Overview
- External ontology
- TOGO:M1060 — Freshwater Medium For Soil AOA
- Applications
-
- Microbial cultivation
- High-metal flag
- True
- Notes
- Source: https://togomedium.org/medium/M1060 Original source: JCM - JCM_M1004 Original URL: https://www.jcm.riken.jp/cgi-bin/jcm/jcm_grmd?GRMD=1004
Composition
flowchart LR
CultureMech_007577["freshwater_medium_for_soil_aoa"]
ing0_Distilled_water["Distilled water"]
CultureMech_007577 --> ing0_Distilled_water
CHEBI_15377["CHEBI:15377"]
ing0_Distilled_water -.-> CHEBI_15377
ing1_NaCl["NaCl"]
CultureMech_007577 --> ing1_NaCl
CHEBI_26710["CHEBI:26710"]
ing1_NaCl -.-> CHEBI_26710
ing2_CaCl2_2H2O["CaCl2・2H2O"]
CultureMech_007577 --> ing2_CaCl2_2H2O
CHEBI_86158["CHEBI:86158"]
ing2_CaCl2_2H2O -.-> CHEBI_86158
ing3_KH2PO4["KH2PO4"]
CultureMech_007577 --> ing3_KH2PO4
CHEBI_63036["CHEBI:63036"]
ing3_KH2PO4 -.-> CHEBI_63036
ing4_MgCl2_6H2O["MgCl2・6H2O"]
CultureMech_007577 --> ing4_MgCl2_6H2O
CHEBI_86345["CHEBI:86345"]
ing4_MgCl2_6H2O -.-> CHEBI_86345
ing5_KCl["KCl"]
CultureMech_007577 --> ing5_KCl
CHEBI_32588["CHEBI:32588"]
ing5_KCl -.-> CHEBI_32588
ing6_HCl__25__["HCl (25%)"]
CultureMech_007577 --> ing6_HCl__25__
ing7_Na2MoO4_2H2O["Na2MoO4・2H2O"]
CultureMech_007577 --> ing7_Na2MoO4_2H2O
CHEBI_75213["CHEBI:75213"]
ing7_Na2MoO4_2H2O -.-> CHEBI_75213
ing8_H3BO3["H3BO3"]
CultureMech_007577 --> ing8_H3BO3
CHEBI_33118["CHEBI:33118"]
ing8_H3BO3 -.-> CHEBI_33118
ing9_MnCl2_4H2O["MnCl2・4H2O"]
CultureMech_007577 --> ing9_MnCl2_4H2O
CHEBI_86368["CHEBI:86368"]
ing9_MnCl2_4H2O -.-> CHEBI_86368
ing10_CoCl2_6H2O["CoCl2・6H2O"]
CultureMech_007577 --> ing10_CoCl2_6H2O
CHEBI_35696["CHEBI:35696"]
ing10_CoCl2_6H2O -.-> CHEBI_35696
ing11_NiCl2_6H2O["NiCl2・6H2O"]
CultureMech_007577 --> ing11_NiCl2_6H2O
CHEBI_34887["CHEBI:34887"]
ing11_NiCl2_6H2O -.-> CHEBI_34887
ing12_ZnSO4_7H2O["ZnSO4・7H2O"]
CultureMech_007577 --> ing12_ZnSO4_7H2O
CHEBI_32312["CHEBI:32312"]
ing12_ZnSO4_7H2O -.-> CHEBI_32312
ing13_CuCl2_2H2O["CuCl2・2H2O"]
CultureMech_007577 --> ing13_CuCl2_2H2O
CHEBI_86318["CHEBI:86318"]
ing13_CuCl2_2H2O -.-> CHEBI_86318
ing14_Biotin["Biotin"]
CultureMech_007577 --> ing14_Biotin
CHEBI_15956["CHEBI:15956"]
ing14_Biotin -.-> CHEBI_15956
ing15_p__Aminobenzoic_acid["p--Aminobenzoic acid"]
CultureMech_007577 --> ing15_p__Aminobenzoic_acid
CHEBI_30753["CHEBI:30753"]
ing15_p__Aminobenzoic_acid -.-> CHEBI_30753
ing16_Thiamine_HCl["Thiamine・HCl"]
CultureMech_007577 --> ing16_Thiamine_HCl
CHEBI_49105["CHEBI:49105"]
ing16_Thiamine_HCl -.-> CHEBI_49105
ing17_Pyridoxine_HCl["Pyridoxine・HCl"]
CultureMech_007577 --> ing17_Pyridoxine_HCl
CHEBI_30961["CHEBI:30961"]
ing17_Pyridoxine_HCl -.-> CHEBI_30961
ing18_Folic_acid["Folic acid"]
CultureMech_007577 --> ing18_Folic_acid
CHEBI_27470["CHEBI:27470"]
ing18_Folic_acid -.-> CHEBI_27470
ing19_Vitamin_B12["Vitamin B12"]
CultureMech_007577 --> ing19_Vitamin_B12
CHEBI_176843["CHEBI:176843"]
ing19_Vitamin_B12 -.-> CHEBI_176843
ing20_Riboflavin["Riboflavin"]
CultureMech_007577 --> ing20_Riboflavin
CHEBI_17015["CHEBI:17015"]
ing20_Riboflavin -.-> CHEBI_17015
ing21_Nicotinic_acid["Nicotinic acid"]
CultureMech_007577 --> ing21_Nicotinic_acid
CHEBI_15940["CHEBI:15940"]
ing21_Nicotinic_acid -.-> CHEBI_15940
ing22_Choline_chloride["Choline chloride"]
CultureMech_007577 --> ing22_Choline_chloride
CHEBI_133341["CHEBI:133341"]
ing22_Choline_chloride -.-> CHEBI_133341
ing23_DL__Calcium_pantothenate["DL--Calcium pantothenate"]
CultureMech_007577 --> ing23_DL__Calcium_pantothenate
ing24_KOH["KOH"]
CultureMech_007577 --> ing24_KOH
CHEBI_32035["CHEBI:32035"]
ing24_KOH -.-> CHEBI_32035
ing25_HEPES__free_acid_["HEPES (free acid)"]
CultureMech_007577 --> ing25_HEPES__free_acid_
ing26_NaOH["NaOH"]
CultureMech_007577 --> ing26_NaOH
CHEBI_32145["CHEBI:32145"]
ing26_NaOH -.-> CHEBI_32145
Ingredients (27)
| # | Ingredient | Concentration | Ontology | Notes |
|---|---|---|---|---|
| 1 |
Distilled water
H2O 18.015 g/mol
|
1489.0 G_PER_L |
CHEBI:15377
water
|
Role: Solvating media; Properties: Inorganic compound, Defined component, Simple component [Merged 4 duplicates: 1.0, 987.0, 1.0, 500.0] |
| 2 |
NaCl
Cl.Na 58.443 g/mol
|
1 G_PER_L |
CHEBI:26710
sodium chloride
|
Role: Mineral source; Properties: Inorganic compound, Defined component, Simple component |
| 3 |
CaCl2・2H2O
Ca.2Cl.2H2O 147.014 g/mol
|
0.1 G_PER_L |
CHEBI:86158
calcium chloride dihydrate
|
Role: Mineral source; Properties: Inorganic compound, Defined component, Simple component |
| 4 |
KH2PO4
H2O4P.K 136.084 g/mol
|
0.2 G_PER_L |
CHEBI:63036
potassium dihydrogen phosphate
|
Role: Buffer; Properties: Inorganic compound, Defined component, Simple component |
| 5 |
MgCl2・6H2O
2Cl.6H2O.Mg 203.301 g/mol
|
0.4 G_PER_L |
CHEBI:86345
magnesium dichloride hexahydrate
|
Role: Mineral source; Properties: Inorganic compound, Defined component, Simple component |
| 6 |
KCl
Cl.K 74.551 g/mol
|
0.5 G_PER_L |
CHEBI:32588
potassium chloride
|
Role: Mineral source; Properties: Inorganic compound, Defined component, Simple component |
| 7 | HCl (25%) | 12.5 G_PER_L | Role: Solvating media; Properties: Solution, Inorganic compound, Defined component | |
| 8 |
Na2MoO4・2H2O
2H2O.MoO4.2Na 241.946 g/mol
|
36 G_PER_L |
CHEBI:75213
sodium molybdate dihydrate
|
Role: Mineral source; Properties: Inorganic compound, Defined component, Simple component |
| 9 |
H3BO3
H3BO3 61.833 g/mol
|
30 G_PER_L |
CHEBI:33118
boric acid
|
Role: Mineral source; Properties: Inorganic compound, Defined component, Simple component |
| 10 |
MnCl2・4H2O
Cl2Mn.4H2O 197.904 g/mol
|
100 G_PER_L |
CHEBI:86368
manganese(II) chloride tetrahydrate
|
Role: Mineral source; Properties: Inorganic compound, Defined component, Simple component |
| 11 |
CoCl2・6H2O
2Cl.Co 129.839 g/mol
|
190 G_PER_L |
CHEBI:35696
cobalt dichloride
|
Role: Mineral source; Properties: Inorganic compound, Defined component, Simple component |
| 12 |
NiCl2・6H2O
Cl2Ni 129.599 g/mol
|
24 G_PER_L |
CHEBI:34887
nickel dichloride
|
Role: Mineral source; Properties: Inorganic compound, Defined component, Simple component |
| 13 |
ZnSO4・7H2O
7H2O.O4S.Zn 287.558 g/mol
|
144 G_PER_L |
CHEBI:32312
zinc sulfate heptahydrate
|
Role: Mineral source; Properties: Inorganic compound, Defined component, Simple component |
| 14 |
CuCl2・2H2O
Cl2Cu.2H2O 170.482 g/mol
|
2 G_PER_L |
CHEBI:86318
copper(II) chloride dihydrate
|
Role: Mineral source; Properties: Inorganic compound, Defined component, Simple component |
| 15 |
Biotin
C10H16N2O3S 244.316 g/mol
|
20 G_PER_L |
CHEBI:15956
biotin
|
Role: Vitamin; Properties: Organic compound, Defined component, Simple component |
| 16 |
p--Aminobenzoic acid
C7H7NO2 137.138 g/mol
|
50 G_PER_L |
CHEBI:30753
4-aminobenzoic acid
|
Role: Vitamin; Properties: Organic compound, Defined component, Simple component |
| 17 |
Thiamine・HCl
C12H17N4OS.Cl.HCl 337.276 g/mol
|
50 G_PER_L |
CHEBI:49105
thiamine hydrochloride
|
Role: Vitamin; Properties: Organic compound, Defined component, Simple component |
| 18 |
Pyridoxine・HCl
C8H11NO3.HCl 205.641 g/mol
|
100 G_PER_L |
CHEBI:30961
pyridoxine hydrochloride
|
Role: Vitamin; Properties: Organic compound, Defined component, Simple component |
| 19 |
Folic acid
C19H19N7O6 441.404 g/mol
|
20 G_PER_L |
CHEBI:27470
folic acid
|
Role: Vitamin; Properties: Organic compound, Defined component, Simple component |
| 20 | Vitamin B12 | 1 G_PER_L |
CHEBI:176843
vitamin B12
|
Role: Vitamin; Properties: Organic compound, Defined component, Simple component |
| 21 |
Riboflavin
C17H20N4O6 376.369 g/mol
|
50 G_PER_L |
CHEBI:17015
riboflavin
|
Role: Vitamin; Properties: Organic compound, Defined component, Simple component |
| 22 |
Nicotinic acid
C6H5NO2 123.111 g/mol
|
50 G_PER_L |
CHEBI:15940
nicotinic acid
|
Role: Vitamin; Properties: Organic compound, Defined component, Simple component |
| 23 |
Choline chloride
C5H14NO.Cl 139.626 g/mol
|
2 G_PER_L |
CHEBI:133341
choline chloride
|
Role: Growth factor; Properties: Organic compound, Defined component, Simple component |
| 24 | DL--Calcium pantothenate | 50 G_PER_L | Role: Vitamin; Properties: Organic compound, Defined component, Simple component | |
| 25 |
KOH
HO.K 56.105 g/mol
|
variable VARIABLE |
CHEBI:32035
potassium hydroxide
|
Role: Mineral source; Properties: Defined component, Solution |
| 26 | HEPES (free acid) | 119.2 G_PER_L | Role: Buffer; Properties: Organic compound, Defined component, Simple component | |
| 27 |
NaOH
HO.Na 39.997 g/mol
|
12 G_PER_L |
CHEBI:32145
sodium hydroxide
|
Properties: Defined component, Inorganic compound, Simple component |
Solutions
1 M NaHCO3 solution*
Dose: 2 G_PER_L
Role: Buffer; Properties: Defined component, Inorganic compound, Solution
1 M NH4Cl solution
Dose: 1 G_PER_L
Role: Nitrogen source; Properties: Inorganic compound, Solution, Defined component
1 M Sodium pyruvate solution*
Dose: 1 G_PER_L
Role: Carbon source; Properties: Organic compound, Solution, Defined component
7.5 mM EDTA・Na・Fe(III) solution* (pH 7.0)
Dose: 1 G_PER_L
Properties: Defined component, Organic compound, Solution
Modified trace element mixture (see below)
Dose: 1 G_PER_L
Vitamin solution* (see below)
Dose: 1 G_PER_L
HEPES solution (see below)
Dose: 10 G_PER_L
Target organisms
No target organisms are recorded.
Provenance
| Timestamp | Curator | Action | Notes |
|---|---|---|---|
| 2026-01-27T06:35:53.845381Z | togo-import | Imported from TOGO Medium | Source: JCM, ID: M1060 |
| 2026-01-28T19:48:18.722454Z | chebi-enrichment | Added CHEBI ontology terms to ingredients | Enriched using MicrobeMediaParam and MediaDive chemical mappings |
| 2026-02-03T00:00:00+00:00 | schema-defaulter-v1.0 | Applied schema defaults and normalizations | Added default concentration for ingredient: KOH; Added default concentration for ingredient: NaOH |
| 2026-03-09T08:04:31.072279+00:00 | solution-migrator-v1.0 | Migrated solutions from ingredients to solutions array | Moved 7 solution(s) from ingredients |
| 2026-03-13T03:09:00.128251Z | data-quality-cleanup-v1.0 | Data quality fixes | Merged 4 duplicate ingredient(s) |
| 2026-03-13T06:19:49.800855Z | culturemech-id-assigner-v1.0 | Assigned CultureMech ID | Assigned stable identifier: CultureMech:007577 |
| 2026-03-14T00:00:00+00:00 | schema-defaulter-v1.0 | Applied schema defaults and normalizations | Added default solution name; Added default solution name; Added default solution name; Added default solution name; Added default solution name; Added default solution name; Added default solution name |
| 2026-03-17T06:30:05.000000Z | mediaingredientmech-enrichment-v1.0 | Added MediaIngredientMech links | Linked ingredients to MediaIngredientMech identifiers |
| 2026-03-17T19:46:08.151853+00:00 | normalize_media_names_to_snake_case.py | NAME_NORMALIZED | Normalized name from "Freshwater Medium For Soil AOA" to "freshwater_medium_for_soil_aoa" for consistent matching |
| 2026-05-16T09:03:07.274441+00:00 | migrate_legacy_fields.py | MIGRATED_LEGACY_FIELDS | curation_history.date->timestamp=2 |
| 2026-06-05T07:40:30.105269+00:00 | mim-legacy-to-chebi-migration-v1.0 | Refreshed legacy MediaIngredientMech links to CHEBI keying | Replaced 14 legacy mediaingredientmech_term link(s) with mediaingredientmech_chebi_term (id-safe: ingredient's own CHEBI + label). MIM deprecated the MediaIngredientMech:NNNNNN id scheme. |
| 2026-06-08T23:19:29.842199+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. |
| 2026-06-10T07:46:46.816161+00:00 | primary-term-label-canonicalization-v1.0 | Canonicalized primary term label to OBO canonical (OAK) | 2 primary term(s); ingredient name resolved by OAK sqlite:obo:chebi. |