Overview
- External ontology
- MEDIADB:1 (source link unavailable) — CDM; Teusink et al
- 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_007092["cdm_teusink_et_al"]
ing0_L_Glutamate["L-Glutamate"]
CultureMech_007092 --> ing0_L_Glutamate
CHEBI_16015["CHEBI:16015"]
ing0_L_Glutamate -.-> CHEBI_16015
ing1_D_Glucose["D-Glucose"]
CultureMech_007092 --> ing1_D_Glucose
CHEBI_17634["CHEBI:17634"]
ing1_D_Glucose -.-> CHEBI_17634
ing2_Glycine["Glycine"]
CultureMech_007092 --> ing2_Glycine
CHEBI_15428["CHEBI:15428"]
ing2_Glycine -.-> CHEBI_15428
ing3_L_Alanine["L-Alanine"]
CultureMech_007092 --> ing3_L_Alanine
CHEBI_16977["CHEBI:16977"]
ing3_L_Alanine -.-> CHEBI_16977
ing4_L_Lysine["L-Lysine"]
CultureMech_007092 --> ing4_L_Lysine
CHEBI_18019["CHEBI:18019"]
ing4_L_Lysine -.-> CHEBI_18019
ing5_L_Aspartate["L-Aspartate"]
CultureMech_007092 --> ing5_L_Aspartate
ing6_L_Arginine["L-Arginine"]
CultureMech_007092 --> ing6_L_Arginine
CHEBI_16467["CHEBI:16467"]
ing6_L_Arginine -.-> CHEBI_16467
ing7_L_Serine["L-Serine"]
CultureMech_007092 --> ing7_L_Serine
CHEBI_17115["CHEBI:17115"]
ing7_L_Serine -.-> CHEBI_17115
ing8_Ascorbate["Ascorbate"]
CultureMech_007092 --> ing8_Ascorbate
ing9_L_Methionine["L-Methionine"]
CultureMech_007092 --> ing9_L_Methionine
CHEBI_16643["CHEBI:16643"]
ing9_L_Methionine -.-> CHEBI_16643
ing10_L_Tryptophan["L-Tryptophan"]
CultureMech_007092 --> ing10_L_Tryptophan
CHEBI_16828["CHEBI:16828"]
ing10_L_Tryptophan -.-> CHEBI_16828
ing11_L_Phenylalanine["L-Phenylalanine"]
CultureMech_007092 --> ing11_L_Phenylalanine
CHEBI_17295["CHEBI:17295"]
ing11_L_Phenylalanine -.-> CHEBI_17295
ing12_L_Tyrosine["L-Tyrosine"]
CultureMech_007092 --> ing12_L_Tyrosine
CHEBI_17895["CHEBI:17895"]
ing12_L_Tyrosine -.-> CHEBI_17895
ing13_Uracil["Uracil"]
CultureMech_007092 --> ing13_Uracil
CHEBI_17568["CHEBI:17568"]
ing13_Uracil -.-> CHEBI_17568
ing14_Biotin["Biotin"]
CultureMech_007092 --> ing14_Biotin
CHEBI_15956["CHEBI:15956"]
ing14_Biotin -.-> CHEBI_15956
ing15_L_Leucine["L-Leucine"]
CultureMech_007092 --> ing15_L_Leucine
CHEBI_15603["CHEBI:15603"]
ing15_L_Leucine -.-> CHEBI_15603
ing16_L_Histidine["L-Histidine"]
CultureMech_007092 --> ing16_L_Histidine
CHEBI_15971["CHEBI:15971"]
ing16_L_Histidine -.-> CHEBI_15971
ing17_Adenine["Adenine"]
CultureMech_007092 --> ing17_Adenine
ing18_L_Proline["L-Proline"]
CultureMech_007092 --> ing18_L_Proline
CHEBI_17203["CHEBI:17203"]
ing18_L_Proline -.-> CHEBI_17203
ing19_L_Valine["L-Valine"]
CultureMech_007092 --> ing19_L_Valine
CHEBI_16414["CHEBI:16414"]
ing19_L_Valine -.-> CHEBI_16414
ing20_L_Threonine["L-Threonine"]
CultureMech_007092 --> ing20_L_Threonine
CHEBI_16857["CHEBI:16857"]
ing20_L_Threonine -.-> CHEBI_16857
ing21_Thymidine["Thymidine"]
CultureMech_007092 --> ing21_Thymidine
CHEBI_17748["CHEBI:17748"]
ing21_Thymidine -.-> CHEBI_17748
ing22_Guanine["Guanine"]
CultureMech_007092 --> ing22_Guanine
CHEBI_16235["CHEBI:16235"]
ing22_Guanine -.-> CHEBI_16235
ing23_Nicotinate["Nicotinate"]
CultureMech_007092 --> ing23_Nicotinate
CHEBI_15940["CHEBI:15940"]
ing23_Nicotinate -.-> CHEBI_15940
ing24_Riboflavin["Riboflavin"]
CultureMech_007092 --> ing24_Riboflavin
CHEBI_17015["CHEBI:17015"]
ing24_Riboflavin -.-> CHEBI_17015
ing25_Inosine["Inosine"]
CultureMech_007092 --> ing25_Inosine
CHEBI_17596["CHEBI:17596"]
ing25_Inosine -.-> CHEBI_17596
ing26_Orotate["Orotate"]
CultureMech_007092 --> ing26_Orotate
ing27_Xanthine["Xanthine"]
CultureMech_007092 --> ing27_Xanthine
CHEBI_15318["CHEBI:15318"]
ing27_Xanthine -.-> CHEBI_15318
ing28_L_Isoleucine["L-Isoleucine"]
CultureMech_007092 --> ing28_L_Isoleucine
CHEBI_17191["CHEBI:17191"]
ing28_L_Isoleucine -.-> CHEBI_17191
ing29_Folate["Folate"]
CultureMech_007092 --> ing29_Folate
CHEBI_27470["CHEBI:27470"]
ing29_Folate -.-> CHEBI_27470
CultureMech_007092 --> more["...11 more"]
Ingredients (41)
| # | Ingredient | Concentration | Ontology | Notes |
|---|---|---|---|---|
| 1 |
L-Glutamate
C5H9NO4 147.13 g/mol
|
3.39836 MILLIMOLAR |
CHEBI:16015
L-glutamic acid
|
Cross-references: KEGG:glu-L |
| 2 |
D-Glucose
C6H12O6 180.156 g/mol
|
55.5062 MILLIMOLAR |
CHEBI:17634
D-glucose
|
Cross-references: KEGG:glc_D |
| 3 |
Glycine
C2H5NO2 75.067 g/mol
|
2.33116 MILLIMOLAR |
CHEBI:15428
glycine
|
Cross-references: KEGG:gly |
| 4 |
L-Alanine
C3H7NO2 89.094 g/mol
|
2.69391 MILLIMOLAR |
CHEBI:16977
L-alanine
|
Cross-references: KEGG:ala-L |
| 5 |
L-Lysine
C6H14N2O2 146.19 g/mol
|
3.00978 MILLIMOLAR |
CHEBI:18019
L-lysine
|
Cross-references: KEGG:lys-L |
| 6 | L-Aspartate | 3.15552 MILLIMOLAR | Cross-references: KEGG:asp-L | |
| 7 |
L-Arginine
C6H14N4O2 174.204 g/mol
|
0.71757 MILLIMOLAR |
CHEBI:16467
L-arginine
|
Cross-references: KEGG:arg-L |
| 8 |
L-Serine
C3H7NO3 105.093 g/mol
|
3.23532 MILLIMOLAR |
CHEBI:17115
L-serine
|
Cross-references: KEGG:ser-L |
| 9 | Ascorbate | 2.83897 MILLIMOLAR | Cross-references: KEGG:ascb-L | |
| 10 |
L-Methionine
C5H11NO2S 149.215 g/mol
|
0.83775 MILLIMOLAR |
CHEBI:16643
L-methionine
|
Cross-references: KEGG:met-L |
| 11 |
L-Tryptophan
C11H12N2O2 204.229 g/mol
|
0.24482 MILLIMOLAR |
CHEBI:16828
L-tryptophan
|
Cross-references: KEGG:trp-L |
| 12 |
L-Phenylalanine
C9H11NO2 165.192 g/mol
|
1.66475 MILLIMOLAR |
CHEBI:17295
L-phenylalanine
|
Cross-references: KEGG:phe-L |
| 13 |
L-Tyrosine
C9H11NO3 181.191 g/mol
|
1.37977 MILLIMOLAR |
CHEBI:17895
L-tyrosine
|
Cross-references: KEGG:tyr-L |
| 14 |
Uracil
C4H4N2O2 112.088 g/mol
|
0.08922 MILLIMOLAR |
CHEBI:17568
uracil
|
Cross-references: KEGG:ura |
| 15 |
Biotin
C10H16N2O3S 244.316 g/mol
|
0.01023 MILLIMOLAR |
CHEBI:15956
biotin
|
Cross-references: KEGG:btn |
| 16 |
L-Leucine
C6H13NO2 131.175 g/mol
|
3.62125 MILLIMOLAR |
CHEBI:15603
L-leucine
|
Cross-references: KEGG:leu-L |
| 17 |
L-Histidine
C6H9N3O2 155.157 g/mol
|
0.96681 MILLIMOLAR |
CHEBI:15971
L-histidine
|
Cross-references: KEGG:his-L |
| 18 | Adenine | 0.074 MILLIMOLAR | Cross-references: KEGG:ade | |
| 19 |
L-Proline
C5H9NO2 115.132 g/mol
|
5.86293 MILLIMOLAR |
CHEBI:17203
L-proline
|
Cross-references: KEGG:pro-L |
| 20 |
L-Valine
C5H11NO2 117.148 g/mol
|
2.77422 MILLIMOLAR |
CHEBI:16414
L-valine
|
Cross-references: KEGG:val-L |
| 21 |
L-Threonine
C4H9NO3 119.12 g/mol
|
1.88885 MILLIMOLAR |
CHEBI:16857
L-threonine
|
Cross-references: KEGG:thr-L |
| 22 |
Thymidine
C10H14N2O5 242.231 g/mol
|
0.02064 MILLIMOLAR |
CHEBI:17748
thymidine
|
Cross-references: KEGG:thymd |
| 23 |
Guanine
C5H5N5O 151.129 g/mol
|
0.06617 MILLIMOLAR |
CHEBI:16235
guanine
|
Cross-references: KEGG:gua |
| 24 |
Nicotinate
C6H5NO2 123.111 g/mol
|
0.00812 MILLIMOLAR |
CHEBI:15940
nicotinic acid
|
Cross-references: KEGG:nac |
| 25 |
Riboflavin
C17H20N4O6 376.369 g/mol
|
0.00266 MILLIMOLAR |
CHEBI:17015
riboflavin
|
Cross-references: KEGG:ribflv |
| 26 |
Inosine
C10H12N4O5 268.229 g/mol
|
0.01864 MILLIMOLAR |
CHEBI:17596
inosine
|
Cross-references: KEGG:ins |
| 27 | Orotate | 0.03203 MILLIMOLAR | Cross-references: KEGG:orot | |
| 28 |
Xanthine
C5H4N4O2 152.111 g/mol
|
0.06574 MILLIMOLAR |
CHEBI:15318
xanthine
|
Cross-references: KEGG:xan |
| 29 |
L-Isoleucine
C6H13NO2 131.175 g/mol
|
1.60098 MILLIMOLAR |
CHEBI:17191
L-isoleucine
|
Cross-references: KEGG:ile-L |
| 30 |
Folate
C19H19N7O6 441.404 g/mol
|
0.00227 MILLIMOLAR |
CHEBI:27470
folic acid
|
Cross-references: KEGG:fol |
| 31 |
4-Aminobenzoate
C7H6NO2 136.13 g/mol
|
0.07292 MILLIMOLAR |
CHEBI:17836
4-aminobenzoate
|
Cross-references: KEGG:4abz |
| 32 |
Lipoate
C8H14O2S2 206.332 g/mol
|
0.00485 MILLIMOLAR |
CHEBI:16494
lipoic acid
|
Cross-references: KEGG:lipoate |
| 33 |
Potassium dibasic phosphate
HO4P.2K 174.174 g/mol
|
5.74053 MILLIMOLAR |
CHEBI:131527
dipotassium hydrogen phosphate
|
|
| 34 |
Calcium pantothenate
2C9H16NO5.Ca 476.536 g/mol
|
0.00456 MILLIMOLAR |
CHEBI:31345
Calcium pantothenate
|
|
| 35 |
Pyridoxamine HCl
C8H12N2O2.HCl 204.657 g/mol
|
0.02443 MILLIMOLAR |
CHEBI:131531
pyridoxamine hydrochloride
|
|
| 36 |
Pyridoxine HCl
C8H11NO3.HCl 205.641 g/mol
|
0.00973 MILLIMOLAR |
CHEBI:30961
pyridoxine hydrochloride
|
|
| 37 |
Thiamine HCl
C12H17N4OS.Cl.HCl 337.276 g/mol
|
0.00332 MILLIMOLAR |
CHEBI:49105
thiamine hydrochloride
|
|
| 38 |
Cysteine-HCl
C3H7NO2S.HCl 157.622 g/mol
|
0.82477 MILLIMOLAR |
CHEBI:91247
L-cysteine hydrochloride
|
|
| 39 |
Potassium dihydrogen phosphate
H2O4P.K 136.084 g/mol
|
36.7415 MILLIMOLAR |
CHEBI:63036
potassium dihydrogen phosphate
|
|
| 40 |
Sodium acetate
C2H3O2.Na 82.034 g/mol
|
12.1901 MILLIMOLAR |
CHEBI:32954
sodium acetate
|
|
| 41 | Ammonium citrate | 2.65269 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
Merged from 1 source record.
- cdm_teusink_et_al (CultureMech:007092)
| Timestamp | Curator | Action | Notes |
|---|---|---|---|
| 2026-01-27T07:21:42.487868Z | mediadb-import | Imported from MediaDB | Source: MediaDB (Institute for Systems Biology), Medium ID: 1, Reference: Mazumdar et al. (2014) PLOS One |
| 2026-01-28T19:48:40.679488Z | chebi-enrichment | Added CHEBI ontology terms to ingredients | Enriched using MicrobeMediaParam and MediaDive chemical mappings |
| 2026-02-06T05:10:52.700325Z | invalid-chebi-removal | Removed 1 invalid CHEBI ID(s) | Removed CHEBI IDs with invalid format (7+ digits) from MicrobeMediaParam source data |
| 2026-03-13T06:19:46.083802Z | culturemech-id-assigner-v1.0 | Assigned CultureMech ID | Assigned stable identifier: CultureMech:007092 |
| 2026-03-17T06:30:52.000000Z | mediaingredientmech-enrichment-v1.0 | Added MediaIngredientMech links | Linked ingredients to MediaIngredientMech identifiers |
| 2026-03-17T19:46:04.214155+00:00 | normalize_media_names_to_snake_case.py | NAME_NORMALIZED | Normalized name from "CDM; Teusink et al" to "cdm_teusink_et_al" for consistent matching |
| 2026-06-05T07:40:52.837213+00:00 | mim-legacy-to-chebi-migration-v1.0 | Refreshed legacy MediaIngredientMech links to CHEBI keying | Replaced 25 legacy mediaingredientmech_term link(s) with mediaingredientmech_chebi_term (id-safe: ingredient's own CHEBI + label). MIM deprecated the MediaIngredientMech:NNNNNN id scheme. |
| 2026-06-08T23:19:36.210701+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). |
| 2026-08-06T03:05:26.994094+00:00 | merge_recipes.py | MERGED_RECIPES | merged 1 source recipe(s) on fingerprint dab9185fa6acf5012fb9bc419f93669dadf6704d32c7c582e2daeefc7b98e6e4 |