MIBiG 2.0: a repository for biosynthetic gene clusters of known function
| Autor: | Samuel C. Epstein, Ashley C. Sisto, Tilmann Weber, Victòria Pascal Andreu, Jorge C. Navarro-Muñoz, George Lund, Justin J. J. van der Hooft, Louise K. Charkoudian, Kai Blin, Jérôme Collemare, Mohammad Alanjary, Nelly Selem-Mojica, Marnix H. Medema, Vittorio Tracanna, Barbara R. Terlouw, Satria A. Kautsar, Simon Shaw, Hernando G. Suarez Duran, Serina L. Robinson, Jeffrey A. van Santen, Roger G. Linington |
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| Přispěvatelé: | Westerdijk Fungal Biodiversity Institute, Westerdijk Fungal Biodiversity Institute - Fungal Natural Products |
| Rok vydání: | 2019 |
| Předmět: |
Bioinformatics
Biology Set (abstract data type) 03 medical and health sciences Annotation User experience design Databases Genetic Bioinformatica Genetics Database Issue Life Science 030304 developmental biology 0303 health sciences Information retrieval Data curation 030306 microbiology business.industry Database schema Molecular Sequence Annotation Genomics Biosynthetic Pathways Schema (genetic algorithms) Data Standard Multigene Family business Genome Bacterial Software |
| Zdroj: | Nucleic Acids Research. Oxford University Press Kautsar, S A, Blin, K, Shaw, S, Navarro-Muñoz, J C, Terlouw, B R, van der Hooft, J J J, van Santen, J A, Tracanna, V, Suarez Duran, H G, Pascal Andreu, V, Selem-Mojica, N, Alanjary, M, Robinson, S L, Lund, G, Epstein, S C, Sisto, A C, Charkoudian, L K, Collemare, J, Linington, R G, Weber, T & Medema, M H 2020, ' MIBiG 2.0: a repository for biosynthetic gene clusters of known function ', Nucleic Acids Research, vol. 48, pp. D454–D458 . https://doi.org/10.1093/nar/gkz882 Nucleic acids research, 48(D1), D454-D458 Nucleic acids research 48 (2020) D1 Nucleic Acids Research |
| ISSN: | 1362-4962 0305-1048 |
| DOI: | 10.1093/nar/gkz882 |
| Popis: | Fueled by the explosion of (meta)genomic data, genome mining of specialized metabolites has become a major technology for drug discovery and studying microbiome ecology. In these efforts, computational tools like antiSMASH have played a central role through the analysis of Biosynthetic Gene Clusters (BGCs). Thousands of candidate BGCs from microbial genomes have been identified and stored in public databases. Interpreting the function and novelty of these predicted BGCs requires comparison with a well-documented set of BGCs of known function. The MIBiG (Minimum Information about a Biosynthetic Gene Cluster) Data Standard and Repository was established in 2015 to enable curation and storage of known BGCs. Here, we present MIBiG 2.0, which encompasses major updates to the schema, the data, and the online repository itself. Over the past five years, 851 new BGCs have been added. Additionally, we performed extensive manual data curation of all entries to improve the annotation quality of our repository. We also redesigned the data schema to ensure the compliance of future annotations. Finally, we improved the user experience by adding new features such as query searches and a statistics page, and enabled direct link-outs to chemical structure databases. The repository is accessible online at https://mibig.secondarymetabolites.org/. |
| Databáze: | OpenAIRE |
| Externí odkaz: |
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