ArticleChemistry & biology2015
Molecular networking and pattern-based genome mining improves discovery of biosynthetic gene clusters and their products from Salinispora species.
Article in Chemistry & biology, 2015. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 95 papers.
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95 citing papers in PubMed, 189 citations in OpenAlex.
- Structural determination of natural products at speeds and scale of high-throughput screening.Natural product reports · 2026Review
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- Taxonomic and biosynthetic diversity of the marine actinomyceteApplied and environmental microbiology · 2026Article
- Salinirifamycins A-E: Rifamycin S Derivatives from the Brazilian Marine ActinomyceteJournal of natural products · 2026Article
- NRPS and PKS pathways in actinomycetes: A review of biosynthetic diversity and bioactive potential.Current research in pharmacology and drug discovery · 2026Review
- Genome-guided discovery and computational prioritization of next generation drug development fromFrontiers in microbiology · 2026Article
- Phylogeny-Aware Metabologenomics Accurately Assigns Natural Products to Biosynthetic Gene Clusters.Microbial biotechnology · 2026Article
- Unveiling the genomes and secondary metabolomes ofFrontiers in microbiology · 2026Article
- Breaking into nature's secret medicine cabinet: lichens - a biochemical goldmine ready for discovery.The New phytologist · 2025Review
- Context matters: assessing the impacts of genomic background and ecology on microbial biosynthetic gene cluster evolution.mSystems · 2025Review
- Structure Elucidation, Biosynthetic Gene Cluster Distribution, and Biological Activities of Ketomemicin Analogs inMarine drugs · 2025Article
- Integrative metabolo-genomics suggests a biosynthetic pathway for tetrangulol in Streptomyces sp. KL110A.World journal of microbiology & biotechnology · 2025Article
- Last Decade Insights in Exploiting Marine Microorganisms as Sources of New Bioactive Natural Products.Marine drugs · 2025Review
- Extraction, Isolation, and Structural Elucidation of Acylated Triterpene Saponins from Asteraceae Family.Methods in molecular biology (Clifton, N.J.) · 2025Article
- Pattern-Based Genome Mining Guides Discovery of the Antibiotic Indanopyrrole A from a Marine Streptomycete.Journal of natural products · 2024Article
- Structure elucidation, biosynthetic gene cluster distribution, and biological activities of ketomemicin analogs inbioRxiv : the preprint server for biology · 2024Article
- Pattern-based genome mining guides discovery of the antibiotic indanopyrrole A from a marine streptomycetef.bioRxiv : the preprint server for biology · 2024Article
- Exploring the secrets of marine microorganisms: Unveiling secondary metabolites through metagenomics.Microbial biotechnology · 2024Review
- Article
- Exploring the Potential of Halotolerant Actinomycetes from Rann of Kutch, India: A Study on the Synthesis, Characterization, and Biomedical Applications of Silver Nanoparticles.Pharmaceuticals (Basel, Switzerland) · 2024Article
35 more citing papers are in PubMed but not listed here.
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Authors and funding
11 authors at 2 institutions in 1 country.
Funding
Abstract
Genome sequencing has revealed that bacteria contain many more biosynthetic gene clusters than predicted based on the number of secondary metabolites discovered to date. While this biosynthetic reservoir has fostered interest in new tools for natural product discovery, there remains a gap between gene cluster detection and compound discovery. Here we apply molecular networking and the new concept of pattern-based genome mining to 35 Salinispora strains, including 30 for which draft genome sequences were either available or obtained for this study. The results provide a method to simultaneously compare large numbers of complex microbial extracts, which facilitated the identification of media components, known compounds and their derivatives, and new compounds that could be prioritized for structure elucidation. These efforts revealed considerable metabolite diversity and led to several molecular family-gene cluster pairings, of which the quinomycin-type depsipeptide retimycin A was characterized and linked to gene cluster NRPS40 using pattern-based bioinformatic approaches.
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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.