Overview
- External ontology
- TOGO:M1595 — Oceanithermus profundus Medium
- Applications
-
- Microbial cultivation
- Notes
- Source: https://togomedium.org/medium/M1595 Original source: NBRC - NBRC_M404 Original URL: https://www.nite.go.jp/nbrc/catalogue/NBRCMediumDetailServlet?NO=404
Composition
flowchart LR
CultureMech_008146["oceanithermus_profundus_medium"]
ing0_Distilled_water["Distilled water"]
CultureMech_008146 --> ing0_Distilled_water
CHEBI_15377["CHEBI:15377"]
ing0_Distilled_water -.-> CHEBI_15377
ing1_Yeast_extract["Yeast extract"]
CultureMech_008146 --> ing1_Yeast_extract
ing2_NaCl["NaCl"]
CultureMech_008146 --> ing2_NaCl
CHEBI_26710["CHEBI:26710"]
ing2_NaCl -.-> CHEBI_26710
ing3_CaCl2_2H2O["CaCl2·2H2O"]
CultureMech_008146 --> ing3_CaCl2_2H2O
CHEBI_86158["CHEBI:86158"]
ing3_CaCl2_2H2O -.-> CHEBI_86158
ing4_NH4Cl["NH4Cl"]
CultureMech_008146 --> ing4_NH4Cl
CHEBI_31206["CHEBI:31206"]
ing4_NH4Cl -.-> CHEBI_31206
ing5_MgCl2_6H2O["MgCl2·6H2O"]
CultureMech_008146 --> ing5_MgCl2_6H2O
CHEBI_86345["CHEBI:86345"]
ing5_MgCl2_6H2O -.-> CHEBI_86345
ing6_KCl["KCl"]
CultureMech_008146 --> ing6_KCl
CHEBI_32588["CHEBI:32588"]
ing6_KCl -.-> CHEBI_32588
ing7_KNO3["KNO3"]
CultureMech_008146 --> ing7_KNO3
CHEBI_63043["CHEBI:63043"]
ing7_KNO3 -.-> CHEBI_63043
ing8_Sucrose["Sucrose"]
CultureMech_008146 --> ing8_Sucrose
CHEBI_17992["CHEBI:17992"]
ing8_Sucrose -.-> CHEBI_17992
ing9_HEPES["HEPES"]
CultureMech_008146 --> ing9_HEPES
CHEBI_46756["CHEBI:46756"]
ing9_HEPES -.-> CHEBI_46756
ing10_Tryptone["Tryptone"]
CultureMech_008146 --> ing10_Tryptone
ing11_N2["N2"]
CultureMech_008146 --> ing11_N2
CHEBI_17997["CHEBI:17997"]
ing11_N2 -.-> CHEBI_17997
ing12_Biotin["Biotin"]
CultureMech_008146 --> ing12_Biotin
CHEBI_15956["CHEBI:15956"]
ing12_Biotin -.-> CHEBI_15956
ing13_p_Aminobenzoic_acid["p-Aminobenzoic acid"]
CultureMech_008146 --> ing13_p_Aminobenzoic_acid
CHEBI_30753["CHEBI:30753"]
ing13_p_Aminobenzoic_acid -.-> CHEBI_30753
ing14_Thiamine_HCl["Thiamine-HCl"]
CultureMech_008146 --> ing14_Thiamine_HCl
CHEBI_49105["CHEBI:49105"]
ing14_Thiamine_HCl -.-> CHEBI_49105
ing15_Ca_pantothenate["Ca-pantothenate"]
CultureMech_008146 --> ing15_Ca_pantothenate
CHEBI_29032["CHEBI:29032"]
ing15_Ca_pantothenate -.-> CHEBI_29032
ing16_Pyridoxine_HCl["Pyridoxine-HCl"]
CultureMech_008146 --> ing16_Pyridoxine_HCl
CHEBI_30961["CHEBI:30961"]
ing16_Pyridoxine_HCl -.-> CHEBI_30961
ing17_Folic_acid["Folic acid"]
CultureMech_008146 --> ing17_Folic_acid
CHEBI_27470["CHEBI:27470"]
ing17_Folic_acid -.-> CHEBI_27470
ing18_Vitamin_B12["Vitamin B12"]
CultureMech_008146 --> ing18_Vitamin_B12
CHEBI_176843["CHEBI:176843"]
ing18_Vitamin_B12 -.-> CHEBI_176843
ing19_Riboflavin["Riboflavin"]
CultureMech_008146 --> ing19_Riboflavin
CHEBI_17015["CHEBI:17015"]
ing19_Riboflavin -.-> CHEBI_17015
ing20_Nicotinic_acid["Nicotinic acid"]
CultureMech_008146 --> ing20_Nicotinic_acid
CHEBI_15940["CHEBI:15940"]
ing20_Nicotinic_acid -.-> CHEBI_15940
ing21_Lipoic_acid["Lipoic acid"]
CultureMech_008146 --> ing21_Lipoic_acid
CHEBI_16494["CHEBI:16494"]
ing21_Lipoic_acid -.-> CHEBI_16494
ing22_MgSO4_7H2O["MgSO4·7H2O"]
CultureMech_008146 --> ing22_MgSO4_7H2O
CHEBI_31795["CHEBI:31795"]
ing22_MgSO4_7H2O -.-> CHEBI_31795
ing23_Na2MoO4_2H2O["Na2MoO4·2H2O"]
CultureMech_008146 --> ing23_Na2MoO4_2H2O
CHEBI_75213["CHEBI:75213"]
ing23_Na2MoO4_2H2O -.-> CHEBI_75213
ing24_H3BO3["H3BO3"]
CultureMech_008146 --> ing24_H3BO3
CHEBI_33118["CHEBI:33118"]
ing24_H3BO3 -.-> CHEBI_33118
ing25_FeSO4_7H2O["FeSO4·7H2O"]
CultureMech_008146 --> ing25_FeSO4_7H2O
CHEBI_75836["CHEBI:75836"]
ing25_FeSO4_7H2O -.-> CHEBI_75836
ing26_NiCl2_6H2O["NiCl2·6H2O"]
CultureMech_008146 --> ing26_NiCl2_6H2O
CHEBI_34887["CHEBI:34887"]
ing26_NiCl2_6H2O -.-> CHEBI_34887
ing27_ZnSO4_7H2O["ZnSO4·7H2O"]
CultureMech_008146 --> ing27_ZnSO4_7H2O
CHEBI_32312["CHEBI:32312"]
ing27_ZnSO4_7H2O -.-> CHEBI_32312
ing28_CuSO4_5H2O["CuSO4·5H2O"]
CultureMech_008146 --> ing28_CuSO4_5H2O
CHEBI_31440["CHEBI:31440"]
ing28_CuSO4_5H2O -.-> CHEBI_31440
ing29_Na2SeO3_5H2O["Na2SeO3·5H2O"]
CultureMech_008146 --> ing29_Na2SeO3_5H2O
CHEBI_131361["CHEBI:131361"]
ing29_Na2SeO3_5H2O -.-> CHEBI_131361
CultureMech_008146 --> more["...5 more"]
Ingredients (35)
| # | Ingredient | Concentration | Ontology | Notes |
|---|---|---|---|---|
| 1 |
Distilled water
H2O 18.015 g/mol
|
3.0 G_PER_L |
CHEBI:15377
water
|
Role: Solvating media; Properties: Inorganic compound, Defined component, Simple component [Merged 3 duplicates: 1.0, 1.0, 1.0] |
| 2 | Yeast extract | 0.2 G_PER_L | Role: Nutrient source; Properties: Undefined component | |
| 3 |
NaCl
Cl.Na 58.443 g/mol
|
31.0 G_PER_L |
CHEBI:26710
sodium chloride
|
Role: Mineral source; Properties: Inorganic compound, Defined component, Simple component [Merged 2 duplicates: 30.0, 1.0] |
| 4 |
CaCl2·2H2O
Ca.2Cl.2H2O 147.014 g/mol
|
0.43000000000000005 G_PER_L |
CHEBI:86158
calcium chloride dihydrate
|
Role: Mineral source; Properties: Inorganic compound, Defined component, Simple component [Merged 2 duplicates: 0.33, 0.1] |
| 5 |
NH4Cl
Cl.H4N 53.492 g/mol
|
0.33 G_PER_L |
CHEBI:31206
ammonium chloride
|
Role: Nitrogen source; Properties: Inorganic compound, Defined component, Simple component |
| 6 |
MgCl2·6H2O
2Cl.6H2O.Mg 203.301 g/mol
|
0.33 G_PER_L |
CHEBI:86345
magnesium dichloride hexahydrate
|
Role: Mineral source; Properties: Inorganic compound, Defined component, Simple component |
| 7 |
KCl
Cl.K 74.551 g/mol
|
0.33 G_PER_L |
CHEBI:32588
potassium chloride
|
Role: Mineral source; Properties: Inorganic compound, Defined component, Simple component |
| 8 |
KNO3
K.NO3 101.102 g/mol
|
0.33 G_PER_L |
CHEBI:63043
potassium nitrate
|
Role: Mineral source; Properties: Inorganic compound, Defined component, Simple component |
| 9 |
Sucrose
C12H22O11 342.297 g/mol
|
2 G_PER_L |
CHEBI:17992
sucrose
|
Role: Carbon source; Properties: Organic compound, Defined component, Simple component |
| 10 | HEPES | 2.38 G_PER_L |
CHEBI:46756
HEPES
|
Role: Buffer; Properties: Organic compound, Defined component, Simple component |
| 11 | Tryptone | 1 G_PER_L | Properties: Undefined component | |
| 12 |
N2
N2 28.014 g/mol
|
variable VARIABLE |
CHEBI:17997
dinitrogen
|
Properties: Gas |
| 13 |
Biotin
C10H16N2O3S 244.316 g/mol
|
2 G_PER_L |
CHEBI:15956
biotin
|
Role: Vitamin; Properties: Organic compound, Defined component, Simple component |
| 14 |
p-Aminobenzoic acid
C7H7NO2 137.138 g/mol
|
5 G_PER_L |
CHEBI:30753
4-aminobenzoic acid
|
Role: Vitamin; Properties: Organic compound, Defined component, Simple component |
| 15 |
Thiamine-HCl
C12H17N4OS.Cl.HCl 337.276 g/mol
|
5 G_PER_L |
CHEBI:49105
thiamine hydrochloride
|
Role: Vitamin; Properties: Organic compound, Defined component, Simple component |
| 16 |
Ca-pantothenate
C9H16NO5 218.229 g/mol
|
5 G_PER_L |
CHEBI:29032
(R)-pantothenate
|
Role: Vitamin; Properties: Organic compound, Defined component, Simple component |
| 17 |
Pyridoxine-HCl
C8H11NO3.HCl 205.641 g/mol
|
10 G_PER_L |
CHEBI:30961
pyridoxine hydrochloride
|
Role: Vitamin; Properties: Organic compound, Defined component, Simple component |
| 18 |
Folic acid
C19H19N7O6 441.404 g/mol
|
2 G_PER_L |
CHEBI:27470
folic acid
|
Role: Vitamin; Properties: Organic compound, Defined component, Simple component |
| 19 | Vitamin B12 | 0.1 G_PER_L |
CHEBI:176843
vitamin B12
|
Role: Vitamin; Properties: Organic compound, Defined component, Simple component |
| 20 |
Riboflavin
C17H20N4O6 376.369 g/mol
|
5 G_PER_L |
CHEBI:17015
riboflavin
|
Role: Vitamin; Properties: Organic compound, Defined component, Simple component |
| 21 |
Nicotinic acid
C6H5NO2 123.111 g/mol
|
5 G_PER_L |
CHEBI:15940
nicotinic acid
|
Role: Vitamin; Properties: Organic compound, Defined component, Simple component |
| 22 |
Lipoic acid
C8H14O2S2 206.332 g/mol
|
5 G_PER_L |
CHEBI:16494
lipoic acid
|
Role: Growth factor; Properties: Organic compound, Defined component, Simple component |
| 23 |
MgSO4·7H2O
7H2O.Mg.O4S 246.473 g/mol
|
3 G_PER_L |
CHEBI:31795
magnesium sulfate heptahydrate
|
Role: Mineral source; Properties: Inorganic compound, Defined component, Simple component |
| 24 |
Na2MoO4·2H2O
2H2O.MoO4.2Na 241.946 g/mol
|
0.01 G_PER_L |
CHEBI:75213
sodium molybdate dihydrate
|
Role: Mineral source; Properties: Inorganic compound, Defined component, Simple component |
| 25 |
H3BO3
H3BO3 61.833 g/mol
|
0.01 G_PER_L |
CHEBI:33118
boric acid
|
Role: Mineral source; Properties: Inorganic compound, Defined component, Simple component |
| 26 |
FeSO4·7H2O
Fe.7H2O.O4S 278.013 g/mol
|
0.1 G_PER_L |
CHEBI:75836
iron(2+) sulfate heptahydrate
|
Role: Mineral source; Properties: Inorganic compound, Defined component, Simple component |
| 27 |
NiCl2·6H2O
Cl2Ni 129.599 g/mol
|
0.025 G_PER_L |
CHEBI:34887
nickel dichloride
|
Role: Mineral source; Properties: Inorganic compound, Defined component, Simple component |
| 28 |
ZnSO4·7H2O
7H2O.O4S.Zn 287.558 g/mol
|
0.18 G_PER_L |
CHEBI:32312
zinc sulfate heptahydrate
|
Role: Mineral source; Properties: Inorganic compound, Defined component, Simple component |
| 29 |
CuSO4·5H2O
Cu.5H2O.O4S 249.684 g/mol
|
0.01 G_PER_L |
CHEBI:31440
copper(II) sulfate pentahydrate
|
Role: Mineral source; Properties: Inorganic compound, Defined component, Simple component |
| 30 |
Na2SeO3·5H2O
5H2O.2Na.O3Se 263.012 g/mol
|
0.3 G_PER_L |
CHEBI:131361
disodium selenite pentahydrate
|
Role: Mineral source; Properties: Inorganic compound, Defined component, Simple component |
| 31 |
CoSO4·7H2O
Co.7H2O.O4S 281.101 g/mol
|
0.18 G_PER_L |
CHEBI:91244
cobalt(2+) sulfate heptahydrate
|
Role: Mineral source; Properties: Inorganic compound, Defined component, Simple component |
| 32 |
KAl(SO4)2·12H2O
Al.12H2O.K.2O4S 474.386 g/mol
|
0.02 G_PER_L |
CHEBI:86465
potassium aluminium sulfate dodecahydrate
|
Role: Mineral source; Properties: Inorganic compound, Defined component, Simple component |
| 33 |
Nitrilotriacetic acid
C6H9NO6 191.139 g/mol
|
1.5 G_PER_L |
CHEBI:44557
nitrilotriacetic acid
|
Role: Mineral source; Properties: Organic compound, Defined component, Simple component |
| 34 |
MnSO4·2H2O
2H2O.Mn.O4S 187.031 g/mol
|
0.5 G_PER_L |
CHEBI:86356
manganese(II) sulfate dihydrate
|
Role: Mineral source; Properties: Inorganic compound, Defined component, Simple component |
| 35 |
KOH
HO.K 56.105 g/mol
|
variable VARIABLE |
CHEBI:32035
potassium hydroxide
|
Role: Mineral source; Properties: Defined component, Solution |
Solutions
Vitamin solution*
Dose: 1 G_PER_L
See mediadive_6241_Vitamin_solution.yaml for composition
Trace element solution**
Dose: 1 G_PER_L
See mediadive_6187_Trace_element_solution.yaml for composition
Target organisms
No target organisms are recorded.
Provenance
Merged from 1 source record.
- TOGO_M1595_Oceanithermus_profundus_Medium (CultureMech:008146)
| Timestamp | Curator | Action | Notes |
|---|---|---|---|
| 2026-01-27T06:35:57.914548Z | togo-import | Imported from TOGO Medium | Source: NBRC, ID: M1595 |
| 2026-01-28T19:48:39.852158Z | chebi-enrichment | Added CHEBI ontology terms to ingredients | Enriched using MicrobeMediaParam and MediaDive chemical mappings |
| 2026-02-03T00:00:00+00:00 | schema-defaulter-v1.0 | Applied schema defaults and normalizations | Added default concentration for ingredient: N2; Added default concentration for ingredient: KOH |
| 2026-03-09T08:05:07.069241+00:00 | solution-migrator-v1.0 | Migrated solutions from ingredients to solutions array | Moved 2 solution(s) from ingredients |
| 2026-03-13T03:09:38.782812Z | data-quality-cleanup-v1.0 | Data quality fixes | Merged 4 duplicate ingredient(s) |
| 2026-03-13T06:19:53.908021Z | culturemech-id-assigner-v1.0 | Assigned CultureMech ID | Assigned stable identifier: CultureMech:008146 |
| 2026-03-14T00:00:00+00:00 | schema-defaulter-v1.0 | Applied schema defaults and normalizations | Added default solution name; Added default solution name |
| 2026-03-17T06:30:50.000000Z | mediaingredientmech-enrichment-v1.0 | Added MediaIngredientMech links | Linked ingredients to MediaIngredientMech identifiers |
| 2026-03-17T19:46:12.464624+00:00 | normalize_media_names_to_snake_case.py | NAME_NORMALIZED | Normalized name from "Oceanithermus profundus Medium" to "oceanithermus_profundus_medium" for consistent matching |
| 2026-05-16T09:03:10.377378+00:00 | migrate_legacy_fields.py | MIGRATED_LEGACY_FIELDS | curation_history.date->timestamp=2 |
| 2026-06-05T07:40:33.460530+00:00 | mim-legacy-to-chebi-migration-v1.0 | Refreshed legacy MediaIngredientMech links to CHEBI keying | Replaced 28 legacy mediaingredientmech_term link(s) with mediaingredientmech_chebi_term (id-safe: ingredient's own CHEBI + label). MIM deprecated the MediaIngredientMech:NNNNNN id scheme. |
| 2026-06-08T23:19:30.489570+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. |
| 2026-06-10T06:57:23.615975+00:00 | mgso4-heptahydrate-term-fix-v1.0 | Corrected MgSO4·7H2O primary term grounding to heptahydrate | Re-grounded 1 heptahydrate-labelled ingredient(s) from CHEBI:32599 (generic magnesium sulfate) to CHEBI:31795 (magnesium sulfate heptahydrate). Generic/hexahydrate labels untouched. |
| 2026-06-10T07:46:47.909258+00:00 | primary-term-label-canonicalization-v1.0 | Canonicalized primary term label to OBO canonical (OAK) | 2 primary term(s); ingredient name resolved by OAK sqlite:obo:chebi. |
| 2026-08-06T03:05:09.161857+00:00 | merge_recipes.py | MERGED_RECIPES | merged 1 source recipe(s) on fingerprint 166788d4f2c588b42f9e403a87bc16953437215fa3c17efa5ce8049f1bc663d2 |