oligotrophic_denitrification_liquid_medium (CultureMech:009661)

Overview

External ontology

TOGO:M3221 — Oligotrophic denitrification liquid medium

Applications

Microbial cultivation

Notes

Source: https://togomedium.org/medium/M3221

Composition

flowchart LR
    CultureMech_009661["oligotrophic_denitrification_liquid_medium"]
    ing0_Distilled_water["Distilled water"]
    CultureMech_009661 --> ing0_Distilled_water
    CHEBI_15377["CHEBI:15377"]
    ing0_Distilled_water -.-> CHEBI_15377
    ing1_MgCl2_x_6_H2O["MgCl2 x 6 H2O"]
    CultureMech_009661 --> ing1_MgCl2_x_6_H2O
    CHEBI_86345["CHEBI:86345"]
    ing1_MgCl2_x_6_H2O -.-> CHEBI_86345
    ing2_CH3COONa["CH3COONa"]
    CultureMech_009661 --> ing2_CH3COONa
    ing3_NaNO3["NaNO3"]
    CultureMech_009661 --> ing3_NaNO3
    CHEBI_63005["CHEBI:63005"]
    ing3_NaNO3 -.-> CHEBI_63005
    ing4_CaCl2["CaCl2"]
    CultureMech_009661 --> ing4_CaCl2
    CHEBI_3312["CHEBI:3312"]
    ing4_CaCl2 -.-> CHEBI_3312
    ing5_K2HPO4_3H2O["K2HPO4·3H2O"]
    CultureMech_009661 --> ing5_K2HPO4_3H2O
    CHEBI_131527["CHEBI:131527"]
    ing5_K2HPO4_3H2O -.-> CHEBI_131527
    ing6_FeSO4_x_7_H2O["FeSO4 x 7 H2O"]
    CultureMech_009661 --> ing6_FeSO4_x_7_H2O
    CHEBI_75836["CHEBI:75836"]
    ing6_FeSO4_x_7_H2O -.-> CHEBI_75836
    ing7_CoCl2_x_6_H2O["CoCl2 x 6 H2O"]
    CultureMech_009661 --> ing7_CoCl2_x_6_H2O
    CHEBI_53503["CHEBI:53503"]
    ing7_CoCl2_x_6_H2O -.-> CHEBI_53503
    ing8_CuSO4_x_5_H2O["CuSO4 x 5 H2O"]
    CultureMech_009661 --> ing8_CuSO4_x_5_H2O
    CHEBI_31440["CHEBI:31440"]
    ing8_CuSO4_x_5_H2O -.-> CHEBI_31440
    ing9_ZnSO4["ZnSO4"]
    CultureMech_009661 --> ing9_ZnSO4
    CHEBI_35176["CHEBI:35176"]
    ing9_ZnSO4 -.-> CHEBI_35176
    ing10_EDTA["EDTA"]
    CultureMech_009661 --> ing10_EDTA
    CHEBI_4735["CHEBI:4735"]
    ing10_EDTA -.-> CHEBI_4735

Ingredients (11)

#	Ingredient	Concentration	Ontology	Notes
1	Distilled water H2O 18.015 g/mol	1.0 G_PER_L	CHEBI:15377 water	Role: Solvating media; Properties: Simple component, Defined component, Inorganic compound [Collapsed 2 identical duplicates: 1.0, 1.0]
2	MgCl2 x 6 H2O 2Cl.6H2O.Mg 203.301 g/mol	0.01 G_PER_L	CHEBI:86345 magnesium dichloride hexahydrate	Role: Mineral source; Properties: Simple component, Inorganic compound, Defined component
3	CH3COONa	0.0683 G_PER_L		Role: Buffer; Properties: Defined component, Simple component, Organic compound
4	NaNO3 NO3.Na 84.994 g/mol	0.0152 G_PER_L	CHEBI:63005 sodium nitrate	Role: Nitrogen source; Properties: Simple component, Inorganic compound, Defined component
5	CaCl2 Ca.2Cl 110.984 g/mol	0.01 G_PER_L	CHEBI:3312 calcium dichloride	Role: Mineral source; Properties: Defined component, Inorganic compound, Simple component
6	K2HPO4·3H2O HO4P.2K 174.174 g/mol	0.02 G_PER_L	CHEBI:131527 dipotassium hydrogen phosphate	Role: Buffer; Properties: Inorganic compound, Simple component, Defined component
7	FeSO4 x 7 H2O Fe.7H2O.O4S 278.013 g/mol	0.1 G_PER_L	CHEBI:75836 iron(2+) sulfate heptahydrate	Role: Mineral source; Properties: Defined component, Inorganic compound, Simple component
8	CoCl2 x 6 H2O 2Cl.Co.6H2O 237.929 g/mol	0.05 G_PER_L	CHEBI:53503 cobalt chloride hexahydrate	Role: Mineral source; Properties: Inorganic compound, Simple component, Defined component
9	CuSO4 x 5 H2O Cu.5H2O.O4S 249.684 g/mol	0.1 G_PER_L	CHEBI:31440 copper(II) sulfate pentahydrate	Role: Mineral source; Properties: Simple component, Inorganic compound, Defined component
10	ZnSO4 O4S.Zn 161.453 g/mol	0.1 G_PER_L	CHEBI:35176 zinc sulfate	Role: Mineral source; Properties: Inorganic compound, Simple component, Defined component
11	EDTA C10H16N2O8 292.244 g/mol	0.5 G_PER_L	CHEBI:4735 ethylenediaminetetraacetic acid	Properties: Defined component, Organic compound, Simple component

Solutions

Trace element solution

Dose: 2 G_PER_L

See mediadive_6187_Trace_element_solution.yaml for composition

Target organisms

No target organisms are recorded.

Provenance

Timestamp	Curator	Action	Notes
2026-01-27T06:35:57.612560Z	togo-import	Imported from TOGO Medium	Source: TOGO, ID: M3221
2026-01-28T19:48:07.762836Z	chebi-enrichment	Added CHEBI ontology terms to ingredients	Enriched using MicrobeMediaParam and MediaDive chemical mappings
2026-03-09T08:04:12.493997+00:00	solution-migrator-v1.0	Migrated solutions from ingredients to solutions array	Moved 1 solution(s) from ingredients
2026-03-13T03:08:39.350800Z	data-quality-cleanup-v1.0	Data quality fixes	Merged 1 duplicate ingredient(s)
2026-03-13T06:20:07.962649Z	culturemech-id-assigner-v1.0	Assigned CultureMech ID	Assigned stable identifier: CultureMech:009661
2026-03-14T00:00:00+00:00	schema-defaulter-v1.0	Applied schema defaults and normalizations	Added default solution name
2026-03-17T06:29:41.000000Z	mediaingredientmech-enrichment-v1.0	Added MediaIngredientMech links	Linked ingredients to MediaIngredientMech identifiers
2026-03-17T19:46:26.967871+00:00	normalize_media_names_to_snake_case.py	NAME_NORMALIZED	Normalized name from "Oligotrophic denitrification liquid medium" to "oligotrophic_denitrification_liquid_medium" for consistent matching
2026-05-16T09:04:28.116120+00:00	migrate_legacy_fields.py	MIGRATED_LEGACY_FIELDS	curation_history.date->timestamp=1
2026-06-05T07:41:40.440852+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.
2026-06-10T07:47:09.749427+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.
2026-09-02T07:38:54.363137+00:00	repair_merged_duplicates.py	REPAIRED_SUMMED_DUPLICATE_MERGE	Collapsed 1 ingredient row(s) whose concentration was the SUM of identical duplicate values written by cleanup_media_quality.py. Every merged part was the same value, so the pre-merge value is unambiguous and no source lookup was needed. Rows whose merged parts differ were left untouched.