Overview
- External ontology
- TOGO:M352 — ATYP Medium
- Applications
-
- Microbial cultivation
- High-metal flag
- True
- Notes
- Source: https://togomedium.org/medium/M352 Original source: JCM - JCM_M358 Original URL: https://www.jcm.riken.jp/cgi-bin/jcm/jcm_grmd?GRMD=358
Composition
flowchart LR
CultureMech_009732["atyp_medium"]
ing0_Distilled_water["Distilled water"]
CultureMech_009732 --> ing0_Distilled_water
CHEBI_15377["CHEBI:15377"]
ing0_Distilled_water -.-> CHEBI_15377
ing1_NaCl["NaCl"]
CultureMech_009732 --> ing1_NaCl
CHEBI_26710["CHEBI:26710"]
ing1_NaCl -.-> CHEBI_26710
ing2_CaCl2_2H2O["CaCl2・2H2O"]
CultureMech_009732 --> ing2_CaCl2_2H2O
CHEBI_86158["CHEBI:86158"]
ing2_CaCl2_2H2O -.-> CHEBI_86158
ing3_KH2PO4["KH2PO4"]
CultureMech_009732 --> ing3_KH2PO4
CHEBI_63036["CHEBI:63036"]
ing3_KH2PO4 -.-> CHEBI_63036
ing4_NH4Cl["NH4Cl"]
CultureMech_009732 --> ing4_NH4Cl
CHEBI_31206["CHEBI:31206"]
ing4_NH4Cl -.-> CHEBI_31206
ing5_MgCl2_6H2O["MgCl2・6H2O"]
CultureMech_009732 --> ing5_MgCl2_6H2O
CHEBI_86345["CHEBI:86345"]
ing5_MgCl2_6H2O -.-> CHEBI_86345
ing6_Sodium_acetate["Sodium acetate"]
CultureMech_009732 --> ing6_Sodium_acetate
CHEBI_32954["CHEBI:32954"]
ing6_Sodium_acetate -.-> CHEBI_32954
ing7_Sodium_succinate["Sodium succinate"]
CultureMech_009732 --> ing7_Sodium_succinate
CHEBI_63675["CHEBI:63675"]
ing7_Sodium_succinate -.-> CHEBI_63675
ing8_Yeast_extract__BD_Difco_["Yeast extract (BD-Difco)"]
CultureMech_009732 --> ing8_Yeast_extract__BD_Difco_
ing9_Bacto_peptone__BD_Difco_["Bacto peptone (BD-Difco)"]
CultureMech_009732 --> ing9_Bacto_peptone__BD_Difco_
ing10_Na2MoO4_2H2O["Na2MoO4・2H2O"]
CultureMech_009732 --> ing10_Na2MoO4_2H2O
CHEBI_75213["CHEBI:75213"]
ing10_Na2MoO4_2H2O -.-> CHEBI_75213
ing11_H3BO3["H3BO3"]
CultureMech_009732 --> ing11_H3BO3
CHEBI_33118["CHEBI:33118"]
ing11_H3BO3 -.-> CHEBI_33118
ing12_MnCl2_4H2O["MnCl2・4H2O"]
CultureMech_009732 --> ing12_MnCl2_4H2O
CHEBI_86368["CHEBI:86368"]
ing12_MnCl2_4H2O -.-> CHEBI_86368
ing13_CoCl2_6H2O["CoCl2・6H2O"]
CultureMech_009732 --> ing13_CoCl2_6H2O
CHEBI_35696["CHEBI:35696"]
ing13_CoCl2_6H2O -.-> CHEBI_35696
ing14_NiCl2_6H2O["NiCl2・6H2O"]
CultureMech_009732 --> ing14_NiCl2_6H2O
CHEBI_34887["CHEBI:34887"]
ing14_NiCl2_6H2O -.-> CHEBI_34887
ing15_CuCl2_2H2O["CuCl2・2H2O"]
CultureMech_009732 --> ing15_CuCl2_2H2O
CHEBI_86318["CHEBI:86318"]
ing15_CuCl2_2H2O -.-> CHEBI_86318
ing16_ZnCl2["ZnCl2"]
CultureMech_009732 --> ing16_ZnCl2
CHEBI_49976["CHEBI:49976"]
ing16_ZnCl2 -.-> CHEBI_49976
ing17_Na2SeO3_5H2O["Na2SeO3・5H2O"]
CultureMech_009732 --> ing17_Na2SeO3_5H2O
CHEBI_131361["CHEBI:131361"]
ing17_Na2SeO3_5H2O -.-> CHEBI_131361
ing18_FeCl2_4H2O["FeCl2・4H2O"]
CultureMech_009732 --> ing18_FeCl2_4H2O
CHEBI_86249["CHEBI:86249"]
ing18_FeCl2_4H2O -.-> CHEBI_86249
ing19_HCl["HCl"]
CultureMech_009732 --> ing19_HCl
CHEBI_17883["CHEBI:17883"]
ing19_HCl -.-> CHEBI_17883
ing20_Biotin["Biotin"]
CultureMech_009732 --> ing20_Biotin
CHEBI_15956["CHEBI:15956"]
ing20_Biotin -.-> CHEBI_15956
ing21_p__Aminobenzoic_acid["p--Aminobenzoic acid"]
CultureMech_009732 --> ing21_p__Aminobenzoic_acid
CHEBI_30753["CHEBI:30753"]
ing21_p__Aminobenzoic_acid -.-> CHEBI_30753
ing22_Thiamine_HCl["Thiamine・HCl"]
CultureMech_009732 --> ing22_Thiamine_HCl
CHEBI_49105["CHEBI:49105"]
ing22_Thiamine_HCl -.-> CHEBI_49105
ing23_Calcium_pantothenate["Calcium pantothenate"]
CultureMech_009732 --> ing23_Calcium_pantothenate
CHEBI_31345["CHEBI:31345"]
ing23_Calcium_pantothenate -.-> CHEBI_31345
ing24_Pyridoxine_HCl["Pyridoxine・HCl"]
CultureMech_009732 --> ing24_Pyridoxine_HCl
CHEBI_30961["CHEBI:30961"]
ing24_Pyridoxine_HCl -.-> CHEBI_30961
ing25_Vitamin_B12["Vitamin B12"]
CultureMech_009732 --> ing25_Vitamin_B12
CHEBI_176843["CHEBI:176843"]
ing25_Vitamin_B12 -.-> CHEBI_176843
ing26_Niacin["Niacin"]
CultureMech_009732 --> ing26_Niacin
CHEBI_15940["CHEBI:15940"]
ing26_Niacin -.-> CHEBI_15940
Ingredients (27)
| # | Ingredient | Concentration | Ontology | Notes |
|---|---|---|---|---|
| 1 |
Distilled water
H2O 18.015 g/mol
|
102.0 G_PER_L |
CHEBI:15377
water
|
Role: Solvating media; Properties: Inorganic compound, Defined component, Simple component [Merged 3 duplicates: 1.0, 1.0, 100.0] |
| 2 |
NaCl
Cl.Na 58.443 g/mol
|
1 G_PER_L |
CHEBI:26710
sodium chloride
|
Role: Mineral source; Properties: Inorganic compound, Defined component, Simple component |
| 3 |
CaCl2・2H2O
Ca.2Cl.2H2O 147.014 g/mol
|
0.1 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
|
1 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
|
1 G_PER_L |
CHEBI:31206
ammonium chloride
|
Role: Nitrogen source; Properties: Inorganic compound, Defined component, Simple component |
| 6 |
MgCl2・6H2O
2Cl.6H2O.Mg 203.301 g/mol
|
0.5 G_PER_L |
CHEBI:86345
magnesium dichloride hexahydrate
|
Role: Mineral source; Properties: Inorganic compound, Defined component, Simple component |
| 7 |
Sodium acetate
C2H3O2.Na 82.034 g/mol
|
1 G_PER_L |
CHEBI:32954
sodium acetate
|
Role: Buffer; Properties: Organic compound, Defined component, Simple component |
| 8 |
Sodium succinate
C4H4O4.2Na 162.052 g/mol
|
1 G_PER_L |
CHEBI:63675
sodium succinate (anhydrous)
|
Role: Growth factor; Properties: Organic compound, Defined component, Simple component |
| 9 | Yeast extract (BD-Difco) | 0.5 G_PER_L | Properties: Undefined component | |
| 10 | Bacto peptone (BD-Difco) | 0.3 G_PER_L | Properties: Undefined component | |
| 11 |
Na2MoO4・2H2O
2H2O.MoO4.2Na 241.946 g/mol
|
30 G_PER_L |
CHEBI:75213
sodium molybdate dihydrate
|
Role: Mineral source; Properties: Inorganic compound, Defined component, Simple component |
| 12 |
H3BO3
H3BO3 61.833 g/mol
|
500 G_PER_L |
CHEBI:33118
boric acid
|
Role: Mineral source; Properties: Inorganic compound, Defined component, Simple component |
| 13 |
MnCl2・4H2O
Cl2Mn.4H2O 197.904 g/mol
|
70 G_PER_L |
CHEBI:86368
manganese(II) chloride tetrahydrate
|
Role: Mineral source; Properties: Inorganic compound, Defined component, Simple component |
| 14 |
CoCl2・6H2O
2Cl.Co 129.839 g/mol
|
250 G_PER_L |
CHEBI:35696
cobalt dichloride
|
Role: Mineral source; Properties: Inorganic compound, Defined component, Simple component |
| 15 |
NiCl2・6H2O
Cl2Ni 129.599 g/mol
|
10 G_PER_L |
CHEBI:34887
nickel dichloride
|
Role: Mineral source; Properties: Inorganic compound, Defined component, Simple component |
| 16 |
CuCl2・2H2O
Cl2Cu.2H2O 170.482 g/mol
|
10 G_PER_L |
CHEBI:86318
copper(II) chloride dihydrate
|
Role: Mineral source; Properties: Inorganic compound, Defined component, Simple component |
| 17 |
ZnCl2
2Cl.Zn 136.296 g/mol
|
100 G_PER_L |
CHEBI:49976
zinc dichloride
|
Role: Mineral source; Properties: Inorganic compound, Defined component, Simple component |
| 18 |
Na2SeO3・5H2O
5H2O.2Na.O3Se 263.012 g/mol
|
10 G_PER_L |
CHEBI:131361
disodium selenite pentahydrate
|
Role: Mineral source; Properties: Inorganic compound, Defined component, Simple component |
| 19 |
FeCl2・4H2O
Cl2Fe.4H2O 198.811 g/mol
|
1800 G_PER_L |
CHEBI:86249
iron dichloride tetrahydrate
|
Role: Mineral source; Properties: Inorganic compound, Defined component, Simple component |
| 20 |
HCl
HCl 36.461 g/mol
|
variable VARIABLE |
CHEBI:17883
hydrogen chloride
|
Role: Solvating media; Properties: Defined component, Inorganic compound, Solution |
| 21 |
Biotin
C10H16N2O3S 244.316 g/mol
|
10 G_PER_L |
CHEBI:15956
biotin
|
Role: Vitamin; Properties: Organic compound, Defined component, Simple component |
| 22 |
p--Aminobenzoic acid
C7H7NO2 137.138 g/mol
|
20 G_PER_L |
CHEBI:30753
4-aminobenzoic acid
|
Role: Vitamin; Properties: Organic compound, Defined component, Simple component |
| 23 |
Thiamine・HCl
C12H17N4OS.Cl.HCl 337.276 g/mol
|
30 G_PER_L |
CHEBI:49105
thiamine hydrochloride
|
Role: Vitamin; Properties: Organic compound, Defined component, Simple component |
| 24 |
Calcium pantothenate
2C9H16NO5.Ca 476.536 g/mol
|
10 G_PER_L |
CHEBI:31345
Calcium pantothenate
|
Role: Vitamin; Properties: Organic compound, Defined component, Simple component |
| 25 |
Pyridoxine・HCl
C8H11NO3.HCl 205.641 g/mol
|
10 G_PER_L |
CHEBI:30961
pyridoxine hydrochloride
|
Role: Vitamin; Properties: Organic compound, Defined component, Simple component |
| 26 | Vitamin B12 | 5 G_PER_L |
CHEBI:176843
vitamin B12
|
Role: Vitamin; Properties: Organic compound, Defined component, Simple component |
| 27 |
Niacin
C6H5NO2 123.111 g/mol
|
35 G_PER_L |
CHEBI:15940
nicotinic acid
|
Role: Vitamin; Properties: Organic compound, Defined component, Simple component |
Solutions
Trace element solution SLA (see below)
Dose: 1 G_PER_L
Vitamin solution VA (see below)
Dose: 1 G_PER_L
Target organisms
No target organisms are recorded.
Provenance
| Timestamp | Curator | Action | Notes |
|---|---|---|---|
| 2026-01-27T06:35:54.893370Z | togo-import | Imported from TOGO Medium | Source: JCM, ID: M352 |
| 2026-01-28T19:48:21.378719Z | 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: HCl |
| 2026-03-09T08:04:35.716837+00:00 | solution-migrator-v1.0 | Migrated solutions from ingredients to solutions array | Moved 2 solution(s) from ingredients |
| 2026-03-13T03:09:05.079750Z | data-quality-cleanup-v1.0 | Data quality fixes | Merged 2 duplicate ingredient(s) |
| 2026-03-13T06:20:08.436903Z | culturemech-id-assigner-v1.0 | Assigned CultureMech ID | Assigned stable identifier: CultureMech:009732 |
| 2026-03-14T00:00:00+00:00 | schema-defaulter-v1.0 | Applied schema defaults and normalizations | Added default solution name; Added default solution name |
| 2026-03-17T06:30:11.000000Z | mediaingredientmech-enrichment-v1.0 | Added MediaIngredientMech links | Linked ingredients to MediaIngredientMech identifiers |
| 2026-03-17T19:46:27.424024+00:00 | normalize_media_names_to_snake_case.py | NAME_NORMALIZED | Normalized name from "ATYP Medium" to "atyp_medium" for consistent matching |
| 2026-05-16T09:03:17.332474+00:00 | migrate_legacy_fields.py | MIGRATED_LEGACY_FIELDS | curation_history.date->timestamp=2 |
| 2026-06-05T07:40:40.641921+00:00 | mim-legacy-to-chebi-migration-v1.0 | Refreshed legacy MediaIngredientMech links to CHEBI keying | Replaced 14 legacy mediaingredientmech_term link(s) with mediaingredientmech_chebi_term (id-safe: ingredient's own CHEBI + label). MIM deprecated the MediaIngredientMech:NNNNNN id scheme. |
| 2026-06-08T23:19:34.122797+00:00 | chebi-regrounding-v1.0 | Corrected CHEBI ingredient grounding (shared-id regrounding audit, G21/G22/G24) | Part of the shared-id CHEBI regrounding audit (G21/G22/G24): one or more ingredient groundings on this record that had been collapsed onto a chemically non-specific or shared CHEBI id were re-grounded to the correct chemically-specific term, verified against OAK chebi.db rdfs:label. See reports/chebi_grounding_audit.md. |
| 2026-06-10T07:46:50.384996+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. |