Overview
- External ontology
- TOGO:M1590 — Methanothermobacter Medium
- Applications
-
- Microbial cultivation
- Notes
- Source: https://togomedium.org/medium/M1590 Original source: NBRC - NBRC_M398 Original URL: https://www.nite.go.jp/nbrc/catalogue/NBRCMediumDetailServlet?NO=398
Composition
flowchart LR
CultureMech_008141["methanothermobacter_medium"]
ing0_Distilled_water["Distilled water"]
CultureMech_008141 --> ing0_Distilled_water
CHEBI_15377["CHEBI:15377"]
ing0_Distilled_water -.-> CHEBI_15377
ing1_CaCl2_2H2O["CaCl2·2H2O"]
CultureMech_008141 --> ing1_CaCl2_2H2O
CHEBI_86158["CHEBI:86158"]
ing1_CaCl2_2H2O -.-> CHEBI_86158
ing2_KH2PO4["KH2PO4"]
CultureMech_008141 --> ing2_KH2PO4
CHEBI_63036["CHEBI:63036"]
ing2_KH2PO4 -.-> CHEBI_63036
ing3_NH4Cl["NH4Cl"]
CultureMech_008141 --> ing3_NH4Cl
CHEBI_31206["CHEBI:31206"]
ing3_NH4Cl -.-> CHEBI_31206
ing4_Resazurin["Resazurin"]
CultureMech_008141 --> ing4_Resazurin
CHEBI_8806["CHEBI:8806"]
ing4_Resazurin -.-> CHEBI_8806
ing5_MgCl2_6H2O["MgCl2·6H2O"]
CultureMech_008141 --> ing5_MgCl2_6H2O
CHEBI_86345["CHEBI:86345"]
ing5_MgCl2_6H2O -.-> CHEBI_86345
ing6_Na2S_9H2O["Na2S·9H2O"]
CultureMech_008141 --> ing6_Na2S_9H2O
CHEBI_76209["CHEBI:76209"]
ing6_Na2S_9H2O -.-> CHEBI_76209
ing7_NaHCO3["NaHCO3"]
CultureMech_008141 --> ing7_NaHCO3
CHEBI_32139["CHEBI:32139"]
ing7_NaHCO3 -.-> CHEBI_32139
ing8_Bacto_Yeast_Extract__Difco_["Bacto Yeast Extract (Difco)"]
CultureMech_008141 --> ing8_Bacto_Yeast_Extract__Difco_
ing9_Cysteine_HCl["Cysteine-HCl"]
CultureMech_008141 --> ing9_Cysteine_HCl
CHEBI_91247["CHEBI:91247"]
ing9_Cysteine_HCl -.-> CHEBI_91247
ing10_Carbon_dioxide_gas["Carbon dioxide gas"]
CultureMech_008141 --> ing10_Carbon_dioxide_gas
CHEBI_16526["CHEBI:16526"]
ing10_Carbon_dioxide_gas -.-> CHEBI_16526
ing11_N2["N2"]
CultureMech_008141 --> ing11_N2
CHEBI_17997["CHEBI:17997"]
ing11_N2 -.-> CHEBI_17997
ing12_Hydrogen_gas["Hydrogen gas"]
CultureMech_008141 --> ing12_Hydrogen_gas
CHEBI_18276["CHEBI:18276"]
ing12_Hydrogen_gas -.-> CHEBI_18276
ing13_Biotin["Biotin"]
CultureMech_008141 --> ing13_Biotin
CHEBI_15956["CHEBI:15956"]
ing13_Biotin -.-> CHEBI_15956
ing14_p_Aminobenzoic_acid["p-Aminobenzoic acid"]
CultureMech_008141 --> ing14_p_Aminobenzoic_acid
CHEBI_30753["CHEBI:30753"]
ing14_p_Aminobenzoic_acid -.-> CHEBI_30753
ing15_Thiamine_HCl["Thiamine-HCl"]
CultureMech_008141 --> ing15_Thiamine_HCl
CHEBI_49105["CHEBI:49105"]
ing15_Thiamine_HCl -.-> CHEBI_49105
ing16_Ca_pantothenate["Ca-pantothenate"]
CultureMech_008141 --> ing16_Ca_pantothenate
CHEBI_29032["CHEBI:29032"]
ing16_Ca_pantothenate -.-> CHEBI_29032
ing17_Pyridoxine_HCl["Pyridoxine-HCl"]
CultureMech_008141 --> ing17_Pyridoxine_HCl
CHEBI_30961["CHEBI:30961"]
ing17_Pyridoxine_HCl -.-> CHEBI_30961
ing18_Folic_acid["Folic acid"]
CultureMech_008141 --> ing18_Folic_acid
CHEBI_27470["CHEBI:27470"]
ing18_Folic_acid -.-> CHEBI_27470
ing19_Vitamin_B12["Vitamin B12"]
CultureMech_008141 --> ing19_Vitamin_B12
CHEBI_176843["CHEBI:176843"]
ing19_Vitamin_B12 -.-> CHEBI_176843
ing20_Riboflavin["Riboflavin"]
CultureMech_008141 --> ing20_Riboflavin
CHEBI_17015["CHEBI:17015"]
ing20_Riboflavin -.-> CHEBI_17015
ing21_Nicotinic_acid["Nicotinic acid"]
CultureMech_008141 --> ing21_Nicotinic_acid
CHEBI_15940["CHEBI:15940"]
ing21_Nicotinic_acid -.-> CHEBI_15940
ing22_MgSO4_7H2O["MgSO4·7H2O"]
CultureMech_008141 --> ing22_MgSO4_7H2O
CHEBI_31795["CHEBI:31795"]
ing22_MgSO4_7H2O -.-> CHEBI_31795
ing23_NaCl["NaCl"]
CultureMech_008141 --> ing23_NaCl
CHEBI_26710["CHEBI:26710"]
ing23_NaCl -.-> CHEBI_26710
ing24_Na2MoO4_2H2O["Na2MoO4·2H2O"]
CultureMech_008141 --> ing24_Na2MoO4_2H2O
CHEBI_75213["CHEBI:75213"]
ing24_Na2MoO4_2H2O -.-> CHEBI_75213
ing25_H3BO3["H3BO3"]
CultureMech_008141 --> ing25_H3BO3
CHEBI_33118["CHEBI:33118"]
ing25_H3BO3 -.-> CHEBI_33118
ing26_FeSO4_7H2O["FeSO4·7H2O"]
CultureMech_008141 --> ing26_FeSO4_7H2O
CHEBI_75836["CHEBI:75836"]
ing26_FeSO4_7H2O -.-> CHEBI_75836
ing27_CoCl2_6H2O["CoCl2·6H2O"]
CultureMech_008141 --> ing27_CoCl2_6H2O
CHEBI_35696["CHEBI:35696"]
ing27_CoCl2_6H2O -.-> CHEBI_35696
ing28_NiCl2_6H2O["NiCl2·6H2O"]
CultureMech_008141 --> ing28_NiCl2_6H2O
CHEBI_34887["CHEBI:34887"]
ing28_NiCl2_6H2O -.-> CHEBI_34887
ing29_ZnSO4_7H2O["ZnSO4·7H2O"]
CultureMech_008141 --> ing29_ZnSO4_7H2O
CHEBI_32312["CHEBI:32312"]
ing29_ZnSO4_7H2O -.-> CHEBI_32312
CultureMech_008141 --> more["...4 more"]
Ingredients (34)
| # | Ingredient | Concentration | Ontology | Notes |
|---|---|---|---|---|
| 1 |
Distilled water
H2O 18.015 g/mol
|
1.0 G_PER_L |
CHEBI:15377
water
|
Role: Solvating media; Properties: Inorganic compound, Defined component, Simple component [Collapsed 3 identical duplicates: 1.0, 1.0, 1.0] |
| 2 |
CaCl2·2H2O
Ca.2Cl.2H2O 147.014 g/mol
|
0.277 G_PER_L |
CHEBI:86158
calcium chloride dihydrate
|
Role: Mineral source; Properties: Inorganic compound, Defined component, Simple component [Merged 2 duplicates: 0.147, 0.13] |
| 3 |
KH2PO4
H2O4P.K 136.084 g/mol
|
0.136 G_PER_L |
CHEBI:63036
potassium dihydrogen phosphate
|
Role: Buffer; Properties: Inorganic compound, Defined component, Simple component |
| 4 |
NH4Cl
Cl.H4N 53.492 g/mol
|
0.54 G_PER_L |
CHEBI:31206
ammonium chloride
|
Role: Nitrogen source; Properties: Inorganic compound, Defined component, Simple component |
| 5 |
Resazurin
C12H7NO4 229.191 g/mol
|
1 G_PER_L |
CHEBI:8806
Resazurin
|
Role: pH dependent redox indicator; Properties: Organic compound, Defined component, Simple component |
| 6 |
MgCl2·6H2O
2Cl.6H2O.Mg 203.301 g/mol
|
0.2 G_PER_L |
CHEBI:86345
magnesium dichloride hexahydrate
|
Role: Mineral source; Properties: Inorganic compound, Defined component, Simple component |
| 7 |
Na2S·9H2O
9H2O.2Na.S 240.182 g/mol
|
0.5 G_PER_L |
CHEBI:76209
sodium sulfide nonahydrate
|
Role: Reducing agent; Properties: Inorganic compound, Defined component, Simple component |
| 8 |
NaHCO3
CHO3.Na 84.006 g/mol
|
2.5 G_PER_L |
CHEBI:32139
sodium hydrogencarbonate
|
Role: Buffer; Properties: Inorganic compound, Defined component, Simple component |
| 9 | Bacto Yeast Extract (Difco) | 0.2 G_PER_L | Properties: Undefined component | |
| 10 |
Cysteine-HCl
C3H7NO2S.HCl 157.622 g/mol
|
0.5 G_PER_L |
CHEBI:91247
L-cysteine hydrochloride
|
Properties: Simple component, Defined component, Organic compound |
| 11 |
Carbon dioxide gas
CO2 44.009 g/mol
|
variable VARIABLE |
CHEBI:16526
carbon dioxide
|
Properties: ガス |
| 12 |
N2
N2 28.014 g/mol
|
variable VARIABLE |
CHEBI:17997
dinitrogen
|
Properties: ガス |
| 13 |
Hydrogen gas
H2 2.016 g/mol
|
variable VARIABLE |
CHEBI:18276
dihydrogen
|
Properties: ガス |
| 14 |
Biotin
C10H16N2O3S 244.316 g/mol
|
2 G_PER_L |
CHEBI:15956
biotin
|
Role: Vitamin; Properties: Organic compound, Defined component, Simple component |
| 15 |
p-Aminobenzoic acid
C7H7NO2 137.138 g/mol
|
1 G_PER_L |
CHEBI:30753
4-aminobenzoic acid
|
Role: Vitamin; Properties: Organic compound, Defined component, Simple component |
| 16 |
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 |
| 17 |
Ca-pantothenate
C9H16NO5 218.229 g/mol
|
5 G_PER_L |
CHEBI:29032
(R)-pantothenate
|
Role: Vitamin; Properties: Organic compound, Defined component, Simple component |
| 18 |
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 |
| 19 |
Folic acid
C19H19N7O6 441.404 g/mol
|
2 G_PER_L |
CHEBI:27470
folic acid
|
Role: Vitamin; Properties: Organic compound, Defined component, Simple component |
| 20 | Vitamin B12 | 0.01 G_PER_L |
CHEBI:176843
vitamin B12
|
Role: Vitamin; Properties: Organic compound, Defined component, Simple component |
| 21 |
Riboflavin
C17H20N4O6 376.369 g/mol
|
5 G_PER_L |
CHEBI:17015
riboflavin
|
Role: Vitamin; Properties: Organic compound, Defined component, Simple component |
| 22 |
Nicotinic acid
C6H5NO2 123.111 g/mol
|
5 G_PER_L |
CHEBI:15940
nicotinic acid
|
Role: Vitamin; Properties: Organic compound, Defined component, Simple component |
| 23 |
MgSO4·7H2O
7H2O.Mg.O4S 246.473 g/mol
|
6.2 G_PER_L |
CHEBI:31795
magnesium sulfate heptahydrate
|
Role: Mineral source; Properties: Inorganic compound, Defined component, Simple component |
| 24 |
NaCl
Cl.Na 58.443 g/mol
|
1 G_PER_L |
CHEBI:26710
sodium chloride
|
Role: Mineral source; Properties: Inorganic compound, Defined component, Simple component |
| 25 |
Na2MoO4·2H2O
2H2O.MoO4.2Na 241.946 g/mol
|
0.011 G_PER_L |
CHEBI:75213
sodium molybdate dihydrate
|
Role: Mineral source; Properties: Inorganic compound, Defined component, Simple component |
| 26 |
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 |
| 27 |
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 |
| 28 |
CoCl2·6H2O
2Cl.Co 129.839 g/mol
|
0.17 G_PER_L |
CHEBI:35696
cobalt dichloride
|
Role: Mineral source; Properties: Inorganic compound, Defined component, Simple component |
| 29 |
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 |
| 30 |
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 |
| 31 |
KAl(SO4)2·12H2O
Al.12H2O.K.2O4S 474.386 g/mol
|
0.018 G_PER_L |
CHEBI:86465
potassium aluminium sulfate dodecahydrate
|
Role: Mineral source; Properties: Inorganic compound, Defined component, Simple component |
| 32 |
MnSO4·4H2O
4H2O.Mn.O4S 223.061 g/mol
|
0.55 G_PER_L |
CHEBI:86358
manganese(II) sulfate tetrahydrate
|
Role: Mineral source; Properties: Inorganic compound, Defined component, Simple component |
| 33 |
CuSO4
Cu.O4S 159.609 g/mol
|
0.05 G_PER_L |
CHEBI:23414
copper(II) sulfate
|
Role: Mineral source; Properties: Inorganic compound, Defined component, Simple component |
| 34 |
2Na-EDTA
C10H14N2O8.2Na 336.208 g/mol
|
0.64 G_PER_L |
CHEBI:64734
EDTA disodium salt (anhydrous)
|
Properties: Defined component, Simple component, Organic compound |
Solutions
Vitamin solution*
Dose: 10 G_PER_L
See mediadive_6241_Vitamin_solution.yaml for composition
Trace element solution**
Dose: 10 G_PER_L
See mediadive_6187_Trace_element_solution.yaml for composition
Target organisms
No target organisms are recorded.
Provenance
| Timestamp | Curator | Action | Notes |
|---|---|---|---|
| 2026-01-27T06:35:57.904248Z | togo-import | Imported from TOGO Medium | Source: NBRC, ID: M1590 |
| 2026-01-28T19:48:12.807760Z | 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: Carbon dioxide gas; Added default concentration for ingredient: N2; Added default concentration for ingredient: Hydrogen gas |
| 2026-03-09T08:04:21.158807+00:00 | solution-migrator-v1.0 | Migrated solutions from ingredients to solutions array | Moved 2 solution(s) from ingredients |
| 2026-03-13T03:08:49.220212Z | data-quality-cleanup-v1.0 | Data quality fixes | Merged 3 duplicate ingredient(s) |
| 2026-03-13T06:19:53.865331Z | culturemech-id-assigner-v1.0 | Assigned CultureMech ID | Assigned stable identifier: CultureMech:008141 |
| 2026-03-14T00:00:00+00:00 | schema-defaulter-v1.0 | Applied schema defaults and normalizations | Added default solution name; Added default solution name |
| 2026-03-17T06:29:52.000000Z | mediaingredientmech-enrichment-v1.0 | Added MediaIngredientMech links | Linked ingredients to MediaIngredientMech identifiers |
| 2026-03-17T19:46:12.417007+00:00 | normalize_media_names_to_snake_case.py | NAME_NORMALIZED | Normalized name from "Methanothermobacter Medium" to "methanothermobacter_medium" for consistent matching |
| 2026-05-16T09:04:22.829674+00:00 | migrate_legacy_fields.py | MIGRATED_LEGACY_FIELDS | curation_history.date->timestamp=2 |
| 2026-06-05T07:41:32.832117+00:00 | mim-legacy-to-chebi-migration-v1.0 | Refreshed legacy MediaIngredientMech links to CHEBI keying | Replaced 26 legacy mediaingredientmech_term link(s) with mediaingredientmech_chebi_term (id-safe: ingredient's own CHEBI + label). MIM deprecated the MediaIngredientMech:NNNNNN id scheme. |
| 2026-06-08T23:19:48.012419+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. |
| 2026-06-10T06:58:23.582024+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. |
| 2026-06-10T07:47:07.451437+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. |
| 2026-09-02T07:37:31.123583+00:00 | repair_merged_duplicates.py | REPAIRED_SUMMED_DUPLICATE_MERGE | Collapsed 1 ingredient row(s) whose concentration was the SUM of identical duplicate values written by cleanup_media_quality.py. Every merged part was the same value, so the pre-merge value is unambiguous and no source lookup was needed. Rows whose merged parts differ were left untouched. |