deferribacter_desulfuricans_medium

CultureMech:002109 bacterial COMPLEX LIQUID
Original name: DEFERRIBACTER DESULFURICANS MEDIUM

Overview

External ontology
mediadive.medium:935a (source link unavailable) — DEFERRIBACTER DESULFURICANS MEDIUM
Applications
  • Microbial cultivation
Synonyms
  • {'name': 'deferribacter_medium', 'source': 'KOMODO', 'source_id': 'komodo.medium:935', 'original_category': 'bacterial'}
  • {'name': 'for_dsm_14813', 'source': 'KOMODO', 'source_id': 'komodo.medium:935.1', 'original_category': 'bacterial'}
  • {'name': 'medium_935_modified_for_dsm_14783', 'source': 'KOMODO', 'source_id': 'komodo.medium:935_14783', 'original_category': 'bacterial'}
pH
6.5
Notes
Source: DSMZ | Link: https://www.dsmz.de/microorganisms/medium/pdf/DSMZ_Medium935b.pdf

Composition

flowchart LR
    CultureMech_002109["deferribacter_desulfuricans_medium"]
    ing0_NH4Cl["NH4Cl"]
    CultureMech_002109 --> ing0_NH4Cl
    CHEBI_31206["CHEBI:31206"]
    ing0_NH4Cl -.-> CHEBI_31206
    ing1_KCl["KCl"]
    CultureMech_002109 --> ing1_KCl
    CHEBI_32588["CHEBI:32588"]
    ing1_KCl -.-> CHEBI_32588
    ing2_CaCl2_x_2_H2O["CaCl2 x 2 H2O"]
    CultureMech_002109 --> ing2_CaCl2_x_2_H2O
    CHEBI_86158["CHEBI:86158"]
    ing2_CaCl2_x_2_H2O -.-> CHEBI_86158
    ing3_MgCl2_x_6_H2O["MgCl2 x 6 H2O"]
    CultureMech_002109 --> ing3_MgCl2_x_6_H2O
    CHEBI_86345["CHEBI:86345"]
    ing3_MgCl2_x_6_H2O -.-> CHEBI_86345
    ing4_KH2PO4["KH2PO4"]
    CultureMech_002109 --> ing4_KH2PO4
    CHEBI_63036["CHEBI:63036"]
    ing4_KH2PO4 -.-> CHEBI_63036
    ing5_NaCl["NaCl"]
    CultureMech_002109 --> ing5_NaCl
    CHEBI_26710["CHEBI:26710"]
    ing5_NaCl -.-> CHEBI_26710
    ing6_KNO3["KNO3"]
    CultureMech_002109 --> ing6_KNO3
    CHEBI_63043["CHEBI:63043"]
    ing6_KNO3 -.-> CHEBI_63043
    ing7_Na_acetate["Na-acetate"]
    CultureMech_002109 --> ing7_Na_acetate
    CHEBI_32954["CHEBI:32954"]
    ing7_Na_acetate -.-> CHEBI_32954
    ing8_Yeast_extract["Yeast extract"]
    CultureMech_002109 --> ing8_Yeast_extract
    ing9_Na2CO3["Na2CO3"]
    CultureMech_002109 --> ing9_Na2CO3
    CHEBI_29377["CHEBI:29377"]
    ing9_Na2CO3 -.-> CHEBI_29377
    ing10_Na2S["Na2S"]
    CultureMech_002109 --> ing10_Na2S
    CHEBI_76208["CHEBI:76208"]
    ing10_Na2S -.-> CHEBI_76208
    ing11_Nitrilotriacetic_acid["Nitrilotriacetic acid"]
    CultureMech_002109 --> ing11_Nitrilotriacetic_acid
    CHEBI_44557["CHEBI:44557"]
    ing11_Nitrilotriacetic_acid -.-> CHEBI_44557
    ing12_MgSO4_x_7_H2O["MgSO4 x 7 H2O"]
    CultureMech_002109 --> ing12_MgSO4_x_7_H2O
    CHEBI_31795["CHEBI:31795"]
    ing12_MgSO4_x_7_H2O -.-> CHEBI_31795
    ing13_MnSO4_x_H2O["MnSO4 x H2O"]
    CultureMech_002109 --> ing13_MnSO4_x_H2O
    CHEBI_86364["CHEBI:86364"]
    ing13_MnSO4_x_H2O -.-> CHEBI_86364
    ing14_FeSO4_x_7_H2O["FeSO4 x 7 H2O"]
    CultureMech_002109 --> ing14_FeSO4_x_7_H2O
    CHEBI_75836["CHEBI:75836"]
    ing14_FeSO4_x_7_H2O -.-> CHEBI_75836
    ing15_CoSO4_x_7_H2O["CoSO4 x 7 H2O"]
    CultureMech_002109 --> ing15_CoSO4_x_7_H2O
    CHEBI_91244["CHEBI:91244"]
    ing15_CoSO4_x_7_H2O -.-> CHEBI_91244
    ing16_ZnSO4_x_7_H2O["ZnSO4 x 7 H2O"]
    CultureMech_002109 --> ing16_ZnSO4_x_7_H2O
    CHEBI_32312["CHEBI:32312"]
    ing16_ZnSO4_x_7_H2O -.-> CHEBI_32312
    ing17_CuSO4_x_5_H2O["CuSO4 x 5 H2O"]
    CultureMech_002109 --> ing17_CuSO4_x_5_H2O
    CHEBI_31440["CHEBI:31440"]
    ing17_CuSO4_x_5_H2O -.-> CHEBI_31440
    ing18_AlK_SO4_2_x_12_H2O["AlK(SO4)2 x 12 H2O"]
    CultureMech_002109 --> ing18_AlK_SO4_2_x_12_H2O
    CHEBI_86465["CHEBI:86465"]
    ing18_AlK_SO4_2_x_12_H2O -.-> CHEBI_86465
    ing19_H3BO3["H3BO3"]
    CultureMech_002109 --> ing19_H3BO3
    CHEBI_33118["CHEBI:33118"]
    ing19_H3BO3 -.-> CHEBI_33118
    ing20_Na2MoO4_x_2_H2O["Na2MoO4 x 2 H2O"]
    CultureMech_002109 --> ing20_Na2MoO4_x_2_H2O
    CHEBI_75213["CHEBI:75213"]
    ing20_Na2MoO4_x_2_H2O -.-> CHEBI_75213
    ing21_NiCl2_x_6_H2O["NiCl2 x 6 H2O"]
    CultureMech_002109 --> ing21_NiCl2_x_6_H2O
    CHEBI_34887["CHEBI:34887"]
    ing21_NiCl2_x_6_H2O -.-> CHEBI_34887
    ing22_Na2SeO3_x_5_H2O["Na2SeO3 x 5 H2O"]
    CultureMech_002109 --> ing22_Na2SeO3_x_5_H2O
    CHEBI_131361["CHEBI:131361"]
    ing22_Na2SeO3_x_5_H2O -.-> CHEBI_131361
    ing23_Na2WO4_x_2_H2O["Na2WO4 x 2 H2O"]
    CultureMech_002109 --> ing23_Na2WO4_x_2_H2O
    CHEBI_63939["CHEBI:63939"]
    ing23_Na2WO4_x_2_H2O -.-> CHEBI_63939
    ing24_Biotin["Biotin"]
    CultureMech_002109 --> ing24_Biotin
    CHEBI_15956["CHEBI:15956"]
    ing24_Biotin -.-> CHEBI_15956
    ing25_Folic_acid["Folic acid"]
    CultureMech_002109 --> ing25_Folic_acid
    CHEBI_27470["CHEBI:27470"]
    ing25_Folic_acid -.-> CHEBI_27470
    ing26_Pyridoxine_hydrochloride["Pyridoxine hydrochloride"]
    CultureMech_002109 --> ing26_Pyridoxine_hydrochloride
    CHEBI_30961["CHEBI:30961"]
    ing26_Pyridoxine_hydrochloride -.-> CHEBI_30961
    ing27_Thiamine_HCl["Thiamine HCl"]
    CultureMech_002109 --> ing27_Thiamine_HCl
    CHEBI_49105["CHEBI:49105"]
    ing27_Thiamine_HCl -.-> CHEBI_49105
    ing28_Riboflavin["Riboflavin"]
    CultureMech_002109 --> ing28_Riboflavin
    CHEBI_17015["CHEBI:17015"]
    ing28_Riboflavin -.-> CHEBI_17015
    ing29_Nicotinic_acid["Nicotinic acid"]
    CultureMech_002109 --> ing29_Nicotinic_acid
    CHEBI_15940["CHEBI:15940"]
    ing29_Nicotinic_acid -.-> CHEBI_15940
    CultureMech_002109 --> more["...4 more"]

Ingredients (34)

# Ingredient Concentration Ontology Notes
1 NH4Cl
Cl.H4N 53.492 g/mol
0.326409 G_PER_L CHEBI:31206
ammonium chloride
2 KCl
Cl.K 74.551 g/mol
0.326409 G_PER_L CHEBI:32588
potassium chloride
3 CaCl2 x 2 H2O
Ca.2Cl.2H2O 147.014 g/mol
0.42640900000000004 G_PER_L CHEBI:86158
calcium chloride dihydrate
 [Merged 2 duplicates: 0.326409, 0.1]
4 MgCl2 x 6 H2O
2Cl.6H2O.Mg 203.301 g/mol
0.326409 G_PER_L CHEBI:86345
magnesium dichloride hexahydrate
5 KH2PO4
H2O4P.K 136.084 g/mol
0.326409 G_PER_L CHEBI:63036
potassium dihydrogen phosphate
6 NaCl
Cl.Na 58.443 g/mol
25.728 G_PER_L CHEBI:26710
sodium chloride
 [Merged 2 duplicates: 24.728, 1.0]
7 KNO3
K.NO3 101.102 g/mol
0.49456 G_PER_L CHEBI:63043
potassium nitrate
8 Na-acetate
C2H3O2.Na 82.034 g/mol
0.791296 G_PER_L CHEBI:32954
sodium acetate
9 Yeast extract 0.49456 G_PER_L
10 Na2CO3
CO3.2Na 105.988 g/mol
0.49456 G_PER_L CHEBI:29377
sodium carbonate
11 Na2S
2Na.S 78.047 g/mol
0.296736 G_PER_L CHEBI:76208
sodium sulfide (anhydrous)
12 Nitrilotriacetic acid
C6H9NO6 191.139 g/mol
1.5 G_PER_L CHEBI:44557
nitrilotriacetic acid
13 MgSO4 x 7 H2O
7H2O.Mg.O4S 246.473 g/mol
3 G_PER_L CHEBI:31795
magnesium sulfate heptahydrate
14 MnSO4 x H2O
H2O.Mn.O4S 169.016 g/mol
0.5 G_PER_L CHEBI:86364
manganese(II) sulfate monohydrate
15 FeSO4 x 7 H2O
Fe.7H2O.O4S 278.013 g/mol
0.1 G_PER_L CHEBI:75836
iron(2+) sulfate heptahydrate
16 CoSO4 x 7 H2O
Co.7H2O.O4S 281.101 g/mol
0.18 G_PER_L CHEBI:91244
cobalt(2+) sulfate heptahydrate
17 ZnSO4 x 7 H2O
7H2O.O4S.Zn 287.558 g/mol
0.18 G_PER_L CHEBI:32312
zinc sulfate heptahydrate
18 CuSO4 x 5 H2O
Cu.5H2O.O4S 249.684 g/mol
0.01 G_PER_L CHEBI:31440
copper(II) sulfate pentahydrate
19 AlK(SO4)2 x 12 H2O
Al.12H2O.K.2O4S 474.386 g/mol
0.02 G_PER_L CHEBI:86465
potassium aluminium sulfate dodecahydrate
20 H3BO3
H3BO3 61.833 g/mol
0.01 G_PER_L CHEBI:33118
boric acid
21 Na2MoO4 x 2 H2O
2H2O.MoO4.2Na 241.946 g/mol
0.01 G_PER_L CHEBI:75213
sodium molybdate dihydrate
22 NiCl2 x 6 H2O
Cl2Ni 129.599 g/mol
0.03 G_PER_L CHEBI:34887
nickel dichloride
23 Na2SeO3 x 5 H2O
5H2O.2Na.O3Se 263.012 g/mol
0.0003 G_PER_L CHEBI:131361
disodium selenite pentahydrate
24 Na2WO4 x 2 H2O
2H2O.2Na.O4W 329.846 g/mol
0.0004 G_PER_L CHEBI:63939
sodium tungstate dihydrate
25 Biotin
C10H16N2O3S 244.316 g/mol
0.02 G_PER_L CHEBI:15956
biotin
26 Folic acid
C19H19N7O6 441.404 g/mol
0.02 G_PER_L CHEBI:27470
folic acid
27 Pyridoxine hydrochloride
C8H11NO3.HCl 205.641 g/mol
0.1 G_PER_L CHEBI:30961
pyridoxine hydrochloride
28 Thiamine HCl
C12H17N4OS.Cl.HCl 337.276 g/mol
0.05 G_PER_L CHEBI:49105
thiamine hydrochloride
29 Riboflavin
C17H20N4O6 376.369 g/mol
0.05 G_PER_L CHEBI:17015
riboflavin
30 Nicotinic acid
C6H5NO2 123.111 g/mol
0.05 G_PER_L CHEBI:15940
nicotinic acid
31 Calcium D-(+)-pantothenate
2C9H16NO5.Ca 476.536 g/mol
0.05 G_PER_L CHEBI:31345
Calcium pantothenate
32 Vitamin B12 0.001 G_PER_L CHEBI:176843
vitamin B12
33 p-Aminobenzoic acid
C7H7NO2 137.138 g/mol
0.05 G_PER_L CHEBI:30753
4-aminobenzoic acid
34 (DL)-alpha-Lipoic acid
C8H14O2S2 206.332 g/mol
0.05 G_PER_L CHEBI:16494
lipoic acid

Preparation

  1. Dissolve ingredients (except carbonate, vitamins and sulfide), then sparge medium with 80% H2 and 20% CO2 gas mixture for 30 - 45 min to make it anoxic. Dispense medium under the same gas atmosphere into anoxic Hungate-type tubes or serum vials to 30% of their volume and autoclave. Add vitamins and sulfide from sterile anoxic stock solutions prepared under 100% N2 gas. Vitamins should be sterilized by filtration. Add carbonate from a sterile anoxic stock solution prepared under 80% N2 and 20% CO2 gas atmosphere. The pH of the complete medium should be 6.5.
  2. First dissolve nitrilotriacetic acid and adjust pH to 6.5 with KOH, then add minerals. Adjust final to pH 7.0 with KOH.

Target organisms

No target organisms are recorded.

Provenance

Merged from 4 source records.

TimestampCuratorActionNotes
2026-01-26T17:53:12.820286Z mediadive-import Imported from MediaDive Source: DSMZ, ID: 935a
2026-02-06T05:10:41.555886Z invalid-chebi-removal Removed 1 invalid CHEBI ID(s) Removed CHEBI IDs with invalid format (7+ digits) from MicrobeMediaParam source data
2026-03-13T03:09:23.882367Z data-quality-cleanup-v1.0 Data quality fixes Merged 2 duplicate ingredient(s)
2026-03-13T06:19:10.420128Z culturemech-id-assigner-v1.0 Assigned CultureMech ID Assigned stable identifier: CultureMech:002109
2026-03-17T06:30:32.000000Z mediaingredientmech-enrichment-v1.0 Added MediaIngredientMech links Linked ingredients to MediaIngredientMech identifiers
2026-03-17T19:45:23.083537+00:00 normalize_media_names_to_snake_case.py NAME_NORMALIZED Normalized name from "DEFERRIBACTER DESULFURICANS MEDIUM" to "deferribacter_desulfuricans_medium" for consistent matching
2026-06-05T07:40:55.427517+00:00 mim-legacy-to-chebi-migration-v1.0 Refreshed legacy MediaIngredientMech links to CHEBI keying Replaced 31 legacy mediaingredientmech_term link(s) with mediaingredientmech_chebi_term (id-safe: ingredient's own CHEBI + label). MIM deprecated the MediaIngredientMech:NNNNNN id scheme.
2026-06-10T07:37:34.678812+00:00 primary-term-regrounding-v1.0 Re-grounded wrong primary term id (OAK-verified) 1 primary term(s); ingredient name resolved by OAK sqlite:obo:chebi.
2026-06-10T07:46:55.145974+00:00 primary-term-label-canonicalization-v1.0 Canonicalized primary term label to OBO canonical (OAK) 6 primary term(s); ingredient name resolved by OAK sqlite:obo:chebi.
2026-08-06T03:05:02.375351+00:00 recipe-merger Merged 4 duplicate recipes into canonical record Sources: KOMODO_935_DEFERRIBACTER_medium, deferribacter_desulfuricans_medium, for_dsm_14813, medium_935_modified_for_dsm_14783
2026-08-06T03:05:02.375425+00:00 merge_recipes.py MERGED_RECIPES merged 4 source recipe(s) on fingerprint 88d2b23305e3db3c4088b9bfd77193821dce191fcc1c478b2f365302efb90c76