The antiSMASH database, a comprehensive database of microbial secondary metabolite biosynthetic gene clusters

Kai Blin; Marnix H. Medema; Renzo Kottmann; Sang Yup Lee; Tilmann Weber

doi:10.1093/nar/gkw960

The antiSMASH database, a comprehensive database of microbial secondary metabolite biosynthetic gene clusters

Kai Blin, Marnix H. Medema, Renzo Kottmann, Sang Yup Lee, Tilmann Weber

Novo Nordisk Foundation Center for Biosustainability

Research output: Contribution to journal › Journal article › Research › peer-review

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Abstract

Secondary metabolites produced by microorganisms are the main source of bioactive compounds that are in use as antimicrobial and anticancer drugs, fungicides, herbicides and pesticides. In the last decade, the increasing availability of microbial genomes has established genome mining as a very important method for the identification of their biosynthetic gene clusters (BGCs). One of the most popular tools for this task is antiSMASH. However, so far, antiSMASH is limited to de novo computing results for user-submitted genomes and only partially connects these with BGCs from other organisms. Therefore, we developed the antiSMASH database, a simple but highly useful new resource to browse antiSMASH-annotated BGCs in the currently 3907 bacterial genomes in the database and perform advanced search queries combining multiple search criteria. antiSMASH-DB is available at http://antismash-db.secondarymetabolites.org/.

Original language	English
Journal	Nucleic Acids Research
Volume	45
Issue number	D1
Pages (from-to)	D555-D559
Number of pages	5
ISSN	0305-1048
DOIs	https://doi.org/10.1093/nar/gkw960
Publication status	Published - 2017

Bibliographical note

This is an Open Access article distributed under the terms of the Creative Commons Attribution License (http://creativecommons.org/licenses/by/4.0/), which permits unrestricted reuse, distribution, and reproduction in any medium, provided the original work is properly cited.

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10.1093/nar/gkw960

2017 Blin The antiSMASH database NARFinal published version, 1.33 MB

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1 Participating in or organising a conference
1 Conference presentations

The next generation of 'omics-based natural products discovery
Weber, T. (Invited speaker)
20 Jan 2017
Activity: Talks and presentations › Conference presentations
3rd antiSMASH Hackathon
Weber, T. (Organizer)
8 Nov 2016 → 9 Nov 2016
Activity: Attending an event › Participating in or organising a conference

Cite this

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title = "The antiSMASH database, a comprehensive database of microbial secondary metabolite biosynthetic gene clusters",

abstract = "Secondary metabolites produced by microorganisms are the main source of bioactive compounds that are in use as antimicrobial and anticancer drugs, fungicides, herbicides and pesticides. In the last decade, the increasing availability of microbial genomes has established genome mining as a very important method for the identification of their biosynthetic gene clusters (BGCs). One of the most popular tools for this task is antiSMASH. However, so far, antiSMASH is limited to de novo computing results for user-submitted genomes and only partially connects these with BGCs from other organisms. Therefore, we developed the antiSMASH database, a simple but highly useful new resource to browse antiSMASH-annotated BGCs in the currently 3907 bacterial genomes in the database and perform advanced search queries combining multiple search criteria. antiSMASH-DB is available at http://antismash-db.secondarymetabolites.org/.",

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AB - Secondary metabolites produced by microorganisms are the main source of bioactive compounds that are in use as antimicrobial and anticancer drugs, fungicides, herbicides and pesticides. In the last decade, the increasing availability of microbial genomes has established genome mining as a very important method for the identification of their biosynthetic gene clusters (BGCs). One of the most popular tools for this task is antiSMASH. However, so far, antiSMASH is limited to de novo computing results for user-submitted genomes and only partially connects these with BGCs from other organisms. Therefore, we developed the antiSMASH database, a simple but highly useful new resource to browse antiSMASH-annotated BGCs in the currently 3907 bacterial genomes in the database and perform advanced search queries combining multiple search criteria. antiSMASH-DB is available at http://antismash-db.secondarymetabolites.org/.

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The antiSMASH database, a comprehensive database of microbial secondary metabolite biosynthetic gene clusters

Abstract

Bibliographical note

Access to Document

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Activities

The next generation of 'omics-based natural products discovery

3rd antiSMASH Hackathon

Cite this