Overview
- External ontology
- komodo.medium:113 (source link unavailable) — THIOBACILLUS DENITRIFICANS MEDIUM
- Applications
-
- Microbial cultivation
- Notes
- Source: KOMODO ModelSEED | ID: 113 | DSMZ Medium: 113 (mediadive.medium:113) | Aerobic: Yes
Composition
flowchart LR
CultureMech_003849["thiobacillus_denitrificans_medium"]
ing0_NaCl["NaCl"]
CultureMech_003849 --> ing0_NaCl
CHEBI_26710["CHEBI:26710"]
ing0_NaCl -.-> CHEBI_26710
ing1_KH2PO4["KH2PO4"]
CultureMech_003849 --> ing1_KH2PO4
CHEBI_63036["CHEBI:63036"]
ing1_KH2PO4 -.-> CHEBI_63036
ing2_KNO3["KNO3"]
CultureMech_003849 --> ing2_KNO3
CHEBI_63043["CHEBI:63043"]
ing2_KNO3 -.-> CHEBI_63043
ing3_NH4Cl["NH4Cl"]
CultureMech_003849 --> ing3_NH4Cl
CHEBI_31206["CHEBI:31206"]
ing3_NH4Cl -.-> CHEBI_31206
ing4_MgSO4_x_7_H2O["MgSO4 x 7 H2O"]
CultureMech_003849 --> ing4_MgSO4_x_7_H2O
CHEBI_31795["CHEBI:31795"]
ing4_MgSO4_x_7_H2O -.-> CHEBI_31795
ing5_Na2S2O3_x_5_H2O["Na2S2O3 x 5 H2O"]
CultureMech_003849 --> ing5_Na2S2O3_x_5_H2O
CHEBI_32150["CHEBI:32150"]
ing5_Na2S2O3_x_5_H2O -.-> CHEBI_32150
ing6_Na2CO3["Na2CO3"]
CultureMech_003849 --> ing6_Na2CO3
CHEBI_29377["CHEBI:29377"]
ing6_Na2CO3 -.-> CHEBI_29377
ing7_FeSO4_x_7_H2O["FeSO4 x 7 H2O"]
CultureMech_003849 --> ing7_FeSO4_x_7_H2O
CHEBI_75836["CHEBI:75836"]
ing7_FeSO4_x_7_H2O -.-> CHEBI_75836
ing8_H2SO4["H2SO4"]
CultureMech_003849 --> ing8_H2SO4
CHEBI_26836["CHEBI:26836"]
ing8_H2SO4 -.-> CHEBI_26836
ing9_Na2_EDTA["Na2-EDTA"]
CultureMech_003849 --> ing9_Na2_EDTA
CHEBI_64734["CHEBI:64734"]
ing9_Na2_EDTA -.-> CHEBI_64734
ing10_ZnSO4_x_7_H2O["ZnSO4 x 7 H2O"]
CultureMech_003849 --> ing10_ZnSO4_x_7_H2O
CHEBI_32312["CHEBI:32312"]
ing10_ZnSO4_x_7_H2O -.-> CHEBI_32312
ing11_MnCl2_x_4_H2O["MnCl2 x 4 H2O"]
CultureMech_003849 --> ing11_MnCl2_x_4_H2O
CHEBI_86368["CHEBI:86368"]
ing11_MnCl2_x_4_H2O -.-> CHEBI_86368
ing12_H3BO3["H3BO3"]
CultureMech_003849 --> ing12_H3BO3
CHEBI_33118["CHEBI:33118"]
ing12_H3BO3 -.-> CHEBI_33118
ing13_CoCl2_x_6_H2O["CoCl2 x 6 H2O"]
CultureMech_003849 --> ing13_CoCl2_x_6_H2O
CHEBI_53503["CHEBI:53503"]
ing13_CoCl2_x_6_H2O -.-> CHEBI_53503
ing14_CuCl2_x_2_H2O["CuCl2 x 2 H2O"]
CultureMech_003849 --> ing14_CuCl2_x_2_H2O
CHEBI_86318["CHEBI:86318"]
ing14_CuCl2_x_2_H2O -.-> CHEBI_86318
ing15_NiCl2_x_6_H2O["NiCl2 x 6 H2O"]
CultureMech_003849 --> ing15_NiCl2_x_6_H2O
CHEBI_34887["CHEBI:34887"]
ing15_NiCl2_x_6_H2O -.-> CHEBI_34887
ing16_Na2MoO4_x_2_H2O["Na2MoO4 x 2 H2O"]
CultureMech_003849 --> ing16_Na2MoO4_x_2_H2O
CHEBI_75213["CHEBI:75213"]
ing16_Na2MoO4_x_2_H2O -.-> CHEBI_75213
ing17_Biotin["Biotin"]
CultureMech_003849 --> ing17_Biotin
CHEBI_15956["CHEBI:15956"]
ing17_Biotin -.-> CHEBI_15956
ing18_Folic_acid["Folic acid"]
CultureMech_003849 --> ing18_Folic_acid
CHEBI_27470["CHEBI:27470"]
ing18_Folic_acid -.-> CHEBI_27470
ing19_Pyridoxine_hydrochloride["Pyridoxine hydrochloride"]
CultureMech_003849 --> ing19_Pyridoxine_hydrochloride
CHEBI_30961["CHEBI:30961"]
ing19_Pyridoxine_hydrochloride -.-> CHEBI_30961
ing20_Thiamine_HCl["Thiamine HCl"]
CultureMech_003849 --> ing20_Thiamine_HCl
CHEBI_49105["CHEBI:49105"]
ing20_Thiamine_HCl -.-> CHEBI_49105
ing21_Riboflavin["Riboflavin"]
CultureMech_003849 --> ing21_Riboflavin
CHEBI_17015["CHEBI:17015"]
ing21_Riboflavin -.-> CHEBI_17015
ing22_Nicotinic_acid["Nicotinic acid"]
CultureMech_003849 --> ing22_Nicotinic_acid
CHEBI_15940["CHEBI:15940"]
ing22_Nicotinic_acid -.-> CHEBI_15940
ing23_Calcium_D_____pantothenate["Calcium D-(+)-pantothenate"]
CultureMech_003849 --> ing23_Calcium_D_____pantothenate
CHEBI_31345["CHEBI:31345"]
ing23_Calcium_D_____pantothenate -.-> CHEBI_31345
ing24_Vitamin_B12["Vitamin B12"]
CultureMech_003849 --> ing24_Vitamin_B12
CHEBI_176843["CHEBI:176843"]
ing24_Vitamin_B12 -.-> CHEBI_176843
ing25_p_Aminobenzoic_acid["p-Aminobenzoic acid"]
CultureMech_003849 --> ing25_p_Aminobenzoic_acid
CHEBI_30753["CHEBI:30753"]
ing25_p_Aminobenzoic_acid -.-> CHEBI_30753
ing26__DL__alpha_Lipoic_acid["(DL)-alpha-Lipoic acid"]
CultureMech_003849 --> ing26__DL__alpha_Lipoic_acid
CHEBI_16494["CHEBI:16494"]
ing26__DL__alpha_Lipoic_acid -.-> CHEBI_16494
Ingredients (27)
| # | Ingredient | Concentration | Ontology | Notes |
|---|---|---|---|---|
| 1 |
NaCl
Cl.Na 58.443 g/mol
|
26.5393 G_PER_L |
CHEBI:26710
sodium chloride
|
|
| 2 |
KH2PO4
H2O4P.K 136.084 g/mol
|
2.12314 G_PER_L |
CHEBI:63036
potassium dihydrogen phosphate
|
|
| 3 |
KNO3
K.NO3 101.102 g/mol
|
2.12314 G_PER_L |
CHEBI:63043
potassium nitrate
|
|
| 4 |
NH4Cl
Cl.H4N 53.492 g/mol
|
1.06157 G_PER_L |
CHEBI:31206
ammonium chloride
|
|
| 5 |
MgSO4 x 7 H2O
7H2O.Mg.O4S 246.473 g/mol
|
0.849257 G_PER_L |
CHEBI:31795
magnesium sulfate heptahydrate
|
|
| 6 |
Na2S2O3 x 5 H2O
5H2O.2Na.O3S2 248.186 g/mol
|
125 G_PER_L |
CHEBI:32150
sodium thiosulfate pentahydrate
|
|
| 7 |
Na2CO3
CO3.2Na 105.988 g/mol
|
50 G_PER_L |
CHEBI:29377
sodium carbonate
|
|
| 8 |
FeSO4 x 7 H2O
Fe.7H2O.O4S 278.013 g/mol
|
2.2 G_PER_L |
CHEBI:75836
iron(2+) sulfate heptahydrate
|
[Merged 2 duplicates: 2.0, 0.2] |
| 9 |
H2SO4
H2O4S 98.079 g/mol
|
10 G_PER_L |
CHEBI:26836
sulfuric acid
|
|
| 10 |
Na2-EDTA
C10H14N2O8.2Na 336.208 g/mol
|
0.5 G_PER_L |
CHEBI:64734
EDTA disodium salt (anhydrous)
|
|
| 11 |
ZnSO4 x 7 H2O
7H2O.O4S.Zn 287.558 g/mol
|
0.1 G_PER_L |
CHEBI:32312
zinc sulfate heptahydrate
|
|
| 12 |
MnCl2 x 4 H2O
Cl2Mn.4H2O 197.904 g/mol
|
0.03 G_PER_L |
CHEBI:86368
manganese(II) chloride tetrahydrate
|
|
| 13 |
H3BO3
H3BO3 61.833 g/mol
|
0.3 G_PER_L |
CHEBI:33118
boric acid
|
|
| 14 |
CoCl2 x 6 H2O
2Cl.Co.6H2O 237.929 g/mol
|
0.2 G_PER_L |
CHEBI:53503
cobalt chloride hexahydrate
|
|
| 15 |
CuCl2 x 2 H2O
Cl2Cu.2H2O 170.482 g/mol
|
0.01 G_PER_L |
CHEBI:86318
copper(II) chloride dihydrate
|
|
| 16 |
NiCl2 x 6 H2O
Cl2Ni 129.599 g/mol
|
0.02 G_PER_L |
CHEBI:34887
nickel dichloride
|
|
| 17 |
Na2MoO4 x 2 H2O
2H2O.MoO4.2Na 241.946 g/mol
|
0.03 G_PER_L |
CHEBI:75213
sodium molybdate dihydrate
|
|
| 18 |
Biotin
C10H16N2O3S 244.316 g/mol
|
0.02 G_PER_L |
CHEBI:15956
biotin
|
|
| 19 |
Folic acid
C19H19N7O6 441.404 g/mol
|
0.02 G_PER_L |
CHEBI:27470
folic acid
|
|
| 20 |
Pyridoxine hydrochloride
C8H11NO3.HCl 205.641 g/mol
|
0.1 G_PER_L |
CHEBI:30961
pyridoxine hydrochloride
|
|
| 21 |
Thiamine HCl
C12H17N4OS.Cl.HCl 337.276 g/mol
|
0.05 G_PER_L |
CHEBI:49105
thiamine hydrochloride
|
|
| 22 |
Riboflavin
C17H20N4O6 376.369 g/mol
|
0.05 G_PER_L |
CHEBI:17015
riboflavin
|
|
| 23 |
Nicotinic acid
C6H5NO2 123.111 g/mol
|
0.05 G_PER_L |
CHEBI:15940
nicotinic acid
|
|
| 24 |
Calcium D-(+)-pantothenate
2C9H16NO5.Ca 476.536 g/mol
|
0.05 G_PER_L |
CHEBI:31345
Calcium pantothenate
|
|
| 25 | Vitamin B12 | 0.001 G_PER_L |
CHEBI:176843
vitamin B12
|
|
| 26 |
p-Aminobenzoic acid
C7H7NO2 137.138 g/mol
|
0.05 G_PER_L |
CHEBI:30753
4-aminobenzoic acid
|
|
| 27 |
(DL)-alpha-Lipoic acid
C8H14O2S2 206.332 g/mol
|
0.05 G_PER_L |
CHEBI:16494
lipoic acid
|
Target organisms
No target organisms are recorded.
Provenance
| Timestamp | Curator | Action | Notes |
|---|---|---|---|
| 2026-01-27T01:15:01.fZ | komodo-web-import | Imported from KOMODO web table | Source: KOMODO, ID: 113 |
| 2026-02-03T11:19:15.265102 | dsmz-resolver-v1.0 | Enriched with DSMZ composition | Copied ingredients from DSMZ Medium 113 |
| 2026-02-06T05:10:47.470952Z | invalid-chebi-removal | Removed 1 invalid CHEBI ID(s) | Removed CHEBI IDs with invalid format (7+ digits) from MicrobeMediaParam source data |
| 2026-03-13T03:09:32.614296Z | data-quality-cleanup-v1.0 | Data quality fixes | Merged 1 duplicate ingredient(s) |
| 2026-03-13T06:19:22.706675Z | culturemech-id-assigner-v1.0 | Assigned CultureMech ID | Assigned stable identifier: CultureMech:003849 |
| 2026-03-17T06:30:43.000000Z | mediaingredientmech-enrichment-v1.0 | Added MediaIngredientMech links | Linked ingredients to MediaIngredientMech identifiers |
| 2026-03-17T19:45:37.133897+00:00 | normalize_media_names_to_snake_case.py | NAME_NORMALIZED | Normalized name from "THIOBACILLUS DENITRIFICANS MEDIUM" to "thiobacillus_denitrificans_medium" for consistent matching |
| 2026-06-05T07:40:19.303810+00:00 | mim-legacy-to-chebi-migration-v1.0 | Refreshed legacy MediaIngredientMech links to CHEBI keying | Replaced 25 legacy mediaingredientmech_term link(s) with mediaingredientmech_chebi_term (id-safe: ingredient's own CHEBI + label). MIM deprecated the MediaIngredientMech:NNNNNN id scheme. |
| 2026-06-10T07:37:34.185436+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. |
| 2026-06-10T07:46:43.595794+00:00 | primary-term-label-canonicalization-v1.0 | Canonicalized primary term label to OBO canonical (OAK) | 5 primary term(s); ingredient name resolved by OAK sqlite:obo:chebi. |