ArticleBriefings in bioinformatics2019
Recent development of antiSMASH and other computational approaches to mine secondary metabolite biosynthetic gene clusters.
Article in Briefings in bioinformatics, 2019. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 98 papers.
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98 citing papers in PubMed, 200 citations in OpenAlex.
- Gut-protective metabolic phenotype for diarrhoeal remission caused by an environmental probiotic thermophile.Microbiome · 2026Article
- Fine-grained structural classification of biosynthetic gene cluster-encoded products.Bioinformatics (Oxford, England) · 2026Article
- Biosynthetic gene clusters inmSystems · 2026Article
- Advances in tools, strategies, and applications of mining of microbial genomes for novel antimicrobials: a comprehensive review.Folia microbiologica · 2026Review
- Genomic and chemical analyses of 713 marine biofilm-derived bacterial strains.Applied and environmental microbiology · 2026Article
- Comparative genome analysis identifies necrosis-inducing effectors in the lentil pathogen Ascochyta lentis in isolates with distinct virulence profiles.BMC genomics · 2026Article
- Genomic-Driven Identification of Conserved Biosynthetic Gene Clusters inMetabolites · 2026Article
- The antiSMASH database version 5.Nucleic acids research · 2026Article
- Genomic insights into adaptative traits of phyllosphere yeasts.Environmental microbiome · 2026Article
- Polyketide synthase gene clusters in the ericoid mycorrhizal fungusFrontiers in plant science · 2026Article
- Exploring the potential of Bacillus spp. for secondary metabolite production through genome mining approaches.Journal, genetic engineering & biotechnology · 2025Article
- Genomic and Metabolomic Insights into Metabolites of aMarine drugs · 2025Article
- Next generation antimicrobial peptide disinfectant targeting biocide and vancomycin resistant staphylococcus aureus through integrated in Silico and in vitro validation.Scientific reports · 2025Article
- Genomic and Metabolomic Analysis of the Endophytic FungusAntibiotics (Basel, Switzerland) · 2025Article
- antiSMASH 8.0: extended gene cluster detection capabilities and analyses of chemistry, enzymology, and regulation.Nucleic acids research · 2025Article
- Gromomycins: An Unprecedented Class of Triterpene Antibiotics Produced by a Novel Biosynthetic Pathway.Angewandte Chemie (International ed. in English) · 2025Article
- Synthetic Biology in Natural Product Biosynthesis.Chemical reviews · 2025Review
- Exploring the microbial communities in coastal cenote and their hidden biotechnological potential.Microbial genomics · 2025Article
- Benchmarking metagenomic binning tools on real datasets across sequencing platforms and binning modes.Nature communications · 2025Article
- Article
38 more citing papers are in PubMed but not listed here.
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4 authors at 1 institution in 1 country.
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No grant is acknowledged in the PubMed record.
Abstract
Many drugs are derived from small molecules produced by microorganisms and plants, so-called natural products. Natural products have diverse chemical structures, but the biosynthetic pathways producing those compounds are often organized as biosynthetic gene clusters (BGCs) and follow a highly conserved biosynthetic logic. This allows for the identification of core biosynthetic enzymes using genome mining strategies that are based on the sequence similarity of the involved enzymes/genes. However, mining for a variety of BGCs quickly approaches a complexity level where manual analyses are no longer possible and require the use of automated genome mining pipelines, such as the antiSMASH software. In this review, we discuss the principles underlying the predictions of antiSMASH and other tools and provide practical advice for their application. Furthermore, we discuss important caveats such as rule-based BGC detection, sequence and annotation quality and cluster boundary prediction, which all have to be considered while planning for, performing and analyzing the results of genome mining studies.
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Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.