antiSMASH 3.0-a comprehensive resource for the genome mining of biosynthetic gene clusters

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Microbial secondary metabolism constitutes a rich source of antibiotics, chemotherapeutics, insecticides and other high-value chemicals. Genome mining of gene clusters that encode the biosynthetic pathways for these metabolites has become a key methodology for novel compound discovery. In 2011, we introduced antiSMASH, a web server and standalone tool for the automatic genomic identification and analysis of biosynthetic gene clusters, available at http://antismash.secondarymetabolites.org. Here, we present version 3.0 of antiSMASH, which has undergone major improvements. A full integration of the recently published ClusterFinder algorithm now allows using this probabilistic algorithm to detect putative gene clusters of unknown types. Also, a new dereplication variant of the ClusterBlast module now identifies similarities of identified clusters to any of 1172 clusters with known end products. At the enzyme level, active sites of key biosynthetic enzymes are now pinpointed through a curated patternmatching procedure and Enzyme Commission numbers are assigned to functionally classify all enzymecoding genes. Additionally, chemical structure prediction has been improved by incorporating polyketide reduction states. Finally, in order for users to be able to organize and analyze multiple antiSMASH outputs in a private setting, a new XML output module allows offline editing of antiSMASH annotations within the Geneious software.
Publisher
OXFORD UNIV PRESS
Issue Date
2015-07
Language
English
Article Type
Article
Citation

NUCLEIC ACIDS RESEARCH, v.43, no.W1, pp.W237 - W243

ISSN
0305-1048
DOI
10.1093/nar/gkv437
URI
http://hdl.handle.net/10203/204002
Appears in Collection
CBE-Journal Papers(저널논문)
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