Overview
- External ontology
- mediadive.medium:J303 (source link unavailable) — PE MEDIUM
- Applications
-
- Microbial cultivation
- pH
- 7.5
- High-metal flag
- True
- Notes
- Source: JCM | Link: https://www.jcm.riken.jp/cgi-bin/jcm/jcm_grmd?GRMD=303
Composition
flowchart LR
CultureMech_002661["pe_medium"]
ing0__NH4_2SO4["(NH4)2SO4"]
CultureMech_002661 --> ing0__NH4_2SO4
CHEBI_62946["CHEBI:62946"]
ing0__NH4_2SO4 -.-> CHEBI_62946
ing1_Na_glutamate["Na glutamate"]
CultureMech_002661 --> ing1_Na_glutamate
CHEBI_64220["CHEBI:64220"]
ing1_Na_glutamate -.-> CHEBI_64220
ing2_Sodium_succinate["Sodium succinate"]
CultureMech_002661 --> ing2_Sodium_succinate
CHEBI_63675["CHEBI:63675"]
ing2_Sodium_succinate -.-> CHEBI_63675
ing3_Sodium_acetate["Sodium acetate"]
CultureMech_002661 --> ing3_Sodium_acetate
CHEBI_32954["CHEBI:32954"]
ing3_Sodium_acetate -.-> CHEBI_32954
ing4_Yeast_extract["Yeast extract"]
CultureMech_002661 --> ing4_Yeast_extract
ing5_Casamino_acids["Casamino acids"]
CultureMech_002661 --> ing5_Casamino_acids
ing6_Na2S2O3["Na2S2O3"]
CultureMech_002661 --> ing6_Na2S2O3
CHEBI_132112["CHEBI:132112"]
ing6_Na2S2O3 -.-> CHEBI_132112
ing7_Na3_EDTA["Na3-EDTA"]
CultureMech_002661 --> ing7_Na3_EDTA
CHEBI_63125["CHEBI:63125"]
ing7_Na3_EDTA -.-> CHEBI_63125
ing8_FeSO4_x_H2O["FeSO4 x H2O"]
CultureMech_002661 --> ing8_FeSO4_x_H2O
CHEBI_75834["CHEBI:75834"]
ing8_FeSO4_x_H2O -.-> CHEBI_75834
ing9_MgSO4_x_7_H2O["MgSO4 x 7 H2O"]
CultureMech_002661 --> ing9_MgSO4_x_7_H2O
CHEBI_31795["CHEBI:31795"]
ing9_MgSO4_x_7_H2O -.-> CHEBI_31795
ing10_CaCl2_x_2_H2O["CaCl2 x 2 H2O"]
CultureMech_002661 --> ing10_CaCl2_x_2_H2O
CHEBI_86158["CHEBI:86158"]
ing10_CaCl2_x_2_H2O -.-> CHEBI_86158
ing11_NaCl["NaCl"]
CultureMech_002661 --> ing11_NaCl
CHEBI_26710["CHEBI:26710"]
ing11_NaCl -.-> CHEBI_26710
ing12_KH2PO4["KH2PO4"]
CultureMech_002661 --> ing12_KH2PO4
CHEBI_63036["CHEBI:63036"]
ing12_KH2PO4 -.-> CHEBI_63036
ing13_K2HPO4["K2HPO4"]
CultureMech_002661 --> ing13_K2HPO4
CHEBI_131527["CHEBI:131527"]
ing13_K2HPO4 -.-> CHEBI_131527
ing14_Nicotinic_acid["Nicotinic acid"]
CultureMech_002661 --> ing14_Nicotinic_acid
CHEBI_15940["CHEBI:15940"]
ing14_Nicotinic_acid -.-> CHEBI_15940
ing15_Thiamine_HCl["Thiamine HCl"]
CultureMech_002661 --> ing15_Thiamine_HCl
CHEBI_49105["CHEBI:49105"]
ing15_Thiamine_HCl -.-> CHEBI_49105
ing16_Biotin["Biotin"]
CultureMech_002661 --> ing16_Biotin
CHEBI_15956["CHEBI:15956"]
ing16_Biotin -.-> CHEBI_15956
ing17_p_Aminobenzoic_acid["p-Aminobenzoic acid"]
CultureMech_002661 --> ing17_p_Aminobenzoic_acid
CHEBI_30753["CHEBI:30753"]
ing17_p_Aminobenzoic_acid -.-> CHEBI_30753
ing18_Vitamin_B12["Vitamin B12"]
CultureMech_002661 --> ing18_Vitamin_B12
CHEBI_176843["CHEBI:176843"]
ing18_Vitamin_B12 -.-> CHEBI_176843
ing19_Calcium_pantothenate["Calcium pantothenate"]
CultureMech_002661 --> ing19_Calcium_pantothenate
CHEBI_31345["CHEBI:31345"]
ing19_Calcium_pantothenate -.-> CHEBI_31345
ing20_Pyridoxine_hydrochloride["Pyridoxine hydrochloride"]
CultureMech_002661 --> ing20_Pyridoxine_hydrochloride
CHEBI_30961["CHEBI:30961"]
ing20_Pyridoxine_hydrochloride -.-> CHEBI_30961
ing21_Folic_acid["Folic acid"]
CultureMech_002661 --> ing21_Folic_acid
CHEBI_27470["CHEBI:27470"]
ing21_Folic_acid -.-> CHEBI_27470
ing22_MnSO4_x_n_H2O["MnSO4 x n H2O"]
CultureMech_002661 --> ing22_MnSO4_x_n_H2O
CHEBI_86360["CHEBI:86360"]
ing22_MnSO4_x_n_H2O -.-> CHEBI_86360
ing23_ZnSO4_x_7_H2O["ZnSO4 x 7 H2O"]
CultureMech_002661 --> ing23_ZnSO4_x_7_H2O
CHEBI_32312["CHEBI:32312"]
ing23_ZnSO4_x_7_H2O -.-> CHEBI_32312
ing24_Co_NO3_2_x_6_H2O["Co(NO3)2 x 6 H2O"]
CultureMech_002661 --> ing24_Co_NO3_2_x_6_H2O
CHEBI_86214["CHEBI:86214"]
ing24_Co_NO3_2_x_6_H2O -.-> CHEBI_86214
ing25_CuSO4_x_5_H2O["CuSO4 x 5 H2O"]
CultureMech_002661 --> ing25_CuSO4_x_5_H2O
CHEBI_31440["CHEBI:31440"]
ing25_CuSO4_x_5_H2O -.-> CHEBI_31440
ing26_Na2MoO4_x_2_H2O["Na2MoO4 x 2 H2O"]
CultureMech_002661 --> ing26_Na2MoO4_x_2_H2O
CHEBI_75213["CHEBI:75213"]
ing26_Na2MoO4_x_2_H2O -.-> CHEBI_75213
ing27_H3BO3["H3BO3"]
CultureMech_002661 --> ing27_H3BO3
CHEBI_33118["CHEBI:33118"]
ing27_H3BO3 -.-> CHEBI_33118
Ingredients (28)
| # | Ingredient | Concentration | Ontology | Notes |
|---|---|---|---|---|
| 1 |
(NH4)2SO4
2H4N.O4S 132.141 g/mol
|
0.49456 G_PER_L |
CHEBI:62946
ammonium sulfate
|
|
| 2 |
Na glutamate
C5H8NO4.Na 169.112 g/mol
|
0.49456 G_PER_L |
CHEBI:64220
monosodium glutamate
|
|
| 3 |
Sodium succinate
C4H4O4.2Na 162.052 g/mol
|
0.49456 G_PER_L |
CHEBI:63675
sodium succinate (anhydrous)
|
|
| 4 |
Sodium acetate
C2H3O2.Na 82.034 g/mol
|
0.49456 G_PER_L |
CHEBI:32954
sodium acetate
|
|
| 5 | Yeast extract | 0.49456 G_PER_L | ||
| 6 | Casamino acids | 0.49456 G_PER_L | ||
| 7 |
Na2S2O3
2Na.O3S2 158.111 g/mol
|
0.49456 G_PER_L |
CHEBI:132112
sodium thiosulfate
|
|
| 8 |
Na3-EDTA
C10H13N2O8.3Na 358.19 g/mol
|
47.279210000000006 G_PER_L |
CHEBI:63125
EDTA trisodium salt
|
[Merged 3 duplicates: 4.07921, 2.0, 41.2] |
| 9 |
FeSO4 x H2O
Fe.H2O.O4S 169.923 g/mol
|
1.09901 G_PER_L |
CHEBI:75834
iron(2+) sulfate monohydrate
|
|
| 10 |
MgSO4 x 7 H2O
7H2O.Mg.O4S 246.473 g/mol
|
24.4059 G_PER_L |
CHEBI:31795
magnesium sulfate heptahydrate
|
|
| 11 |
CaCl2 x 2 H2O
Ca.2Cl.2H2O 147.014 g/mol
|
2.91089 G_PER_L |
CHEBI:86158
calcium chloride dihydrate
|
|
| 12 |
NaCl
Cl.Na 58.443 g/mol
|
23.1683 G_PER_L |
CHEBI:26710
sodium chloride
|
|
| 13 |
KH2PO4
H2O4P.K 136.084 g/mol
|
75 G_PER_L |
CHEBI:63036
potassium dihydrogen phosphate
|
|
| 14 |
K2HPO4
HO4P.2K 174.174 g/mol
|
78 G_PER_L |
CHEBI:131527
dipotassium hydrogen phosphate
|
|
| 15 |
Nicotinic acid
C6H5NO2 123.111 g/mol
|
1 G_PER_L |
CHEBI:15940
nicotinic acid
|
|
| 16 |
Thiamine HCl
C12H17N4OS.Cl.HCl 337.276 g/mol
|
1 G_PER_L |
CHEBI:49105
thiamine hydrochloride
|
|
| 17 |
Biotin
C10H16N2O3S 244.316 g/mol
|
0.05 G_PER_L |
CHEBI:15956
biotin
|
|
| 18 |
p-Aminobenzoic acid
C7H7NO2 137.138 g/mol
|
0.5 G_PER_L |
CHEBI:30753
4-aminobenzoic acid
|
|
| 19 | Vitamin B12 | 0.01 G_PER_L |
CHEBI:176843
vitamin B12
|
|
| 20 |
Calcium pantothenate
2C9H16NO5.Ca 476.536 g/mol
|
0.5 G_PER_L |
CHEBI:31345
Calcium pantothenate
|
|
| 21 |
Pyridoxine hydrochloride
C8H11NO3.HCl 205.641 g/mol
|
0.5 G_PER_L |
CHEBI:30961
pyridoxine hydrochloride
|
|
| 22 |
Folic acid
C19H19N7O6 441.404 g/mol
|
0.5 G_PER_L |
CHEBI:27470
folic acid
|
|
| 23 |
MnSO4 x n H2O
Mn.O4S 151.001 g/mol
|
11.16 G_PER_L |
CHEBI:86360
manganese(II) sulfate
|
|
| 24 |
ZnSO4 x 7 H2O
7H2O.O4S.Zn 287.558 g/mol
|
2.88 G_PER_L |
CHEBI:32312
zinc sulfate heptahydrate
|
|
| 25 |
Co(NO3)2 x 6 H2O
Co.6H2O.2NO3 291.031 g/mol
|
2.92 G_PER_L |
CHEBI:86214
cobalt dinitrate hexahydrate
|
|
| 26 |
CuSO4 x 5 H2O
Cu.5H2O.O4S 249.684 g/mol
|
2.52 G_PER_L |
CHEBI:31440
copper(II) sulfate pentahydrate
|
|
| 27 |
Na2MoO4 x 2 H2O
2H2O.MoO4.2Na 241.946 g/mol
|
2.42 G_PER_L |
CHEBI:75213
sodium molybdate dihydrate
|
|
| 28 |
H3BO3
H3BO3 61.833 g/mol
|
3.1 G_PER_L |
CHEBI:33118
boric acid
|
Preparation
- Adjust pH to 7.5.
Target organisms
No target organisms are recorded.
Provenance
Merged from 1 source record.
- JCM_J303_PE_MEDIUM (CultureMech:002661)
| Timestamp | Curator | Action | Notes |
|---|---|---|---|
| 2026-01-26T17:53:16.231252Z | mediadive-import | Imported from MediaDive | Source: JCM, ID: J303 |
| 2026-01-28T19:48:12.199198Z | chebi-enrichment | Added CHEBI ontology terms to ingredients | Enriched using MicrobeMediaParam and MediaDive chemical mappings |
| 2026-03-13T03:08:48.082930Z | data-quality-cleanup-v1.0 | Data quality fixes | Merged 2 duplicate ingredient(s) |
| 2026-03-13T06:19:14.852586Z | culturemech-id-assigner-v1.0 | Assigned CultureMech ID | Assigned stable identifier: CultureMech:002661 |
| 2026-03-17T06:29:51.000000Z | mediaingredientmech-enrichment-v1.0 | Added MediaIngredientMech links | Linked ingredients to MediaIngredientMech identifiers |
| 2026-03-17T19:45:28.165137+00:00 | normalize_media_names_to_snake_case.py | NAME_NORMALIZED | Normalized name from "PE MEDIUM" to "pe_medium" for consistent matching |
| 2026-06-05T07:40:17.032763+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. |
| 2026-06-08T23:19:27.310688+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). |
| 2026-06-10T07:37:34.074147+00:00 | primary-term-regrounding-v1.0 | Re-grounded wrong primary term id (OAK-verified) | 1 primary term(s); ingredient name resolved by OAK sqlite:obo:chebi. |
| 2026-06-10T07:46:42.892718+00:00 | primary-term-label-canonicalization-v1.0 | Canonicalized primary term label to OBO canonical (OAK) | 6 primary term(s); ingredient name resolved by OAK sqlite:obo:chebi. |
| 2026-08-06T03:04:35.982718+00:00 | merge_recipes.py | MERGED_RECIPES | merged 1 source recipe(s) on fingerprint 1f88292ffceb12dcc81bf9e5fc5d05cb1b5c3d9694184e52b71c49d86641832e |