Overview
- External ontology
- TOGO:M260 — MJ/YPGS Medium
- Applications
-
- Microbial cultivation
- Notes
- Source: https://togomedium.org/medium/M260 Original source: JCM - JCM_M268 Original URL: https://www.jcm.riken.jp/cgi-bin/jcm/jcm_grmd?GRMD=268
Composition
flowchart LR
CultureMech_009177["mj_ypgs_medium"]
ing0_Distilled_water["Distilled water"]
CultureMech_009177 --> ing0_Distilled_water
CHEBI_15377["CHEBI:15377"]
ing0_Distilled_water -.-> CHEBI_15377
ing1_Sodium_succinate["Sodium succinate"]
CultureMech_009177 --> ing1_Sodium_succinate
CHEBI_63675["CHEBI:63675"]
ing1_Sodium_succinate -.-> CHEBI_63675
ing2_Na2SiO3_9H2O["Na2SiO3・9H2O"]
CultureMech_009177 --> ing2_Na2SiO3_9H2O
CHEBI_132108["CHEBI:132108"]
ing2_Na2SiO3_9H2O -.-> CHEBI_132108
ing3_Glucose["Glucose"]
CultureMech_009177 --> ing3_Glucose
CHEBI_17234["CHEBI:17234"]
ing3_Glucose -.-> CHEBI_17234
ing4_Yeast_extract__BD_Difco_["Yeast extract (BD-Difco)"]
CultureMech_009177 --> ing4_Yeast_extract__BD_Difco_
ing5_Na2S2O3_5H2O["Na2S2O3・5H2O"]
CultureMech_009177 --> ing5_Na2S2O3_5H2O
CHEBI_32150["CHEBI:32150"]
ing5_Na2S2O3_5H2O -.-> CHEBI_32150
ing6_Bacto_peptone__BD_Difco_["Bacto peptone (BD-Difco)"]
CultureMech_009177 --> ing6_Bacto_peptone__BD_Difco_
ing7_MJ__N__synthetic_seawater__see_below_["MJ(-N) synthetic seawater (see below)"]
CultureMech_009177 --> ing7_MJ__N__synthetic_seawater__see_below_
ing8_MgSO4_7H2O["MgSO4・7H2O"]
CultureMech_009177 --> ing8_MgSO4_7H2O
CHEBI_31795["CHEBI:31795"]
ing8_MgSO4_7H2O -.-> CHEBI_31795
ing9_NaCl["NaCl"]
CultureMech_009177 --> ing9_NaCl
CHEBI_26710["CHEBI:26710"]
ing9_NaCl -.-> CHEBI_26710
ing10_CaCl2_2H2O["CaCl2・2H2O"]
CultureMech_009177 --> ing10_CaCl2_2H2O
CHEBI_86158["CHEBI:86158"]
ing10_CaCl2_2H2O -.-> CHEBI_86158
ing11_K2HPO4["K2HPO4"]
CultureMech_009177 --> ing11_K2HPO4
CHEBI_131527["CHEBI:131527"]
ing11_K2HPO4 -.-> CHEBI_131527
ing12_MgCl2_6H2O["MgCl2・6H2O"]
CultureMech_009177 --> ing12_MgCl2_6H2O
CHEBI_86345["CHEBI:86345"]
ing12_MgCl2_6H2O -.-> CHEBI_86345
ing13_KCl["KCl"]
CultureMech_009177 --> ing13_KCl
CHEBI_32588["CHEBI:32588"]
ing13_KCl -.-> CHEBI_32588
ing14_NiCl2_6H2O["NiCl2・6H2O"]
CultureMech_009177 --> ing14_NiCl2_6H2O
CHEBI_34887["CHEBI:34887"]
ing14_NiCl2_6H2O -.-> CHEBI_34887
ing15_Na2SeO3_5H2O["Na2SeO3・5H2O"]
CultureMech_009177 --> ing15_Na2SeO3_5H2O
CHEBI_131361["CHEBI:131361"]
ing15_Na2SeO3_5H2O -.-> CHEBI_131361
ing16_Fe_NH4_2_SO4_2_6H2O["Fe(NH4)2(SO4)2・6H2O"]
CultureMech_009177 --> ing16_Fe_NH4_2_SO4_2_6H2O
CHEBI_76181["CHEBI:76181"]
ing16_Fe_NH4_2_SO4_2_6H2O -.-> CHEBI_76181
Ingredients (17)
| # | Ingredient | Concentration | Ontology | Notes |
|---|---|---|---|---|
| 1 |
Distilled water
H2O 18.015 g/mol
|
901.0 G_PER_L |
CHEBI:15377
water
|
Role: Solvating media; Properties: Inorganic compound, Defined component, Simple component [Merged 2 duplicates: 900.0, 1.0] |
| 2 |
Sodium succinate
C4H4O4.2Na 162.052 g/mol
|
0.2 G_PER_L |
CHEBI:63675
sodium succinate (anhydrous)
|
Role: Growth factor; Properties: Organic compound, Defined component, Simple component |
| 3 |
Na2SiO3・9H2O
9H2O.2Na.O3Si 284.198 g/mol
|
1 G_PER_L |
CHEBI:132108
sodium silicate nonahydrate
|
Role: Mineral source; Properties: Inorganic compound, Defined component, Simple component |
| 4 |
Glucose
C6H12O6 180.156 g/mol
|
0.2 G_PER_L |
CHEBI:17234
glucose
|
Role: Carbon source; Properties: Organic compound, Defined component, Simple component |
| 5 | Yeast extract (BD-Difco) | 1 G_PER_L | Properties: Undefined component | |
| 6 |
Na2S2O3・5H2O
5H2O.2Na.O3S2 248.186 g/mol
|
2.48 G_PER_L |
CHEBI:32150
sodium thiosulfate pentahydrate
|
Properties: Inorganic compound, Simple component, Defined component |
| 7 | Bacto peptone (BD-Difco) | 1 G_PER_L | Properties: Undefined component | |
| 8 | MJ(-N) synthetic seawater (see below) | 100 G_PER_L | ||
| 9 |
MgSO4・7H2O
7H2O.Mg.O4S 246.473 g/mol
|
3.4 G_PER_L |
CHEBI:31795
magnesium sulfate heptahydrate
|
Role: Mineral source; Properties: Inorganic compound, Defined component, Simple component |
| 10 |
NaCl
Cl.Na 58.443 g/mol
|
30 G_PER_L |
CHEBI:26710
sodium chloride
|
Role: Mineral source; Properties: Inorganic compound, Defined component, Simple component |
| 11 |
CaCl2・2H2O
Ca.2Cl.2H2O 147.014 g/mol
|
0.14 G_PER_L |
CHEBI:86158
calcium chloride dihydrate
|
Role: Mineral source; Properties: Inorganic compound, Defined component, Simple component |
| 12 |
K2HPO4
HO4P.2K 174.174 g/mol
|
0.14 G_PER_L |
CHEBI:131527
dipotassium hydrogen phosphate
|
Role: Buffer; Properties: Inorganic compound, Defined component, Simple component |
| 13 |
MgCl2・6H2O
2Cl.6H2O.Mg 203.301 g/mol
|
4.18 G_PER_L |
CHEBI:86345
magnesium dichloride hexahydrate
|
Role: Mineral source; Properties: Inorganic compound, Defined component, Simple component |
| 14 |
KCl
Cl.K 74.551 g/mol
|
0.33 G_PER_L |
CHEBI:32588
potassium chloride
|
Role: Mineral source; Properties: Inorganic compound, Defined component, Simple component |
| 15 |
NiCl2・6H2O
Cl2Ni 129.599 g/mol
|
0.5 G_PER_L |
CHEBI:34887
nickel dichloride
|
Role: Mineral source; Properties: Inorganic compound, Defined component, Simple component |
| 16 |
Na2SeO3・5H2O
5H2O.2Na.O3Se 263.012 g/mol
|
0.5 G_PER_L |
CHEBI:131361
disodium selenite pentahydrate
|
Role: Mineral source; Properties: Inorganic compound, Defined component, Simple component |
| 17 |
Fe(NH4)2(SO4)2・6H2O
Fe.6H2O.2H4N.2O4S 392.139 g/mol
|
0.01 G_PER_L |
CHEBI:76181
ferrous ammonium sulfate hexahydrate
|
Role: Mineral source; Properties: Inorganic compound, Defined component, Simple component |
Solutions
Trace minerals (see Medium [M142])
Dose: 10 G_PER_L
Cross-reference to Medium M142
Target organisms
No target organisms are recorded.
Provenance
Merged from 1 source record.
- TOGO_M260_MJ_YPGS_Medium (CultureMech:009177)
| Timestamp | Curator | Action | Notes |
|---|---|---|---|
| 2026-01-27T06:35:54.720054Z | togo-import | Imported from TOGO Medium | Source: JCM, ID: M260 |
| 2026-01-28T19:48:20.097996Z | chebi-enrichment | Added CHEBI ontology terms to ingredients | Enriched using MicrobeMediaParam and MediaDive chemical mappings |
| 2026-03-09T08:04:33.342402+00:00 | solution-migrator-v1.0 | Migrated solutions from ingredients to solutions array | Moved 1 solution(s) from ingredients |
| 2026-03-13T03:09:02.759348Z | data-quality-cleanup-v1.0 | Data quality fixes | Merged 1 duplicate ingredient(s) |
| 2026-03-13T06:20:03.668112Z | culturemech-id-assigner-v1.0 | Assigned CultureMech ID | Assigned stable identifier: CultureMech:009177 |
| 2026-03-14T00:00:00+00:00 | schema-defaulter-v1.0 | Applied schema defaults and normalizations | Added default solution name |
| 2026-03-17T06:30:08.000000Z | mediaingredientmech-enrichment-v1.0 | Added MediaIngredientMech links | Linked ingredients to MediaIngredientMech identifiers |
| 2026-03-17T19:46:22.398497+00:00 | normalize_media_names_to_snake_case.py | NAME_NORMALIZED | Normalized name from "MJ/YPGS Medium" to "mj_ypgs_medium" for consistent matching |
| 2026-05-16T09:03:14.633545+00:00 | migrate_legacy_fields.py | MIGRATED_LEGACY_FIELDS | curation_history.date->timestamp=1 |
| 2026-06-05T07:40:37.905913+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. |
| 2026-06-10T06:57:27.526236+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. |
| 2026-06-10T07:46:49.408380+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. |
| 2026-08-06T03:05:12.830748+00:00 | merge_recipes.py | MERGED_RECIPES | merged 1 source recipe(s) on fingerprint f0cc0587c26f2d755a2795f8b1a5bb35720bdf9c313c1cf071358eec87752224 |