ArticleJournal of natural products2019
Minimizing Taxonomic and Natural Product Redundancy in Microbial Libraries Using MALDI-TOF MS and the Bioinformatics Pipeline IDBac.
Article in Journal of natural products, 2019. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 19 papers.
What it found
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Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.
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Who cites it
19 citing papers in PubMed, 25 citations in OpenAlex.
- IDBac: an open-access web platform to identify bacteria and analyze relationships in culture collections using MALDI-TOF mass spectrometry.Nature communications · 2026Article
- Systematic Assessment of the Impact of Targeted Selection Methods and Environment-Mimicking Culture Conditions on Fungal Natural Product Libraries.Journal of natural products · 2026Article
- MALDI Tandem Mass Spectrometry for Colony-Based Dereplication of Natural Products.bioRxiv : the preprint server for biology · 2026Article
- Multiplexing antibiotic screening assay in droplet microfluidics.Scientific reports · 2026Article
- IDBac: an open-access web platform and compendium for the identification of bacteria by MALDI-TOF mass spectrometry.bioRxiv : the preprint server for biology · 2025Article
- Article
- Use of MALDI-TOF mass spectrometry and IDBac to mine for understudied bacterial genera from the environment.ISME communications · 2025Article
- Discovery of New Cyclic Lipodepsipeptide Orfamide N via Partnership with Middle School Students from the Boys and Girls Club.ACS omega · 2024Article
- Rationally Minimizing Natural Product Libraries Using Mass Spectrometry.bioRxiv : the preprint server for biology · 2024Article
- Discovery of a New Antibiotic Demethoxytetronasin Using a Dual-Sided Agar Plate Assay (DAPA).ACS infectious diseases · 2023Article
- Article
- Classification of Environmental Strains from Order to Genus Levels Using Lipid and Protein MALDI-ToF Fingerprintings and Chemotaxonomic Network Analysis.Microorganisms · 2022Article
- Automated Microbial Library Generation Using the Bioinformatics Platform IDBac.Molecules (Basel, Switzerland) · 2022Article
- Relationship between bacterial phylotype and specialized metabolite production in the culturable microbiome of two freshwater sponges.ISME communications · 2022Article
- Metabolomics on the study of marine organisms.Metabolomics : Official journal of the Metabolomic Society · 2022Review
- Building Natural Product Libraries Using Quantitative Clade-Based and Chemical Clustering Strategies.mSystems · 2021Article
- The need to innovate sample collection and library generation in microbial drug discovery: a focus on academia.Natural product reports · 2021Article
- Article
- Editorial: MALDI-TOF MS Application in Microbial Ecology Studies.Frontiers in microbiology · 2019Article
Corrections and comments
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Authors and funding
5 authors at 2 institutions in 2 countries.
Funding
Abstract
Libraries of microorganisms have been a cornerstone of drug discovery efforts since the mid-1950s, but strain duplication in some libraries has resulted in unwanted natural product redundancy. In the current study, we implemented a workflow that minimizes both the natural product overlap and the total number of bacterial isolates in a library. Using a collection expedition to Iceland as an example, we purified every distinct bacterial colony off isolation plates derived from 86 environmental samples. We employed our mass spectrometry (MS)-based IDBac workflow on these isolates to form groups of taxa based on protein MS fingerprints (3-15 kDa) and further distinguished taxa subgroups based on their degree of overlap within corresponding natural product spectra (0.2-2 kDa). This informed the decision to create a library of 301 isolates spanning 54 genera. This process required only 25 h of data acquisition and 2 h of analysis. In a separate experiment, we reduced the size of an existing library based on the degree of metabolic overlap observed in natural product MS spectra of bacterial colonies (from 833 to 233 isolates, a 72.0% size reduction). Overall, our pipeline allows for a significant reduction in costs associated with library generation and minimizes natural product redundancy entering into downstream biological screening efforts.
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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.