Overview
- External ontology
- TOGO:M969 — Peat Medium 1 For Methanoregura Boonei
- Applications
-
- Microbial cultivation
- High-metal flag
- True
- Notes
- Source: https://togomedium.org/medium/M969 Original source: JCM - JCM_M923 Original URL: https://www.jcm.riken.jp/cgi-bin/jcm/jcm_grmd?GRMD=923
Composition
flowchart LR
CultureMech_010394["peat_medium_1_for_methanoregura_boonei"]
ing0_Distilled_water["Distilled water"]
CultureMech_010394 --> ing0_Distilled_water
CHEBI_15377["CHEBI:15377"]
ing0_Distilled_water -.-> CHEBI_15377
ing1_Major_metals__see_below_["Major metals (see below)"]
CultureMech_010394 --> ing1_Major_metals__see_below_
ing2_HCl["HCl"]
CultureMech_010394 --> ing2_HCl
CHEBI_17883["CHEBI:17883"]
ing2_HCl -.-> CHEBI_17883
ing3_Carbon_dioxide_gas["Carbon dioxide gas"]
CultureMech_010394 --> ing3_Carbon_dioxide_gas
CHEBI_16526["CHEBI:16526"]
ing3_Carbon_dioxide_gas -.-> CHEBI_16526
ing4_Nitrogen_gas["Nitrogen gas"]
CultureMech_010394 --> ing4_Nitrogen_gas
CHEBI_17997["CHEBI:17997"]
ing4_Nitrogen_gas -.-> CHEBI_17997
ing5_Hydrogen_gas["Hydrogen gas"]
CultureMech_010394 --> ing5_Hydrogen_gas
CHEBI_18276["CHEBI:18276"]
ing5_Hydrogen_gas -.-> CHEBI_18276
ing6_20_mM_Sodium_acetate["20 mM Sodium acetate"]
CultureMech_010394 --> ing6_20_mM_Sodium_acetate
ing7_KH2PO4["KH2PO4"]
CultureMech_010394 --> ing7_KH2PO4
CHEBI_63036["CHEBI:63036"]
ing7_KH2PO4 -.-> CHEBI_63036
ing8_NH4Cl["NH4Cl"]
CultureMech_010394 --> ing8_NH4Cl
CHEBI_31206["CHEBI:31206"]
ing8_NH4Cl -.-> CHEBI_31206
ing9_KCl["KCl"]
CultureMech_010394 --> ing9_KCl
CHEBI_32588["CHEBI:32588"]
ing9_KCl -.-> CHEBI_32588
ing10_MgSO4_7H2O["MgSO4・7H2O"]
CultureMech_010394 --> ing10_MgSO4_7H2O
CHEBI_31795["CHEBI:31795"]
ing10_MgSO4_7H2O -.-> CHEBI_31795
ing11_CaCl2_2H2O["CaCl2・2H2O"]
CultureMech_010394 --> ing11_CaCl2_2H2O
CHEBI_86158["CHEBI:86158"]
ing11_CaCl2_2H2O -.-> CHEBI_86158
ing12_Na2MoO4_2H2O["Na2MoO4・2H2O"]
CultureMech_010394 --> ing12_Na2MoO4_2H2O
CHEBI_75213["CHEBI:75213"]
ing12_Na2MoO4_2H2O -.-> CHEBI_75213
ing13_H3BO3["H3BO3"]
CultureMech_010394 --> ing13_H3BO3
CHEBI_33118["CHEBI:33118"]
ing13_H3BO3 -.-> CHEBI_33118
ing14_CoCl2_6H2O["CoCl2・6H2O"]
CultureMech_010394 --> ing14_CoCl2_6H2O
CHEBI_35696["CHEBI:35696"]
ing14_CoCl2_6H2O -.-> CHEBI_35696
ing15_NiCl2_6H2O["NiCl2・6H2O"]
CultureMech_010394 --> ing15_NiCl2_6H2O
CHEBI_34887["CHEBI:34887"]
ing15_NiCl2_6H2O -.-> CHEBI_34887
ing16_ZnCl2["ZnCl2"]
CultureMech_010394 --> ing16_ZnCl2
CHEBI_49976["CHEBI:49976"]
ing16_ZnCl2 -.-> CHEBI_49976
ing17_CuSO4_5H2O["CuSO4・5H2O"]
CultureMech_010394 --> ing17_CuSO4_5H2O
CHEBI_31440["CHEBI:31440"]
ing17_CuSO4_5H2O -.-> CHEBI_31440
ing18_AlK_SO4_2_12H2O["AlK(SO4)2・12H2O"]
CultureMech_010394 --> ing18_AlK_SO4_2_12H2O
CHEBI_86465["CHEBI:86465"]
ing18_AlK_SO4_2_12H2O -.-> CHEBI_86465
ing19_MnSO4_xH2O["MnSO4・xH2O"]
CultureMech_010394 --> ing19_MnSO4_xH2O
CHEBI_86360["CHEBI:86360"]
ing19_MnSO4_xH2O -.-> CHEBI_86360
ing20_FeCl2_4H2O["FeCl2・4H2O"]
CultureMech_010394 --> ing20_FeCl2_4H2O
CHEBI_86249["CHEBI:86249"]
ing20_FeCl2_4H2O -.-> CHEBI_86249
ing21_1_M_Tris_base__pH_8_["1 M Tris base (pH 8)"]
CultureMech_010394 --> ing21_1_M_Tris_base__pH_8_
ing22_0_5_M_Nitrilotriacetic_acid__disodium_salt["0.5 M Nitrilotriacetic acid, disodium salt"]
CultureMech_010394 --> ing22_0_5_M_Nitrilotriacetic_acid__disodium_salt
CHEBI_132766["CHEBI:132766"]
ing22_0_5_M_Nitrilotriacetic_acid__disodium_salt -.-> CHEBI_132766
ing23_Biotin["Biotin"]
CultureMech_010394 --> ing23_Biotin
CHEBI_15956["CHEBI:15956"]
ing23_Biotin -.-> CHEBI_15956
ing24_p__Aminobenzoic_acid["p--Aminobenzoic acid"]
CultureMech_010394 --> ing24_p__Aminobenzoic_acid
CHEBI_30753["CHEBI:30753"]
ing24_p__Aminobenzoic_acid -.-> CHEBI_30753
ing25_Thiamine_HCl["Thiamine・HCl"]
CultureMech_010394 --> ing25_Thiamine_HCl
CHEBI_49105["CHEBI:49105"]
ing25_Thiamine_HCl -.-> CHEBI_49105
ing26_Pyridoxine_HCl["Pyridoxine・HCl"]
CultureMech_010394 --> ing26_Pyridoxine_HCl
CHEBI_30961["CHEBI:30961"]
ing26_Pyridoxine_HCl -.-> CHEBI_30961
ing27_Folic_acid["Folic acid"]
CultureMech_010394 --> ing27_Folic_acid
CHEBI_27470["CHEBI:27470"]
ing27_Folic_acid -.-> CHEBI_27470
ing28_Vitamin_B12["Vitamin B12"]
CultureMech_010394 --> ing28_Vitamin_B12
CHEBI_176843["CHEBI:176843"]
ing28_Vitamin_B12 -.-> CHEBI_176843
ing29_Riboflavin["Riboflavin"]
CultureMech_010394 --> ing29_Riboflavin
CHEBI_17015["CHEBI:17015"]
ing29_Riboflavin -.-> CHEBI_17015
CultureMech_010394 --> more["...4 more"]
Ingredients (34)
| # | Ingredient | Concentration | Ontology | Notes |
|---|---|---|---|---|
| 1 |
Distilled water
H2O 18.015 g/mol
|
4.0 G_PER_L |
CHEBI:15377
water
|
Role: Solvating media; Properties: Inorganic compound, Defined component, Simple component [Merged 4 duplicates: 1.0, 1.0, 1.0, 1.0] |
| 2 | Major metals (see below) | 10 G_PER_L | ||
| 3 |
HCl
HCl 36.461 g/mol
|
variable VARIABLE |
CHEBI:17883
hydrogen chloride
|
Role: Solvating media; Properties: Defined component, Inorganic compound, Solution |
| 4 |
Carbon dioxide gas
CO2 44.009 g/mol
|
variable VARIABLE |
CHEBI:16526
carbon dioxide
|
Properties: ガス |
| 5 |
Nitrogen gas
N2 28.014 g/mol
|
variable VARIABLE |
CHEBI:17997
dinitrogen
|
Properties: ガス |
| 6 |
Hydrogen gas
H2 2.016 g/mol
|
variable VARIABLE |
CHEBI:18276
dihydrogen
|
Properties: ガス |
| 7 | 20 mM Sodium acetate | 0.05 G_PER_L | Role: Buffer; Properties: Defined component, Organic compound, Solution | |
| 8 |
KH2PO4
H2O4P.K 136.084 g/mol
|
1.36 G_PER_L |
CHEBI:63036
potassium dihydrogen phosphate
|
Role: Buffer; Properties: Inorganic compound, Defined component, Simple component |
| 9 |
NH4Cl
Cl.H4N 53.492 g/mol
|
2.68 G_PER_L |
CHEBI:31206
ammonium chloride
|
Role: Nitrogen source; Properties: Inorganic compound, Defined component, Simple component |
| 10 |
KCl
Cl.K 74.551 g/mol
|
0.15 G_PER_L |
CHEBI:32588
potassium chloride
|
Role: Mineral source; Properties: Inorganic compound, Defined component, Simple component |
| 11 |
MgSO4・7H2O
7H2O.Mg.O4S 246.473 g/mol
|
1.556 G_PER_L |
CHEBI:31795
magnesium sulfate heptahydrate
|
Role: Mineral source; Properties: Inorganic compound, Defined component, Simple component |
| 12 |
CaCl2・2H2O
Ca.2Cl.2H2O 147.014 g/mol
|
2.336 G_PER_L |
CHEBI:86158
calcium chloride dihydrate
|
Role: Mineral source; Properties: Inorganic compound, Defined component, Simple component |
| 13 |
Na2MoO4・2H2O
2H2O.MoO4.2Na 241.946 g/mol
|
24 G_PER_L |
CHEBI:75213
sodium molybdate dihydrate
|
Role: Mineral source; Properties: Inorganic compound, Defined component, Simple component |
| 14 |
H3BO3
H3BO3 61.833 g/mol
|
19 G_PER_L |
CHEBI:33118
boric acid
|
Role: Mineral source; Properties: Inorganic compound, Defined component, Simple component |
| 15 |
CoCl2・6H2O
2Cl.Co 129.839 g/mol
|
24 G_PER_L |
CHEBI:35696
cobalt dichloride
|
Role: Mineral source; Properties: Inorganic compound, Defined component, Simple component |
| 16 |
NiCl2・6H2O
Cl2Ni 129.599 g/mol
|
24 G_PER_L |
CHEBI:34887
nickel dichloride
|
Role: Mineral source; Properties: Inorganic compound, Defined component, Simple component |
| 17 |
ZnCl2
2Cl.Zn 136.296 g/mol
|
75 G_PER_L |
CHEBI:49976
zinc dichloride
|
Role: Mineral source; Properties: Inorganic compound, Defined component, Simple component |
| 18 |
CuSO4・5H2O
Cu.5H2O.O4S 249.684 g/mol
|
9 G_PER_L |
CHEBI:31440
copper(II) sulfate pentahydrate
|
Role: Mineral source; Properties: Inorganic compound, Defined component, Simple component |
| 19 |
AlK(SO4)2・12H2O
Al.12H2O.K.2O4S 474.386 g/mol
|
3.446 G_PER_L |
CHEBI:86465
potassium aluminium sulfate dodecahydrate
|
Role: Mineral source; Properties: Inorganic compound, Defined component, Simple component |
| 20 |
MnSO4・xH2O
Mn.O4S 151.001 g/mol
|
26 G_PER_L |
CHEBI:86360
manganese(II) sulfate
|
Role: Mineral source; Properties: Inorganic compound, Defined component, Simple component |
| 21 |
FeCl2・4H2O
Cl2Fe.4H2O 198.811 g/mol
|
1.344 G_PER_L |
CHEBI:86249
iron dichloride tetrahydrate
|
Role: Mineral source; Properties: Inorganic compound, Defined component, Simple component |
| 22 | 1 M Tris base (pH 8) | 7.2 G_PER_L | Role: Buffer; Properties: Defined component, Organic compound, Simple component | |
| 23 |
0.5 M Nitrilotriacetic acid, disodium salt
C6H6NO6.3Na 257.085 g/mol
|
4.8 G_PER_L |
CHEBI:132766
sodium nitrilotriacetate
|
Role: Mineral source; Properties: Solution, Defined component, Organic compound |
| 24 |
Biotin
C10H16N2O3S 244.316 g/mol
|
20 G_PER_L |
CHEBI:15956
biotin
|
Role: Vitamin; Properties: Organic compound, Defined component, Simple component |
| 25 |
p--Aminobenzoic acid
C7H7NO2 137.138 g/mol
|
50 G_PER_L |
CHEBI:30753
4-aminobenzoic acid
|
Role: Vitamin; Properties: Organic compound, Defined component, Simple component |
| 26 |
Thiamine・HCl
C12H17N4OS.Cl.HCl 337.276 g/mol
|
50 G_PER_L |
CHEBI:49105
thiamine hydrochloride
|
Role: Vitamin; Properties: Organic compound, Defined component, Simple component |
| 27 |
Pyridoxine・HCl
C8H11NO3.HCl 205.641 g/mol
|
100 G_PER_L |
CHEBI:30961
pyridoxine hydrochloride
|
Role: Vitamin; Properties: Organic compound, Defined component, Simple component |
| 28 |
Folic acid
C19H19N7O6 441.404 g/mol
|
20 G_PER_L |
CHEBI:27470
folic acid
|
Role: Vitamin; Properties: Organic compound, Defined component, Simple component |
| 29 | Vitamin B12 | 1 G_PER_L |
CHEBI:176843
vitamin B12
|
Role: Vitamin; Properties: Organic compound, Defined component, Simple component |
| 30 |
Riboflavin
C17H20N4O6 376.369 g/mol
|
50 G_PER_L |
CHEBI:17015
riboflavin
|
Role: Vitamin; Properties: Organic compound, Defined component, Simple component |
| 31 |
Nicotinic acid
C6H5NO2 123.111 g/mol
|
50 G_PER_L |
CHEBI:15940
nicotinic acid
|
Role: Vitamin; Properties: Organic compound, Defined component, Simple component |
| 32 |
Lipoic acid
C8H14O2S2 206.332 g/mol
|
50 G_PER_L |
CHEBI:16494
lipoic acid
|
Role: Growth factor; Properties: Organic compound, Defined component, Simple component |
| 33 |
DL-Calcium pantothenate
2C9H16NO5.Ca 476.536 g/mol
|
50 G_PER_L |
CHEBI:31345
Calcium pantothenate
|
Role: Vitamin; Properties: Organic compound, Defined component, Simple component |
| 34 |
N2
N2 28.014 g/mol
|
variable VARIABLE |
CHEBI:17997
dinitrogen
|
Properties: ガス |
Solutions
Trace metal 1 solution (see below)
Dose: 1 G_PER_L
2% Yeast extract solution
Dose: 0.05 G_PER_L
Role: Nutrient source; Properties: Undefined component
50 mM Coenzyme M solution
Dose: 0.05 G_PER_L
Role: Growth factor; Properties: Organic compound, Solution, Defined component
0.5 M HOMOPIPES solution* (pH 5.4)
Dose: 0.05 G_PER_L
Role: Buffer; Properties: Solution, Organic compound, Defined component
83 mM TiNTA solution* (see below)
Dose: 0.06 G_PER_L
Vitamin solution* (see below)
Dose: 0.05 G_PER_L
15% TiCl3 solution
Dose: 0.55 G_PER_L
Properties: Defined component, Inorganic compound, Solution
Target organisms
No target organisms are recorded.
Provenance
Merged from 1 source record.
- TOGO_M969_Peat_Medium_1_For_Methanoregura_Boonei (CultureMech:010394)
| Timestamp | Curator | Action | Notes |
|---|---|---|---|
| 2026-01-27T06:35:56.051781Z | togo-import | Imported from TOGO Medium | Source: JCM, ID: M969 |
| 2026-01-28T19:48:26.148112Z | 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: HCl; Added default concentration for ingredient: Carbon dioxide gas; Added default concentration for ingredient: Nitrogen gas; Added default concentration for ingredient: Hydrogen gas; Added default concentration for ingredient: Carbon dioxide gas; Added default concentration for ingredient: Hydrogen gas; Added default concentration for ingredient: N2 |
| 2026-03-09T08:04:43.388921+00:00 | solution-migrator-v1.0 | Migrated solutions from ingredients to solutions array | Moved 7 solution(s) from ingredients |
| 2026-03-13T03:09:13.502663Z | data-quality-cleanup-v1.0 | Data quality fixes | Merged 5 duplicate ingredient(s) |
| 2026-03-13T06:20:13.521463Z | culturemech-id-assigner-v1.0 | Assigned CultureMech ID | Assigned stable identifier: CultureMech:010394 |
| 2026-03-14T00:00:00+00:00 | schema-defaulter-v1.0 | Applied schema defaults and normalizations | Added default solution name; Added default solution name; Added default solution name; Added default solution name; Added default solution name; Added default solution name; Added default solution name |
| 2026-03-17T06:30:20.000000Z | mediaingredientmech-enrichment-v1.0 | Added MediaIngredientMech links | Linked ingredients to MediaIngredientMech identifiers |
| 2026-03-17T19:46:32.494491+00:00 | normalize_media_names_to_snake_case.py | NAME_NORMALIZED | Normalized name from "Peat Medium 1 For Methanoregura Boonei" to "peat_medium_1_for_methanoregura_boonei" for consistent matching |
| 2026-05-16T09:03:22.404149+00:00 | migrate_legacy_fields.py | MIGRATED_LEGACY_FIELDS | curation_history.date->timestamp=2 |
| 2026-06-05T07:40:46.123375+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. |
| 2026-06-08T23:19:35.303519+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. |
| 2026-06-10T06:57:34.299880+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. |
| 2026-06-10T07:46:52.179827+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. |
| 2026-08-06T03:05:20.916837+00:00 | merge_recipes.py | MERGED_RECIPES | merged 1 source recipe(s) on fingerprint 916d9512e4ad7fa715de1da648bc92ca92805e39bdedadd70099cf185ff84b06 |