Overview
- External ontology
- TOGO:M2016 — Medium for natronophilic methylotrophic methanogen
- Applications
-
- Microbial cultivation
- Notes
- Source: https://togomedium.org/medium/M2016 Original source: NBRC - NBRC_M1305 Original URL: https://www.nite.go.jp/nbrc/catalogue/NBRCMediumDetailServlet?NO=1305
Composition
flowchart LR
CultureMech_008603["medium_for_natronophilic_methylotrophic_methanogen"]
ing0_MgSO4_7H2O["MgSO4·7H2O"]
CultureMech_008603 --> ing0_MgSO4_7H2O
CHEBI_31795["CHEBI:31795"]
ing0_MgSO4_7H2O -.-> CHEBI_31795
ing1_NH4Cl["NH4Cl"]
CultureMech_008603 --> ing1_NH4Cl
CHEBI_31206["CHEBI:31206"]
ing1_NH4Cl -.-> CHEBI_31206
ing2_Na2S_9H2O["Na2S·9H2O"]
CultureMech_008603 --> ing2_Na2S_9H2O
CHEBI_76209["CHEBI:76209"]
ing2_Na2S_9H2O -.-> CHEBI_76209
ing3_Methanol["Methanol"]
CultureMech_008603 --> ing3_Methanol
CHEBI_17790["CHEBI:17790"]
ing3_Methanol -.-> CHEBI_17790
ing4_Coenzyme_M["Coenzyme M"]
CultureMech_008603 --> ing4_Coenzyme_M
CHEBI_17905["CHEBI:17905"]
ing4_Coenzyme_M -.-> CHEBI_17905
ing5_Bacto_Yeast_Extract__Difco_["Bacto Yeast Extract (Difco)"]
CultureMech_008603 --> ing5_Bacto_Yeast_Extract__Difco_
ing6_N2["N2"]
CultureMech_008603 --> ing6_N2
CHEBI_17997["CHEBI:17997"]
ing6_N2 -.-> CHEBI_17997
ing7_Distilled_water["Distilled water"]
CultureMech_008603 --> ing7_Distilled_water
CHEBI_15377["CHEBI:15377"]
ing7_Distilled_water -.-> CHEBI_15377
ing8_NaCl["NaCl"]
CultureMech_008603 --> ing8_NaCl
CHEBI_26710["CHEBI:26710"]
ing8_NaCl -.-> CHEBI_26710
ing9_K2HPO4["K2HPO4"]
CultureMech_008603 --> ing9_K2HPO4
CHEBI_131527["CHEBI:131527"]
ing9_K2HPO4 -.-> CHEBI_131527
ing10_NaHCO3["NaHCO3"]
CultureMech_008603 --> ing10_NaHCO3
CHEBI_32139["CHEBI:32139"]
ing10_NaHCO3 -.-> CHEBI_32139
ing11_Na2CO3["Na2CO3"]
CultureMech_008603 --> ing11_Na2CO3
CHEBI_29377["CHEBI:29377"]
ing11_Na2CO3 -.-> CHEBI_29377
ing12_HCl["HCl"]
CultureMech_008603 --> ing12_HCl
CHEBI_17883["CHEBI:17883"]
ing12_HCl -.-> CHEBI_17883
ing13_Biotin["Biotin"]
CultureMech_008603 --> ing13_Biotin
CHEBI_15956["CHEBI:15956"]
ing13_Biotin -.-> CHEBI_15956
ing14_p_Aminobenzoic_acid["p-Aminobenzoic acid"]
CultureMech_008603 --> ing14_p_Aminobenzoic_acid
CHEBI_30753["CHEBI:30753"]
ing14_p_Aminobenzoic_acid -.-> CHEBI_30753
ing15_Thiamine_HCl["Thiamine-HCl"]
CultureMech_008603 --> ing15_Thiamine_HCl
CHEBI_49105["CHEBI:49105"]
ing15_Thiamine_HCl -.-> CHEBI_49105
ing16_Ca_pantothenate["Ca-pantothenate"]
CultureMech_008603 --> ing16_Ca_pantothenate
CHEBI_29032["CHEBI:29032"]
ing16_Ca_pantothenate -.-> CHEBI_29032
ing17_Pyridoxine_HCl["Pyridoxine-HCl"]
CultureMech_008603 --> ing17_Pyridoxine_HCl
CHEBI_30961["CHEBI:30961"]
ing17_Pyridoxine_HCl -.-> CHEBI_30961
ing18_Folic_acid["Folic acid"]
CultureMech_008603 --> ing18_Folic_acid
CHEBI_27470["CHEBI:27470"]
ing18_Folic_acid -.-> CHEBI_27470
ing19_Vitamin_B12["Vitamin B12"]
CultureMech_008603 --> ing19_Vitamin_B12
CHEBI_176843["CHEBI:176843"]
ing19_Vitamin_B12 -.-> CHEBI_176843
ing20_Riboflavin["Riboflavin"]
CultureMech_008603 --> ing20_Riboflavin
CHEBI_17015["CHEBI:17015"]
ing20_Riboflavin -.-> CHEBI_17015
ing21_Nicotinic_acid["Nicotinic acid"]
CultureMech_008603 --> ing21_Nicotinic_acid
CHEBI_15940["CHEBI:15940"]
ing21_Nicotinic_acid -.-> CHEBI_15940
ing22_CaCl2_2H2O["CaCl2·2H2O"]
CultureMech_008603 --> ing22_CaCl2_2H2O
CHEBI_86158["CHEBI:86158"]
ing22_CaCl2_2H2O -.-> CHEBI_86158
ing23_Na2MoO4_2H2O["Na2MoO4·2H2O"]
CultureMech_008603 --> ing23_Na2MoO4_2H2O
CHEBI_75213["CHEBI:75213"]
ing23_Na2MoO4_2H2O -.-> CHEBI_75213
ing24_H3BO3["H3BO3"]
CultureMech_008603 --> ing24_H3BO3
CHEBI_33118["CHEBI:33118"]
ing24_H3BO3 -.-> CHEBI_33118
ing25_MnCl2_4H2O["MnCl2·4H2O"]
CultureMech_008603 --> ing25_MnCl2_4H2O
CHEBI_86368["CHEBI:86368"]
ing25_MnCl2_4H2O -.-> CHEBI_86368
ing26_CoCl2_6H2O["CoCl2·6H2O"]
CultureMech_008603 --> ing26_CoCl2_6H2O
CHEBI_35696["CHEBI:35696"]
ing26_CoCl2_6H2O -.-> CHEBI_35696
ing27_NiCl2_6H2O["NiCl2·6H2O"]
CultureMech_008603 --> ing27_NiCl2_6H2O
CHEBI_34887["CHEBI:34887"]
ing27_NiCl2_6H2O -.-> CHEBI_34887
ing28_CuCl2_2H2O["CuCl2·2H2O"]
CultureMech_008603 --> ing28_CuCl2_2H2O
CHEBI_86318["CHEBI:86318"]
ing28_CuCl2_2H2O -.-> CHEBI_86318
ing29_ZnCl2["ZnCl2"]
CultureMech_008603 --> ing29_ZnCl2
CHEBI_49976["CHEBI:49976"]
ing29_ZnCl2 -.-> CHEBI_49976
CultureMech_008603 --> more["...5 more"]
Ingredients (35)
| # | Ingredient | Concentration | Ontology | Notes |
|---|---|---|---|---|
| 1 |
MgSO4·7H2O
7H2O.Mg.O4S 246.473 g/mol
|
0.25 G_PER_L |
CHEBI:31795
magnesium sulfate heptahydrate
|
Role: Mineral source; Properties: Inorganic compound, Defined component, Simple component |
| 2 |
NH4Cl
Cl.H4N 53.492 g/mol
|
0.2 G_PER_L |
CHEBI:31206
ammonium chloride
|
Role: Nitrogen source; Properties: Inorganic compound, Defined component, Simple component |
| 3 |
Na2S·9H2O
9H2O.2Na.S 240.182 g/mol
|
0.25 G_PER_L |
CHEBI:76209
sodium sulfide nonahydrate
|
Role: Reducing agent; Properties: Inorganic compound, Defined component, Simple component |
| 4 |
Methanol
CH4O 32.042 g/mol
|
3 G_PER_L |
CHEBI:17790
methanol
|
Role: Solvating media; Properties: Organic compound, Defined component, Simple component |
| 5 |
Coenzyme M
C2H6O3S2 142.201 g/mol
|
0.14 G_PER_L |
CHEBI:17905
coenzyme M
|
Role: Growth factor; Properties: Organic compound, Defined component, Simple component |
| 6 | Bacto Yeast Extract (Difco) | 0.02 G_PER_L | Properties: Undefined component | |
| 7 |
N2
N2 28.014 g/mol
|
variable VARIABLE |
CHEBI:17997
dinitrogen
|
Properties: Gas |
| 8 |
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] |
| 9 |
NaCl
Cl.Na 58.443 g/mol
|
20.0 G_PER_L |
CHEBI:26710
sodium chloride
|
Role: Mineral source; Properties: Inorganic compound, Defined component, Simple component [Merged 3 duplicates: 16.0, 3.0, 1.0] |
| 10 |
K2HPO4
HO4P.2K 174.174 g/mol
|
2.0 G_PER_L |
CHEBI:131527
dipotassium hydrogen phosphate
|
Role: Buffer; Properties: Inorganic compound, Defined component, Simple component [Merged 2 duplicates: 1.0, 1.0] |
| 11 |
NaHCO3
CHO3.Na 84.006 g/mol
|
35.0 G_PER_L |
CHEBI:32139
sodium hydrogencarbonate
|
Role: Buffer; Properties: Inorganic compound, Defined component, Simple component [Merged 2 duplicates: 15.0, 20.0] |
| 12 |
Na2CO3
CO3.2Na 105.988 g/mol
|
110.0 G_PER_L |
CHEBI:29377
sodium carbonate
|
Role: Buffer; Properties: Inorganic compound, Defined component, Simple component [Merged 2 duplicates: 95.0, 15.0] |
| 13 |
HCl
HCl 36.461 g/mol
|
variable VARIABLE |
CHEBI:17883
hydrogen chloride
|
Role: Solvating media; Properties: Defined component, Inorganic compound, Solution |
| 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 |
CaCl2·2H2O
Ca.2Cl.2H2O 147.014 g/mol
|
0.1 G_PER_L |
CHEBI:86158
calcium chloride dihydrate
|
Role: Mineral source; Properties: Inorganic compound, Defined component, Simple component |
| 24 |
Na2MoO4·2H2O
2H2O.MoO4.2Na 241.946 g/mol
|
0.024 G_PER_L |
CHEBI:75213
sodium molybdate dihydrate
|
Role: Mineral source; Properties: Inorganic compound, Defined component, Simple component |
| 25 |
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 |
| 26 |
MnCl2·4H2O
Cl2Mn.4H2O 197.904 g/mol
|
0.1 G_PER_L |
CHEBI:86368
manganese(II) chloride tetrahydrate
|
Role: Mineral source; Properties: Inorganic compound, Defined component, Simple component |
| 27 |
CoCl2·6H2O
2Cl.Co 129.839 g/mol
|
0.024 G_PER_L |
CHEBI:35696
cobalt dichloride
|
Role: Mineral source; Properties: Inorganic compound, Defined component, Simple component |
| 28 |
NiCl2·6H2O
Cl2Ni 129.599 g/mol
|
0.12 G_PER_L |
CHEBI:34887
nickel dichloride
|
Role: Mineral source; Properties: Inorganic compound, Defined component, Simple component |
| 29 |
CuCl2·2H2O
Cl2Cu.2H2O 170.482 g/mol
|
0.025 G_PER_L |
CHEBI:86318
copper(II) chloride dihydrate
|
Role: Mineral source; Properties: Inorganic compound, Defined component, Simple component |
| 30 |
ZnCl2
2Cl.Zn 136.296 g/mol
|
0.1 G_PER_L |
CHEBI:49976
zinc dichloride
|
Role: Mineral source; Properties: Inorganic compound, Defined component, Simple component |
| 31 |
FeCl3·6H2O
Cl3Fe.6H2O 270.294 g/mol
|
1.35 G_PER_L |
CHEBI:86254
iron trichloride hexahydrate
|
Role: Mineral source; Properties: Inorganic compound, Defined component, Simple component |
| 32 |
Nitrilotriacetic acid (NTA)
C6H9NO6 191.139 g/mol
|
12.8 G_PER_L |
CHEBI:44557
nitrilotriacetic acid
|
Role: Mineral source; Properties: Organic compound, Defined component, Simple component |
| 33 |
Na2WO4
2Na.O4W 293.816 g/mol
|
0.004 G_PER_L |
CHEBI:63940
sodium tungstate
|
Role: Mineral source; Properties: Inorganic compound, Defined component, Simple component |
| 34 |
Na2SeO4
2Na.O4Se 188.936 g/mol
|
0.004 G_PER_L |
CHEBI:77775
sodium selenate
|
Role: Mineral source; Properties: Inorganic compound, Defined component, Simple component |
| 35 |
NaOH
HO.Na 39.997 g/mol
|
variable VARIABLE |
CHEBI:32145
sodium hydroxide
|
Properties: Defined component, Inorganic compound, Solution |
Solutions
Mineral base 1*
Dose: 700 G_PER_L
Mineral base 2**
Dose: 300 G_PER_L
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
Merged from 1 source record.
- medium_for_natronophilic_methylotrophic_methanogen (CultureMech:008603)
| Timestamp | Curator | Action | Notes |
|---|---|---|---|
| 2026-01-27T06:35:58.880137Z | togo-import | Imported from TOGO Medium | Source: NBRC, ID: M2016 |
| 2026-01-28T19:48:35.845388Z | 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: N2; Added default concentration for ingredient: N2; Added default concentration for ingredient: HCl; Added default concentration for ingredient: NaOH |
| 2026-03-09T08:04:59.705954+00:00 | solution-migrator-v1.0 | Migrated solutions from ingredients to solutions array | Moved 4 solution(s) from ingredients |
| 2026-03-13T03:09:31.475523Z | data-quality-cleanup-v1.0 | Data quality fixes | Merged 9 duplicate ingredient(s) |
| 2026-03-13T06:19:58.579040Z | culturemech-id-assigner-v1.0 | Assigned CultureMech ID | Assigned stable identifier: CultureMech:008603 |
| 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 |
| 2026-03-17T06:30:41.000000Z | mediaingredientmech-enrichment-v1.0 | Added MediaIngredientMech links | Linked ingredients to MediaIngredientMech identifiers |
| 2026-03-17T19:46:17.196046+00:00 | normalize_media_names_to_snake_case.py | NAME_NORMALIZED | Normalized name from "Medium for natronophilic methylotrophic methanogen" to "medium_for_natronophilic_methylotrophic_methanogen" for consistent matching |
| 2026-05-16T09:04:20.122864+00:00 | migrate_legacy_fields.py | MIGRATED_LEGACY_FIELDS | curation_history.date->timestamp=2 |
| 2026-06-05T07:41:29.223479+00:00 | mim-legacy-to-chebi-migration-v1.0 | Refreshed legacy MediaIngredientMech links to CHEBI keying | Replaced 31 legacy mediaingredientmech_term link(s) with mediaingredientmech_chebi_term (id-safe: ingredient's own CHEBI + label). MIM deprecated the MediaIngredientMech:NNNNNN id scheme. |
| 2026-06-08T23:19:47.001714+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. |
| 2026-06-10T06:58:21.104957+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. |
| 2026-06-10T07:47:06.099532+00:00 | primary-term-label-canonicalization-v1.0 | Canonicalized primary term label to OBO canonical (OAK) | 6 primary term(s); ingredient name resolved by OAK sqlite:obo:chebi. |
| 2026-08-06T03:04:29.376073+00:00 | merge_recipes.py | MERGED_RECIPES | merged 1 source recipe(s) on fingerprint 802ce3da0901e1d39b2a37e055dc32317f51986a54a21bb9ab429366e0a07de0 |