desulfovibrio_marinus_medium

CultureMech:009947 bacterial COMPLEX LIQUID
Original name: Desulfovibrio Marinus Medium

Overview

External ontology
TOGO:M553 — Desulfovibrio Marinus Medium
Applications
  • Microbial cultivation
Synonyms
  • {'name': 'desulfovibrio_as36_medium', 'source': 'TOGO', 'source_id': 'TOGO:M551', 'original_category': 'bacterial'}
Notes
Source: https://togomedium.org/medium/M553 Original source: JCM - JCM_M551 Original URL: https://www.jcm.riken.jp/cgi-bin/jcm/jcm_grmd?GRMD=551

Composition

flowchart LR
    CultureMech_009947["desulfovibrio_marinus_medium"]
    ing0_Sol__1["Sol. 1"]
    CultureMech_009947 --> ing0_Sol__1
    ing1_Distilled_water["Distilled water"]
    CultureMech_009947 --> ing1_Distilled_water
    CHEBI_15377["CHEBI:15377"]
    ing1_Distilled_water -.-> CHEBI_15377
    ing2_NaCl["NaCl"]
    CultureMech_009947 --> ing2_NaCl
    CHEBI_26710["CHEBI:26710"]
    ing2_NaCl -.-> CHEBI_26710
    ing3_KH2PO4["KH2PO4"]
    CultureMech_009947 --> ing3_KH2PO4
    CHEBI_63036["CHEBI:63036"]
    ing3_KH2PO4 -.-> CHEBI_63036
    ing4_NH4Cl["NH4Cl"]
    CultureMech_009947 --> ing4_NH4Cl
    CHEBI_31206["CHEBI:31206"]
    ing4_NH4Cl -.-> CHEBI_31206
    ing5_K2HPO4["K2HPO4"]
    CultureMech_009947 --> ing5_K2HPO4
    CHEBI_131527["CHEBI:131527"]
    ing5_K2HPO4 -.-> CHEBI_131527
    ing6_Resazurin["Resazurin"]
    CultureMech_009947 --> ing6_Resazurin
    CHEBI_8806["CHEBI:8806"]
    ing6_Resazurin -.-> CHEBI_8806
    ing7_KCl["KCl"]
    CultureMech_009947 --> ing7_KCl
    CHEBI_32588["CHEBI:32588"]
    ing7_KCl -.-> CHEBI_32588
    ing8_Na2SO4["Na2SO4"]
    CultureMech_009947 --> ing8_Na2SO4
    CHEBI_32149["CHEBI:32149"]
    ing8_Na2SO4 -.-> CHEBI_32149
    ing9_CaCl2["CaCl2"]
    CultureMech_009947 --> ing9_CaCl2
    CHEBI_3312["CHEBI:3312"]
    ing9_CaCl2 -.-> CHEBI_3312
    ing10_Carbon_dioxide_gas["Carbon dioxide gas"]
    CultureMech_009947 --> ing10_Carbon_dioxide_gas
    CHEBI_16526["CHEBI:16526"]
    ing10_Carbon_dioxide_gas -.-> CHEBI_16526
    ing11_Nitrogen_gas["Nitrogen gas"]
    CultureMech_009947 --> ing11_Nitrogen_gas
    CHEBI_17997["CHEBI:17997"]
    ing11_Nitrogen_gas -.-> CHEBI_17997
    ing12_1_M_Sodium_lactate["1 M Sodium lactate"]
    CultureMech_009947 --> ing12_1_M_Sodium_lactate
    CHEBI_75228["CHEBI:75228"]
    ing12_1_M_Sodium_lactate -.-> CHEBI_75228
    ing13_N2["N2"]
    CultureMech_009947 --> ing13_N2
    ing13_N2 -.-> CHEBI_17997

Ingredients (14)

# Ingredient Concentration Ontology Notes
1 Sol. 1 0.5 G_PER_L
2 Distilled water
H2O 18.015 g/mol
900 G_PER_L CHEBI:15377
water
 Role: Solvating media; Properties: Defined component, Inorganic compound, Simple component
3 NaCl
Cl.Na 58.443 g/mol
50 G_PER_L CHEBI:26710
sodium chloride
 Role: Mineral source; Properties: Defined component, Inorganic compound, Simple component
4 KH2PO4
H2O4P.K 136.084 g/mol
0.3 G_PER_L CHEBI:63036
potassium dihydrogen phosphate
 Role: Buffer; Properties: Inorganic compound, Simple component, Defined component
5 NH4Cl
Cl.H4N 53.492 g/mol
1 G_PER_L CHEBI:31206
ammonium chloride
 Role: Nitrogen source; Properties: Defined component, Simple component, Inorganic compound
6 K2HPO4
HO4P.2K 174.174 g/mol
0.3 G_PER_L CHEBI:131527
dipotassium hydrogen phosphate
 Role: Buffer; Properties: Simple component, Defined component, Inorganic compound
7 Resazurin
C12H7NO4 229.191 g/mol
1 G_PER_L CHEBI:8806
Resazurin
 Role: pH dependent redox indicator; Properties: Simple component, Organic compound, Defined component
8 KCl
Cl.K 74.551 g/mol
0.1 G_PER_L CHEBI:32588
potassium chloride
 Role: Mineral source; Properties: Defined component, Simple component, Inorganic compound
9 Na2SO4
2Na.O4S 142.043 g/mol
2.8 G_PER_L CHEBI:32149
sodium sulfate
 Role: Mineral source; Properties: Defined component, Simple component, Inorganic compound
10 CaCl2
Ca.2Cl 110.984 g/mol
0.1 G_PER_L CHEBI:3312
calcium dichloride
 Role: Mineral source; Properties: Defined component, Inorganic compound, Simple component
11 Carbon dioxide gas
CO2 44.009 g/mol
variable VARIABLE CHEBI:16526
carbon dioxide
 Properties: ガス
12 Nitrogen gas
N2 28.014 g/mol
variable VARIABLE CHEBI:17997
dinitrogen
 Properties: ガス
13 1 M Sodium lactate
C3H5O3.Na 112.06 g/mol
0.1 G_PER_L CHEBI:75228
sodium lactate
 Role: Carbon source; Properties: Solution, Organic compound, Defined component
14 N2
N2 28.014 g/mol
variable VARIABLE CHEBI:17997
dinitrogen
 Properties: ガス

Solutions

Solution A

Dose: 4.5 G_PER_L

See mediadive_5342_Solution_A.yaml for composition

Trace element solution (see Medium [M439])

Dose: 1 G_PER_L

Cross-reference to Medium M439

5% NaHCO3 solution

Dose: 0.2 G_PER_L

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

15% MgCl2・6H2O solution

Dose: 0.1 G_PER_L

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

10% Yeast extract solution

Dose: 0.05 G_PER_L

Role: Nutrient source; Properties: Undefined component

2% Na2S・9H2O solution

Dose: 0.05 G_PER_L

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

Target organisms

No target organisms are recorded.

Provenance

Merged from 2 source records.

TimestampCuratorActionNotes
2026-01-27T06:35:55.286279Z togo-import Imported from TOGO Medium Source: JCM, ID: M553
2026-01-28T19:48:42.034536Z 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: Carbon dioxide gas; Added default concentration for ingredient: N2
2026-03-09T08:05:10.857111+00:00 solution-migrator-v1.0 Migrated solutions from ingredients to solutions array Moved 6 solution(s) from ingredients
2026-03-13T03:09:42.672477Z data-quality-cleanup-v1.0 Data quality fixes Merged 1 duplicate ingredient(s)
2026-03-13T06:20:10.196283Z culturemech-id-assigner-v1.0 Assigned CultureMech ID Assigned stable identifier: CultureMech:009947
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
2026-03-17T06:30:55.000000Z mediaingredientmech-enrichment-v1.0 Added MediaIngredientMech links Linked ingredients to MediaIngredientMech identifiers
2026-03-17T19:46:29.126697+00:00 normalize_media_names_to_snake_case.py NAME_NORMALIZED Normalized name from "Desulfovibrio Marinus Medium" to "desulfovibrio_marinus_medium" for consistent matching
2026-05-16T09:03:19.009934+00:00 migrate_legacy_fields.py MIGRATED_LEGACY_FIELDS curation_history.date->timestamp=2
2026-06-05T07:40:42.456149+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.
2026-06-10T07:46:50.973602+00:00 primary-term-label-canonicalization-v1.0 Canonicalized primary term label to OBO canonical (OAK) 4 primary term(s); ingredient name resolved by OAK sqlite:obo:chebi.
2026-08-06T03:05:17.217955+00:00 recipe-merger Merged 2 duplicate recipes into canonical record Sources: TOGO_M551_Desulfovibrio_As36_Medium, TOGO_M553_Desulfovibrio_Marinus_Medium
2026-08-06T03:05:17.217992+00:00 merge_recipes.py MERGED_RECIPES merged 2 source recipe(s) on fingerprint 7f04633f78fee49ea34164470b7e2684706ad7deda999cd3b8af064361251b21