Overview
- External ontology
- TOGO:M401 — Acetobacterium Submarinus Medium
- Applications
-
- Microbial cultivation
- High-metal flag
- True
- Notes
- Source: https://togomedium.org/medium/M401 Original source: JCM - JCM_M403 Original URL: https://www.jcm.riken.jp/cgi-bin/jcm/jcm_grmd?GRMD=403
Composition
flowchart LR
CultureMech_009785["acetobacterium_submarinus_medium"]
ing0_Distilled_water["Distilled water"]
CultureMech_009785 --> ing0_Distilled_water
CHEBI_15377["CHEBI:15377"]
ing0_Distilled_water -.-> CHEBI_15377
ing1_KH2PO4["KH2PO4"]
CultureMech_009785 --> ing1_KH2PO4
CHEBI_63036["CHEBI:63036"]
ing1_KH2PO4 -.-> CHEBI_63036
ing2_NH4Cl["NH4Cl"]
CultureMech_009785 --> ing2_NH4Cl
CHEBI_31206["CHEBI:31206"]
ing2_NH4Cl -.-> CHEBI_31206
ing3_Resazurin["Resazurin"]
CultureMech_009785 --> ing3_Resazurin
CHEBI_8806["CHEBI:8806"]
ing3_Resazurin -.-> CHEBI_8806
ing4_Na2S_9H2O["Na2S・9H2O"]
CultureMech_009785 --> ing4_Na2S_9H2O
CHEBI_76209["CHEBI:76209"]
ing4_Na2S_9H2O -.-> CHEBI_76209
ing5_NaHCO3["NaHCO3"]
CultureMech_009785 --> ing5_NaHCO3
CHEBI_32139["CHEBI:32139"]
ing5_NaHCO3 -.-> CHEBI_32139
ing6_Sodium_acetate["Sodium acetate"]
CultureMech_009785 --> ing6_Sodium_acetate
CHEBI_32954["CHEBI:32954"]
ing6_Sodium_acetate -.-> CHEBI_32954
ing7_Na2WO4_2H2O["Na2WO4・2H2O"]
CultureMech_009785 --> ing7_Na2WO4_2H2O
CHEBI_63939["CHEBI:63939"]
ing7_Na2WO4_2H2O -.-> CHEBI_63939
ing8_Methanol["Methanol"]
CultureMech_009785 --> ing8_Methanol
CHEBI_17790["CHEBI:17790"]
ing8_Methanol -.-> CHEBI_17790
ing9_Sea_salts__Sigma_["Sea salts (Sigma)"]
CultureMech_009785 --> ing9_Sea_salts__Sigma_
ing10_Methylamine["Methylamine"]
CultureMech_009785 --> ing10_Methylamine
CHEBI_16830["CHEBI:16830"]
ing10_Methylamine -.-> CHEBI_16830
ing11_Na2SeO4["Na2SeO4"]
CultureMech_009785 --> ing11_Na2SeO4
CHEBI_77775["CHEBI:77775"]
ing11_Na2SeO4 -.-> CHEBI_77775
ing12_Yeast_extract__BD_Difco_["Yeast extract (BD-Difco)"]
CultureMech_009785 --> ing12_Yeast_extract__BD_Difco_
ing13_Sodium_formate["Sodium formate"]
CultureMech_009785 --> ing13_Sodium_formate
CHEBI_62965["CHEBI:62965"]
ing13_Sodium_formate -.-> CHEBI_62965
ing14_Carbon_dioxide_gas["Carbon dioxide gas"]
CultureMech_009785 --> ing14_Carbon_dioxide_gas
CHEBI_16526["CHEBI:16526"]
ing14_Carbon_dioxide_gas -.-> CHEBI_16526
ing15_N2["N2"]
CultureMech_009785 --> ing15_N2
CHEBI_17997["CHEBI:17997"]
ing15_N2 -.-> CHEBI_17997
ing16_Hydrogen_gas["Hydrogen gas"]
CultureMech_009785 --> ing16_Hydrogen_gas
CHEBI_18276["CHEBI:18276"]
ing16_Hydrogen_gas -.-> CHEBI_18276
ing17_Biotin["Biotin"]
CultureMech_009785 --> ing17_Biotin
CHEBI_15956["CHEBI:15956"]
ing17_Biotin -.-> CHEBI_15956
ing18_p__Aminobenzoic_acid["p--Aminobenzoic acid"]
CultureMech_009785 --> ing18_p__Aminobenzoic_acid
CHEBI_30753["CHEBI:30753"]
ing18_p__Aminobenzoic_acid -.-> CHEBI_30753
ing19_Pyridoxine_HCl["Pyridoxine・HCl"]
CultureMech_009785 --> ing19_Pyridoxine_HCl
CHEBI_30961["CHEBI:30961"]
ing19_Pyridoxine_HCl -.-> CHEBI_30961
ing20_Nicotinic_acid["Nicotinic acid"]
CultureMech_009785 --> ing20_Nicotinic_acid
CHEBI_15940["CHEBI:15940"]
ing20_Nicotinic_acid -.-> CHEBI_15940
ing21_Sodium_phosphate_buffer__10_mM__pH_7_1_["Sodium phosphate buffer (10 mM, pH 7.1)"]
CultureMech_009785 --> ing21_Sodium_phosphate_buffer__10_mM__pH_7_1_
ing22_DL__Calcium_pantothenate["DL--Calcium pantothenate"]
CultureMech_009785 --> ing22_DL__Calcium_pantothenate
ing23_Thiamine_HCl["Thiamine・HCl"]
CultureMech_009785 --> ing23_Thiamine_HCl
CHEBI_49105["CHEBI:49105"]
ing23_Thiamine_HCl -.-> CHEBI_49105
ing24_Sodium_phosphate_buffer__25_mM__pH_3_4_["Sodium phosphate buffer (25 mM, pH 3.4)"]
CultureMech_009785 --> ing24_Sodium_phosphate_buffer__25_mM__pH_3_4_
ing25_Vitamin_B12["Vitamin B12"]
CultureMech_009785 --> ing25_Vitamin_B12
CHEBI_176843["CHEBI:176843"]
ing25_Vitamin_B12 -.-> CHEBI_176843
Ingredients (26)
| # | Ingredient | Concentration | Ontology | Notes |
|---|---|---|---|---|
| 1 |
Distilled water
H2O 18.015 g/mol
|
101.0 G_PER_L |
CHEBI:15377
water
|
Role: Solvating media; Properties: Inorganic compound, Defined component, Simple component [Merged 2 duplicates: 1.0, 100.0] |
| 2 |
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 |
| 3 |
NH4Cl
Cl.H4N 53.492 g/mol
|
0.27 G_PER_L |
CHEBI:31206
ammonium chloride
|
Role: Nitrogen source; Properties: Inorganic compound, Defined component, Simple component |
| 4 |
Resazurin
C12H7NO4 229.191 g/mol
|
0.5 G_PER_L |
CHEBI:8806
Resazurin
|
Role: pH dependent redox indicator; Properties: Organic compound, Defined component, Simple component |
| 5 |
Na2S・9H2O
9H2O.2Na.S 240.182 g/mol
|
0.5 G_PER_L |
CHEBI:76209
sodium sulfide nonahydrate
|
Role: Reducing agent; Properties: Inorganic compound, Defined component, Simple component |
| 6 |
NaHCO3
CHO3.Na 84.006 g/mol
|
1.26 G_PER_L |
CHEBI:32139
sodium hydrogencarbonate
|
Role: Buffer; Properties: Inorganic compound, Defined component, Simple component |
| 7 |
Sodium acetate
C2H3O2.Na 82.034 g/mol
|
1 G_PER_L |
CHEBI:32954
sodium acetate
|
Role: Buffer; Properties: Organic compound, Defined component, Simple component |
| 8 |
Na2WO4・2H2O
2H2O.2Na.O4W 329.846 g/mol
|
30 G_PER_L |
CHEBI:63939
sodium tungstate dihydrate
|
Role: Mineral source; Properties: Inorganic compound, Defined component, Simple component |
| 9 |
Methanol
CH4O 32.042 g/mol
|
5 G_PER_L |
CHEBI:17790
methanol
|
Role: Solvating media; Properties: Organic compound, Defined component, Simple component |
| 10 | Sea salts (Sigma) | 30 G_PER_L | Role: Mineral source; Properties: Defined component, Complex component | |
| 11 |
Methylamine
CH5N 31.058 g/mol
|
2 G_PER_L |
CHEBI:16830
methylamine
|
Role: Carbon source; Properties: Organic compound, Defined component, Simple component |
| 12 |
Na2SeO4
2Na.O4Se 188.936 g/mol
|
0.5 G_PER_L |
CHEBI:77775
sodium selenate
|
Role: Mineral source; Properties: Inorganic compound, Defined component, Simple component |
| 13 | Yeast extract (BD-Difco) | 0.1 G_PER_L | Properties: Undefined component | |
| 14 |
Sodium formate
CHO2.Na 68.007 g/mol
|
5 G_PER_L |
CHEBI:62965
sodium formate
|
Properties: Defined component, Simple component, Inorganic compound |
| 15 |
Carbon dioxide gas
CO2 44.009 g/mol
|
variable VARIABLE |
CHEBI:16526
carbon dioxide
|
Properties: ガス |
| 16 |
N2
N2 28.014 g/mol
|
variable VARIABLE |
CHEBI:17997
dinitrogen
|
Properties: ガス |
| 17 |
Hydrogen gas
H2 2.016 g/mol
|
variable VARIABLE |
CHEBI:18276
dihydrogen
|
Properties: ガス |
| 18 |
Biotin
C10H16N2O3S 244.316 g/mol
|
1 G_PER_L |
CHEBI:15956
biotin
|
Role: Vitamin; Properties: Organic compound, Defined component, Simple component |
| 19 |
p--Aminobenzoic acid
C7H7NO2 137.138 g/mol
|
4 G_PER_L |
CHEBI:30753
4-aminobenzoic acid
|
Role: Vitamin; Properties: Organic compound, Defined component, Simple component |
| 20 |
Pyridoxine・HCl
C8H11NO3.HCl 205.641 g/mol
|
10 G_PER_L |
CHEBI:30961
pyridoxine hydrochloride
|
Role: Vitamin; Properties: Organic compound, Defined component, Simple component |
| 21 |
Nicotinic acid
C6H5NO2 123.111 g/mol
|
10 G_PER_L |
CHEBI:15940
nicotinic acid
|
Role: Vitamin; Properties: Organic compound, Defined component, Simple component |
| 22 | Sodium phosphate buffer (10 mM, pH 7.1) | 100 G_PER_L | Role: Buffer; Properties: Inorganic compound, Defined component, Solution | |
| 23 | DL--Calcium pantothenate | 5 G_PER_L | Role: Vitamin; Properties: Organic compound, Defined component, Simple component | |
| 24 |
Thiamine・HCl
C12H17N4OS.Cl.HCl 337.276 g/mol
|
10 G_PER_L |
CHEBI:49105
thiamine hydrochloride
|
Role: Vitamin; Properties: Organic compound, Defined component, Simple component |
| 25 | Sodium phosphate buffer (25 mM, pH 3.4) | 100 G_PER_L | Role: Buffer; Properties: Inorganic compound, Defined component, Solution | |
| 26 | Vitamin B12 | 5 G_PER_L |
CHEBI:176843
vitamin B12
|
Role: Vitamin; Properties: Organic compound, Defined component, Simple component |
Solutions
Trace element solution (see Medium [M296])
Dose: 1 G_PER_L
Cross-reference to Medium M296
Vitamin solution (see below)
Dose: 1 G_PER_L
Thiamine solution (see below)
Dose: 1 G_PER_L
Vitamin B12 solution (see below)
Dose: 1 G_PER_L
Target organisms
No target organisms are recorded.
Provenance
| Timestamp | Curator | Action | Notes |
|---|---|---|---|
| 2026-01-27T06:35:54.990667Z | togo-import | Imported from TOGO Medium | Source: JCM, ID: M401 |
| 2026-01-28T19:48:13.420762Z | 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: Carbon dioxide gas; Added default concentration for ingredient: N2; Added default concentration for ingredient: Hydrogen gas |
| 2026-03-09T08:04:22.187942+00:00 | solution-migrator-v1.0 | Migrated solutions from ingredients to solutions array | Moved 4 solution(s) from ingredients |
| 2026-03-13T03:08:50.341605Z | data-quality-cleanup-v1.0 | Data quality fixes | Merged 1 duplicate ingredient(s) |
| 2026-03-13T06:20:08.874113Z | culturemech-id-assigner-v1.0 | Assigned CultureMech ID | Assigned stable identifier: CultureMech:009785 |
| 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 |
| 2026-03-17T06:29:53.000000Z | mediaingredientmech-enrichment-v1.0 | Added MediaIngredientMech links | Linked ingredients to MediaIngredientMech identifiers |
| 2026-03-17T19:46:27.866367+00:00 | normalize_media_names_to_snake_case.py | NAME_NORMALIZED | Normalized name from "Acetobacterium Submarinus Medium" to "acetobacterium_submarinus_medium" for consistent matching |
| 2026-05-16T09:03:17.752250+00:00 | migrate_legacy_fields.py | MIGRATED_LEGACY_FIELDS | curation_history.date->timestamp=2 |
| 2026-06-05T07:40:41.099870+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. |
| 2026-06-08T23:19:34.262257+00:00 | chebi-regrounding-v1.0 | Corrected CHEBI ingredient grounding (audit G21/G22) | Re-grounded 3 term reference(s) to the correct CHEBI (see reports/chebi_grounding_audit.md). Label-conditional fixes for pyridoxine/pyridoxamine, glycerol, MnSO4, Ca(NO3)2, selenate; casamino acids de-grounded (mixture, no single CHEBI). |
| 2026-06-10T07:46:50.536993+00:00 | primary-term-label-canonicalization-v1.0 | Canonicalized primary term label to OBO canonical (OAK) | 3 primary term(s); ingredient name resolved by OAK sqlite:obo:chebi. |