2_5_nacl_gypfk_agar_broth

CultureMech:008125 bacterial COMPLEX SOLID_AGAR
Original name: 2.5% NaCl GYPFK Agar/Broth

Overview

External ontology
TOGO:M1576 — 2.5% NaCl GYPFK Agar/Broth
Applications
  • Microbial cultivation
Notes
Source: https://togomedium.org/medium/M1576 Original source: NBRC - NBRC_M383 Original URL: https://www.nite.go.jp/nbrc/catalogue/NBRCMediumDetailServlet?NO=383

Composition

flowchart LR
    CultureMech_008125["2_5_nacl_gypfk_agar_broth"]
    ing0_Distilled_water["Distilled water"]
    CultureMech_008125 --> ing0_Distilled_water
    CHEBI_15377["CHEBI:15377"]
    ing0_Distilled_water -.-> CHEBI_15377
    ing1_Yeast_extract["Yeast extract"]
    CultureMech_008125 --> ing1_Yeast_extract
    ing2_NaCl["NaCl"]
    CultureMech_008125 --> ing2_NaCl
    CHEBI_26710["CHEBI:26710"]
    ing2_NaCl -.-> CHEBI_26710
    ing3_K2HPO4["K2HPO4"]
    CultureMech_008125 --> ing3_K2HPO4
    CHEBI_131527["CHEBI:131527"]
    ing3_K2HPO4 -.-> CHEBI_131527
    ing4_Glucose["Glucose"]
    CultureMech_008125 --> ing4_Glucose
    CHEBI_17234["CHEBI:17234"]
    ing4_Glucose -.-> CHEBI_17234
    ing5_Agar__if_needed_["Agar (if needed)"]
    CultureMech_008125 --> ing5_Agar__if_needed_
    ing6_Na2CO3["Na2CO3"]
    CultureMech_008125 --> ing6_Na2CO3
    CHEBI_29377["CHEBI:29377"]
    ing6_Na2CO3 -.-> CHEBI_29377
    ing7_MgSO4_7H2O["MgSO4·7H2O"]
    CultureMech_008125 --> ing7_MgSO4_7H2O
    CHEBI_31795["CHEBI:31795"]
    ing7_MgSO4_7H2O -.-> CHEBI_31795
    ing8_FeSO4_7H2O["FeSO4·7H2O"]
    CultureMech_008125 --> ing8_FeSO4_7H2O
    CHEBI_75836["CHEBI:75836"]
    ing8_FeSO4_7H2O -.-> CHEBI_75836
    ing9_MnSO4_4H2O["MnSO4·4H2O"]
    CultureMech_008125 --> ing9_MnSO4_4H2O
    CHEBI_86358["CHEBI:86358"]
    ing9_MnSO4_4H2O -.-> CHEBI_86358

Ingredients (10)

# Ingredient Concentration Ontology Notes
1 Distilled water
H2O 18.015 g/mol
1001.0 G_PER_L CHEBI:15377
water
 Role: Solvating media; Properties: Defined component, Inorganic compound, Simple component [Merged 3 duplicates: 900.0, 100.0, 1.0]
2 Yeast extract 5 G_PER_L Role: Nutrient source; Properties: Undefined component
3 NaCl
Cl.Na 58.443 g/mol
25 G_PER_L CHEBI:26710
sodium chloride
 Role: Mineral source; Properties: Defined component, Simple component, Inorganic compound
4 K2HPO4
HO4P.2K 174.174 g/mol
10 G_PER_L CHEBI:131527
dipotassium hydrogen phosphate
 Role: Buffer; Properties: Inorganic compound, Defined component, Simple component
5 Glucose
C6H12O6 180.156 g/mol
10 G_PER_L CHEBI:17234
glucose
 Role: Carbon source; Properties: Simple component, Organic compound, Defined component
6 Agar (if needed) 15 G_PER_L Role: Solidifying component
7 Na2CO3
CO3.2Na 105.988 g/mol
3 G_PER_L CHEBI:29377
sodium carbonate
 Role: Buffer; Properties: Defined component, Inorganic compound, Simple component
8 MgSO4·7H2O
7H2O.Mg.O4S 246.473 g/mol
40 G_PER_L CHEBI:31795
magnesium sulfate heptahydrate
 Role: Mineral source; Properties: Defined component, Inorganic compound, Simple component
9 FeSO4·7H2O
Fe.7H2O.O4S 278.013 g/mol
2 G_PER_L CHEBI:75836
iron(2+) sulfate heptahydrate
 Role: Mineral source; Properties: Defined component, Inorganic compound, Simple component
10 MnSO4·4H2O
4H2O.Mn.O4S 223.061 g/mol
2 G_PER_L CHEBI:86358
manganese(II) sulfate tetrahydrate
 Role: Mineral source; Properties: Simple component, Inorganic compound, Defined component

Solutions

Solution A

Dose: 900 G_PER_L

See mediadive_5342_Solution_A.yaml for composition

Solution B

Dose: 100 G_PER_L

See mediadive_5343_Solution_B.yaml for composition

Hipolypepton*

Dose: 5 G_PER_L

Properties: Undefined component

Extract Bonito*

Dose: 5 G_PER_L

Properties: Undefined component

Salt solution**

Dose: 5 G_PER_L

See mediadive_6218_Salt_solution.yaml for composition

Target organisms

No target organisms are recorded.

Provenance

TimestampCuratorActionNotes
2026-01-27T06:35:57.868410Z togo-import Imported from TOGO Medium Source: NBRC, ID: M1576
2026-01-28T19:48:17.528024Z chebi-enrichment Added CHEBI ontology terms to ingredients Enriched using MicrobeMediaParam and MediaDive chemical mappings
2026-03-09T08:04:29.030591+00:00 solution-migrator-v1.0 Migrated solutions from ingredients to solutions array Moved 5 solution(s) from ingredients
2026-03-13T03:08:57.866128Z data-quality-cleanup-v1.0 Data quality fixes Merged 2 duplicate ingredient(s)
2026-03-13T06:19:53.681574Z culturemech-id-assigner-v1.0 Assigned CultureMech ID Assigned stable identifier: CultureMech:008125
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
2026-03-17T06:30:02.000000Z mediaingredientmech-enrichment-v1.0 Added MediaIngredientMech links Linked ingredients to MediaIngredientMech identifiers
2026-03-17T19:46:12.229420+00:00 normalize_media_names_to_snake_case.py NAME_NORMALIZED Normalized name from "2.5% NaCl GYPFK Agar/Broth" to "2_5_nacl_gypfk_agar_broth" for consistent matching
2026-05-16T09:02:58.224213+00:00 migrate_legacy_fields.py MIGRATED_LEGACY_FIELDS curation_history.date->timestamp=1
2026-06-05T07:40:15.730395+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.
2026-06-10T06:57:12.473132+00:00 mgso4-heptahydrate-term-fix-v1.0 Corrected MgSO4·7H2O primary term grounding to heptahydrate Re-grounded 1 heptahydrate-labelled ingredient(s) from CHEBI:32599 (generic magnesium sulfate) to CHEBI:31795 (magnesium sulfate heptahydrate). Generic/hexahydrate labels untouched.
2026-06-10T07:46:42.530103+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.