desulfothermus_naphthae_medium

CultureMech:002034 bacterial DEFINED LIQUID
Original name: DESULFOTHERMUS NAPHTHAE MEDIUM

Overview

External ontology
mediadive.medium:876 (source link unavailable) — DESULFOTHERMUS NAPHTHAE MEDIUM
Applications
  • Microbial cultivation
Synonyms
  • {'name': 'td3_medium', 'source': 'KOMODO', 'source_id': 'komodo.medium:876', 'original_category': 'bacterial'}
pH range
{'min': 6.7, 'max': 6.9}
Notes
Source: DSMZ | Link: https://www.dsmz.de/microorganisms/medium/pdf/DSMZ_Medium876.pdf

Composition

flowchart LR
    CultureMech_002034["desulfothermus_naphthae_medium"]
    ing0_Na2SO4["Na2SO4"]
    CultureMech_002034 --> ing0_Na2SO4
    CHEBI_32149["CHEBI:32149"]
    ing0_Na2SO4 -.-> CHEBI_32149
    ing1_KH2PO4["KH2PO4"]
    CultureMech_002034 --> ing1_KH2PO4
    CHEBI_63036["CHEBI:63036"]
    ing1_KH2PO4 -.-> CHEBI_63036
    ing2_NH4Cl["NH4Cl"]
    CultureMech_002034 --> ing2_NH4Cl
    CHEBI_31206["CHEBI:31206"]
    ing2_NH4Cl -.-> CHEBI_31206
    ing3_NaCl["NaCl"]
    CultureMech_002034 --> ing3_NaCl
    CHEBI_26710["CHEBI:26710"]
    ing3_NaCl -.-> CHEBI_26710
    ing4_MgCl2_x_6_H2O["MgCl2 x 6 H2O"]
    CultureMech_002034 --> ing4_MgCl2_x_6_H2O
    CHEBI_86345["CHEBI:86345"]
    ing4_MgCl2_x_6_H2O -.-> CHEBI_86345
    ing5_KCl["KCl"]
    CultureMech_002034 --> ing5_KCl
    CHEBI_32588["CHEBI:32588"]
    ing5_KCl -.-> CHEBI_32588
    ing6_CaCl2_x_2_H2O["CaCl2 x 2 H2O"]
    CultureMech_002034 --> ing6_CaCl2_x_2_H2O
    CHEBI_86158["CHEBI:86158"]
    ing6_CaCl2_x_2_H2O -.-> CHEBI_86158
    ing7_Sodium_resazurin["Sodium resazurin"]
    CultureMech_002034 --> ing7_Sodium_resazurin
    CHEBI_8806["CHEBI:8806"]
    ing7_Sodium_resazurin -.-> CHEBI_8806
    ing8_Na2CO3["Na2CO3"]
    CultureMech_002034 --> ing8_Na2CO3
    CHEBI_29377["CHEBI:29377"]
    ing8_Na2CO3 -.-> CHEBI_29377
    ing9_Na_caproate["Na-caproate"]
    CultureMech_002034 --> ing9_Na_caproate
    CHEBI_114126["CHEBI:114126"]
    ing9_Na_caproate -.-> CHEBI_114126
    ing10_Na_butyrate["Na-butyrate"]
    CultureMech_002034 --> ing10_Na_butyrate
    CHEBI_64103["CHEBI:64103"]
    ing10_Na_butyrate -.-> CHEBI_64103
    ing11_Na2S_x_9_H2O["Na2S x 9 H2O"]
    CultureMech_002034 --> ing11_Na2S_x_9_H2O
    CHEBI_76209["CHEBI:76209"]
    ing11_Na2S_x_9_H2O -.-> CHEBI_76209
    ing12_HCl["HCl"]
    CultureMech_002034 --> ing12_HCl
    CHEBI_17883["CHEBI:17883"]
    ing12_HCl -.-> CHEBI_17883
    ing13_FeCl2_x_4_H2O["FeCl2 x 4 H2O"]
    CultureMech_002034 --> ing13_FeCl2_x_4_H2O
    CHEBI_86249["CHEBI:86249"]
    ing13_FeCl2_x_4_H2O -.-> CHEBI_86249
    ing14_ZnCl2["ZnCl2"]
    CultureMech_002034 --> ing14_ZnCl2
    CHEBI_49976["CHEBI:49976"]
    ing14_ZnCl2 -.-> CHEBI_49976
    ing15_MnCl2_x_4_H2O["MnCl2 x 4 H2O"]
    CultureMech_002034 --> ing15_MnCl2_x_4_H2O
    CHEBI_86368["CHEBI:86368"]
    ing15_MnCl2_x_4_H2O -.-> CHEBI_86368
    ing16_H3BO3["H3BO3"]
    CultureMech_002034 --> ing16_H3BO3
    CHEBI_33118["CHEBI:33118"]
    ing16_H3BO3 -.-> CHEBI_33118
    ing17_CoCl2_x_6_H2O["CoCl2 x 6 H2O"]
    CultureMech_002034 --> ing17_CoCl2_x_6_H2O
    CHEBI_53503["CHEBI:53503"]
    ing17_CoCl2_x_6_H2O -.-> CHEBI_53503
    ing18_CuCl2_x_2_H2O["CuCl2 x 2 H2O"]
    CultureMech_002034 --> ing18_CuCl2_x_2_H2O
    CHEBI_86318["CHEBI:86318"]
    ing18_CuCl2_x_2_H2O -.-> CHEBI_86318
    ing19_NiCl2_x_6_H2O["NiCl2 x 6 H2O"]
    CultureMech_002034 --> ing19_NiCl2_x_6_H2O
    CHEBI_34887["CHEBI:34887"]
    ing19_NiCl2_x_6_H2O -.-> CHEBI_34887
    ing20_Na2MoO4_x_2_H2O["Na2MoO4 x 2 H2O"]
    CultureMech_002034 --> ing20_Na2MoO4_x_2_H2O
    CHEBI_75213["CHEBI:75213"]
    ing20_Na2MoO4_x_2_H2O -.-> CHEBI_75213
    ing21_NaOH["NaOH"]
    CultureMech_002034 --> ing21_NaOH
    CHEBI_32145["CHEBI:32145"]
    ing21_NaOH -.-> CHEBI_32145
    ing22_Na2SeO3_x_5_H2O["Na2SeO3 x 5 H2O"]
    CultureMech_002034 --> 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_002034 --> ing23_Na2WO4_x_2_H2O
    CHEBI_63939["CHEBI:63939"]
    ing23_Na2WO4_x_2_H2O -.-> CHEBI_63939
    ing24_Biotin["Biotin"]
    CultureMech_002034 --> ing24_Biotin
    CHEBI_15956["CHEBI:15956"]
    ing24_Biotin -.-> CHEBI_15956
    ing25_Folic_acid["Folic acid"]
    CultureMech_002034 --> ing25_Folic_acid
    CHEBI_27470["CHEBI:27470"]
    ing25_Folic_acid -.-> CHEBI_27470
    ing26_Pyridoxine_hydrochloride["Pyridoxine hydrochloride"]
    CultureMech_002034 --> ing26_Pyridoxine_hydrochloride
    CHEBI_30961["CHEBI:30961"]
    ing26_Pyridoxine_hydrochloride -.-> CHEBI_30961
    ing27_Thiamine_HCl["Thiamine HCl"]
    CultureMech_002034 --> ing27_Thiamine_HCl
    CHEBI_49105["CHEBI:49105"]
    ing27_Thiamine_HCl -.-> CHEBI_49105
    ing28_Riboflavin["Riboflavin"]
    CultureMech_002034 --> ing28_Riboflavin
    CHEBI_17015["CHEBI:17015"]
    ing28_Riboflavin -.-> CHEBI_17015
    ing29_Nicotinic_acid["Nicotinic acid"]
    CultureMech_002034 --> ing29_Nicotinic_acid
    CHEBI_15940["CHEBI:15940"]
    ing29_Nicotinic_acid -.-> CHEBI_15940
    CultureMech_002034 --> more["...7 more"]

Ingredients (37)

# Ingredient Concentration Ontology Notes
1 Na2SO4
2Na.O4S 142.043 g/mol
3.9801 G_PER_L CHEBI:32149
sodium sulfate
2 KH2PO4
H2O4P.K 136.084 g/mol
0.199005 G_PER_L CHEBI:63036
potassium dihydrogen phosphate
3 NH4Cl
Cl.H4N 53.492 g/mol
0.248756 G_PER_L CHEBI:31206
ammonium chloride
4 NaCl
Cl.Na 58.443 g/mol
19.9005 G_PER_L CHEBI:26710
sodium chloride
5 MgCl2 x 6 H2O
2Cl.6H2O.Mg 203.301 g/mol
9.75124 G_PER_L CHEBI:86345
magnesium dichloride hexahydrate
6 KCl
Cl.K 74.551 g/mol
0.497512 G_PER_L CHEBI:32588
potassium chloride
7 CaCl2 x 2 H2O
Ca.2Cl.2H2O 147.014 g/mol
0.0995025 G_PER_L CHEBI:86158
calcium chloride dihydrate
8 Sodium resazurin
C12H7NO4 229.191 g/mol
0.000497512 G_PER_L CHEBI:8806
Resazurin
9 Na2CO3
CO3.2Na 105.988 g/mol
0.995025 G_PER_L CHEBI:29377
sodium carbonate
10 Na-caproate
C6H11O2.Na 138.142 g/mol
0.497512 G_PER_L CHEBI:114126
sodium hexanoate
11 Na-butyrate
C4H7O2.Na 110.088 g/mol
0.298507 G_PER_L CHEBI:64103
sodium butyrate
12 Na2S x 9 H2O
9H2O.2Na.S 240.182 g/mol
0.39801 G_PER_L CHEBI:76209
sodium sulfide nonahydrate
13 HCl
HCl 36.461 g/mol
2.5 G_PER_L CHEBI:17883
hydrogen chloride
14 FeCl2 x 4 H2O
Cl2Fe.4H2O 198.811 g/mol
1.5 G_PER_L CHEBI:86249
iron dichloride tetrahydrate
15 ZnCl2
2Cl.Zn 136.296 g/mol
0.07 G_PER_L CHEBI:49976
zinc dichloride
16 MnCl2 x 4 H2O
Cl2Mn.4H2O 197.904 g/mol
0.1 G_PER_L CHEBI:86368
manganese(II) chloride tetrahydrate
17 H3BO3
H3BO3 61.833 g/mol
0.006 G_PER_L CHEBI:33118
boric acid
18 CoCl2 x 6 H2O
2Cl.Co.6H2O 237.929 g/mol
0.19 G_PER_L CHEBI:53503
cobalt chloride hexahydrate
19 CuCl2 x 2 H2O
Cl2Cu.2H2O 170.482 g/mol
0.002 G_PER_L CHEBI:86318
copper(II) chloride dihydrate
20 NiCl2 x 6 H2O
Cl2Ni 129.599 g/mol
0.024 G_PER_L CHEBI:34887
nickel dichloride
21 Na2MoO4 x 2 H2O
2H2O.MoO4.2Na 241.946 g/mol
0.036 G_PER_L CHEBI:75213
sodium molybdate dihydrate
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
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
0.4 G_PER_L CHEBI:30961
pyridoxine hydrochloride
 [Merged 2 duplicates: 0.1, 0.3]
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
0.25 G_PER_L CHEBI:15940
nicotinic acid
 [Merged 2 duplicates: 0.05, 0.2]
31 Calcium D-(+)-pantothenate
2C9H16NO5.Ca 476.536 g/mol
0.05 G_PER_L CHEBI:31345
Calcium pantothenate
32 Vitamin B12 0.101 G_PER_L CHEBI:176843
vitamin B12
 [Merged 2 duplicates: 0.001, 0.1]
33 p-Aminobenzoic acid
C7H7NO2 137.138 g/mol
0.13 G_PER_L CHEBI:30753
4-aminobenzoic acid
 [Merged 2 duplicates: 0.05, 0.08]
34 (DL)-alpha-Lipoic acid
C8H14O2S2 206.332 g/mol
0.05 G_PER_L CHEBI:16494
lipoic acid
35 D-(+)-biotin
C10H16N2O3S 244.316 g/mol
0.02 G_PER_L CHEBI:15956
biotin
36 Calcium pantothenate
2C9H16NO5.Ca 476.536 g/mol
0.1 G_PER_L CHEBI:31345
Calcium pantothenate
37 Thiamine-HCl x 2 H2O
C12H18N4OS.2Cl.2H2O 373.306 g/mol
0.2 G_PER_L CHEBI:132751
thiamine hydrochloride dihydrate

Preparation

  1. Dissolve all ingredients except carbonate, caproate, butyrate, vitamins and sulfide, then sparge medium with 80% N2 and 20% CO2 gas mixture for 30 - 45 min to make it anoxic. Dispense medium under same gas atmosphere into anoxic Hungate-type tubes or serum vials and autoclave. Add caproate, butyrate, vitamins and sulfide from sterile anoxic stock solutions prepared under 100% N2 gas and carbonate from a sterile anoxic stock solution prepared under 80% N2 and 20% CO2 gas atmosphere. Vitamins should be sterilized by filtration. Adjust pH of complete medium to 6.7 - 6.9, if necessary.
  2. Note: Growth can be stimulated by supplementing the medium with 1% (v/v) of fatty acid mixture (see medium 119).
  3. First dissolve FeCl2 in the HCl, then dilute in water, add and dissolve the other salts. Finally make up to 1000.00 ml.

Target organisms

No target organisms are recorded.

Provenance

Merged from 2 source records.

TimestampCuratorActionNotes
2026-01-26T17:53:12.587769Z mediadive-import Imported from MediaDive Source: DSMZ, ID: 876
2026-02-06T05:10:18.359643Z invalid-chebi-removal Removed 1 invalid CHEBI ID(s) Removed CHEBI IDs with invalid format (7+ digits) from MicrobeMediaParam source data
2026-03-13T03:08:47.738406Z data-quality-cleanup-v1.0 Data quality fixes Merged 4 duplicate ingredient(s)
2026-03-13T06:19:09.630073Z culturemech-id-assigner-v1.0 Assigned CultureMech ID Assigned stable identifier: CultureMech:002034
2026-03-17T06:29:50.000000Z mediaingredientmech-enrichment-v1.0 Added MediaIngredientMech links Linked ingredients to MediaIngredientMech identifiers
2026-03-17T19:45:22.211239+00:00 normalize_media_names_to_snake_case.py NAME_NORMALIZED Normalized name from "DESULFOTHERMUS NAPHTHAE MEDIUM" to "desulfothermus_naphthae_medium" for consistent matching
2026-05-20T06:01:14.528271+00:00 migrate_ph_range.py MIGRATED_PH_RANGE ph_range '6.7-6.9' -> {'min': 6.7, 'max': 6.9}
2026-06-05T07:40:57.446951+00:00 mim-legacy-to-chebi-migration-v1.0 Refreshed legacy MediaIngredientMech links to CHEBI keying Replaced 35 legacy mediaingredientmech_term link(s) with mediaingredientmech_chebi_term (id-safe: ingredient's own CHEBI + label). MIM deprecated the MediaIngredientMech:NNNNNN id scheme.
2026-06-10T07:46:55.894537+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.
2026-08-06T03:05:01.106114+00:00 recipe-merger Merged 2 duplicate recipes into canonical record Sources: KOMODO_876_TD3-MEDIUM, desulfothermus_naphthae_medium
2026-08-06T03:05:01.106186+00:00 merge_recipes.py MERGED_RECIPES merged 2 source recipe(s) on fingerprint 584727179608084afe4057d86badfdecb08ba08bb9b726fb90fbf294b6bba593