Overview
- External ontology
- MEDIADB:317 (source link unavailable) — Protoplasting Medium
- Applications
-
- Cultivation of genome-sequenced organisms
- Metabolic modeling
- Systems biology research
- Notes
- Source: MediaDB (Chemically-defined media for genome-sequenced organisms) Reference: https://mediadb.systemsbiology.net/
Composition
flowchart LR
CultureMech_007216["protoplasting_medium"]
ing0_Sucrose["Sucrose"]
CultureMech_007216 --> ing0_Sucrose
CHEBI_17992["CHEBI:17992"]
ing0_Sucrose -.-> CHEBI_17992
ing1_Magnesium_chloride["Magnesium chloride"]
CultureMech_007216 --> ing1_Magnesium_chloride
CHEBI_86345["CHEBI:86345"]
ing1_Magnesium_chloride -.-> CHEBI_86345
ing2_Ammonium_chloride["Ammonium chloride"]
CultureMech_007216 --> ing2_Ammonium_chloride
CHEBI_31206["CHEBI:31206"]
ing2_Ammonium_chloride -.-> CHEBI_31206
ing3_Potassium_chloride["Potassium chloride"]
CultureMech_007216 --> ing3_Potassium_chloride
CHEBI_32588["CHEBI:32588"]
ing3_Potassium_chloride -.-> CHEBI_32588
ing4_Tromethamine["Tromethamine"]
CultureMech_007216 --> ing4_Tromethamine
CHEBI_9754["CHEBI:9754"]
ing4_Tromethamine -.-> CHEBI_9754
ing5_Sodium_sulfate["Sodium sulfate"]
CultureMech_007216 --> ing5_Sodium_sulfate
CHEBI_32149["CHEBI:32149"]
ing5_Sodium_sulfate -.-> CHEBI_32149
ing6_Sodium_chloride["Sodium chloride"]
CultureMech_007216 --> ing6_Sodium_chloride
CHEBI_26710["CHEBI:26710"]
ing6_Sodium_chloride -.-> CHEBI_26710
Ingredients (7)
| # | Ingredient | Concentration | Ontology | Notes |
|---|---|---|---|---|
| 1 |
Sucrose
C12H22O11 342.297 g/mol
|
200.0 MILLIMOLAR |
CHEBI:17992
sucrose
|
Cross-references: KEGG:sucr |
| 2 |
Magnesium chloride
2Cl.6H2O.Mg 203.301 g/mol
|
22.99 MILLIMOLAR |
CHEBI:86345
magnesium dichloride hexahydrate
|
|
| 3 |
Ammonium chloride
Cl.H4N 53.492 g/mol
|
18.7 MILLIMOLAR |
CHEBI:31206
ammonium chloride
|
|
| 4 |
Potassium chloride
Cl.K 74.551 g/mol
|
0.4695 MILLIMOLAR |
CHEBI:32588
potassium chloride
|
|
| 5 |
Tromethamine
C4H11NO3 121.136 g/mol
|
99.06 MILLIMOLAR |
CHEBI:9754
tris
|
|
| 6 |
Sodium sulfate
2Na.O4S 142.043 g/mol
|
0.9311 MILLIMOLAR |
CHEBI:32149
sodium sulfate
|
|
| 7 |
Sodium chloride
Cl.Na 58.443 g/mol
|
0.9925 MILLIMOLAR |
CHEBI:26710
sodium chloride
|
Preparation
- Dissolve all ingredients in distilled water to specified concentrations
- Adjust pH if specified in original formulation
- Sterilize by filtration (0.22 μm) to preserve heat-sensitive components
Target organisms
No target organisms are recorded.
Provenance
Merged from 1 source record.
- protoplasting_medium (CultureMech:007216)
| Timestamp | Curator | Action | Notes |
|---|---|---|---|
| 2026-01-27T07:21:45.487353Z | mediadb-import | Imported from MediaDB | Source: MediaDB (Institute for Systems Biology), Medium ID: 317, Reference: Mazumdar et al. (2014) PLOS One |
| 2026-01-28T19:48:07.895539Z | chebi-enrichment | Added CHEBI ontology terms to ingredients | Enriched using MicrobeMediaParam and MediaDive chemical mappings |
| 2026-03-13T06:19:46.942922Z | culturemech-id-assigner-v1.0 | Assigned CultureMech ID | Assigned stable identifier: CultureMech:007216 |
| 2026-03-17T06:29:41.000000Z | mediaingredientmech-enrichment-v1.0 | Added MediaIngredientMech links | Linked ingredients to MediaIngredientMech identifiers |
| 2026-03-17T19:46:05.129143+00:00 | normalize_media_names_to_snake_case.py | NAME_NORMALIZED | Normalized name from "Protoplasting Medium" to "protoplasting_medium" for consistent matching |
| 2026-06-05T07:41:42.618653+00:00 | mim-legacy-to-chebi-migration-v1.0 | Refreshed legacy MediaIngredientMech links to CHEBI keying | Replaced 6 legacy mediaingredientmech_term link(s) with mediaingredientmech_chebi_term (id-safe: ingredient's own CHEBI + label). MIM deprecated the MediaIngredientMech:NNNNNN id scheme. |
| 2026-08-06T03:05:53.595472+00:00 | merge_recipes.py | MERGED_RECIPES | merged 1 source recipe(s) on fingerprint d060484437a3e005024fb0d9d01e761582acead62f15fc96b9a4b751bbd999c8 |