Overview
- External ontology
- TOGO:M984 — IRD Marine Clostridia Medium-2
- Applications
-
- Microbial cultivation
- Notes
- TOGO M984 imports JCM Medium 938 IRD Marine Clostridia Medium-2, which uses JCM Medium 909 IRD Marine Clostrida Medium supplemented with 0.164 g/L sodium acetate and 2.0 g/L Trypticase peptone (BD-BBL). Expanded the JCM 909 base and its JCM Medium 151 trace-minerals stock.
Composition
flowchart LR
CultureMech_010411["ird_marine_clostridia_medium_2"]
ing0_sodium_acetate["sodium acetate"]
CultureMech_010411 --> ing0_sodium_acetate
CHEBI_32954["CHEBI:32954"]
ing0_sodium_acetate -.-> CHEBI_32954
ing1_Trypticase_peptone__BD_BBL_["Trypticase peptone (BD-BBL)"]
CultureMech_010411 --> ing1_Trypticase_peptone__BD_BBL_
ing2_Distilled_water["Distilled water"]
CultureMech_010411 --> ing2_Distilled_water
CHEBI_15377["CHEBI:15377"]
ing2_Distilled_water -.-> CHEBI_15377
ing3_KH2PO4["KH2PO4"]
CultureMech_010411 --> ing3_KH2PO4
CHEBI_63036["CHEBI:63036"]
ing3_KH2PO4 -.-> CHEBI_63036
ing4_K2HPO4["K2HPO4"]
CultureMech_010411 --> ing4_K2HPO4
CHEBI_131527["CHEBI:131527"]
ing4_K2HPO4 -.-> CHEBI_131527
ing5_NH4Cl["NH4Cl"]
CultureMech_010411 --> ing5_NH4Cl
CHEBI_31206["CHEBI:31206"]
ing5_NH4Cl -.-> CHEBI_31206
ing6_NaCl["NaCl"]
CultureMech_010411 --> ing6_NaCl
CHEBI_26710["CHEBI:26710"]
ing6_NaCl -.-> CHEBI_26710
ing7_KCl["KCl"]
CultureMech_010411 --> ing7_KCl
CHEBI_32588["CHEBI:32588"]
ing7_KCl -.-> CHEBI_32588
ing8_CaCl2_x_2_H2O["CaCl2 x 2 H2O"]
CultureMech_010411 --> ing8_CaCl2_x_2_H2O
CHEBI_86158["CHEBI:86158"]
ing8_CaCl2_x_2_H2O -.-> CHEBI_86158
ing9_Yeast_extract["Yeast extract"]
CultureMech_010411 --> ing9_Yeast_extract
ing10_L_Cysteine_HCl_x_H2O["L-Cysteine HCl x H2O"]
CultureMech_010411 --> ing10_L_Cysteine_HCl_x_H2O
CHEBI_91248["CHEBI:91248"]
ing10_L_Cysteine_HCl_x_H2O -.-> CHEBI_91248
ing11_Resazurin["Resazurin"]
CultureMech_010411 --> ing11_Resazurin
CHEBI_8806["CHEBI:8806"]
ing11_Resazurin -.-> CHEBI_8806
Ingredients (12)
| # | Ingredient | Concentration | Ontology | Notes |
|---|---|---|---|---|
| 1 |
sodium acetate
C2H3O2.Na 82.034 g/mol
|
0.164 G_PER_L |
CHEBI:32954
sodium acetate
|
TOGO M984 / JCM Medium 938 lists 0.164 g/L sodium acetate. |
| 2 | Trypticase peptone (BD-BBL) | 2.0 G_PER_L | TOGO M984 / JCM Medium 938 lists 2.0 g/L Trypticase peptone (BD-BBL). | |
| 3 |
Distilled water
H2O 18.015 g/mol
|
940.0 ML_PER_L |
CHEBI:15377
water
|
TOGO M953 / JCM Medium 909 lists 940.0 ml/L Distilled water. |
| 4 |
KH2PO4
H2O4P.K 136.084 g/mol
|
0.3 G_PER_L |
CHEBI:63036
potassium dihydrogen phosphate
|
TOGO M953 / JCM Medium 909 lists 0.3 g/L KH2PO4. |
| 5 |
K2HPO4
HO4P.2K 174.174 g/mol
|
0.3 G_PER_L |
CHEBI:131527
dipotassium hydrogen phosphate
|
TOGO M953 / JCM Medium 909 lists 0.3 g/L K2HPO4. |
| 6 |
NH4Cl
Cl.H4N 53.492 g/mol
|
1.0 G_PER_L |
CHEBI:31206
ammonium chloride
|
TOGO M953 / JCM Medium 909 lists 1.0 g/L NH4Cl. |
| 7 |
NaCl
Cl.Na 58.443 g/mol
|
23.0 G_PER_L |
CHEBI:26710
sodium chloride
|
TOGO M953 / JCM Medium 909 lists 23.0 g/L NaCl. |
| 8 |
KCl
Cl.K 74.551 g/mol
|
0.1 G_PER_L |
CHEBI:32588
potassium chloride
|
TOGO M953 / JCM Medium 909 lists 0.1 g/L KCl. |
| 9 |
CaCl2 x 2 H2O
Ca.2Cl.2H2O 147.014 g/mol
|
0.1 G_PER_L |
CHEBI:86158
calcium chloride dihydrate
|
TOGO M953 / JCM Medium 909 lists 0.1 g/L CaCl2 x 2 H2O. |
| 10 | Yeast extract | 0.5 G_PER_L |
FOODON:03315426
yeast extract
|
TOGO M953 / JCM Medium 909 lists 0.5 g/L Yeast extract. |
| 11 |
L-Cysteine HCl x H2O
C3H7NO2S.H2O.HCl 175.637 g/mol
|
0.5 G_PER_L |
CHEBI:91248
L-cysteine hydrochloride hydrate
|
TOGO M953 / JCM Medium 909 lists 0.5 g/L L-Cysteine HCl x H2O. |
| 12 |
Resazurin
C12H7NO4 229.191 g/mol
|
1.0 MG_PER_L |
CHEBI:8806
Resazurin
|
TOGO M953 / JCM Medium 909 lists 1.0 mg/L Resazurin. |
Preparation
- Prepare JCM Medium 151 Trace minerals by dissolving nitrilotriacetic acid, adjusting pH to 6.5 with KOH solution, adding minerals, and adjusting the final stock to pH 7.0.
- Mix JCM 909 base components and autoclave under an N2-CO2 (4:1, v/v) gas mixture.
- Filter-sterilize the 8% NaHCO3 stock before use.
- After cooling, add anaerobic 8% NaHCO3, 10% MgCl2 x 6 H2O, and 1 M glucose stocks.
- Aseptically distribute the medium under an N2-CO2 (4:1, v/v) stream; before inoculation add anaerobic 5% Na2S x 9 H2O stock autoclaved under N2.
Solutions
Trace minerals
Dose: 10.0 ML_PER_L
| Ingredient | Concentration | Notes |
|---|---|---|
| Distilled water | 1000.0 ML_PER_L | JCM Medium 151 trace minerals lists 1000.0 ml/L Distilled water. |
| Nitrilotriacetic acid | 1.5 G_PER_L | JCM Medium 151 trace minerals lists 1.5 g/L Nitrilotriacetic acid. |
| MgSO4 x 7 H2O | 3.0 G_PER_L | JCM Medium 151 trace minerals lists 3.0 g/L MgSO4 x 7 H2O. |
| MnSO4 x n H2O | 0.5 G_PER_L | JCM Medium 151 trace minerals lists 0.5 g/L MnSO4 x n H2O. |
| NaCl | 1.0 G_PER_L | JCM Medium 151 trace minerals lists 1.0 g/L NaCl. |
| FeSO4 x 7 H2O | 0.1 G_PER_L | JCM Medium 151 trace minerals lists 0.1 g/L FeSO4 x 7 H2O. |
| CoSO4 x 7 H2O | 0.1 G_PER_L | JCM Medium 151 trace minerals lists 0.1 g/L CoSO4 x 7 H2O. |
| CaCl2 x 2 H2O | 0.1 G_PER_L | JCM Medium 151 trace minerals lists 0.1 g/L CaCl2 x 2 H2O. |
| ZnSO4 x 7 H2O | 0.1 G_PER_L | JCM Medium 151 trace minerals lists 0.1 g/L ZnSO4 x 7 H2O. |
| CuSO4 x 5 H2O | 0.01 G_PER_L | JCM Medium 151 trace minerals lists 0.01 g/L CuSO4 x 5 H2O. |
| AlK(SO4)2 | 0.01 G_PER_L | JCM Medium 151 trace minerals lists 0.01 g/L AlK(SO4)2. |
| H3BO3 | 0.01 G_PER_L | JCM Medium 151 trace minerals lists 0.01 g/L H3BO3. |
| Na2MoO4 x 2 H2O | 0.01 G_PER_L | JCM Medium 151 trace minerals lists 0.01 g/L Na2MoO4 x 2 H2O. |
JCM Medium 909 adds 10.0 ml/L JCM Medium 151 Trace minerals.
8% NaHCO3 solution
Dose: 25.0 ML_PER_L
| Ingredient | Concentration | Notes |
|---|---|---|
| NaHCO3 | 8.0 PERCENT_W_V | TOGO M953 / JCM Medium 909 uses 8% NaHCO3 solution containing 8.0 % w/v NaHCO3. |
JCM Medium 909 adds 25.0 ml/L filter-sterilized 8% NaHCO3 solution.
10% MgCl2 x 6 H2O solution
Dose: 30.0 ML_PER_L
| Ingredient | Concentration | Notes |
|---|---|---|
| MgCl2 x 6 H2O | 10.0 PERCENT_W_V | TOGO M953 / JCM Medium 909 uses 10% MgCl2 x 6 H2O solution containing 10.0 % w/v MgCl2 x 6 H2O. |
JCM Medium 909 adds 30.0 ml/L 10% MgCl2 x 6 H2O solution.
1 M Glucose solution
Dose: 5.0 ML_PER_L
| Ingredient | Concentration | Notes |
|---|---|---|
| Glucose | 1.0 MOLAR | TOGO M953 / JCM Medium 909 uses 1 M Glucose solution containing 1.0 M Glucose. |
JCM Medium 909 adds 5.0 ml/L 1 M glucose solution.
5% Na2S x 9 H2O solution
Dose: 8.0 ML_PER_L
| Ingredient | Concentration | Notes |
|---|---|---|
| Na2S x 9 H2O | 5.0 PERCENT_W_V | TOGO M953 / JCM Medium 909 uses 5% Na2S x 9 H2O solution containing 5.0 % w/v Na2S x 9 H2O. |
JCM Medium 909 adds 8.0 ml/L anaerobic 5% Na2S x 9 H2O solution.
Target organisms
No target organisms are recorded.
Provenance
| Timestamp | Curator | Action | Notes |
|---|---|---|---|
| 2026-01-27T06:35:56.085661Z | togo-import | Imported from TOGO Medium | Source: JCM, ID: M984 |
| 2026-01-28T19:48:22.281981Z | chebi-enrichment | Added CHEBI ontology terms to ingredients | Enriched using MicrobeMediaParam and MediaDive chemical mappings |
| 2026-03-09T08:04:37.174451+00:00 | solution-migrator-v1.0 | Migrated solutions from ingredients to solutions array | Moved 1 solution(s) from ingredients |
| 2026-03-13T06:20:13.661706Z | culturemech-id-assigner-v1.0 | Assigned CultureMech ID | Assigned stable identifier: CultureMech:010411 |
| 2026-03-14T00:00:00+00:00 | schema-defaulter-v1.0 | Applied schema defaults and normalizations | Added default solution name |
| 2026-03-17T06:30:13.000000Z | mediaingredientmech-enrichment-v1.0 | Added MediaIngredientMech links | Linked ingredients to MediaIngredientMech identifiers |
| 2026-03-17T19:46:32.637415+00:00 | normalize_media_names_to_snake_case.py | NAME_NORMALIZED | Normalized name from "IRD Marine Clostridia Medium-2" to "ird_marine_clostridia_medium_2" for consistent matching |
| 2026-05-16T09:03:37.887419+00:00 | migrate_legacy_fields.py | MIGRATED_LEGACY_FIELDS | curation_history.date->timestamp=1 |
| 2026-06-05T07:41:09.515152+00:00 | mim-legacy-to-chebi-migration-v1.0 | Refreshed legacy MediaIngredientMech links to CHEBI keying | Replaced 1 legacy mediaingredientmech_term link(s) with mediaingredientmech_chebi_term (id-safe: ingredient's own CHEBI + label). MIM deprecated the MediaIngredientMech:NNNNNN id scheme. |
| 2026-09-12T00:00:00-07:00 | repair_togo_m984_ird_marine_clostridia_score15.py | RESOLVED_TOGO_M984_IRD_MARINE_CLOSTRIDIA_SCORE15 | TOGO M984 imports JCM Medium 938 IRD Marine Clostridia Medium-2, which uses JCM Medium 909 IRD Marine Clostrida Medium supplemented with 0.164 g/L sodium acetate and 2.0 g/L Trypticase peptone (BD-BBL). Expanded the JCM 909 base and its JCM Medium 151 trace-minerals stock. Replaced the empty M953 cross-reference solution with JCM 909 ingredients, nested all quantified stock solutions, and grounded all disclosed chemical components except the undefined Trypticase peptone. |