Overview
- External ontology
- mediadive.medium:J939 (source link unavailable) — MODIFIED HALOSIMPLEX MEDIUM
- Applications
-
- Microbial cultivation
- Notes
- Source: JCM | Link: https://www.jcm.riken.jp/cgi-bin/jcm/jcm_grmd?GRMD=939 Composition recovery source: https://togomedium.org/medium/M985 (TOGO snapshot of JCM medium J939).
Composition
flowchart LR
CultureMech_003286["modified_halosimplex_medium"]
ing0_Distilled_water["Distilled water"]
CultureMech_003286 --> ing0_Distilled_water
CHEBI_15377["CHEBI:15377"]
ing0_Distilled_water -.-> CHEBI_15377
ing1_MgSO4_7H2O["MgSO4・7H2O"]
CultureMech_003286 --> ing1_MgSO4_7H2O
ing2_NaCl["NaCl"]
CultureMech_003286 --> ing2_NaCl
CHEBI_26710["CHEBI:26710"]
ing2_NaCl -.-> CHEBI_26710
ing3_K2HPO4["K2HPO4"]
CultureMech_003286 --> ing3_K2HPO4
CHEBI_131527["CHEBI:131527"]
ing3_K2HPO4 -.-> CHEBI_131527
ing4_KCl["KCl"]
CultureMech_003286 --> ing4_KCl
CHEBI_32588["CHEBI:32588"]
ing4_KCl -.-> CHEBI_32588
ing5__NH4_2SO4["(NH4)2SO4"]
CultureMech_003286 --> ing5__NH4_2SO4
CHEBI_62946["CHEBI:62946"]
ing5__NH4_2SO4 -.-> CHEBI_62946
ing6_Sodium_pyruvate["Sodium pyruvate"]
CultureMech_003286 --> ing6_Sodium_pyruvate
ing7_Glycerol["Glycerol"]
CultureMech_003286 --> ing7_Glycerol
CHEBI_17754["CHEBI:17754"]
ing7_Glycerol -.-> CHEBI_17754
Ingredients (8)
| # | Ingredient | Concentration | Ontology | Notes |
|---|---|---|---|---|
| 1 |
Distilled water
H2O 18.015 g/mol
|
1 L |
CHEBI:15377
water
|
Role: Solvating media; Properties: Defined component, Inorganic compound, Simple component |
| 2 | MgSO4・7H2O | 10 G_PER_L | Role: Mineral source; Properties: Defined component, Inorganic compound, Simple component | |
| 3 |
NaCl
Cl.Na 58.443 g/mol
|
210 G_PER_L |
CHEBI:26710
sodium chloride
|
Role: Mineral source; Properties: Defined component, Simple component, Inorganic compound |
| 4 |
K2HPO4
HO4P.2K 174.174 g/mol
|
0.5 G_PER_L |
CHEBI:131527
dipotassium hydrogen phosphate
|
Role: Buffer; Properties: Simple component, Inorganic compound, Defined component |
| 5 |
KCl
Cl.K 74.551 g/mol
|
4 G_PER_L |
CHEBI:32588
potassium chloride
|
Role: Mineral source; Properties: Simple component, Inorganic compound, Defined component |
| 6 |
(NH4)2SO4
2H4N.O4S 132.141 g/mol
|
1 G_PER_L |
CHEBI:62946
ammonium sulfate
|
Role: Nitrogen source; Properties: Inorganic compound, Simple component, Defined component |
| 7 | Sodium pyruvate | 2.5 G_PER_L | Role: Carbon source; Properties: Organic compound, Simple component, Defined component | |
| 8 |
Glycerol
C3H8O3 92.094 g/mol
|
2.5 G_PER_L |
CHEBI:17754
glycerol
|
Role: Carbon source; Properties: Simple component, Organic compound, Defined component |
Preparation
- Add components to distilled water and bring volume to 1.0 L. Adjust pH to 7.15.
- For solid agar slopes or plates, add 20.0 g Bacto agar (BD-Difco).
- Use Medium No. [298] supplemented with 210.0 g/L (final) NaCl and 10.0 g/L (final) MgSO4・7H2O.
Solutions
Trace metal solution (see Medium [M292])
Dose: 2 ML_PER_L
Defined in TOGO medium M292.
Target organisms
No target organisms are recorded.
Provenance
| Timestamp | Curator | Action | Notes |
|---|---|---|---|
| 2026-01-26T17:53:18.069617Z | mediadive-import | Imported from MediaDive | Source: JCM, ID: J939 |
| 2026-02-03T11:26:56.695885 | quality-tagger-v1.0 | Added data quality flag | Marked as incomplete_composition due to placeholder ingredients |
| 2026-03-13T06:19:19.215654Z | culturemech-id-assigner-v1.0 | Assigned CultureMech ID | Assigned stable identifier: CultureMech:003286 |
| 2026-03-17T19:45:33.140054+00:00 | normalize_media_names_to_snake_case.py | NAME_NORMALIZED | Normalized name from "MODIFIED HALOSIMPLEX MEDIUM" to "modified_halosimplex_medium" for consistent matching |
| 2026-04-05T17:20:25.479129 | mark_unavailable_media | MARKED_UNAVAILABLE | Source database has no composition data. Category: EMPTY. JCM page returns "Nothing found" |
| 2026-05-16T08:58:09.575674+00:00 | migrate_data_quality_flags.py | MIGRATED_DATA_QUALITY_FLAGS | dict(2 keys) -> list(2 entries) |
| 2026-08-06T07:56:36.075041+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 J939 from source-equivalent TOGO M985. Preserved final ingredients and stock-solution boundaries; did not flatten referenced media or stocks. |
| 2026-08-26T02:12:22.233208+00:00 | apply_mim_groundings.py | Adopted MIM published grounding | Grounded 6 ingredient(s) from MIM's ingredient_mappings.sssom.tsv (2026-08-18), exactMatch only, where this record carried no CHEBI term (#308). |