clostridium_r6_medium

CultureMech:010053 bacterial COMPLEX LIQUID
Original name: Clostridium R6 Medium

Overview

External ontology
TOGO:M651 — Clostridium R6 Medium
Applications
  • Microbial cultivation
Notes
Source: https://togomedium.org/medium/M651 Original source: JCM - JCM_M637 Original URL: https://www.jcm.riken.jp/cgi-bin/jcm/jcm_grmd?GRMD=637

Composition

flowchart LR
    CultureMech_010053["clostridium_r6_medium"]
    ing0_Na2S_9H2O["Na2S・9H2O"]
    CultureMech_010053 --> ing0_Na2S_9H2O
    CHEBI_76209["CHEBI:76209"]
    ing0_Na2S_9H2O -.-> CHEBI_76209
    ing1_L__cysteine_HCl_H2O["L--cysteine・HCl・H2O"]
    CultureMech_010053 --> ing1_L__cysteine_HCl_H2O
    CHEBI_91248["CHEBI:91248"]
    ing1_L__cysteine_HCl_H2O -.-> CHEBI_91248
    ing2_Carbon_dioxide_gas["Carbon dioxide gas"]
    CultureMech_010053 --> ing2_Carbon_dioxide_gas
    CHEBI_16526["CHEBI:16526"]
    ing2_Carbon_dioxide_gas -.-> CHEBI_16526
    ing3_N2["N2"]
    CultureMech_010053 --> ing3_N2
    CHEBI_17997["CHEBI:17997"]
    ing3_N2 -.-> CHEBI_17997
    ing4_Hydrogen_gas["Hydrogen gas"]
    CultureMech_010053 --> ing4_Hydrogen_gas
    CHEBI_18276["CHEBI:18276"]
    ing4_Hydrogen_gas -.-> CHEBI_18276
    ing5_Distilled_water["Distilled water"]
    CultureMech_010053 --> ing5_Distilled_water
    CHEBI_15377["CHEBI:15377"]
    ing5_Distilled_water -.-> CHEBI_15377
    ing6_KH2PO4["KH2PO4"]
    CultureMech_010053 --> ing6_KH2PO4
    CHEBI_63036["CHEBI:63036"]
    ing6_KH2PO4 -.-> CHEBI_63036
    ing7_Resazurin["Resazurin"]
    CultureMech_010053 --> ing7_Resazurin
    CHEBI_8806["CHEBI:8806"]
    ing7_Resazurin -.-> CHEBI_8806
    ing8_Na2HPO4["Na2HPO4"]
    CultureMech_010053 --> ing8_Na2HPO4
    CHEBI_34683["CHEBI:34683"]
    ing8_Na2HPO4 -.-> CHEBI_34683
    ing9_Yeast_extract__BD_Difco_["Yeast extract (BD-Difco)"]
    CultureMech_010053 --> ing9_Yeast_extract__BD_Difco_
    ing10_Tryptone__BD_Difco_["Tryptone (BD-Difco)"]
    CultureMech_010053 --> ing10_Tryptone__BD_Difco_
    ing11_NaCl["NaCl"]
    CultureMech_010053 --> ing11_NaCl
    CHEBI_26710["CHEBI:26710"]
    ing11_NaCl -.-> CHEBI_26710
    ing12_CaCl2_2H2O["CaCl2・2H2O"]
    CultureMech_010053 --> ing12_CaCl2_2H2O
    CHEBI_86158["CHEBI:86158"]
    ing12_CaCl2_2H2O -.-> CHEBI_86158
    ing13_NH4Cl["NH4Cl"]
    CultureMech_010053 --> ing13_NH4Cl
    CHEBI_31206["CHEBI:31206"]
    ing13_NH4Cl -.-> CHEBI_31206
    ing14_MgCl2_6H2O["MgCl2・6H2O"]
    CultureMech_010053 --> ing14_MgCl2_6H2O
    CHEBI_86345["CHEBI:86345"]
    ing14_MgCl2_6H2O -.-> CHEBI_86345

Ingredients (15)

# Ingredient Concentration Ontology Notes
1 Na2S・9H2O
9H2O.2Na.S 240.182 g/mol
variable VARIABLE CHEBI:76209
sodium sulfide nonahydrate
 Role: Reducing agent; Properties: Defined component, Inorganic compound, Solution
2 L--cysteine・HCl・H2O
C3H7NO2S.H2O.HCl 175.637 g/mol
variable VARIABLE CHEBI:91248
L-cysteine hydrochloride hydrate
 Properties: Defined component, Organic compound, Solution
3 Carbon dioxide gas
CO2 44.009 g/mol
variable VARIABLE CHEBI:16526
carbon dioxide
 Properties: ガス
4 N2
N2 28.014 g/mol
variable VARIABLE CHEBI:17997
dinitrogen
 Properties: ガス
5 Hydrogen gas
H2 2.016 g/mol
variable VARIABLE CHEBI:18276
dihydrogen
 Properties: ガス
6 Distilled water
H2O 18.015 g/mol
960.0 G_PER_L CHEBI:15377
water
 Role: Solvating media; Properties: Defined component, Inorganic compound, Simple component [Merged 2 duplicates: 860.0, 100.0]
7 KH2PO4
H2O4P.K 136.084 g/mol
0.54 G_PER_L CHEBI:63036
potassium dihydrogen phosphate
 Role: Buffer; Properties: Simple component, Defined component, Inorganic compound
8 Resazurin
C12H7NO4 229.191 g/mol
1 G_PER_L CHEBI:8806
Resazurin
 Role: pH dependent redox indicator; Properties: Defined component, Simple component, Organic compound
9 Na2HPO4
HO4P.2Na 141.958 g/mol
1.34 G_PER_L CHEBI:34683
disodium hydrogenphosphate
 Role: Buffer; Properties: Defined component, Inorganic compound, Simple component
10 Yeast extract (BD-Difco) 3 G_PER_L Properties: Undefined component
11 Tryptone (BD-Difco) 0.5 G_PER_L Properties: Undefined component
12 NaCl
Cl.Na 58.443 g/mol
0.19 G_PER_L CHEBI:26710
sodium chloride
 Role: Mineral source; Properties: Inorganic compound, Simple component, Defined component
13 CaCl2・2H2O
Ca.2Cl.2H2O 147.014 g/mol
0.006 G_PER_L CHEBI:86158
calcium chloride dihydrate
 Role: Mineral source; Properties: Defined component, Simple component, Inorganic compound
14 NH4Cl
Cl.H4N 53.492 g/mol
0.19 G_PER_L CHEBI:31206
ammonium chloride
 Role: Nitrogen source; Properties: Simple component, Inorganic compound, Defined component
15 MgCl2・6H2O
2Cl.6H2O.Mg 203.301 g/mol
0.063 G_PER_L CHEBI:86345
magnesium dichloride hexahydrate
 Role: Mineral source; Properties: Defined component, Simple component, Inorganic compound

Solutions

Solution A

Dose: 860 G_PER_L

See mediadive_5342_Solution_A.yaml for composition

Solution B

Dose: 102 G_PER_L

See mediadive_5343_Solution_B.yaml for composition

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

8% NaHCO3 solution

Dose: 30 G_PER_L

Role: Buffer; Properties: Defined component, Inorganic compound, Solution

Trace vitamins (see Medium [M190])

Dose: 10 G_PER_L

Cross-reference to Medium M190

Target organisms

No target organisms are recorded.

Provenance

TimestampCuratorActionNotes
2026-01-27T06:35:55.467863Z togo-import Imported from TOGO Medium Source: JCM, ID: M651
2026-01-28T19:48:27.469764Z 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: Na2S・9H2O; Added default concentration for ingredient: L--cysteine・HCl・H2O; Added default concentration for ingredient: Carbon dioxide gas; Added default concentration for ingredient: N2; Added default concentration for ingredient: Hydrogen gas
2026-03-09T08:04:45.497248+00:00 solution-migrator-v1.0 Migrated solutions from ingredients to solutions array Moved 6 solution(s) from ingredients
2026-03-13T03:09:15.961763Z data-quality-cleanup-v1.0 Data quality fixes Merged 1 duplicate ingredient(s)
2026-03-13T06:20:10.982833Z culturemech-id-assigner-v1.0 Assigned CultureMech ID Assigned stable identifier: CultureMech:010053
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
2026-03-17T06:30:23.000000Z mediaingredientmech-enrichment-v1.0 Added MediaIngredientMech links Linked ingredients to MediaIngredientMech identifiers
2026-03-17T19:46:29.910830+00:00 normalize_media_names_to_snake_case.py NAME_NORMALIZED Normalized name from "Clostridium R6 Medium" to "clostridium_r6_medium" for consistent matching
2026-05-16T09:03:19.787512+00:00 migrate_legacy_fields.py MIGRATED_LEGACY_FIELDS curation_history.date->timestamp=2
2026-06-05T07:40:43.283091+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.
2026-06-10T07:46:51.248790+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.