ArticleNucleic acids research2017
IMG-ABC: new features for bacterial secondary metabolism analysis and targeted biosynthetic gene cluster discovery in thousands of microbial genomes.
Article in Nucleic acids research, 2017. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 38 papers.
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38 citing papers in PubMed, 95 citations in OpenAlex.
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- ABC-HuMi: the Atlas of Biosynthetic Gene Clusters in the Human Microbiome.Nucleic acids research · 2024Article
- HypoRiPPAtlas as an Atlas of hypothetical natural products for mass spectrometry database search.Nature communications · 2023Article
- CAGECAT: The CompArative GEne Cluster Analysis Toolbox for rapid search and visualisation of homologous gene clusters.BMC bioinformatics · 2023Article
- The IMG/M data management and analysis system v.7: content updates and new features.Nucleic acids research · 2023Article
- Targeted Large-Scale Genome Mining and Candidate Prioritization for Natural Product Discovery.Marine drugs · 2022Review
- Fungal secondary metabolites in food and pharmaceuticals in the era of multi-omics.Applied microbiology and biotechnology · 2022Review
- Diversity and bioprospecting for industrial hydrolytic enzymes of microbial communities isolated from deserted areas of south-east Morocco.AIMS microbiology · 2022Article
- Genome mining for drug discovery: progress at the front end.Journal of industrial microbiology & biotechnology · 2021Review
- Phylogenetic analysis of the salinipostin γ-butyrolactone gene cluster uncovers new potential for bacterial signalling-molecule diversity.Microbial genomics · 2021Article
- Recent Advances in Discovery of Lead Structures from Microbial Natural Products: Genomics- and Metabolomics-Guided Acceleration.Molecules (Basel, Switzerland) · 2021Review
- Antibiotic resistance: Global health crisis and metagenomics.Biotechnology reports (Amsterdam, Netherlands) · 2021Article
- The IMG/M data management and analysis system v.6.0: new tools and advanced capabilities.Nucleic acids research · 2021Article
- New developments in RiPP discovery, enzymology and engineering.Natural product reports · 2021Review
- Deep learning approaches for natural product discovery from plant endophytic microbiomes.Environmental microbiome · 2021Review
- Expansion of Gamma-Butyrolactone Signaling Molecule Biosynthesis to Phosphotriester Natural Products.ACS chemical biology · 2020Article
Corrections and comments
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Authors and funding
10 authors at 2 institutions in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Secondary metabolites produced by microbes have diverse biological functions, which makes them a great potential source of biotechnologically relevant compounds with antimicrobial, anti-cancer and other activities. The proteins needed to synthesize these natural products are often encoded by clusters of co-located genes called biosynthetic gene clusters (BCs). In order to advance the exploration of microbial secondary metabolism, we developed the largest publically available database of experimentally verified and predicted BCs, the Integrated Microbial Genomes Atlas of Biosynthetic gene Clusters (IMG-ABC) (https://img.jgi.doe.gov/abc/). Here, we describe an update of IMG-ABC, which includes ClusterScout, a tool for targeted identification of custom biosynthetic gene clusters across 40 000 isolate microbial genomes, and a new search capability to query more than 700 000 BCs from isolate genomes for clusters with similar Pfam composition. Additional features enable fast exploration and analysis of BCs through two new interactive visualization features, a BC function heatmap and a BC similarity network graph. These new tools and features add to the value of IMG-ABC's vast body of BC data, facilitating their in-depth analysis and accelerating secondary metabolite discovery.
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Registered trials
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.