Overview
- External ontology
- MEDIADB:410 (source link unavailable) — MS13 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_007311["ms13_medium"]
ing0_Riboflavin["Riboflavin"]
CultureMech_007311 --> ing0_Riboflavin
CHEBI_17015["CHEBI:17015"]
ing0_Riboflavin -.-> CHEBI_17015
ing1_Nicotinate["Nicotinate"]
CultureMech_007311 --> ing1_Nicotinate
CHEBI_15940["CHEBI:15940"]
ing1_Nicotinate -.-> CHEBI_15940
ing2_DL_Serine["DL-Serine"]
CultureMech_007311 --> ing2_DL_Serine
ing3_Glucose["Glucose"]
CultureMech_007311 --> ing3_Glucose
CHEBI_17234["CHEBI:17234"]
ing3_Glucose -.-> CHEBI_17234
ing4_Biotin["Biotin"]
CultureMech_007311 --> ing4_Biotin
CHEBI_15956["CHEBI:15956"]
ing4_Biotin -.-> CHEBI_15956
ing5_Pyridoxamine["Pyridoxamine"]
CultureMech_007311 --> ing5_Pyridoxamine
CHEBI_16410["CHEBI:16410"]
ing5_Pyridoxamine -.-> CHEBI_16410
ing6_Calcium_pantothenate["Calcium pantothenate"]
CultureMech_007311 --> ing6_Calcium_pantothenate
CHEBI_31345["CHEBI:31345"]
ing6_Calcium_pantothenate -.-> CHEBI_31345
ing7_DL_methionine["DL-methionine"]
CultureMech_007311 --> ing7_DL_methionine
CHEBI_16811["CHEBI:16811"]
ing7_DL_methionine -.-> CHEBI_16811
ing8_L_Glutamate["L-Glutamate"]
CultureMech_007311 --> ing8_L_Glutamate
CHEBI_16015["CHEBI:16015"]
ing8_L_Glutamate -.-> CHEBI_16015
ing9_Valine["Valine"]
CultureMech_007311 --> ing9_Valine
CHEBI_16414["CHEBI:16414"]
ing9_Valine -.-> CHEBI_16414
ing10_Potassium_dibasic_phosphate["Potassium dibasic phosphate"]
CultureMech_007311 --> ing10_Potassium_dibasic_phosphate
CHEBI_131527["CHEBI:131527"]
ing10_Potassium_dibasic_phosphate -.-> CHEBI_131527
ing11_Magnesium_chloride["Magnesium chloride"]
CultureMech_007311 --> ing11_Magnesium_chloride
CHEBI_86345["CHEBI:86345"]
ing11_Magnesium_chloride -.-> CHEBI_86345
ing12_Isoleucine["Isoleucine"]
CultureMech_007311 --> ing12_Isoleucine
CHEBI_17191["CHEBI:17191"]
ing12_Isoleucine -.-> CHEBI_17191
ing13_Leucine["Leucine"]
CultureMech_007311 --> ing13_Leucine
CHEBI_15603["CHEBI:15603"]
ing13_Leucine -.-> CHEBI_15603
ing14_Potassium_dihydrogen_phosphate["Potassium dihydrogen phosphate"]
CultureMech_007311 --> ing14_Potassium_dihydrogen_phosphate
CHEBI_63036["CHEBI:63036"]
ing14_Potassium_dihydrogen_phosphate -.-> CHEBI_63036
Ingredients (15)
| # | Ingredient | Concentration | Ontology | Notes |
|---|---|---|---|---|
| 1 |
Riboflavin
C17H20N4O6 376.369 g/mol
|
0.002657 MILLIMOLAR |
CHEBI:17015
riboflavin
|
Cross-references: KEGG:ribflv |
| 2 |
Nicotinate
C6H5NO2 123.111 g/mol
|
0.008123 MILLIMOLAR |
CHEBI:15940
nicotinic acid
|
Cross-references: KEGG:nac |
| 3 | DL-Serine | 3.235 MILLIMOLAR | ||
| 4 |
Glucose
C6H12O6 180.156 g/mol
|
55.51 MILLIMOLAR |
CHEBI:17234
glucose
|
|
| 5 |
Biotin
C10H16N2O3S 244.316 g/mol
|
0.04093 MILLIMOLAR |
CHEBI:15956
biotin
|
Cross-references: KEGG:btn |
| 6 |
Pyridoxamine
C8H12N2O2 168.196 g/mol
|
0.02973 MILLIMOLAR |
CHEBI:16410
pyridoxamine
|
Cross-references: KEGG:pydam |
| 7 |
Calcium pantothenate
2C9H16NO5.Ca 476.536 g/mol
|
0.002099 MILLIMOLAR |
CHEBI:31345
Calcium pantothenate
|
|
| 8 |
DL-methionine
C5H11NO2S 149.215 g/mol
|
0.8042 MILLIMOLAR |
CHEBI:16811
methionine
|
|
| 9 |
L-Glutamate
C5H9NO4 147.13 g/mol
|
0.6797 MILLIMOLAR |
CHEBI:16015
L-glutamic acid
|
Cross-references: KEGG:glu-L |
| 10 |
Valine
C5H11NO2 117.148 g/mol
|
2.817 MILLIMOLAR |
CHEBI:16414
L-valine
|
|
| 11 |
Potassium dibasic phosphate
HO4P.2K 174.174 g/mol
|
42.92 MILLIMOLAR |
CHEBI:131527
dipotassium hydrogen phosphate
|
|
| 12 |
Magnesium chloride
2Cl.6H2O.Mg 203.301 g/mol
|
0.9838 MILLIMOLAR |
CHEBI:86345
magnesium dichloride hexahydrate
|
|
| 13 |
Isoleucine
C6H13NO2 131.175 g/mol
|
1.525 MILLIMOLAR |
CHEBI:17191
L-isoleucine
|
|
| 14 |
Leucine
C6H13NO2 131.175 g/mol
|
3.583 MILLIMOLAR |
CHEBI:15603
L-leucine
|
|
| 15 |
Potassium dihydrogen phosphate
H2O4P.K 136.084 g/mol
|
66.13 MILLIMOLAR |
CHEBI:63036
potassium dihydrogen phosphate
|
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 |
|---|---|---|---|
| 2026-01-27T07:21:46.351256Z | mediadb-import | Imported from MediaDB | Source: MediaDB (Institute for Systems Biology), Medium ID: 410, Reference: Mazumdar et al. (2014) PLOS One |
| 2026-01-28T19:48:24.402901Z | chebi-enrichment | Added CHEBI ontology terms to ingredients | Enriched using MicrobeMediaParam and MediaDive chemical mappings |
| 2026-02-06T05:10:33.009391Z | invalid-chebi-removal | Removed 1 invalid CHEBI ID(s) | Removed CHEBI IDs with invalid format (7+ digits) from MicrobeMediaParam source data |
| 2026-03-13T06:19:47.675680Z | culturemech-id-assigner-v1.0 | Assigned CultureMech ID | Assigned stable identifier: CultureMech:007311 |
| 2026-03-17T06:30:17.000000Z | mediaingredientmech-enrichment-v1.0 | Added MediaIngredientMech links | Linked ingredients to MediaIngredientMech identifiers |
| 2026-03-17T19:46:05.963543+00:00 | normalize_media_names_to_snake_case.py | NAME_NORMALIZED | Normalized name from "MS13 Medium" to "ms13_medium" for consistent matching |
| 2026-06-05T07:41:38.646930+00:00 | mim-legacy-to-chebi-migration-v1.0 | Refreshed legacy MediaIngredientMech links to CHEBI keying | Replaced 7 legacy mediaingredientmech_term link(s) with mediaingredientmech_chebi_term (id-safe: ingredient's own CHEBI + label). MIM deprecated the MediaIngredientMech:NNNNNN id scheme. |