ArticleSynthetic and systems biotechnology2022
Pangenome analysis of Enterobacteria reveals richness of secondary metabolite gene clusters and their associated gene sets.
Article in Synthetic and systems biotechnology, 2022. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 20 papers.
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Who cites it
20 citing papers in PubMed, 29 citations in OpenAlex.
- Article
- Epistasis and co-adaptation in bacterial genome evolution.Nature reviews. Genetics · 2026Review
- Pangenome-based network analysis of Acinetobacter baumannii reveals the landscape of conserved therapeutic targets.Molecular diversity · 2026Article
- Hidden in the Pangenome? Machine Learning-Driven Discovery of Antimicrobial Potential inBioinformatics and biology insights · 2026Article
- PGAP2: A comprehensive toolkit for prokaryotic pan-genome analysis based on fine-grained feature networks.Nature communications · 2025Article
- Gene-level analysis of core carbohydrate metabolism across the Enterobacteriaceae pan-genome.Communications biology · 2025Article
- Pangenome Analysis of the Plant Pathogen Pseudomonas syringae Reveals Unique Natural Products for Niche Adaptation.Angewandte Chemie (International ed. in English) · 2025Article
- Context matters: assessing the impacts of genomic background and ecology on microbial biosynthetic gene cluster evolution.mSystems · 2025Review
- Pangenome mining of the Streptomyces genus redefines species' biosynthetic potential.Genome biology · 2025Article
- PanBGC: a pangenome-inspired framework for comparative analysis of biosynthetic gene clusters.ISME communications · 2025Article
- Antibiotic production by soil bacteria under aerobic and micro-oxic conditions.microPublication biology · 2025Article
- Genome mining of metabolic gene clusters in the Rubiaceae family.Computational and structural biotechnology journal · 2024Article
- Investigating the genomic and metabolic abilities of PGPR Pseudomonas fluorescens in promoting plant growth and fire blight management.Molecular genetics and genomics : MGG · 2024Article
- ExploringMolecules (Basel, Switzerland) · 2024Review
- BGCFlow: systematic pangenome workflow for the analysis of biosynthetic gene clusters across large genomic datasets.Nucleic acids research · 2024Article
- Genome mining reveals novel biosynthetic gene clusters in entomopathogenic bacteria.Scientific reports · 2023Article
- Herbicolin A production and its modulation by quorum sensing in a Pantoea agglomerans rhizobacterium bioactive against a broad spectrum of plant-pathogenic fungi.Microbial biotechnology · 2023Article
- Review
- Article
- Phylogenetic Distribution of Secondary Metabolites in the Bacillus subtilis Species Complex.mSystems · 2021Article
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Authors and funding
5 authors at 2 institutions in 2 countries.
Funding
No grant is acknowledged in the PubMed record.
Abstract
In silico genome mining provides easy access to secondary metabolite biosynthetic gene clusters (BGCs) encoding the biosynthesis of many bioactive compounds, which are the basis for many important drugs used in human medicine. However, the association between BGCs and other functions encoded in the genomes of producers have remained elusive. Here, we present a systems biology workflow that integrates genome mining with a detailed pangenome analysis for detecting genes associated with a particular BGC. We analyzed 3,889 enterobacterial genomes and found 13,266 BGCs, represented by 252 distinct BGC families and 347 additional singletons. A pangenome analysis revealed 88 genes putatively associated with a specific BGC coding for the colon cancer-related colibactin that code for diverse metabolic and regulatory functions
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