3_8m_characterization_medium_no_1

CultureMech:002472 bacterial COMPLEX LIQUID
Original name: 3.8M CHARACTERIZATION MEDIUM NO. 1

Overview

External ontology
mediadive.medium:J1309 (source link unavailable) — 3.8M CHARACTERIZATION MEDIUM NO. 1
Applications
  • Microbial cultivation
pH
7.5
High-metal flag
True
Notes
Source: JCM | Link: https://www.jcm.riken.jp/cgi-bin/jcm/jcm_grmd?GRMD=1309

Composition

flowchart LR
    CultureMech_002472["3_8m_characterization_medium_no_1"]
    ing0_Salt_water["Salt water"]
    CultureMech_002472 --> ing0_Salt_water
    ing1_Peptone["Peptone"]
    CultureMech_002472 --> ing1_Peptone
    ing2_Yeast_extract["Yeast extract"]
    CultureMech_002472 --> ing2_Yeast_extract
    ing3_NH4Cl["NH4Cl"]
    CultureMech_002472 --> ing3_NH4Cl
    CHEBI_31206["CHEBI:31206"]
    ing3_NH4Cl -.-> CHEBI_31206
    ing4_K2HPO4["K2HPO4"]
    CultureMech_002472 --> ing4_K2HPO4
    CHEBI_131527["CHEBI:131527"]
    ing4_K2HPO4 -.-> CHEBI_131527
    ing5_FeSO4_x_7_H2O["FeSO4 x 7 H2O"]
    CultureMech_002472 --> ing5_FeSO4_x_7_H2O
    CHEBI_75836["CHEBI:75836"]
    ing5_FeSO4_x_7_H2O -.-> CHEBI_75836
    ing6_Sodium_pyruvate["Sodium pyruvate"]
    CultureMech_002472 --> ing6_Sodium_pyruvate
    CHEBI_50144["CHEBI:50144"]
    ing6_Sodium_pyruvate -.-> CHEBI_50144
    ing7_Sodium_perchlorate["Sodium perchlorate"]
    CultureMech_002472 --> ing7_Sodium_perchlorate
    CHEBI_132103["CHEBI:132103"]
    ing7_Sodium_perchlorate -.-> CHEBI_132103
    ing8_Sodium_Thiosulfate["Sodium Thiosulfate"]
    CultureMech_002472 --> ing8_Sodium_Thiosulfate
    CHEBI_132112["CHEBI:132112"]
    ing8_Sodium_Thiosulfate -.-> CHEBI_132112
    ing9_NaCl["NaCl"]
    CultureMech_002472 --> ing9_NaCl
    CHEBI_26710["CHEBI:26710"]
    ing9_NaCl -.-> CHEBI_26710
    ing10_MgCl2_x_6_H2O["MgCl2 x 6 H2O"]
    CultureMech_002472 --> ing10_MgCl2_x_6_H2O
    CHEBI_86345["CHEBI:86345"]
    ing10_MgCl2_x_6_H2O -.-> CHEBI_86345
    ing11_MgSO4_x_7_H2O["MgSO4 x 7 H2O"]
    CultureMech_002472 --> ing11_MgSO4_x_7_H2O
    CHEBI_31795["CHEBI:31795"]
    ing11_MgSO4_x_7_H2O -.-> CHEBI_31795
    ing12_KCl["KCl"]
    CultureMech_002472 --> ing12_KCl
    CHEBI_32588["CHEBI:32588"]
    ing12_KCl -.-> CHEBI_32588
    ing13_CaCl2["CaCl2"]
    CultureMech_002472 --> ing13_CaCl2
    CHEBI_3312["CHEBI:3312"]
    ing13_CaCl2 -.-> CHEBI_3312
    ing14_Thiamine_HCl["Thiamine HCl"]
    CultureMech_002472 --> ing14_Thiamine_HCl
    CHEBI_49105["CHEBI:49105"]
    ing14_Thiamine_HCl -.-> CHEBI_49105
    ing15_Riboflavin["Riboflavin"]
    CultureMech_002472 --> ing15_Riboflavin
    CHEBI_17015["CHEBI:17015"]
    ing15_Riboflavin -.-> CHEBI_17015
    ing16_Nicotinic_acid["Nicotinic acid"]
    CultureMech_002472 --> ing16_Nicotinic_acid
    CHEBI_15940["CHEBI:15940"]
    ing16_Nicotinic_acid -.-> CHEBI_15940
    ing17_DL_Calcium_pantothenate["DL-Calcium pantothenate"]
    CultureMech_002472 --> ing17_DL_Calcium_pantothenate
    CHEBI_31345["CHEBI:31345"]
    ing17_DL_Calcium_pantothenate -.-> CHEBI_31345
    ing18_Vitamin_B12["Vitamin B12"]
    CultureMech_002472 --> ing18_Vitamin_B12
    CHEBI_176843["CHEBI:176843"]
    ing18_Vitamin_B12 -.-> CHEBI_176843
    ing19_p_Aminobenzoic_acid["p-Aminobenzoic acid"]
    CultureMech_002472 --> ing19_p_Aminobenzoic_acid
    CHEBI_30753["CHEBI:30753"]
    ing19_p_Aminobenzoic_acid -.-> CHEBI_30753
    ing20_ZnCl2["ZnCl2"]
    CultureMech_002472 --> ing20_ZnCl2
    CHEBI_49976["CHEBI:49976"]
    ing20_ZnCl2 -.-> CHEBI_49976
    ing21_MnCl2_x_4_H2O["MnCl2 x 4 H2O"]
    CultureMech_002472 --> ing21_MnCl2_x_4_H2O
    CHEBI_86368["CHEBI:86368"]
    ing21_MnCl2_x_4_H2O -.-> CHEBI_86368
    ing22_H3BO3["H3BO3"]
    CultureMech_002472 --> ing22_H3BO3
    CHEBI_33118["CHEBI:33118"]
    ing22_H3BO3 -.-> CHEBI_33118
    ing23_CoCl2_x_6_H2O["CoCl2 x 6 H2O"]
    CultureMech_002472 --> ing23_CoCl2_x_6_H2O
    CHEBI_53503["CHEBI:53503"]
    ing23_CoCl2_x_6_H2O -.-> CHEBI_53503
    ing24_CuCl2_x_2_H2O["CuCl2 x 2 H2O"]
    CultureMech_002472 --> ing24_CuCl2_x_2_H2O
    CHEBI_86318["CHEBI:86318"]
    ing24_CuCl2_x_2_H2O -.-> CHEBI_86318
    ing25_NiCl2_x_6_H2O["NiCl2 x 6 H2O"]
    CultureMech_002472 --> ing25_NiCl2_x_6_H2O
    CHEBI_34887["CHEBI:34887"]
    ing25_NiCl2_x_6_H2O -.-> CHEBI_34887
    ing26_Na2MoO4_x_2_H2O["Na2MoO4 x 2 H2O"]
    CultureMech_002472 --> ing26_Na2MoO4_x_2_H2O
    CHEBI_75213["CHEBI:75213"]
    ing26_Na2MoO4_x_2_H2O -.-> CHEBI_75213

Ingredients (27)

# Ingredient Concentration Ontology Notes
1 Salt water 830 G_PER_L
2 Peptone 0.0248756 G_PER_L
3 Yeast extract 0.00497512 G_PER_L
4 NH4Cl
Cl.H4N 53.492 g/mol
5 G_PER_L CHEBI:31206
ammonium chloride
5 K2HPO4
HO4P.2K 174.174 g/mol
2 G_PER_L CHEBI:131527
dipotassium hydrogen phosphate
6 FeSO4 x 7 H2O
Fe.7H2O.O4S 278.013 g/mol
5 G_PER_L CHEBI:75836
iron(2+) sulfate heptahydrate
7 Sodium pyruvate
C3H3O3.Na 110.044 g/mol
50 G_PER_L CHEBI:50144
sodium pyruvate
8 Sodium perchlorate
ClO4.Na 122.439 g/mol
50 G_PER_L CHEBI:132103
sodium perchlorate
9 Sodium Thiosulfate
2Na.O3S2 158.111 g/mol
50 G_PER_L CHEBI:132112
sodium thiosulfate
10 NaCl
Cl.Na 58.443 g/mol
238.806 G_PER_L CHEBI:26710
sodium chloride
11 MgCl2 x 6 H2O
2Cl.6H2O.Mg 203.301 g/mol
24.7761 G_PER_L CHEBI:86345
magnesium dichloride hexahydrate
12 MgSO4 x 7 H2O
7H2O.Mg.O4S 246.473 g/mol
28.8557 G_PER_L CHEBI:31795
magnesium sulfate heptahydrate
13 KCl
Cl.K 74.551 g/mol
6.96517 G_PER_L CHEBI:32588
potassium chloride
14 CaCl2
Ca.2Cl 110.984 g/mol
5 G_PER_L CHEBI:3312
calcium dichloride
15 Thiamine HCl
C12H17N4OS.Cl.HCl 337.276 g/mol
0.033 G_PER_L CHEBI:49105
thiamine hydrochloride
16 Riboflavin
C17H20N4O6 376.369 g/mol
0.01 G_PER_L CHEBI:17015
riboflavin
17 Nicotinic acid
C6H5NO2 123.111 g/mol
0.033 G_PER_L CHEBI:15940
nicotinic acid
18 DL-Calcium pantothenate
2C9H16NO5.Ca 476.536 g/mol
0.017 G_PER_L CHEBI:31345
Calcium pantothenate
19 Vitamin B12 0.017 G_PER_L CHEBI:176843
vitamin B12
20 p-Aminobenzoic acid
C7H7NO2 137.138 g/mol
0.013 G_PER_L CHEBI:30753
4-aminobenzoic acid
21 ZnCl2
2Cl.Zn 136.296 g/mol
0.07 G_PER_L CHEBI:49976
zinc dichloride
22 MnCl2 x 4 H2O
Cl2Mn.4H2O 197.904 g/mol
0.1 G_PER_L CHEBI:86368
manganese(II) chloride tetrahydrate
23 H3BO3
H3BO3 61.833 g/mol
0.006 G_PER_L CHEBI:33118
boric acid
24 CoCl2 x 6 H2O
2Cl.Co.6H2O 237.929 g/mol
0.19 G_PER_L CHEBI:53503
cobalt chloride hexahydrate
25 CuCl2 x 2 H2O
Cl2Cu.2H2O 170.482 g/mol
0.002 G_PER_L CHEBI:86318
copper(II) chloride dihydrate
26 NiCl2 x 6 H2O
Cl2Ni 129.599 g/mol
0.024 G_PER_L CHEBI:34887
nickel dichloride
27 Na2MoO4 x 2 H2O
2H2O.MoO4.2Na 241.946 g/mol
0.036 G_PER_L CHEBI:75213
sodium molybdate dihydrate

Preparation

  1. Mix components and autoclave. After cooling, add the following solutions (autoclaved or *filter-sterilized):
  2. Aseptically distribute the medium into culture vessels (e.g., 10 ml medium in Balch tubes), seal with butyl rubber stoppers and replace the gas phase with N2.
  3. 30% Salt water:
  4. Add components to distilled water and bring volume to 1.0 L. Adjust pH to 7.5.

Target organisms

No target organisms are recorded.

Provenance

TimestampCuratorActionNotes
2026-01-26T17:53:19.390901Z mediadive-import Imported from MediaDive Source: JCM, ID: J1309
2026-03-13T06:19:13.607219Z culturemech-id-assigner-v1.0 Assigned CultureMech ID Assigned stable identifier: CultureMech:002472
2026-03-17T06:30:15.000000Z mediaingredientmech-enrichment-v1.0 Added MediaIngredientMech links Linked ingredients to MediaIngredientMech identifiers
2026-03-17T19:45:26.745213+00:00 normalize_media_names_to_snake_case.py NAME_NORMALIZED Normalized name from "3.8M CHARACTERIZATION MEDIUM NO. 1" to "3_8m_characterization_medium_no_1" for consistent matching
2026-06-05T07:40:15.797629+00:00 mim-legacy-to-chebi-migration-v1.0 Refreshed legacy MediaIngredientMech links to CHEBI keying Replaced 24 legacy mediaingredientmech_term link(s) with mediaingredientmech_chebi_term (id-safe: ingredient's own CHEBI + label). MIM deprecated the MediaIngredientMech:NNNNNN id scheme.
2026-06-10T07:46:42.545165+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.