Overview
- External ontology
- MEDIADB:473 (source link unavailable) — McN Medium (Whitman)
- Applications
-
- Cultivation of genome-sequenced organisms
- Metabolic modeling
- Systems biology research
- High-metal flag
- True
- Notes
- Source: MediaDB (Chemically-defined media for genome-sequenced organisms) Reference: https://mediadb.systemsbiology.net/
Composition
flowchart LR
CultureMech_007380["mcn_medium_whitman"]
ing0_Sodium_sulfide["Sodium sulfide"]
CultureMech_007380 --> ing0_Sodium_sulfide
CHEBI_76208["CHEBI:76208"]
ing0_Sodium_sulfide -.-> CHEBI_76208
ing1_Cysteine_HCl["Cysteine-HCl"]
CultureMech_007380 --> ing1_Cysteine_HCl
CHEBI_91247["CHEBI:91247"]
ing1_Cysteine_HCl -.-> CHEBI_91247
ing2_2_Mercaptoethanesulfonate["2-Mercaptoethanesulfonate"]
CultureMech_007380 --> ing2_2_Mercaptoethanesulfonate
CHEBI_17905["CHEBI:17905"]
ing2_2_Mercaptoethanesulfonate -.-> CHEBI_17905
ing3_Sodium_bicarbonate["Sodium bicarbonate"]
CultureMech_007380 --> ing3_Sodium_bicarbonate
CHEBI_32139["CHEBI:32139"]
ing3_Sodium_bicarbonate -.-> CHEBI_32139
ing4_Potassium_chloride["Potassium chloride"]
CultureMech_007380 --> ing4_Potassium_chloride
CHEBI_32588["CHEBI:32588"]
ing4_Potassium_chloride -.-> CHEBI_32588
ing5_Resazurin["Resazurin"]
CultureMech_007380 --> ing5_Resazurin
CHEBI_8806["CHEBI:8806"]
ing5_Resazurin -.-> CHEBI_8806
ing6_Sodium_chloride["Sodium chloride"]
CultureMech_007380 --> ing6_Sodium_chloride
CHEBI_26710["CHEBI:26710"]
ing6_Sodium_chloride -.-> CHEBI_26710
ing7_2_Methylpropanoate["2-Methylpropanoate"]
CultureMech_007380 --> ing7_2_Methylpropanoate
ing8_Zinc_sulfate["Zinc sulfate"]
CultureMech_007380 --> ing8_Zinc_sulfate
CHEBI_35176["CHEBI:35176"]
ing8_Zinc_sulfate -.-> CHEBI_35176
ing9_Sodium_tungstate["Sodium tungstate"]
CultureMech_007380 --> ing9_Sodium_tungstate
CHEBI_63940["CHEBI:63940"]
ing9_Sodium_tungstate -.-> CHEBI_63940
ing10_Nitrilotriacetic_acid["Nitrilotriacetic acid"]
CultureMech_007380 --> ing10_Nitrilotriacetic_acid
CHEBI_44557["CHEBI:44557"]
ing10_Nitrilotriacetic_acid -.-> CHEBI_44557
ing11_Manganese_sulfate["Manganese sulfate"]
CultureMech_007380 --> ing11_Manganese_sulfate
CHEBI_86364["CHEBI:86364"]
ing11_Manganese_sulfate -.-> CHEBI_86364
ing12_Nickel_chloride["Nickel chloride"]
CultureMech_007380 --> ing12_Nickel_chloride
CHEBI_34887["CHEBI:34887"]
ing12_Nickel_chloride -.-> CHEBI_34887
ing13_Ammonium_chloride["Ammonium chloride"]
CultureMech_007380 --> ing13_Ammonium_chloride
CHEBI_31206["CHEBI:31206"]
ing13_Ammonium_chloride -.-> CHEBI_31206
ing14_Magnesium_sulfate["Magnesium sulfate"]
CultureMech_007380 --> ing14_Magnesium_sulfate
CHEBI_32599["CHEBI:32599"]
ing14_Magnesium_sulfate -.-> CHEBI_32599
ing15_Sodium_molybdate["Sodium molybdate"]
CultureMech_007380 --> ing15_Sodium_molybdate
CHEBI_75215["CHEBI:75215"]
ing15_Sodium_molybdate -.-> CHEBI_75215
ing16_Magnesium_chloride["Magnesium chloride"]
CultureMech_007380 --> ing16_Magnesium_chloride
CHEBI_86345["CHEBI:86345"]
ing16_Magnesium_chloride -.-> CHEBI_86345
ing17_Cobalt_chloride["Cobalt chloride"]
CultureMech_007380 --> ing17_Cobalt_chloride
CHEBI_35696["CHEBI:35696"]
ing17_Cobalt_chloride -.-> CHEBI_35696
ing18_Pentanoate["Pentanoate"]
CultureMech_007380 --> ing18_Pentanoate
ing19_Ferrous_ammonium_sulfate["Ferrous ammonium sulfate"]
CultureMech_007380 --> ing19_Ferrous_ammonium_sulfate
ing20_Cupric_sulfate["Cupric sulfate"]
CultureMech_007380 --> ing20_Cupric_sulfate
CHEBI_23414["CHEBI:23414"]
ing20_Cupric_sulfate -.-> CHEBI_23414
ing21_Sodium_selenite["Sodium selenite"]
CultureMech_007380 --> ing21_Sodium_selenite
CHEBI_48843["CHEBI:48843"]
ing21_Sodium_selenite -.-> CHEBI_48843
ing22_Calcium_chloride_anhydrous["Calcium chloride anhydrous"]
CultureMech_007380 --> ing22_Calcium_chloride_anhydrous
CHEBI_3312["CHEBI:3312"]
ing22_Calcium_chloride_anhydrous -.-> CHEBI_3312
ing23_Potassium_dibasic_phosphate["Potassium dibasic phosphate"]
CultureMech_007380 --> ing23_Potassium_dibasic_phosphate
CHEBI_131527["CHEBI:131527"]
ing23_Potassium_dibasic_phosphate -.-> CHEBI_131527
ing24_2_methylbutanoic_acid["2-methylbutanoic acid"]
CultureMech_007380 --> ing24_2_methylbutanoic_acid
ing25_3_Methylbutanoic_acid["3-Methylbutanoic acid"]
CultureMech_007380 --> ing25_3_Methylbutanoic_acid
Ingredients (26)
| # | Ingredient | Concentration | Ontology | Notes |
|---|---|---|---|---|
| 1 |
Sodium sulfide
2Na.S 78.047 g/mol
|
2.073 MILLIMOLAR |
CHEBI:76208
sodium sulfide (anhydrous)
|
|
| 2 |
Cysteine-HCl
C3H7NO2S.HCl 157.622 g/mol
|
3.172 MILLIMOLAR |
CHEBI:91247
L-cysteine hydrochloride
|
|
| 3 |
2-Mercaptoethanesulfonate
C2H6O3S2 142.201 g/mol
|
7.032e-06 MILLIMOLAR |
CHEBI:17905
coenzyme M
|
Cross-references: KEGG:com |
| 4 |
Sodium bicarbonate
CHO3.Na 84.006 g/mol
|
59.52 MILLIMOLAR |
CHEBI:32139
sodium hydrogencarbonate
|
|
| 5 |
Potassium chloride
Cl.K 74.551 g/mol
|
4.493 MILLIMOLAR |
CHEBI:32588
potassium chloride
|
|
| 6 |
Resazurin
C12H7NO4 229.191 g/mol
|
0.0004363 MILLIMOLAR |
CHEBI:8806
Resazurin
|
|
| 7 |
Sodium chloride
Cl.Na 58.443 g/mol
|
376.0 MILLIMOLAR |
CHEBI:26710
sodium chloride
|
|
| 8 | 2-Methylpropanoate | 0.05675 MILLIMOLAR | ||
| 9 |
Zinc sulfate
O4S.Zn 161.453 g/mol
|
0.003478 MILLIMOLAR |
CHEBI:35176
zinc sulfate
|
|
| 10 |
Sodium tungstate
2Na.O4W 293.816 g/mol
|
0.003032 MILLIMOLAR |
CHEBI:63940
sodium tungstate
|
|
| 11 |
Nitrilotriacetic acid
C6H9NO6 191.139 g/mol
|
0.07848 MILLIMOLAR |
CHEBI:44557
nitrilotriacetic acid
|
|
| 12 |
Manganese sulfate
H2O.Mn.O4S 169.016 g/mol
|
0.005347 MILLIMOLAR |
CHEBI:86364
manganese(II) sulfate monohydrate
|
|
| 13 |
Nickel chloride
Cl2Ni 129.599 g/mol
|
0.001052 MILLIMOLAR |
CHEBI:34887
nickel dichloride
|
|
| 14 |
Ammonium chloride
Cl.H4N 53.492 g/mol
|
9.348 MILLIMOLAR |
CHEBI:31206
ammonium chloride
|
|
| 15 |
Magnesium sulfate
Mg.O4S 120.368 g/mol
|
14.0 MILLIMOLAR |
CHEBI:32599
magnesium sulfate
|
|
| 16 |
Sodium molybdate
MoO4.2Na 205.916 g/mol
|
0.004133 MILLIMOLAR |
CHEBI:75215
sodium molybdate (anhydrous)
|
|
| 17 |
Magnesium chloride
2Cl.6H2O.Mg 203.301 g/mol
|
13.53 MILLIMOLAR |
CHEBI:86345
magnesium dichloride hexahydrate
|
|
| 18 |
Cobalt chloride
2Cl.Co 129.839 g/mol
|
0.004203 MILLIMOLAR |
CHEBI:35696
cobalt dichloride
|
|
| 19 | Pentanoate | 0.04896 MILLIMOLAR | ||
| 20 | Ferrous ammonium sulfate | 0.005355 MILLIMOLAR | ||
| 21 |
Cupric sulfate
Cu.O4S 159.609 g/mol
|
0.0004005 MILLIMOLAR |
CHEBI:23414
copper(II) sulfate
|
|
| 22 |
Sodium selenite
2Na.O3Se 172.937 g/mol
|
0.01156 MILLIMOLAR |
CHEBI:48843
disodium selenite
|
|
| 23 |
Calcium chloride anhydrous
Ca.2Cl 110.984 g/mol
|
1.085 MILLIMOLAR |
CHEBI:3312
calcium dichloride
|
|
| 24 |
Potassium dibasic phosphate
HO4P.2K 174.174 g/mol
|
0.8038 MILLIMOLAR |
CHEBI:131527
dipotassium hydrogen phosphate
|
|
| 25 | 2-methylbutanoic acid | 0.04896 MILLIMOLAR | ||
| 26 | 3-Methylbutanoic acid | 0.04896 MILLIMOLAR |
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
| Timestamp | Curator | Action | Notes |
|---|---|---|---|
| 2026-01-27T07:21:47.016298Z | mediadb-import | Imported from MediaDB | Source: MediaDB (Institute for Systems Biology), Medium ID: 473, Reference: Mazumdar et al. (2014) PLOS One |
| 2026-01-28T19:48:14.528452Z | chebi-enrichment | Added CHEBI ontology terms to ingredients | Enriched using MicrobeMediaParam and MediaDive chemical mappings |
| 2026-03-13T06:19:48.529896Z | culturemech-id-assigner-v1.0 | Assigned CultureMech ID | Assigned stable identifier: CultureMech:007380 |
| 2026-03-17T06:29:56.000000Z | mediaingredientmech-enrichment-v1.0 | Added MediaIngredientMech links | Linked ingredients to MediaIngredientMech identifiers |
| 2026-03-17T19:46:06.872813+00:00 | normalize_media_names_to_snake_case.py | NAME_NORMALIZED | Normalized name from "'McN Medium (Whitman" to "mcn_medium_whitman" for consistent matching |
| 2026-06-05T07:41:13.442654+00:00 | mim-legacy-to-chebi-migration-v1.0 | Refreshed legacy MediaIngredientMech links to CHEBI keying | Replaced 11 legacy mediaingredientmech_term link(s) with mediaingredientmech_chebi_term (id-safe: ingredient's own CHEBI + label). MIM deprecated the MediaIngredientMech:NNNNNN id scheme. |
| 2026-08-15T20:08:07.574626+00:00 | dedupe_identical_ingredients.py | REMOVED_DUPLICATE_INGREDIENT_ROWS | Removed 3 ingredient row(s) that were identical in every field to another row in this record, which made the recipe read as double-strength in those components (#263): Sodium chloride, Tryptone, Yeast extract. |
| 2026-08-31T06:17:37.792230+00:00 | repair_mediadb_names.py | REPAIRED_MEDIADB_TRUNCATED_NAME | Restored the medium's own name in media_term.term.label, original_name. The MediaDB SQL parser truncated every value containing a parenthesis at that parenthesis; recovered from media_database.07Oct2015.sql. |
| 2026-10-09T18:40:40.422932+00:00 | codex | RESTORED_MEDIADB_INGREDIENT_MEMBERSHIP_AND_UNKNOWN_AMOUNTS | Restored the exact MediaDB formulation and distinguished missing from variable amounts. Every current ingredient has a source-table snippet. Evidence establishes MediaDB's reported amounts for its own compound labels, not an independent verification of the original articles or existing chemical-form mappings. Existing preparation, classification, physical-state and organism claims are unchanged and are not certified by the concentration table. No mass conversion, final-volume assumption, exact-variant merge or taxa-media association. |