ArticleNature chemical biology2016
Polyketide and nonribosomal peptide retro-biosynthesis and global gene cluster matching.
Article in Nature chemical biology, 2016. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 61 papers.
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Who cites it
61 citing papers in PubMed.
- Natural Product-Inspired Antifungal Drugs Introduced for Human Use from 1872 to August 2026.Antibiotics (Basel, Switzerland) · 2026Review
- An integrative chemical and genomic similarity approach linking fungal secondary metabolites and biosynthetic gene clusters.Organic & biomolecular chemistry · 2026Article
- Sequence modeling tools to decode the biosynthetic diversity of the human microbiome.mSystems · 2025Review
- Merging the computational design of chimeric type I polyketide synthases with enzymatic pathways for chemical biosynthesis.Nature communications · 2025Article
- Mining metagenomic data to gain a new insight into the gut microbial biosynthetic potential in placental mammals.Microbiology spectrum · 2024Article
- Integrated Human Skin Bacteria Genome Catalog Reveals Extensive Unexplored Habitat-Specific Microbiome Diversity and Function.Advanced science (Weinheim, Baden-Wurttemberg, Germany) · 2023Article
- The Cytotoxic Properties of Extreme Fungi's Bioactive Components-An Updated Metabolic and Omics Overview.Life (Basel, Switzerland) · 2023Review
- Mining metagenomes reveals diverse antibiotic biosynthetic genes in uncultured microbial communities.Brazilian journal of microbiology : [publication of the Brazilian Society for Microbiology] · 2023Article
- Structure Elucidation and Biosynthesis of Nannosterols A and B, Myxobacterial Sterols fromJournal of natural products · 2023Article
- Expanding Extender Substrate Selection for Unnatural Polyketide Biosynthesis by Acyltransferase Domain Exchange within a Modular Polyketide Synthase.Journal of the American Chemical Society · 2023Article
- NPOmix: A machine learning classifier to connect mass spectrometry fragmentation data to biosynthetic gene clusters.PNAS nexus · 2022Article
- Strategies to access biosynthetic novelty in bacterial genomes for drug discovery.Nature reviews. Drug discovery · 2022Review
- Review ofInfection and drug resistance · 2022Review
- BioCAT: Search for biosynthetic gene clusters producing nonribosomal peptides with known structure.Computational and structural biotechnology journal · 2022Article
- Underexplored bacteria as reservoirs of novel antimicrobial lipopeptides.Frontiers in chemistry · 2022Review
- Navigating and expanding the roadmap of natural product genome mining tools.Beilstein journal of organic chemistry · 2022Article
- Nerpa: A Tool for Discovering Biosynthetic Gene Clusters of Bacterial Nonribosomal Peptides.Metabolites · 2021Article
- Mining genomes to illuminate the specialized chemistry of life.Nature reviews. Genetics · 2021Review
- Antimicrobial Activity and Functional Genes of Actinobacteria from Coastal Wetland.Current microbiology · 2021Article
- Sterol Sponge Mechanism Is Conserved for Glycosylated Polyene Macrolides.ACS central science · 2021Article
1 more citing papers are in PubMed but not listed here.
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Authors and funding
9 authors.
Funding
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Abstract
Polyketides (PKs) and nonribosomal peptides (NRPs) are profoundly important natural products, forming the foundations of many therapeutic regimes. Decades of research have revealed over 11,000 PK and NRP structures, and genome sequencing is uncovering new PK and NRP gene clusters at an unprecedented rate. However, only ∼10% of PK and NRPs are currently associated with gene clusters, and it is unclear how many of these orphan gene clusters encode previously isolated molecules. Therefore, to efficiently guide the discovery of new molecules, we must first systematically de-orphan emergent gene clusters from genomes. Here we provide to our knowledge the first comprehensive retro-biosynthetic program, generalized retro-biosynthetic assembly prediction engine (GRAPE), for PK and NRP families and introduce a computational pipeline, global alignment for natural products cheminformatics (GARLIC), to uncover how observed biosynthetic gene clusters relate to known molecules, leading to the identification of gene clusters that encode new molecules.
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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.