Overview
- External ontology
- MEDIADB:149 (source link unavailable) — MM-Pyruvate with aspartate; Dunn 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_007039["mm_pyruvate_with_aspartate_dunn_et_al"]
ing0_Pyruvate["Pyruvate"]
CultureMech_007039 --> ing0_Pyruvate
CHEBI_15361["CHEBI:15361"]
ing0_Pyruvate -.-> CHEBI_15361
ing1_L_Aspartate["L-Aspartate"]
CultureMech_007039 --> ing1_L_Aspartate
CHEBI_29991["CHEBI:29991"]
ing1_L_Aspartate -.-> CHEBI_29991
ing2_Biotin["Biotin"]
CultureMech_007039 --> ing2_Biotin
CHEBI_15956["CHEBI:15956"]
ing2_Biotin -.-> CHEBI_15956
ing3_Calcium_chloride_anhydrous["Calcium chloride anhydrous"]
CultureMech_007039 --> ing3_Calcium_chloride_anhydrous
CHEBI_3312["CHEBI:3312"]
ing3_Calcium_chloride_anhydrous -.-> CHEBI_3312
ing4_Potassium_dibasic_phosphate["Potassium dibasic phosphate"]
CultureMech_007039 --> ing4_Potassium_dibasic_phosphate
CHEBI_131527["CHEBI:131527"]
ing4_Potassium_dibasic_phosphate -.-> CHEBI_131527
ing5_Thiamine_HCl["Thiamine HCl"]
CultureMech_007039 --> ing5_Thiamine_HCl
CHEBI_49105["CHEBI:49105"]
ing5_Thiamine_HCl -.-> CHEBI_49105
ing6_Magnesium_sulfate["Magnesium sulfate"]
CultureMech_007039 --> ing6_Magnesium_sulfate
CHEBI_32599["CHEBI:32599"]
ing6_Magnesium_sulfate -.-> CHEBI_32599
ing7_Iron_III__chloride["Iron(III) chloride"]
CultureMech_007039 --> ing7_Iron_III__chloride
ing8_Sodium_Glutamate["Sodium Glutamate"]
CultureMech_007039 --> ing8_Sodium_Glutamate
CHEBI_64220["CHEBI:64220"]
ing8_Sodium_Glutamate -.-> CHEBI_64220
Ingredients (9)
| # | Ingredient | Concentration | Ontology | Notes |
|---|---|---|---|---|
| 1 |
Pyruvate
C3H3O3 87.054 g/mol
|
10.0 MILLIMOLAR |
CHEBI:15361
pyruvate
|
Cross-references: KEGG:pyr |
| 2 |
L-Aspartate
C4H6NO4 132.095 g/mol
|
1.0 MILLIMOLAR |
CHEBI:29991
L-aspartate(1-)
|
Cross-references: KEGG:asp-L |
| 3 |
Biotin
C10H16N2O3S 244.316 g/mol
|
4.09316e-05 MILLIMOLAR |
CHEBI:15956
biotin
|
Cross-references: KEGG:btn |
| 4 |
Calcium chloride anhydrous
Ca.2Cl 110.984 g/mol
|
0.360425 MILLIMOLAR |
CHEBI:3312
calcium dichloride
|
|
| 5 |
Potassium dibasic phosphate
HO4P.2K 174.174 g/mol
|
1.2629 MILLIMOLAR |
CHEBI:131527
dipotassium hydrogen phosphate
|
|
| 6 |
Thiamine HCl
C12H17N4OS.Cl.HCl 337.276 g/mol
|
0.000331323 MILLIMOLAR |
CHEBI:49105
thiamine hydrochloride
|
|
| 7 |
Magnesium sulfate
Mg.O4S 120.368 g/mol
|
0.40572 MILLIMOLAR |
CHEBI:32599
magnesium sulfate
|
|
| 8 | Iron(III) chloride | 0.123304 MILLIMOLAR | ||
| 9 |
Sodium Glutamate
C5H8NO4.Na 169.112 g/mol
|
6.50468 MILLIMOLAR |
CHEBI:64220
monosodium glutamate
|
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 |
|---|---|---|---|
| 2026-01-27T07:21:43.933701Z | mediadb-import | Imported from MediaDB | Source: MediaDB (Institute for Systems Biology), Medium ID: 149, Reference: Mazumdar et al. (2014) PLOS One |
| 2026-01-28T19:48:34.572013Z | chebi-enrichment | Added CHEBI ontology terms to ingredients | Enriched using MicrobeMediaParam and MediaDive chemical mappings |
| 2026-03-13T06:19:45.734185Z | culturemech-id-assigner-v1.0 | Assigned CultureMech ID | Assigned stable identifier: CultureMech:007039 |
| 2026-03-17T06:30:38.000000Z | mediaingredientmech-enrichment-v1.0 | Added MediaIngredientMech links | Linked ingredients to MediaIngredientMech identifiers |
| 2026-03-17T19:46:03.839168+00:00 | normalize_media_names_to_snake_case.py | NAME_NORMALIZED | Normalized name from "MM-Pyruvate with aspartate; Dunn et al" to "mm_pyruvate_with_aspartate_dunn_et_al" for consistent matching |
| 2026-06-05T07:41:35.281022+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. |
| 2026-08-20T19:02:55.034847+00:00 | apply_mim_groundings.py | Adopted MIM published grounding | Grounded 1 ingredient(s) from MIM's ingredient_mappings.sssom.tsv (2026-08-18), exactMatch only, where this record carried no CHEBI term (#308). |
| 2026-08-31T04:07:03.032691+00:00 | repair_mediadb_names.py | REPAIRED_MEDIADB_TRUNCATED_NAME | Restored 1 ingredient name(s) truncated at a parenthesis by the MediaDB SQL parser. Resolved against MEDIADB:149's own compound list in media_database.07Oct2015.sql, requiring a unique prefix match and, where more than one matched, an equal Amount_mM. |