Reagent and tools table
| Reagent/resource | Reference or source | Identifier or catalogue number |
|---|---|---|
| Experimental models | ||
| Clostridium sporogenes | DSMZ | DSM 1664 |
| Escherichia coli | Denamur Lab, INSERM | IAI1 |
| Klebsiella aerogenes | DSMZ | DSM 30053 |
| Ruminococcus gnavus | DSMZ | DSM 108212 |
| Chemicals, enzymes and other reagents | ||
| Modified Gifu anaerobic medium (mGAM) | Nissui Pharmaceuticals (sold by HyServe, Germany) | 1005433-001 |
| Clear untreated sterile 96-well polystyrene plates, u-bottom | Corning | 3795 |
| Pharmaceutical drug library | Prestwick Chemical Libraries | Dataset EV2 |
| Pesticide library | EMBL Chemical Biology core facility | Dataset EV2 |
| Industrial chemicals library | Lindell et al, 2024 | Dataset EV2 |
| Sweeteners library | Blasche et al, 2025 | Dataset EV2 |
| Ampicillin | Sigma-Aldrich/Merck | A9518 |
| Cefixime | Cayman Chemical Company | 17176 |
| Ceftazidime | MedChemExpress | HY-B0593/CS-2810 |
| Levofloxacin | Cayman Chemical Company | 20382 |
| Tetracycline | Sigma-Aldrich/Merck | 87128 |
| Paroxetine | TargetMOI | T1636L |
| Didanosine | Cayman Chemical Company | 23715 |
| Fenazaflor | Sigma-Aldrich/Merck | 36504 |
| Acetonitrile | VWR | 83640.320 |
| Methanol | VWR | 83638.320 |
| Formic acid | Fisher | A117-50 |
| Ammonium formate | VWR | 84884.180 |
| Caffeine | Fluka | 56396 |
| Amoxicillin | Sigma-Aldrich/Merck | A8523 |
| Putrescine | MetaSci | Complete Metabolite Library |
| Cadaverine | Sigma-Aldrich/Merck | C8561-1G |
| Histamine | MetaSci | Complete Metabolite Library |
| Tryptamine | MetaSci | Complete Metabolite Library |
| 2-Phenylethylamine | MetaSci | Complete Metabolite Library |
| Software | ||
| MassHunter Workstation | Agilent | v10.1 |
| SkanIt Microplate Reader Software | ThermoFischer | v 6.1.1 |
| Python | v 3.11.5 | |
| pandas package | McKinney, 2010 | v. 2.2.0 |
| scipy package | Virtanen et al, 2020 | v. 1.11.3 |
| numpy package | Harris et al, 2020 | v. 1.26.0 |
| scikit-learn package | Pedregosa et al, 2012 | v. 1.3.2 |
| matplotlib package | Hunter, 2007 | v. 3.8.0 |
| seaborn package | Waskom, 2021 | v. 0.13.1 |
| Other | ||
| Analytical column: ACQUITY BEH Amide 1.7 μm, 2.1 × 50 mm | Waters | 186009504 |
| Analytical column: InfinityLab Poroshell 120 EC-C18 1.9 μm, 2.1 × 50 mm | Agilent | 699675-902 |
| Triple-quadrupole mass spectrometer | Agilent | 6470 |
| Ultra-high performance liquid chromatography instrument | Agilent | 1290 Infinity II |
| Biomek Automated Workstation | Beckman Coulter | i7 |
| Microplate reader | ThermoFisher | Multiskan FC, 51119100 |