Overview
- External ontology
- TOGO:M541 — Modified Synthrophomonas Medium
- Applications
-
- Microbial cultivation
- Notes
- Source: https://togomedium.org/medium/M541 Original source: JCM - JCM_M539 Original URL: https://www.jcm.riken.jp/cgi-bin/jcm/jcm_grmd?GRMD=539
Composition
flowchart LR
CultureMech_009934["modified_synthrophomonas_medium"]
ing0_Carbon_dioxide_gas["Carbon dioxide gas"]
CultureMech_009934 --> ing0_Carbon_dioxide_gas
CHEBI_16526["CHEBI:16526"]
ing0_Carbon_dioxide_gas -.-> CHEBI_16526
ing1_Nitrogen_gas["Nitrogen gas"]
CultureMech_009934 --> ing1_Nitrogen_gas
CHEBI_17997["CHEBI:17997"]
ing1_Nitrogen_gas -.-> CHEBI_17997
ing2_Distilled_water["Distilled water"]
CultureMech_009934 --> ing2_Distilled_water
CHEBI_15377["CHEBI:15377"]
ing2_Distilled_water -.-> CHEBI_15377
ing3_Yeast_extract["Yeast extract"]
CultureMech_009934 --> ing3_Yeast_extract
ing4_Resazurin["Resazurin"]
CultureMech_009934 --> ing4_Resazurin
CHEBI_8806["CHEBI:8806"]
ing4_Resazurin -.-> CHEBI_8806
ing5_Na2SO4["Na2SO4"]
CultureMech_009934 --> ing5_Na2SO4
CHEBI_32149["CHEBI:32149"]
ing5_Na2SO4 -.-> CHEBI_32149
ing6_Glucose["Glucose"]
CultureMech_009934 --> ing6_Glucose
CHEBI_17234["CHEBI:17234"]
ing6_Glucose -.-> CHEBI_17234
ing7_Peptone["Peptone"]
CultureMech_009934 --> ing7_Peptone
ing8_sodium_pyruvate["sodium pyruvate"]
CultureMech_009934 --> ing8_sodium_pyruvate
CHEBI_50144["CHEBI:50144"]
ing8_sodium_pyruvate -.-> CHEBI_50144
ing9_NaHCO3["NaHCO3"]
CultureMech_009934 --> ing9_NaHCO3
CHEBI_32139["CHEBI:32139"]
ing9_NaHCO3 -.-> CHEBI_32139
ing10_L__cysteine_HCl_H2O["L--cysteine・HCl・H2O"]
CultureMech_009934 --> ing10_L__cysteine_HCl_H2O
CHEBI_91248["CHEBI:91248"]
ing10_L__cysteine_HCl_H2O -.-> CHEBI_91248
ing11_N2["N2"]
CultureMech_009934 --> ing11_N2
ing11_N2 -.-> CHEBI_17997
ing12_Na2S_9H2O["Na2S・9H2O"]
CultureMech_009934 --> ing12_Na2S_9H2O
CHEBI_76209["CHEBI:76209"]
ing12_Na2S_9H2O -.-> CHEBI_76209
Ingredients (13)
| # | Ingredient | Concentration | Ontology | Notes |
|---|---|---|---|---|
| 1 |
Carbon dioxide gas
CO2 44.009 g/mol
|
variable VARIABLE |
CHEBI:16526
carbon dioxide
|
Properties: Gas |
| 2 |
Nitrogen gas
N2 28.014 g/mol
|
variable VARIABLE |
CHEBI:17997
dinitrogen
|
Properties: ガス |
| 3 |
Distilled water
H2O 18.015 g/mol
|
975.0 G_PER_L |
CHEBI:15377
water
|
Role: Solvating media; Properties: Simple component, Defined component, Inorganic compound [Merged 5 duplicates: 845.0, 10.0, 100.0, 10.0, 10.0] |
| 4 | Yeast extract | 1 G_PER_L | Role: Nutrient source; Properties: Undefined component | |
| 5 |
Resazurin
C12H7NO4 229.191 g/mol
|
1 G_PER_L |
CHEBI:8806
Resazurin
|
Role: pH dependent redox indicator; Properties: Simple component, Organic compound, Defined component |
| 6 |
Na2SO4
2Na.O4S 142.043 g/mol
|
2.8 G_PER_L |
CHEBI:32149
sodium sulfate
|
Role: Mineral source; Properties: Inorganic compound, Simple component, Defined component |
| 7 |
Glucose
C6H12O6 180.156 g/mol
|
20 MILLIMOLAR |
CHEBI:17234
glucose
|
Role: Carbon source; Properties: Simple component, Organic compound, Defined component |
| 8 | Peptone | 0.5 G_PER_L | ||
| 9 |
sodium pyruvate
C3H3O3.Na 110.044 g/mol
|
1.1 G_PER_L |
CHEBI:50144
sodium pyruvate
|
Role: Carbon source; Properties: Simple component, Organic compound, Defined component |
| 10 |
NaHCO3
CHO3.Na 84.006 g/mol
|
3.5 G_PER_L |
CHEBI:32139
sodium hydrogencarbonate
|
Role: Buffer; Properties: Defined component, Inorganic compound, Simple component |
| 11 |
L--cysteine・HCl・H2O
C3H7NO2S.H2O.HCl 175.637 g/mol
|
0.3 G_PER_L |
CHEBI:91248
L-cysteine hydrochloride hydrate
|
Properties: Defined component, Organic compound, Simple component |
| 12 |
N2
N2 28.014 g/mol
|
variable VARIABLE |
CHEBI:17997
dinitrogen
|
Properties: ガス |
| 13 |
Na2S・9H2O
9H2O.2Na.S 240.182 g/mol
|
0.3 G_PER_L |
CHEBI:76209
sodium sulfide nonahydrate
|
Role: Reducing agent; Properties: Defined component, Inorganic compound, Simple component |
Solutions
Solution A
Dose: 902 G_PER_L
See mediadive_5342_Solution_A.yaml for composition
sodium pyruvate solution
Dose: 10 G_PER_L
NaHCO3 solution
Dose: 100 G_PER_L
L--cysteine・HCl・H2O solution
Dose: 10 G_PER_L
Na2S・9H2O solution
Dose: 10 G_PER_L
Mineral solution (see Medium [M520])
Dose: 50 G_PER_L
Cross-reference to Medium M520
FeCl2 solution (see Medium [M180])
Dose: 1 G_PER_L
Cross-reference to Medium M180
Trace element solution (see Medium [M180])
Dose: 1 G_PER_L
Cross-reference to Medium M180
Vitamin solution (see Medium [M520])
Dose: 5 G_PER_L
Cross-reference to Medium M520
Target organisms
No target organisms are recorded.
Provenance
| Timestamp | Curator | Action | Notes |
|---|---|---|---|
| 2026-01-27T06:35:55.260406Z | togo-import | Imported from TOGO Medium | Source: JCM, ID: M541 |
| 2026-01-28T19:48:21.762506Z | 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; Added default concentration for ingredient: N2; Added default concentration for ingredient: N2 |
| 2026-03-09T08:04:36.370767+00:00 | solution-migrator-v1.0 | Migrated solutions from ingredients to solutions array | Moved 9 solution(s) from ingredients |
| 2026-03-13T03:09:05.768805Z | data-quality-cleanup-v1.0 | Data quality fixes | Merged 5 duplicate ingredient(s) |
| 2026-03-13T06:20:10.078264Z | culturemech-id-assigner-v1.0 | Assigned CultureMech ID | Assigned stable identifier: CultureMech:009934 |
| 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; Added default solution name; Added default solution name |
| 2026-03-17T06:30:11.000000Z | mediaingredientmech-enrichment-v1.0 | Added MediaIngredientMech links | Linked ingredients to MediaIngredientMech identifiers |
| 2026-03-17T19:46:29.013704+00:00 | normalize_media_names_to_snake_case.py | NAME_NORMALIZED | Normalized name from "Modified Synthrophomonas Medium" to "modified_synthrophomonas_medium" for consistent matching |
| 2026-05-16T09:03:18.899716+00:00 | migrate_legacy_fields.py | MIGRATED_LEGACY_FIELDS | curation_history.date->timestamp=2 |
| 2026-06-05T07:40:42.342039+00:00 | mim-legacy-to-chebi-migration-v1.0 | Refreshed legacy MediaIngredientMech links to CHEBI keying | Replaced 6 legacy mediaingredientmech_term link(s) with mediaingredientmech_chebi_term (id-safe: ingredient's own CHEBI + label). MIM deprecated the MediaIngredientMech:NNNNNN id scheme. |
| 2026-06-10T07:46:50.927342+00:00 | primary-term-label-canonicalization-v1.0 | Canonicalized primary term label to OBO canonical (OAK) | 1 primary term(s); ingredient name resolved by OAK sqlite:obo:chebi. |