Overview
- External ontology
- TOGO:M565 — Thiorhodococcus Bheemlicum Medium
- Applications
-
- Microbial cultivation
- Notes
- Source: https://togomedium.org/medium/M565 Original source: JCM - JCM_M561 Original URL: https://www.jcm.riken.jp/cgi-bin/jcm/jcm_grmd?GRMD=561
Composition
flowchart LR
CultureMech_009960["thiorhodococcus_bheemlicum_medium"]
ing0_Ferric_citrate__0_1___w_v_["Ferric citrate (0.1%, w/v)"]
CultureMech_009960 --> ing0_Ferric_citrate__0_1___w_v_
ing1_NaHCO3__10___w_v_["NaHCO3 (10%, w/v)"]
CultureMech_009960 --> ing1_NaHCO3__10___w_v_
ing2_Distilled_water["Distilled water"]
CultureMech_009960 --> ing2_Distilled_water
CHEBI_15377["CHEBI:15377"]
ing2_Distilled_water -.-> CHEBI_15377
ing3_MgSO4_7H2O["MgSO4・7H2O"]
CultureMech_009960 --> ing3_MgSO4_7H2O
CHEBI_31795["CHEBI:31795"]
ing3_MgSO4_7H2O -.-> CHEBI_31795
ing4_Yeast_extract["Yeast extract"]
CultureMech_009960 --> ing4_Yeast_extract
ing5_NaCl["NaCl"]
CultureMech_009960 --> ing5_NaCl
CHEBI_26710["CHEBI:26710"]
ing5_NaCl -.-> CHEBI_26710
ing6_CaCl2_2H2O["CaCl2・2H2O"]
CultureMech_009960 --> ing6_CaCl2_2H2O
CHEBI_86158["CHEBI:86158"]
ing6_CaCl2_2H2O -.-> CHEBI_86158
ing7_KH2PO4["KH2PO4"]
CultureMech_009960 --> ing7_KH2PO4
CHEBI_63036["CHEBI:63036"]
ing7_KH2PO4 -.-> CHEBI_63036
ing8_NH4Cl["NH4Cl"]
CultureMech_009960 --> ing8_NH4Cl
CHEBI_31206["CHEBI:31206"]
ing8_NH4Cl -.-> CHEBI_31206
ing9_Na2S_9H2O["Na2S・9H2O"]
CultureMech_009960 --> ing9_Na2S_9H2O
CHEBI_76209["CHEBI:76209"]
ing9_Na2S_9H2O -.-> CHEBI_76209
ing10_Sodium_pyruvate["Sodium pyruvate"]
CultureMech_009960 --> ing10_Sodium_pyruvate
CHEBI_50144["CHEBI:50144"]
ing10_Sodium_pyruvate -.-> CHEBI_50144
ing11_Na2S2O3_5H2O["Na2S2O3・5H2O"]
CultureMech_009960 --> ing11_Na2S2O3_5H2O
CHEBI_32150["CHEBI:32150"]
ing11_Na2S2O3_5H2O -.-> CHEBI_32150
Ingredients (12)
| # | Ingredient | Concentration | Ontology | Notes |
|---|---|---|---|---|
| 1 | Ferric citrate (0.1%, w/v) | 5 G_PER_L | Role: Mineral source; Properties: Defined component, Organic compound, Solution | |
| 2 | NaHCO3 (10%, w/v) | 15 G_PER_L | Role: Buffer; Properties: Inorganic compound, Solution, Defined component | |
| 3 |
Distilled water
H2O 18.015 g/mol
|
1 G_PER_L |
CHEBI:15377
water
|
Role: Solvating media; Properties: Simple component, Inorganic compound, Defined component |
| 4 |
MgSO4・7H2O
7H2O.Mg.O4S 246.473 g/mol
|
2 G_PER_L |
CHEBI:31795
magnesium sulfate heptahydrate
|
Role: Mineral source; Properties: Defined component, Simple component, Inorganic compound |
| 5 | Yeast extract | 0.4 G_PER_L | Role: Nutrient source; Properties: Undefined component | |
| 6 |
NaCl
Cl.Na 58.443 g/mol
|
20 G_PER_L |
CHEBI:26710
sodium chloride
|
Role: Mineral source; Properties: Defined component, Simple component, Inorganic compound |
| 7 |
CaCl2・2H2O
Ca.2Cl.2H2O 147.014 g/mol
|
0.15 G_PER_L |
CHEBI:86158
calcium chloride dihydrate
|
Role: Mineral source; Properties: Simple component, Inorganic compound, Defined component |
| 8 |
KH2PO4
H2O4P.K 136.084 g/mol
|
0.5 G_PER_L |
CHEBI:63036
potassium dihydrogen phosphate
|
Role: Buffer; Properties: Defined component, Simple component, Inorganic compound |
| 9 |
NH4Cl
Cl.H4N 53.492 g/mol
|
0.34 G_PER_L |
CHEBI:31206
ammonium chloride
|
Role: Nitrogen source; Properties: Inorganic compound, Simple component, Defined component |
| 10 |
Na2S・9H2O
9H2O.2Na.S 240.182 g/mol
|
1 MILLIMOLAR |
CHEBI:76209
sodium sulfide nonahydrate
|
Role: Reducing agent; Properties: Simple component, Inorganic compound, Defined component |
| 11 |
Sodium pyruvate
C3H3O3.Na 110.044 g/mol
|
3 G_PER_L |
CHEBI:50144
sodium pyruvate
|
Role: Carbon source; Properties: Defined component, Organic compound, Simple component |
| 12 |
Na2S2O3・5H2O
5H2O.2Na.O3S2 248.186 g/mol
|
6 MILLIMOLAR |
CHEBI:32150
sodium thiosulfate pentahydrate
|
Properties: Defined component, Inorganic compound, Simple component |
Solutions
Micronutrient solution SL7 (see Medium [M535])
Dose: 1 G_PER_L
Cross-reference to Medium M535
Target organisms
No target organisms are recorded.
Provenance
| Timestamp | Curator | Action | Notes |
|---|---|---|---|
| 2026-01-27T06:35:55.313984Z | togo-import | Imported from TOGO Medium | Source: JCM, ID: M565 |
| 2026-01-28T19:48:08.653180Z | chebi-enrichment | Added CHEBI ontology terms to ingredients | Enriched using MicrobeMediaParam and MediaDive chemical mappings |
| 2026-03-09T08:04:13.962472+00:00 | solution-migrator-v1.0 | Migrated solutions from ingredients to solutions array | Moved 1 solution(s) from ingredients |
| 2026-03-13T06:20:10.317258Z | culturemech-id-assigner-v1.0 | Assigned CultureMech ID | Assigned stable identifier: CultureMech:009960 |
| 2026-03-14T00:00:00+00:00 | schema-defaulter-v1.0 | Applied schema defaults and normalizations | Added default solution name |
| 2026-03-17T06:29:43.000000Z | mediaingredientmech-enrichment-v1.0 | Added MediaIngredientMech links | Linked ingredients to MediaIngredientMech identifiers |
| 2026-03-17T19:46:29.247924+00:00 | normalize_media_names_to_snake_case.py | NAME_NORMALIZED | Normalized name from "Thiorhodococcus Bheemlicum Medium" to "thiorhodococcus_bheemlicum_medium" for consistent matching |
| 2026-05-16T09:03:19.145953+00:00 | migrate_legacy_fields.py | MIGRATED_LEGACY_FIELDS | curation_history.date->timestamp=1 |
| 2026-06-05T07:40:42.598497+00:00 | mim-legacy-to-chebi-migration-v1.0 | Refreshed legacy MediaIngredientMech links to CHEBI keying | Replaced 5 legacy mediaingredientmech_term link(s) with mediaingredientmech_chebi_term (id-safe: ingredient's own CHEBI + label). MIM deprecated the MediaIngredientMech:NNNNNN id scheme. |
| 2026-06-10T06:57:31.503286+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. |
| 2026-06-10T07:46:51.029267+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. |
| 2026-09-13T00:00:00-07:00 | repair_jcm_parent_wrapper_backlinks.py | ADDED_JCM_PARENT_WRAPPER_BACKLINKS | Mirrored curated JCM wrapper parent_media links on the parent record. |