ird_marine_desulfovibrio_medium_3

CultureMech:007721 bacterial COMPLEX LIQUID
Original name: IRD Marine Desulfovibrio Medium-3

Overview

External ontology
TOGO:M1195 — IRD Marine Desulfovibrio Medium-3
Applications
  • Microbial cultivation
Synonyms
  • {'name': 'ird_marine_desulfovibrio_medium_2', 'source': 'TOGO', 'source_id': 'TOGO:M1194', 'original_category': 'bacterial'}
Notes
Source: https://togomedium.org/medium/M1195 Original source: JCM - JCM_M1117 Original URL: https://www.jcm.riken.jp/cgi-bin/jcm/jcm_grmd?GRMD=1117

Composition

flowchart LR
    CultureMech_007721["ird_marine_desulfovibrio_medium_3"]
    ing0_Distilled_water["Distilled water"]
    CultureMech_007721 --> ing0_Distilled_water
    CHEBI_15377["CHEBI:15377"]
    ing0_Distilled_water -.-> CHEBI_15377
    ing1_Yeast_extract["Yeast extract"]
    CultureMech_007721 --> ing1_Yeast_extract
    ing2_NaCl["NaCl"]
    CultureMech_007721 --> ing2_NaCl
    CHEBI_26710["CHEBI:26710"]
    ing2_NaCl -.-> CHEBI_26710
    ing3_CaCl2_2H2O["CaCl2・2H2O"]
    CultureMech_007721 --> ing3_CaCl2_2H2O
    CHEBI_86158["CHEBI:86158"]
    ing3_CaCl2_2H2O -.-> CHEBI_86158
    ing4_KH2PO4["KH2PO4"]
    CultureMech_007721 --> ing4_KH2PO4
    CHEBI_63036["CHEBI:63036"]
    ing4_KH2PO4 -.-> CHEBI_63036
    ing5_NH4Cl["NH4Cl"]
    CultureMech_007721 --> ing5_NH4Cl
    CHEBI_31206["CHEBI:31206"]
    ing5_NH4Cl -.-> CHEBI_31206
    ing6_Resazurin["Resazurin"]
    CultureMech_007721 --> ing6_Resazurin
    CHEBI_8806["CHEBI:8806"]
    ing6_Resazurin -.-> CHEBI_8806
    ing7_MgCl2_6H2O["MgCl2・6H2O"]
    CultureMech_007721 --> ing7_MgCl2_6H2O
    CHEBI_86345["CHEBI:86345"]
    ing7_MgCl2_6H2O -.-> CHEBI_86345
    ing8_KCl["KCl"]
    CultureMech_007721 --> ing8_KCl
    CHEBI_32588["CHEBI:32588"]
    ing8_KCl -.-> CHEBI_32588
    ing9_Na2SO4["Na2SO4"]
    CultureMech_007721 --> ing9_Na2SO4
    CHEBI_32149["CHEBI:32149"]
    ing9_Na2SO4 -.-> CHEBI_32149
    ing10_L__Cysteine_HCl_H2O["L--Cysteine・HCl・H2O"]
    CultureMech_007721 --> ing10_L__Cysteine_HCl_H2O
    CHEBI_91248["CHEBI:91248"]
    ing10_L__Cysteine_HCl_H2O -.-> CHEBI_91248
    ing11_Carbon_dioxide_gas["Carbon dioxide gas"]
    CultureMech_007721 --> ing11_Carbon_dioxide_gas
    CHEBI_16526["CHEBI:16526"]
    ing11_Carbon_dioxide_gas -.-> CHEBI_16526
    ing12_Nitrogen_gas["Nitrogen gas"]
    CultureMech_007721 --> ing12_Nitrogen_gas
    CHEBI_17997["CHEBI:17997"]
    ing12_Nitrogen_gas -.-> CHEBI_17997
    ing13_1_M_Sodium_lactate["1 M Sodium lactate"]
    CultureMech_007721 --> ing13_1_M_Sodium_lactate
    CHEBI_75228["CHEBI:75228"]
    ing13_1_M_Sodium_lactate -.-> CHEBI_75228
    ing14_N2["N2"]
    CultureMech_007721 --> ing14_N2
    ing14_N2 -.-> CHEBI_17997

Ingredients (15)

# Ingredient Concentration Ontology Notes
1 Distilled water
H2O 18.015 g/mol
920 G_PER_L CHEBI:15377
water
 Role: Solvating media; Properties: Defined component, Inorganic compound, Simple component
2 Yeast extract 0.5 G_PER_L Role: Nutrient source; Properties: Undefined component
3 NaCl
Cl.Na 58.443 g/mol
30 G_PER_L CHEBI:26710
sodium chloride
 Role: Mineral source; Properties: Simple component, Defined component, Inorganic compound
4 CaCl2・2H2O
Ca.2Cl.2H2O 147.014 g/mol
0.15 G_PER_L CHEBI:86158
calcium chloride dihydrate
 Role: Mineral source; Properties: Defined component, Simple component, Inorganic compound
5 KH2PO4
H2O4P.K 136.084 g/mol
0.2 G_PER_L CHEBI:63036
potassium dihydrogen phosphate
 Role: Buffer; Properties: Inorganic compound, Simple component, Defined component
6 NH4Cl
Cl.H4N 53.492 g/mol
0.3 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: Defined component, Organic compound, Simple component
8 MgCl2・6H2O
2Cl.6H2O.Mg 203.301 g/mol
0.4 G_PER_L CHEBI:86345
magnesium dichloride hexahydrate
 Role: Mineral source; Properties: Inorganic compound, Simple component, Defined component
9 KCl
Cl.K 74.551 g/mol
0.5 G_PER_L CHEBI:32588
potassium chloride
 Role: Mineral source; Properties: Simple component, Inorganic compound, Defined component
10 Na2SO4
2Na.O4S 142.043 g/mol
2.8 G_PER_L CHEBI:32149
sodium sulfate
 Role: Mineral source; Properties: Inorganic compound, Simple component, Defined component
11 L--Cysteine・HCl・H2O
C3H7NO2S.H2O.HCl 175.637 g/mol
0.5 G_PER_L CHEBI:91248
L-cysteine hydrochloride hydrate
 Properties: Defined component, Organic compound, Simple component
12 Carbon dioxide gas
CO2 44.009 g/mol
variable VARIABLE CHEBI:16526
carbon dioxide
 Properties: ガス
13 Nitrogen gas
N2 28.014 g/mol
variable VARIABLE CHEBI:17997
dinitrogen
 Properties: ガス
14 1 M Sodium lactate
C3H5O3.Na 112.06 g/mol
20 G_PER_L CHEBI:75228
sodium lactate
 Role: Carbon source; Properties: Defined component, Organic compound, Solution
15 N2
N2 28.014 g/mol
variable VARIABLE CHEBI:17997
dinitrogen
 Properties: ガス

Solutions

Trace element solution (see Medium [M439])

Dose: 1 G_PER_L

Cross-reference to Medium M439

5% NaHCO3 solution*

Dose: 40 G_PER_L

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

5% Na2S・9H2O solution

Dose: 8 G_PER_L

Role: Reducing agent; Properties: Solution, Inorganic compound, Defined component

Target organisms

No target organisms are recorded.

Provenance

Merged from 2 source records.

TimestampCuratorActionNotes
2026-01-27T06:35:54.102109Z togo-import Imported from TOGO Medium Source: JCM, ID: M1195
2026-01-28T19:48:31.577610Z 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
2026-03-09T08:04:52.604897+00:00 solution-migrator-v1.0 Migrated solutions from ingredients to solutions array Moved 3 solution(s) from ingredients
2026-03-13T06:19:50.897554Z culturemech-id-assigner-v1.0 Assigned CultureMech ID Assigned stable identifier: CultureMech:007721
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
2026-03-17T06:30:32.000000Z mediaingredientmech-enrichment-v1.0 Added MediaIngredientMech links Linked ingredients to MediaIngredientMech identifiers
2026-03-17T19:46:09.305633+00:00 normalize_media_names_to_snake_case.py NAME_NORMALIZED Normalized name from "IRD Marine Desulfovibrio Medium-3" to "ird_marine_desulfovibrio_medium_3" for consistent matching
2026-05-16T09:03:37.919040+00:00 migrate_legacy_fields.py MIGRATED_LEGACY_FIELDS curation_history.date->timestamp=2
2026-06-05T07:41:09.547909+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.
2026-06-10T07:47:00.105376+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.
2026-08-06T03:05:38.598325+00:00 recipe-merger Merged 2 duplicate recipes into canonical record Sources: ird_marine_desulfovibrio_medium_2, ird_marine_desulfovibrio_medium_3
2026-08-06T03:05:38.598371+00:00 merge_recipes.py MERGED_RECIPES merged 2 source recipe(s) on fingerprint 967e7e08d4584605e59732d433dede76d7c5df6e0f8167ada55dbc64adb7caba