model_designed_medium_baart_2007

CultureMech:007298 bacterial DEFINED LIQUID
Original name: Model-designed medium (Baart 2007)

Overview

External ontology
MEDIADB:394 (source link unavailable) — Model-designed medium (Baart 2007)
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_007298["model_designed_medium_baart_2007"]
    ing0_Ammonium_chloride["Ammonium chloride"]
    CultureMech_007298 --> ing0_Ammonium_chloride
    CHEBI_31206["CHEBI:31206"]
    ing0_Ammonium_chloride -.-> CHEBI_31206
    ing1_Cupric_sulfate["Cupric sulfate"]
    CultureMech_007298 --> ing1_Cupric_sulfate
    CHEBI_23414["CHEBI:23414"]
    ing1_Cupric_sulfate -.-> CHEBI_23414
    ing2_Cobalt_chloride["Cobalt chloride"]
    CultureMech_007298 --> ing2_Cobalt_chloride
    CHEBI_35696["CHEBI:35696"]
    ing2_Cobalt_chloride -.-> CHEBI_35696
    ing3_Zinc_sulfate["Zinc sulfate"]
    CultureMech_007298 --> ing3_Zinc_sulfate
    CHEBI_35176["CHEBI:35176"]
    ing3_Zinc_sulfate -.-> CHEBI_35176
    ing4_Calcium_chloride_anhydrous["Calcium chloride anhydrous"]
    CultureMech_007298 --> ing4_Calcium_chloride_anhydrous
    CHEBI_3312["CHEBI:3312"]
    ing4_Calcium_chloride_anhydrous -.-> CHEBI_3312
    ing5_Manganese_chloride["Manganese chloride"]
    CultureMech_007298 --> ing5_Manganese_chloride
    CHEBI_63041["CHEBI:63041"]
    ing5_Manganese_chloride -.-> CHEBI_63041
    ing6_Sodium_molybdate["Sodium molybdate"]
    CultureMech_007298 --> ing6_Sodium_molybdate
    CHEBI_75215["CHEBI:75215"]
    ing6_Sodium_molybdate -.-> CHEBI_75215
    ing7_Sodium_thiosulfate["Sodium thiosulfate"]
    CultureMech_007298 --> ing7_Sodium_thiosulfate
    CHEBI_132112["CHEBI:132112"]
    ing7_Sodium_thiosulfate -.-> CHEBI_132112
    ing8_D_Glucose["D-Glucose"]
    CultureMech_007298 --> ing8_D_Glucose
    CHEBI_17634["CHEBI:17634"]
    ing8_D_Glucose -.-> CHEBI_17634
    ing9_Potassium_dibasic_phosphate["Potassium dibasic phosphate"]
    CultureMech_007298 --> ing9_Potassium_dibasic_phosphate
    CHEBI_131527["CHEBI:131527"]
    ing9_Potassium_dibasic_phosphate -.-> CHEBI_131527
    ing10_Magnesium_sulfate["Magnesium sulfate"]
    CultureMech_007298 --> ing10_Magnesium_sulfate
    CHEBI_32599["CHEBI:32599"]
    ing10_Magnesium_sulfate -.-> CHEBI_32599
    ing11_Sodium_chloride["Sodium chloride"]
    CultureMech_007298 --> ing11_Sodium_chloride
    CHEBI_26710["CHEBI:26710"]
    ing11_Sodium_chloride -.-> CHEBI_26710
    ing12_Iron_III__chloride["Iron(III) chloride"]
    CultureMech_007298 --> ing12_Iron_III__chloride
    ing13_Potassium_dihydrogen_phosphate["Potassium dihydrogen phosphate"]
    CultureMech_007298 --> ing13_Potassium_dihydrogen_phosphate
    CHEBI_63036["CHEBI:63036"]
    ing13_Potassium_dihydrogen_phosphate -.-> CHEBI_63036

Ingredients (14)

# Ingredient Concentration Ontology Notes
1 Ammonium chloride
Cl.H4N 53.492 g/mol
23.5 MILLIMOLAR CHEBI:31206
ammonium chloride
2 Cupric sulfate
Cu.O4S 159.609 g/mol
8e-05 MILLIMOLAR CHEBI:23414
copper(II) sulfate
3 Cobalt chloride
2Cl.Co 129.839 g/mol
8e-05 MILLIMOLAR CHEBI:35696
cobalt dichloride
4 Zinc sulfate
O4S.Zn 161.453 g/mol
0.00034 MILLIMOLAR CHEBI:35176
zinc sulfate
5 Calcium chloride anhydrous
Ca.2Cl 110.984 g/mol
0.136 MILLIMOLAR CHEBI:3312
calcium dichloride
6 Manganese chloride
Cl2Mn 125.844 g/mol
0.0008 MILLIMOLAR CHEBI:63041
manganese(II) chloride
7 Sodium molybdate
MoO4.2Na 205.916 g/mol
0.00016 MILLIMOLAR CHEBI:75215
sodium molybdate (anhydrous)
8 Sodium thiosulfate
2Na.O3S2 158.111 g/mol
0.38 MILLIMOLAR CHEBI:132112
sodium thiosulfate
9 D-Glucose
C6H12O6 180.156 g/mol
31.1 MILLIMOLAR CHEBI:17634
D-glucose
 Cross-references: KEGG:glc_D
10 Potassium dibasic phosphate
HO4P.2K 174.174 g/mol
12.5 MILLIMOLAR CHEBI:131527
dipotassium hydrogen phosphate
11 Magnesium sulfate
Mg.O4S 120.368 g/mol
2.43 MILLIMOLAR CHEBI:32599
magnesium sulfate
12 Sodium chloride
Cl.Na 58.443 g/mol
102.0 MILLIMOLAR CHEBI:26710
sodium chloride
13 Iron(III) chloride 0.3 MILLIMOLAR
14 Potassium dihydrogen phosphate
H2O4P.K 136.084 g/mol
4.58 MILLIMOLAR CHEBI:63036
potassium dihydrogen phosphate

Preparation

  1. Dissolve all ingredients in distilled water to specified concentrations
  2. Adjust pH if specified in original formulation
  3. Sterilize by filtration (0.22 μm) to preserve heat-sensitive components

Target organisms

No target organisms are recorded.

Provenance

TimestampCuratorActionNotes
2026-01-27T07:21:46.195298Z mediadb-import Imported from MediaDB Source: MediaDB (Institute for Systems Biology), Medium ID: 394, Reference: Mazumdar et al. (2014) PLOS One
2026-03-13T06:19:47.531470Z culturemech-id-assigner-v1.0 Assigned CultureMech ID Assigned stable identifier: CultureMech:007298
2026-03-17T06:30:39.000000Z mediaingredientmech-enrichment-v1.0 Added MediaIngredientMech links Linked ingredients to MediaIngredientMech identifiers
2026-03-17T19:46:05.794742+00:00 normalize_media_names_to_snake_case.py NAME_NORMALIZED Normalized name from "'Model-designed medium (Baart 2007" to "model_designed_medium_baart_2007" for consistent matching
2026-06-05T07:41:35.941929+00:00 mim-legacy-to-chebi-migration-v1.0 Refreshed legacy MediaIngredientMech links to CHEBI keying Replaced 6 legacy mediaingredientmech_term link(s) with mediaingredientmech_chebi_term (id-safe: ingredient's own CHEBI + label). MIM deprecated the MediaIngredientMech:NNNNNN id scheme.
2026-08-31T04:07:03.523312+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:394's own compound list in media_database.07Oct2015.sql, requiring a unique prefix match and, where more than one matched, an equal Amount_mM.
2026-08-31T06:18:16.460950+00:00 repair_mediadb_names.py REPAIRED_MEDIADB_TRUNCATED_NAME Restored the medium's own name in media_term.term.label, original_name. The MediaDB SQL parser truncated every value containing a parenthesis at that parenthesis; recovered from media_database.07Oct2015.sql.