Overview
- External ontology
- MEDIADB:34 (source link unavailable) — Batch medium; mattanovich 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_007250["batch_medium_mattanovich_et_al"]
ing0_Sulfate["Sulfate"]
CultureMech_007250 --> ing0_Sulfate
CHEBI_16189["CHEBI:16189"]
ing0_Sulfate -.-> CHEBI_16189
ing1_Glycerol["Glycerol"]
CultureMech_007250 --> ing1_Glycerol
CHEBI_17754["CHEBI:17754"]
ing1_Glycerol -.-> CHEBI_17754
ing2_Biotin["Biotin"]
CultureMech_007250 --> ing2_Biotin
CHEBI_15956["CHEBI:15956"]
ing2_Biotin -.-> CHEBI_15956
ing3_Citrate["Citrate"]
CultureMech_007250 --> ing3_Citrate
CHEBI_16947["CHEBI:16947"]
ing3_Citrate -.-> CHEBI_16947
ing4_Calcium_chloride_anhydrous["Calcium chloride anhydrous"]
CultureMech_007250 --> ing4_Calcium_chloride_anhydrous
CHEBI_3312["CHEBI:3312"]
ing4_Calcium_chloride_anhydrous -.-> CHEBI_3312
ing5_Boric_acid["Boric acid"]
CultureMech_007250 --> ing5_Boric_acid
CHEBI_33118["CHEBI:33118"]
ing5_Boric_acid -.-> CHEBI_33118
ing6_Sodium_molybdate["Sodium molybdate"]
CultureMech_007250 --> ing6_Sodium_molybdate
CHEBI_75215["CHEBI:75215"]
ing6_Sodium_molybdate -.-> CHEBI_75215
ing7_Potassium_chloride["Potassium chloride"]
CultureMech_007250 --> ing7_Potassium_chloride
CHEBI_32588["CHEBI:32588"]
ing7_Potassium_chloride -.-> CHEBI_32588
ing8_Magnesium_sulfate["Magnesium sulfate"]
CultureMech_007250 --> ing8_Magnesium_sulfate
CHEBI_32599["CHEBI:32599"]
ing8_Magnesium_sulfate -.-> CHEBI_32599
ing9_Manganese_sulfate["Manganese sulfate"]
CultureMech_007250 --> ing9_Manganese_sulfate
CHEBI_86364["CHEBI:86364"]
ing9_Manganese_sulfate -.-> CHEBI_86364
ing10_Ferrous_sulfate["Ferrous sulfate"]
CultureMech_007250 --> ing10_Ferrous_sulfate
CHEBI_75832["CHEBI:75832"]
ing10_Ferrous_sulfate -.-> CHEBI_75832
ing11_Cobalt_chloride["Cobalt chloride"]
CultureMech_007250 --> ing11_Cobalt_chloride
CHEBI_35696["CHEBI:35696"]
ing11_Cobalt_chloride -.-> CHEBI_35696
ing12_Cupric_sulfate["Cupric sulfate"]
CultureMech_007250 --> ing12_Cupric_sulfate
CHEBI_23414["CHEBI:23414"]
ing12_Cupric_sulfate -.-> CHEBI_23414
ing13_Zinc_Chloride["Zinc Chloride"]
CultureMech_007250 --> ing13_Zinc_Chloride
CHEBI_49976["CHEBI:49976"]
ing13_Zinc_Chloride -.-> CHEBI_49976
ing14_Ammonium_phosphate["Ammonium phosphate"]
CultureMech_007250 --> ing14_Ammonium_phosphate
ing15_Sodium_iodide["Sodium iodide"]
CultureMech_007250 --> ing15_Sodium_iodide
CHEBI_33167["CHEBI:33167"]
ing15_Sodium_iodide -.-> CHEBI_33167
Ingredients (16)
| # | Ingredient | Concentration | Ontology | Notes |
|---|---|---|---|---|
| 1 |
Sulfate
O4S 96.063 g/mol
|
0.41587 MILLIMOLAR |
CHEBI:16189
sulfate
|
Cross-references: KEGG:so4 |
| 2 |
Glycerol
C3H8O3 92.094 g/mol
|
433.27 MILLIMOLAR |
CHEBI:17754
glycerol
|
Cross-references: KEGG:glyc |
| 3 |
Biotin
C10H16N2O3S 244.316 g/mol
|
0.001637 MILLIMOLAR |
CHEBI:15956
biotin
|
Cross-references: KEGG:btn |
| 4 |
Citrate
C6H5O7 189.099 g/mol
|
9.369 MILLIMOLAR |
CHEBI:16947
citrate(3-)
|
Cross-references: KEGG:cit |
| 5 |
Calcium chloride anhydrous
Ca.2Cl 110.984 g/mol
|
0.1496 MILLIMOLAR |
CHEBI:3312
calcium dichloride
|
|
| 6 |
Boric acid
H3BO3 61.833 g/mol
|
0.001488 MILLIMOLAR |
CHEBI:33118
boric acid
|
|
| 7 |
Sodium molybdate
MoO4.2Na 205.916 g/mol
|
0.003802 MILLIMOLAR |
CHEBI:75215
sodium molybdate (anhydrous)
|
|
| 8 |
Potassium chloride
Cl.K 74.551 g/mol
|
12.072 MILLIMOLAR |
CHEBI:32588
potassium chloride
|
|
| 9 |
Magnesium sulfate
Mg.O4S 120.368 g/mol
|
2.0286 MILLIMOLAR |
CHEBI:32599
magnesium sulfate
|
|
| 10 |
Manganese sulfate
H2O.Mn.O4S 169.016 g/mol
|
0.08165 MILLIMOLAR |
CHEBI:86364
manganese(II) sulfate monohydrate
|
|
| 11 |
Ferrous sulfate
Fe.O4S 151.908 g/mol
|
0.08273 MILLIMOLAR |
CHEBI:75832
iron(2+) sulfate (anhydrous)
|
|
| 12 |
Cobalt chloride
2Cl.Co 129.839 g/mol
|
0.017714 MILLIMOLAR |
CHEBI:35696
cobalt dichloride
|
|
| 13 |
Cupric sulfate
Cu.O4S 159.609 g/mol
|
0.11054 MILLIMOLAR |
CHEBI:23414
copper(II) sulfate
|
|
| 14 |
Zinc Chloride
2Cl.Zn 136.296 g/mol
|
0.6749 MILLIMOLAR |
CHEBI:49976
zinc dichloride
|
|
| 15 | Ammonium phosphate | 95.414 MILLIMOLAR | ||
| 16 |
Sodium iodide
I.Na 149.894 g/mol
|
0.002455 MILLIMOLAR |
CHEBI:33167
sodium iodide
|
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 |
|---|---|---|---|
| 2026-01-27T07:21:42.823817Z | mediadb-import | Imported from MediaDB | Source: MediaDB (Institute for Systems Biology), Medium ID: 34, Reference: Mazumdar et al. (2014) PLOS One |
| 2026-01-28T19:48:33.278633Z | chebi-enrichment | Added CHEBI ontology terms to ingredients | Enriched using MicrobeMediaParam and MediaDive chemical mappings |
| 2026-03-13T06:19:47.184890Z | culturemech-id-assigner-v1.0 | Assigned CultureMech ID | Assigned stable identifier: CultureMech:007250 |
| 2026-03-17T06:30:35.000000Z | mediaingredientmech-enrichment-v1.0 | Added MediaIngredientMech links | Linked ingredients to MediaIngredientMech identifiers |
| 2026-03-17T19:46:05.385506+00:00 | normalize_media_names_to_snake_case.py | NAME_NORMALIZED | Normalized name from "Batch medium; mattanovich et al" to "batch_medium_mattanovich_et_al" for consistent matching |
| 2026-06-05T07:40:50.627043+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. |
| 2026-08-20T19:01:34.077773+00:00 | apply_mim_groundings.py | Adopted MIM published grounding | Grounded 2 ingredient(s) from MIM's ingredient_mappings.sssom.tsv (2026-08-18), exactMatch only, where this record carried no CHEBI term (#308). |