Overview
- External ontology
- TOGO:M1596 — Methanosarcina Medium
- Applications
-
- Microbial cultivation
- High-metal flag
- True
- Notes
- Source: https://togomedium.org/medium/M1596 Original source: NBRC - NBRC_M405 Original URL: https://www.nite.go.jp/nbrc/catalogue/NBRCMediumDetailServlet?NO=405
Composition
flowchart LR
CultureMech_008147["methanosarcina_medium"]
ing0_Distilled_water["Distilled water"]
CultureMech_008147 --> ing0_Distilled_water
CHEBI_15377["CHEBI:15377"]
ing0_Distilled_water -.-> CHEBI_15377
ing1_MgSO4_7H2O["MgSO4·7H2O"]
CultureMech_008147 --> ing1_MgSO4_7H2O
CHEBI_31795["CHEBI:31795"]
ing1_MgSO4_7H2O -.-> CHEBI_31795
ing2_NaCl["NaCl"]
CultureMech_008147 --> ing2_NaCl
CHEBI_26710["CHEBI:26710"]
ing2_NaCl -.-> CHEBI_26710
ing3_CaCl2_2H2O["CaCl2·2H2O"]
CultureMech_008147 --> ing3_CaCl2_2H2O
CHEBI_86158["CHEBI:86158"]
ing3_CaCl2_2H2O -.-> CHEBI_86158
ing4_KH2PO4["KH2PO4"]
CultureMech_008147 --> ing4_KH2PO4
CHEBI_63036["CHEBI:63036"]
ing4_KH2PO4 -.-> CHEBI_63036
ing5_NH4Cl["NH4Cl"]
CultureMech_008147 --> ing5_NH4Cl
CHEBI_31206["CHEBI:31206"]
ing5_NH4Cl -.-> CHEBI_31206
ing6_K2HPO4["K2HPO4"]
CultureMech_008147 --> ing6_K2HPO4
CHEBI_131527["CHEBI:131527"]
ing6_K2HPO4 -.-> CHEBI_131527
ing7_Resazurin["Resazurin"]
CultureMech_008147 --> ing7_Resazurin
CHEBI_8806["CHEBI:8806"]
ing7_Resazurin -.-> CHEBI_8806
ing8_Na2S_9H2O["Na2S·9H2O"]
CultureMech_008147 --> ing8_Na2S_9H2O
CHEBI_76209["CHEBI:76209"]
ing8_Na2S_9H2O -.-> CHEBI_76209
ing9_FeSO4_7H2O["FeSO4·7H2O"]
CultureMech_008147 --> ing9_FeSO4_7H2O
CHEBI_75836["CHEBI:75836"]
ing9_FeSO4_7H2O -.-> CHEBI_75836
ing10_NaHCO3["NaHCO3"]
CultureMech_008147 --> ing10_NaHCO3
CHEBI_32139["CHEBI:32139"]
ing10_NaHCO3 -.-> CHEBI_32139
ing11_Methanol["Methanol"]
CultureMech_008147 --> ing11_Methanol
CHEBI_17790["CHEBI:17790"]
ing11_Methanol -.-> CHEBI_17790
ing12_Bacto_Yeast_Extract__Difco_["Bacto Yeast Extract (Difco)"]
CultureMech_008147 --> ing12_Bacto_Yeast_Extract__Difco_
ing13_Cysteine_HCl["Cysteine-HCl"]
CultureMech_008147 --> ing13_Cysteine_HCl
CHEBI_91247["CHEBI:91247"]
ing13_Cysteine_HCl -.-> CHEBI_91247
ing14_Bacto_Casitone__Difco_["Bacto Casitone (Difco)"]
CultureMech_008147 --> ing14_Bacto_Casitone__Difco_
ing15_Carbon_dioxide_gas["Carbon dioxide gas"]
CultureMech_008147 --> ing15_Carbon_dioxide_gas
CHEBI_16526["CHEBI:16526"]
ing15_Carbon_dioxide_gas -.-> CHEBI_16526
ing16_Nitrogen_gas["Nitrogen gas"]
CultureMech_008147 --> ing16_Nitrogen_gas
CHEBI_17997["CHEBI:17997"]
ing16_Nitrogen_gas -.-> CHEBI_17997
ing17_Biotin["Biotin"]
CultureMech_008147 --> ing17_Biotin
CHEBI_15956["CHEBI:15956"]
ing17_Biotin -.-> CHEBI_15956
ing18_p_Aminobenzoic_acid["p-Aminobenzoic acid"]
CultureMech_008147 --> ing18_p_Aminobenzoic_acid
CHEBI_30753["CHEBI:30753"]
ing18_p_Aminobenzoic_acid -.-> CHEBI_30753
ing19_Thiamine_HCl["Thiamine-HCl"]
CultureMech_008147 --> ing19_Thiamine_HCl
CHEBI_49105["CHEBI:49105"]
ing19_Thiamine_HCl -.-> CHEBI_49105
ing20_Ca_pantothenate["Ca-pantothenate"]
CultureMech_008147 --> ing20_Ca_pantothenate
CHEBI_29032["CHEBI:29032"]
ing20_Ca_pantothenate -.-> CHEBI_29032
ing21_Pyridoxine_HCl["Pyridoxine-HCl"]
CultureMech_008147 --> ing21_Pyridoxine_HCl
CHEBI_30961["CHEBI:30961"]
ing21_Pyridoxine_HCl -.-> CHEBI_30961
ing22_Folic_acid["Folic acid"]
CultureMech_008147 --> ing22_Folic_acid
CHEBI_27470["CHEBI:27470"]
ing22_Folic_acid -.-> CHEBI_27470
ing23_Vitamin_B12["Vitamin B12"]
CultureMech_008147 --> ing23_Vitamin_B12
CHEBI_176843["CHEBI:176843"]
ing23_Vitamin_B12 -.-> CHEBI_176843
ing24_Riboflavin["Riboflavin"]
CultureMech_008147 --> ing24_Riboflavin
CHEBI_17015["CHEBI:17015"]
ing24_Riboflavin -.-> CHEBI_17015
ing25_Nicotinic_acid["Nicotinic acid"]
CultureMech_008147 --> ing25_Nicotinic_acid
CHEBI_15940["CHEBI:15940"]
ing25_Nicotinic_acid -.-> CHEBI_15940
ing26_Lipoic_acid["Lipoic acid"]
CultureMech_008147 --> ing26_Lipoic_acid
CHEBI_16494["CHEBI:16494"]
ing26_Lipoic_acid -.-> CHEBI_16494
ing27_25__HCl__7_7_M_["25% HCl (7.7 M)"]
CultureMech_008147 --> ing27_25__HCl__7_7_M_
ing28_FeCl2_4H2O["FeCl2·4H2O"]
CultureMech_008147 --> ing28_FeCl2_4H2O
CHEBI_86249["CHEBI:86249"]
ing28_FeCl2_4H2O -.-> CHEBI_86249
ing29_Na2MoO4_2H2O["Na2MoO4·2H2O"]
CultureMech_008147 --> ing29_Na2MoO4_2H2O
CHEBI_75213["CHEBI:75213"]
ing29_Na2MoO4_2H2O -.-> CHEBI_75213
CultureMech_008147 --> more["...6 more"]
Ingredients (36)
| # | Ingredient | Concentration | Ontology | Notes |
|---|---|---|---|---|
| 1 |
Distilled water
H2O 18.015 g/mol
|
1972.0 G_PER_L |
CHEBI:15377
water
|
Role: Solvating media; Properties: Inorganic compound, Defined component, Simple component [Merged 4 duplicates: 980.0, 1.0, 990.0, 1.0] |
| 2 |
MgSO4·7H2O
7H2O.Mg.O4S 246.473 g/mol
|
0.5 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
|
2.25 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
|
0.25 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
|
0.227 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
|
0.5 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
|
0.348 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
|
0.3 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
|
2 G_PER_L |
CHEBI:75836
iron(2+) sulfate heptahydrate
|
Role: Mineral source; Properties: Inorganic compound, Defined component, Simple component |
| 11 |
NaHCO3
CHO3.Na 84.006 g/mol
|
0.85 G_PER_L |
CHEBI:32139
sodium hydrogencarbonate
|
Role: Buffer; Properties: Inorganic compound, Defined component, Simple component |
| 12 |
Methanol
CH4O 32.042 g/mol
|
10 G_PER_L |
CHEBI:17790
methanol
|
Role: Solvating media; Properties: Organic compound, Defined component, Simple component |
| 13 | Bacto Yeast Extract (Difco) | 2 G_PER_L | Properties: Undefined component | |
| 14 |
Cysteine-HCl
C3H7NO2S.HCl 157.622 g/mol
|
0.3 G_PER_L |
CHEBI:91247
L-cysteine hydrochloride
|
Properties: Organic compound, Simple component, Defined component |
| 15 | Bacto Casitone (Difco) | 2 G_PER_L | Properties: Undefined component | |
| 16 |
Carbon dioxide gas
CO2 44.009 g/mol
|
variable VARIABLE |
CHEBI:16526
carbon dioxide
|
Properties: ガス |
| 17 |
Nitrogen gas
N2 28.014 g/mol
|
variable VARIABLE |
CHEBI:17997
dinitrogen
|
Properties: ガス |
| 18 |
Biotin
C10H16N2O3S 244.316 g/mol
|
2 G_PER_L |
CHEBI:15956
biotin
|
Role: Vitamin; Properties: Organic compound, Defined component, Simple component |
| 19 |
p-Aminobenzoic acid
C7H7NO2 137.138 g/mol
|
5 G_PER_L |
CHEBI:30753
4-aminobenzoic acid
|
Role: Vitamin; Properties: Organic compound, Defined component, Simple component |
| 20 |
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 |
| 21 |
Ca-pantothenate
C9H16NO5 218.229 g/mol
|
5 G_PER_L |
CHEBI:29032
(R)-pantothenate
|
Role: Vitamin; Properties: Organic compound, Defined component, Simple component |
| 22 |
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 |
| 23 |
Folic acid
C19H19N7O6 441.404 g/mol
|
2 G_PER_L |
CHEBI:27470
folic acid
|
Role: Vitamin; Properties: Organic compound, Defined component, Simple component |
| 24 | Vitamin B12 | 0.1 G_PER_L |
CHEBI:176843
vitamin B12
|
Role: Vitamin; Properties: Organic compound, Defined component, Simple component |
| 25 |
Riboflavin
C17H20N4O6 376.369 g/mol
|
5 G_PER_L |
CHEBI:17015
riboflavin
|
Role: Vitamin; Properties: Organic compound, Defined component, Simple component |
| 26 |
Nicotinic acid
C6H5NO2 123.111 g/mol
|
5 G_PER_L |
CHEBI:15940
nicotinic acid
|
Role: Vitamin; Properties: Organic compound, Defined component, Simple component |
| 27 |
Lipoic acid
C8H14O2S2 206.332 g/mol
|
5 G_PER_L |
CHEBI:16494
lipoic acid
|
Role: Growth factor; Properties: Organic compound, Defined component, Simple component |
| 28 | 25% HCl (7.7 M) | 10 G_PER_L | Role: Solvating media; Properties: Defined component, Inorganic compound, Solution | |
| 29 |
FeCl2·4H2O
Cl2Fe.4H2O 198.811 g/mol
|
1.5 G_PER_L |
CHEBI:86249
iron dichloride tetrahydrate
|
Role: Mineral source; Properties: Inorganic compound, Defined component, Simple component |
| 30 |
Na2MoO4·2H2O
2H2O.MoO4.2Na 241.946 g/mol
|
36 G_PER_L |
CHEBI:75213
sodium molybdate dihydrate
|
Role: Mineral source; Properties: Inorganic compound, Defined component, Simple component |
| 31 |
H3BO3
H3BO3 61.833 g/mol
|
6 G_PER_L |
CHEBI:33118
boric acid
|
Role: Mineral source; Properties: Inorganic compound, Defined component, Simple component |
| 32 |
MnCl2·4H2O
Cl2Mn.4H2O 197.904 g/mol
|
100 G_PER_L |
CHEBI:86368
manganese(II) chloride tetrahydrate
|
Role: Mineral source; Properties: Inorganic compound, Defined component, Simple component |
| 33 |
CoCl2·6H2O
2Cl.Co 129.839 g/mol
|
190 G_PER_L |
CHEBI:35696
cobalt dichloride
|
Role: Mineral source; Properties: Inorganic compound, Defined component, Simple component |
| 34 |
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 |
| 35 |
CuCl2·2H2O
Cl2Cu.2H2O 170.482 g/mol
|
2 G_PER_L |
CHEBI:86318
copper(II) chloride dihydrate
|
Role: Mineral source; Properties: Inorganic compound, Defined component, Simple component |
| 36 |
ZnCl2
2Cl.Zn 136.296 g/mol
|
70 G_PER_L |
CHEBI:49976
zinc dichloride
|
Role: Mineral source; Properties: Inorganic compound, Defined component, Simple component |
Solutions
Trace vitamins*
Dose: 10 G_PER_L
See mediadive_5469_Trace_vitamins.yaml for composition
FeCl2 solution**
Dose: 1 G_PER_L
See mediadive_3846_FeCl2_solution.yaml for composition
Trace element solution***
Dose: 1 G_PER_L
See mediadive_6187_Trace_element_solution.yaml for composition
Target organisms
No target organisms are recorded.
Provenance
Merged from 1 source record.
- TOGO_M1596_Methanosarcina_Medium (CultureMech:008147)
| Timestamp | Curator | Action | Notes |
|---|---|---|---|
| 2026-01-27T06:35:57.918970Z | togo-import | Imported from TOGO Medium | Source: NBRC, ID: M1596 |
| 2026-01-28T19:48:24.216963Z | 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: Nitrogen gas |
| 2026-03-09T08:04:40.018753+00:00 | solution-migrator-v1.0 | Migrated solutions from ingredients to solutions array | Moved 3 solution(s) from ingredients |
| 2026-03-13T03:09:09.921964Z | data-quality-cleanup-v1.0 | Data quality fixes | Merged 3 duplicate ingredient(s) |
| 2026-03-13T06:19:53.928278Z | culturemech-id-assigner-v1.0 | Assigned CultureMech ID | Assigned stable identifier: CultureMech:008147 |
| 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 |
| 2026-03-17T06:30:16.000000Z | mediaingredientmech-enrichment-v1.0 | Added MediaIngredientMech links | Linked ingredients to MediaIngredientMech identifiers |
| 2026-03-17T19:46:12.485282+00:00 | normalize_media_names_to_snake_case.py | NAME_NORMALIZED | Normalized name from "Methanosarcina Medium" to "methanosarcina_medium" for consistent matching |
| 2026-05-16T09:03:10.400319+00:00 | migrate_legacy_fields.py | MIGRATED_LEGACY_FIELDS | curation_history.date->timestamp=2 |
| 2026-06-05T07:40:33.483030+00:00 | mim-legacy-to-chebi-migration-v1.0 | Refreshed legacy MediaIngredientMech links to CHEBI keying | Replaced 27 legacy mediaingredientmech_term link(s) with mediaingredientmech_chebi_term (id-safe: ingredient's own CHEBI + label). MIM deprecated the MediaIngredientMech:NNNNNN id scheme. |
| 2026-06-08T23:19:30.512918+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. |
| 2026-06-10T06:57:23.639798+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. |
| 2026-06-10T07:46:47.918259+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. |
| 2026-08-06T03:04:25.103461+00:00 | merge_recipes.py | MERGED_RECIPES | merged 1 source recipe(s) on fingerprint b543ec84e538c34d83f4cec88fb6ef5cb73d517d741a195c25770653c2a683b9 |