Overview
- External ontology
- TOGO:M349 — Methanosphaera Medium
- Applications
-
- Microbial cultivation
- Notes
- Source: https://togomedium.org/medium/M349 Original source: JCM - JCM_M355 Original URL: https://www.jcm.riken.jp/cgi-bin/jcm/jcm_grmd?GRMD=355
Composition
flowchart LR
CultureMech_009728["methanosphaera_medium"]
ing0_Distilled_water["Distilled water"]
CultureMech_009728 --> ing0_Distilled_water
CHEBI_15377["CHEBI:15377"]
ing0_Distilled_water -.-> CHEBI_15377
ing1_MgSO4_7H2O["MgSO4・7H2O"]
CultureMech_009728 --> ing1_MgSO4_7H2O
CHEBI_31795["CHEBI:31795"]
ing1_MgSO4_7H2O -.-> CHEBI_31795
ing2_NaCl["NaCl"]
CultureMech_009728 --> ing2_NaCl
CHEBI_26710["CHEBI:26710"]
ing2_NaCl -.-> CHEBI_26710
ing3_CaCl2_2H2O["CaCl2・2H2O"]
CultureMech_009728 --> ing3_CaCl2_2H2O
CHEBI_86158["CHEBI:86158"]
ing3_CaCl2_2H2O -.-> CHEBI_86158
ing4_KH2PO4["KH2PO4"]
CultureMech_009728 --> ing4_KH2PO4
CHEBI_63036["CHEBI:63036"]
ing4_KH2PO4 -.-> CHEBI_63036
ing5_NH4Cl["NH4Cl"]
CultureMech_009728 --> ing5_NH4Cl
CHEBI_31206["CHEBI:31206"]
ing5_NH4Cl -.-> CHEBI_31206
ing6_K2HPO4["K2HPO4"]
CultureMech_009728 --> ing6_K2HPO4
CHEBI_131527["CHEBI:131527"]
ing6_K2HPO4 -.-> CHEBI_131527
ing7_Resazurin["Resazurin"]
CultureMech_009728 --> ing7_Resazurin
CHEBI_8806["CHEBI:8806"]
ing7_Resazurin -.-> CHEBI_8806
ing8_Na2S_9H2O["Na2S・9H2O"]
CultureMech_009728 --> ing8_Na2S_9H2O
CHEBI_76209["CHEBI:76209"]
ing8_Na2S_9H2O -.-> CHEBI_76209
ing9_FeSO4_7H2O["FeSO4・7H2O"]
CultureMech_009728 --> ing9_FeSO4_7H2O
CHEBI_75836["CHEBI:75836"]
ing9_FeSO4_7H2O -.-> CHEBI_75836
ing10_NiCl2_6H2O["NiCl2・6H2O"]
CultureMech_009728 --> ing10_NiCl2_6H2O
CHEBI_34887["CHEBI:34887"]
ing10_NiCl2_6H2O -.-> CHEBI_34887
ing11__NH4_2SO4["(NH4)2SO4"]
CultureMech_009728 --> ing11__NH4_2SO4
CHEBI_62946["CHEBI:62946"]
ing11__NH4_2SO4 -.-> CHEBI_62946
ing12_Sodium_acetate["Sodium acetate"]
CultureMech_009728 --> ing12_Sodium_acetate
CHEBI_32954["CHEBI:32954"]
ing12_Sodium_acetate -.-> CHEBI_32954
ing13_Methanol["Methanol"]
CultureMech_009728 --> ing13_Methanol
CHEBI_17790["CHEBI:17790"]
ing13_Methanol -.-> CHEBI_17790
ing14_Na2SeO4["Na2SeO4"]
CultureMech_009728 --> ing14_Na2SeO4
CHEBI_77775["CHEBI:77775"]
ing14_Na2SeO4 -.-> CHEBI_77775
ing15_Yeast_extract__BD_Difco_["Yeast extract (BD-Difco)"]
CultureMech_009728 --> ing15_Yeast_extract__BD_Difco_
ing16_Trypticase_peptone__BD_BBL_["Trypticase peptone (BD-BBL)"]
CultureMech_009728 --> ing16_Trypticase_peptone__BD_BBL_
ing17_Sodium_formate["Sodium formate"]
CultureMech_009728 --> ing17_Sodium_formate
CHEBI_62965["CHEBI:62965"]
ing17_Sodium_formate -.-> CHEBI_62965
ing18_L__Cysteine_HCl_H2O["L--Cysteine・HCl・H2O"]
CultureMech_009728 --> ing18_L__Cysteine_HCl_H2O
CHEBI_91248["CHEBI:91248"]
ing18_L__Cysteine_HCl_H2O -.-> CHEBI_91248
ing19_Rumen_fluid__clarified__see_below_["Rumen fluid, clarified (see below)"]
CultureMech_009728 --> ing19_Rumen_fluid__clarified__see_below_
ing20_Carbon_dioxide_gas["Carbon dioxide gas"]
CultureMech_009728 --> ing20_Carbon_dioxide_gas
CHEBI_16526["CHEBI:16526"]
ing20_Carbon_dioxide_gas -.-> CHEBI_16526
ing21_N2["N2"]
CultureMech_009728 --> ing21_N2
CHEBI_17997["CHEBI:17997"]
ing21_N2 -.-> CHEBI_17997
ing22_Hydrogen_gas["Hydrogen gas"]
CultureMech_009728 --> ing22_Hydrogen_gas
CHEBI_18276["CHEBI:18276"]
ing22_Hydrogen_gas -.-> CHEBI_18276
ing23_clarified_rumen_fluid["clarified rumen fluid"]
CultureMech_009728 --> ing23_clarified_rumen_fluid
Ingredients (24)
| # | Ingredient | Concentration | Ontology | Notes |
|---|---|---|---|---|
| 1 |
Distilled water
H2O 18.015 g/mol
|
900 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
|
0.15 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
|
0.6 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
|
0.076 G_PER_L |
CHEBI:86158
calcium chloride dihydrate
|
Role: Mineral source; Properties: Inorganic compound, Defined component, Simple component |
| 5 |
KH2PO4
H2O4P.K 136.084 g/mol
|
2.8 G_PER_L |
CHEBI:63036
potassium dihydrogen phosphate
|
Role: Buffer; Properties: Inorganic compound, Defined component, Simple component |
| 6 |
NH4Cl
Cl.H4N 53.492 g/mol
|
1 G_PER_L |
CHEBI:31206
ammonium chloride
|
Role: Nitrogen source; Properties: Inorganic compound, Defined component, Simple component |
| 7 |
K2HPO4
HO4P.2K 174.174 g/mol
|
0.6 G_PER_L |
CHEBI:131527
dipotassium hydrogen phosphate
|
Role: Buffer; Properties: Inorganic compound, Defined component, Simple component |
| 8 |
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 |
| 9 |
Na2S・9H2O
9H2O.2Na.S 240.182 g/mol
|
0.375 G_PER_L |
CHEBI:76209
sodium sulfide nonahydrate
|
Role: Reducing agent; Properties: Inorganic compound, Defined component, Simple component |
| 10 |
FeSO4・7H2O
Fe.7H2O.O4S 278.013 g/mol
|
3 G_PER_L |
CHEBI:75836
iron(2+) sulfate heptahydrate
|
Role: Mineral source; Properties: Inorganic compound, Defined component, Simple component |
| 11 |
NiCl2・6H2O
Cl2Ni 129.599 g/mol
|
0.7 G_PER_L |
CHEBI:34887
nickel dichloride
|
Role: Mineral source; Properties: Inorganic compound, Defined component, Simple component |
| 12 |
(NH4)2SO4
2H4N.O4S 132.141 g/mol
|
0.3 G_PER_L |
CHEBI:62946
ammonium sulfate
|
Role: Nitrogen source; Properties: Inorganic compound, Defined component, Simple component |
| 13 |
Sodium acetate
C2H3O2.Na 82.034 g/mol
|
0.5 G_PER_L |
CHEBI:32954
sodium acetate
|
Role: Buffer; Properties: Organic compound, Defined component, Simple component |
| 14 |
Methanol
CH4O 32.042 g/mol
|
5 G_PER_L |
CHEBI:17790
methanol
|
Role: Solvating media; Properties: Organic compound, Defined component, Simple component |
| 15 |
Na2SeO4
2Na.O4Se 188.936 g/mol
|
0.19 G_PER_L |
CHEBI:77775
sodium selenate
|
Role: Mineral source; Properties: Inorganic compound, Defined component, Simple component |
| 16 | Yeast extract (BD-Difco) | 2 G_PER_L | Properties: Undefined component | |
| 17 | Trypticase peptone (BD-BBL) | 2 G_PER_L | Properties: Undefined component | |
| 18 |
Sodium formate
CHO2.Na 68.007 g/mol
|
0.5 G_PER_L |
CHEBI:62965
sodium formate
|
Properties: Defined component, Inorganic compound, Simple component |
| 19 |
L--Cysteine・HCl・H2O
C3H7NO2S.H2O.HCl 175.637 g/mol
|
0.875 G_PER_L |
CHEBI:91248
L-cysteine hydrochloride hydrate
|
Properties: Organic compound, Defined component, Simple component |
| 20 | Rumen fluid, clarified (see below) | 100 G_PER_L | ||
| 21 |
Carbon dioxide gas
CO2 44.009 g/mol
|
variable VARIABLE |
CHEBI:16526
carbon dioxide
|
Properties: ガス |
| 22 |
N2
N2 28.014 g/mol
|
variable VARIABLE |
CHEBI:17997
dinitrogen
|
Properties: ガス |
| 23 |
Hydrogen gas
H2 2.016 g/mol
|
variable VARIABLE |
CHEBI:18276
dihydrogen
|
Properties: ガス |
| 24 | clarified rumen fluid | variable VARIABLE | Role: Nutrient source; Properties: Undefined component |
Solutions
Trace minerals (see Medium [M142])
Dose: 10 G_PER_L
Cross-reference to Medium M142
Trace vitamins (see Medium [M190])
Dose: 1 G_PER_L
Cross-reference to Medium M190
Target organisms
No target organisms are recorded.
Provenance
| Timestamp | Curator | Action | Notes |
|---|---|---|---|
| 2026-01-27T06:35:54.887934Z | togo-import | Imported from TOGO Medium | Source: JCM, ID: M349 |
| 2026-01-28T19:48:28.112047Z | 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; Added default concentration for ingredient: clarified rumen fluid |
| 2026-03-09T08:04:46.531169+00:00 | solution-migrator-v1.0 | Migrated solutions from ingredients to solutions array | Moved 2 solution(s) from ingredients |
| 2026-03-13T06:20:08.409764Z | culturemech-id-assigner-v1.0 | Assigned CultureMech ID | Assigned stable identifier: CultureMech:009728 |
| 2026-03-14T00:00:00+00:00 | schema-defaulter-v1.0 | Applied schema defaults and normalizations | Added default solution name; Added default solution name |
| 2026-03-17T06:30:24.000000Z | mediaingredientmech-enrichment-v1.0 | Added MediaIngredientMech links | Linked ingredients to MediaIngredientMech identifiers |
| 2026-03-17T19:46:27.397607+00:00 | normalize_media_names_to_snake_case.py | NAME_NORMALIZED | Normalized name from "Methanosphaera Medium" to "methanosphaera_medium" for consistent matching |
| 2026-05-16T09:03:17.308315+00:00 | migrate_legacy_fields.py | MIGRATED_LEGACY_FIELDS | curation_history.date->timestamp=2 |
| 2026-06-05T07:40:40.614879+00:00 | mim-legacy-to-chebi-migration-v1.0 | Refreshed legacy MediaIngredientMech links to CHEBI keying | Replaced 11 legacy mediaingredientmech_term link(s) with mediaingredientmech_chebi_term (id-safe: ingredient's own CHEBI + label). MIM deprecated the MediaIngredientMech:NNNNNN id scheme. |
| 2026-06-08T23:19:34.106990+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. |
| 2026-06-10T06:57:29.928120+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. |
| 2026-06-10T07:46:50.375625+00:00 | primary-term-label-canonicalization-v1.0 | Canonicalized primary term label to OBO canonical (OAK) | 5 primary term(s); ingredient name resolved by OAK sqlite:obo:chebi. |