Overview
- External ontology
- TOGO:M3225 — Defined medium
- Applications
-
- Microbial cultivation
- Notes
- Source: https://togomedium.org/medium/M3225
Composition
flowchart LR
CultureMech_009665["defined_medium"]
ing0_Distilled_water["Distilled water"]
CultureMech_009665 --> ing0_Distilled_water
CHEBI_15377["CHEBI:15377"]
ing0_Distilled_water -.-> CHEBI_15377
ing1_MgSO4_7H2O["MgSO4•7H2O"]
CultureMech_009665 --> ing1_MgSO4_7H2O
ing2_CaCl2_2H2O["CaCl2•2H2O"]
CultureMech_009665 --> ing2_CaCl2_2H2O
ing3__NH4_2SO4["(NH4)2SO4"]
CultureMech_009665 --> ing3__NH4_2SO4
CHEBI_62946["CHEBI:62946"]
ing3__NH4_2SO4 -.-> CHEBI_62946
ing4_Glycerol["Glycerol"]
CultureMech_009665 --> ing4_Glycerol
CHEBI_17754["CHEBI:17754"]
ing4_Glycerol -.-> CHEBI_17754
ing5_1_M_Phosphate_buffer["1 M Phosphate buffer"]
CultureMech_009665 --> ing5_1_M_Phosphate_buffer
ing6_H3BO3["H3BO3"]
CultureMech_009665 --> ing6_H3BO3
CHEBI_33118["CHEBI:33118"]
ing6_H3BO3 -.-> CHEBI_33118
ing7_FeSO4_7H2O["FeSO4.7H2O"]
CultureMech_009665 --> ing7_FeSO4_7H2O
CHEBI_75836["CHEBI:75836"]
ing7_FeSO4_7H2O -.-> CHEBI_75836
ing8_CoCl2_6H2O["CoCl2.6H2O"]
CultureMech_009665 --> ing8_CoCl2_6H2O
CHEBI_35696["CHEBI:35696"]
ing8_CoCl2_6H2O -.-> CHEBI_35696
ing9_NiCl2_6H2O["NiCl2.6H2O"]
CultureMech_009665 --> ing9_NiCl2_6H2O
CHEBI_34887["CHEBI:34887"]
ing9_NiCl2_6H2O -.-> CHEBI_34887
ing10_ZnSO4_7H2O["ZnSO4.7H2O"]
CultureMech_009665 --> ing10_ZnSO4_7H2O
CHEBI_32312["CHEBI:32312"]
ing10_ZnSO4_7H2O -.-> CHEBI_32312
ing11_CuCl2_2H2O["CuCl2.2H2O"]
CultureMech_009665 --> ing11_CuCl2_2H2O
CHEBI_86318["CHEBI:86318"]
ing11_CuCl2_2H2O -.-> CHEBI_86318
ing12_MnSO4_H2O["MnSO4.H2O"]
CultureMech_009665 --> ing12_MnSO4_H2O
CHEBI_86364["CHEBI:86364"]
ing12_MnSO4_H2O -.-> CHEBI_86364
ing13_EDTA["EDTA"]
CultureMech_009665 --> ing13_EDTA
CHEBI_4735["CHEBI:4735"]
ing13_EDTA -.-> CHEBI_4735
ing14_NaMoO4_2H2O["NaMoO4.2H2O"]
CultureMech_009665 --> ing14_NaMoO4_2H2O
CHEBI_75213["CHEBI:75213"]
ing14_NaMoO4_2H2O -.-> CHEBI_75213
ing15_FeNa_EDTA["FeNa.EDTA"]
CultureMech_009665 --> ing15_FeNa_EDTA
ing16_KH2PO4["KH2PO4"]
CultureMech_009665 --> ing16_KH2PO4
CHEBI_63036["CHEBI:63036"]
ing16_KH2PO4 -.-> CHEBI_63036
ing17_K2HPO4["K2HPO4"]
CultureMech_009665 --> ing17_K2HPO4
CHEBI_131527["CHEBI:131527"]
ing17_K2HPO4 -.-> CHEBI_131527
Ingredients (18)
| # | Ingredient | Concentration | Ontology | Notes |
|---|---|---|---|---|
| 1 |
Distilled water
H2O 18.015 g/mol
|
1.0 G_PER_L |
CHEBI:15377
water
|
Role: Solvating media; Properties: Inorganic compound, Defined component, Simple component [Collapsed 4 identical duplicates: 1.0, 1.0, 1.0, 1.0] |
| 2 | MgSO4•7H2O | 1 G_PER_L | Role: Mineral source; Properties: Inorganic compound, Defined component, Simple component | |
| 3 | CaCl2•2H2O | 0.015 G_PER_L | Role: Mineral source; Properties: Inorganic compound, Defined component, Simple component | |
| 4 |
(NH4)2SO4
2H4N.O4S 132.141 g/mol
|
1 G_PER_L |
CHEBI:62946
ammonium sulfate
|
Role: Nitrogen source; Properties: Inorganic compound, Defined component, Simple component |
| 5 |
Glycerol
C3H8O3 92.094 g/mol
|
16 G_PER_L |
CHEBI:17754
glycerol
|
Role: Carbon source; Properties: Organic compound, Defined component, Simple component |
| 6 | 1 M Phosphate buffer | 35.2 G_PER_L | ||
| 7 |
H3BO3
H3BO3 61.833 g/mol
|
0.015 G_PER_L |
CHEBI:33118
boric acid
|
Role: Mineral source; Properties: Inorganic compound, Defined component, Simple component |
| 8 |
FeSO4.7H2O
Fe.7H2O.O4S 278.013 g/mol
|
0.5 G_PER_L |
CHEBI:75836
iron(2+) sulfate heptahydrate
|
Role: Mineral source; Properties: Inorganic compound, Defined component, Simple component |
| 9 |
CoCl2.6H2O
2Cl.Co 129.839 g/mol
|
0.05 G_PER_L |
CHEBI:35696
cobalt dichloride
|
Role: Mineral source; Properties: Inorganic compound, Defined component, Simple component |
| 10 |
NiCl2.6H2O
Cl2Ni 129.599 g/mol
|
0.01 G_PER_L |
CHEBI:34887
nickel dichloride
|
Role: Mineral source; Properties: Inorganic compound, Defined component, Simple component |
| 11 |
ZnSO4.7H2O
7H2O.O4S.Zn 287.558 g/mol
|
0.4 G_PER_L |
CHEBI:32312
zinc sulfate heptahydrate
|
Role: Mineral source; Properties: Inorganic compound, Defined component, Simple component |
| 12 |
CuCl2.2H2O
Cl2Cu.2H2O 170.482 g/mol
|
0.005 G_PER_L |
CHEBI:86318
copper(II) chloride dihydrate
|
Role: Mineral source; Properties: Inorganic compound, Defined component, Simple component |
| 13 |
MnSO4.H2O
H2O.Mn.O4S 169.016 g/mol
|
0.02 G_PER_L |
CHEBI:86364
manganese(II) sulfate monohydrate
|
Role: Mineral source; Properties: Inorganic compound, Defined component, Simple component |
| 14 |
EDTA
C10H16N2O8 292.244 g/mol
|
0.25 G_PER_L |
CHEBI:4735
ethylenediaminetetraacetic acid
|
Properties: Defined component, Organic compound, Simple component |
| 15 |
NaMoO4.2H2O
2H2O.MoO4.2Na 241.946 g/mol
|
2 G_PER_L |
CHEBI:75213
sodium molybdate dihydrate
|
Role: Mineral source; Properties: Inorganic compound, Defined component, Simple component |
| 16 | FeNa.EDTA | 5 G_PER_L | ||
| 17 |
KH2PO4
H2O4P.K 136.084 g/mol
|
47 G_PER_L |
CHEBI:63036
potassium dihydrogen phosphate
|
Role: Buffer; Properties: Inorganic compound, Defined component, Simple component |
| 18 |
K2HPO4
HO4P.2K 174.174 g/mol
|
113 G_PER_L |
CHEBI:131527
dipotassium hydrogen phosphate
|
Role: Buffer; Properties: Inorganic compound, Defined component, Simple component |
Solutions
Trace element solution
Dose: 1 G_PER_L
See mediadive_6187_Trace_element_solution.yaml for composition
Stock A solution
Dose: 1 G_PER_L
Target organisms
No target organisms are recorded.
Provenance
| Timestamp | Curator | Action | Notes |
|---|---|---|---|
| 2026-01-27T06:35:57.616762Z | togo-import | Imported from TOGO Medium | Source: TOGO, ID: M3225 |
| 2026-01-28T19:48:07.854151Z | chebi-enrichment | Added CHEBI ontology terms to ingredients | Enriched using MicrobeMediaParam and MediaDive chemical mappings |
| 2026-03-09T08:04:12.662955+00:00 | solution-migrator-v1.0 | Migrated solutions from ingredients to solutions array | Moved 2 solution(s) from ingredients |
| 2026-03-13T03:08:39.545499Z | data-quality-cleanup-v1.0 | Data quality fixes | Merged 3 duplicate ingredient(s) |
| 2026-03-13T06:20:07.982643Z | culturemech-id-assigner-v1.0 | Assigned CultureMech ID | Assigned stable identifier: CultureMech:009665 |
| 2026-03-14T00:00:00+00:00 | schema-defaulter-v1.0 | Applied schema defaults and normalizations | Added default solution name; Added default solution name |
| 2026-03-17T06:29:41.000000Z | mediaingredientmech-enrichment-v1.0 | Added MediaIngredientMech links | Linked ingredients to MediaIngredientMech identifiers |
| 2026-03-17T19:46:26.987407+00:00 | normalize_media_names_to_snake_case.py | NAME_NORMALIZED | Normalized name from "Defined medium" to "defined_medium" for consistent matching |
| 2026-05-16T09:03:28.715977+00:00 | migrate_legacy_fields.py | MIGRATED_LEGACY_FIELDS | curation_history.date->timestamp=1 |
| 2026-06-05T07:40:55.535001+00:00 | mim-legacy-to-chebi-migration-v1.0 | Refreshed legacy MediaIngredientMech links to CHEBI keying | Replaced 10 legacy mediaingredientmech_term link(s) with mediaingredientmech_chebi_term (id-safe: ingredient's own CHEBI + label). MIM deprecated the MediaIngredientMech:NNNNNN id scheme. |
| 2026-06-08T23:19:36.558640+00:00 | chebi-regrounding-v1.0 | Corrected CHEBI ingredient grounding (shared-id regrounding audit, G21/G22/G24) | Part of the shared-id CHEBI regrounding audit (G21/G22/G24): one or more ingredient groundings on this record that had been collapsed onto a chemically non-specific or shared CHEBI id were re-grounded to the correct chemically-specific term, verified against OAK chebi.db rdfs:label. See reports/chebi_grounding_audit.md. |
| 2026-06-10T07:46:55.173387+00:00 | primary-term-label-canonicalization-v1.0 | Canonicalized primary term label to OBO canonical (OAK) | 4 primary term(s); ingredient name resolved by OAK sqlite:obo:chebi. |
| 2026-09-02T07:38:01.272389+00:00 | repair_merged_duplicates.py | REPAIRED_SUMMED_DUPLICATE_MERGE | Collapsed 1 ingredient row(s) whose concentration was the SUM of identical duplicate values written by cleanup_media_quality.py. Every merged part was the same value, so the pre-merge value is unambiguous and no source lookup was needed. Rows whose merged parts differ were left untouched. |