for_dsm_5848

CultureMech:005687 bacterial DEFINED LIQUID
Original name: For DSM 5848

Overview

External ontology
komodo.medium:504.1 (source link unavailable) — For DSM 5848
Applications
  • Microbial cultivation
pH range
{'min': 7.2, 'max': 7.4}
Notes
Source: KOMODO ModelSEED | ID: 504.1 | DSMZ Medium: 504 (mediadive.medium:504) | Aerobic: No

Composition

flowchart LR
    CultureMech_005687["for_dsm_5848"]
    ing0_KH2PO4["KH2PO4"]
    CultureMech_005687 --> ing0_KH2PO4
    CHEBI_63036["CHEBI:63036"]
    ing0_KH2PO4 -.-> CHEBI_63036
    ing1_NH4Cl["NH4Cl"]
    CultureMech_005687 --> ing1_NH4Cl
    CHEBI_31206["CHEBI:31206"]
    ing1_NH4Cl -.-> CHEBI_31206
    ing2_NaCl["NaCl"]
    CultureMech_005687 --> ing2_NaCl
    CHEBI_26710["CHEBI:26710"]
    ing2_NaCl -.-> CHEBI_26710
    ing3_MgCl2_x_6_H2O["MgCl2 x 6 H2O"]
    CultureMech_005687 --> ing3_MgCl2_x_6_H2O
    CHEBI_86345["CHEBI:86345"]
    ing3_MgCl2_x_6_H2O -.-> CHEBI_86345
    ing4_KCl["KCl"]
    CultureMech_005687 --> ing4_KCl
    CHEBI_32588["CHEBI:32588"]
    ing4_KCl -.-> CHEBI_32588
    ing5_CaCl2_x_2_H2O["CaCl2 x 2 H2O"]
    CultureMech_005687 --> ing5_CaCl2_x_2_H2O
    CHEBI_86158["CHEBI:86158"]
    ing5_CaCl2_x_2_H2O -.-> CHEBI_86158
    ing6_Sodium_resazurin["Sodium resazurin"]
    CultureMech_005687 --> ing6_Sodium_resazurin
    CHEBI_8806["CHEBI:8806"]
    ing6_Sodium_resazurin -.-> CHEBI_8806
    ing7_Na2CO3["Na2CO3"]
    CultureMech_005687 --> ing7_Na2CO3
    CHEBI_29377["CHEBI:29377"]
    ing7_Na2CO3 -.-> CHEBI_29377
    ing8_D_Glucose["D-Glucose"]
    CultureMech_005687 --> ing8_D_Glucose
    CHEBI_17634["CHEBI:17634"]
    ing8_D_Glucose -.-> CHEBI_17634
    ing9_Na2S_x_9_H2O["Na2S x 9 H2O"]
    CultureMech_005687 --> ing9_Na2S_x_9_H2O
    CHEBI_76209["CHEBI:76209"]
    ing9_Na2S_x_9_H2O -.-> CHEBI_76209
    ing10_HCl["HCl"]
    CultureMech_005687 --> ing10_HCl
    CHEBI_17883["CHEBI:17883"]
    ing10_HCl -.-> CHEBI_17883
    ing11_ZnCl2["ZnCl2"]
    CultureMech_005687 --> ing11_ZnCl2
    CHEBI_49976["CHEBI:49976"]
    ing11_ZnCl2 -.-> CHEBI_49976
    ing12_MnCl2_x_4_H2O["MnCl2 x 4 H2O"]
    CultureMech_005687 --> ing12_MnCl2_x_4_H2O
    CHEBI_86368["CHEBI:86368"]
    ing12_MnCl2_x_4_H2O -.-> CHEBI_86368
    ing13_H3BO3["H3BO3"]
    CultureMech_005687 --> ing13_H3BO3
    CHEBI_33118["CHEBI:33118"]
    ing13_H3BO3 -.-> CHEBI_33118
    ing14_CoCl2_x_6_H2O["CoCl2 x 6 H2O"]
    CultureMech_005687 --> ing14_CoCl2_x_6_H2O
    CHEBI_53503["CHEBI:53503"]
    ing14_CoCl2_x_6_H2O -.-> CHEBI_53503
    ing15_CuCl2_x_2_H2O["CuCl2 x 2 H2O"]
    CultureMech_005687 --> ing15_CuCl2_x_2_H2O
    CHEBI_86318["CHEBI:86318"]
    ing15_CuCl2_x_2_H2O -.-> CHEBI_86318
    ing16_NiCl2_x_6_H2O["NiCl2 x 6 H2O"]
    CultureMech_005687 --> ing16_NiCl2_x_6_H2O
    CHEBI_34887["CHEBI:34887"]
    ing16_NiCl2_x_6_H2O -.-> CHEBI_34887
    ing17_Na2MoO4_x_2_H2O["Na2MoO4 x 2 H2O"]
    CultureMech_005687 --> ing17_Na2MoO4_x_2_H2O
    CHEBI_75213["CHEBI:75213"]
    ing17_Na2MoO4_x_2_H2O -.-> CHEBI_75213
    ing18_p_Aminobenzoic_acid["p-Aminobenzoic acid"]
    CultureMech_005687 --> ing18_p_Aminobenzoic_acid
    CHEBI_30753["CHEBI:30753"]
    ing18_p_Aminobenzoic_acid -.-> CHEBI_30753
    ing19_D_____biotin["D-(+)-biotin"]
    CultureMech_005687 --> ing19_D_____biotin
    CHEBI_15956["CHEBI:15956"]
    ing19_D_____biotin -.-> CHEBI_15956
    ing20_Calcium_pantothenate["Calcium pantothenate"]
    CultureMech_005687 --> ing20_Calcium_pantothenate
    CHEBI_31345["CHEBI:31345"]
    ing20_Calcium_pantothenate -.-> CHEBI_31345
    ing21_NaOH["NaOH"]
    CultureMech_005687 --> ing21_NaOH
    CHEBI_32145["CHEBI:32145"]
    ing21_NaOH -.-> CHEBI_32145
    ing22_Na2SeO3_x_5_H2O["Na2SeO3 x 5 H2O"]
    CultureMech_005687 --> 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_005687 --> ing23_Na2WO4_x_2_H2O
    CHEBI_63939["CHEBI:63939"]
    ing23_Na2WO4_x_2_H2O -.-> CHEBI_63939

Ingredients (24)

# Ingredient Concentration Ontology Notes
1 KH2PO4
H2O4P.K 136.084 g/mol
0.212314 G_PER_L CHEBI:63036
potassium dihydrogen phosphate
2 NH4Cl
Cl.H4N 53.492 g/mol
0.265393 G_PER_L CHEBI:31206
ammonium chloride
3 NaCl
Cl.Na 58.443 g/mol
21.2314 G_PER_L CHEBI:26710
sodium chloride
4 MgCl2 x 6 H2O
2Cl.6H2O.Mg 203.301 g/mol
3.18471 G_PER_L CHEBI:86345
magnesium dichloride hexahydrate
5 KCl
Cl.K 74.551 g/mol
0.530786 G_PER_L CHEBI:32588
potassium chloride
6 CaCl2 x 2 H2O
Ca.2Cl.2H2O 147.014 g/mol
0.159236 G_PER_L CHEBI:86158
calcium chloride dihydrate
7 Sodium resazurin
C12H7NO4 229.191 g/mol
0.000530786 G_PER_L CHEBI:8806
Resazurin
8 Na2CO3
CO3.2Na 105.988 g/mol
50 G_PER_L CHEBI:29377
sodium carbonate
9 D-Glucose
C6H12O6 180.156 g/mol
100 G_PER_L CHEBI:17634
D-glucose
10 Na2S x 9 H2O
9H2O.2Na.S 240.182 g/mol
30 G_PER_L CHEBI:76209
sodium sulfide nonahydrate
11 HCl
HCl 36.461 g/mol
2.5 G_PER_L CHEBI:17883
hydrogen chloride
12 ZnCl2
2Cl.Zn 136.296 g/mol
0.07 G_PER_L CHEBI:49976
zinc dichloride
13 MnCl2 x 4 H2O
Cl2Mn.4H2O 197.904 g/mol
0.1 G_PER_L CHEBI:86368
manganese(II) chloride tetrahydrate
14 H3BO3
H3BO3 61.833 g/mol
0.006 G_PER_L CHEBI:33118
boric acid
15 CoCl2 x 6 H2O
2Cl.Co.6H2O 237.929 g/mol
0.19 G_PER_L CHEBI:53503
cobalt chloride hexahydrate
16 CuCl2 x 2 H2O
Cl2Cu.2H2O 170.482 g/mol
0.002 G_PER_L CHEBI:86318
copper(II) chloride dihydrate
17 NiCl2 x 6 H2O
Cl2Ni 129.599 g/mol
0.024 G_PER_L CHEBI:34887
nickel dichloride
18 Na2MoO4 x 2 H2O
2H2O.MoO4.2Na 241.946 g/mol
0.036 G_PER_L CHEBI:75213
sodium molybdate dihydrate
19 p-Aminobenzoic acid
C7H7NO2 137.138 g/mol
0.08 G_PER_L CHEBI:30753
4-aminobenzoic acid
20 D-(+)-biotin
C10H16N2O3S 244.316 g/mol
0.02 G_PER_L CHEBI:15956
biotin
21 Calcium pantothenate
2C9H16NO5.Ca 476.536 g/mol
0.1 G_PER_L CHEBI:31345
Calcium pantothenate
22 NaOH
HO.Na 39.997 g/mol
0.5 G_PER_L CHEBI:32145
sodium hydroxide
23 Na2SeO3 x 5 H2O
5H2O.2Na.O3Se 263.012 g/mol
0.003 G_PER_L CHEBI:131361
disodium selenite pentahydrate
24 Na2WO4 x 2 H2O
2H2O.2Na.O4W 329.846 g/mol
0.004 G_PER_L CHEBI:63939
sodium tungstate dihydrate

Preparation

  1. KOMODO Medium 504.1 sparges Solution A with an 80% N2 and 20% CO2 gas mixture, distributes it under the same gas atmosphere, and autoclaves it; Solution B is autoclaved separately under 80% N2 and 20% CO2, and Solution E is autoclaved under 100% N2.
  2. KOMODO Medium 504.1 prepares Solutions C and D under 100% N2 and sterilizes them by filtration before adding Solutions B to E to sterile Solution A in sequence.
  3. KOMODO Medium 504.1 adjusts the complete medium to pH 7.2-7.4 if necessary.

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: 504.1
2026-02-03T11:19:03.616609 dsmz-resolver-v1.0 Enriched with DSMZ composition Copied ingredients from DSMZ Medium 504
2026-03-13T06:19:35.341883Z culturemech-id-assigner-v1.0 Assigned CultureMech ID Assigned stable identifier: CultureMech:005687
2026-03-17T06:30:06.000000Z mediaingredientmech-enrichment-v1.0 Added MediaIngredientMech links Linked ingredients to MediaIngredientMech identifiers
2026-03-17T19:45:51.748959+00:00 normalize_media_names_to_snake_case.py NAME_NORMALIZED Normalized name from "For DSM 5848" to "for_dsm_5848" for consistent matching
2026-06-05T07:41:04.537865+00:00 mim-legacy-to-chebi-migration-v1.0 Refreshed legacy MediaIngredientMech links to CHEBI keying Replaced 28 legacy mediaingredientmech_term link(s) with mediaingredientmech_chebi_term (id-safe: ingredient's own CHEBI + label). MIM deprecated the MediaIngredientMech:NNNNNN id scheme.
2026-06-10T07:46:58.463378+00:00 primary-term-label-canonicalization-v1.0 Canonicalized primary term label to OBO canonical (OAK) 4 primary term(s); ingredient name resolved by OAK sqlite:obo:chebi.
2026-08-15T00:17:30.615288+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).
2026-09-12T00:00:00-07:00 repair_dsmz_504_swm_score15.py RESOLVED_DSMZ_KOMODO_504_SWM_SCORE15 KOMODO Medium 504.1 records the DSMZ Medium 504 DSM 5848 variant with Na2-succinate substrate and 0.05% yeast extract.