Overview
- External ontology
- komodo.medium:579 (source link unavailable) — GEOBACTER MEDIUM
- Applications
-
- Microbial cultivation
- pH range
- {'min': 6.7, 'max': 7.0}
- Notes
- Source: KOMODO ModelSEED | ID: 579 | DSMZ Medium: 579 (mediadive.medium:579) | Aerobic: Yes
Composition
flowchart LR
CultureMech_006023["geobacter_medium"]
ing0_Ferric_citrate["Ferric citrate"]
CultureMech_006023 --> ing0_Ferric_citrate
CHEBI_144421["CHEBI:144421"]
ing0_Ferric_citrate -.-> CHEBI_144421
ing1_NH4Cl["NH4Cl"]
CultureMech_006023 --> ing1_NH4Cl
CHEBI_31206["CHEBI:31206"]
ing1_NH4Cl -.-> CHEBI_31206
ing2_NaH2PO4["NaH2PO4"]
CultureMech_006023 --> ing2_NaH2PO4
CHEBI_37585["CHEBI:37585"]
ing2_NaH2PO4 -.-> CHEBI_37585
ing3_KCl["KCl"]
CultureMech_006023 --> ing3_KCl
CHEBI_32588["CHEBI:32588"]
ing3_KCl -.-> CHEBI_32588
ing4_Na_acetate["Na-acetate"]
CultureMech_006023 --> ing4_Na_acetate
CHEBI_32954["CHEBI:32954"]
ing4_Na_acetate -.-> CHEBI_32954
ing5_NaHCO3["NaHCO3"]
CultureMech_006023 --> ing5_NaHCO3
CHEBI_32139["CHEBI:32139"]
ing5_NaHCO3 -.-> CHEBI_32139
ing6_Nitrilotriacetic_acid["Nitrilotriacetic acid"]
CultureMech_006023 --> ing6_Nitrilotriacetic_acid
CHEBI_44557["CHEBI:44557"]
ing6_Nitrilotriacetic_acid -.-> CHEBI_44557
ing7_MgSO4_x_7_H2O["MgSO4 x 7 H2O"]
CultureMech_006023 --> ing7_MgSO4_x_7_H2O
CHEBI_31795["CHEBI:31795"]
ing7_MgSO4_x_7_H2O -.-> CHEBI_31795
ing8_MnSO4_x_H2O["MnSO4 x H2O"]
CultureMech_006023 --> ing8_MnSO4_x_H2O
CHEBI_86364["CHEBI:86364"]
ing8_MnSO4_x_H2O -.-> CHEBI_86364
ing9_NaCl["NaCl"]
CultureMech_006023 --> ing9_NaCl
CHEBI_26710["CHEBI:26710"]
ing9_NaCl -.-> CHEBI_26710
ing10_FeSO4_x_7_H2O["FeSO4 x 7 H2O"]
CultureMech_006023 --> ing10_FeSO4_x_7_H2O
CHEBI_75836["CHEBI:75836"]
ing10_FeSO4_x_7_H2O -.-> CHEBI_75836
ing11_CoSO4_x_7_H2O["CoSO4 x 7 H2O"]
CultureMech_006023 --> ing11_CoSO4_x_7_H2O
CHEBI_91244["CHEBI:91244"]
ing11_CoSO4_x_7_H2O -.-> CHEBI_91244
ing12_CaCl2_x_2_H2O["CaCl2 x 2 H2O"]
CultureMech_006023 --> ing12_CaCl2_x_2_H2O
CHEBI_86158["CHEBI:86158"]
ing12_CaCl2_x_2_H2O -.-> CHEBI_86158
ing13_ZnSO4_x_7_H2O["ZnSO4 x 7 H2O"]
CultureMech_006023 --> ing13_ZnSO4_x_7_H2O
CHEBI_32312["CHEBI:32312"]
ing13_ZnSO4_x_7_H2O -.-> CHEBI_32312
ing14_CuSO4_x_5_H2O["CuSO4 x 5 H2O"]
CultureMech_006023 --> ing14_CuSO4_x_5_H2O
CHEBI_31440["CHEBI:31440"]
ing14_CuSO4_x_5_H2O -.-> CHEBI_31440
ing15_AlK_SO4_2_x_12_H2O["AlK(SO4)2 x 12 H2O"]
CultureMech_006023 --> ing15_AlK_SO4_2_x_12_H2O
CHEBI_86465["CHEBI:86465"]
ing15_AlK_SO4_2_x_12_H2O -.-> CHEBI_86465
ing16_H3BO3["H3BO3"]
CultureMech_006023 --> ing16_H3BO3
CHEBI_33118["CHEBI:33118"]
ing16_H3BO3 -.-> CHEBI_33118
ing17_Na2MoO4_x_2_H2O["Na2MoO4 x 2 H2O"]
CultureMech_006023 --> ing17_Na2MoO4_x_2_H2O
CHEBI_75213["CHEBI:75213"]
ing17_Na2MoO4_x_2_H2O -.-> CHEBI_75213
ing18_NiCl2_x_6_H2O["NiCl2 x 6 H2O"]
CultureMech_006023 --> ing18_NiCl2_x_6_H2O
CHEBI_34887["CHEBI:34887"]
ing18_NiCl2_x_6_H2O -.-> CHEBI_34887
ing19_Na2SeO3_x_5_H2O["Na2SeO3 x 5 H2O"]
CultureMech_006023 --> ing19_Na2SeO3_x_5_H2O
CHEBI_131361["CHEBI:131361"]
ing19_Na2SeO3_x_5_H2O -.-> CHEBI_131361
ing20_Na2WO4_x_2_H2O["Na2WO4 x 2 H2O"]
CultureMech_006023 --> ing20_Na2WO4_x_2_H2O
CHEBI_63939["CHEBI:63939"]
ing20_Na2WO4_x_2_H2O -.-> CHEBI_63939
ing21_Biotin["Biotin"]
CultureMech_006023 --> ing21_Biotin
CHEBI_15956["CHEBI:15956"]
ing21_Biotin -.-> CHEBI_15956
ing22_Folic_acid["Folic acid"]
CultureMech_006023 --> ing22_Folic_acid
CHEBI_27470["CHEBI:27470"]
ing22_Folic_acid -.-> CHEBI_27470
ing23_Pyridoxine_hydrochloride["Pyridoxine hydrochloride"]
CultureMech_006023 --> ing23_Pyridoxine_hydrochloride
CHEBI_30961["CHEBI:30961"]
ing23_Pyridoxine_hydrochloride -.-> CHEBI_30961
ing24_Thiamine_HCl["Thiamine HCl"]
CultureMech_006023 --> ing24_Thiamine_HCl
CHEBI_49105["CHEBI:49105"]
ing24_Thiamine_HCl -.-> CHEBI_49105
ing25_Riboflavin["Riboflavin"]
CultureMech_006023 --> ing25_Riboflavin
CHEBI_17015["CHEBI:17015"]
ing25_Riboflavin -.-> CHEBI_17015
ing26_Nicotinic_acid["Nicotinic acid"]
CultureMech_006023 --> ing26_Nicotinic_acid
CHEBI_15940["CHEBI:15940"]
ing26_Nicotinic_acid -.-> CHEBI_15940
ing27_Calcium_D_____pantothenate["Calcium D-(+)-pantothenate"]
CultureMech_006023 --> ing27_Calcium_D_____pantothenate
CHEBI_31345["CHEBI:31345"]
ing27_Calcium_D_____pantothenate -.-> CHEBI_31345
ing28_Vitamin_B12["Vitamin B12"]
CultureMech_006023 --> ing28_Vitamin_B12
CHEBI_176843["CHEBI:176843"]
ing28_Vitamin_B12 -.-> CHEBI_176843
ing29_p_Aminobenzoic_acid["p-Aminobenzoic acid"]
CultureMech_006023 --> ing29_p_Aminobenzoic_acid
CHEBI_30753["CHEBI:30753"]
ing29_p_Aminobenzoic_acid -.-> CHEBI_30753
CultureMech_006023 --> more["...1 more"]
Ingredients (31)
| # | Ingredient | Concentration | Ontology | Notes |
|---|---|---|---|---|
| 1 |
Ferric citrate
C6H5FeO7 244.944 g/mol
|
13.5509 G_PER_L |
CHEBI:144421
iron(III) citrate
|
|
| 2 |
NH4Cl
Cl.H4N 53.492 g/mol
|
1.48368 G_PER_L |
CHEBI:31206
ammonium chloride
|
|
| 3 |
NaH2PO4
H2O4P.Na 119.976 g/mol
|
0.593472 G_PER_L |
CHEBI:37585
sodium dihydrogenphosphate
|
|
| 4 |
KCl
Cl.K 74.551 g/mol
|
0.098912 G_PER_L |
CHEBI:32588
potassium chloride
|
|
| 5 |
Na-acetate
C2H3O2.Na 82.034 g/mol
|
2.4728 G_PER_L |
CHEBI:32954
sodium acetate
|
|
| 6 |
NaHCO3
CHO3.Na 84.006 g/mol
|
2.4728 G_PER_L |
CHEBI:32139
sodium hydrogencarbonate
|
|
| 7 |
Nitrilotriacetic acid
C6H9NO6 191.139 g/mol
|
1.5 G_PER_L |
CHEBI:44557
nitrilotriacetic acid
|
|
| 8 |
MgSO4 x 7 H2O
7H2O.Mg.O4S 246.473 g/mol
|
3 G_PER_L |
CHEBI:31795
magnesium sulfate heptahydrate
|
|
| 9 |
MnSO4 x H2O
H2O.Mn.O4S 169.016 g/mol
|
0.5 G_PER_L |
CHEBI:86364
manganese(II) sulfate monohydrate
|
|
| 10 |
NaCl
Cl.Na 58.443 g/mol
|
1 G_PER_L |
CHEBI:26710
sodium chloride
|
|
| 11 |
FeSO4 x 7 H2O
Fe.7H2O.O4S 278.013 g/mol
|
0.1 G_PER_L |
CHEBI:75836
iron(2+) sulfate heptahydrate
|
|
| 12 |
CoSO4 x 7 H2O
Co.7H2O.O4S 281.101 g/mol
|
0.18 G_PER_L |
CHEBI:91244
cobalt(2+) sulfate heptahydrate
|
|
| 13 |
CaCl2 x 2 H2O
Ca.2Cl.2H2O 147.014 g/mol
|
0.1 G_PER_L |
CHEBI:86158
calcium chloride dihydrate
|
|
| 14 |
ZnSO4 x 7 H2O
7H2O.O4S.Zn 287.558 g/mol
|
0.18 G_PER_L |
CHEBI:32312
zinc sulfate heptahydrate
|
|
| 15 |
CuSO4 x 5 H2O
Cu.5H2O.O4S 249.684 g/mol
|
0.01 G_PER_L |
CHEBI:31440
copper(II) sulfate pentahydrate
|
|
| 16 |
AlK(SO4)2 x 12 H2O
Al.12H2O.K.2O4S 474.386 g/mol
|
0.02 G_PER_L |
CHEBI:86465
potassium aluminium sulfate dodecahydrate
|
|
| 17 |
H3BO3
H3BO3 61.833 g/mol
|
0.01 G_PER_L |
CHEBI:33118
boric acid
|
|
| 18 |
Na2MoO4 x 2 H2O
2H2O.MoO4.2Na 241.946 g/mol
|
0.01 G_PER_L |
CHEBI:75213
sodium molybdate dihydrate
|
|
| 19 |
NiCl2 x 6 H2O
Cl2Ni 129.599 g/mol
|
0.03 G_PER_L |
CHEBI:34887
nickel dichloride
|
|
| 20 |
Na2SeO3 x 5 H2O
5H2O.2Na.O3Se 263.012 g/mol
|
0.0003 G_PER_L |
CHEBI:131361
disodium selenite pentahydrate
|
|
| 21 |
Na2WO4 x 2 H2O
2H2O.2Na.O4W 329.846 g/mol
|
0.0004 G_PER_L |
CHEBI:63939
sodium tungstate dihydrate
|
|
| 22 |
Biotin
C10H16N2O3S 244.316 g/mol
|
0.02 G_PER_L |
CHEBI:15956
biotin
|
|
| 23 |
Folic acid
C19H19N7O6 441.404 g/mol
|
0.02 G_PER_L |
CHEBI:27470
folic acid
|
|
| 24 |
Pyridoxine hydrochloride
C8H11NO3.HCl 205.641 g/mol
|
0.1 G_PER_L |
CHEBI:30961
pyridoxine hydrochloride
|
|
| 25 |
Thiamine HCl
C12H17N4OS.Cl.HCl 337.276 g/mol
|
0.05 G_PER_L |
CHEBI:49105
thiamine hydrochloride
|
|
| 26 |
Riboflavin
C17H20N4O6 376.369 g/mol
|
0.05 G_PER_L |
CHEBI:17015
riboflavin
|
|
| 27 |
Nicotinic acid
C6H5NO2 123.111 g/mol
|
0.05 G_PER_L |
CHEBI:15940
nicotinic acid
|
|
| 28 |
Calcium D-(+)-pantothenate
2C9H16NO5.Ca 476.536 g/mol
|
0.05 G_PER_L |
CHEBI:31345
Calcium pantothenate
|
|
| 29 | Vitamin B12 | 0.001 G_PER_L |
CHEBI:176843
vitamin B12
|
|
| 30 |
p-Aminobenzoic acid
C7H7NO2 137.138 g/mol
|
0.05 G_PER_L |
CHEBI:30753
4-aminobenzoic acid
|
|
| 31 |
(DL)-alpha-Lipoic acid
C8H14O2S2 206.332 g/mol
|
0.05 G_PER_L |
CHEBI:16494
lipoic acid
|
Target organisms
No target organisms are recorded.
Provenance
Merged from 2 source records.
- KOMODO_579_GEOBACTER_MEDIUM (CultureMech:006023)
- geobacter_medium (CultureMech:001705)
| Timestamp | Curator | Action | Notes |
|---|---|---|---|
| 2026-01-27T01:15:03.fZ | komodo-web-import | Imported from KOMODO web table | Source: KOMODO, ID: 579 |
| 2026-02-03T11:19:17.202184 | dsmz-resolver-v1.0 | Enriched with DSMZ composition | Copied ingredients from DSMZ Medium 579 |
| 2026-02-06T05:10:50.656085Z | invalid-chebi-removal | Removed 1 invalid CHEBI ID(s) | Removed CHEBI IDs with invalid format (7+ digits) from MicrobeMediaParam source data |
| 2026-03-13T06:19:37.699025Z | culturemech-id-assigner-v1.0 | Assigned CultureMech ID | Assigned stable identifier: CultureMech:006023 |
| 2026-03-17T06:30:48.000000Z | mediaingredientmech-enrichment-v1.0 | Added MediaIngredientMech links | Linked ingredients to MediaIngredientMech identifiers |
| 2026-03-17T19:45:54.514815+00:00 | normalize_media_names_to_snake_case.py | NAME_NORMALIZED | Normalized name from "GEOBACTER MEDIUM" to "geobacter_medium" for consistent matching |
| 2026-05-20T06:00:52.701324+00:00 | migrate_ph_range.py | MIGRATED_PH_RANGE | ph_range '6.7-7.0' -> {'min': 6.7, 'max': 7.0} |
| 2026-06-05T07:40:24.669437+00:00 | mim-legacy-to-chebi-migration-v1.0 | Refreshed legacy MediaIngredientMech links to CHEBI keying | Replaced 30 legacy mediaingredientmech_term link(s) with mediaingredientmech_chebi_term (id-safe: ingredient's own CHEBI + label). MIM deprecated the MediaIngredientMech:NNNNNN id scheme. |
| 2026-06-10T07:46:45.300280+00:00 | primary-term-label-canonicalization-v1.0 | Canonicalized primary term label to OBO canonical (OAK) | 3 primary term(s); ingredient name resolved by OAK sqlite:obo:chebi. |
| 2026-08-06T03:04:55.611001+00:00 | recipe-merger | Merged 2 duplicate recipes into canonical record | Sources: KOMODO_579_GEOBACTER_MEDIUM, geobacter_medium |
| 2026-08-06T03:04:55.611045+00:00 | merge_recipes.py | MERGED_RECIPES | merged 2 source recipe(s) on fingerprint ec092ba829ce28c66ba70291882c9b13b41832f7aa7cc51f933e0c871eb08f9e |