desulfurobacterium_medium

CultureMech:001978 bacterial COMPLEX LIQUID
Original name: DESULFUROBACTERIUM MEDIUM

Overview

External ontology
mediadive.medium:829 (source link unavailable) — DESULFUROBACTERIUM MEDIUM
Applications
  • Microbial cultivation
pH
6.0
Notes
Source: DSMZ | Link: https://www.dsmz.de/microorganisms/medium/pdf/DSMZ_Medium829.pdf Superseded historical provenance, not a current formulation claim: Commercial Product: LB Medium (Luria-Bertani, Miller formulation) Supplier: Multiple suppliers (Difco, Sigma, etc.) Catalog: Multiple (L3522 Sigma, 244520 BD) Source: https://www.laboratorynotes.com/preparation-of-luria-bertani-lb-miller-broth/ Accessed: 2026-03-28 Constituent composition researched from product specification. The original reports final volume 1005 ml, while its listed main liquid inputs sum to 1005.5 ml. Preserve the discrepancy. Source-reported basal rates do not certify independently measured final volume; no missing makeup water is invented. Full exact-source recipe and stock/preparation tables were inspected. Reconstructed nodes retain explicit source scope; complete prior ingredient/stock assertions, including copied LB mappings and stage conflations, are archived in append-only history. A title alone is not the basis for removal. Unchanged annotations are preserved, not recertified; no new organism-growth association is added. Full exact-source recipe and stock/preparation tables were inspected. Reconstructed nodes retain explicit source scope; complete prior ingredient/stock assertions, including copied LB mappings and stage conflations, are archived in append-only history. A title alone is not the basis for removal. Unchanged annotations are preserved, not recertified; no new organism-growth association is added.

Composition

flowchart LR
    CultureMech_001978["desulfurobacterium_medium"]
    ing0_Sea_Salt["Sea Salt"]
    CultureMech_001978 --> ing0_Sea_Salt
    ing1_NH4Cl["NH4Cl"]
    CultureMech_001978 --> ing1_NH4Cl
    CHEBI_31206["CHEBI:31206"]
    ing1_NH4Cl -.-> CHEBI_31206
    ing2_KH2PO4["KH2PO4"]
    CultureMech_001978 --> ing2_KH2PO4
    CHEBI_63036["CHEBI:63036"]
    ing2_KH2PO4 -.-> CHEBI_63036
    ing3_MES__2__N_morpholino__ethane_sulfonic_acid_["MES [2-(N-morpholino) ethane sulfonic acid]"]
    CultureMech_001978 --> ing3_MES__2__N_morpholino__ethane_sulfonic_acid_
    CHEBI_39005["CHEBI:39005"]
    ing3_MES__2__N_morpholino__ethane_sulfonic_acid_ -.-> CHEBI_39005
    ing4_Sulfur["Sulfur"]
    CultureMech_001978 --> ing4_Sulfur
    CHEBI_26833["CHEBI:26833"]
    ing4_Sulfur -.-> CHEBI_26833
    ing5_Na2CO3["Na2CO3"]
    CultureMech_001978 --> ing5_Na2CO3
    CHEBI_29377["CHEBI:29377"]
    ing5_Na2CO3 -.-> CHEBI_29377
    ing6_Distilled_water["Distilled water"]
    CultureMech_001978 --> ing6_Distilled_water

Ingredients (7)

# Ingredient Concentration Ontology Notes
1 Sea Salt 29.8507 G_PER_L Direct basal input 30 g / source-reported final volume 1.005 L = 29.8507 g/L, six significant digits. This is the printed denominator, not independently measured volume; the liquid-input discrepancy is retained at recipe root. Literal source attribute: SIGMA, must not show signs of caking.
2 NH4Cl
Cl.H4N 53.492 g/mol
0.995025 G_PER_L CHEBI:31206
ammonium chloride
Direct basal input 1 g / source-reported final volume 1.005 L = 0.995025 g/L, six significant digits. This is the printed denominator, not independently measured volume; the liquid-input discrepancy is retained at recipe root.
3 KH2PO4
H2O4P.K 136.084 g/mol
0.348259 G_PER_L CHEBI:63036
potassium dihydrogen phosphate
Direct basal input 0.35 g / source-reported final volume 1.005 L = 0.348259 g/L, six significant digits. This is the printed denominator, not independently measured volume; the liquid-input discrepancy is retained at recipe root.
4 MES [2-(N-morpholino) ethane sulfonic acid]
C6H13NO4S 195.24 g/mol
1.94030 G_PER_L CHEBI:39005
2-(N-morpholino)ethanesulfonic acid
Direct basal input 1.95 g / source-reported final volume 1.005 L = 1.94030 g/L, six significant digits. This is the printed denominator, not independently measured volume; the liquid-input discrepancy is retained at recipe root.
5 Sulfur
S 32.067 g/mol
9.95025 G_PER_L CHEBI:26833
sulfur atom
(powdered) Direct basal input 10 g / source-reported final volume 1.005 L = 9.95025 g/L, six significant digits. This is the printed denominator, not independently measured volume; the liquid-input discrepancy is retained at recipe root. Literal source condition: powdered.
6 Na2CO3
CO3.2Na 105.988 g/mol
0.497512 G_PER_L CHEBI:29377
sodium carbonate
Direct basal input 0.5 g / source-reported final volume 1.005 L = 0.497512 g/L, six significant digits. This is the printed denominator, not independently measured volume; the liquid-input discrepancy is retained at recipe root.
7 Distilled water 1 L Preparation input 1000 ml / 1000 = 1 L, not mass, volume percent or measured final volume.

Preparation

  1. Dissolve ingredients (except sulfur, carbonate, vitamins, growth-stimulating factors and Na-dithionite), boil medium for 1 min, then cool to room temperature under 80% H2 and 20% CO2 gas atmosphere. Adjust pH to 6.0 and dispense under 80% H2 and 20% CO2 gas atmosphere into anoxic Hungate-type tubes or serum vials which contain already the appropriate amount of sulfur, only to 30% of their volume to allow for a large head space. Autoclave at a temperature of <b>110°C</b> for 20 min! Add vitamins and growth-stimulating factors from sterile anoxic stock solutions prepared under 100% N2 gas and carbonate and Na-dithionite from sterile anoxic stock solution prepared under 80% N2 and 20% CO2 gas atmosphere. Vitamins and Na-dithionite are sterilized by filtration. Adjust pH of the complete medium to 6.0, if necessary.
  2. After inoculation use 1 bar overpressure of sterile 80% H2 and 20% CO2 gas mixture.

Solutions

Trace element solution SL-10

Dose: 0.001 L

Stock composition
IngredientConcentrationNotes
HCl 0.01 L Preparation input 10 ml / 1000 = 0.01 L, not mass, volume percent or measured final volume. Literal source attribute: 25%. The 25% carrier lacks an explicit percentage basis; no density or gram conversion is asserted.
FeCl2 x 4 H2O 1.5 G_PER_L SL-10 input 1.5 g = 1.5 g / explicit made-up stock volume 1 L. This stock rate is not a receiving-medium concentration.
ZnCl2 0.07 G_PER_L SL-10 input 70 mg = 0.07 g / explicit made-up stock volume 1 L. This stock rate is not a receiving-medium concentration.
MnCl2 x 4 H2O 0.1 G_PER_L SL-10 input 100 mg = 0.1 g / explicit made-up stock volume 1 L. This stock rate is not a receiving-medium concentration.
H3BO3 0.006 G_PER_L SL-10 input 6 mg = 0.006 g / explicit made-up stock volume 1 L. This stock rate is not a receiving-medium concentration.
CoCl2 x 6 H2O 0.19 G_PER_L SL-10 input 190 mg = 0.19 g / explicit made-up stock volume 1 L. This stock rate is not a receiving-medium concentration.
CuCl2 x 2 H2O 0.002 G_PER_L SL-10 input 2 mg = 0.002 g / explicit made-up stock volume 1 L. This stock rate is not a receiving-medium concentration.
NiCl2 x 6 H2O 0.024 G_PER_L SL-10 input 24 mg = 0.024 g / explicit made-up stock volume 1 L. This stock rate is not a receiving-medium concentration. Copied annotations do not establish this exact salt, hydrate or stereochemical form; archive them without inventing replacement identifiers.
Na2MoO4 x 2 H2O 0.036 G_PER_L SL-10 input 36 mg = 0.036 g / explicit made-up stock volume 1 L. This stock rate is not a receiving-medium concentration.
Distilled water 0.99 L Preparation input 990 ml / 1000 = 0.99 L, not mass, volume percent or measured final volume.
Receiving-batch addition 1 ml / 1000 = 0.001 L of prepared stock, not g/L or an inferred ml/L rate. Stock strength and preparation remain separate.

Selenite-tungstate solution

Dose: 0.001 L

Stock composition
IngredientConcentrationNotes
NaOH Superseded flattening history, not a current quantity: [Collapsed 2 identical duplicates: 0.5, 0.5] Source batch input: 0.5 g. No explicit final-volume/makeup statement was found for this stage in the inspected original. Retain the mass in notes; API volume/g_l and water input are not an independently verified denominator.
Na2SeO3 x 5 H2O Source batch input: 3 mg. No explicit final-volume/makeup statement was found for this stage in the inspected original. Retain the mass in notes; API volume/g_l and water input are not an independently verified denominator.
Na2WO4 x 2 H2O Source batch input: 4 mg. No explicit final-volume/makeup statement was found for this stage in the inspected original. Retain the mass in notes; API volume/g_l and water input are not an independently verified denominator.
Distilled water 1 L Preparation input 1000 ml / 1000 = 1 L, not mass, volume percent or measured final volume.
Receiving-batch addition 1 ml / 1000 = 0.001 L of prepared stock, not g/L or an inferred ml/L rate. Stock strength and preparation remain separate.

Sodium resazurin (0.1% w/v)

Dose: 0.0005 L

Stock composition
IngredientConcentrationNotes
Sodium resazurin 0.1 PERCENT_W_V Explicit 0.1% w/v indicator stock, not the concentration in receiving medium. Keep its separate 0.50 ml dose. Copied annotations do not establish this exact salt, hydrate or stereochemical form; archive them without inventing replacement identifiers.
Receiving-batch addition 0.5 ml / 1000 = 0.0005 L of prepared stock, not g/L or an inferred ml/L rate. Stock strength and preparation remain separate.

Seven vitamins solution

Dose: 0.001 L

Stock composition
IngredientConcentrationNotes
Vitamin B12 Source batch input: 100 mg. No explicit final-volume/makeup statement was found for this stage in the inspected original. Retain the mass in notes; API volume/g_l and water input are not an independently verified denominator.
p-Aminobenzoic acid Source batch input: 80 mg. No explicit final-volume/makeup statement was found for this stage in the inspected original. Retain the mass in notes; API volume/g_l and water input are not an independently verified denominator.
D-(+)-biotin Source batch input: 20 mg. No explicit final-volume/makeup statement was found for this stage in the inspected original. Retain the mass in notes; API volume/g_l and water input are not an independently verified denominator.
Nicotinic acid Source batch input: 200 mg. No explicit final-volume/makeup statement was found for this stage in the inspected original. Retain the mass in notes; API volume/g_l and water input are not an independently verified denominator.
Calcium pantothenate Source batch input: 100 mg. No explicit final-volume/makeup statement was found for this stage in the inspected original. Retain the mass in notes; API volume/g_l and water input are not an independently verified denominator.
Pyridoxine hydrochloride Source batch input: 300 mg. No explicit final-volume/makeup statement was found for this stage in the inspected original. Retain the mass in notes; API volume/g_l and water input are not an independently verified denominator.
Thiamine-HCl x 2 H2O Source batch input: 200 mg. No explicit final-volume/makeup statement was found for this stage in the inspected original. Retain the mass in notes; API volume/g_l and water input are not an independently verified denominator.
Distilled water 1 L Preparation input 1000 ml / 1000 = 1 L, not mass, volume percent or measured final volume.
Receiving-batch addition 1 ml / 1000 = 0.001 L of prepared stock, not g/L or an inferred ml/L rate. Stock strength and preparation remain separate.

Growth-stimulating factors

Dose: 0.001 L

Stock composition
IngredientConcentrationNotes
Isobutyric acid Source batch input: 5 g. No explicit final-volume/makeup statement was found for this stage in the inspected original. Retain the mass in notes; API volume/g_l and water input are not an independently verified denominator.
Valeric acid Source batch input: 5 g. No explicit final-volume/makeup statement was found for this stage in the inspected original. Retain the mass in notes; API volume/g_l and water input are not an independently verified denominator.
2-Methylbutyric acid Source batch input: 5 g. No explicit final-volume/makeup statement was found for this stage in the inspected original. Retain the mass in notes; API volume/g_l and water input are not an independently verified denominator.
3-Methylbutyric acid Source batch input: 5 g. No explicit final-volume/makeup statement was found for this stage in the inspected original. Retain the mass in notes; API volume/g_l and water input are not an independently verified denominator.
Caproic acid Source batch input: 2 g. No explicit final-volume/makeup statement was found for this stage in the inspected original. Retain the mass in notes; API volume/g_l and water input are not an independently verified denominator.
Succinic acid Source batch input: 6 g. No explicit final-volume/makeup statement was found for this stage in the inspected original. Retain the mass in notes; API volume/g_l and water input are not an independently verified denominator.
Distilled water 1 L Preparation input 1000 ml / 1000 = 1 L, not mass, volume percent or measured final volume.
NaOH Superseded flattening history, not a current quantity: [Collapsed 2 identical duplicates: 0.5, 0.5] Unquantified growth-factor stock titration to pH 9.0. No fixed addition or strength is stated; do not reuse the selenium-stock mass or dithionite carrier volume.
Receiving-batch addition 1 ml / 1000 = 0.001 L of prepared stock, not g/L or an inferred ml/L rate. Stock strength and preparation remain separate.

Na-dithionite solution (5% w/v)

Dose: 0.001 L

Stock composition
IngredientConcentrationNotes
NaOH 0.0005 L Superseded flattening history, not a current quantity: [Collapsed 2 identical duplicates: 0.5, 0.5] Preparation input 0.5 ml / 1000 = 0.0005 L, not mass, volume percent or measured final volume. Literal source attribute: 1 N. The 1 N carrier strength is separate from this input volume and from the selenium-stock NaOH mass.
Na2S2O4 5 PERCENT_W_V Source stock heading explicitly states 5% w/v. Preserve its 0.5 g batch input, carrier/water recipe and receiving dose separately; the strength is not inferred from water volume.
Distilled water 0.0095 L Preparation input 9.5 ml / 1000 = 0.0095 L, not mass, volume percent or measured final volume.
Receiving-batch addition 1 ml / 1000 = 0.001 L of prepared stock, not g/L or an inferred ml/L rate. Stock strength and preparation remain separate.

Target organisms

No target organisms are recorded.

Recipe variants

Provenance

TimestampCuratorActionNotes
2026-01-26T17:53:12.401212Z mediadive-import Imported from MediaDive Source: DSMZ, ID: 829
2026-01-28T19:48:40.912167Z chebi-enrichment Added CHEBI ontology terms to ingredients Enriched using MicrobeMediaParam and MediaDive chemical mappings
2026-03-13T03:09:40.608870Z data-quality-cleanup-v1.0 Data quality fixes Merged 1 duplicate ingredient(s)
2026-03-13T06:19:09.044746Z culturemech-id-assigner-v1.0 Assigned CultureMech ID Assigned stable identifier: CultureMech:001978
2026-03-17T06:30:52.000000Z mediaingredientmech-enrichment-v1.0 Added MediaIngredientMech links Linked ingredients to MediaIngredientMech identifiers
2026-03-17T19:45:21.555297+00:00 normalize_media_names_to_snake_case.py NAME_NORMALIZED Normalized name from "DESULFUROBACTERIUM MEDIUM" to "desulfurobacterium_medium" for consistent matching
2026-06-05T07:40:58.325873+00:00 mim-legacy-to-chebi-migration-v1.0 Refreshed legacy MediaIngredientMech links to CHEBI keying Replaced 29 legacy mediaingredientmech_term link(s) with mediaingredientmech_chebi_term (id-safe: ingredient's own CHEBI + label). MIM deprecated the MediaIngredientMech:NNNNNN id scheme.
2026-06-10T07:46:56.235729+00:00 primary-term-label-canonicalization-v1.0 Canonicalized primary term label to OBO canonical (OAK) 5 primary term(s); ingredient name resolved by OAK sqlite:obo:chebi.
2026-08-07T07:05:21.999367+00:00 apply_cocktail_nesting.py NESTED_FLATTENED_COCKTAIL Moved 5 stock-strength component(s) out of ingredients into 2 solution(s): 1 -> 'Trace element solution SL-10' @ 1 ml/l; 4 -> 'Seven vitamins solution' @ 1 ml/l. Each moved component matched the MediaDive stock by name AND value; bulk ingredients sharing a name were left in place (#150).
2026-08-15T20:07:58.058745+00:00 dedupe_identical_ingredients.py REMOVED_DUPLICATE_INGREDIENT_ROWS Removed 3 ingredient row(s) that were identical in every field to another row in this record, which made the recipe read as double-strength in those components (#263): Sodium chloride, Tryptone, Yeast extract.
2026-09-02T07:38:03.429470+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.
2026-10-09T04:52:49.323535+00:00 codex RESTORED_MEDIUM_829_SOURCE_FORMULATIONS_AND_STOCK_SCOPES_WITH_EVIDENCE Restore exact-source medium-829 formulations and stock boundaries, preserve provider rates/nulls and source conflicts, repair quantity units and family scope, and retain prior evidence/history. Each scientific change is linked to an inspected source excerpt; no growth association inferred.