oxobacter_pfennigii_medium

CultureMech:001436 bacterial COMPLEX LIQUID
Original name: OXOBACTER PFENNIGII MEDIUM

Overview

External ontology
mediadive.medium:336 (source link unavailable) — OXOBACTER PFENNIGII MEDIUM
Applications
  • Microbial cultivation
pH range
{'min': 7.0, 'max': 7.2}
Notes
Source: DSMZ | Link: https://www.dsmz.de/microorganisms/medium/pdf/DSMZ_Medium336.pdf

Composition

flowchart LR
    CultureMech_001436["oxobacter_pfennigii_medium"]
    ing0_Yeast_extract["Yeast extract"]
    CultureMech_001436 --> ing0_Yeast_extract
    ing1_Na_vanillate["Na-vanillate"]
    CultureMech_001436 --> ing1_Na_vanillate
    CHEBI_132748["CHEBI:132748"]
    ing1_Na_vanillate -.-> CHEBI_132748
    ing2_Sodium_resazurin["Sodium resazurin"]
    CultureMech_001436 --> ing2_Sodium_resazurin
    CHEBI_8806["CHEBI:8806"]
    ing2_Sodium_resazurin -.-> CHEBI_8806
    ing3_Na2CO3["Na2CO3"]
    CultureMech_001436 --> ing3_Na2CO3
    CHEBI_29377["CHEBI:29377"]
    ing3_Na2CO3 -.-> CHEBI_29377
    ing4_L_Cysteine_HCl_x_H2O["L-Cysteine HCl x H2O"]
    CultureMech_001436 --> ing4_L_Cysteine_HCl_x_H2O
    CHEBI_91248["CHEBI:91248"]
    ing4_L_Cysteine_HCl_x_H2O -.-> CHEBI_91248
    ing5_Na2S_x_9_H2O["Na2S x 9 H2O"]
    CultureMech_001436 --> ing5_Na2S_x_9_H2O
    CHEBI_76209["CHEBI:76209"]
    ing5_Na2S_x_9_H2O -.-> CHEBI_76209
    ing6_KH2PO4["KH2PO4"]
    CultureMech_001436 --> ing6_KH2PO4
    CHEBI_63036["CHEBI:63036"]
    ing6_KH2PO4 -.-> CHEBI_63036
    ing7_MgCl2_x_6_H2O["MgCl2 x 6 H2O"]
    CultureMech_001436 --> ing7_MgCl2_x_6_H2O
    CHEBI_86345["CHEBI:86345"]
    ing7_MgCl2_x_6_H2O -.-> CHEBI_86345
    ing8_NaCl["NaCl"]
    CultureMech_001436 --> ing8_NaCl
    CHEBI_26710["CHEBI:26710"]
    ing8_NaCl -.-> CHEBI_26710
    ing9_NH4Cl["NH4Cl"]
    CultureMech_001436 --> ing9_NH4Cl
    CHEBI_31206["CHEBI:31206"]
    ing9_NH4Cl -.-> CHEBI_31206
    ing10_CaCl2_x_2_H2O["CaCl2 x 2 H2O"]
    CultureMech_001436 --> ing10_CaCl2_x_2_H2O
    CHEBI_86158["CHEBI:86158"]
    ing10_CaCl2_x_2_H2O -.-> CHEBI_86158
    ing11_HCl["HCl"]
    CultureMech_001436 --> ing11_HCl
    CHEBI_17883["CHEBI:17883"]
    ing11_HCl -.-> CHEBI_17883
    ing12_ZnCl2["ZnCl2"]
    CultureMech_001436 --> ing12_ZnCl2
    CHEBI_49976["CHEBI:49976"]
    ing12_ZnCl2 -.-> CHEBI_49976
    ing13_MnCl2_x_4_H2O["MnCl2 x 4 H2O"]
    CultureMech_001436 --> ing13_MnCl2_x_4_H2O
    CHEBI_86368["CHEBI:86368"]
    ing13_MnCl2_x_4_H2O -.-> CHEBI_86368
    ing14_H3BO3["H3BO3"]
    CultureMech_001436 --> ing14_H3BO3
    CHEBI_33118["CHEBI:33118"]
    ing14_H3BO3 -.-> CHEBI_33118
    ing15_CoCl2_x_6_H2O["CoCl2 x 6 H2O"]
    CultureMech_001436 --> ing15_CoCl2_x_6_H2O
    CHEBI_53503["CHEBI:53503"]
    ing15_CoCl2_x_6_H2O -.-> CHEBI_53503
    ing16_CuCl2_x_2_H2O["CuCl2 x 2 H2O"]
    CultureMech_001436 --> ing16_CuCl2_x_2_H2O
    CHEBI_86318["CHEBI:86318"]
    ing16_CuCl2_x_2_H2O -.-> CHEBI_86318
    ing17_NiCl2_x_6_H2O["NiCl2 x 6 H2O"]
    CultureMech_001436 --> ing17_NiCl2_x_6_H2O
    CHEBI_34887["CHEBI:34887"]
    ing17_NiCl2_x_6_H2O -.-> CHEBI_34887
    ing18_Na2MoO4_x_2_H2O["Na2MoO4 x 2 H2O"]
    CultureMech_001436 --> ing18_Na2MoO4_x_2_H2O
    CHEBI_75213["CHEBI:75213"]
    ing18_Na2MoO4_x_2_H2O -.-> CHEBI_75213
    ing19_p_Aminobenzoic_acid["p-Aminobenzoic acid"]
    CultureMech_001436 --> ing19_p_Aminobenzoic_acid
    CHEBI_30753["CHEBI:30753"]
    ing19_p_Aminobenzoic_acid -.-> CHEBI_30753
    ing20_D_____biotin["D-(+)-biotin"]
    CultureMech_001436 --> ing20_D_____biotin
    CHEBI_15956["CHEBI:15956"]
    ing20_D_____biotin -.-> CHEBI_15956
    ing21_Calcium_pantothenate["Calcium pantothenate"]
    CultureMech_001436 --> ing21_Calcium_pantothenate
    CHEBI_31345["CHEBI:31345"]
    ing21_Calcium_pantothenate -.-> CHEBI_31345

Ingredients (22)

# Ingredient Concentration Ontology Notes
1 Yeast extract 2.05761 G_PER_L
2 Na-vanillate
C8H7O4.Na 190.13 g/mol
2.05761 G_PER_L CHEBI:132748
sodium vanillate
3 Sodium resazurin
C12H7NO4 229.191 g/mol
0.0005 G_PER_L CHEBI:8806
Resazurin
4 Na2CO3
CO3.2Na 105.988 g/mol
50 G_PER_L CHEBI:29377
sodium carbonate
5 L-Cysteine HCl x H2O
C3H7NO2S.H2O.HCl 175.637 g/mol
30 G_PER_L CHEBI:91248
L-cysteine hydrochloride hydrate
6 Na2S x 9 H2O
9H2O.2Na.S 240.182 g/mol
30 G_PER_L CHEBI:76209
sodium sulfide nonahydrate
7 KH2PO4
H2O4P.K 136.084 g/mol
10 G_PER_L CHEBI:63036
potassium dihydrogen phosphate
8 MgCl2 x 6 H2O
2Cl.6H2O.Mg 203.301 g/mol
6.6 G_PER_L CHEBI:86345
magnesium dichloride hexahydrate
9 NaCl
Cl.Na 58.443 g/mol
8 G_PER_L CHEBI:26710
sodium chloride
10 NH4Cl
Cl.H4N 53.492 g/mol
8 G_PER_L CHEBI:31206
ammonium chloride
11 CaCl2 x 2 H2O
Ca.2Cl.2H2O 147.014 g/mol
1 G_PER_L CHEBI:86158
calcium chloride dihydrate
12 HCl
HCl 36.461 g/mol
2.5 G_PER_L CHEBI:17883
hydrogen chloride
13 ZnCl2
2Cl.Zn 136.296 g/mol
0.07 G_PER_L CHEBI:49976
zinc dichloride
14 MnCl2 x 4 H2O
Cl2Mn.4H2O 197.904 g/mol
0.1 G_PER_L CHEBI:86368
manganese(II) chloride tetrahydrate
15 H3BO3
H3BO3 61.833 g/mol
0.006 G_PER_L CHEBI:33118
boric acid
16 CoCl2 x 6 H2O
2Cl.Co.6H2O 237.929 g/mol
0.19 G_PER_L CHEBI:53503
cobalt chloride hexahydrate
17 CuCl2 x 2 H2O
Cl2Cu.2H2O 170.482 g/mol
0.002 G_PER_L CHEBI:86318
copper(II) chloride dihydrate
18 NiCl2 x 6 H2O
Cl2Ni 129.599 g/mol
0.024 G_PER_L CHEBI:34887
nickel dichloride
19 Na2MoO4 x 2 H2O
2H2O.MoO4.2Na 241.946 g/mol
0.036 G_PER_L CHEBI:75213
sodium molybdate dihydrate
20 p-Aminobenzoic acid
C7H7NO2 137.138 g/mol
0.08 G_PER_L CHEBI:30753
4-aminobenzoic acid
21 D-(+)-biotin
C10H16N2O3S 244.316 g/mol
0.02 G_PER_L CHEBI:15956
biotin
22 Calcium pantothenate
2C9H16NO5.Ca 476.536 g/mol
0.1 G_PER_L CHEBI:31345
Calcium pantothenate

Preparation

  1. Sparge solution A with 80% N2 and 20% CO2 gas mixture for 30 - 45 min to make it anoxic, distribute under same gas atmosphere 8.9 ml medium per Hungate-type tube and autoclave. Solution B is autoclaved separately under 80% N2 and 20% CO2 gas atmosphere. Solution C is prepared under 100% N2 gas atmosphere and sterilized by filtration. Autoclave solutions D and E under 100% N2 gas. To complete the medium add appropriate amounts of the solutions B to E to the sterile solution A. Adjust pH of complete medium to 7.0 - 7.2, if necessary.
  2. Adjust pH to 6.9 before autoclaving.
  3. First dissolve FeCl2 in the HCl, then dilute in water, add and dissolve the other salts. Finally make up to 1000.00 ml.
  4. Rumen fluid from cow or sheep (obtained from fistulated animals or abattoir refuse) is filtered through muslin, autoclaved at 121°C for 15 min and then centrifuged at 27,000 g for 20 min. The supernatant is made anoxic by sparging with 100% N2 gas for 15 min, dispensed under same gas atmosphere into anoxic serum vials to 30% of volume and then stored frozen at -20°C.

Solutions

Trace element solution SL-10

Dose: 1 ML_PER_L

Stock composition
IngredientConcentrationNotes
FeCl2 x 4 H2O 1.5 G_PER_L

Seven vitamins solution

Dose: 1 ML_PER_L

Stock composition
IngredientConcentrationNotes
Vitamin B12 0.1 G_PER_L
Nicotinic acid 0.2 G_PER_L
Pyridoxine hydrochloride 0.3 G_PER_L
Thiamine-HCl x 2 H2O 0.2 G_PER_L

Target organisms

No target organisms are recorded.

Provenance

TimestampCuratorActionNotes
2026-01-26T17:53:10.841021Z mediadive-import Imported from MediaDive Source: DSMZ, ID: 336
2026-03-13T06:19:04.181203Z culturemech-id-assigner-v1.0 Assigned CultureMech ID Assigned stable identifier: CultureMech:001436
2026-03-17T06:30:33.000000Z mediaingredientmech-enrichment-v1.0 Added MediaIngredientMech links Linked ingredients to MediaIngredientMech identifiers
2026-03-17T19:45:16.176589+00:00 normalize_media_names_to_snake_case.py NAME_NORMALIZED Normalized name from "OXOBACTER PFENNIGII MEDIUM" to "oxobacter_pfennigii_medium" for consistent matching
2026-05-20T06:02:01.720406+00:00 migrate_ph_range.py MIGRATED_PH_RANGE ph_range '7-7.2' -> {'min': 7.0, 'max': 7.2}
2026-06-05T07:41:40.714888+00:00 mim-legacy-to-chebi-migration-v1.0 Refreshed legacy MediaIngredientMech links to CHEBI keying Replaced 25 legacy mediaingredientmech_term link(s) with mediaingredientmech_chebi_term (id-safe: ingredient's own CHEBI + label). MIM deprecated the MediaIngredientMech:NNNNNN id scheme.
2026-06-10T07:47:09.836041+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.
2026-08-07T07:05:22.787144+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).