Overview
- External ontology
- MEDIADB:279 (source link unavailable) — MMB; Klein et al
- 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_007179["mmb_klein_et_al"]
ing0_NAD_["NAD+"]
CultureMech_007179 --> ing0_NAD_
CHEBI_15846["CHEBI:15846"]
ing0_NAD_ -.-> CHEBI_15846
ing1_Glutathione["Glutathione"]
CultureMech_007179 --> ing1_Glutathione
CHEBI_16856["CHEBI:16856"]
ing1_Glutathione -.-> CHEBI_16856
ing2_L_Arginine["L-Arginine"]
CultureMech_007179 --> ing2_L_Arginine
CHEBI_16467["CHEBI:16467"]
ing2_L_Arginine -.-> CHEBI_16467
ing3_Uracil["Uracil"]
CultureMech_007179 --> ing3_Uracil
CHEBI_17568["CHEBI:17568"]
ing3_Uracil -.-> CHEBI_17568
ing4_D_Glutamate["D-Glutamate"]
CultureMech_007179 --> ing4_D_Glutamate
ing5_Inosine["Inosine"]
CultureMech_007179 --> ing5_Inosine
CHEBI_17596["CHEBI:17596"]
ing5_Inosine -.-> CHEBI_17596
ing6_Magnesium_chloride["Magnesium chloride"]
CultureMech_007179 --> ing6_Magnesium_chloride
CHEBI_86345["CHEBI:86345"]
ing6_Magnesium_chloride -.-> CHEBI_86345
ing7_Calcium_chloride_anhydrous["Calcium chloride anhydrous"]
CultureMech_007179 --> ing7_Calcium_chloride_anhydrous
CHEBI_3312["CHEBI:3312"]
ing7_Calcium_chloride_anhydrous -.-> CHEBI_3312
ing8_Potassium_dibasic_phosphate["Potassium dibasic phosphate"]
CultureMech_007179 --> ing8_Potassium_dibasic_phosphate
CHEBI_131527["CHEBI:131527"]
ing8_Potassium_dibasic_phosphate -.-> CHEBI_131527
ing9_Sodium_chloride["Sodium chloride"]
CultureMech_007179 --> ing9_Sodium_chloride
CHEBI_26710["CHEBI:26710"]
ing9_Sodium_chloride -.-> CHEBI_26710
ing10_Thiamine_HCl["Thiamine HCl"]
CultureMech_007179 --> ing10_Thiamine_HCl
CHEBI_49105["CHEBI:49105"]
ing10_Thiamine_HCl -.-> CHEBI_49105
ing11_Potassium_dihydrogen_phosphate["Potassium dihydrogen phosphate"]
CultureMech_007179 --> ing11_Potassium_dihydrogen_phosphate
CHEBI_63036["CHEBI:63036"]
ing11_Potassium_dihydrogen_phosphate -.-> CHEBI_63036
ing12_Hemin["Hemin"]
CultureMech_007179 --> ing12_Hemin
CHEBI_50385["CHEBI:50385"]
ing12_Hemin -.-> CHEBI_50385
ing13_Sodium_Pantothenate["Sodium Pantothenate"]
CultureMech_007179 --> ing13_Sodium_Pantothenate
Ingredients (14)
| # | Ingredient | Concentration | Ontology | Notes |
|---|---|---|---|---|
| 1 |
NAD+
C21H28N7O14P2 664.438 g/mol
|
0.00603 MILLIMOLAR |
CHEBI:15846
NAD(+)
|
Restored from MediaDB compound row C00003; the archived leading compound labels are corrupt, while the row sequence preserves the KEGG identity. |
| 2 |
Glutathione
C10H17N3O6S 307.328 g/mol
|
0.65079 MILLIMOLAR |
CHEBI:16856
glutathione
|
Cross-references: KEGG:gthrd |
| 3 |
L-Arginine
C6H14N4O2 174.204 g/mol
|
1.72216 MILLIMOLAR |
CHEBI:16467
L-arginine
|
Cross-references: KEGG:arg-L |
| 4 |
Uracil
C4H4N2O2 112.088 g/mol
|
0.89216 MILLIMOLAR |
CHEBI:17568
uracil
|
Cross-references: KEGG:ura |
| 5 | D-Glutamate | 8.83572 MILLIMOLAR | Cross-references: KEGG:glu-D | |
| 6 |
Inosine
C10H12N4O5 268.229 g/mol
|
5.74373 MILLIMOLAR |
CHEBI:17596
inosine
|
Cross-references: KEGG:ins |
| 7 |
Magnesium chloride
2Cl.6H2O.Mg 203.301 g/mol
|
4.51628 MILLIMOLAR |
CHEBI:86345
magnesium dichloride hexahydrate
|
|
| 8 |
Calcium chloride anhydrous
Ca.2Cl 110.984 g/mol
|
0.01982 MILLIMOLAR |
CHEBI:3312
calcium dichloride
|
|
| 9 |
Potassium dibasic phosphate
HO4P.2K 174.174 g/mol
|
25.719 MILLIMOLAR |
CHEBI:131527
dipotassium hydrogen phosphate
|
|
| 10 |
Sodium chloride
Cl.Na 58.443 g/mol
|
99.2471 MILLIMOLAR |
CHEBI:26710
sodium chloride
|
|
| 11 |
Thiamine HCl
C12H17N4OS.Cl.HCl 337.276 g/mol
|
0.0133 MILLIMOLAR |
CHEBI:49105
thiamine hydrochloride
|
|
| 12 |
Potassium dihydrogen phosphate
H2O4P.K 136.084 g/mol
|
15.4994 MILLIMOLAR |
CHEBI:63036
potassium dihydrogen phosphate
|
|
| 13 |
Hemin
C34H32ClFeN4O4 651.952 g/mol
|
0.01534 MILLIMOLAR |
CHEBI:50385
hemin
|
|
| 14 | Sodium Pantothenate | 0.01825 MILLIMOLAR |
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
| Timestamp | Curator | Action | Notes |
|---|---|---|---|
| 2026-01-27T07:21:45.183528Z | mediadb-import | Imported from MediaDB | Source: MediaDB (Institute for Systems Biology), Medium ID: 279, Reference: Mazumdar et al. (2014) PLOS One |
| 2026-01-28T19:48:37.279203Z | chebi-enrichment | Added CHEBI ontology terms to ingredients | Enriched using MicrobeMediaParam and MediaDive chemical mappings |
| 2026-03-13T06:19:46.612354Z | culturemech-id-assigner-v1.0 | Assigned CultureMech ID | Assigned stable identifier: CultureMech:007179 |
| 2026-03-17T06:30:44.000000Z | mediaingredientmech-enrichment-v1.0 | Added MediaIngredientMech links | Linked ingredients to MediaIngredientMech identifiers |
| 2026-03-17T19:46:04.786003+00:00 | normalize_media_names_to_snake_case.py | NAME_NORMALIZED | Normalized name from "MMB; Klein et al" to "mmb_klein_et_al" for consistent matching |
| 2026-06-05T07:41:35.365176+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. |
| 2026-08-25T00:00:00-07:00 | fix_mediadb_leading_compounds.py | RESTORED_CORRUPT_SOURCE_COMPOUND | Restored C00003 as NAD+ (CHEBI:15846) from the MediaDB row sequence; resolves the 2026-08-24 EMPTY_INGREDIENT_NAME review finding. |