Overview
- External ontology
- TOGO:M2609 — Carboxydothermus Medium
- Applications
-
- Microbial cultivation
- High-metal flag
- True
- Notes
- Source: https://togomedium.org/medium/M2609 Original URL: https://www.dsmz.de/microorganisms/medium/pdf/DSMZ_Medium507.pdf
Composition
flowchart LR
CultureMech_009176["carboxydothermus_medium"]
ing0_Distilled_water["Distilled water"]
CultureMech_009176 --> ing0_Distilled_water
CHEBI_15377["CHEBI:15377"]
ing0_Distilled_water -.-> CHEBI_15377
ing1_Yeast_extract["Yeast extract"]
CultureMech_009176 --> ing1_Yeast_extract
ing2_CaCl2_x_2_H2O["CaCl2 x 2 H2O"]
CultureMech_009176 --> ing2_CaCl2_x_2_H2O
CHEBI_86158["CHEBI:86158"]
ing2_CaCl2_x_2_H2O -.-> CHEBI_86158
ing3_KH2PO4["KH2PO4"]
CultureMech_009176 --> ing3_KH2PO4
CHEBI_63036["CHEBI:63036"]
ing3_KH2PO4 -.-> CHEBI_63036
ing4_NH4Cl["NH4Cl"]
CultureMech_009176 --> ing4_NH4Cl
CHEBI_31206["CHEBI:31206"]
ing4_NH4Cl -.-> CHEBI_31206
ing5_MgCl2_x_6_H2O["MgCl2 x 6 H2O"]
CultureMech_009176 --> ing5_MgCl2_x_6_H2O
CHEBI_86345["CHEBI:86345"]
ing5_MgCl2_x_6_H2O -.-> CHEBI_86345
ing6_KCl["KCl"]
CultureMech_009176 --> ing6_KCl
CHEBI_32588["CHEBI:32588"]
ing6_KCl -.-> CHEBI_32588
ing7_NaHCO3["NaHCO3"]
CultureMech_009176 --> ing7_NaHCO3
CHEBI_32139["CHEBI:32139"]
ing7_NaHCO3 -.-> CHEBI_32139
ing8_N2["N2"]
CultureMech_009176 --> ing8_N2
CHEBI_17997["CHEBI:17997"]
ing8_N2 -.-> CHEBI_17997
ing9_Na2MoO4_x_2_H2O["Na2MoO4 x 2 H2O"]
CultureMech_009176 --> ing9_Na2MoO4_x_2_H2O
CHEBI_75213["CHEBI:75213"]
ing9_Na2MoO4_x_2_H2O -.-> CHEBI_75213
ing10_H3BO3["H3BO3"]
CultureMech_009176 --> ing10_H3BO3
CHEBI_33118["CHEBI:33118"]
ing10_H3BO3 -.-> CHEBI_33118
ing11_MnCl2_x_4_H2O["MnCl2 x 4 H2O"]
CultureMech_009176 --> ing11_MnCl2_x_4_H2O
CHEBI_86368["CHEBI:86368"]
ing11_MnCl2_x_4_H2O -.-> CHEBI_86368
ing12_CoCl2_x_6_H2O["CoCl2 x 6 H2O"]
CultureMech_009176 --> ing12_CoCl2_x_6_H2O
CHEBI_53503["CHEBI:53503"]
ing12_CoCl2_x_6_H2O -.-> CHEBI_53503
ing13_NiCl2_x_6_H2O["NiCl2 x 6 H2O"]
CultureMech_009176 --> ing13_NiCl2_x_6_H2O
CHEBI_34887["CHEBI:34887"]
ing13_NiCl2_x_6_H2O -.-> CHEBI_34887
ing14_CuCl2_x_2_H2O["CuCl2 x 2 H2O"]
CultureMech_009176 --> ing14_CuCl2_x_2_H2O
CHEBI_86318["CHEBI:86318"]
ing14_CuCl2_x_2_H2O -.-> CHEBI_86318
ing15_ZnCl2["ZnCl2"]
CultureMech_009176 --> ing15_ZnCl2
CHEBI_49976["CHEBI:49976"]
ing15_ZnCl2 -.-> CHEBI_49976
ing16_FeCl2_x_4_H2O["FeCl2 x 4 H2O"]
CultureMech_009176 --> ing16_FeCl2_x_4_H2O
CHEBI_86249["CHEBI:86249"]
ing16_FeCl2_x_4_H2O -.-> CHEBI_86249
ing17_Na2_EDTA_x_2_H2O["Na2-EDTA x 2 H2O"]
CultureMech_009176 --> ing17_Na2_EDTA_x_2_H2O
CHEBI_64758["CHEBI:64758"]
ing17_Na2_EDTA_x_2_H2O -.-> CHEBI_64758
ing18_2_N_NaOH["2 N NaOH"]
CultureMech_009176 --> ing18_2_N_NaOH
ing19_Biotin["Biotin"]
CultureMech_009176 --> ing19_Biotin
CHEBI_15956["CHEBI:15956"]
ing19_Biotin -.-> CHEBI_15956
ing20_p_Aminobenzoic_acid["p-Aminobenzoic acid"]
CultureMech_009176 --> ing20_p_Aminobenzoic_acid
CHEBI_30753["CHEBI:30753"]
ing20_p_Aminobenzoic_acid -.-> CHEBI_30753
ing21_Thiamine_HCl["Thiamine-HCl"]
CultureMech_009176 --> ing21_Thiamine_HCl
CHEBI_49105["CHEBI:49105"]
ing21_Thiamine_HCl -.-> CHEBI_49105
ing22_Pyridoxine_hydrochloride["Pyridoxine hydrochloride"]
CultureMech_009176 --> ing22_Pyridoxine_hydrochloride
CHEBI_30961["CHEBI:30961"]
ing22_Pyridoxine_hydrochloride -.-> CHEBI_30961
ing23_Folic_acid["Folic acid"]
CultureMech_009176 --> ing23_Folic_acid
CHEBI_27470["CHEBI:27470"]
ing23_Folic_acid -.-> CHEBI_27470
ing24_Vitamin_B12["Vitamin B12"]
CultureMech_009176 --> ing24_Vitamin_B12
CHEBI_176843["CHEBI:176843"]
ing24_Vitamin_B12 -.-> CHEBI_176843
ing25_Riboflavin["Riboflavin"]
CultureMech_009176 --> ing25_Riboflavin
CHEBI_17015["CHEBI:17015"]
ing25_Riboflavin -.-> CHEBI_17015
ing26_Nicotinic_acid["Nicotinic acid"]
CultureMech_009176 --> ing26_Nicotinic_acid
CHEBI_15940["CHEBI:15940"]
ing26_Nicotinic_acid -.-> CHEBI_15940
ing27__DL__alpha_Lipoic_acid["(DL)-alpha-Lipoic acid"]
CultureMech_009176 --> ing27__DL__alpha_Lipoic_acid
CHEBI_16494["CHEBI:16494"]
ing27__DL__alpha_Lipoic_acid -.-> CHEBI_16494
ing28_Calcium_D_____pantothenate["Calcium D-(+)-pantothenate"]
CultureMech_009176 --> ing28_Calcium_D_____pantothenate
CHEBI_31345["CHEBI:31345"]
ing28_Calcium_D_____pantothenate -.-> CHEBI_31345
ing29_Na2S_x_9_H2O["Na2S x 9 H2O"]
CultureMech_009176 --> ing29_Na2S_x_9_H2O
CHEBI_76209["CHEBI:76209"]
ing29_Na2S_x_9_H2O -.-> CHEBI_76209
CultureMech_009176 --> more["...1 more"]
Ingredients (31)
| # | Ingredient | Concentration | Ontology | Notes |
|---|---|---|---|---|
| 1 |
Distilled water
H2O 18.015 g/mol
|
3100.0 G_PER_L |
CHEBI:15377
water
|
Role: Solvating media; Properties: Inorganic compound, Defined component, Simple component [Merged 4 duplicates: 1000.0, 1000.0, 1000.0, 100.0] |
| 2 | Yeast extract | 0.05 G_PER_L | Role: Nutrient source; Properties: Undefined component | |
| 3 |
CaCl2 x 2 H2O
Ca.2Cl.2H2O 147.014 g/mol
|
0.29 G_PER_L |
CHEBI:86158
calcium chloride dihydrate
|
Role: Mineral source; Properties: Inorganic compound, Defined component, Simple component |
| 4 |
KH2PO4
H2O4P.K 136.084 g/mol
|
0.33 G_PER_L |
CHEBI:63036
potassium dihydrogen phosphate
|
Role: Buffer; Properties: Inorganic compound, Defined component, Simple component |
| 5 |
NH4Cl
Cl.H4N 53.492 g/mol
|
0.33 G_PER_L |
CHEBI:31206
ammonium chloride
|
Role: Nitrogen source; Properties: Inorganic compound, Defined component, Simple component |
| 6 |
MgCl2 x 6 H2O
2Cl.6H2O.Mg 203.301 g/mol
|
0.52 G_PER_L |
CHEBI:86345
magnesium dichloride hexahydrate
|
Role: Mineral source; Properties: Inorganic compound, Defined component, Simple component |
| 7 |
KCl
Cl.K 74.551 g/mol
|
0.33 G_PER_L |
CHEBI:32588
potassium chloride
|
Role: Mineral source; Properties: Inorganic compound, Defined component, Simple component |
| 8 |
NaHCO3
CHO3.Na 84.006 g/mol
|
1 G_PER_L |
CHEBI:32139
sodium hydrogencarbonate
|
Role: Buffer; Properties: Inorganic compound, Defined component, Simple component |
| 9 |
N2
N2 28.014 g/mol
|
variable VARIABLE |
CHEBI:17997
dinitrogen
|
Properties: Gas |
| 10 |
Na2MoO4 x 2 H2O
2H2O.MoO4.2Na 241.946 g/mol
|
36 G_PER_L |
CHEBI:75213
sodium molybdate dihydrate
|
Role: Mineral source; Properties: Inorganic compound, Defined component, Simple component |
| 11 |
H3BO3
H3BO3 61.833 g/mol
|
6 G_PER_L |
CHEBI:33118
boric acid
|
Role: Mineral source; Properties: Inorganic compound, Defined component, Simple component |
| 12 |
MnCl2 x 4 H2O
Cl2Mn.4H2O 197.904 g/mol
|
100 G_PER_L |
CHEBI:86368
manganese(II) chloride tetrahydrate
|
Role: Mineral source; Properties: Inorganic compound, Defined component, Simple component |
| 13 |
CoCl2 x 6 H2O
2Cl.Co.6H2O 237.929 g/mol
|
190 G_PER_L |
CHEBI:53503
cobalt chloride hexahydrate
|
Role: Mineral source; Properties: Inorganic compound, Defined component, Simple component |
| 14 |
NiCl2 x 6 H2O
Cl2Ni 129.599 g/mol
|
24 G_PER_L |
CHEBI:34887
nickel dichloride
|
Role: Mineral source; Properties: Inorganic compound, Defined component, Simple component |
| 15 |
CuCl2 x 2 H2O
Cl2Cu.2H2O 170.482 g/mol
|
2 G_PER_L |
CHEBI:86318
copper(II) chloride dihydrate
|
Role: Mineral source; Properties: Inorganic compound, Defined component, Simple component |
| 16 |
ZnCl2
2Cl.Zn 136.296 g/mol
|
70 G_PER_L |
CHEBI:49976
zinc dichloride
|
Role: Mineral source; Properties: Inorganic compound, Defined component, Simple component |
| 17 |
FeCl2 x 4 H2O
Cl2Fe.4H2O 198.811 g/mol
|
1.5 G_PER_L |
CHEBI:86249
iron dichloride tetrahydrate
|
Role: Mineral source; Properties: Inorganic compound, Defined component, Simple component |
| 18 |
Na2-EDTA x 2 H2O
C10H14N2O8.2H2O.2Na 372.238 g/mol
|
5.2 G_PER_L |
CHEBI:64758
EDTA disodium salt dihydrate
|
Properties: Defined component, Organic compound, Simple component |
| 19 | 2 N NaOH | variable VARIABLE | Properties: Defined component, Inorganic compound, Solution | |
| 20 |
Biotin
C10H16N2O3S 244.316 g/mol
|
20 G_PER_L |
CHEBI:15956
biotin
|
Role: Vitamin; Properties: Organic compound, Defined component, Simple component |
| 21 |
p-Aminobenzoic acid
C7H7NO2 137.138 g/mol
|
50 G_PER_L |
CHEBI:30753
4-aminobenzoic acid
|
Role: Vitamin; Properties: Organic compound, Defined component, Simple component |
| 22 |
Thiamine-HCl
C12H17N4OS.Cl.HCl 337.276 g/mol
|
50 G_PER_L |
CHEBI:49105
thiamine hydrochloride
|
Role: Vitamin; Properties: Organic compound, Defined component, Simple component |
| 23 |
Pyridoxine hydrochloride
C8H11NO3.HCl 205.641 g/mol
|
100 G_PER_L |
CHEBI:30961
pyridoxine hydrochloride
|
Role: Vitamin; Properties: Organic compound, Defined component, Simple component |
| 24 |
Folic acid
C19H19N7O6 441.404 g/mol
|
20 G_PER_L |
CHEBI:27470
folic acid
|
Role: Vitamin; Properties: Organic compound, Defined component, Simple component |
| 25 | Vitamin B12 | 1 G_PER_L |
CHEBI:176843
vitamin B12
|
Role: Vitamin; Properties: Organic compound, Defined component, Simple component |
| 26 |
Riboflavin
C17H20N4O6 376.369 g/mol
|
50 G_PER_L |
CHEBI:17015
riboflavin
|
Role: Vitamin; Properties: Organic compound, Defined component, Simple component |
| 27 |
Nicotinic acid
C6H5NO2 123.111 g/mol
|
50 G_PER_L |
CHEBI:15940
nicotinic acid
|
Role: Vitamin; Properties: Organic compound, Defined component, Simple component |
| 28 |
(DL)-alpha-Lipoic acid
C8H14O2S2 206.332 g/mol
|
50 G_PER_L |
CHEBI:16494
lipoic acid
|
Role: Growth factor; Properties: Organic compound, Defined component, Simple component |
| 29 |
Calcium D-(+)-pantothenate
2C9H16NO5.Ca 476.536 g/mol
|
50 G_PER_L |
CHEBI:31345
Calcium pantothenate
|
Role: Vitamin; Properties: Defined component |
| 30 |
Na2S x 9 H2O
9H2O.2Na.S 240.182 g/mol
|
3 G_PER_L |
CHEBI:76209
sodium sulfide nonahydrate
|
Role: Reducing agent; Properties: Inorganic compound, Defined component, Simple component |
| 31 | 2 M H2SO4 | variable VARIABLE | Role: Mineral source; Properties: Defined component, Inorganic compound, Solution |
Solutions
Na-resazurin solution (0.1% w/v)
Dose: 0.5 G_PER_L
Role: pH dependent redox indicator; Properties: Defined component, Solution
Trace element solution SL-11
Dose: 1 G_PER_L
See mediadive_5191_Trace_element_solution_SL-11.yaml for composition
Wolin's vitamin solution (10x)
Dose: 1 G_PER_L
See mediadive_5980_Wolin_s_vitamin_solution_10x.yaml for composition
Neutralized sulfide solution 3% (w/v)
Dose: 20 G_PER_L
See mediadive_34_Neutralized_sulfide_solution_3_w_v.yaml for composition
Target organisms
No target organisms are recorded.
Provenance
| Timestamp | Curator | Action | Notes |
|---|---|---|---|
| 2026-01-27T06:35:56.859608Z | togo-import | Imported from TOGO Medium | Source: TOGO, ID: M2609 |
| 2026-01-28T19:48:30.700032Z | chebi-enrichment | Added CHEBI ontology terms to ingredients | Enriched using MicrobeMediaParam and MediaDive chemical mappings |
| 2026-02-03T00:00:00+00:00 | schema-defaulter-v1.0 | Applied schema defaults and normalizations | Added default concentration for ingredient: N2; Added default concentration for ingredient: 2 N NaOH; Added default concentration for ingredient: N2; Added default concentration for ingredient: 2 M H2SO4; Added default concentration for ingredient: N2 |
| 2026-02-06T05:10:40.611245Z | invalid-chebi-removal | Removed 1 invalid CHEBI ID(s) | Removed CHEBI IDs with invalid format (7+ digits) from MicrobeMediaParam source data |
| 2026-03-09T08:04:51.081220+00:00 | solution-migrator-v1.0 | Migrated solutions from ingredients to solutions array | Moved 4 solution(s) from ingredients |
| 2026-03-13T03:09:22.396013Z | data-quality-cleanup-v1.0 | Data quality fixes | Merged 5 duplicate ingredient(s) |
| 2026-03-13T06:20:03.655150Z | culturemech-id-assigner-v1.0 | Assigned CultureMech ID | Assigned stable identifier: CultureMech:009176 |
| 2026-03-14T00:00:00+00:00 | schema-defaulter-v1.0 | Applied schema defaults and normalizations | Added default solution name; Added default solution name; Added default solution name; Added default solution name |
| 2026-03-17T06:30:30.000000Z | mediaingredientmech-enrichment-v1.0 | Added MediaIngredientMech links | Linked ingredients to MediaIngredientMech identifiers |
| 2026-03-17T19:46:22.385352+00:00 | normalize_media_names_to_snake_case.py | NAME_NORMALIZED | Normalized name from "Carboxydothermus Medium" to "carboxydothermus_medium" for consistent matching |
| 2026-05-16T09:03:14.617708+00:00 | migrate_legacy_fields.py | MIGRATED_LEGACY_FIELDS | curation_history.date->timestamp=2 |
| 2026-06-05T07:40:37.891248+00:00 | mim-legacy-to-chebi-migration-v1.0 | Refreshed legacy MediaIngredientMech links to CHEBI keying | Replaced 26 legacy mediaingredientmech_term link(s) with mediaingredientmech_chebi_term (id-safe: ingredient's own CHEBI + label). MIM deprecated the MediaIngredientMech:NNNNNN id scheme. |
| 2026-06-10T07:46:49.399965+00:00 | primary-term-label-canonicalization-v1.0 | Canonicalized primary term label to OBO canonical (OAK) | 3 primary term(s); ingredient name resolved by OAK sqlite:obo:chebi. |