deferribacter_autotrophicus_medium

CultureMech:002167 bacterial COMPLEX LIQUID
Original name: DEFERRIBACTER AUTOTROPHICUS MEDIUM

Overview

External ontology
mediadive.medium:985 (source link unavailable) — DEFERRIBACTER AUTOTROPHICUS MEDIUM
Applications
  • Microbial cultivation
Synonyms
  • {'name': 'for_dsm_19306', 'source': 'KOMODO', 'source_id': 'komodo.medium:985.1', 'original_category': 'bacterial'}
  • {'name': 'tepidibacter_medium', 'source': 'KOMODO', 'source_id': 'komodo.medium:985', 'original_category': 'bacterial'}
pH range
{'min': 6.5, 'max': 7.0}
Notes
Source: DSMZ | Link: https://www.dsmz.de/microorganisms/medium/pdf/DSMZ_Medium985.pdf

Composition

flowchart LR
    CultureMech_002167["deferribacter_autotrophicus_medium"]
    ing0_NaCl["NaCl"]
    CultureMech_002167 --> ing0_NaCl
    CHEBI_26710["CHEBI:26710"]
    ing0_NaCl -.-> CHEBI_26710
    ing1_MgCl2_x_6_H2O["MgCl2 x 6 H2O"]
    CultureMech_002167 --> ing1_MgCl2_x_6_H2O
    CHEBI_86345["CHEBI:86345"]
    ing1_MgCl2_x_6_H2O -.-> CHEBI_86345
    ing2_KCl["KCl"]
    CultureMech_002167 --> ing2_KCl
    CHEBI_32588["CHEBI:32588"]
    ing2_KCl -.-> CHEBI_32588
    ing3_NH4Cl["NH4Cl"]
    CultureMech_002167 --> ing3_NH4Cl
    CHEBI_31206["CHEBI:31206"]
    ing3_NH4Cl -.-> CHEBI_31206
    ing4_CaCl2["CaCl2"]
    CultureMech_002167 --> ing4_CaCl2
    CHEBI_3312["CHEBI:3312"]
    ing4_CaCl2 -.-> CHEBI_3312
    ing5_K2HPO4["K2HPO4"]
    CultureMech_002167 --> ing5_K2HPO4
    CHEBI_131527["CHEBI:131527"]
    ing5_K2HPO4 -.-> CHEBI_131527
    ing6_Fe_NH4_2_SO4_2_x_7_H2O["Fe(NH4)2(SO4)2 x 7 H2O"]
    CultureMech_002167 --> ing6_Fe_NH4_2_SO4_2_x_7_H2O
    CHEBI_131378["CHEBI:131378"]
    ing6_Fe_NH4_2_SO4_2_x_7_H2O -.-> CHEBI_131378
    ing7_Yeast_extract["Yeast extract"]
    CultureMech_002167 --> ing7_Yeast_extract
    ing8_Sodium_resazurin["Sodium resazurin"]
    CultureMech_002167 --> ing8_Sodium_resazurin
    CHEBI_8806["CHEBI:8806"]
    ing8_Sodium_resazurin -.-> CHEBI_8806
    ing9_Na2CO3["Na2CO3"]
    CultureMech_002167 --> ing9_Na2CO3
    CHEBI_29377["CHEBI:29377"]
    ing9_Na2CO3 -.-> CHEBI_29377
    ing10_KNO3["KNO3"]
    CultureMech_002167 --> ing10_KNO3
    CHEBI_63043["CHEBI:63043"]
    ing10_KNO3 -.-> CHEBI_63043
    ing11_Na_acetate["Na-acetate"]
    CultureMech_002167 --> ing11_Na_acetate
    CHEBI_32954["CHEBI:32954"]
    ing11_Na_acetate -.-> CHEBI_32954
    ing12_Na2S_x_9_H2O["Na2S x 9 H2O"]
    CultureMech_002167 --> ing12_Na2S_x_9_H2O
    CHEBI_76209["CHEBI:76209"]
    ing12_Na2S_x_9_H2O -.-> CHEBI_76209
    ing13_HCl["HCl"]
    CultureMech_002167 --> ing13_HCl
    CHEBI_17883["CHEBI:17883"]
    ing13_HCl -.-> CHEBI_17883
    ing14_FeCl2_x_4_H2O["FeCl2 x 4 H2O"]
    CultureMech_002167 --> ing14_FeCl2_x_4_H2O
    CHEBI_86249["CHEBI:86249"]
    ing14_FeCl2_x_4_H2O -.-> CHEBI_86249
    ing15_ZnCl2["ZnCl2"]
    CultureMech_002167 --> ing15_ZnCl2
    CHEBI_49976["CHEBI:49976"]
    ing15_ZnCl2 -.-> CHEBI_49976
    ing16_MnCl2_x_4_H2O["MnCl2 x 4 H2O"]
    CultureMech_002167 --> ing16_MnCl2_x_4_H2O
    CHEBI_86368["CHEBI:86368"]
    ing16_MnCl2_x_4_H2O -.-> CHEBI_86368
    ing17_H3BO3["H3BO3"]
    CultureMech_002167 --> ing17_H3BO3
    CHEBI_33118["CHEBI:33118"]
    ing17_H3BO3 -.-> CHEBI_33118
    ing18_CoCl2_x_6_H2O["CoCl2 x 6 H2O"]
    CultureMech_002167 --> ing18_CoCl2_x_6_H2O
    CHEBI_53503["CHEBI:53503"]
    ing18_CoCl2_x_6_H2O -.-> CHEBI_53503
    ing19_CuCl2_x_2_H2O["CuCl2 x 2 H2O"]
    CultureMech_002167 --> ing19_CuCl2_x_2_H2O
    CHEBI_86318["CHEBI:86318"]
    ing19_CuCl2_x_2_H2O -.-> CHEBI_86318
    ing20_NiCl2_x_6_H2O["NiCl2 x 6 H2O"]
    CultureMech_002167 --> ing20_NiCl2_x_6_H2O
    CHEBI_34887["CHEBI:34887"]
    ing20_NiCl2_x_6_H2O -.-> CHEBI_34887
    ing21_Na2MoO4_x_2_H2O["Na2MoO4 x 2 H2O"]
    CultureMech_002167 --> ing21_Na2MoO4_x_2_H2O
    CHEBI_75213["CHEBI:75213"]
    ing21_Na2MoO4_x_2_H2O -.-> CHEBI_75213
    ing22_NaOH["NaOH"]
    CultureMech_002167 --> ing22_NaOH
    CHEBI_32145["CHEBI:32145"]
    ing22_NaOH -.-> CHEBI_32145
    ing23_Na2SeO3_x_5_H2O["Na2SeO3 x 5 H2O"]
    CultureMech_002167 --> ing23_Na2SeO3_x_5_H2O
    CHEBI_131361["CHEBI:131361"]
    ing23_Na2SeO3_x_5_H2O -.-> CHEBI_131361
    ing24_Na2WO4_x_2_H2O["Na2WO4 x 2 H2O"]
    CultureMech_002167 --> ing24_Na2WO4_x_2_H2O
    CHEBI_63939["CHEBI:63939"]
    ing24_Na2WO4_x_2_H2O -.-> CHEBI_63939
    ing25_Biotin["Biotin"]
    CultureMech_002167 --> ing25_Biotin
    CHEBI_15956["CHEBI:15956"]
    ing25_Biotin -.-> CHEBI_15956
    ing26_Folic_acid["Folic acid"]
    CultureMech_002167 --> ing26_Folic_acid
    CHEBI_27470["CHEBI:27470"]
    ing26_Folic_acid -.-> CHEBI_27470
    ing27_Pyridoxine_hydrochloride["Pyridoxine hydrochloride"]
    CultureMech_002167 --> ing27_Pyridoxine_hydrochloride
    CHEBI_30961["CHEBI:30961"]
    ing27_Pyridoxine_hydrochloride -.-> CHEBI_30961
    ing28_Thiamine_HCl["Thiamine HCl"]
    CultureMech_002167 --> ing28_Thiamine_HCl
    CHEBI_49105["CHEBI:49105"]
    ing28_Thiamine_HCl -.-> CHEBI_49105
    ing29_Riboflavin["Riboflavin"]
    CultureMech_002167 --> ing29_Riboflavin
    CHEBI_17015["CHEBI:17015"]
    ing29_Riboflavin -.-> CHEBI_17015
    CultureMech_002167 --> more["...5 more"]

Ingredients (35)

# Ingredient Concentration Ontology Notes
1 NaCl
Cl.Na 58.443 g/mol
17.9462 G_PER_L CHEBI:26710
sodium chloride
2 MgCl2 x 6 H2O
2Cl.6H2O.Mg 203.301 g/mol
3.98804 G_PER_L CHEBI:86345
magnesium dichloride hexahydrate
3 KCl
Cl.K 74.551 g/mol
0.338983 G_PER_L CHEBI:32588
potassium chloride
4 NH4Cl
Cl.H4N 53.492 g/mol
0.249252 G_PER_L CHEBI:31206
ammonium chloride
5 CaCl2
Ca.2Cl 110.984 g/mol
0.109671 G_PER_L CHEBI:3312
calcium dichloride
6 K2HPO4
HO4P.2K 174.174 g/mol
0.179462 G_PER_L CHEBI:131527
dipotassium hydrogen phosphate
7 Fe(NH4)2(SO4)2 x 7 H2O
Fe.7H2O.2H4N.2O4S 410.154 g/mol
0.0199402 G_PER_L CHEBI:131378
ferrous ammonium sulfate heptahydrate
8 Yeast extract 0.199402 G_PER_L
9 Sodium resazurin
C12H7NO4 229.191 g/mol
0.000498504 G_PER_L CHEBI:8806
Resazurin
10 Na2CO3
CO3.2Na 105.988 g/mol
1.49551 G_PER_L CHEBI:29377
sodium carbonate
11 KNO3
K.NO3 101.102 g/mol
0.997009 G_PER_L CHEBI:63043
potassium nitrate
12 Na-acetate
C2H3O2.Na 82.034 g/mol
1.59521 G_PER_L CHEBI:32954
sodium acetate
13 Na2S x 9 H2O
9H2O.2Na.S 240.182 g/mol
0.498504 G_PER_L CHEBI:76209
sodium sulfide nonahydrate
14 HCl
HCl 36.461 g/mol
2.5 G_PER_L CHEBI:17883
hydrogen chloride
15 FeCl2 x 4 H2O
Cl2Fe.4H2O 198.811 g/mol
1.5 G_PER_L CHEBI:86249
iron dichloride tetrahydrate
16 ZnCl2
2Cl.Zn 136.296 g/mol
0.07 G_PER_L CHEBI:49976
zinc dichloride
17 MnCl2 x 4 H2O
Cl2Mn.4H2O 197.904 g/mol
0.1 G_PER_L CHEBI:86368
manganese(II) chloride tetrahydrate
18 H3BO3
H3BO3 61.833 g/mol
0.006 G_PER_L CHEBI:33118
boric acid
19 CoCl2 x 6 H2O
2Cl.Co.6H2O 237.929 g/mol
0.19 G_PER_L CHEBI:53503
cobalt chloride hexahydrate
20 CuCl2 x 2 H2O
Cl2Cu.2H2O 170.482 g/mol
0.002 G_PER_L CHEBI:86318
copper(II) chloride dihydrate
21 NiCl2 x 6 H2O
Cl2Ni 129.599 g/mol
0.024 G_PER_L CHEBI:34887
nickel dichloride
22 Na2MoO4 x 2 H2O
2H2O.MoO4.2Na 241.946 g/mol
0.036 G_PER_L CHEBI:75213
sodium molybdate dihydrate
23 NaOH
HO.Na 39.997 g/mol
0.5 G_PER_L CHEBI:32145
sodium hydroxide
24 Na2SeO3 x 5 H2O
5H2O.2Na.O3Se 263.012 g/mol
0.003 G_PER_L CHEBI:131361
disodium selenite pentahydrate
25 Na2WO4 x 2 H2O
2H2O.2Na.O4W 329.846 g/mol
0.004 G_PER_L CHEBI:63939
sodium tungstate dihydrate
26 Biotin
C10H16N2O3S 244.316 g/mol
0.02 G_PER_L CHEBI:15956
biotin
27 Folic acid
C19H19N7O6 441.404 g/mol
0.02 G_PER_L CHEBI:27470
folic acid
28 Pyridoxine hydrochloride
C8H11NO3.HCl 205.641 g/mol
0.1 G_PER_L CHEBI:30961
pyridoxine hydrochloride
29 Thiamine HCl
C12H17N4OS.Cl.HCl 337.276 g/mol
0.05 G_PER_L CHEBI:49105
thiamine hydrochloride
30 Riboflavin
C17H20N4O6 376.369 g/mol
0.05 G_PER_L CHEBI:17015
riboflavin
31 Nicotinic acid
C6H5NO2 123.111 g/mol
0.05 G_PER_L CHEBI:15940
nicotinic acid
32 Calcium D-(+)-pantothenate
2C9H16NO5.Ca 476.536 g/mol
0.05 G_PER_L CHEBI:31345
Calcium pantothenate
33 Vitamin B12 0.001 G_PER_L CHEBI:176843
vitamin B12
34 p-Aminobenzoic acid
C7H7NO2 137.138 g/mol
0.05 G_PER_L CHEBI:30753
4-aminobenzoic acid
35 (DL)-alpha-Lipoic acid
C8H14O2S2 206.332 g/mol
0.05 G_PER_L CHEBI:16494
lipoic acid

Preparation

  1. Dissolve ingredients (except carbonate, nitrate, acetate, 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 vitamins (sterilized by filtration), nitrate, acetate 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. The pH of the complete medium should be 6.5 -7.0.
  2. 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 3 source records.

TimestampCuratorActionNotes
2026-01-26T17:53:12.992059Z mediadive-import Imported from MediaDive Source: DSMZ, ID: 985
2026-02-06T05:10:21.381483Z invalid-chebi-removal Removed 1 invalid CHEBI ID(s) Removed CHEBI IDs with invalid format (7+ digits) from MicrobeMediaParam source data
2026-03-13T06:19:10.924207Z culturemech-id-assigner-v1.0 Assigned CultureMech ID Assigned stable identifier: CultureMech:002167
2026-03-17T06:29:56.000000Z mediaingredientmech-enrichment-v1.0 Added MediaIngredientMech links Linked ingredients to MediaIngredientMech identifiers
2026-03-17T19:45:23.654208+00:00 normalize_media_names_to_snake_case.py NAME_NORMALIZED Normalized name from "DEFERRIBACTER AUTOTROPHICUS MEDIUM" to "deferribacter_autotrophicus_medium" for consistent matching
2026-05-20T06:01:12.914754+00:00 migrate_ph_range.py MIGRATED_PH_RANGE ph_range '6.5-7' -> {'min': 6.5, 'max': 7.0}
2026-06-05T07:40:55.407591+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.
2026-06-10T07:37:34.671884+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.
2026-06-10T07:46:55.138630+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.
2026-08-06T03:05:29.768140+00:00 recipe-merger Merged 3 duplicate recipes into canonical record Sources: deferribacter_autotrophicus_medium, for_dsm_19306, tepidibacter_medium
2026-08-06T03:05:29.768189+00:00 merge_recipes.py MERGED_RECIPES merged 3 source recipe(s) on fingerprint c7e2e651004fc213185bec79c57255b79cd87f112c2fc548a89b2424cc3e3f3e