Overview
- External ontology
- TOGO:M535 — Marichromatium Bheemlicum Medium
- Applications
-
- Microbial cultivation
- High-metal flag
- True
- Notes
- Source: https://togomedium.org/medium/M535 Original source: JCM - JCM_M533 Original URL: https://www.jcm.riken.jp/cgi-bin/jcm/jcm_grmd?GRMD=533
Composition
flowchart LR
CultureMech_009927["marichromatium_bheemlicum_medium"]
ing0_Ferric_citrate__0_1___w_v_["Ferric citrate (0.1%, w/v)"]
CultureMech_009927 --> ing0_Ferric_citrate__0_1___w_v_
ing1_Vitamin_B12__2_mg_ml_["Vitamin B12 (2 mg/ml)"]
CultureMech_009927 --> ing1_Vitamin_B12__2_mg_ml_
ing2_Distilled_water["Distilled water"]
CultureMech_009927 --> ing2_Distilled_water
CHEBI_15377["CHEBI:15377"]
ing2_Distilled_water -.-> CHEBI_15377
ing3_MgSO4_7H2O["MgSO4・7H2O"]
CultureMech_009927 --> ing3_MgSO4_7H2O
CHEBI_31795["CHEBI:31795"]
ing3_MgSO4_7H2O -.-> CHEBI_31795
ing4_Yeast_extract["Yeast extract"]
CultureMech_009927 --> ing4_Yeast_extract
ing5_NaCl["NaCl"]
CultureMech_009927 --> ing5_NaCl
CHEBI_26710["CHEBI:26710"]
ing5_NaCl -.-> CHEBI_26710
ing6_CaCl2_2H2O["CaCl2・2H2O"]
CultureMech_009927 --> ing6_CaCl2_2H2O
CHEBI_86158["CHEBI:86158"]
ing6_CaCl2_2H2O -.-> CHEBI_86158
ing7_KH2PO4["KH2PO4"]
CultureMech_009927 --> ing7_KH2PO4
CHEBI_63036["CHEBI:63036"]
ing7_KH2PO4 -.-> CHEBI_63036
ing8_NH4Cl["NH4Cl"]
CultureMech_009927 --> ing8_NH4Cl
CHEBI_31206["CHEBI:31206"]
ing8_NH4Cl -.-> CHEBI_31206
ing9_Sodium_pyruvate["Sodium pyruvate"]
CultureMech_009927 --> ing9_Sodium_pyruvate
CHEBI_50144["CHEBI:50144"]
ing9_Sodium_pyruvate -.-> CHEBI_50144
ing10_Na2S_9H2O__final_conc__["Na2S・9H2O (final conc.)"]
CultureMech_009927 --> ing10_Na2S_9H2O__final_conc__
ing11_HCl__25___v_v_["HCl (25%, v/v)"]
CultureMech_009927 --> ing11_HCl__25___v_v_
ing12_Na2MoO4_2H2O["Na2MoO4・2H2O"]
CultureMech_009927 --> ing12_Na2MoO4_2H2O
CHEBI_75213["CHEBI:75213"]
ing12_Na2MoO4_2H2O -.-> CHEBI_75213
ing13_H3BO3["H3BO3"]
CultureMech_009927 --> ing13_H3BO3
CHEBI_33118["CHEBI:33118"]
ing13_H3BO3 -.-> CHEBI_33118
ing14_MnCl2_4H2O["MnCl2・4H2O"]
CultureMech_009927 --> ing14_MnCl2_4H2O
CHEBI_86368["CHEBI:86368"]
ing14_MnCl2_4H2O -.-> CHEBI_86368
ing15_CoCl2_6H2O["CoCl2・6H2O"]
CultureMech_009927 --> ing15_CoCl2_6H2O
CHEBI_35696["CHEBI:35696"]
ing15_CoCl2_6H2O -.-> CHEBI_35696
ing16_NiCl2_6H2O["NiCl2・6H2O"]
CultureMech_009927 --> ing16_NiCl2_6H2O
CHEBI_34887["CHEBI:34887"]
ing16_NiCl2_6H2O -.-> CHEBI_34887
ing17_CuCl2_2H2O["CuCl2・2H2O"]
CultureMech_009927 --> ing17_CuCl2_2H2O
CHEBI_86318["CHEBI:86318"]
ing17_CuCl2_2H2O -.-> CHEBI_86318
ing18_ZnCl2["ZnCl2"]
CultureMech_009927 --> ing18_ZnCl2
CHEBI_49976["CHEBI:49976"]
ing18_ZnCl2 -.-> CHEBI_49976
Ingredients (19)
| # | 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 | Vitamin B12 (2 mg/ml) | 1 G_PER_L | Role: Vitamin; Properties: Defined component, Organic compound, Solution | |
| 3 |
Distilled water
H2O 18.015 g/mol
|
1.0 G_PER_L |
CHEBI:15377
water
|
Role: Solvating media; Properties: Inorganic compound, Defined component, Simple component [Collapsed 2 identical duplicates: 1.0, 1.0] |
| 4 |
MgSO4・7H2O
7H2O.Mg.O4S 246.473 g/mol
|
1 G_PER_L |
CHEBI:31795
magnesium sulfate heptahydrate
|
Role: Mineral source; Properties: Inorganic compound, Defined component, Simple component |
| 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: Inorganic compound, Defined component, Simple component |
| 7 |
CaCl2・2H2O
Ca.2Cl.2H2O 147.014 g/mol
|
0.15 G_PER_L |
CHEBI:86158
calcium chloride dihydrate
|
Role: Mineral source; Properties: Inorganic compound, Defined component, Simple component |
| 8 |
KH2PO4
H2O4P.K 136.084 g/mol
|
0.5 G_PER_L |
CHEBI:63036
potassium dihydrogen phosphate
|
Role: Buffer; Properties: Inorganic compound, Defined component, Simple component |
| 9 |
NH4Cl
Cl.H4N 53.492 g/mol
|
0.68 G_PER_L |
CHEBI:31206
ammonium chloride
|
Role: Nitrogen source; Properties: Inorganic compound, Defined component, Simple component |
| 10 |
Sodium pyruvate
C3H3O3.Na 110.044 g/mol
|
3 G_PER_L |
CHEBI:50144
sodium pyruvate
|
Role: Carbon source; Properties: Organic compound, Defined component, Simple component |
| 11 | Na2S・9H2O (final conc.) | 1 MILLIMOLAR | Role: Reducing agent; Properties: Inorganic compound, Defined component, Solution | |
| 12 | HCl (25%, v/v) | 1 G_PER_L | Role: Solvating media; Properties: Solution, Inorganic compound, Defined component | |
| 13 |
Na2MoO4・2H2O
2H2O.MoO4.2Na 241.946 g/mol
|
40 G_PER_L |
CHEBI:75213
sodium molybdate dihydrate
|
Role: Mineral source; Properties: Inorganic compound, Defined component, Simple component |
| 14 |
H3BO3
H3BO3 61.833 g/mol
|
60 G_PER_L |
CHEBI:33118
boric acid
|
Role: Mineral source; Properties: Inorganic compound, Defined component, Simple component |
| 15 |
MnCl2・4H2O
Cl2Mn.4H2O 197.904 g/mol
|
100 G_PER_L |
CHEBI:86368
manganese(II) chloride tetrahydrate
|
Role: Mineral source; Properties: Inorganic compound, Defined component, Simple component |
| 16 |
CoCl2・6H2O
2Cl.Co 129.839 g/mol
|
200 G_PER_L |
CHEBI:35696
cobalt dichloride
|
Role: Mineral source; Properties: Inorganic compound, Defined component, Simple component |
| 17 |
NiCl2・6H2O
Cl2Ni 129.599 g/mol
|
20 G_PER_L |
CHEBI:34887
nickel dichloride
|
Role: Mineral source; Properties: Inorganic compound, Defined component, Simple component |
| 18 |
CuCl2・2H2O
Cl2Cu.2H2O 170.482 g/mol
|
20 G_PER_L |
CHEBI:86318
copper(II) chloride dihydrate
|
Role: Mineral source; Properties: Inorganic compound, Defined component, Simple component |
| 19 |
ZnCl2
2Cl.Zn 136.296 g/mol
|
70 G_PER_L |
CHEBI:49976
zinc dichloride
|
Role: Mineral source; Properties: Inorganic compound, Defined component, Simple component |
Solutions
Micronutrient solution SL7 (see below)
Dose: 1 G_PER_L
Target organisms
No target organisms are recorded.
Provenance
| Timestamp | Curator | Action | Notes |
|---|---|---|---|
| 2026-01-27T06:35:55.245450Z | togo-import | Imported from TOGO Medium | Source: JCM, ID: M535 |
| 2026-01-28T19:48:16.345622Z | chebi-enrichment | Added CHEBI ontology terms to ingredients | Enriched using MicrobeMediaParam and MediaDive chemical mappings |
| 2026-03-09T08:04:26.979739+00:00 | solution-migrator-v1.0 | Migrated solutions from ingredients to solutions array | Moved 1 solution(s) from ingredients |
| 2026-03-13T03:08:55.653783Z | data-quality-cleanup-v1.0 | Data quality fixes | Merged 1 duplicate ingredient(s) |
| 2026-03-13T06:20:10.011081Z | culturemech-id-assigner-v1.0 | Assigned CultureMech ID | Assigned stable identifier: CultureMech:009927 |
| 2026-03-14T00:00:00+00:00 | schema-defaulter-v1.0 | Applied schema defaults and normalizations | Added default solution name |
| 2026-03-17T06:30:00.000000Z | mediaingredientmech-enrichment-v1.0 | Added MediaIngredientMech links | Linked ingredients to MediaIngredientMech identifiers |
| 2026-03-17T19:46:28.952236+00:00 | normalize_media_names_to_snake_case.py | NAME_NORMALIZED | Normalized name from "Marichromatium Bheemlicum Medium" to "marichromatium_bheemlicum_medium" for consistent matching |
| 2026-05-16T09:03:18.837817+00:00 | migrate_legacy_fields.py | MIGRATED_LEGACY_FIELDS | curation_history.date->timestamp=1 |
| 2026-06-05T07:40:42.268728+00:00 | mim-legacy-to-chebi-migration-v1.0 | Refreshed legacy MediaIngredientMech links to CHEBI keying | Replaced 7 legacy mediaingredientmech_term link(s) with mediaingredientmech_chebi_term (id-safe: ingredient's own CHEBI + label). MIM deprecated the MediaIngredientMech:NNNNNN id scheme. |
| 2026-06-10T06:57:31.249680+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. |
| 2026-06-10T07:46:50.905661+00:00 | primary-term-label-canonicalization-v1.0 | Canonicalized primary term label to OBO canonical (OAK) | 3 primary term(s); ingredient name resolved by OAK sqlite:obo:chebi. |
| 2026-09-02T07:37:50.373236+00:00 | repair_merged_duplicates.py | REPAIRED_SUMMED_DUPLICATE_MERGE | Collapsed 1 ingredient row(s) whose concentration was the SUM of identical duplicate values written by cleanup_media_quality.py. Every merged part was the same value, so the pre-merge value is unambiguous and no source lookup was needed. Rows whose merged parts differ were left untouched. |