Overview
- External ontology
- TOGO:M280 — Hydrogenothermus Medium
- Applications
-
- Microbial cultivation
- Notes
- Source: https://togomedium.org/medium/M280 Original source: JCM - JCM_M286 Original URL: https://www.jcm.riken.jp/cgi-bin/jcm/jcm_grmd?GRMD=286
Composition
flowchart LR
CultureMech_009358["hydrogenothermus_medium"]
ing0_Distilled_water["Distilled water"]
CultureMech_009358 --> ing0_Distilled_water
CHEBI_15377["CHEBI:15377"]
ing0_Distilled_water -.-> CHEBI_15377
ing1_MgSO4_7H2O["MgSO4・7H2O"]
CultureMech_009358 --> ing1_MgSO4_7H2O
CHEBI_31795["CHEBI:31795"]
ing1_MgSO4_7H2O -.-> CHEBI_31795
ing2_NaCl["NaCl"]
CultureMech_009358 --> ing2_NaCl
CHEBI_26710["CHEBI:26710"]
ing2_NaCl -.-> CHEBI_26710
ing3_CaCl2_2H2O["CaCl2・2H2O"]
CultureMech_009358 --> ing3_CaCl2_2H2O
CHEBI_86158["CHEBI:86158"]
ing3_CaCl2_2H2O -.-> CHEBI_86158
ing4_NH4Cl["NH4Cl"]
CultureMech_009358 --> ing4_NH4Cl
CHEBI_31206["CHEBI:31206"]
ing4_NH4Cl -.-> CHEBI_31206
ing5_K2HPO4["K2HPO4"]
CultureMech_009358 --> ing5_K2HPO4
CHEBI_131527["CHEBI:131527"]
ing5_K2HPO4 -.-> CHEBI_131527
ing6_MgCl2_6H2O["MgCl2・6H2O"]
CultureMech_009358 --> ing6_MgCl2_6H2O
CHEBI_86345["CHEBI:86345"]
ing6_MgCl2_6H2O -.-> CHEBI_86345
ing7_KCl["KCl"]
CultureMech_009358 --> ing7_KCl
CHEBI_32588["CHEBI:32588"]
ing7_KCl -.-> CHEBI_32588
ing8_NaHCO3["NaHCO3"]
CultureMech_009358 --> ing8_NaHCO3
CHEBI_32139["CHEBI:32139"]
ing8_NaHCO3 -.-> CHEBI_32139
ing9_Na2WO4_2H2O["Na2WO4・2H2O"]
CultureMech_009358 --> ing9_Na2WO4_2H2O
CHEBI_63939["CHEBI:63939"]
ing9_Na2WO4_2H2O -.-> CHEBI_63939
ing10_sulfur__powder_["sulfur (powder)"]
CultureMech_009358 --> ing10_sulfur__powder_
CHEBI_33403["CHEBI:33403"]
ing10_sulfur__powder_ -.-> CHEBI_33403
ing11_NaBr["NaBr"]
CultureMech_009358 --> ing11_NaBr
CHEBI_63004["CHEBI:63004"]
ing11_NaBr -.-> CHEBI_63004
ing12__NH4_2Ni_SO4_2_6H2O["(NH4)2Ni(SO4)2・6H2O"]
CultureMech_009358 --> ing12__NH4_2Ni_SO4_2_6H2O
CHEBI_86149["CHEBI:86149"]
ing12__NH4_2Ni_SO4_2_6H2O -.-> CHEBI_86149
ing13_Na2SeO4["Na2SeO4"]
CultureMech_009358 --> ing13_Na2SeO4
CHEBI_77775["CHEBI:77775"]
ing13_Na2SeO4 -.-> CHEBI_77775
ing14_yeast_extract__BD_Difco_["yeast extract (BD-Difco)"]
CultureMech_009358 --> ing14_yeast_extract__BD_Difco_
ing15_H2SO4["H2SO4"]
CultureMech_009358 --> ing15_H2SO4
CHEBI_26836["CHEBI:26836"]
ing15_H2SO4 -.-> CHEBI_26836
ing16_Carbon_dioxide_gas["Carbon dioxide gas"]
CultureMech_009358 --> ing16_Carbon_dioxide_gas
CHEBI_16526["CHEBI:16526"]
ing16_Carbon_dioxide_gas -.-> CHEBI_16526
ing17_Hydrogen_gas["Hydrogen gas"]
CultureMech_009358 --> ing17_Hydrogen_gas
CHEBI_18276["CHEBI:18276"]
ing17_Hydrogen_gas -.-> CHEBI_18276
ing18_air["air"]
CultureMech_009358 --> ing18_air
Ingredients (19)
| # | Ingredient | Concentration | Ontology | Notes |
|---|---|---|---|---|
| 1 |
Distilled water
H2O 18.015 g/mol
|
1 G_PER_L |
CHEBI:15377
water
|
Role: Solvating media; Properties: Inorganic compound, Defined component, Simple component |
| 2 |
MgSO4・7H2O
7H2O.Mg.O4S 246.473 g/mol
|
7 G_PER_L |
CHEBI:31795
magnesium sulfate heptahydrate
|
Role: Mineral source; Properties: Inorganic compound, Defined component, Simple component |
| 3 |
NaCl
Cl.Na 58.443 g/mol
|
30 G_PER_L |
CHEBI:26710
sodium chloride
|
Role: Mineral source; Properties: Inorganic compound, Defined component, Simple component |
| 4 |
CaCl2・2H2O
Ca.2Cl.2H2O 147.014 g/mol
|
0.5 G_PER_L |
CHEBI:86158
calcium chloride dihydrate
|
Role: Mineral source; Properties: Inorganic compound, Defined component, Simple component |
| 5 |
NH4Cl
Cl.H4N 53.492 g/mol
|
0.15 G_PER_L |
CHEBI:31206
ammonium chloride
|
Role: Nitrogen source; Properties: Inorganic compound, Defined component, Simple component |
| 6 |
K2HPO4
HO4P.2K 174.174 g/mol
|
0.15 G_PER_L |
CHEBI:131527
dipotassium hydrogen phosphate
|
Role: Buffer; Properties: Inorganic compound, Defined component, Simple component |
| 7 |
MgCl2・6H2O
2Cl.6H2O.Mg 203.301 g/mol
|
5.5 G_PER_L |
CHEBI:86345
magnesium dichloride hexahydrate
|
Role: Mineral source; Properties: Inorganic compound, Defined component, Simple component |
| 8 |
KCl
Cl.K 74.551 g/mol
|
0.65 G_PER_L |
CHEBI:32588
potassium chloride
|
Role: Mineral source; Properties: Inorganic compound, Defined component, Simple component |
| 9 |
NaHCO3
CHO3.Na 84.006 g/mol
|
2 G_PER_L |
CHEBI:32139
sodium hydrogencarbonate
|
Role: Buffer; Properties: Inorganic compound, Defined component, Simple component |
| 10 |
Na2WO4・2H2O
2H2O.2Na.O4W 329.846 g/mol
|
0.1 G_PER_L |
CHEBI:63939
sodium tungstate dihydrate
|
Role: Mineral source; Properties: Inorganic compound, Defined component, Simple component |
| 11 | sulfur (powder) | 0.5 G_PER_L |
CHEBI:33403
elemental sulfur
|
Role: Mineral source; Properties: Inorganic compound, Defined component, Simple component |
| 12 |
NaBr
Br.Na 102.894 g/mol
|
0.1 G_PER_L |
CHEBI:63004
sodium bromide
|
Role: Mineral source; Properties: Inorganic compound, Defined component, Simple component |
| 13 |
(NH4)2Ni(SO4)2・6H2O
6H2O.2H4N.Ni.2O4S 394.987 g/mol
|
20 G_PER_L |
CHEBI:86149
ammonium nickel sulfate hexahydrate
|
Role: Mineral source; Properties: Inorganic compound, Defined component, Simple component |
| 14 |
Na2SeO4
2Na.O4Se 188.936 g/mol
|
0.1 G_PER_L |
CHEBI:77775
sodium selenate
|
Role: Mineral source; Properties: Inorganic compound, Defined component, Simple component |
| 15 | yeast extract (BD-Difco) | 0.2 G_PER_L | Properties: Undefined component | |
| 16 |
H2SO4
H2O4S 98.079 g/mol
|
variable VARIABLE |
CHEBI:26836
sulfuric acid
|
Role: Mineral source; Properties: Defined component, Inorganic compound, Solution |
| 17 |
Carbon dioxide gas
CO2 44.009 g/mol
|
variable VARIABLE |
CHEBI:16526
carbon dioxide
|
Properties: ガス |
| 18 |
Hydrogen gas
H2 2.016 g/mol
|
variable VARIABLE |
CHEBI:18276
dihydrogen
|
Properties: ガス |
| 19 | air | variable VARIABLE | Properties: ガス |
Solutions
Trace minerals (see Medium [M142])
Dose: 10 G_PER_L
Cross-reference to Medium M142
Target organisms
No target organisms are recorded.
Provenance
| Timestamp | Curator | Action | Notes |
|---|---|---|---|
| 2026-06-14T05:58:58.561437+00:00 | idnf-grounding-fix-v1.0 | Fixed ID_NOT_FOUND term groundings | Absent/obsolete CHEBI term ids fixed - 1 re-grounded to the correct CHEBI, 0 de-grounded (mixture or unverifiable). |
| 2026-01-27T06:35:54.755432Z | togo-import | Imported from TOGO Medium | Source: JCM, ID: M280 |
| 2026-01-28T19:48:15.921038Z | 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: H2SO4; Added default concentration for ingredient: Carbon dioxide gas; Added default concentration for ingredient: Hydrogen gas; Added default concentration for ingredient: air |
| 2026-03-09T08:04:26.228163+00:00 | solution-migrator-v1.0 | Migrated solutions from ingredients to solutions array | Moved 1 solution(s) from ingredients |
| 2026-03-13T06:20:05.857055Z | culturemech-id-assigner-v1.0 | Assigned CultureMech ID | Assigned stable identifier: CultureMech:009358 |
| 2026-03-14T00:00:00+00:00 | schema-defaulter-v1.0 | Applied schema defaults and normalizations | Added default solution name |
| 2026-03-17T06:29:59.000000Z | mediaingredientmech-enrichment-v1.0 | Added MediaIngredientMech links | Linked ingredients to MediaIngredientMech identifiers |
| 2026-03-17T19:46:24.782337+00:00 | normalize_media_names_to_snake_case.py | NAME_NORMALIZED | Normalized name from "Hydrogenothermus Medium" to "hydrogenothermus_medium" for consistent matching |
| 2026-05-16T09:03:16.100730+00:00 | migrate_legacy_fields.py | MIGRATED_LEGACY_FIELDS | curation_history.date->timestamp=2 |
| 2026-06-05T07:40:39.368481+00:00 | mim-legacy-to-chebi-migration-v1.0 | Refreshed legacy MediaIngredientMech links to CHEBI keying | Replaced 9 legacy mediaingredientmech_term link(s) with mediaingredientmech_chebi_term (id-safe: ingredient's own CHEBI + label). MIM deprecated the MediaIngredientMech:NNNNNN id scheme. |
| 2026-06-08T23:19:33.730197+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). |
| 2026-06-10T06:57:28.810129+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. |
| 2026-06-10T07:46:49.958405+00:00 | primary-term-label-canonicalization-v1.0 | Canonicalized primary term label to OBO canonical (OAK) | 4 primary term(s); ingredient name resolved by OAK sqlite:obo:chebi. |