Overview
- External ontology
- TOGO:M2061 — PYG Medium
- Applications
-
- Microbial cultivation
- Notes
- Source: https://togomedium.org/medium/M2061 Original source: NBRC - NBRC_M1363 Original URL: https://www.nite.go.jp/nbrc/catalogue/NBRCMediumDetailServlet?NO=1363
Composition
flowchart LR
CultureMech_008652["pyg_medium"]
ing0_Distilled_water["Distilled water"]
CultureMech_008652 --> ing0_Distilled_water
CHEBI_15377["CHEBI:15377"]
ing0_Distilled_water -.-> CHEBI_15377
ing1_K2HPO4["K2HPO4"]
CultureMech_008652 --> ing1_K2HPO4
CHEBI_131527["CHEBI:131527"]
ing1_K2HPO4 -.-> CHEBI_131527
ing2_Resazurin["Resazurin"]
CultureMech_008652 --> ing2_Resazurin
CHEBI_8806["CHEBI:8806"]
ing2_Resazurin -.-> CHEBI_8806
ing3_Tween_80["Tween 80"]
CultureMech_008652 --> ing3_Tween_80
CHEBI_53426["CHEBI:53426"]
ing3_Tween_80 -.-> CHEBI_53426
ing4_Glucose["Glucose"]
CultureMech_008652 --> ing4_Glucose
CHEBI_17234["CHEBI:17234"]
ing4_Glucose -.-> CHEBI_17234
ing5_Bacto_Yeast_Extract__Difco_["Bacto Yeast Extract (Difco)"]
CultureMech_008652 --> ing5_Bacto_Yeast_Extract__Difco_
ing6_Bacto_Tryptone__Difco_["Bacto Tryptone (Difco)"]
CultureMech_008652 --> ing6_Bacto_Tryptone__Difco_
ing7_Bacto_Peptone__Difco_["Bacto Peptone (Difco)"]
CultureMech_008652 --> ing7_Bacto_Peptone__Difco_
ing8_Cysteine_HCl_H2O["Cysteine-HCl·H2O"]
CultureMech_008652 --> ing8_Cysteine_HCl_H2O
CHEBI_91248["CHEBI:91248"]
ing8_Cysteine_HCl_H2O -.-> CHEBI_91248
ing9_Bacto_Beef_Extract__Difco_["Bacto Beef Extract (Difco)"]
CultureMech_008652 --> ing9_Bacto_Beef_Extract__Difco_
ing10_N2_gas["N2 gas"]
CultureMech_008652 --> ing10_N2_gas
ing11_MgSO4_7H2O["MgSO4·7H2O"]
CultureMech_008652 --> ing11_MgSO4_7H2O
CHEBI_31795["CHEBI:31795"]
ing11_MgSO4_7H2O -.-> CHEBI_31795
ing12_NaCl["NaCl"]
CultureMech_008652 --> ing12_NaCl
CHEBI_26710["CHEBI:26710"]
ing12_NaCl -.-> CHEBI_26710
ing13_CaCl2_2H2O["CaCl2·2H2O"]
CultureMech_008652 --> ing13_CaCl2_2H2O
CHEBI_86158["CHEBI:86158"]
ing13_CaCl2_2H2O -.-> CHEBI_86158
ing14_KH2PO4["KH2PO4"]
CultureMech_008652 --> ing14_KH2PO4
CHEBI_63036["CHEBI:63036"]
ing14_KH2PO4 -.-> CHEBI_63036
ing15_NaHCO3["NaHCO3"]
CultureMech_008652 --> ing15_NaHCO3
CHEBI_32139["CHEBI:32139"]
ing15_NaHCO3 -.-> CHEBI_32139
ing16_NaOH["NaOH"]
CultureMech_008652 --> ing16_NaOH
CHEBI_32145["CHEBI:32145"]
ing16_NaOH -.-> CHEBI_32145
ing17_hemin["hemin"]
CultureMech_008652 --> ing17_hemin
CHEBI_50385["CHEBI:50385"]
ing17_hemin -.-> CHEBI_50385
ing18_ethanol["ethanol"]
CultureMech_008652 --> ing18_ethanol
CHEBI_16236["CHEBI:16236"]
ing18_ethanol -.-> CHEBI_16236
ing19_menadione["menadione"]
CultureMech_008652 --> ing19_menadione
CHEBI_28869["CHEBI:28869"]
ing19_menadione -.-> CHEBI_28869
Ingredients (20)
| # | Ingredient | Concentration | Ontology | Notes |
|---|---|---|---|---|
| 1 |
Distilled water
H2O 18.015 g/mol
|
1139.0 G_PER_L |
CHEBI:15377
water
|
Role: Solvating media; Properties: Inorganic compound, Defined component, Simple component [Merged 4 duplicates: 940.0, 1.0, 99.0, 99.0] |
| 2 |
K2HPO4
HO4P.2K 174.174 g/mol
|
3.0 G_PER_L |
CHEBI:131527
dipotassium hydrogen phosphate
|
Role: Buffer; Properties: Inorganic compound, Defined component, Simple component [Merged 2 duplicates: 2.0, 1.0] |
| 3 |
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 |
| 4 |
Tween 80
(C2H4O)w.(C2H4O)x.(C2H4O)y.(C2H4O)z.C24H44O6 604.822 g/mol
|
1 G_PER_L |
CHEBI:53426
polysorbate 80
|
Role: Surfactant; Properties: Organic compound, Defined component, Simple component |
| 5 |
Glucose
C6H12O6 180.156 g/mol
|
5 G_PER_L |
CHEBI:17234
glucose
|
Role: Carbon source; Properties: Organic compound, Defined component, Simple component |
| 6 | Bacto Yeast Extract (Difco) | 10 G_PER_L | Properties: Undefined component | |
| 7 | Bacto Tryptone (Difco) | 5 G_PER_L | Properties: Undefined component | |
| 8 | Bacto Peptone (Difco) | 5 G_PER_L | Properties: Undefined component | |
| 9 |
Cysteine-HCl·H2O
C3H7NO2S.H2O.HCl 175.637 g/mol
|
0.5 G_PER_L |
CHEBI:91248
L-cysteine hydrochloride hydrate
|
Properties: Organic compound, Simple component, Defined component |
| 10 | Bacto Beef Extract (Difco) | 5 G_PER_L | Properties: Undefined component | |
| 11 | N2 gas | variable VARIABLE | Properties: Gas | |
| 12 |
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 |
| 13 |
NaCl
Cl.Na 58.443 g/mol
|
2 G_PER_L |
CHEBI:26710
sodium chloride
|
Role: Mineral source; Properties: Inorganic compound, Defined component, Simple component |
| 14 |
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 |
| 15 |
KH2PO4
H2O4P.K 136.084 g/mol
|
1 G_PER_L |
CHEBI:63036
potassium dihydrogen phosphate
|
Role: Buffer; Properties: Inorganic compound, Defined component, Simple component |
| 16 |
NaHCO3
CHO3.Na 84.006 g/mol
|
10 G_PER_L |
CHEBI:32139
sodium hydrogencarbonate
|
Role: Buffer; Properties: Inorganic compound, Defined component, Simple component |
| 17 |
NaOH
HO.Na 39.997 g/mol
|
1 G_PER_L |
CHEBI:32145
sodium hydroxide
|
Properties: Defined component, Inorganic compound, Solution |
| 18 |
hemin
C34H32ClFeN4O4 651.952 g/mol
|
50 G_PER_L |
CHEBI:50385
hemin
|
Role: Growth factor; Properties: Organic compound, Defined component, Simple component |
| 19 |
ethanol
C2H6O 46.069 g/mol
|
1 G_PER_L |
CHEBI:16236
ethanol
|
Role: Solvating media; Properties: Organic compound, Defined component, Simple component |
| 20 |
menadione
C11H8O2 172.183 g/mol
|
5 G_PER_L |
CHEBI:28869
menadione
|
Role: Vitamin; Properties: Organic compound, Defined component, Simple component |
Solutions
Salt solution*
Dose: 40 G_PER_L
See mediadive_6218_Salt_solution.yaml for composition
Hemin solution**
Dose: 10 G_PER_L
See mediadive_5229_Hemin_solution.yaml for composition
Menadione solution***
Dose: 10 G_PER_L
See mediadive_5549_Menadione_solution.yaml for composition
Target organisms
No target organisms are recorded.
Provenance
| Timestamp | Curator | Action | Notes |
|---|---|---|---|
| 2026-01-27T06:35:58.984000Z | togo-import | Imported from TOGO Medium | Source: NBRC, ID: M2061 |
| 2026-01-28T19:48:37.803495Z | 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 gas |
| 2026-03-09T08:05:03.139999+00:00 | solution-migrator-v1.0 | Migrated solutions from ingredients to solutions array | Moved 3 solution(s) from ingredients |
| 2026-03-13T03:09:35.035634Z | data-quality-cleanup-v1.0 | Data quality fixes | Merged 4 duplicate ingredient(s) |
| 2026-03-13T06:19:59.078495Z | culturemech-id-assigner-v1.0 | Assigned CultureMech ID | Assigned stable identifier: CultureMech:008652 |
| 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 |
| 2026-03-17T06:30:46.000000Z | mediaingredientmech-enrichment-v1.0 | Added MediaIngredientMech links | Linked ingredients to MediaIngredientMech identifiers |
| 2026-03-17T19:46:17.704199+00:00 | normalize_media_names_to_snake_case.py | NAME_NORMALIZED | Normalized name from "PYG Medium" to "pyg_medium" for consistent matching |
| 2026-05-16T09:04:29.791392+00:00 | migrate_legacy_fields.py | MIGRATED_LEGACY_FIELDS | curation_history.date->timestamp=2 |
| 2026-06-05T07:41:43.031082+00:00 | mim-legacy-to-chebi-migration-v1.0 | Refreshed legacy MediaIngredientMech links to CHEBI keying | Replaced 14 legacy mediaingredientmech_term link(s) with mediaingredientmech_chebi_term (id-safe: ingredient's own CHEBI + label). MIM deprecated the MediaIngredientMech:NNNNNN id scheme. |
| 2026-06-10T06:58:30.293226+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. |
| 2026-06-10T07:47:10.574666+00:00 | primary-term-label-canonicalization-v1.0 | Canonicalized primary term label to OBO canonical (OAK) | 2 primary term(s); ingredient name resolved by OAK sqlite:obo:chebi. |