Overview
- External ontology
- mediadive.medium:J390 (source link unavailable) — JI MEDIUM
- Applications
-
- Microbial cultivation
- Notes
- Source: JCM | Link: https://www.jcm.riken.jp/cgi-bin/jcm/jcm_grmd?GRMD=390 Composition recovery source: https://togomedium.org/medium/M385 (TOGO snapshot of JCM medium J390).
Composition
flowchart LR
CultureMech_002747["ji_medium"]
ing0_N2["N2"]
CultureMech_002747 --> ing0_N2
Ingredients (1)
| # | Ingredient | Concentration | Ontology | Notes |
|---|---|---|---|---|
| 1 | N2 | variable VARIABLE | Properties: ガス |
Preparation
- Mix components except NaHCO3 and adjust pH to 6.5. Bring to a boilfor 5--10 sec, then, cool down under a stream of N2--CO2 (80:20, v/v) and add NaHCO3 to the solution. Dispense 0.9 volume of the medium into culturevessels (e.g., 18 ml of the medium in 50 ml serum bottle) under a stream of N2--CO2 (80:20, v/v) and seal with butyl rubber stoppers. After autoclaving, stand the medium overnight.
- Adjust pH to 7.0 and filter--sterilize. Keep the solution under a N2 atmosphere.
- To complete the medium, add 0.1 volume of Solution B to the culture vesselscontaining Solution A. Prior to inoculation, aseptically and anaerobically add 0.01 volume of L--cysteine・HCl・H2O and Na2S・9H2O solutions to the medium (3% solutions, autoclaved and stored under a N2 atmosphere).
- Comment: For strain JCM 10971, incubate with a 10% inoculum.
- Use Medium No. [284] supplemented with final 0.2 g yeast extract in Solution A (per 900 ml), and with 0.332 g/L o--phthalic acid in Solution B (per 100 ml) instead of sodium pyruvate. Otherwise, prepare the medium as described in therecipe of Medium No. [284].
- Comment: For strain JCM 12282, incubate with a 15 -- 20% inoculum.
Solutions
Na2S・9H2O solutions
Dose: 10 ML_PER_L
Role: Reducing agent; Properties: Defined component, Inorganic compound, Solution
L--cysteine・HCl・H2O
Dose: 10 ML_PER_L
Properties: Defined component, Organic compound, Solution
Solution A
Dose: 900 ML_PER_L
| Ingredient | Concentration | Notes |
|---|---|---|
| Distilled water | 1000 ML_PER_L | Role: Solvating media; Properties: Simple component, Inorganic compound, Defined component |
| CaCl2・2H2O | 0.166666667 G_PER_L | Role: Mineral source; Properties: Inorganic compound, Defined component, Simple component |
| KH2PO4 | 0.155555556 G_PER_L | Role: Buffer; Properties: Inorganic compound, Defined component, Simple component |
| NH4Cl | 0.6 G_PER_L | Role: Nitrogen source; Properties: Inorganic compound, Simple component, Defined component |
| Resazurin | 1.111111111 MG_PER_L | Role: pH dependent redox indicator; Properties: Simple component, Organic compound, Defined component |
| MgCl2・6H2O | 0.222222222 G_PER_L | Role: Mineral source; Properties: Defined component, Simple component, Inorganic compound |
| NaHCO3 | 2.777777778 G_PER_L | Role: Buffer; Properties: Defined component, Simple component, Inorganic compound |
| Yeast extract (BD-Difco) | 0.222222222 G_PER_L | Properties: Undefined component |
| Carbon dioxide gas | variable VARIABLE | Properties: Gas |
| Nitrogen gas | variable VARIABLE | Properties: ガス |
Defined in TOGO medium M385. Local TOGO stock formulation is represented as an inline composition; it is not flattened into final-medium ingredients.
Solution B
Dose: 100 ML_PER_L
| Ingredient | Concentration | Notes |
|---|---|---|
| Distilled water | 1000 ML_PER_L | Role: Solvating media; Properties: Defined component, Inorganic compound, Simple component |
| o--phthalic acid | 0.332 G_PER_L | Role: Carbon source; Properties: Defined component, Simple component, Organic compound |
| N2 | variable VARIABLE | Properties: ガス |
Defined in TOGO medium M385. Local TOGO stock formulation is represented as an inline composition; it is not flattened into final-medium ingredients.
Target organisms
No target organisms are recorded.
Provenance
| Timestamp | Curator | Action | Notes |
|---|---|---|---|
| 2026-01-26T17:53:16.483738Z | mediadive-import | Imported from MediaDive | Source: JCM, ID: J390 |
| 2026-02-03T11:26:54.780423 | quality-tagger-v1.0 | Added data quality flag | Marked as incomplete_composition due to placeholder ingredients |
| 2026-03-13T06:19:15.454615Z | culturemech-id-assigner-v1.0 | Assigned CultureMech ID | Assigned stable identifier: CultureMech:002747 |
| 2026-03-17T19:45:28.854928+00:00 | normalize_media_names_to_snake_case.py | NAME_NORMALIZED | Normalized name from "JI MEDIUM" to "ji_medium" for consistent matching |
| 2026-04-05T17:20:25.482559 | mark_unavailable_media | MARKED_UNAVAILABLE | Source database has no composition data. Category: EMPTY. JCM page returns "Nothing found" |
| 2026-05-16T08:57:36.428064+00:00 | migrate_data_quality_flags.py | MIGRATED_DATA_QUALITY_FLAGS | dict(2 keys) -> list(2 entries) |
| 2026-08-06T07:56:36.105414+00:00 | curate_placeholder_composition.py | REMOVED_PLACEHOLDER_INGREDIENT | Removed the 'See source for composition' placeholder ingredient; the record carries no imported composition and is flagged incomplete (#175). |
| 2026-08-25T00:00:00-07:00 | repair_jcm_missing_from_togo.py | RECOVERED_JCM_COMPOSITION_FROM_TOGO | Recovered JCM J390 from source-equivalent TOGO M385. Preserved final ingredients and stock-solution boundaries; did not flatten referenced media or stocks. |
| 2026-08-26T02:13:02.238555+00:00 | apply_mim_groundings.py | Adopted MIM published grounding | Grounded 8 ingredient(s) from MIM's ingredient_mappings.sssom.tsv (2026-08-18), exactMatch only, where this record carried no CHEBI term (#308). |