Overview
- External ontology
- TOGO:M3006 — Hydrogenotrophic Methanogen Medium
- Applications
-
- Microbial cultivation
- Notes
- Source: https://togomedium.org/medium/M3006 Original source: JCM - JCM_M1331 Original URL: https://www.jcm.riken.jp/cgi-bin/jcm/jcm_grmd?GRMD=1331
Composition
flowchart LR
CultureMech_009523["hydrogenotrophic_methanogen_medium"]
ing0_Distilled_water["Distilled water"]
CultureMech_009523 --> ing0_Distilled_water
CHEBI_15377["CHEBI:15377"]
ing0_Distilled_water -.-> CHEBI_15377
ing1_NaCl["NaCl"]
CultureMech_009523 --> ing1_NaCl
CHEBI_26710["CHEBI:26710"]
ing1_NaCl -.-> CHEBI_26710
ing2_CaCl2_2H2O["CaCl2·2H2O"]
CultureMech_009523 --> ing2_CaCl2_2H2O
CHEBI_86158["CHEBI:86158"]
ing2_CaCl2_2H2O -.-> CHEBI_86158
ing3_KH2PO4["KH2PO4"]
CultureMech_009523 --> ing3_KH2PO4
CHEBI_63036["CHEBI:63036"]
ing3_KH2PO4 -.-> CHEBI_63036
ing4_NH4Cl["NH4Cl"]
CultureMech_009523 --> ing4_NH4Cl
CHEBI_31206["CHEBI:31206"]
ing4_NH4Cl -.-> CHEBI_31206
ing5_Resazurin["Resazurin"]
CultureMech_009523 --> ing5_Resazurin
CHEBI_8806["CHEBI:8806"]
ing5_Resazurin -.-> CHEBI_8806
ing6_MgCl2_6H2O["MgCl2·6H2O"]
CultureMech_009523 --> ing6_MgCl2_6H2O
CHEBI_86345["CHEBI:86345"]
ing6_MgCl2_6H2O -.-> CHEBI_86345
ing7_NaHCO3["NaHCO3"]
CultureMech_009523 --> ing7_NaHCO3
CHEBI_32139["CHEBI:32139"]
ing7_NaHCO3 -.-> CHEBI_32139
ing8_Sodium_acetate_3H2O["Sodium acetate·3H2O"]
CultureMech_009523 --> ing8_Sodium_acetate_3H2O
CHEBI_32954["CHEBI:32954"]
ing8_Sodium_acetate_3H2O -.-> CHEBI_32954
ing9_Carbon_dioxide_gas["Carbon dioxide gas"]
CultureMech_009523 --> ing9_Carbon_dioxide_gas
CHEBI_16526["CHEBI:16526"]
ing9_Carbon_dioxide_gas -.-> CHEBI_16526
ing10_Hydrogen_gas["Hydrogen gas"]
CultureMech_009523 --> ing10_Hydrogen_gas
CHEBI_18276["CHEBI:18276"]
ing10_Hydrogen_gas -.-> CHEBI_18276
ing11_Sodium_citrate_2H2O["Sodium citrate·2H2O"]
CultureMech_009523 --> ing11_Sodium_citrate_2H2O
ing12_Titanium_III__chloride["Titanium(III) chloride"]
CultureMech_009523 --> ing12_Titanium_III__chloride
ing13_N2["N2"]
CultureMech_009523 --> ing13_N2
CHEBI_17997["CHEBI:17997"]
ing13_N2 -.-> CHEBI_17997
Ingredients (14)
| # | Ingredient | Concentration | Ontology | Notes |
|---|---|---|---|---|
| 1 |
Distilled water
H2O 18.015 g/mol
|
56.0 G_PER_L |
CHEBI:15377
water
|
Role: Solvating media; Properties: Simple component, Inorganic compound, Defined component [Merged 2 duplicates: 1.0, 55.0] |
| 2 |
NaCl
Cl.Na 58.443 g/mol
|
20 G_PER_L |
CHEBI:26710
sodium chloride
|
Role: Mineral source; Properties: Defined component, Inorganic compound, Simple component |
| 3 |
CaCl2·2H2O
Ca.2Cl.2H2O 147.014 g/mol
|
0.15 G_PER_L |
CHEBI:86158
calcium chloride dihydrate
|
Role: Mineral source; Properties: Simple component, Inorganic compound, Defined component |
| 4 |
KH2PO4
H2O4P.K 136.084 g/mol
|
0.14 G_PER_L |
CHEBI:63036
potassium dihydrogen phosphate
|
Role: Buffer; Properties: Simple component, Inorganic compound, Defined component |
| 5 |
NH4Cl
Cl.H4N 53.492 g/mol
|
0.54 G_PER_L |
CHEBI:31206
ammonium chloride
|
Role: Nitrogen source; Properties: Defined component, Inorganic compound, Simple component |
| 6 |
Resazurin
C12H7NO4 229.191 g/mol
|
1 G_PER_L |
CHEBI:8806
Resazurin
|
Role: pH dependent redox indicator; Properties: Simple component, Organic compound, Defined component |
| 7 |
MgCl2·6H2O
2Cl.6H2O.Mg 203.301 g/mol
|
3 G_PER_L |
CHEBI:86345
magnesium dichloride hexahydrate
|
Role: Mineral source; Properties: Defined component, Simple component, Inorganic compound |
| 8 |
NaHCO3
CHO3.Na 84.006 g/mol
|
2.5 G_PER_L |
CHEBI:32139
sodium hydrogencarbonate
|
Role: Buffer; Properties: Inorganic compound, Defined component, Simple component |
| 9 |
Sodium acetate·3H2O
C2H3O2.Na 82.034 g/mol
|
0.27 G_PER_L |
CHEBI:32954
sodium acetate
|
Role: Buffer; Properties: Defined component, Organic compound, Simple component |
| 10 |
Carbon dioxide gas
CO2 44.009 g/mol
|
variable VARIABLE |
CHEBI:16526
carbon dioxide
|
Properties: ガス |
| 11 |
Hydrogen gas
H2 2.016 g/mol
|
variable VARIABLE |
CHEBI:18276
dihydrogen
|
Properties: ガス |
| 12 | Sodium citrate·2H2O | 2.94 G_PER_L | Role: Buffer; Properties: Organic compound, Simple component, Defined component | |
| 13 | Titanium(III) chloride | 0.75 G_PER_L | Properties: Defined component, Inorganic compound, Simple component | |
| 14 |
N2
N2 28.014 g/mol
|
variable VARIABLE |
CHEBI:17997
dinitrogen
|
Properties: ガス |
Solutions
FeCl2 solution (see Medium [M180])
Dose: 1 G_PER_L
Cross-reference to Medium M180
Trace element solution (see Medium [M180])
Dose: 1 G_PER_L
Cross-reference to Medium M180
Selenite--tungstate solution (see Medium [M431])
Dose: 1 G_PER_L
Cross-reference to Medium M431
0.5 M Coenzyme M solution
Dose: 10 G_PER_L
Role: Growth factor; Properties: Solution, Organic compound, Defined component
Trace vitamins (see Medium [M190])
Dose: 2 G_PER_L
Cross-reference to Medium M190
Titanium citrate solution* (see below)
Dose: 10 G_PER_L
Target organisms
No target organisms are recorded.
Provenance
Merged from 1 source record.
- hydrogenotrophic_methanogen_medium (CultureMech:009523)
| Timestamp | Curator | Action | Notes |
|---|---|---|---|
| 2026-01-27T06:35:53.672021Z | togo-import | Imported from TOGO Medium | Source: JCM, ID: M3006 |
| 2026-01-28T19:48:17.397933Z | 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: Hydrogen gas; Added default concentration for ingredient: N2 |
| 2026-03-09T08:04:28.802547+00:00 | solution-migrator-v1.0 | Migrated solutions from ingredients to solutions array | Moved 6 solution(s) from ingredients |
| 2026-03-13T03:08:57.608809Z | data-quality-cleanup-v1.0 | Data quality fixes | Merged 1 duplicate ingredient(s) |
| 2026-03-13T06:20:06.572510Z | culturemech-id-assigner-v1.0 | Assigned CultureMech ID | Assigned stable identifier: CultureMech:009523 |
| 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 |
| 2026-03-17T06:30:02.000000Z | mediaingredientmech-enrichment-v1.0 | Added MediaIngredientMech links | Linked ingredients to MediaIngredientMech identifiers |
| 2026-03-17T19:46:25.584204+00:00 | normalize_media_names_to_snake_case.py | NAME_NORMALIZED | Normalized name from "Hydrogenotrophic Methanogen Medium" to "hydrogenotrophic_methanogen_medium" for consistent matching |
| 2026-05-16T09:03:37.611634+00:00 | migrate_legacy_fields.py | MIGRATED_LEGACY_FIELDS | curation_history.date->timestamp=2 |
| 2026-06-05T07:41:09.122574+00:00 | mim-legacy-to-chebi-migration-v1.0 | Refreshed legacy MediaIngredientMech links to CHEBI keying | Replaced 9 legacy mediaingredientmech_term link(s) with mediaingredientmech_chebi_term (id-safe: ingredient's own CHEBI + label). MIM deprecated the MediaIngredientMech:NNNNNN id scheme. |
| 2026-06-10T07:46:59.957512+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. |
| 2026-08-06T03:04:29.067095+00:00 | merge_recipes.py | MERGED_RECIPES | merged 1 source recipe(s) on fingerprint 63b54a6103de73b2c4fcdca7de7e5d3fdd85002d4e69a47bae98c0eb225ea6c5 |