sulfolobus_medium_for_dsm_5348 (CultureMech:008908)

Overview

External ontology

TOGO:M2320 — Sulfolobus Medium (For DSM 5348)

Applications

Microbial cultivation

Notes

Source: https://togomedium.org/medium/M2320 Original URL: https://www.dsmz.de/microorganisms/medium/pdf/DSMZ_Medium88.pdf

Composition

flowchart LR
    CultureMech_008908["sulfolobus_medium_for_dsm_5348"]
    ing0_Distilled_water["Distilled water"]
    CultureMech_008908 --> ing0_Distilled_water
    CHEBI_15377["CHEBI:15377"]
    ing0_Distilled_water -.-> CHEBI_15377
    ing1_MgSO4_x_7_H2O["MgSO4 x 7 H2O"]
    CultureMech_008908 --> ing1_MgSO4_x_7_H2O
    CHEBI_31795["CHEBI:31795"]
    ing1_MgSO4_x_7_H2O -.-> CHEBI_31795
    ing2_CaCl2_x_2_H2O["CaCl2 x 2 H2O"]
    CultureMech_008908 --> ing2_CaCl2_x_2_H2O
    CHEBI_86158["CHEBI:86158"]
    ing2_CaCl2_x_2_H2O -.-> CHEBI_86158
    ing3_KH2PO4["KH2PO4"]
    CultureMech_008908 --> ing3_KH2PO4
    CHEBI_63036["CHEBI:63036"]
    ing3_KH2PO4 -.-> CHEBI_63036
    ing4__NH4_2SO4["(NH4)2SO4"]
    CultureMech_008908 --> ing4__NH4_2SO4
    CHEBI_62946["CHEBI:62946"]
    ing4__NH4_2SO4 -.-> CHEBI_62946
    ing5_FeCl3_x_6_H2O["FeCl3 x 6 H2O"]
    CultureMech_008908 --> ing5_FeCl3_x_6_H2O
    CHEBI_86254["CHEBI:86254"]
    ing5_FeCl3_x_6_H2O -.-> CHEBI_86254
    ing6_powdered_sulfur["powdered sulfur"]
    CultureMech_008908 --> ing6_powdered_sulfur
    ing7_sulfide_ore["sulfide ore"]
    CultureMech_008908 --> ing7_sulfide_ore
    ing8_H2SO4["H2SO4"]
    CultureMech_008908 --> ing8_H2SO4
    CHEBI_26836["CHEBI:26836"]
    ing8_H2SO4 -.-> CHEBI_26836
    ing9_Na2MoO4_x_2_H2O["Na2MoO4 x 2 H2O"]
    CultureMech_008908 --> ing9_Na2MoO4_x_2_H2O
    CHEBI_75213["CHEBI:75213"]
    ing9_Na2MoO4_x_2_H2O -.-> CHEBI_75213
    ing10_MnCl2_x_4_H2O["MnCl2 x 4 H2O"]
    CultureMech_008908 --> ing10_MnCl2_x_4_H2O
    CHEBI_86368["CHEBI:86368"]
    ing10_MnCl2_x_4_H2O -.-> CHEBI_86368
    ing11_ZnSO4_x_7_H2O["ZnSO4 x 7 H2O"]
    CultureMech_008908 --> ing11_ZnSO4_x_7_H2O
    CHEBI_32312["CHEBI:32312"]
    ing11_ZnSO4_x_7_H2O -.-> CHEBI_32312
    ing12_CuCl2_x_2_H2O["CuCl2 x 2 H2O"]
    CultureMech_008908 --> ing12_CuCl2_x_2_H2O
    CHEBI_86318["CHEBI:86318"]
    ing12_CuCl2_x_2_H2O -.-> CHEBI_86318
    ing13_VOSO4_x_2_H2O["VOSO4 x 2 H2O"]
    CultureMech_008908 --> ing13_VOSO4_x_2_H2O
    CHEBI_87009["CHEBI:87009"]
    ing13_VOSO4_x_2_H2O -.-> CHEBI_87009
    ing14_Na2B4O7_x_10_H2O["Na2B4O7 x 10 H2O"]
    CultureMech_008908 --> ing14_Na2B4O7_x_10_H2O
    CHEBI_131366["CHEBI:131366"]
    ing14_Na2B4O7_x_10_H2O -.-> CHEBI_131366
    ing15_CoSO4["CoSO4"]
    CultureMech_008908 --> ing15_CoSO4
    CHEBI_53470["CHEBI:53470"]
    ing15_CoSO4 -.-> CHEBI_53470
    ing16_HCl["HCl"]
    CultureMech_008908 --> ing16_HCl
    CHEBI_17883["CHEBI:17883"]
    ing16_HCl -.-> CHEBI_17883

Ingredients (17)

#	Ingredient	Concentration	Ontology	Notes
1	Distilled water H2O 18.015 g/mol	1000.0 G_PER_L	CHEBI:15377 water	Role: Solvating media; Properties: Inorganic compound, Defined component, Simple component [Collapsed 2 identical duplicates: 1000.0, 1000.0]
2	MgSO4 x 7 H2O 7H2O.Mg.O4S 246.473 g/mol	0.25 G_PER_L	CHEBI:31795 magnesium sulfate heptahydrate	Role: Mineral source; Properties: Inorganic compound, Defined component, Simple component
3	CaCl2 x 2 H2O Ca.2Cl.2H2O 147.014 g/mol	0.07 G_PER_L	CHEBI:86158 calcium chloride dihydrate	Role: Mineral source; Properties: Inorganic compound, Defined component, Simple component
4	KH2PO4 H2O4P.K 136.084 g/mol	0.28 G_PER_L	CHEBI:63036 potassium dihydrogen phosphate	Role: Buffer; Properties: Inorganic compound, Defined component, Simple component
5	(NH4)2SO4 2H4N.O4S 132.141 g/mol	1.3 G_PER_L	CHEBI:62946 ammonium sulfate	Role: Nitrogen source; Properties: Inorganic compound, Defined component, Simple component
6	FeCl3 x 6 H2O Cl3Fe.6H2O 270.294 g/mol	0.02 G_PER_L	CHEBI:86254 iron trichloride hexahydrate	Role: Mineral source; Properties: Inorganic compound, Defined component, Simple component
7	powdered sulfur	0.5 G_PER_L		Role: Mineral source; Properties: Inorganic compound, Defined component, Simple component
8	sulfide ore	20 G_PER_L		Role: Mineral source; Properties: Inorganic compound, Defined component, Simple component
9	H2SO4 H2O4S 98.079 g/mol	variable VARIABLE	CHEBI:26836 sulfuric acid	Role: Mineral source; Properties: Defined component, Inorganic compound, Solution
10	Na2MoO4 x 2 H2O 2H2O.MoO4.2Na 241.946 g/mol	3 G_PER_L	CHEBI:75213 sodium molybdate dihydrate	Role: Mineral source; Properties: Inorganic compound, Defined component, Simple component
11	MnCl2 x 4 H2O Cl2Mn.4H2O 197.904 g/mol	180 G_PER_L	CHEBI:86368 manganese(II) chloride tetrahydrate	Role: Mineral source; Properties: Inorganic compound, Defined component, Simple component
12	ZnSO4 x 7 H2O 7H2O.O4S.Zn 287.558 g/mol	22 G_PER_L	CHEBI:32312 zinc sulfate heptahydrate	Role: Mineral source; Properties: Inorganic compound, Defined component, Simple component
13	CuCl2 x 2 H2O Cl2Cu.2H2O 170.482 g/mol	5 G_PER_L	CHEBI:86318 copper(II) chloride dihydrate	Role: Mineral source; Properties: Inorganic compound, Defined component, Simple component
14	VOSO4 x 2 H2O 2H2O.O4S.OV 199.036 g/mol	3 G_PER_L	CHEBI:87009 vanadyl sulfate dihydrate	Role: Mineral source; Properties: Inorganic compound, Defined component, Simple component
15	Na2B4O7 x 10 H2O 10H2O.H4B4O9.2Na 417.401 g/mol	450 G_PER_L	CHEBI:131366 disodium tetraborate decahydrate	Role: Mineral source; Properties: Inorganic compound, Defined component, Simple component
16	CoSO4 Co.O4S 154.996 g/mol	1 G_PER_L	CHEBI:53470 cobalt(2+) sulfate	Role: Mineral source; Properties: Inorganic compound, Defined component, Simple component
17	HCl HCl 36.461 g/mol	variable VARIABLE	CHEBI:17883 hydrogen chloride	Role: Solvating media; Properties: Defined component, Solution, Inorganic compound

Solutions

Allen’s trace element solution

Dose: 10 G_PER_L

Target organisms and growth evidence

These are curated observations and conditions for named organisms; they do not imply universal growth suitability.

Preferred term
Metallosphaera sedula
Term
Id
NCBITaxon:43687
Label
Metallosphaera sedula
Strain
DSM 5348T (TH2)
Genome assembly id
- GCA_000016605.1
Evidence
- Reference
  doi:10.1128/AEM.02019-07
  Supports
  SUPPORT
  Explanation
  Auernik et al. 2008 directly reports DSMZ 88 cultivation of the DSM 5348 type strain (exact parent match). Full DSMZ 88 recipe is referenced by name rather than printed; parent formulation is inherited from this record. | Identifiers: DSM 5348T; GenBank CP000682; RefSeq NC_009440.1
  Snippet
  Cells (DSMZ 5348) were grown aerobically at 70°C in an orbital shaking oil bath at 70 rpm on DSMZ 88 medium (pH 2), supplemented with 0.1% yeast extract (YE).
Preferred term
Sulfuracidifex metallicus
Term
Id
NCBITaxon:47303
Label
Sulfuracidifex metallicus
Strain
DSM 6482
Genome assembly id
- GCA_009729515.1
Evidence
- Reference
  doi:10.1128/mbio.01033-24
  Supports
  SUPPORT
  Explanation
  Willard et al. 2024 prints a DSM-88/Brock's salts formulation for DSM 6482. Relative to the parent (which lists sulfide ore) this is a recognizable supplemented MediaVariant rather than the exact parent recipe. | Identifiers: DSM 6482; also classified as Sulfuracidifex metallicus

Recipe variants

Name
dsmz88_sulfolobus_supplemented_yeast_extract_ferrous_iron
Relationship
SUPPLEMENTED_VARIANT
Description
DSMZ medium 88 / Sulfolobus medium with organic and/or ferrous-iron supplementation used for M. sedula DSM 5348 cultivation (Auernik 2008).
Modifications
- Base DSMZ medium 88 (Brock's salts), pH 2.0, 70C, aerobic
- Add 0.1% yeast extract (mixotrophic) or 0.1% tryptone (heterotrophic)
- Optional ~7.5 g/L FeSO4.7H2O, or FeS2/pyrite as sole energy source
Purpose
Mixotrophic/heterotrophic and iron/pyrite-oxidizing cultivation of Metallosphaera sedula DSM 5348.
Evidence
- Reference
  doi:10.1128/AEM.02019-07
  Supports
  SUPPORT
  Explanation
  Auernik et al. 2008 documents the supplement set.

Provenance

Timestamp	Curator	Action	Notes
2026-01-27T06:35:56.335487Z	togo-import	Imported from TOGO Medium	Source: TOGO, ID: M2320
2026-01-28T19:48:41.188875Z	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: H2SO4; Added default concentration for ingredient: HCl
2026-03-09T08:05:09.375989+00:00	solution-migrator-v1.0	Migrated solutions from ingredients to solutions array	Moved 1 solution(s) from ingredients
2026-03-13T03:09:41.143942Z	data-quality-cleanup-v1.0	Data quality fixes	Merged 1 duplicate ingredient(s)
2026-03-13T06:20:01.204619Z	culturemech-id-assigner-v1.0	Assigned CultureMech ID	Assigned stable identifier: CultureMech:008908
2026-03-14T00:00:00+00:00	schema-defaulter-v1.0	Applied schema defaults and normalizations	Added default solution name
2026-03-17T06:30:53.000000Z	mediaingredientmech-enrichment-v1.0	Added MediaIngredientMech links	Linked ingredients to MediaIngredientMech identifiers
2026-03-17T19:46:19.912973+00:00	normalize_media_names_to_snake_case.py	NAME_NORMALIZED	Normalized name from "Sulfolobus Medium (For DSM 5348)" to "sulfolobus_medium_for_dsm_5348" for consistent matching
2026-05-16T09:04:32.788981+00:00	migrate_legacy_fields.py	MIGRATED_LEGACY_FIELDS	curation_history.date->timestamp=2
2026-06-05T07:41:47.444438+00:00	mim-legacy-to-chebi-migration-v1.0	Refreshed legacy MediaIngredientMech links to CHEBI keying	Replaced 13 legacy mediaingredientmech_term link(s) with mediaingredientmech_chebi_term (id-safe: ingredient's own CHEBI + label). MIM deprecated the MediaIngredientMech:NNNNNN id scheme.
2026-06-10T06:58:33.341307+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.
2026-06-10T07:47:12.016885+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.
2026-06-02T06:47:50.280515+00:00	deep-research-edison-phase2	ENRICHED	Phase-2: Metallosphaera sedula DSM 5348T (the type strain named in the record) is directly supported on DSMZ medium 88 (Sulfolobus medium) at pH 2.0, 70C (Auernik 2008). Sulfolobus (Sulfuracidifex) metallicus DSM 6482 grows on recognizable DSM-88 variants. Sulfolobus acidocaldarius DSM 639 was deliberately EXCLUDED: phase-2 found it grows on a plain Brock's basal-salts medium (a distinct medium family, not the DSM-88 formulation captured here) that warrants its own record, not an addition here. [added 2 organism(s), 1 variant(s)]
2026-08-06T00:58:02.588077+00:00	curate_organism_culture_type.py	SET_ORGANISM_CULTURE_TYPE	Inferred isolate: 2 specific strain(s) named, no community signal (#142)
2026-09-02T07:37:31.965274+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.