Overview
- External ontology
- MEDIADB:380 (source link unavailable) — 'Minimal Seed Medium (Liu 2004
- 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_007284["minimal_seed_medium_liu_2004"]
ing0_Glucose["Glucose"]
CultureMech_007284 --> ing0_Glucose
CHEBI_17234["CHEBI:17234"]
ing0_Glucose -.-> CHEBI_17234
ing1_Biotin["Biotin"]
CultureMech_007284 --> ing1_Biotin
CHEBI_15956["CHEBI:15956"]
ing1_Biotin -.-> CHEBI_15956
ing2_Riboflavin["Riboflavin"]
CultureMech_007284 --> ing2_Riboflavin
CHEBI_17015["CHEBI:17015"]
ing2_Riboflavin -.-> CHEBI_17015
ing3_Pyridoxine_HCl["Pyridoxine HCl"]
CultureMech_007284 --> ing3_Pyridoxine_HCl
CHEBI_30961["CHEBI:30961"]
ing3_Pyridoxine_HCl -.-> CHEBI_30961
ing4_Nicotinate["Nicotinate"]
CultureMech_007284 --> ing4_Nicotinate
CHEBI_15940["CHEBI:15940"]
ing4_Nicotinate -.-> CHEBI_15940
ing5_Potassium_dihydrogen_phosphate["Potassium dihydrogen phosphate"]
CultureMech_007284 --> ing5_Potassium_dihydrogen_phosphate
CHEBI_63036["CHEBI:63036"]
ing5_Potassium_dihydrogen_phosphate -.-> CHEBI_63036
ing6_Thiamine_HCl["Thiamine HCl"]
CultureMech_007284 --> ing6_Thiamine_HCl
CHEBI_49105["CHEBI:49105"]
ing6_Thiamine_HCl -.-> CHEBI_49105
ing7_Magnesium_sulfate["Magnesium sulfate"]
CultureMech_007284 --> ing7_Magnesium_sulfate
CHEBI_32599["CHEBI:32599"]
ing7_Magnesium_sulfate -.-> CHEBI_32599
Ingredients (8)
| # | Ingredient | Concentration | Ontology | Notes |
|---|---|---|---|---|
| 1 |
Glucose
C6H12O6 180.156 g/mol
|
555.1 MILLIMOLAR |
CHEBI:17234
glucose
|
|
| 2 |
Biotin
C10H16N2O3S 244.316 g/mol
|
4.093e-05 MILLIMOLAR |
CHEBI:15956
biotin
|
Cross-references: KEGG:btn |
| 3 |
Riboflavin
C17H20N4O6 376.369 g/mol
|
0.0001329 MILLIMOLAR |
CHEBI:17015
riboflavin
|
Cross-references: KEGG:ribflv |
| 4 |
Pyridoxine HCl
C8H11NO3.HCl 205.641 g/mol
|
0.0004863 MILLIMOLAR |
CHEBI:30961
pyridoxine hydrochloride
|
|
| 5 |
Nicotinate
C6H5NO2 123.111 g/mol
|
0.03249 MILLIMOLAR |
CHEBI:15940
nicotinic acid
|
Cross-references: KEGG:nac |
| 6 |
Potassium dihydrogen phosphate
H2O4P.K 136.084 g/mol
|
36.74 MILLIMOLAR |
CHEBI:63036
potassium dihydrogen phosphate
|
|
| 7 |
Thiamine HCl
C12H17N4OS.Cl.HCl 337.276 g/mol
|
4.447e-05 MILLIMOLAR |
CHEBI:49105
thiamine hydrochloride
|
|
| 8 |
Magnesium sulfate
Mg.O4S 120.368 g/mol
|
3.246 MILLIMOLAR |
CHEBI:32599
magnesium sulfate
|
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.
- minimal_seed_medium_liu_2004 (CultureMech:007284)
| Timestamp | Curator | Action | Notes |
|---|---|---|---|
| 2026-01-27T07:21:46.055469Z | mediadb-import | Imported from MediaDB | Source: MediaDB (Institute for Systems Biology), Medium ID: 380, Reference: Mazumdar et al. (2014) PLOS One |
| 2026-01-28T19:48:38.563958Z | chebi-enrichment | Added CHEBI ontology terms to ingredients | Enriched using MicrobeMediaParam and MediaDive chemical mappings |
| 2026-02-06T05:10:50.133014Z | invalid-chebi-removal | Removed 1 invalid CHEBI ID(s) | Removed CHEBI IDs with invalid format (7+ digits) from MicrobeMediaParam source data |
| 2026-03-13T06:19:47.396486Z | culturemech-id-assigner-v1.0 | Assigned CultureMech ID | Assigned stable identifier: CultureMech:007284 |
| 2026-03-17T06:30:47.000000Z | mediaingredientmech-enrichment-v1.0 | Added MediaIngredientMech links | Linked ingredients to MediaIngredientMech identifiers |
| 2026-03-17T19:46:05.615948+00:00 | normalize_media_names_to_snake_case.py | NAME_NORMALIZED | Normalized name from "'Minimal Seed Medium (Liu 2004" to "minimal_seed_medium_liu_2004" for consistent matching |
| 2026-06-05T07:41:34.793662+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. |
| 2026-06-08T23:19:48.559464+00:00 | chebi-regrounding-v1.0 | Corrected CHEBI ingredient grounding (audit G21/G22) | Re-grounded 2 term reference(s) to the correct CHEBI (see reports/chebi_grounding_audit.md). Label-conditional fixes for pyridoxine/pyridoxamine, glycerol, MnSO4, Ca(NO3)2, selenate; casamino acids de-grounded (mixture, no single CHEBI). |
| 2026-08-06T03:05:46.500975+00:00 | merge_recipes.py | MERGED_RECIPES | merged 1 source recipe(s) on fingerprint 166c16216fe53ec0bcb4e0b6e45e00390d94aa43f94ae0cfaedb00541324b12c |