ARTS-DB: a database for antibiotic resistant targets

Abstract As a result of the continuous evolution of drug resistant bacteria, new antibiotics are urgently needed. Encoded by biosynthetic gene clusters (BGCs), antibiotic compounds are mostly produced by bacteria. With the exponential increase in the number of publicly available, sequenced genomes a...

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Bibliographic Details
Published in:Nucleic acids research 2022-01, Vol.50 (D1), p.D736-D740
Main Authors: Mungan, Mehmet Direnç, Blin, Kai, Ziemert, Nadine
Format: Article
Language:English
Subjects:
Anti-Bacterial Agents
Bacteria - drug effects
Bacteria - genetics
Biosynthetic Pathways - drug effects
Biosynthetic Pathways - genetics
Database Issue
Databases, Factual
Drug Resistance, Bacterial - genetics
Gene Transfer, Horizontal - genetics
Genome, Bacterial
Metagenome - genetics
Software
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Summary:Abstract As a result of the continuous evolution of drug resistant bacteria, new antibiotics are urgently needed. Encoded by biosynthetic gene clusters (BGCs), antibiotic compounds are mostly produced by bacteria. With the exponential increase in the number of publicly available, sequenced genomes and the advancements of BGC prediction tools, genome mining algorithms have uncovered millions of uncharacterized BGCs for further evaluation. Since compound identification and characterization remain bottlenecks, a major challenge is prioritizing promising BGCs. Recently, researchers adopted self-resistance based strategies allowing them to predict the biological activities of natural products encoded by uncharacterized BGCs. Since 2017, the Antibiotic Resistant Target Seeker (ARTS) facilitated this so-called target-directed genome mining (TDGM) approach for the prioritization of BGCs encoding potentially novel antibiotics. Here, we present the ARTS database, available at https://arts-db.ziemertlab.com/. The ARTS database provides pre-computed ARTS results for >70,000 genomes and metagenome assembled genomes in total. Advanced search queries allow users to rapidly explore the fundamental criteria of TDGM such as BGC proximity, duplication and horizontal gene transfers of essential housekeeping genes. Furthermore, the ARTS database provides results interconnected throughout the bacterial kingdom as well as links to known databases in natural product research.
ISSN:0305-1048
1362-4962
DOI:10.1093/nar/gkab940