Overview
- External ontology
- MEDIADB:477 (source link unavailable) — AMS1 (Pyruvate+Serine)
- 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_007384["ams1_pyruvate_serine"]
ing0_4_Amino_5_hydroxymethyl_2_methylpyrimidine["4-Amino-5-hydroxymethyl-2-methylpyrimidine"]
CultureMech_007384 --> ing0_4_Amino_5_hydroxymethyl_2_methylpyrimidine
ing1_Pyruvate["Pyruvate"]
CultureMech_007384 --> ing1_Pyruvate
CHEBI_15361["CHEBI:15361"]
ing1_Pyruvate -.-> CHEBI_15361
ing2_Biotin["Biotin"]
CultureMech_007384 --> ing2_Biotin
CHEBI_15956["CHEBI:15956"]
ing2_Biotin -.-> CHEBI_15956
ing3_Nickel_chloride["Nickel chloride"]
CultureMech_007384 --> ing3_Nickel_chloride
CHEBI_34887["CHEBI:34887"]
ing3_Nickel_chloride -.-> CHEBI_34887
ing4_Magnesium_chloride["Magnesium chloride"]
CultureMech_007384 --> ing4_Magnesium_chloride
CHEBI_86345["CHEBI:86345"]
ing4_Magnesium_chloride -.-> CHEBI_86345
ing5_L_Serine["L-Serine"]
CultureMech_007384 --> ing5_L_Serine
CHEBI_17115["CHEBI:17115"]
ing5_L_Serine -.-> CHEBI_17115
ing6_Sodium_bicarbonate["Sodium bicarbonate"]
CultureMech_007384 --> ing6_Sodium_bicarbonate
CHEBI_32139["CHEBI:32139"]
ing6_Sodium_bicarbonate -.-> CHEBI_32139
ing7_Calcium_chloride_anhydrous["Calcium chloride anhydrous"]
CultureMech_007384 --> ing7_Calcium_chloride_anhydrous
CHEBI_3312["CHEBI:3312"]
ing7_Calcium_chloride_anhydrous -.-> CHEBI_3312
ing8_Sodium_molybdate["Sodium molybdate"]
CultureMech_007384 --> ing8_Sodium_molybdate
CHEBI_75215["CHEBI:75215"]
ing8_Sodium_molybdate -.-> CHEBI_75215
ing9_Magnesium_sulfate["Magnesium sulfate"]
CultureMech_007384 --> ing9_Magnesium_sulfate
CHEBI_32599["CHEBI:32599"]
ing9_Magnesium_sulfate -.-> CHEBI_32599
ing10_DL_methionine["DL-methionine"]
CultureMech_007384 --> ing10_DL_methionine
CHEBI_16811["CHEBI:16811"]
ing10_DL_methionine -.-> CHEBI_16811
ing11_Sodium_selenite["Sodium selenite"]
CultureMech_007384 --> ing11_Sodium_selenite
CHEBI_48843["CHEBI:48843"]
ing11_Sodium_selenite -.-> CHEBI_48843
ing12_Potassium_chloride["Potassium chloride"]
CultureMech_007384 --> ing12_Potassium_chloride
CHEBI_32588["CHEBI:32588"]
ing12_Potassium_chloride -.-> CHEBI_32588
ing13_Cobalt_chloride["Cobalt chloride"]
CultureMech_007384 --> ing13_Cobalt_chloride
CHEBI_35696["CHEBI:35696"]
ing13_Cobalt_chloride -.-> CHEBI_35696
ing14_Sodium_chloride["Sodium chloride"]
CultureMech_007384 --> ing14_Sodium_chloride
CHEBI_26710["CHEBI:26710"]
ing14_Sodium_chloride -.-> CHEBI_26710
ing15_Sodium_dihydrogen_phosphate["Sodium dihydrogen phosphate"]
CultureMech_007384 --> ing15_Sodium_dihydrogen_phosphate
CHEBI_37585["CHEBI:37585"]
ing15_Sodium_dihydrogen_phosphate -.-> CHEBI_37585
ing16_Ammonium_sulfate["Ammonium sulfate"]
CultureMech_007384 --> ing16_Ammonium_sulfate
CHEBI_62946["CHEBI:62946"]
ing16_Ammonium_sulfate -.-> CHEBI_62946
ing17_Manganese_chloride["Manganese chloride"]
CultureMech_007384 --> ing17_Manganese_chloride
CHEBI_63041["CHEBI:63041"]
ing17_Manganese_chloride -.-> CHEBI_63041
ing18_Zinc_sulfate["Zinc sulfate"]
CultureMech_007384 --> ing18_Zinc_sulfate
CHEBI_35176["CHEBI:35176"]
ing18_Zinc_sulfate -.-> CHEBI_35176
ing19_Iron_III__chloride["Iron(III) chloride"]
CultureMech_007384 --> ing19_Iron_III__chloride
Ingredients (20)
| # | Ingredient | Concentration | Ontology | Notes |
|---|---|---|---|---|
| 1 | 4-Amino-5-hydroxymethyl-2-methylpyrimidine | 1e-05 MILLIMOLAR | Cross-references: KEGG:4ahmmp | |
| 2 |
Pyruvate
C3H3O3 87.054 g/mol
|
1.0 MILLIMOLAR |
CHEBI:15361
pyruvate
|
Cross-references: KEGG:pyr |
| 3 |
Biotin
C10H16N2O3S 244.316 g/mol
|
4e-06 MILLIMOLAR |
CHEBI:15956
biotin
|
Cross-references: KEGG:btn |
| 4 |
Nickel chloride
Cl2Ni 129.599 g/mol
|
1e-06 MILLIMOLAR |
CHEBI:34887
nickel dichloride
|
|
| 5 |
Magnesium chloride
2Cl.6H2O.Mg 203.301 g/mol
|
27.0 MILLIMOLAR |
CHEBI:86345
magnesium dichloride hexahydrate
|
|
| 6 |
L-Serine
C3H7NO3 105.093 g/mol
|
0.05 MILLIMOLAR |
CHEBI:17115
L-serine
|
Cross-references: KEGG:ser-L |
| 7 |
Sodium bicarbonate
CHO3.Na 84.006 g/mol
|
6.0 MILLIMOLAR |
CHEBI:32139
sodium hydrogencarbonate
|
|
| 8 |
Calcium chloride anhydrous
Ca.2Cl 110.984 g/mol
|
10.0 MILLIMOLAR |
CHEBI:3312
calcium dichloride
|
|
| 9 |
Sodium molybdate
MoO4.2Na 205.916 g/mol
|
3e-07 MILLIMOLAR |
CHEBI:75215
sodium molybdate (anhydrous)
|
|
| 10 |
Magnesium sulfate
Mg.O4S 120.368 g/mol
|
28.0 MILLIMOLAR |
CHEBI:32599
magnesium sulfate
|
|
| 11 |
DL-methionine
C5H11NO2S 149.215 g/mol
|
0.05 MILLIMOLAR |
CHEBI:16811
methionine
|
|
| 12 |
Sodium selenite
2Na.O3Se 172.937 g/mol
|
1e-06 MILLIMOLAR |
CHEBI:48843
disodium selenite
|
|
| 13 |
Potassium chloride
Cl.K 74.551 g/mol
|
9.0 MILLIMOLAR |
CHEBI:32588
potassium chloride
|
|
| 14 |
Cobalt chloride
2Cl.Co 129.839 g/mol
|
5e-07 MILLIMOLAR |
CHEBI:35696
cobalt dichloride
|
|
| 15 |
Sodium chloride
Cl.Na 58.443 g/mol
|
481.0 MILLIMOLAR |
CHEBI:26710
sodium chloride
|
|
| 16 |
Sodium dihydrogen phosphate
H2O4P.Na 119.976 g/mol
|
0.05 MILLIMOLAR |
CHEBI:37585
sodium dihydrogenphosphate
|
|
| 17 |
Ammonium sulfate
2H4N.O4S 132.141 g/mol
|
0.4 MILLIMOLAR |
CHEBI:62946
ammonium sulfate
|
|
| 18 |
Manganese chloride
Cl2Mn 125.844 g/mol
|
9e-06 MILLIMOLAR |
CHEBI:63041
manganese(II) chloride
|
|
| 19 |
Zinc sulfate
O4S.Zn 161.453 g/mol
|
8e-07 MILLIMOLAR |
CHEBI:35176
zinc sulfate
|
|
| 20 | Iron(III) chloride | 0.000117 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 |
|---|---|---|---|
| 2026-01-27T07:21:47.052816Z | mediadb-import | Imported from MediaDB | Source: MediaDB (Institute for Systems Biology), Medium ID: 477, Reference: Mazumdar et al. (2014) PLOS One |
| 2026-01-28T19:48:11.150751Z | chebi-enrichment | Added CHEBI ontology terms to ingredients | Enriched using MicrobeMediaParam and MediaDive chemical mappings |
| 2026-03-13T06:19:48.569701Z | culturemech-id-assigner-v1.0 | Assigned CultureMech ID | Assigned stable identifier: CultureMech:007384 |
| 2026-03-17T06:29:48.000000Z | mediaingredientmech-enrichment-v1.0 | Added MediaIngredientMech links | Linked ingredients to MediaIngredientMech identifiers |
| 2026-03-17T19:46:06.913500+00:00 | normalize_media_names_to_snake_case.py | NAME_NORMALIZED | Normalized name from "'AMS1 (Pyruvate+Serine" to "ams1_pyruvate_serine" for consistent matching |
| 2026-06-05T07:40:48.654692+00:00 | mim-legacy-to-chebi-migration-v1.0 | Refreshed legacy MediaIngredientMech links to CHEBI keying | Replaced 12 legacy mediaingredientmech_term link(s) with mediaingredientmech_chebi_term (id-safe: ingredient's own CHEBI + label). MIM deprecated the MediaIngredientMech:NNNNNN id scheme. |
| 2026-06-09T01:42:18.129559+00:00 | chebi-regrounding-v1.0 | Corrected CHEBI ingredient grounding (shared-id regrounding audit, G21/G22/G24) | Part of the shared-id CHEBI regrounding audit (G21/G22/G24): one or more ingredient groundings on this record that had been collapsed onto a chemically non-specific or shared CHEBI id were re-grounded to the correct chemically-specific term, verified against OAK chebi.db rdfs:label. See reports/chebi_grounding_audit.md. |
| 2026-08-31T04:06:08.281558+00:00 | repair_mediadb_names.py | REPAIRED_MEDIADB_TRUNCATED_NAME | Restored 1 ingredient name(s) truncated at a parenthesis by the MediaDB SQL parser. Resolved against MEDIADB:477's own compound list in media_database.07Oct2015.sql, requiring a unique prefix match and, where more than one matched, an equal Amount_mM. |
| 2026-08-31T06:17:20.404920+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. |