bicarbonate_buffered_medium (CultureMech:007689)

Overview

External ontology

TOGO:M1165 — Bicarbonate Buffered Medium

Applications

Microbial cultivation

Notes

Source: https://togomedium.org/medium/M1165 Original source: JCM - JCM_M1095 Original URL: https://www.jcm.riken.jp/cgi-bin/jcm/jcm_grmd?GRMD=1095

Composition

flowchart LR
    CultureMech_007689["bicarbonate_buffered_medium"]
    ing0_Distilled_water["Distilled water"]
    CultureMech_007689 --> ing0_Distilled_water
    CHEBI_15377["CHEBI:15377"]
    ing0_Distilled_water -.-> CHEBI_15377
    ing1_Yeast_extract["Yeast extract"]
    CultureMech_007689 --> ing1_Yeast_extract
    ing2_NaCl["NaCl"]
    CultureMech_007689 --> ing2_NaCl
    CHEBI_26710["CHEBI:26710"]
    ing2_NaCl -.-> CHEBI_26710
    ing3_KH2PO4["KH2PO4"]
    CultureMech_007689 --> ing3_KH2PO4
    CHEBI_63036["CHEBI:63036"]
    ing3_KH2PO4 -.-> CHEBI_63036
    ing4_NH4Cl["NH4Cl"]
    CultureMech_007689 --> ing4_NH4Cl
    CHEBI_31206["CHEBI:31206"]
    ing4_NH4Cl -.-> CHEBI_31206
    ing5_Resazurin["Resazurin"]
    CultureMech_007689 --> ing5_Resazurin
    CHEBI_8806["CHEBI:8806"]
    ing5_Resazurin -.-> CHEBI_8806
    ing6_Na2HPO4_2H2O["Na2HPO4・2H2O"]
    CultureMech_007689 --> ing6_Na2HPO4_2H2O
    CHEBI_34683["CHEBI:34683"]
    ing6_Na2HPO4_2H2O -.-> CHEBI_34683
    ing7_Carbon_dioxide_gas["Carbon dioxide gas"]
    CultureMech_007689 --> ing7_Carbon_dioxide_gas
    CHEBI_16526["CHEBI:16526"]
    ing7_Carbon_dioxide_gas -.-> CHEBI_16526
    ing8_Nitrogen_gas["Nitrogen gas"]
    CultureMech_007689 --> ing8_Nitrogen_gas
    CHEBI_17997["CHEBI:17997"]
    ing8_Nitrogen_gas -.-> CHEBI_17997

Ingredients (9)

#	Ingredient	Concentration	Ontology	Notes
1	Distilled water H2O 18.015 g/mol	930 G_PER_L	CHEBI:15377 water	Role: Solvating media; Properties: Defined component, Simple component, Inorganic compound
2	Yeast extract	0.1 G_PER_L		Role: Nutrient source; Properties: Undefined component
3	NaCl Cl.Na 58.443 g/mol	0.3 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	0.41 G_PER_L	CHEBI:63036 potassium dihydrogen phosphate	Role: Buffer; Properties: Inorganic compound, Defined component, Simple component
5	NH4Cl Cl.H4N 53.492 g/mol	0.3 G_PER_L	CHEBI:31206 ammonium chloride	Role: Nitrogen source; Properties: Simple component, Defined component, Inorganic compound
6	Resazurin C12H7NO4 229.191 g/mol	0.5 G_PER_L	CHEBI:8806 Resazurin	Role: pH dependent redox indicator; Properties: Simple component, Organic compound, Defined component
7	Na2HPO4・2H2O HO4P.2Na 141.958 g/mol	0.53 G_PER_L	CHEBI:34683 disodium hydrogenphosphate	Role: Buffer; Properties: Inorganic compound, Simple component, Defined component
8	Carbon dioxide gas CO2 44.009 g/mol	variable VARIABLE	CHEBI:16526 carbon dioxide	Properties: ガス
9	Nitrogen gas N2 28.014 g/mol	variable VARIABLE	CHEBI:17997 dinitrogen	Properties: ガス

Solutions

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

Selenite--tungstate solution (see Medium [M431])

Dose: 0.5 G_PER_L

Cross-reference to Medium M431

8% NaHCO3 solution*

Dose: 50 G_PER_L

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

10% CaCl2・2H2O solution

Dose: 1 G_PER_L

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

10% MgCl2・6H2O solution

Dose: 1 G_PER_L

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

Trace vitamins (see Medium [M190])

Dose: 10 G_PER_L

Cross-reference to Medium M190

Substrate solution (see below)

Dose: 10 G_PER_L

5% Na2S・9H2O solution

Dose: 10 G_PER_L

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

glycerin solution

Dose: variable VARIABLE

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

Target organisms

No target organisms are recorded.

Provenance

Merged from 4 source records.

TOGO_M1165_Bicarbonate_Buffered_Medium (CultureMech:007689)
TOGO_M1166_Bicarbonate_Buffered_Medium (CultureMech:007690)
TOGO_M1167_Bicarbonate_Buffered_Medium (CultureMech:007691)
TOGO_M1168_Bicarbonate_Buffered_Medium (CultureMech:007692)

Timestamp	Curator	Action	Notes
2026-01-27T06:35:54.039330Z	togo-import	Imported from TOGO Medium	Source: JCM, ID: M1165
2026-01-28T19:48:27.954318Z	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: Nitrogen gas; Added default concentration for ingredient: glycerin solution
2026-03-09T08:04:46.257696+00:00	solution-migrator-v1.0	Migrated solutions from ingredients to solutions array	Moved 10 solution(s) from ingredients
2026-03-13T03:09:16.814926Z	data-quality-cleanup-v1.0	Data quality fixes	Merged 2 duplicate ingredient(s)
2026-03-13T06:19:50.626982Z	culturemech-id-assigner-v1.0	Assigned CultureMech ID	Assigned stable identifier: CultureMech:007689
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; Added default solution name; Added default solution name; Added default solution name; Added default solution name
2026-03-17T06:30:24.000000Z	mediaingredientmech-enrichment-v1.0	Added MediaIngredientMech links	Linked ingredients to MediaIngredientMech identifiers
2026-03-17T19:46:09.027950+00:00	normalize_media_names_to_snake_case.py	NAME_NORMALIZED	Normalized name from "Bicarbonate Buffered Medium" to "bicarbonate_buffered_medium" for consistent matching
2026-05-16T09:03:08.060277+00:00	migrate_legacy_fields.py	MIGRATED_LEGACY_FIELDS	curation_history.date->timestamp=2
2026-06-05T07:40:30.935232+00:00	mim-legacy-to-chebi-migration-v1.0	Refreshed legacy MediaIngredientMech links to CHEBI keying	Replaced 5 legacy mediaingredientmech_term link(s) with mediaingredientmech_chebi_term (id-safe: ingredient's own CHEBI + label). MIM deprecated the MediaIngredientMech:NNNNNN id scheme.
2026-06-10T07:46:47.080445+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.
2026-08-06T03:05:06.261354+00:00	recipe-merger	Merged 4 duplicate recipes into canonical record	Sources: TOGO_M1165_Bicarbonate_Buffered_Medium, TOGO_M1166_Bicarbonate_Buffered_Medium, TOGO_M1167_Bicarbonate_Buffered_Medium, TOGO_M1168_Bicarbonate_Buffered_Medium
2026-08-06T03:05:06.261416+00:00	merge_recipes.py	MERGED_RECIPES	merged 4 source recipe(s) on fingerprint 4ddd819e05bf44db252392aa52e80725847d54bba5b933622ae7b546b209f682