chloroflexus_aggregans_medium

CultureMech:002039 bacterial COMPLEX LIQUID
Original name: CHLOROFLEXUS AGGREGANS MEDIUM

Overview

External ontology
mediadive.medium:87a (source link unavailable) — CHLOROFLEXUS AGGREGANS MEDIUM
Applications
  • Microbial cultivation
pH
8.2
Notes
Source: DSMZ | Link: https://www.dsmz.de/microorganisms/medium/pdf/DSMZ_Medium87a.pdf

Composition

flowchart LR
    CultureMech_002039["chloroflexus_aggregans_medium"]
    ing0_Yeast_extract["Yeast extract"]
    CultureMech_002039 --> ing0_Yeast_extract
    ing1_Glycyl_glycine["Glycyl-glycine"]
    CultureMech_002039 --> ing1_Glycyl_glycine
    CHEBI_17201["CHEBI:17201"]
    ing1_Glycyl_glycine -.-> CHEBI_17201
    ing2_Na2HPO4_x_2_H2O["Na2HPO4 x 2 H2O"]
    CultureMech_002039 --> ing2_Na2HPO4_x_2_H2O
    CHEBI_91258["CHEBI:91258"]
    ing2_Na2HPO4_x_2_H2O -.-> CHEBI_91258
    ing3_MgSO4_x_7_H2O["MgSO4 x 7 H2O"]
    CultureMech_002039 --> ing3_MgSO4_x_7_H2O
    CHEBI_31795["CHEBI:31795"]
    ing3_MgSO4_x_7_H2O -.-> CHEBI_31795
    ing4_KNO3["KNO3"]
    CultureMech_002039 --> ing4_KNO3
    CHEBI_63043["CHEBI:63043"]
    ing4_KNO3 -.-> CHEBI_63043
    ing5_NaNO3["NaNO3"]
    CultureMech_002039 --> ing5_NaNO3
    CHEBI_63005["CHEBI:63005"]
    ing5_NaNO3 -.-> CHEBI_63005
    ing6_NaCl["NaCl"]
    CultureMech_002039 --> ing6_NaCl
    CHEBI_26710["CHEBI:26710"]
    ing6_NaCl -.-> CHEBI_26710
    ing7_CaCl2_x_2_H2O["CaCl2 x 2 H2O"]
    CultureMech_002039 --> ing7_CaCl2_x_2_H2O
    CHEBI_86158["CHEBI:86158"]
    ing7_CaCl2_x_2_H2O -.-> CHEBI_86158
    ing8_Fe_III__citrate["Fe(III) citrate"]
    CultureMech_002039 --> ing8_Fe_III__citrate
    CHEBI_144421["CHEBI:144421"]
    ing8_Fe_III__citrate -.-> CHEBI_144421
    ing9_Biotin["Biotin"]
    CultureMech_002039 --> ing9_Biotin
    CHEBI_15956["CHEBI:15956"]
    ing9_Biotin -.-> CHEBI_15956
    ing10_Vitamin_B12["Vitamin B12"]
    CultureMech_002039 --> ing10_Vitamin_B12
    CHEBI_176843["CHEBI:176843"]
    ing10_Vitamin_B12 -.-> CHEBI_176843
    ing11_Calcium_pantothenate["Calcium pantothenate"]
    CultureMech_002039 --> ing11_Calcium_pantothenate
    CHEBI_31345["CHEBI:31345"]
    ing11_Calcium_pantothenate -.-> CHEBI_31345
    ing12_Na3_EDTA["Na3-EDTA"]
    CultureMech_002039 --> ing12_Na3_EDTA
    CHEBI_63125["CHEBI:63125"]
    ing12_Na3_EDTA -.-> CHEBI_63125
    ing13_ZnSO4_x_7_H2O["ZnSO4 x 7 H2O"]
    CultureMech_002039 --> ing13_ZnSO4_x_7_H2O
    CHEBI_32312["CHEBI:32312"]
    ing13_ZnSO4_x_7_H2O -.-> CHEBI_32312
    ing14_MnCl2_x_4_H2O["MnCl2 x 4 H2O"]
    CultureMech_002039 --> ing14_MnCl2_x_4_H2O
    CHEBI_86368["CHEBI:86368"]
    ing14_MnCl2_x_4_H2O -.-> CHEBI_86368
    ing15_H3BO3["H3BO3"]
    CultureMech_002039 --> ing15_H3BO3
    CHEBI_33118["CHEBI:33118"]
    ing15_H3BO3 -.-> CHEBI_33118
    ing16_CoCl2_x_6_H2O["CoCl2 x 6 H2O"]
    CultureMech_002039 --> ing16_CoCl2_x_6_H2O
    CHEBI_53503["CHEBI:53503"]
    ing16_CoCl2_x_6_H2O -.-> CHEBI_53503
    ing17_CuCl2_x_2_H2O["CuCl2 x 2 H2O"]
    CultureMech_002039 --> ing17_CuCl2_x_2_H2O
    CHEBI_86318["CHEBI:86318"]
    ing17_CuCl2_x_2_H2O -.-> CHEBI_86318
    ing18_NiCl2_x_6_H2O["NiCl2 x 6 H2O"]
    CultureMech_002039 --> ing18_NiCl2_x_6_H2O
    CHEBI_34887["CHEBI:34887"]
    ing18_NiCl2_x_6_H2O -.-> CHEBI_34887
    ing19_Na2MoO4_x_2_H2O["Na2MoO4 x 2 H2O"]
    CultureMech_002039 --> ing19_Na2MoO4_x_2_H2O
    CHEBI_75213["CHEBI:75213"]
    ing19_Na2MoO4_x_2_H2O -.-> CHEBI_75213
    ing20_Na2S_x_9_H2O["Na2S x 9 H2O"]
    CultureMech_002039 --> ing20_Na2S_x_9_H2O
    CHEBI_76209["CHEBI:76209"]
    ing20_Na2S_x_9_H2O -.-> CHEBI_76209

Ingredients (21)

# Ingredient Concentration Ontology Notes
1 Yeast extract 0.952381 G_PER_L
2 Glycyl-glycine
C4H8N2O3 132.119 g/mol
0.952381 G_PER_L CHEBI:17201
glycylglycine
3 Na2HPO4 x 2 H2O
2H2O.HO4P.2Na 177.988 g/mol
0.0952381 G_PER_L CHEBI:91258
disodium hydrogenphosphate dihydrate
4 MgSO4 x 7 H2O
7H2O.Mg.O4S 246.473 g/mol
0.0952381 G_PER_L CHEBI:31795
magnesium sulfate heptahydrate
5 KNO3
K.NO3 101.102 g/mol
0.0952381 G_PER_L CHEBI:63043
potassium nitrate
6 NaNO3
NO3.Na 84.994 g/mol
0.47619 G_PER_L CHEBI:63005
sodium nitrate
7 NaCl
Cl.Na 58.443 g/mol
0.0952381 G_PER_L CHEBI:26710
sodium chloride
8 CaCl2 x 2 H2O
Ca.2Cl.2H2O 147.014 g/mol
0.047619 G_PER_L CHEBI:86158
calcium chloride dihydrate
9 Fe(III) citrate
C6H5FeO7 244.944 g/mol
5 G_PER_L CHEBI:144421
iron(III) citrate
10 Biotin
C10H16N2O3S 244.316 g/mol
0.05 G_PER_L CHEBI:15956
biotin
11 Vitamin B12 0.01 G_PER_L CHEBI:176843
vitamin B12
12 Calcium pantothenate
2C9H16NO5.Ca 476.536 g/mol
0.5 G_PER_L CHEBI:31345
Calcium pantothenate
13 Na3-EDTA
C10H13N2O8.3Na 358.19 g/mol
2 G_PER_L CHEBI:63125
EDTA trisodium salt
14 ZnSO4 x 7 H2O
7H2O.O4S.Zn 287.558 g/mol
0.1 G_PER_L CHEBI:32312
zinc sulfate heptahydrate
15 MnCl2 x 4 H2O
Cl2Mn.4H2O 197.904 g/mol
0.03 G_PER_L CHEBI:86368
manganese(II) chloride tetrahydrate
16 H3BO3
H3BO3 61.833 g/mol
0.3 G_PER_L CHEBI:33118
boric acid
17 CoCl2 x 6 H2O
2Cl.Co.6H2O 237.929 g/mol
0.2 G_PER_L CHEBI:53503
cobalt chloride hexahydrate
18 CuCl2 x 2 H2O
Cl2Cu.2H2O 170.482 g/mol
0.01 G_PER_L CHEBI:86318
copper(II) chloride dihydrate
19 NiCl2 x 6 H2O
Cl2Ni 129.599 g/mol
0.02 G_PER_L CHEBI:34887
nickel dichloride
20 Na2MoO4 x 2 H2O
2H2O.MoO4.2Na 241.946 g/mol
0.03 G_PER_L CHEBI:75213
sodium molybdate dihydrate
21 Na2S x 9 H2O
9H2O.2Na.S 240.182 g/mol
30 G_PER_L CHEBI:76209
sodium sulfide nonahydrate

Preparation

  1. Adjust pH to 8.2.
  2. Boil the medium under a stream of nitrogen gas for a few minutes and distribute 90 ml medium into 100 ml screw-capped bottles. Bubble each bottle with nitrogen gas and close immediately with a rubber septum and screw tight. Autoclave at 121°C for 15 min. After autoclaving inject 1.0 ml of neutralized sulfide solution (0.03% end concentration) to each bottle. This medium can be stored for several months. Incubate the culture at 50°C at a light intensity of 300 - 500 lux. For heavy cell suspension supplement periodically with sterile yeast extract solution (0.1% end concentration, for more details see Ref. 3365, 3366).
  3. Adjust pH to 7.5. The solution is filter-sterilized.
  4. The sulfide solution is prepared in a 250 ml screw-capped bottle with a butyl rubber septum and a magnetic stirrer. The solution is bubbled with nitrogen gas, closed and autoclaved for 15 min. at 121°C. After cooling to room temperature the pH is adjusted to about 7.0 by adding of sterile 2 M H2SO4 drop-wise with a syringe without opening the bottle.
  5. Appearance of a yellow colour indicates the drop of pH to about 8. The solution should be stirred continuously to avoid precipitation of elemental sulfur. The final solution should be clear and is yellow in colour.

Solutions

Vitamin solution CA

Dose: 1 ML_PER_L

Stock composition
IngredientConcentrationNotes
Nicotinic acid 1 G_PER_L
Thiamine-HCl x 2 H2O 1 G_PER_L
p-Aminobenzoic acid 0.5 G_PER_L
Pyridoxine hydrochloride 0.5 G_PER_L
Folic acid 0.5 G_PER_L

Target organisms

No target organisms are recorded.

Provenance

TimestampCuratorActionNotes
2026-01-26T17:53:10.140063Z mediadive-import Imported from MediaDive Source: DSMZ, ID: 87a
2026-03-13T06:19:09.681304Z culturemech-id-assigner-v1.0 Assigned CultureMech ID Assigned stable identifier: CultureMech:002039
2026-03-17T06:30:30.000000Z mediaingredientmech-enrichment-v1.0 Added MediaIngredientMech links Linked ingredients to MediaIngredientMech identifiers
2026-03-17T19:45:22.267972+00:00 normalize_media_names_to_snake_case.py NAME_NORMALIZED Normalized name from "CHLOROFLEXUS AGGREGANS MEDIUM" to "chloroflexus_aggregans_medium" for consistent matching
2026-06-05T07:40:53.309202+00:00 mim-legacy-to-chebi-migration-v1.0 Refreshed legacy MediaIngredientMech links to CHEBI keying Replaced 23 legacy mediaingredientmech_term link(s) with mediaingredientmech_chebi_term (id-safe: ingredient's own CHEBI + label). MIM deprecated the MediaIngredientMech:NNNNNN id scheme.
2026-06-10T07:37:34.624396+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.
2026-06-10T07:46:54.473873+00:00 primary-term-label-canonicalization-v1.0 Canonicalized primary term label to OBO canonical (OAK) 2 primary term(s); ingredient name resolved by OAK sqlite:obo:chebi.
2026-08-07T07:05:21.723140+00:00 apply_cocktail_nesting.py NESTED_FLATTENED_COCKTAIL Moved 5 stock-strength component(s) out of ingredients into 1 solution(s): 5 -> 'Vitamin solution CA' @ 1 ml/l. Each moved component matched the MediaDive stock by name AND value; bulk ingredients sharing a name were left in place (#150).