desulfonatronum_par180_medium (CultureMech:007768)

Overview

External ontology

TOGO:M1239 — Desulfonatronum PAR180 Medium

Applications

Microbial cultivation

Notes

Source: https://togomedium.org/medium/M1239 Original source: JCM - JCM_M1157 Original URL: https://www.jcm.riken.jp/cgi-bin/jcm/jcm_grmd?GRMD=1157

Composition

flowchart LR
    CultureMech_007768["desulfonatronum_par180_medium"]
    ing0_Distilled_water["Distilled water"]
    CultureMech_007768 --> ing0_Distilled_water
    CHEBI_15377["CHEBI:15377"]
    ing0_Distilled_water -.-> CHEBI_15377
    ing1_Yeast_extract["Yeast extract"]
    CultureMech_007768 --> ing1_Yeast_extract
    ing2_NaCl["NaCl"]
    CultureMech_007768 --> ing2_NaCl
    CHEBI_26710["CHEBI:26710"]
    ing2_NaCl -.-> CHEBI_26710
    ing3_KH2PO4["KH2PO4"]
    CultureMech_007768 --> ing3_KH2PO4
    CHEBI_63036["CHEBI:63036"]
    ing3_KH2PO4 -.-> CHEBI_63036
    ing4_NH4Cl["NH4Cl"]
    CultureMech_007768 --> ing4_NH4Cl
    CHEBI_31206["CHEBI:31206"]
    ing4_NH4Cl -.-> CHEBI_31206
    ing5_MgCl2_6H2O["MgCl2・6H2O"]
    CultureMech_007768 --> ing5_MgCl2_6H2O
    CHEBI_86345["CHEBI:86345"]
    ing5_MgCl2_6H2O -.-> CHEBI_86345
    ing6_KCl["KCl"]
    CultureMech_007768 --> ing6_KCl
    CHEBI_32588["CHEBI:32588"]
    ing6_KCl -.-> CHEBI_32588
    ing7_Na2CO3["Na2CO3"]
    CultureMech_007768 --> ing7_Na2CO3
    CHEBI_29377["CHEBI:29377"]
    ing7_Na2CO3 -.-> CHEBI_29377
    ing8_Na2SO4["Na2SO4"]
    CultureMech_007768 --> ing8_Na2SO4
    CHEBI_32149["CHEBI:32149"]
    ing8_Na2SO4 -.-> CHEBI_32149
    ing9_N2["N2"]
    CultureMech_007768 --> ing9_N2
    CHEBI_17997["CHEBI:17997"]
    ing9_N2 -.-> CHEBI_17997
    ing10_Biotin["Biotin"]
    CultureMech_007768 --> ing10_Biotin
    CHEBI_15956["CHEBI:15956"]
    ing10_Biotin -.-> CHEBI_15956
    ing11_p_Aminobenzoic_acid["p-Aminobenzoic acid"]
    CultureMech_007768 --> ing11_p_Aminobenzoic_acid
    CHEBI_30753["CHEBI:30753"]
    ing11_p_Aminobenzoic_acid -.-> CHEBI_30753
    ing12_Thiamine_HCl["Thiamine・HCl"]
    CultureMech_007768 --> ing12_Thiamine_HCl
    CHEBI_49105["CHEBI:49105"]
    ing12_Thiamine_HCl -.-> CHEBI_49105
    ing13_Pyridoxine_HCl["Pyridoxine・HCl"]
    CultureMech_007768 --> ing13_Pyridoxine_HCl
    CHEBI_30961["CHEBI:30961"]
    ing13_Pyridoxine_HCl -.-> CHEBI_30961
    ing14_Vitamin_B12["Vitamin B12"]
    CultureMech_007768 --> ing14_Vitamin_B12
    CHEBI_176843["CHEBI:176843"]
    ing14_Vitamin_B12 -.-> CHEBI_176843
    ing15_Nicotinic_acid["Nicotinic acid"]
    CultureMech_007768 --> ing15_Nicotinic_acid
    CHEBI_15940["CHEBI:15940"]
    ing15_Nicotinic_acid -.-> CHEBI_15940
    ing16_DL_Calcium_pantothenate["DL-Calcium pantothenate"]
    CultureMech_007768 --> ing16_DL_Calcium_pantothenate
    CHEBI_31345["CHEBI:31345"]
    ing16_DL_Calcium_pantothenate -.-> CHEBI_31345

Ingredients (17)

#	Ingredient	Concentration	Ontology	Notes
1	Distilled water H2O 18.015 g/mol	1.0 G_PER_L	CHEBI:15377 water	Role: Solvating media; Properties: Inorganic compound, Defined component, Simple component [Collapsed 2 identical duplicates: 1.0, 1.0]
2	Yeast extract	0.2 G_PER_L		Role: Nutrient source; Properties: Undefined component
3	NaCl Cl.Na 58.443 g/mol	5 G_PER_L	CHEBI:26710 sodium chloride	Role: Mineral source; Properties: Inorganic compound, Defined component, Simple component
4	KH2PO4 H2O4P.K 136.084 g/mol	0.2 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	0.25 G_PER_L	CHEBI:31206 ammonium chloride	Role: Nitrogen source; Properties: Inorganic compound, Defined component, Simple component
6	MgCl2・6H2O 2Cl.6H2O.Mg 203.301 g/mol	0.1 G_PER_L	CHEBI:86345 magnesium dichloride hexahydrate	Role: Mineral source; Properties: Inorganic compound, Defined component, Simple component
7	KCl Cl.K 74.551 g/mol	0.2 G_PER_L	CHEBI:32588 potassium chloride	Role: Mineral source; Properties: Inorganic compound, Defined component, Simple component
8	Na2CO3 CO3.2Na 105.988 g/mol	3.5 G_PER_L	CHEBI:29377 sodium carbonate	Role: Buffer; Properties: Inorganic compound, Defined component, Simple component
9	Na2SO4 2Na.O4S 142.043 g/mol	4 G_PER_L	CHEBI:32149 sodium sulfate	Role: Mineral source; Properties: Inorganic compound, Defined component, Simple component
10	N2 N2 28.014 g/mol	variable VARIABLE	CHEBI:17997 dinitrogen	Properties: Gas
11	Biotin C10H16N2O3S 244.316 g/mol	2 G_PER_L	CHEBI:15956 biotin	Role: Vitamin; Properties: Organic compound, Defined component, Simple component
12	p-Aminobenzoic acid C7H7NO2 137.138 g/mol	10 G_PER_L	CHEBI:30753 4-aminobenzoic acid	Role: Vitamin; Properties: Organic compound, Defined component, Simple component
13	Thiamine・HCl C12H17N4OS.Cl.HCl 337.276 g/mol	10 G_PER_L	CHEBI:49105 thiamine hydrochloride	Role: Vitamin; Properties: Organic compound, Defined component, Simple component
14	Pyridoxine・HCl C8H11NO3.HCl 205.641 g/mol	50 G_PER_L	CHEBI:30961 pyridoxine hydrochloride	Role: Vitamin; Properties: Organic compound, Defined component, Simple component
15	Vitamin B12	20 G_PER_L	CHEBI:176843 vitamin B12	Role: Vitamin; Properties: Organic compound, Defined component, Simple component
16	Nicotinic acid C6H5NO2 123.111 g/mol	20 G_PER_L	CHEBI:15940 nicotinic acid	Role: Vitamin; Properties: Organic compound, Defined component, Simple component
17	DL-Calcium pantothenate 2C9H16NO5.Ca 476.536 g/mol	5 G_PER_L	CHEBI:31345 Calcium pantothenate	Role: Vitamin; Properties: Organic compound, Defined component, Simple component

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

Fe--Ni--WO--Se solution (see Medium [M1199])

Dose: 1 G_PER_L

Cross-reference to Medium M1199

1 M Sodium lactate solution

Dose: 20 G_PER_L

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

5% Na2S・9H2O solution

Dose: 8 G_PER_L

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

Vitamin solution* (see below)

Dose: 1 G_PER_L

Target organisms

No target organisms are recorded.

Provenance

Timestamp	Curator	Action	Notes
2026-01-27T06:35:54.195305Z	togo-import	Imported from TOGO Medium	Source: JCM, ID: M1239
2026-01-28T19:48:36.027410Z	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: N2
2026-03-09T08:05:00.038945+00:00	solution-migrator-v1.0	Migrated solutions from ingredients to solutions array	Moved 6 solution(s) from ingredients
2026-03-13T03:09:31.844642Z	data-quality-cleanup-v1.0	Data quality fixes	Merged 1 duplicate ingredient(s)
2026-03-13T06:19:51.309358Z	culturemech-id-assigner-v1.0	Assigned CultureMech ID	Assigned stable identifier: CultureMech:007768
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
2026-03-17T06:30:42.000000Z	mediaingredientmech-enrichment-v1.0	Added MediaIngredientMech links	Linked ingredients to MediaIngredientMech identifiers
2026-03-17T19:46:09.729822+00:00	normalize_media_names_to_snake_case.py	NAME_NORMALIZED	Normalized name from "Desulfonatronum PAR180 Medium" to "desulfonatronum_par180_medium" for consistent matching
2026-05-16T09:03:08.736327+00:00	migrate_legacy_fields.py	MIGRATED_LEGACY_FIELDS	curation_history.date->timestamp=2
2026-06-05T07:40:31.634215+00:00	mim-legacy-to-chebi-migration-v1.0	Refreshed legacy MediaIngredientMech links to CHEBI keying	Replaced 12 legacy mediaingredientmech_term link(s) with mediaingredientmech_chebi_term (id-safe: ingredient's own CHEBI + label). MIM deprecated the MediaIngredientMech:NNNNNN id scheme.
2026-06-08T23:19:30.104785+00:00	chebi-regrounding-v1.0	Corrected CHEBI ingredient grounding (audit G21/G22)	Re-grounded 1 term reference(s) to the correct CHEBI (see reports/chebi_grounding_audit.md). Label-conditional fixes for pyridoxine/pyridoxamine, glycerol, MnSO4, Ca(NO3)2, selenate; casamino acids de-grounded (mixture, no single CHEBI).
2026-06-10T07:46:47.337289+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.
2026-09-02T07:37:43.481607+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.