ArticleNature communications2025
Universal, untargeted detection of bacteria in tissues using metabolomics workflows.
Article in Nature communications, 2025. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 13 papers.
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Who cites it
13 citing papers in PubMed.
- Decoding the cancer microbiome: multi-omics, AI, and translational opportunities.Genome biology · 2026Review
- Microbial Signals in Cancer: Dissecting Host-Microbiota-Tumor Interactions and Potential Therapeutic Strategy.MedComm · 2026Review
- Mass spectrometry imaging reveals different allocation of the starting steps of benzalkonium biotransformation in wastewater biofilms.Communications engineering · 2026Article
- Decoding Biothreats With FT-ICR-MS: Metabotyping of Bacillus cereus Spores Through Untargeted Metabolomics.Journal of mass spectrometry : JMS · 2026Article
- Rapid Identification of Infections Directly from Isolates and Clinical Specimens with the MasSpec Pen Technology.bioRxiv : the preprint server for biology · 2026Article
- Metabolomic characterization and temporal dynamics of Burkholderia cepacia for polyhydroxyalkanoates production from oleic acid.Metabolomics : Official journal of the Metabolomic Society · 2026Article
- Metabolism-Based Biomarkers for Rapid Phenotypic Antibiotic Susceptibility Testing.Advanced science (Weinheim, Baden-Wurttemberg, Germany) · 2026Review
- Untargeted metabolomics reveals organism specific biomarkers of carbapenem resistance in Klebsiella pneumoniae and Escherichia coli.NPJ systems biology and applications · 2026Article
- Small is big: growing impact of small molecule mass spectrometry in infectious disease drug development.mSphere · 2026Review
- Article
- Distinct systemic metabolic phenotypes associated with blood culture positivity and bacterial etiology in community-acquired pneumonia (CAP).Frontiers in cellular and infection microbiology · 2026Article
- From microbes to molecules: unveiling host-microbe interactions with spatial metabolomics.Molecular systems biology · 2025Article
- Microbiome in cancer metastasis: biological insights and emerging spatial omics methods.Frontiers in cellular and infection microbiology · 2025Review
Corrections and comments
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Authors and funding
15 authors.
Funding
Abstract
Fast and reliable identification of bacteria directly in clinical samples is a critical factor in clinical microbiological diagnostics. Current approaches require time-consuming bacterial isolation and enrichment procedures, delaying stratified treatment. Here, we describe a biomarker-based strategy that utilises bacterial small molecular metabolites and lipids for direct detection of bacteria in complex samples using mass spectrometry (MS). A spectral metabolic library of 233 bacterial species is mined for markers showing specificity at different phylogenetic levels. Using a univariate statistical analysis method, we determine 359 so-called taxon-specific markers (TSMs). We apply these TSMs to the in situ detection of bacteria using healthy and cancerous gastrointestinal tissues as well as faecal samples. To demonstrate the MS method-agnostic nature, samples are analysed using spatial metabolomics and traditional bulk-based metabolomics approaches. In this work, TSMs are found in >90% of samples, suggesting the general applicability of this workflow to detect bacterial presence with standard MS-based analytical methods.
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