Overview
- External ontology
- MEDIADB:378 (source link unavailable) — 'Fermentation Medium (Glucose+Histidine
- Applications
-
- Cultivation of genome-sequenced organisms
- Metabolic modeling
- Systems biology research
- Notes
- Source: MediaDB (Chemically-defined media for genome-sequenced organisms) Reference: https://mediadb.systemsbiology.net/
Composition
flowchart LR
CultureMech_007281["fermentation_medium_glucose_histidine"]
ing0_Riboflavin["Riboflavin"]
CultureMech_007281 --> ing0_Riboflavin
CHEBI_17015["CHEBI:17015"]
ing0_Riboflavin -.-> CHEBI_17015
ing1_Histidine["Histidine"]
CultureMech_007281 --> ing1_Histidine
CHEBI_27570["CHEBI:27570"]
ing1_Histidine -.-> CHEBI_27570
ing2_Nicotinate["Nicotinate"]
CultureMech_007281 --> ing2_Nicotinate
CHEBI_15940["CHEBI:15940"]
ing2_Nicotinate -.-> CHEBI_15940
ing3_Potassium_dihydrogen_phosphate["Potassium dihydrogen phosphate"]
CultureMech_007281 --> ing3_Potassium_dihydrogen_phosphate
CHEBI_63036["CHEBI:63036"]
ing3_Potassium_dihydrogen_phosphate -.-> CHEBI_63036
ing4_Glucose["Glucose"]
CultureMech_007281 --> ing4_Glucose
CHEBI_17234["CHEBI:17234"]
ing4_Glucose -.-> CHEBI_17234
ing5_Biotin["Biotin"]
CultureMech_007281 --> ing5_Biotin
CHEBI_15956["CHEBI:15956"]
ing5_Biotin -.-> CHEBI_15956
ing6_Thiamine_HCl["Thiamine HCl"]
CultureMech_007281 --> ing6_Thiamine_HCl
CHEBI_49105["CHEBI:49105"]
ing6_Thiamine_HCl -.-> CHEBI_49105
ing7_Pyridoxine_HCl["Pyridoxine HCl"]
CultureMech_007281 --> ing7_Pyridoxine_HCl
CHEBI_30961["CHEBI:30961"]
ing7_Pyridoxine_HCl -.-> CHEBI_30961
ing8_Magnesium_sulfate["Magnesium sulfate"]
CultureMech_007281 --> ing8_Magnesium_sulfate
CHEBI_32599["CHEBI:32599"]
ing8_Magnesium_sulfate -.-> CHEBI_32599
Ingredients (9)
| # | Ingredient | Concentration | Ontology | Notes |
|---|---|---|---|---|
| 1 |
Riboflavin
C17H20N4O6 376.369 g/mol
|
0.0003986 MILLIMOLAR |
CHEBI:17015
riboflavin
|
Cross-references: KEGG:ribflv |
| 2 |
Histidine
C6H9N3O2 155.157 g/mol
|
130.9 MILLIMOLAR |
CHEBI:27570
histidine
|
|
| 3 |
Nicotinate
C6H5NO2 123.111 g/mol
|
0.09747 MILLIMOLAR |
CHEBI:15940
nicotinic acid
|
Cross-references: KEGG:nac |
| 4 |
Potassium dihydrogen phosphate
H2O4P.K 136.084 g/mol
|
36.74 MILLIMOLAR |
CHEBI:63036
potassium dihydrogen phosphate
|
|
| 5 |
Glucose
C6H12O6 180.156 g/mol
|
111.0 MILLIMOLAR |
CHEBI:17234
glucose
|
|
| 6 |
Biotin
C10H16N2O3S 244.316 g/mol
|
0.0001228 MILLIMOLAR |
CHEBI:15956
biotin
|
Cross-references: KEGG:btn |
| 7 |
Thiamine HCl
C12H17N4OS.Cl.HCl 337.276 g/mol
|
0.0001334 MILLIMOLAR |
CHEBI:49105
thiamine hydrochloride
|
|
| 8 |
Pyridoxine HCl
C8H11NO3.HCl 205.641 g/mol
|
0.001459 MILLIMOLAR |
CHEBI:30961
pyridoxine hydrochloride
|
|
| 9 |
Magnesium sulfate
Mg.O4S 120.368 g/mol
|
3.246 MILLIMOLAR |
CHEBI:32599
magnesium sulfate
|
Preparation
- Dissolve all ingredients in distilled water to specified concentrations
- Adjust pH if specified in original formulation
- Sterilize by filtration (0.22 μm) to preserve heat-sensitive components
Target organisms
No target organisms are recorded.
Provenance
Merged from 1 source record.
- fermentation_medium_glucose_histidine (CultureMech:007281)
| Timestamp | Curator | Action | Notes |
|---|---|---|---|
| 2026-01-27T07:21:46.036540Z | mediadb-import | Imported from MediaDB | Source: MediaDB (Institute for Systems Biology), Medium ID: 378, Reference: Mazumdar et al. (2014) PLOS One |
| 2026-01-28T19:48:23.827110Z | chebi-enrichment | Added CHEBI ontology terms to ingredients | Enriched using MicrobeMediaParam and MediaDive chemical mappings |
| 2026-02-06T05:10:32.320092Z | invalid-chebi-removal | Removed 1 invalid CHEBI ID(s) | Removed CHEBI IDs with invalid format (7+ digits) from MicrobeMediaParam source data |
| 2026-03-13T06:19:47.376740Z | culturemech-id-assigner-v1.0 | Assigned CultureMech ID | Assigned stable identifier: CultureMech:007281 |
| 2026-03-17T06:30:15.000000Z | mediaingredientmech-enrichment-v1.0 | Added MediaIngredientMech links | Linked ingredients to MediaIngredientMech identifiers |
| 2026-03-17T19:46:05.595359+00:00 | normalize_media_names_to_snake_case.py | NAME_NORMALIZED | Normalized name from "'Fermentation Medium (Glucose+Histidine" to "fermentation_medium_glucose_histidine" for consistent matching |
| 2026-06-05T07:40:59.980224+00:00 | mim-legacy-to-chebi-migration-v1.0 | Refreshed legacy MediaIngredientMech links to CHEBI keying | Replaced 7 legacy mediaingredientmech_term link(s) with mediaingredientmech_chebi_term (id-safe: ingredient's own CHEBI + label). MIM deprecated the MediaIngredientMech:NNNNNN id scheme. |
| 2026-06-08T23:19:38.226847+00:00 | chebi-regrounding-v1.0 | Corrected CHEBI ingredient grounding (audit G21/G22) | Re-grounded 2 term reference(s) to the correct CHEBI (see reports/chebi_grounding_audit.md). Label-conditional fixes for pyridoxine/pyridoxamine, glycerol, MnSO4, Ca(NO3)2, selenate; casamino acids de-grounded (mixture, no single CHEBI). |
| 2026-08-06T03:05:34.033778+00:00 | merge_recipes.py | MERGED_RECIPES | merged 1 source recipe(s) on fingerprint 0504b8627bbd4c0e58dae5fe34e6d2bd0b49a5dfafe77b0808ee9ad6e189e6c6 |