Overview
- External ontology
- TOGO:M208 — Pyrobaculum Aerophilum Medium
- Applications
-
- Microbial cultivation
- Notes
- Source: https://togomedium.org/medium/M208 Original source: JCM - JCM_M215 Original URL: https://www.jcm.riken.jp/cgi-bin/jcm/jcm_grmd?GRMD=215
Composition
flowchart LR
CultureMech_008680["pyrobaculum_aerophilum_medium"]
ing0_Distilled_water["Distilled water"]
CultureMech_008680 --> ing0_Distilled_water
CHEBI_15377["CHEBI:15377"]
ing0_Distilled_water -.-> CHEBI_15377
ing1_KH2PO4["KH2PO4"]
CultureMech_008680 --> ing1_KH2PO4
CHEBI_63036["CHEBI:63036"]
ing1_KH2PO4 -.-> CHEBI_63036
ing2_NH4Cl["NH4Cl"]
CultureMech_008680 --> ing2_NH4Cl
CHEBI_31206["CHEBI:31206"]
ing2_NH4Cl -.-> CHEBI_31206
ing3_NaHCO3["NaHCO3"]
CultureMech_008680 --> ing3_NaHCO3
CHEBI_32139["CHEBI:32139"]
ing3_NaHCO3 -.-> CHEBI_32139
ing4_NaWO4_2H2O["NaWO4・2H2O"]
CultureMech_008680 --> ing4_NaWO4_2H2O
CHEBI_63939["CHEBI:63939"]
ing4_NaWO4_2H2O -.-> CHEBI_63939
ing5_Fe_NH4_2_SO4_2_6H2O["Fe(NH4)2(SO4)2・6H2O"]
CultureMech_008680 --> ing5_Fe_NH4_2_SO4_2_6H2O
CHEBI_76181["CHEBI:76181"]
ing5_Fe_NH4_2_SO4_2_6H2O -.-> CHEBI_76181
ing6__NH4_2Ni_SO4_2_6H2O["(NH4)2Ni(SO4)2・6H2O"]
CultureMech_008680 --> ing6__NH4_2Ni_SO4_2_6H2O
CHEBI_86149["CHEBI:86149"]
ing6__NH4_2Ni_SO4_2_6H2O -.-> CHEBI_86149
ing7_Na2SeO4["Na2SeO4"]
CultureMech_008680 --> ing7_Na2SeO4
CHEBI_77775["CHEBI:77775"]
ing7_Na2SeO4 -.-> CHEBI_77775
ing8_Yeast_extract__BD_Difco_["Yeast extract (BD-Difco)"]
CultureMech_008680 --> ing8_Yeast_extract__BD_Difco_
ing9_Na2S2O3_5H2O["Na2S2O3・5H2O"]
CultureMech_008680 --> ing9_Na2S2O3_5H2O
CHEBI_32150["CHEBI:32150"]
ing9_Na2S2O3_5H2O -.-> CHEBI_32150
ing10_H2SO4["H2SO4"]
CultureMech_008680 --> ing10_H2SO4
CHEBI_26836["CHEBI:26836"]
ing10_H2SO4 -.-> CHEBI_26836
ing11_Carbon_dioxide_gas["Carbon dioxide gas"]
CultureMech_008680 --> ing11_Carbon_dioxide_gas
CHEBI_16526["CHEBI:16526"]
ing11_Carbon_dioxide_gas -.-> CHEBI_16526
ing12_Nitrogen_gas["Nitrogen gas"]
CultureMech_008680 --> ing12_Nitrogen_gas
CHEBI_17997["CHEBI:17997"]
ing12_Nitrogen_gas -.-> CHEBI_17997
ing13_Oxygen_gas["Oxygen gas"]
CultureMech_008680 --> ing13_Oxygen_gas
ing14_MgSO4_7H2O["MgSO4・7H2O"]
CultureMech_008680 --> ing14_MgSO4_7H2O
CHEBI_31795["CHEBI:31795"]
ing14_MgSO4_7H2O -.-> CHEBI_31795
ing15_NaCl["NaCl"]
CultureMech_008680 --> ing15_NaCl
CHEBI_26710["CHEBI:26710"]
ing15_NaCl -.-> CHEBI_26710
ing16_CaCl2_2H2O["CaCl2・2H2O"]
CultureMech_008680 --> ing16_CaCl2_2H2O
CHEBI_86158["CHEBI:86158"]
ing16_CaCl2_2H2O -.-> CHEBI_86158
ing17_MgCl2_6H2O["MgCl2・6H2O"]
CultureMech_008680 --> ing17_MgCl2_6H2O
CHEBI_86345["CHEBI:86345"]
ing17_MgCl2_6H2O -.-> CHEBI_86345
ing18_H3BO3["H3BO3"]
CultureMech_008680 --> ing18_H3BO3
CHEBI_33118["CHEBI:33118"]
ing18_H3BO3 -.-> CHEBI_33118
ing19_Na2CO3["Na2CO3"]
CultureMech_008680 --> ing19_Na2CO3
CHEBI_29377["CHEBI:29377"]
ing19_Na2CO3 -.-> CHEBI_29377
ing20_Na2SO4["Na2SO4"]
CultureMech_008680 --> ing20_Na2SO4
CHEBI_32149["CHEBI:32149"]
ing20_Na2SO4 -.-> CHEBI_32149
ing21_Na2HPO4["Na2HPO4"]
CultureMech_008680 --> ing21_Na2HPO4
CHEBI_34683["CHEBI:34683"]
ing21_Na2HPO4 -.-> CHEBI_34683
ing22_NaBr["NaBr"]
CultureMech_008680 --> ing22_NaBr
CHEBI_63004["CHEBI:63004"]
ing22_NaBr -.-> CHEBI_63004
ing23_SrCl2_6H2O["SrCl2・6H2O"]
CultureMech_008680 --> ing23_SrCl2_6H2O
CHEBI_36385["CHEBI:36385"]
ing23_SrCl2_6H2O -.-> CHEBI_36385
ing24_KI["KI"]
CultureMech_008680 --> ing24_KI
CHEBI_8346["CHEBI:8346"]
ing24_KI -.-> CHEBI_8346
ing25_NaF["NaF"]
CultureMech_008680 --> ing25_NaF
CHEBI_28741["CHEBI:28741"]
ing25_NaF -.-> CHEBI_28741
ing26_KBr["KBr"]
CultureMech_008680 --> ing26_KBr
CHEBI_32030["CHEBI:32030"]
ing26_KBr -.-> CHEBI_32030
ing27_Sodium_silicate["Sodium silicate"]
CultureMech_008680 --> ing27_Sodium_silicate
CHEBI_60720["CHEBI:60720"]
ing27_Sodium_silicate -.-> CHEBI_60720
Ingredients (28)
| # | Ingredient | Concentration | Ontology | Notes |
|---|---|---|---|---|
| 1 |
Distilled water
H2O 18.015 g/mol
|
866.0 G_PER_L |
CHEBI:15377
water
|
Role: Solvating media; Properties: Inorganic compound, Defined component, Simple component [Merged 2 duplicates: 865.0, 1.0] |
| 2 |
KH2PO4
H2O4P.K 136.084 g/mol
|
0.07 G_PER_L |
CHEBI:63036
potassium dihydrogen phosphate
|
Role: Buffer; Properties: Inorganic compound, Defined component, Simple component |
| 3 |
NH4Cl
Cl.H4N 53.492 g/mol
|
0.25 G_PER_L |
CHEBI:31206
ammonium chloride
|
Role: Nitrogen source; Properties: Inorganic compound, Defined component, Simple component |
| 4 |
NaHCO3
CHO3.Na 84.006 g/mol
|
2.2 G_PER_L |
CHEBI:32139
sodium hydrogencarbonate
|
Role: Buffer; Properties: Inorganic compound, Defined component, Simple component |
| 5 |
NaWO4・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 |
| 6 |
Fe(NH4)2(SO4)2・6H2O
Fe.6H2O.2H4N.2O4S 392.139 g/mol
|
2 G_PER_L |
CHEBI:76181
ferrous ammonium sulfate hexahydrate
|
Role: Mineral source; Properties: Inorganic compound, Defined component, Simple component |
| 7 |
(NH4)2Ni(SO4)2・6H2O
6H2O.2H4N.Ni.2O4S 394.987 g/mol
|
2 G_PER_L |
CHEBI:86149
ammonium nickel sulfate hexahydrate
|
Role: Mineral source; Properties: Inorganic compound, Defined component, Simple component |
| 8 |
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 |
| 9 | Yeast extract (BD-Difco) | 0.5 G_PER_L | Properties: Undefined component | |
| 10 |
Na2S2O3・5H2O
5H2O.2Na.O3S2 248.186 g/mol
|
1 G_PER_L |
CHEBI:32150
sodium thiosulfate pentahydrate
|
Properties: Defined component, Simple component, Inorganic compound |
| 11 |
H2SO4
H2O4S 98.079 g/mol
|
variable VARIABLE |
CHEBI:26836
sulfuric acid
|
Role: Mineral source; Properties: Defined component, Inorganic compound, Solution |
| 12 |
Carbon dioxide gas
CO2 44.009 g/mol
|
variable VARIABLE |
CHEBI:16526
carbon dioxide
|
Properties: ガス |
| 13 |
Nitrogen gas
N2 28.014 g/mol
|
variable VARIABLE |
CHEBI:17997
dinitrogen
|
Properties: ガス |
| 14 | Oxygen gas | variable VARIABLE | Properties: ガス | |
| 15 |
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 |
| 16 |
NaCl
Cl.Na 58.443 g/mol
|
47.15 G_PER_L |
CHEBI:26710
sodium chloride
|
Role: Mineral source; Properties: Inorganic compound, Defined component, Simple component |
| 17 |
CaCl2・2H2O
Ca.2Cl.2H2O 147.014 g/mol
|
3.13 G_PER_L |
CHEBI:86158
calcium chloride dihydrate
|
Role: Mineral source; Properties: Inorganic compound, Defined component, Simple component |
| 18 |
MgCl2・6H2O
2Cl.6H2O.Mg 203.301 g/mol
|
18.1 G_PER_L |
CHEBI:86345
magnesium dichloride hexahydrate
|
Role: Mineral source; Properties: Inorganic compound, Defined component, Simple component |
| 19 |
H3BO3
H3BO3 61.833 g/mol
|
52 G_PER_L |
CHEBI:33118
boric acid
|
Role: Mineral source; Properties: Inorganic compound, Defined component, Simple component |
| 20 |
Na2CO3
CO3.2Na 105.988 g/mol
|
0.1 G_PER_L |
CHEBI:29377
sodium carbonate
|
Role: Buffer; Properties: Inorganic compound, Defined component, Simple component |
| 21 |
Na2SO4
2Na.O4S 142.043 g/mol
|
3.24 G_PER_L |
CHEBI:32149
sodium sulfate
|
Role: Mineral source; Properties: Inorganic compound, Defined component, Simple component |
| 22 |
Na2HPO4
HO4P.2Na 141.958 g/mol
|
8.1 G_PER_L |
CHEBI:34683
disodium hydrogenphosphate
|
Role: Buffer; Properties: Inorganic compound, Defined component, Simple component |
| 23 |
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 |
| 24 |
SrCl2・6H2O
Cl2Sr.6H2O 266.616 g/mol
|
72 G_PER_L |
CHEBI:36385
strontium dichloride hexahydrate
|
Role: Mineral source; Properties: Inorganic compound, Defined component, Simple component |
| 25 |
KI
I.K 166.002 g/mol
|
0.05 G_PER_L |
CHEBI:8346
potassium iodide
|
Role: Mineral source; Properties: Inorganic compound, Defined component, Simple component |
| 26 |
NaF
F.Na 41.988 g/mol
|
2.4 G_PER_L |
CHEBI:28741
sodium fluoride
|
Role: Mineral source; Properties: Inorganic compound, Defined component, Simple component |
| 27 |
KBr
Br.K 119.002 g/mol
|
80 G_PER_L |
CHEBI:32030
potassium bromide
|
Role: Mineral source; Properties: Inorganic compound, Defined component, Simple component |
| 28 |
Sodium silicate
2Na.O3Si 122.063 g/mol
|
0.4 G_PER_L |
CHEBI:60720
sodium silicate
|
Role: Mineral source; Properties: Inorganic compound, Defined component, Simple component |
Solutions
Marine medium/Synthetic seawater mix solution (see below)
Dose: 125 G_PER_L
Trace minerals (see Medium [M142])
Dose: 10 G_PER_L
Cross-reference to Medium M142
Target organisms
No target organisms are recorded.
Provenance
Merged from 1 source record.
- TOGO_M208_Pyrobaculum_Aerophilum_Medium (CultureMech:008680)
| Timestamp | Curator | Action | Notes |
|---|---|---|---|
| 2026-01-27T06:35:54.616955Z | togo-import | Imported from TOGO Medium | Source: JCM, ID: M208 |
| 2026-01-28T19:48:21.253481Z | 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: Nitrogen gas; Added default concentration for ingredient: Oxygen gas |
| 2026-03-09T08:04:35.414824+00:00 | solution-migrator-v1.0 | Migrated solutions from ingredients to solutions array | Moved 2 solution(s) from ingredients |
| 2026-03-13T03:09:04.765509Z | data-quality-cleanup-v1.0 | Data quality fixes | Merged 1 duplicate ingredient(s) |
| 2026-03-13T06:19:59.327625Z | culturemech-id-assigner-v1.0 | Assigned CultureMech ID | Assigned stable identifier: CultureMech:008680 |
| 2026-03-14T00:00:00+00:00 | schema-defaulter-v1.0 | Applied schema defaults and normalizations | Added default solution name; Added default solution name |
| 2026-03-17T06:30:10.000000Z | mediaingredientmech-enrichment-v1.0 | Added MediaIngredientMech links | Linked ingredients to MediaIngredientMech identifiers |
| 2026-03-17T19:46:17.964144+00:00 | normalize_media_names_to_snake_case.py | NAME_NORMALIZED | Normalized name from "Pyrobaculum Aerophilum Medium" to "pyrobaculum_aerophilum_medium" for consistent matching |
| 2026-05-16T09:03:12.281989+00:00 | migrate_legacy_fields.py | MIGRATED_LEGACY_FIELDS | curation_history.date->timestamp=2 |
| 2026-06-05T07:40:35.440815+00:00 | mim-legacy-to-chebi-migration-v1.0 | Refreshed legacy MediaIngredientMech links to CHEBI keying | Replaced 16 legacy mediaingredientmech_term link(s) with mediaingredientmech_chebi_term (id-safe: ingredient's own CHEBI + label). MIM deprecated the MediaIngredientMech:NNNNNN id scheme. |
| 2026-06-08T23:19:31.705862+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). |
| 2026-06-10T06:57:25.451107+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. |
| 2026-06-10T07:46:48.586026+00:00 | primary-term-label-canonicalization-v1.0 | Canonicalized primary term label to OBO canonical (OAK) | 9 primary term(s); ingredient name resolved by OAK sqlite:obo:chebi. |
| 2026-08-06T03:04:26.131031+00:00 | merge_recipes.py | MERGED_RECIPES | merged 1 source recipe(s) on fingerprint 00da3d651c6f6ef0e714160efb4c84cbe023802f2abcf66e04c04ac323872ffd |