Overview
- External ontology
- MEDIADB:173 (source link unavailable) — Deferrated synbase; simpson 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_007064["deferrated_synbase_simpson_et_al"]
ing0_Glycerol["Glycerol"]
CultureMech_007064 --> ing0_Glycerol
CHEBI_17754["CHEBI:17754"]
ing0_Glycerol -.-> CHEBI_17754
ing1_Cl_["Cl-"]
CultureMech_007064 --> ing1_Cl_
ing2_Magnesium_chloride["Magnesium chloride"]
CultureMech_007064 --> ing2_Magnesium_chloride
CHEBI_86345["CHEBI:86345"]
ing2_Magnesium_chloride -.-> CHEBI_86345
ing3_Potassium_dibasic_phosphate["Potassium dibasic phosphate"]
CultureMech_007064 --> ing3_Potassium_dibasic_phosphate
CHEBI_131527["CHEBI:131527"]
ing3_Potassium_dibasic_phosphate -.-> CHEBI_131527
ing4_Sodium_sulfate["Sodium sulfate"]
CultureMech_007064 --> ing4_Sodium_sulfate
CHEBI_32149["CHEBI:32149"]
ing4_Sodium_sulfate -.-> CHEBI_32149
ing5_Dibasic_sodium_phosphate["Dibasic sodium phosphate"]
CultureMech_007064 --> ing5_Dibasic_sodium_phosphate
CHEBI_34683["CHEBI:34683"]
ing5_Dibasic_sodium_phosphate -.-> CHEBI_34683
ing6_Fe3_["Fe3+"]
CultureMech_007064 --> ing6_Fe3_
ing7_Ammonium_chloride["Ammonium chloride"]
CultureMech_007064 --> ing7_Ammonium_chloride
CHEBI_31206["CHEBI:31206"]
ing7_Ammonium_chloride -.-> CHEBI_31206
ing8_Manganese_chloride["Manganese chloride"]
CultureMech_007064 --> ing8_Manganese_chloride
CHEBI_63041["CHEBI:63041"]
ing8_Manganese_chloride -.-> CHEBI_63041
ing9_Sodium_Succinate["Sodium Succinate"]
CultureMech_007064 --> ing9_Sodium_Succinate
CHEBI_63675["CHEBI:63675"]
ing9_Sodium_Succinate -.-> CHEBI_63675
Ingredients (10)
| # | Ingredient | Concentration | Ontology | Notes |
|---|---|---|---|---|
| 1 |
Glycerol
C3H8O3 92.094 g/mol
|
410.79 MILLIMOLAR |
CHEBI:17754
glycerol
|
Cross-references: KEGG:glyc |
| 2 | Cl- | 0.141 MILLIMOLAR | Cross-references: KEGG:cl | |
| 3 |
Magnesium chloride
2Cl.6H2O.Mg 203.301 g/mol
|
0.20658 MILLIMOLAR |
CHEBI:86345
magnesium dichloride hexahydrate
|
|
| 4 |
Potassium dibasic phosphate
HO4P.2K 174.174 g/mol
|
28.7 MILLIMOLAR |
CHEBI:131527
dipotassium hydrogen phosphate
|
|
| 5 |
Sodium sulfate
2Na.O4S 142.043 g/mol
|
0.6265 MILLIMOLAR |
CHEBI:32149
sodium sulfate
|
|
| 6 |
Dibasic sodium phosphate
HO4P.2Na 141.958 g/mol
|
35.22 MILLIMOLAR |
CHEBI:34683
disodium hydrogenphosphate
|
|
| 7 | Fe3+ | 0.0006 MILLIMOLAR | Cross-references: KEGG:fe3 | |
| 8 |
Ammonium chloride
Cl.H4N 53.492 g/mol
|
22.059 MILLIMOLAR |
CHEBI:31206
ammonium chloride
|
|
| 9 |
Manganese chloride
Cl2Mn 125.844 g/mol
|
0.0202 MILLIMOLAR |
CHEBI:63041
manganese(II) chloride
|
|
| 10 |
Sodium Succinate
C4H4O4.2Na 162.052 g/mol
|
35.69 MILLIMOLAR |
CHEBI:63675
sodium succinate (anhydrous)
|
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.
- deferrated_synbase_simpson_et_al (CultureMech:007064)
| Timestamp | Curator | Action | Notes |
|---|---|---|---|
| 2026-01-27T07:21:44.131589Z | mediadb-import | Imported from MediaDB | Source: MediaDB (Institute for Systems Biology), Medium ID: 173, Reference: Mazumdar et al. (2014) PLOS One |
| 2026-01-28T19:48:10.751833Z | chebi-enrichment | Added CHEBI ontology terms to ingredients | Enriched using MicrobeMediaParam and MediaDive chemical mappings |
| 2026-03-13T06:19:45.864544Z | culturemech-id-assigner-v1.0 | Assigned CultureMech ID | Assigned stable identifier: CultureMech:007064 |
| 2026-03-17T06:29:48.000000Z | mediaingredientmech-enrichment-v1.0 | Added MediaIngredientMech links | Linked ingredients to MediaIngredientMech identifiers |
| 2026-03-17T19:46:03.980522+00:00 | normalize_media_names_to_snake_case.py | NAME_NORMALIZED | Normalized name from "Deferrated synbase; simpson et al" to "deferrated_synbase_simpson_et_al" for consistent matching |
| 2026-06-05T07:40:55.367424+00:00 | mim-legacy-to-chebi-migration-v1.0 | Refreshed legacy MediaIngredientMech links to CHEBI keying | Replaced 5 legacy mediaingredientmech_term link(s) with mediaingredientmech_chebi_term (id-safe: ingredient's own CHEBI + label). MIM deprecated the MediaIngredientMech:NNNNNN id scheme. |
| 2026-08-06T03:05:29.717917+00:00 | merge_recipes.py | MERGED_RECIPES | merged 1 source recipe(s) on fingerprint 670301a8c20a8a76f16324e56380995ddeb28469734227e00a410cd30ba8cb73 |