Overview
- External ontology
- MEDIADB:181 (source link unavailable) — Modified M1 Medium with Acetate; Pinchuk 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_007072["modified_m1_medium_with_acetate_pinchuk_et_al"]
ing0_Acetate["Acetate"]
CultureMech_007072 --> ing0_Acetate
CHEBI_30089["CHEBI:30089"]
ing0_Acetate -.-> CHEBI_30089
ing1_Biotin["Biotin"]
CultureMech_007072 --> ing1_Biotin
CHEBI_15956["CHEBI:15956"]
ing1_Biotin -.-> CHEBI_15956
ing2_Nicotinate["Nicotinate"]
CultureMech_007072 --> ing2_Nicotinate
CHEBI_15940["CHEBI:15940"]
ing2_Nicotinate -.-> CHEBI_15940
ing3_Riboflavin["Riboflavin"]
CultureMech_007072 --> ing3_Riboflavin
CHEBI_17015["CHEBI:17015"]
ing3_Riboflavin -.-> CHEBI_17015
ing4_Thiamine["Thiamine"]
CultureMech_007072 --> ing4_Thiamine
CHEBI_18385["CHEBI:18385"]
ing4_Thiamine -.-> CHEBI_18385
ing5_Folate["Folate"]
CultureMech_007072 --> ing5_Folate
CHEBI_27470["CHEBI:27470"]
ing5_Folate -.-> CHEBI_27470
ing6_4_Aminobenzoate["4-Aminobenzoate"]
CultureMech_007072 --> ing6_4_Aminobenzoate
CHEBI_17836["CHEBI:17836"]
ing6_4_Aminobenzoate -.-> CHEBI_17836
ing7_Lipoate["Lipoate"]
CultureMech_007072 --> ing7_Lipoate
CHEBI_16494["CHEBI:16494"]
ing7_Lipoate -.-> CHEBI_16494
ing8_Pantothenate["Pantothenate"]
CultureMech_007072 --> ing8_Pantothenate
CHEBI_16454["CHEBI:16454"]
ing8_Pantothenate -.-> CHEBI_16454
ing9_Vitamin_B12["Vitamin B12"]
CultureMech_007072 --> ing9_Vitamin_B12
CHEBI_176843["CHEBI:176843"]
ing9_Vitamin_B12 -.-> CHEBI_176843
ing10_Magnesium_chloride["Magnesium chloride"]
CultureMech_007072 --> ing10_Magnesium_chloride
CHEBI_86345["CHEBI:86345"]
ing10_Magnesium_chloride -.-> CHEBI_86345
ing11_Calcium_chloride_anhydrous["Calcium chloride anhydrous"]
CultureMech_007072 --> ing11_Calcium_chloride_anhydrous
CHEBI_3312["CHEBI:3312"]
ing11_Calcium_chloride_anhydrous -.-> CHEBI_3312
ing12_Boric_acid["Boric acid"]
CultureMech_007072 --> ing12_Boric_acid
CHEBI_33118["CHEBI:33118"]
ing12_Boric_acid -.-> CHEBI_33118
ing13_Dibasic_sodium_phosphate["Dibasic sodium phosphate"]
CultureMech_007072 --> ing13_Dibasic_sodium_phosphate
CHEBI_34683["CHEBI:34683"]
ing13_Dibasic_sodium_phosphate -.-> CHEBI_34683
ing14_Nitrilotriacetic_acid["Nitrilotriacetic acid"]
CultureMech_007072 --> ing14_Nitrilotriacetic_acid
CHEBI_44557["CHEBI:44557"]
ing14_Nitrilotriacetic_acid -.-> CHEBI_44557
ing15_Sodium_molybdate["Sodium molybdate"]
CultureMech_007072 --> ing15_Sodium_molybdate
CHEBI_75215["CHEBI:75215"]
ing15_Sodium_molybdate -.-> CHEBI_75215
ing16_Sodium_chloride["Sodium chloride"]
CultureMech_007072 --> ing16_Sodium_chloride
CHEBI_26710["CHEBI:26710"]
ing16_Sodium_chloride -.-> CHEBI_26710
ing17_Potassium_chloride["Potassium chloride"]
CultureMech_007072 --> ing17_Potassium_chloride
CHEBI_32588["CHEBI:32588"]
ing17_Potassium_chloride -.-> CHEBI_32588
ing18_Pyridoxine_HCl["Pyridoxine HCl"]
CultureMech_007072 --> ing18_Pyridoxine_HCl
CHEBI_30961["CHEBI:30961"]
ing18_Pyridoxine_HCl -.-> CHEBI_30961
ing19_Ammonium_chloride["Ammonium chloride"]
CultureMech_007072 --> ing19_Ammonium_chloride
CHEBI_31206["CHEBI:31206"]
ing19_Ammonium_chloride -.-> CHEBI_31206
ing20_Ferrous_sulfate["Ferrous sulfate"]
CultureMech_007072 --> ing20_Ferrous_sulfate
CHEBI_75832["CHEBI:75832"]
ing20_Ferrous_sulfate -.-> CHEBI_75832
ing21_Cobalt_chloride["Cobalt chloride"]
CultureMech_007072 --> ing21_Cobalt_chloride
CHEBI_35696["CHEBI:35696"]
ing21_Cobalt_chloride -.-> CHEBI_35696
ing22_Zinc_sulfate["Zinc sulfate"]
CultureMech_007072 --> ing22_Zinc_sulfate
CHEBI_35176["CHEBI:35176"]
ing22_Zinc_sulfate -.-> CHEBI_35176
ing23_Manganese_chloride["Manganese chloride"]
CultureMech_007072 --> ing23_Manganese_chloride
CHEBI_63041["CHEBI:63041"]
ing23_Manganese_chloride -.-> CHEBI_63041
ing24_Cupric_chloride["Cupric chloride"]
CultureMech_007072 --> ing24_Cupric_chloride
CHEBI_49553["CHEBI:49553"]
ing24_Cupric_chloride -.-> CHEBI_49553
ing25_Sodium_selenate["Sodium selenate"]
CultureMech_007072 --> ing25_Sodium_selenate
CHEBI_77775["CHEBI:77775"]
ing25_Sodium_selenate -.-> CHEBI_77775
ing26_Aluminum_potassium_sulfate["Aluminum potassium sulfate"]
CultureMech_007072 --> ing26_Aluminum_potassium_sulfate
CHEBI_86463["CHEBI:86463"]
ing26_Aluminum_potassium_sulfate -.-> CHEBI_86463
ing27_Sodium_tungstate["Sodium tungstate"]
CultureMech_007072 --> ing27_Sodium_tungstate
CHEBI_63940["CHEBI:63940"]
ing27_Sodium_tungstate -.-> CHEBI_63940
ing28_Nickel_Sulfate["Nickel Sulfate"]
CultureMech_007072 --> ing28_Nickel_Sulfate
ing29_PIPES["PIPES"]
CultureMech_007072 --> ing29_PIPES
CHEBI_39033["CHEBI:39033"]
ing29_PIPES -.-> CHEBI_39033
Ingredients (30)
| # | Ingredient | Concentration | Ontology | Notes |
|---|---|---|---|---|
| 1 |
Acetate
C2H3O2 59.044 g/mol
|
45.0 MILLIMOLAR |
CHEBI:30089
acetate
|
Cross-references: KEGG:ac |
| 2 |
Biotin
C10H16N2O3S 244.316 g/mol
|
8.1863e-05 MILLIMOLAR |
CHEBI:15956
biotin
|
Cross-references: KEGG:btn |
| 3 |
Nicotinate
C6H5NO2 123.111 g/mol
|
0.00040614 MILLIMOLAR |
CHEBI:15940
nicotinic acid
|
Cross-references: KEGG:nac |
| 4 |
Riboflavin
C17H20N4O6 376.369 g/mol
|
0.00013285 MILLIMOLAR |
CHEBI:17015
riboflavin
|
Cross-references: KEGG:ribflv |
| 5 |
Thiamine
C12H17N4OS 265.362 g/mol
|
0.00016622 MILLIMOLAR |
CHEBI:18385
thiamine(1+)
|
Cross-references: KEGG:thm |
| 6 |
Folate
C19H19N7O6 441.404 g/mol
|
4.531e-05 MILLIMOLAR |
CHEBI:27470
folic acid
|
Cross-references: KEGG:fol |
| 7 |
4-Aminobenzoate
C7H6NO2 136.13 g/mol
|
0.0003645 MILLIMOLAR |
CHEBI:17836
4-aminobenzoate
|
Cross-references: KEGG:4abz |
| 8 |
Lipoate
C8H14O2S2 206.332 g/mol
|
0.0002423 MILLIMOLAR |
CHEBI:16494
lipoic acid
|
Cross-references: KEGG:lipoate |
| 9 |
Pantothenate
C9H16NO5 218.229 g/mol
|
0.00022807 MILLIMOLAR |
CHEBI:16454
pantothenate
|
Cross-references: KEGG:pnto-R |
| 10 | Vitamin B12 | 7.3781e-07 MILLIMOLAR |
CHEBI:176843
vitamin B12
|
|
| 11 |
Magnesium chloride
2Cl.6H2O.Mg 203.301 g/mol
|
3.0 MILLIMOLAR |
CHEBI:86345
magnesium dichloride hexahydrate
|
|
| 12 |
Calcium chloride anhydrous
Ca.2Cl 110.984 g/mol
|
0.0068 MILLIMOLAR |
CHEBI:3312
calcium dichloride
|
|
| 13 |
Boric acid
H3BO3 61.833 g/mol
|
0.000808669 MILLIMOLAR |
CHEBI:33118
boric acid
|
|
| 14 |
Dibasic sodium phosphate
HO4P.2Na 141.958 g/mol
|
4.35 MILLIMOLAR |
CHEBI:34683
disodium hydrogenphosphate
|
|
| 15 |
Nitrilotriacetic acid
C6H9NO6 191.139 g/mol
|
0.11196 MILLIMOLAR |
CHEBI:44557
nitrilotriacetic acid
|
|
| 16 |
Sodium molybdate
MoO4.2Na 205.916 g/mol
|
0.00437084 MILLIMOLAR |
CHEBI:75215
sodium molybdate (anhydrous)
|
|
| 17 |
Sodium chloride
Cl.Na 58.443 g/mol
|
30.0 MILLIMOLAR |
CHEBI:26710
sodium chloride
|
|
| 18 |
Potassium chloride
Cl.K 74.551 g/mol
|
1.34 MILLIMOLAR |
CHEBI:32588
potassium chloride
|
|
| 19 |
Pyridoxine HCl
C8H11NO3.HCl 205.641 g/mol
|
0.00048626 MILLIMOLAR |
CHEBI:30961
pyridoxine hydrochloride
|
|
| 20 |
Ammonium chloride
Cl.H4N 53.492 g/mol
|
28.0 MILLIMOLAR |
CHEBI:31206
ammonium chloride
|
|
| 21 |
Ferrous sulfate
Fe.O4S 151.908 g/mol
|
0.0107894 MILLIMOLAR |
CHEBI:75832
iron(2+) sulfate (anhydrous)
|
|
| 22 |
Cobalt chloride
2Cl.Co 129.839 g/mol
|
0.0114981 MILLIMOLAR |
CHEBI:35696
cobalt dichloride
|
|
| 23 |
Zinc sulfate
O4S.Zn 161.453 g/mol
|
0.0069558 MILLIMOLAR |
CHEBI:35176
zinc sulfate
|
|
| 24 |
Manganese chloride
Cl2Mn 125.844 g/mol
|
0.0044829 MILLIMOLAR |
CHEBI:63041
manganese(II) chloride
|
|
| 25 |
Cupric chloride
Cl2Cu 134.452 g/mol
|
0.00175974 MILLIMOLAR |
CHEBI:49553
copper(II) chloride
|
|
| 26 |
Sodium selenate
2Na.O4Se 188.936 g/mol
|
0.001 MILLIMOLAR |
CHEBI:77775
sodium selenate
|
|
| 27 |
Aluminum potassium sulfate
Al.K.2O4S 258.206 g/mol
|
0.000105399 MILLIMOLAR |
CHEBI:86463
potassium aluminium sulfate
|
|
| 28 |
Sodium tungstate
2Na.O4W 293.816 g/mol
|
0.000606318 MILLIMOLAR |
CHEBI:63940
sodium tungstate
|
|
| 29 | Nickel Sulfate | 0.0041849 MILLIMOLAR | ||
| 30 | PIPES | 30.0 MILLIMOLAR |
CHEBI:39033
PIPES
|
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.
- modified_m1_medium_with_acetate_pinchuk_et_al (CultureMech:007072)
| Timestamp | Curator | Action | Notes |
|---|---|---|---|
| 2026-01-27T07:21:44.215282Z | mediadb-import | Imported from MediaDB | Source: MediaDB (Institute for Systems Biology), Medium ID: 181, Reference: Mazumdar et al. (2014) PLOS One |
| 2026-01-28T19:48:33.053622Z | chebi-enrichment | Added CHEBI ontology terms to ingredients | Enriched using MicrobeMediaParam and MediaDive chemical mappings |
| 2026-02-06T05:10:42.940851Z | invalid-chebi-removal | Removed 1 invalid CHEBI ID(s) | Removed CHEBI IDs with invalid format (7+ digits) from MicrobeMediaParam source data |
| 2026-03-13T06:19:45.938408Z | culturemech-id-assigner-v1.0 | Assigned CultureMech ID | Assigned stable identifier: CultureMech:007072 |
| 2026-03-17T06:30:35.000000Z | mediaingredientmech-enrichment-v1.0 | Added MediaIngredientMech links | Linked ingredients to MediaIngredientMech identifiers |
| 2026-03-17T19:46:04.059274+00:00 | normalize_media_names_to_snake_case.py | NAME_NORMALIZED | Normalized name from "Modified M1 Medium with Acetate; Pinchuk et al" to "modified_m1_medium_with_acetate_pinchuk_et_al" for consistent matching |
| 2026-06-05T07:41:36.867972+00:00 | mim-legacy-to-chebi-migration-v1.0 | Refreshed legacy MediaIngredientMech links to CHEBI keying | Replaced 16 legacy mediaingredientmech_term link(s) with mediaingredientmech_chebi_term (id-safe: ingredient's own CHEBI + label). MIM deprecated the MediaIngredientMech:NNNNNN id scheme. |
| 2026-06-08T23:19:48.858860+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). |
| 2026-08-06T03:05:48.565404+00:00 | merge_recipes.py | MERGED_RECIPES | merged 1 source recipe(s) on fingerprint 70bc18d014434a1381899c82e911fd158afc2a43ec48be8c983029dd004a1295 |