clostridium_pfennigii_medium

CultureMech:005031 bacterial COMPLEX LIQUID
Original name: CLOSTRIDIUM PFENNIGII medium

Overview

External ontology
komodo.medium:336 (source link unavailable) — CLOSTRIDIUM PFENNIGII medium
Applications
  • Microbial cultivation
pH range
{'min': 7.0, 'max': 7.2}
Notes
Source: KOMODO ModelSEED | ID: 336 | DSMZ Medium: 336 (mediadive.medium:336) | Aerobic: No

Composition

flowchart LR
    CultureMech_005031["clostridium_pfennigii_medium"]
    ing0_Yeast_extract["Yeast extract"]
    CultureMech_005031 --> ing0_Yeast_extract
    ing1_Na_vanillate["Na-vanillate"]
    CultureMech_005031 --> ing1_Na_vanillate
    CHEBI_132748["CHEBI:132748"]
    ing1_Na_vanillate -.-> CHEBI_132748
    ing2_Sodium_resazurin["Sodium resazurin"]
    CultureMech_005031 --> ing2_Sodium_resazurin
    CHEBI_8806["CHEBI:8806"]
    ing2_Sodium_resazurin -.-> CHEBI_8806
    ing3_Na2CO3["Na2CO3"]
    CultureMech_005031 --> ing3_Na2CO3
    CHEBI_29377["CHEBI:29377"]
    ing3_Na2CO3 -.-> CHEBI_29377
    ing4_L_Cysteine_HCl_x_H2O["L-Cysteine HCl x H2O"]
    CultureMech_005031 --> 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_005031 --> ing5_Na2S_x_9_H2O
    CHEBI_76209["CHEBI:76209"]
    ing5_Na2S_x_9_H2O -.-> CHEBI_76209
    ing6_KH2PO4["KH2PO4"]
    CultureMech_005031 --> ing6_KH2PO4
    CHEBI_63036["CHEBI:63036"]
    ing6_KH2PO4 -.-> CHEBI_63036
    ing7_MgCl2_x_6_H2O["MgCl2 x 6 H2O"]
    CultureMech_005031 --> ing7_MgCl2_x_6_H2O
    CHEBI_86345["CHEBI:86345"]
    ing7_MgCl2_x_6_H2O -.-> CHEBI_86345
    ing8_NaCl["NaCl"]
    CultureMech_005031 --> ing8_NaCl
    CHEBI_26710["CHEBI:26710"]
    ing8_NaCl -.-> CHEBI_26710
    ing9_NH4Cl["NH4Cl"]
    CultureMech_005031 --> ing9_NH4Cl
    CHEBI_31206["CHEBI:31206"]
    ing9_NH4Cl -.-> CHEBI_31206
    ing10_CaCl2_x_2_H2O["CaCl2 x 2 H2O"]
    CultureMech_005031 --> ing10_CaCl2_x_2_H2O
    CHEBI_86158["CHEBI:86158"]
    ing10_CaCl2_x_2_H2O -.-> CHEBI_86158
    ing11_HCl["HCl"]
    CultureMech_005031 --> ing11_HCl
    CHEBI_17883["CHEBI:17883"]
    ing11_HCl -.-> CHEBI_17883
    ing12_ZnCl2["ZnCl2"]
    CultureMech_005031 --> ing12_ZnCl2
    CHEBI_49976["CHEBI:49976"]
    ing12_ZnCl2 -.-> CHEBI_49976
    ing13_MnCl2_x_4_H2O["MnCl2 x 4 H2O"]
    CultureMech_005031 --> ing13_MnCl2_x_4_H2O
    CHEBI_86368["CHEBI:86368"]
    ing13_MnCl2_x_4_H2O -.-> CHEBI_86368
    ing14_H3BO3["H3BO3"]
    CultureMech_005031 --> ing14_H3BO3
    CHEBI_33118["CHEBI:33118"]
    ing14_H3BO3 -.-> CHEBI_33118
    ing15_CoCl2_x_6_H2O["CoCl2 x 6 H2O"]
    CultureMech_005031 --> 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_005031 --> 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_005031 --> 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_005031 --> ing18_Na2MoO4_x_2_H2O
    CHEBI_75213["CHEBI:75213"]
    ing18_Na2MoO4_x_2_H2O -.-> CHEBI_75213
    ing19_p_Aminobenzoic_acid["p-Aminobenzoic acid"]
    CultureMech_005031 --> ing19_p_Aminobenzoic_acid
    CHEBI_30753["CHEBI:30753"]
    ing19_p_Aminobenzoic_acid -.-> CHEBI_30753
    ing20_D_____biotin["D-(+)-biotin"]
    CultureMech_005031 --> ing20_D_____biotin
    CHEBI_15956["CHEBI:15956"]
    ing20_D_____biotin -.-> CHEBI_15956
    ing21_Calcium_pantothenate["Calcium pantothenate"]
    CultureMech_005031 --> 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

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
2026-01-27T01:15:02.fZ komodo-web-import Imported from KOMODO web table Source: KOMODO, ID: 336
2026-02-03T11:18:57.246422 dsmz-resolver-v1.0 Enriched with DSMZ composition Copied ingredients from DSMZ Medium 336
2026-03-13T06:19:29.694252Z culturemech-id-assigner-v1.0 Assigned CultureMech ID Assigned stable identifier: CultureMech:005031
2026-03-17T06:29:47.000000Z mediaingredientmech-enrichment-v1.0 Added MediaIngredientMech links Linked ingredients to MediaIngredientMech identifiers
2026-03-17T19:45:45.302020+00:00 normalize_media_names_to_snake_case.py NAME_NORMALIZED Normalized name from "CLOSTRIDIUM PFENNIGII medium" to "clostridium_pfennigii_medium" for consistent matching
2026-05-20T06:01:11.998796+00:00 migrate_ph_range.py MIGRATED_PH_RANGE ph_range '7.0-7.2' -> {'min': 7.0, 'max': 7.2}
2026-06-05T07:40:54.124477+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.
2026-06-10T07:46:54.771529+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.
2026-08-15T00:17:28.781623+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).
2026-08-15T05:34:51.066664+00:00 promote_komodo_volume_candidates.py ASSERTED_VOLUME_FROM_COMPOSITION_MATCH This record reproduces MediaDive medium 336 ('OXOBACTER PFENNIGII MEDIUM') across 27 shared compounds at 100% identical values. That identifies the medium despite the name difference, so its stated addition volume is now asserted rather than proposed (#262).