Overview
- External ontology
- TOGO:M1225 — Orenia Metallireducens Medium
- Applications
-
- Microbial cultivation
- Notes
- Source: https://togomedium.org/medium/M1225 Original source: JCM - JCM_M1143 Original URL: https://www.jcm.riken.jp/cgi-bin/jcm/jcm_grmd?GRMD=1143
Composition
flowchart LR
CultureMech_007753["orenia_metallireducens_medium"]
ing0_Distilled_water["Distilled water"]
CultureMech_007753 --> ing0_Distilled_water
CHEBI_15377["CHEBI:15377"]
ing0_Distilled_water -.-> CHEBI_15377
ing1_Yeast_extract["Yeast extract"]
CultureMech_007753 --> ing1_Yeast_extract
ing2_NaCl["NaCl"]
CultureMech_007753 --> ing2_NaCl
CHEBI_26710["CHEBI:26710"]
ing2_NaCl -.-> CHEBI_26710
ing3_CaCl2_2H2O["CaCl2・2H2O"]
CultureMech_007753 --> ing3_CaCl2_2H2O
CHEBI_86158["CHEBI:86158"]
ing3_CaCl2_2H2O -.-> CHEBI_86158
ing4_KH2PO4["KH2PO4"]
CultureMech_007753 --> ing4_KH2PO4
CHEBI_63036["CHEBI:63036"]
ing4_KH2PO4 -.-> CHEBI_63036
ing5_NH4Cl["NH4Cl"]
CultureMech_007753 --> ing5_NH4Cl
CHEBI_31206["CHEBI:31206"]
ing5_NH4Cl -.-> CHEBI_31206
ing6_Resazurin["Resazurin"]
CultureMech_007753 --> ing6_Resazurin
CHEBI_8806["CHEBI:8806"]
ing6_Resazurin -.-> CHEBI_8806
ing7_MgCl2_6H2O["MgCl2・6H2O"]
CultureMech_007753 --> ing7_MgCl2_6H2O
CHEBI_86345["CHEBI:86345"]
ing7_MgCl2_6H2O -.-> CHEBI_86345
ing8_KCl["KCl"]
CultureMech_007753 --> ing8_KCl
CHEBI_32588["CHEBI:32588"]
ing8_KCl -.-> CHEBI_32588
ing9_KBr["KBr"]
CultureMech_007753 --> ing9_KBr
CHEBI_32030["CHEBI:32030"]
ing9_KBr -.-> CHEBI_32030
ing10_K2SO4["K2SO4"]
CultureMech_007753 --> ing10_K2SO4
CHEBI_32036["CHEBI:32036"]
ing10_K2SO4 -.-> CHEBI_32036
ing11_Phosphate_buffer__see_below_["Phosphate buffer (see below)"]
CultureMech_007753 --> ing11_Phosphate_buffer__see_below_
ing12_Carbon_dioxide_gas["Carbon dioxide gas"]
CultureMech_007753 --> ing12_Carbon_dioxide_gas
CHEBI_16526["CHEBI:16526"]
ing12_Carbon_dioxide_gas -.-> CHEBI_16526
ing13_Nitrogen_gas["Nitrogen gas"]
CultureMech_007753 --> ing13_Nitrogen_gas
CHEBI_17997["CHEBI:17997"]
ing13_Nitrogen_gas -.-> CHEBI_17997
ing14_NaHCO3["NaHCO3"]
CultureMech_007753 --> ing14_NaHCO3
CHEBI_32139["CHEBI:32139"]
ing14_NaHCO3 -.-> CHEBI_32139
ing15_L_Cysteine_HCl_H2O["L-Cysteine・HCl・H2O"]
CultureMech_007753 --> ing15_L_Cysteine_HCl_H2O
CHEBI_91248["CHEBI:91248"]
ing15_L_Cysteine_HCl_H2O -.-> CHEBI_91248
ing16_N2["N2"]
CultureMech_007753 --> ing16_N2
ing16_N2 -.-> CHEBI_17997
ing17_K2HPO4["K2HPO4"]
CultureMech_007753 --> ing17_K2HPO4
CHEBI_131527["CHEBI:131527"]
ing17_K2HPO4 -.-> CHEBI_131527
Ingredients (18)
| # | Ingredient | Concentration | Ontology | Notes |
|---|---|---|---|---|
| 1 |
Distilled water
H2O 18.015 g/mol
|
2.0 G_PER_L |
CHEBI:15377
water
|
Role: Solvating media; Properties: Inorganic compound, Defined component, Simple component [Merged 2 duplicates: 1.0, 1.0] |
| 2 | Yeast extract | 0.5 G_PER_L | Role: Nutrient source; Properties: Undefined component | |
| 3 |
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 |
| 4 |
CaCl2・2H2O
Ca.2Cl.2H2O 147.014 g/mol
|
0.05 G_PER_L |
CHEBI:86158
calcium chloride dihydrate
|
Role: Mineral source; Properties: Inorganic compound, Defined component, Simple component |
| 5 |
KH2PO4
H2O4P.K 136.084 g/mol
|
12.85 G_PER_L |
CHEBI:63036
potassium dihydrogen phosphate
|
Role: Buffer; Properties: Inorganic compound, Defined component, Simple component [Merged 2 duplicates: 0.35, 12.5] |
| 6 |
NH4Cl
Cl.H4N 53.492 g/mol
|
0.5 G_PER_L |
CHEBI:31206
ammonium chloride
|
Role: Nitrogen source; Properties: Inorganic compound, Defined component, Simple component |
| 7 |
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 |
| 8 |
MgCl2・6H2O
2Cl.6H2O.Mg 203.301 g/mol
|
1.5 G_PER_L |
CHEBI:86345
magnesium dichloride hexahydrate
|
Role: Mineral source; Properties: Inorganic compound, Defined component, Simple component |
| 9 |
KCl
Cl.K 74.551 g/mol
|
1 G_PER_L |
CHEBI:32588
potassium chloride
|
Role: Mineral source; Properties: Inorganic compound, Defined component, Simple component |
| 10 |
KBr
Br.K 119.002 g/mol
|
0.2 G_PER_L |
CHEBI:32030
potassium bromide
|
Role: Mineral source; Properties: Inorganic compound, Defined component, Simple component |
| 11 |
K2SO4
2K.O4S 174.259 g/mol
|
0.44 G_PER_L |
CHEBI:32036
potassium sulfate
|
Role: Mineral source; Properties: Inorganic compound, Defined component, Simple component |
| 12 | Phosphate buffer (see below) | 5 G_PER_L | ||
| 13 |
Carbon dioxide gas
CO2 44.009 g/mol
|
variable VARIABLE |
CHEBI:16526
carbon dioxide
|
Properties: ガス |
| 14 |
Nitrogen gas
N2 28.014 g/mol
|
variable VARIABLE |
CHEBI:17997
dinitrogen
|
Properties: ガス |
| 15 |
NaHCO3
CHO3.Na 84.006 g/mol
|
2 G_PER_L |
CHEBI:32139
sodium hydrogencarbonate
|
Role: Buffer; Properties: Inorganic compound, Defined component, Simple component |
| 16 |
L-Cysteine・HCl・H2O
C3H7NO2S.H2O.HCl 175.637 g/mol
|
0.031 G_PER_L |
CHEBI:91248
L-cysteine hydrochloride hydrate
|
Properties: Defined component, Organic compound, Simple component |
| 17 |
N2
N2 28.014 g/mol
|
variable VARIABLE |
CHEBI:17997
dinitrogen
|
Properties: ガス |
| 18 |
K2HPO4
HO4P.2K 174.174 g/mol
|
20 G_PER_L |
CHEBI:131527
dipotassium hydrogen phosphate
|
Role: Buffer; Properties: Inorganic compound, Defined component, Simple component |
Solutions
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
Trace vitamins (see Medium [M190])
Dose: 1 G_PER_L
Cross-reference to Medium M190
Selenite--tungstate solution (see Medium [M431])
Dose: 1 G_PER_L
Cross-reference to Medium M431
0.25 M Ferric citrate solution (pH 7.0)
Dose: 20 G_PER_L
Role: Mineral source; Properties: Solution, Organic compound, Defined component
1.88 M CaCl2・2H2O solution
Dose: 5 G_PER_L
Role: Mineral source; Properties: Defined component, Inorganic compound, Solution
1.0 M Glucose solution
Dose: 10 G_PER_L
Role: Carbon source; Properties: Defined component, Organic compound, Solution
5% Na2S・9H2O solution
Dose: 0.5 G_PER_L
Role: Reducing agent; Properties: Defined component, Inorganic compound, Solution
Target organisms
No target organisms are recorded.
Provenance
Merged from 1 source record.
- TOGO_M1225_Orenia_Metallireducens_Medium (CultureMech:007753)
| Timestamp | Curator | Action | Notes |
|---|---|---|---|
| 2026-01-27T06:35:54.166808Z | togo-import | Imported from TOGO Medium | Source: JCM, ID: M1225 |
| 2026-01-28T19:48:36.718542Z | 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 |
| 2026-03-09T08:05:01.299297+00:00 | solution-migrator-v1.0 | Migrated solutions from ingredients to solutions array | Moved 8 solution(s) from ingredients |
| 2026-03-13T03:09:33.152640Z | data-quality-cleanup-v1.0 | Data quality fixes | Merged 2 duplicate ingredient(s) |
| 2026-03-13T06:19:51.178158Z | culturemech-id-assigner-v1.0 | Assigned CultureMech ID | Assigned stable identifier: CultureMech:007753 |
| 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 |
| 2026-03-17T06:30:43.000000Z | mediaingredientmech-enrichment-v1.0 | Added MediaIngredientMech links | Linked ingredients to MediaIngredientMech identifiers |
| 2026-03-17T19:46:09.597380+00:00 | normalize_media_names_to_snake_case.py | NAME_NORMALIZED | Normalized name from "Orenia Metallireducens Medium" to "orenia_metallireducens_medium" for consistent matching |
| 2026-05-16T09:03:08.607324+00:00 | migrate_legacy_fields.py | MIGRATED_LEGACY_FIELDS | curation_history.date->timestamp=2 |
| 2026-06-05T07:40:31.499754+00:00 | mim-legacy-to-chebi-migration-v1.0 | Refreshed legacy MediaIngredientMech links to CHEBI keying | Replaced 10 legacy mediaingredientmech_term link(s) with mediaingredientmech_chebi_term (id-safe: ingredient's own CHEBI + label). MIM deprecated the MediaIngredientMech:NNNNNN id scheme. |
| 2026-06-10T07:46:47.283284+00:00 | primary-term-label-canonicalization-v1.0 | Canonicalized primary term label to OBO canonical (OAK) | 5 primary term(s); ingredient name resolved by OAK sqlite:obo:chebi. |
| 2026-08-06T03:05:06.887057+00:00 | merge_recipes.py | MERGED_RECIPES | merged 1 source recipe(s) on fingerprint 9beb40cb31ce41b4e51fa8f8ca9f962f83b4e63205cdca34cb120598bceac374 |