Overview
- External ontology
- komodo.medium:898.1 (source link unavailable) — For DSM 16504
- Applications
-
- Microbial cultivation
- pH range
- {'min': 9.5, 'max': 9.7}
- Notes
- pH buffer: NaOH | Source: KOMODO ModelSEED | ID: 898.1 | DSMZ Medium: 898 (mediadive.medium:898) | Aerobic: Yes
Composition
flowchart LR
CultureMech_006754["for_dsm_16504"]
ing0_KH2PO4["KH2PO4"]
CultureMech_006754 --> ing0_KH2PO4
CHEBI_63036["CHEBI:63036"]
ing0_KH2PO4 -.-> CHEBI_63036
ing1_MgCl2_x_6_H2O["MgCl2 x 6 H2O"]
CultureMech_006754 --> ing1_MgCl2_x_6_H2O
CHEBI_86345["CHEBI:86345"]
ing1_MgCl2_x_6_H2O -.-> CHEBI_86345
ing2_KCl["KCl"]
CultureMech_006754 --> ing2_KCl
CHEBI_32588["CHEBI:32588"]
ing2_KCl -.-> CHEBI_32588
ing3_NH4Cl["NH4Cl"]
CultureMech_006754 --> ing3_NH4Cl
CHEBI_31206["CHEBI:31206"]
ing3_NH4Cl -.-> CHEBI_31206
ing4_NaCl["NaCl"]
CultureMech_006754 --> ing4_NaCl
CHEBI_26710["CHEBI:26710"]
ing4_NaCl -.-> CHEBI_26710
ing5_Na2S2O3_x_5_H2O["Na2S2O3 x 5 H2O"]
CultureMech_006754 --> ing5_Na2S2O3_x_5_H2O
CHEBI_32150["CHEBI:32150"]
ing5_Na2S2O3_x_5_H2O -.-> CHEBI_32150
ing6_Sodium_resazurin["Sodium resazurin"]
CultureMech_006754 --> ing6_Sodium_resazurin
CHEBI_8806["CHEBI:8806"]
ing6_Sodium_resazurin -.-> CHEBI_8806
ing7_Na2CO3["Na2CO3"]
CultureMech_006754 --> ing7_Na2CO3
CHEBI_29377["CHEBI:29377"]
ing7_Na2CO3 -.-> CHEBI_29377
ing8_NaHCO3["NaHCO3"]
CultureMech_006754 --> ing8_NaHCO3
CHEBI_32139["CHEBI:32139"]
ing8_NaHCO3 -.-> CHEBI_32139
ing9_Yeast_extract["Yeast extract"]
CultureMech_006754 --> ing9_Yeast_extract
ing10_Na_crotonate["Na-crotonate"]
CultureMech_006754 --> ing10_Na_crotonate
CHEBI_35899["CHEBI:35899"]
ing10_Na_crotonate -.-> CHEBI_35899
ing11_Na2S_x_9_H2O["Na2S x 9 H2O"]
CultureMech_006754 --> ing11_Na2S_x_9_H2O
CHEBI_76209["CHEBI:76209"]
ing11_Na2S_x_9_H2O -.-> CHEBI_76209
ing12_HCl["HCl"]
CultureMech_006754 --> ing12_HCl
CHEBI_17883["CHEBI:17883"]
ing12_HCl -.-> CHEBI_17883
ing13_FeCl2_x_4_H2O["FeCl2 x 4 H2O"]
CultureMech_006754 --> ing13_FeCl2_x_4_H2O
CHEBI_86249["CHEBI:86249"]
ing13_FeCl2_x_4_H2O -.-> CHEBI_86249
ing14_ZnCl2["ZnCl2"]
CultureMech_006754 --> ing14_ZnCl2
CHEBI_49976["CHEBI:49976"]
ing14_ZnCl2 -.-> CHEBI_49976
ing15_MnCl2_x_4_H2O["MnCl2 x 4 H2O"]
CultureMech_006754 --> ing15_MnCl2_x_4_H2O
CHEBI_86368["CHEBI:86368"]
ing15_MnCl2_x_4_H2O -.-> CHEBI_86368
ing16_H3BO3["H3BO3"]
CultureMech_006754 --> ing16_H3BO3
CHEBI_33118["CHEBI:33118"]
ing16_H3BO3 -.-> CHEBI_33118
ing17_CoCl2_x_6_H2O["CoCl2 x 6 H2O"]
CultureMech_006754 --> 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_006754 --> 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_006754 --> 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_006754 --> ing20_Na2MoO4_x_2_H2O
CHEBI_75213["CHEBI:75213"]
ing20_Na2MoO4_x_2_H2O -.-> CHEBI_75213
ing21_Biotin["Biotin"]
CultureMech_006754 --> ing21_Biotin
CHEBI_15956["CHEBI:15956"]
ing21_Biotin -.-> CHEBI_15956
ing22_Folic_acid["Folic acid"]
CultureMech_006754 --> ing22_Folic_acid
CHEBI_27470["CHEBI:27470"]
ing22_Folic_acid -.-> CHEBI_27470
ing23_Pyridoxine_hydrochloride["Pyridoxine hydrochloride"]
CultureMech_006754 --> ing23_Pyridoxine_hydrochloride
CHEBI_30961["CHEBI:30961"]
ing23_Pyridoxine_hydrochloride -.-> CHEBI_30961
ing24_Thiamine_HCl["Thiamine HCl"]
CultureMech_006754 --> ing24_Thiamine_HCl
CHEBI_49105["CHEBI:49105"]
ing24_Thiamine_HCl -.-> CHEBI_49105
ing25_Riboflavin["Riboflavin"]
CultureMech_006754 --> ing25_Riboflavin
CHEBI_17015["CHEBI:17015"]
ing25_Riboflavin -.-> CHEBI_17015
ing26_Nicotinic_acid["Nicotinic acid"]
CultureMech_006754 --> ing26_Nicotinic_acid
CHEBI_15940["CHEBI:15940"]
ing26_Nicotinic_acid -.-> CHEBI_15940
ing27_Calcium_D_____pantothenate["Calcium D-(+)-pantothenate"]
CultureMech_006754 --> ing27_Calcium_D_____pantothenate
CHEBI_31345["CHEBI:31345"]
ing27_Calcium_D_____pantothenate -.-> CHEBI_31345
ing28_Vitamin_B12["Vitamin B12"]
CultureMech_006754 --> ing28_Vitamin_B12
CHEBI_176843["CHEBI:176843"]
ing28_Vitamin_B12 -.-> CHEBI_176843
ing29_p_Aminobenzoic_acid["p-Aminobenzoic acid"]
CultureMech_006754 --> ing29_p_Aminobenzoic_acid
CHEBI_30753["CHEBI:30753"]
ing29_p_Aminobenzoic_acid -.-> CHEBI_30753
CultureMech_006754 --> more["...2 more"]
Ingredients (32)
| # | Ingredient | Concentration | Ontology | Notes |
|---|---|---|---|---|
| 1 |
KH2PO4
H2O4P.K 136.084 g/mol
|
0.199601 G_PER_L |
CHEBI:63036
potassium dihydrogen phosphate
|
|
| 2 |
MgCl2 x 6 H2O
2Cl.6H2O.Mg 203.301 g/mol
|
0.0998004 G_PER_L |
CHEBI:86345
magnesium dichloride hexahydrate
|
|
| 3 |
KCl
Cl.K 74.551 g/mol
|
0.199601 G_PER_L |
CHEBI:32588
potassium chloride
|
|
| 4 |
NH4Cl
Cl.H4N 53.492 g/mol
|
0.998004 G_PER_L |
CHEBI:31206
ammonium chloride
|
|
| 5 |
NaCl
Cl.Na 58.443 g/mol
|
0.998004 G_PER_L |
CHEBI:26710
sodium chloride
|
|
| 6 |
Na2S2O3 x 5 H2O
5H2O.2Na.O3S2 248.186 g/mol
|
1.49701 G_PER_L |
CHEBI:32150
sodium thiosulfate pentahydrate
|
|
| 7 |
Sodium resazurin
C12H7NO4 229.191 g/mol
|
0.000499002 G_PER_L |
CHEBI:8806
Resazurin
|
|
| 8 |
Na2CO3
CO3.2Na 105.988 g/mol
|
2.75449 G_PER_L |
CHEBI:29377
sodium carbonate
|
|
| 9 |
NaHCO3
CHO3.Na 84.006 g/mol
|
9.98004 G_PER_L |
CHEBI:32139
sodium hydrogencarbonate
|
|
| 10 | Yeast extract | 4.99002 G_PER_L | ||
| 11 |
Na-crotonate
C4H5O2 85.082 g/mol
|
1.71657 G_PER_L |
CHEBI:35899
crotonate
|
|
| 12 |
Na2S x 9 H2O
9H2O.2Na.S 240.182 g/mol
|
0.499002 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 |
Biotin
C10H16N2O3S 244.316 g/mol
|
0.02 G_PER_L |
CHEBI:15956
biotin
|
|
| 23 |
Folic acid
C19H19N7O6 441.404 g/mol
|
0.02 G_PER_L |
CHEBI:27470
folic acid
|
|
| 24 |
Pyridoxine hydrochloride
C8H11NO3.HCl 205.641 g/mol
|
0.1 G_PER_L |
CHEBI:30961
pyridoxine hydrochloride
|
|
| 25 |
Thiamine HCl
C12H17N4OS.Cl.HCl 337.276 g/mol
|
0.05 G_PER_L |
CHEBI:49105
thiamine hydrochloride
|
|
| 26 |
Riboflavin
C17H20N4O6 376.369 g/mol
|
0.05 G_PER_L |
CHEBI:17015
riboflavin
|
|
| 27 |
Nicotinic acid
C6H5NO2 123.111 g/mol
|
0.05 G_PER_L |
CHEBI:15940
nicotinic acid
|
|
| 28 |
Calcium D-(+)-pantothenate
2C9H16NO5.Ca 476.536 g/mol
|
0.05 G_PER_L |
CHEBI:31345
Calcium pantothenate
|
|
| 29 | Vitamin B12 | 0.001 G_PER_L |
CHEBI:176843
vitamin B12
|
|
| 30 |
p-Aminobenzoic acid
C7H7NO2 137.138 g/mol
|
0.05 G_PER_L |
CHEBI:30753
4-aminobenzoic acid
|
|
| 31 |
(DL)-alpha-Lipoic acid
C8H14O2S2 206.332 g/mol
|
0.05 G_PER_L |
CHEBI:16494
lipoic acid
|
|
| 32 |
NaOH
HO.Na 39.997 g/mol
|
variable VARIABLE |
CHEBI:32145
sodium hydroxide
|
pH adjustment (extracted from notes) |
Target organisms
No target organisms are recorded.
Provenance
| Timestamp | Curator | Action | Notes |
|---|---|---|---|
| 2026-01-27T01:15:03.fZ | komodo-web-import | Imported from KOMODO web table | Source: KOMODO, ID: 898.1 |
| 2026-02-03T11:18:58.560613 | dsmz-resolver-v1.0 | Enriched with DSMZ composition | Copied ingredients from DSMZ Medium 898 |
| 2026-02-06T05:10:18.599901Z | invalid-chebi-removal | Removed 1 invalid CHEBI ID(s) | Removed CHEBI IDs with invalid format (7+ digits) from MicrobeMediaParam source data |
| 2026-03-13T03:08:48.160265Z | data-quality-cleanup-v1.0 | Data quality fixes | Added pH buffer: NaOH |
| 2026-03-13T06:19:43.654807Z | culturemech-id-assigner-v1.0 | Assigned CultureMech ID | Assigned stable identifier: CultureMech:006754 |
| 2026-03-14T00:00:00+00:00 | schema-defaulter-v1.0 | Applied schema defaults and normalizations | Added default concentration for ingredient: NaOH |
| 2026-03-17T06:29:51.000000Z | mediaingredientmech-enrichment-v1.0 | Added MediaIngredientMech links | Linked ingredients to MediaIngredientMech identifiers |
| 2026-03-17T19:46:01.456878+00:00 | normalize_media_names_to_snake_case.py | NAME_NORMALIZED | Normalized name from "For DSM 16504" to "for_dsm_16504" for consistent matching |
| 2026-05-16T09:03:33.317925+00:00 | migrate_legacy_fields.py | MIGRATED_LEGACY_FIELDS | curation_history.date->timestamp=1 |
| 2026-05-20T06:01:18.306782+00:00 | migrate_ph_range.py | MIGRATED_PH_RANGE | ph_range '9.5-9.7' -> {'min': 9.5, 'max': 9.7} |
| 2026-06-05T07:41:02.467119+00:00 | mim-legacy-to-chebi-migration-v1.0 | Refreshed legacy MediaIngredientMech links to CHEBI keying | Replaced 29 legacy mediaingredientmech_term link(s) with mediaingredientmech_chebi_term (id-safe: ingredient's own CHEBI + label). MIM deprecated the MediaIngredientMech:NNNNNN id scheme. |
| 2026-06-10T07:46:57.645447+00:00 | primary-term-label-canonicalization-v1.0 | Canonicalized primary term label to OBO canonical (OAK) | 4 primary term(s); ingredient name resolved by OAK sqlite:obo:chebi. |
| 2026-09-13T00:00:00-07:00 | repair_komodo_898_anoxybacillus_score10.py | RESOLVED_KOMODO_898_ANOXYBACILLUS_TOPOLOGY | KOMODO Medium 898.1 applies ANOXYBACILLUS medium to DSM 16504. |