Overview
- External ontology
- komodo.medium:1131 (source link unavailable) — HYDROGENIVIRGA OKINAWENSIS MEDIUM
- Applications
-
- Microbial cultivation
- pH
- 7.0
- Notes
- pH buffer: NaOH | Source: KOMODO ModelSEED | ID: 1131 | DSMZ Medium: 1131 (mediadive.medium:1131) | Aerobic: Yes
Composition
flowchart LR
CultureMech_003840["hydrogenivirga_okinawensis_medium"]
ing0_Sulfur["Sulfur"]
CultureMech_003840 --> ing0_Sulfur
CHEBI_26833["CHEBI:26833"]
ing0_Sulfur -.-> CHEBI_26833
ing1_NaNO3["NaNO3"]
CultureMech_003840 --> ing1_NaNO3
CHEBI_63005["CHEBI:63005"]
ing1_NaNO3 -.-> CHEBI_63005
ing2_NaHCO3["NaHCO3"]
CultureMech_003840 --> ing2_NaHCO3
CHEBI_32139["CHEBI:32139"]
ing2_NaHCO3 -.-> CHEBI_32139
ing3_NaCl["NaCl"]
CultureMech_003840 --> ing3_NaCl
CHEBI_26710["CHEBI:26710"]
ing3_NaCl -.-> CHEBI_26710
ing4_K2HPO4["K2HPO4"]
CultureMech_003840 --> ing4_K2HPO4
CHEBI_131527["CHEBI:131527"]
ing4_K2HPO4 -.-> CHEBI_131527
ing5_CaCl2_x_2_H2O["CaCl2 x 2 H2O"]
CultureMech_003840 --> ing5_CaCl2_x_2_H2O
CHEBI_86158["CHEBI:86158"]
ing5_CaCl2_x_2_H2O -.-> CHEBI_86158
ing6_NH4Cl["NH4Cl"]
CultureMech_003840 --> ing6_NH4Cl
CHEBI_31206["CHEBI:31206"]
ing6_NH4Cl -.-> CHEBI_31206
ing7_MgSO4_x_7_H2O["MgSO4 x 7 H2O"]
CultureMech_003840 --> ing7_MgSO4_x_7_H2O
CHEBI_31795["CHEBI:31795"]
ing7_MgSO4_x_7_H2O -.-> CHEBI_31795
ing8_MgCl2_x_6_H2O["MgCl2 x 6 H2O"]
CultureMech_003840 --> ing8_MgCl2_x_6_H2O
CHEBI_86345["CHEBI:86345"]
ing8_MgCl2_x_6_H2O -.-> CHEBI_86345
ing9_KCl["KCl"]
CultureMech_003840 --> ing9_KCl
CHEBI_32588["CHEBI:32588"]
ing9_KCl -.-> CHEBI_32588
ing10_FeSO4_x_7_H2O["FeSO4 x 7 H2O"]
CultureMech_003840 --> ing10_FeSO4_x_7_H2O
CHEBI_75836["CHEBI:75836"]
ing10_FeSO4_x_7_H2O -.-> CHEBI_75836
ing11_NiCl2_x_6_H2O["NiCl2 x 6 H2O"]
CultureMech_003840 --> ing11_NiCl2_x_6_H2O
CHEBI_34887["CHEBI:34887"]
ing11_NiCl2_x_6_H2O -.-> CHEBI_34887
ing12_Na2SeO3_x_5_H2O["Na2SeO3 x 5 H2O"]
CultureMech_003840 --> ing12_Na2SeO3_x_5_H2O
CHEBI_131361["CHEBI:131361"]
ing12_Na2SeO3_x_5_H2O -.-> CHEBI_131361
ing13_Biotin["Biotin"]
CultureMech_003840 --> ing13_Biotin
CHEBI_15956["CHEBI:15956"]
ing13_Biotin -.-> CHEBI_15956
ing14_Folic_acid["Folic acid"]
CultureMech_003840 --> ing14_Folic_acid
CHEBI_27470["CHEBI:27470"]
ing14_Folic_acid -.-> CHEBI_27470
ing15_Pyridoxine_hydrochloride["Pyridoxine hydrochloride"]
CultureMech_003840 --> ing15_Pyridoxine_hydrochloride
CHEBI_30961["CHEBI:30961"]
ing15_Pyridoxine_hydrochloride -.-> CHEBI_30961
ing16_Thiamine_HCl_x_2_H2O["Thiamine-HCl x 2 H2O"]
CultureMech_003840 --> ing16_Thiamine_HCl_x_2_H2O
CHEBI_132751["CHEBI:132751"]
ing16_Thiamine_HCl_x_2_H2O -.-> CHEBI_132751
ing17_Riboflavin["Riboflavin"]
CultureMech_003840 --> ing17_Riboflavin
CHEBI_17015["CHEBI:17015"]
ing17_Riboflavin -.-> CHEBI_17015
ing18_Nicotinic_acid["Nicotinic acid"]
CultureMech_003840 --> ing18_Nicotinic_acid
CHEBI_15940["CHEBI:15940"]
ing18_Nicotinic_acid -.-> CHEBI_15940
ing19_D_Calcium_pantothenate["D-Calcium pantothenate"]
CultureMech_003840 --> ing19_D_Calcium_pantothenate
CHEBI_31345["CHEBI:31345"]
ing19_D_Calcium_pantothenate -.-> CHEBI_31345
ing20_Vitamin_B12["Vitamin B12"]
CultureMech_003840 --> ing20_Vitamin_B12
CHEBI_176843["CHEBI:176843"]
ing20_Vitamin_B12 -.-> CHEBI_176843
ing21_p_Aminobenzoic_acid["p-Aminobenzoic acid"]
CultureMech_003840 --> ing21_p_Aminobenzoic_acid
CHEBI_30753["CHEBI:30753"]
ing21_p_Aminobenzoic_acid -.-> CHEBI_30753
ing22_Lipoic_acid["Lipoic acid"]
CultureMech_003840 --> ing22_Lipoic_acid
CHEBI_16494["CHEBI:16494"]
ing22_Lipoic_acid -.-> CHEBI_16494
ing23_Nitrilotriacetic_acid["Nitrilotriacetic acid"]
CultureMech_003840 --> ing23_Nitrilotriacetic_acid
CHEBI_44557["CHEBI:44557"]
ing23_Nitrilotriacetic_acid -.-> CHEBI_44557
ing24_MnSO4_x_H2O["MnSO4 x H2O"]
CultureMech_003840 --> ing24_MnSO4_x_H2O
CHEBI_86364["CHEBI:86364"]
ing24_MnSO4_x_H2O -.-> CHEBI_86364
ing25_CoSO4_x_7_H2O["CoSO4 x 7 H2O"]
CultureMech_003840 --> ing25_CoSO4_x_7_H2O
CHEBI_91244["CHEBI:91244"]
ing25_CoSO4_x_7_H2O -.-> CHEBI_91244
ing26_ZnSO4_x_7_H2O["ZnSO4 x 7 H2O"]
CultureMech_003840 --> ing26_ZnSO4_x_7_H2O
CHEBI_32312["CHEBI:32312"]
ing26_ZnSO4_x_7_H2O -.-> CHEBI_32312
ing27_CuSO4_x_5_H2O["CuSO4 x 5 H2O"]
CultureMech_003840 --> ing27_CuSO4_x_5_H2O
CHEBI_31440["CHEBI:31440"]
ing27_CuSO4_x_5_H2O -.-> CHEBI_31440
ing28_AlK_SO4_2_x_12_H2O["AlK(SO4)2 x 12 H2O"]
CultureMech_003840 --> ing28_AlK_SO4_2_x_12_H2O
CHEBI_86465["CHEBI:86465"]
ing28_AlK_SO4_2_x_12_H2O -.-> CHEBI_86465
ing29_H3BO3["H3BO3"]
CultureMech_003840 --> ing29_H3BO3
CHEBI_33118["CHEBI:33118"]
ing29_H3BO3 -.-> CHEBI_33118
CultureMech_003840 --> more["...2 more"]
Ingredients (32)
| # | Ingredient | Concentration | Ontology | Notes |
|---|---|---|---|---|
| 1 |
Sulfur
S 32.067 g/mol
|
3 G_PER_L |
CHEBI:26833
sulfur atom
|
|
| 2 |
NaNO3
NO3.Na 84.994 g/mol
|
1 G_PER_L |
CHEBI:63005
sodium nitrate
|
|
| 3 |
NaHCO3
CHO3.Na 84.006 g/mol
|
1 G_PER_L |
CHEBI:32139
sodium hydrogencarbonate
|
|
| 4 |
NaCl
Cl.Na 58.443 g/mol
|
31.0 G_PER_L |
CHEBI:26710
sodium chloride
|
[Merged 2 duplicates: 30.0, 1.0] |
| 5 |
K2HPO4
HO4P.2K 174.174 g/mol
|
0.14 G_PER_L |
CHEBI:131527
dipotassium hydrogen phosphate
|
|
| 6 |
CaCl2 x 2 H2O
Ca.2Cl.2H2O 147.014 g/mol
|
0.6 G_PER_L |
CHEBI:86158
calcium chloride dihydrate
|
[Merged 2 duplicates: 0.5, 0.1] |
| 7 |
NH4Cl
Cl.H4N 53.492 g/mol
|
0.5 G_PER_L |
CHEBI:31206
ammonium chloride
|
|
| 8 |
MgSO4 x 7 H2O
7H2O.Mg.O4S 246.473 g/mol
|
6.4 G_PER_L |
CHEBI:31795
magnesium sulfate heptahydrate
|
[Merged 2 duplicates: 3.4, 3.0] |
| 9 |
MgCl2 x 6 H2O
2Cl.6H2O.Mg 203.301 g/mol
|
4.18 G_PER_L |
CHEBI:86345
magnesium dichloride hexahydrate
|
|
| 10 |
KCl
Cl.K 74.551 g/mol
|
0.33 G_PER_L |
CHEBI:32588
potassium chloride
|
|
| 11 |
FeSO4 x 7 H2O
Fe.7H2O.O4S 278.013 g/mol
|
0.11 G_PER_L |
CHEBI:75836
iron(2+) sulfate heptahydrate
|
[Merged 2 duplicates: 0.01, 0.1] |
| 12 |
NiCl2 x 6 H2O
Cl2Ni 129.599 g/mol
|
1 MG_PER_L |
CHEBI:34887
nickel dichloride
|
[Unit conflict resolved: assumed G_PER_L was data entry error, kept MG_PER_L] |
| 13 |
Na2SeO3 x 5 H2O
5H2O.2Na.O3Se 263.012 g/mol
|
1 MG_PER_L |
CHEBI:131361
disodium selenite pentahydrate
|
[WARNING: 2 duplicates with conflicting units] |
| 14 |
Biotin
C10H16N2O3S 244.316 g/mol
|
0.002 G_PER_L |
CHEBI:15956
biotin
|
|
| 15 |
Folic acid
C19H19N7O6 441.404 g/mol
|
0.002 G_PER_L |
CHEBI:27470
folic acid
|
|
| 16 |
Pyridoxine hydrochloride
C8H11NO3.HCl 205.641 g/mol
|
0.01 G_PER_L |
CHEBI:30961
pyridoxine hydrochloride
|
|
| 17 |
Thiamine-HCl x 2 H2O
C12H18N4OS.2Cl.2H2O 373.306 g/mol
|
0.005 G_PER_L |
CHEBI:132751
thiamine hydrochloride dihydrate
|
|
| 18 |
Riboflavin
C17H20N4O6 376.369 g/mol
|
0.005 G_PER_L |
CHEBI:17015
riboflavin
|
|
| 19 |
Nicotinic acid
C6H5NO2 123.111 g/mol
|
0.005 G_PER_L |
CHEBI:15940
nicotinic acid
|
|
| 20 |
D-Calcium pantothenate
2C9H16NO5.Ca 476.536 g/mol
|
0.005 G_PER_L |
CHEBI:31345
Calcium pantothenate
|
|
| 21 | Vitamin B12 | 0.0001 G_PER_L |
CHEBI:176843
vitamin B12
|
|
| 22 |
p-Aminobenzoic acid
C7H7NO2 137.138 g/mol
|
0.005 G_PER_L |
CHEBI:30753
4-aminobenzoic acid
|
|
| 23 |
Lipoic acid
C8H14O2S2 206.332 g/mol
|
0.005 G_PER_L |
CHEBI:16494
lipoic acid
|
|
| 24 |
Nitrilotriacetic acid
C6H9NO6 191.139 g/mol
|
1.5 G_PER_L |
CHEBI:44557
nitrilotriacetic acid
|
|
| 25 |
MnSO4 x H2O
H2O.Mn.O4S 169.016 g/mol
|
0.5 G_PER_L |
CHEBI:86364
manganese(II) sulfate monohydrate
|
|
| 26 |
CoSO4 x 7 H2O
Co.7H2O.O4S 281.101 g/mol
|
0.18 G_PER_L |
CHEBI:91244
cobalt(2+) sulfate heptahydrate
|
|
| 27 |
ZnSO4 x 7 H2O
7H2O.O4S.Zn 287.558 g/mol
|
0.18 G_PER_L |
CHEBI:32312
zinc sulfate heptahydrate
|
|
| 28 |
CuSO4 x 5 H2O
Cu.5H2O.O4S 249.684 g/mol
|
0.01 G_PER_L |
CHEBI:31440
copper(II) sulfate pentahydrate
|
|
| 29 |
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
|
|
| 30 |
H3BO3
H3BO3 61.833 g/mol
|
0.01 G_PER_L |
CHEBI:33118
boric acid
|
|
| 31 |
Na2MoO4 x 2 H2O
2H2O.MoO4.2Na 241.946 g/mol
|
0.01 G_PER_L |
CHEBI:75213
sodium molybdate dihydrate
|
|
| 32 |
NaOH
HO.Na 39.997 g/mol
|
variable VARIABLE |
CHEBI:32145
sodium hydroxide
|
pH adjustment (extracted from notes) |
Target organisms
No target organisms are recorded.
Provenance
| Timestamp | Curator | Action | Notes |
|---|---|---|---|
| 2026-01-27T01:15:01.fZ | komodo-web-import | Imported from KOMODO web table | Source: KOMODO, ID: 1131 |
| 2026-02-03T11:19:02.522203 | dsmz-resolver-v1.0 | Enriched with DSMZ composition | Copied ingredients from DSMZ Medium 1131 |
| 2026-03-13T03:08:58.263355Z | data-quality-cleanup-v1.0 | Data quality fixes | Merged 6 duplicate ingredient(s); WARNING: Duplicate 'NiCl2 x 6 H2O' with different units: {'MG_PER_L', 'G_PER_L'}; WARNING: Duplicate 'Na2SeO3 x 5 H2O' with different units: {'MG_PER_L', 'G_PER_L'}; Added pH buffer: NaOH |
| 2026-03-13T04:23:43.730765Z | unit-conflict-resolver-v1.0 | Resolved unit conflicts | Resolved trace metal unit conflict for NiCl2 x 6 H2O |
| 2026-03-13T06:19:22.643177Z | culturemech-id-assigner-v1.0 | Assigned CultureMech ID | Assigned stable identifier: CultureMech:003840 |
| 2026-03-14T00:00:00+00:00 | schema-defaulter-v1.0 | Applied schema defaults and normalizations | Added default concentration for ingredient: NaOH |
| 2026-03-17T06:30:03.000000Z | mediaingredientmech-enrichment-v1.0 | Added MediaIngredientMech links | Linked ingredients to MediaIngredientMech identifiers |
| 2026-03-17T19:45:37.060906+00:00 | normalize_media_names_to_snake_case.py | NAME_NORMALIZED | Normalized name from "HYDROGENIVIRGA OKINAWENSIS MEDIUM" to "hydrogenivirga_okinawensis_medium" for consistent matching |
| 2026-05-16T09:03:00.245362+00:00 | migrate_legacy_fields.py | MIGRATED_LEGACY_FIELDS | curation_history.date->timestamp=1 |
| 2026-06-05T07:40:19.228062+00:00 | mim-legacy-to-chebi-migration-v1.0 | Refreshed legacy MediaIngredientMech links to CHEBI keying | Replaced 31 legacy mediaingredientmech_term link(s) with mediaingredientmech_chebi_term (id-safe: ingredient's own CHEBI + label). MIM deprecated the MediaIngredientMech:NNNNNN id scheme. |
| 2026-06-10T07:46:43.569478+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. |