rhodobium_gokurnum_medium

CultureMech:009908 bacterial COMPLEX LIQUID
Original name: Rhodobium Gokurnum Medium

Overview

External ontology
TOGO:M517 — Rhodobium Gokurnum Medium
Applications
  • Microbial cultivation
Synonyms
  • {'name': 'rhodobacter_sphaeroides_medium', 'source': 'TOGO', 'source_id': 'TOGO:M585', 'original_category': 'bacterial'}
High-metal flag
True
Notes
Source: https://togomedium.org/medium/M517 Original source: JCM - JCM_M516 Original URL: https://www.jcm.riken.jp/cgi-bin/jcm/jcm_grmd?GRMD=516

Composition

flowchart LR
    CultureMech_009908["rhodobium_gokurnum_medium"]
    ing0_Distilled_water["Distilled water"]
    CultureMech_009908 --> ing0_Distilled_water
    CHEBI_15377["CHEBI:15377"]
    ing0_Distilled_water -.-> CHEBI_15377
    ing1_Yeast_extract["Yeast extract"]
    CultureMech_009908 --> ing1_Yeast_extract
    ing2_NaCl["NaCl"]
    CultureMech_009908 --> ing2_NaCl
    CHEBI_26710["CHEBI:26710"]
    ing2_NaCl -.-> CHEBI_26710
    ing3_CaCl2_2H2O["CaCl2・2H2O"]
    CultureMech_009908 --> ing3_CaCl2_2H2O
    CHEBI_86158["CHEBI:86158"]
    ing3_CaCl2_2H2O -.-> CHEBI_86158
    ing4_KH2PO4["KH2PO4"]
    CultureMech_009908 --> ing4_KH2PO4
    CHEBI_63036["CHEBI:63036"]
    ing4_KH2PO4 -.-> CHEBI_63036
    ing5_NH4Cl["NH4Cl"]
    CultureMech_009908 --> ing5_NH4Cl
    CHEBI_31206["CHEBI:31206"]
    ing5_NH4Cl -.-> CHEBI_31206
    ing6_MgCl2_6H2O["MgCl2・6H2O"]
    CultureMech_009908 --> ing6_MgCl2_6H2O
    CHEBI_86345["CHEBI:86345"]
    ing6_MgCl2_6H2O -.-> CHEBI_86345
    ing7_Sodium_pyruvate["Sodium pyruvate"]
    CultureMech_009908 --> ing7_Sodium_pyruvate
    CHEBI_50144["CHEBI:50144"]
    ing7_Sodium_pyruvate -.-> CHEBI_50144
    ing8_Sorbitol["Sorbitol"]
    CultureMech_009908 --> ing8_Sorbitol
    CHEBI_30911["CHEBI:30911"]
    ing8_Sorbitol -.-> CHEBI_30911
    ing9_HCl__25___v_v_["HCl (25%, v/v)"]
    CultureMech_009908 --> ing9_HCl__25___v_v_
    ing10_Na2MoO4_2H2O["Na2MoO4・2H2O"]
    CultureMech_009908 --> ing10_Na2MoO4_2H2O
    CHEBI_75213["CHEBI:75213"]
    ing10_Na2MoO4_2H2O -.-> CHEBI_75213
    ing11_H3BO3["H3BO3"]
    CultureMech_009908 --> ing11_H3BO3
    CHEBI_33118["CHEBI:33118"]
    ing11_H3BO3 -.-> CHEBI_33118
    ing12_MnCl2_4H2O["MnCl2・4H2O"]
    CultureMech_009908 --> ing12_MnCl2_4H2O
    CHEBI_86368["CHEBI:86368"]
    ing12_MnCl2_4H2O -.-> CHEBI_86368
    ing13_CoCl2_6H2O["CoCl2・6H2O"]
    CultureMech_009908 --> ing13_CoCl2_6H2O
    CHEBI_35696["CHEBI:35696"]
    ing13_CoCl2_6H2O -.-> CHEBI_35696
    ing14_NiCl2_6H2O["NiCl2・6H2O"]
    CultureMech_009908 --> ing14_NiCl2_6H2O
    CHEBI_34887["CHEBI:34887"]
    ing14_NiCl2_6H2O -.-> CHEBI_34887
    ing15_CuCl2_2H2O["CuCl2・2H2O"]
    CultureMech_009908 --> ing15_CuCl2_2H2O
    CHEBI_86318["CHEBI:86318"]
    ing15_CuCl2_2H2O -.-> CHEBI_86318
    ing16_ZnCl2["ZnCl2"]
    CultureMech_009908 --> ing16_ZnCl2
    CHEBI_49976["CHEBI:49976"]
    ing16_ZnCl2 -.-> CHEBI_49976

Ingredients (17)

# 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 0.4 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
0.15 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
0.5 G_PER_L CHEBI:63036
potassium dihydrogen phosphate
 Role: Buffer; Properties: Inorganic compound, Defined component, Simple component
6 NH4Cl
Cl.H4N 53.492 g/mol
0.6 G_PER_L CHEBI:31206
ammonium chloride
 Role: Nitrogen source; Properties: Inorganic compound, Defined component, Simple component
7 MgCl2・6H2O
2Cl.6H2O.Mg 203.301 g/mol
1 G_PER_L CHEBI:86345
magnesium dichloride hexahydrate
 Role: Mineral source; Properties: Inorganic compound, Defined component, Simple component
8 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
9 Sorbitol
C6H14O6 182.172 g/mol
3 G_PER_L CHEBI:30911
glucitol
 Role: Carbon source; Properties: Organic compound, Defined component, Simple component
10 HCl (25%, v/v) 1 G_PER_L Role: Solvating media; Properties: Inorganic compound, Solution, Defined component
11 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
12 H3BO3
H3BO3 61.833 g/mol
60 G_PER_L CHEBI:33118
boric acid
 Role: Mineral source; Properties: Inorganic compound, Defined component, Simple component
13 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
14 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
15 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
16 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
17 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

Ferric citrate solution (0.1%)

Dose: 5 G_PER_L

Role: Mineral source; Properties: Defined component, Organic compound, Solution

Trace element solution SL7 (see below)

Dose: 1 G_PER_L

Target organisms

No target organisms are recorded.

Provenance

Merged from 2 source records.

TimestampCuratorActionNotes
2026-01-27T06:35:55.215714Z togo-import Imported from TOGO Medium Source: JCM, ID: M517
2026-01-28T19:48:23.174667Z chebi-enrichment Added CHEBI ontology terms to ingredients Enriched using MicrobeMediaParam and MediaDive chemical mappings
2026-03-09T08:04:38.509092+00:00 solution-migrator-v1.0 Migrated solutions from ingredients to solutions array Moved 2 solution(s) from ingredients
2026-03-13T03:09:08.297618Z data-quality-cleanup-v1.0 Data quality fixes Merged 1 duplicate ingredient(s)
2026-03-13T06:20:09.877019Z culturemech-id-assigner-v1.0 Assigned CultureMech ID Assigned stable identifier: CultureMech:009908
2026-03-14T00:00:00+00:00 schema-defaulter-v1.0 Applied schema defaults and normalizations Added default solution name; Added default solution name
2026-03-17T06:30:14.000000Z mediaingredientmech-enrichment-v1.0 Added MediaIngredientMech links Linked ingredients to MediaIngredientMech identifiers
2026-03-17T19:46:28.825028+00:00 normalize_media_names_to_snake_case.py NAME_NORMALIZED Normalized name from "Rhodobium Gokurnum Medium" to "rhodobium_gokurnum_medium" for consistent matching
2026-05-16T09:03:18.703553+00:00 migrate_legacy_fields.py MIGRATED_LEGACY_FIELDS curation_history.date->timestamp=1
2026-06-05T07:40:42.131374+00:00 mim-legacy-to-chebi-migration-v1.0 Refreshed legacy MediaIngredientMech links to CHEBI keying Replaced 8 legacy mediaingredientmech_term link(s) with mediaingredientmech_chebi_term (id-safe: ingredient's own CHEBI + label). MIM deprecated the MediaIngredientMech:NNNNNN id scheme.
2026-06-10T07:46:50.859734+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.
2026-08-06T03:05:16.865628+00:00 recipe-merger Merged 2 duplicate recipes into canonical record Sources: TOGO_M517_Rhodobium_Gokurnum_Medium, TOGO_M585_Rhodobacter_Sphaeroides_Medium
2026-08-06T03:05:16.865665+00:00 merge_recipes.py MERGED_RECIPES merged 2 source recipe(s) on fingerprint 6ed9b34f348c935d700a2a9eeffd849b469eedf986afdad85312bd1a1066d0fa