, Alexander M Charlop-Powers, Zach van Wezel, Gilles P Medema, Marnix H Weber, Tilmann antiSMASH 6.0: improving cluster detection and comparison capabilities |
title | antiSMASH 6.0: improving cluster detection and comparison capabilities |
title_full | antiSMASH 6.0: improving cluster detection and comparison capabilities |
title_fullStr | antiSMASH 6.0: improving cluster detection and comparison capabilities |
title_full_unstemmed | antiSMASH 6.0: improving cluster detection and comparison capabilities |
title_short | antiSMASH 6.0: improving cluster detection and comparison capabilities |
title_sort | antismash 6.0: improving cluster detection and comparison capabilities |
topic | Web Server Issue |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8262755/ https://www.ncbi.nlm.nih.gov/pubmed/33978755 http://dx.doi.org/10.1093/nar/gkab335 |
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