atyp_medium

CultureMech:002717 bacterial COMPLEX LIQUID
Original name: ATYP MEDIUM

Overview

External ontology
mediadive.medium:J358 (source link unavailable) — ATYP MEDIUM
Applications
  • Microbial cultivation
pH
6.9
Notes
Source: JCM | Link: https://www.jcm.riken.jp/cgi-bin/jcm/jcm_grmd?GRMD=358

Composition

flowchart LR
    CultureMech_002717["atyp_medium"]
    ing0_KH2PO4["KH2PO4"]
    CultureMech_002717 --> ing0_KH2PO4
    CHEBI_63036["CHEBI:63036"]
    ing0_KH2PO4 -.-> CHEBI_63036
    ing1_MgCl2_x_6_H2O["MgCl2 x 6 H2O"]
    CultureMech_002717 --> ing1_MgCl2_x_6_H2O
    CHEBI_86345["CHEBI:86345"]
    ing1_MgCl2_x_6_H2O -.-> CHEBI_86345
    ing2_CaCl2_x_2_H2O["CaCl2 x 2 H2O"]
    CultureMech_002717 --> ing2_CaCl2_x_2_H2O
    CHEBI_86158["CHEBI:86158"]
    ing2_CaCl2_x_2_H2O -.-> CHEBI_86158
    ing3_NH4Cl["NH4Cl"]
    CultureMech_002717 --> ing3_NH4Cl
    CHEBI_31206["CHEBI:31206"]
    ing3_NH4Cl -.-> CHEBI_31206
    ing4_NaCl["NaCl"]
    CultureMech_002717 --> ing4_NaCl
    CHEBI_26710["CHEBI:26710"]
    ing4_NaCl -.-> CHEBI_26710
    ing5_Sodium_acetate["Sodium acetate"]
    CultureMech_002717 --> ing5_Sodium_acetate
    CHEBI_32954["CHEBI:32954"]
    ing5_Sodium_acetate -.-> CHEBI_32954
    ing6_Sodium_succinate["Sodium succinate"]
    CultureMech_002717 --> ing6_Sodium_succinate
    CHEBI_63675["CHEBI:63675"]
    ing6_Sodium_succinate -.-> CHEBI_63675
    ing7_Yeast_extract["Yeast extract"]
    CultureMech_002717 --> ing7_Yeast_extract
    ing8_Bacto_peptone["Bacto peptone"]
    CultureMech_002717 --> ing8_Bacto_peptone
    ing9_CoCl2_x_6_H2O["CoCl2 x 6 H2O"]
    CultureMech_002717 --> ing9_CoCl2_x_6_H2O
    CHEBI_53503["CHEBI:53503"]
    ing9_CoCl2_x_6_H2O -.-> CHEBI_53503
    ing10_NiCl2_x_6_H2O["NiCl2 x 6 H2O"]
    CultureMech_002717 --> ing10_NiCl2_x_6_H2O
    CHEBI_34887["CHEBI:34887"]
    ing10_NiCl2_x_6_H2O -.-> CHEBI_34887
    ing11_CuCl2_x_2_H2O["CuCl2 x 2 H2O"]
    CultureMech_002717 --> ing11_CuCl2_x_2_H2O
    CHEBI_86318["CHEBI:86318"]
    ing11_CuCl2_x_2_H2O -.-> CHEBI_86318
    ing12_MnCl2_x_4_H2O["MnCl2 x 4 H2O"]
    CultureMech_002717 --> ing12_MnCl2_x_4_H2O
    CHEBI_86368["CHEBI:86368"]
    ing12_MnCl2_x_4_H2O -.-> CHEBI_86368
    ing13_ZnCl2["ZnCl2"]
    CultureMech_002717 --> ing13_ZnCl2
    CHEBI_49976["CHEBI:49976"]
    ing13_ZnCl2 -.-> CHEBI_49976
    ing14_H3BO3["H3BO3"]
    CultureMech_002717 --> ing14_H3BO3
    CHEBI_33118["CHEBI:33118"]
    ing14_H3BO3 -.-> CHEBI_33118
    ing15_Na2MoO4_x_2_H2O["Na2MoO4 x 2 H2O"]
    CultureMech_002717 --> ing15_Na2MoO4_x_2_H2O
    CHEBI_75213["CHEBI:75213"]
    ing15_Na2MoO4_x_2_H2O -.-> CHEBI_75213
    ing16_Na2SeO3_x_5_H2O["Na2SeO3 x 5 H2O"]
    CultureMech_002717 --> ing16_Na2SeO3_x_5_H2O
    CHEBI_131361["CHEBI:131361"]
    ing16_Na2SeO3_x_5_H2O -.-> CHEBI_131361
    ing17_Niacin["Niacin"]
    CultureMech_002717 --> ing17_Niacin
    CHEBI_15940["CHEBI:15940"]
    ing17_Niacin -.-> CHEBI_15940
    ing18_Calcium_pantothenate["Calcium pantothenate"]
    CultureMech_002717 --> ing18_Calcium_pantothenate
    CHEBI_31345["CHEBI:31345"]
    ing18_Calcium_pantothenate -.-> CHEBI_31345
    ing19_Vitamin_B12["Vitamin B12"]
    CultureMech_002717 --> ing19_Vitamin_B12
    CHEBI_176843["CHEBI:176843"]
    ing19_Vitamin_B12 -.-> CHEBI_176843

Ingredients (20)

# Ingredient Concentration Ontology Notes
1 KH2PO4
H2O4P.K 136.084 g/mol
0.998004 G_PER_L CHEBI:63036
potassium dihydrogen phosphate
2 MgCl2 x 6 H2O
2Cl.6H2O.Mg 203.301 g/mol
0.499002 G_PER_L CHEBI:86345
magnesium dichloride hexahydrate
3 CaCl2 x 2 H2O
Ca.2Cl.2H2O 147.014 g/mol
0.0998004 G_PER_L CHEBI:86158
calcium chloride dihydrate
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 Sodium acetate
C2H3O2.Na 82.034 g/mol
0.998004 G_PER_L CHEBI:32954
sodium acetate
7 Sodium succinate
C4H4O4.2Na 162.052 g/mol
0.998004 G_PER_L CHEBI:63675
sodium succinate (anhydrous)
8 Yeast extract 0.499002 G_PER_L
9 Bacto peptone 0.299401 G_PER_L
10 CoCl2 x 6 H2O
2Cl.Co.6H2O 237.929 g/mol
0.25 G_PER_L CHEBI:53503
cobalt chloride hexahydrate
11 NiCl2 x 6 H2O
Cl2Ni 129.599 g/mol
0.01 G_PER_L CHEBI:34887
nickel dichloride
12 CuCl2 x 2 H2O
Cl2Cu.2H2O 170.482 g/mol
0.01 G_PER_L CHEBI:86318
copper(II) chloride dihydrate
13 MnCl2 x 4 H2O
Cl2Mn.4H2O 197.904 g/mol
0.07 G_PER_L CHEBI:86368
manganese(II) chloride tetrahydrate
14 ZnCl2
2Cl.Zn 136.296 g/mol
0.1 G_PER_L CHEBI:49976
zinc dichloride
15 H3BO3
H3BO3 61.833 g/mol
0.5 G_PER_L CHEBI:33118
boric acid
16 Na2MoO4 x 2 H2O
2H2O.MoO4.2Na 241.946 g/mol
0.03 G_PER_L CHEBI:75213
sodium molybdate dihydrate
17 Na2SeO3 x 5 H2O
5H2O.2Na.O3Se 263.012 g/mol
0.01 G_PER_L CHEBI:131361
disodium selenite pentahydrate
18 Niacin
C6H5NO2 123.111 g/mol
0.35 G_PER_L CHEBI:15940
nicotinic acid
19 Calcium pantothenate
2C9H16NO5.Ca 476.536 g/mol
0.1 G_PER_L CHEBI:31345
Calcium pantothenate
20 Vitamin B12 0.05 G_PER_L CHEBI:176843
vitamin B12

Preparation

  1. Adjust pH to 6.9.
  2. Separately sterilize vitamin solution VA by filtration, and aseptically add to the medium.
  3. Adjust pH to 2 - 3 with HCl.

Solutions

Trace element solution SLA

Dose: 1 ML_PER_L

Stock composition
IngredientConcentrationNotes
FeCl2 x 4 H2O 1.8 G_PER_L

Vitamin solution VA

Dose: 1 ML_PER_L

Stock composition
IngredientConcentrationNotes
Biotin 0.1 G_PER_L
Thiamine HCl 0.3 G_PER_L
p-Aminobenzoic acid 0.2 G_PER_L
Pyridoxine hydrochloride 0.1 G_PER_L

Target organisms

No target organisms are recorded.

Provenance

TimestampCuratorActionNotes
2026-01-26T17:53:16.388193Z mediadive-import Imported from MediaDive Source: JCM, ID: J358
2026-03-13T06:19:15.232289Z culturemech-id-assigner-v1.0 Assigned CultureMech ID Assigned stable identifier: CultureMech:002717
2026-03-17T06:30:01.000000Z mediaingredientmech-enrichment-v1.0 Added MediaIngredientMech links Linked ingredients to MediaIngredientMech identifiers
2026-03-17T19:45:28.597399+00:00 normalize_media_names_to_snake_case.py NAME_NORMALIZED Normalized name from "ATYP MEDIUM" to "atyp_medium" for consistent matching
2026-06-05T07:40:50.072475+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.
2026-06-10T07:46:53.642185+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.
2026-08-13T23:31:54.294718+00:00 apply_cocktail_nesting.py NESTED_FLATTENED_COCKTAIL Moved 5 stock-strength component(s) out of ingredients into 2 solution(s): 1 -> 'Trace element solution SLA' @ 1 ml/l; 4 -> 'Vitamin solution VA' @ 1 ml/l. Each moved component matched the MediaDive stock by name AND value; bulk ingredients sharing a name were left in place (#150).