pyrodictium_ocultum_medium

CultureMech:002566 archaea COMPLEX LIQUID
Original name: PYRODICTIUM OCULTUM MEDIUM

Overview

External ontology
mediadive.medium:J204 (source link unavailable) — PYRODICTIUM OCULTUM MEDIUM
Applications
  • Microbial cultivation
Synonyms
  • {'name': 'pyrodictium_abysii_medium', 'source': 'MediaDive', 'source_id': 'mediadive.medium:J205', 'original_category': 'archaea'}
  • {'name': 'pyrodictium_brockii_medium', 'source': 'MediaDive', 'source_id': 'mediadive.medium:J203', 'original_category': 'archaea'}
Notes
Source: JCM | Link: https://www.jcm.riken.jp/cgi-bin/jcm/jcm_grmd?GRMD=204

Composition

flowchart LR
    CultureMech_002566["pyrodictium_ocultum_medium"]
    ing0_Citric_acid["Citric acid"]
    CultureMech_002566 --> ing0_Citric_acid
    CHEBI_30769["CHEBI:30769"]
    ing0_Citric_acid -.-> CHEBI_30769
    ing1_Yeast_extract["Yeast extract"]
    CultureMech_002566 --> ing1_Yeast_extract
    ing2_Sulfur["Sulfur"]
    CultureMech_002566 --> ing2_Sulfur
    CHEBI_26833["CHEBI:26833"]
    ing2_Sulfur -.-> CHEBI_26833
    ing3_Resazurin["Resazurin"]
    CultureMech_002566 --> ing3_Resazurin
    CHEBI_8806["CHEBI:8806"]
    ing3_Resazurin -.-> CHEBI_8806
    ing4_Na2S_x_9_H2O["Na2S x 9 H2O"]
    CultureMech_002566 --> ing4_Na2S_x_9_H2O
    CHEBI_76209["CHEBI:76209"]
    ing4_Na2S_x_9_H2O -.-> CHEBI_76209
    ing5_NaCl["NaCl"]
    CultureMech_002566 --> ing5_NaCl
    CHEBI_26710["CHEBI:26710"]
    ing5_NaCl -.-> CHEBI_26710
    ing6_MgSO4_x_7_H2O["MgSO4 x 7 H2O"]
    CultureMech_002566 --> ing6_MgSO4_x_7_H2O
    CHEBI_31795["CHEBI:31795"]
    ing6_MgSO4_x_7_H2O -.-> CHEBI_31795
    ing7_MgCl2_x_6_H2O["MgCl2 x 6 H2O"]
    CultureMech_002566 --> ing7_MgCl2_x_6_H2O
    CHEBI_86345["CHEBI:86345"]
    ing7_MgCl2_x_6_H2O -.-> CHEBI_86345
    ing8_KCl["KCl"]
    CultureMech_002566 --> ing8_KCl
    CHEBI_32588["CHEBI:32588"]
    ing8_KCl -.-> CHEBI_32588
    ing9_NaBr["NaBr"]
    CultureMech_002566 --> ing9_NaBr
    CHEBI_63004["CHEBI:63004"]
    ing9_NaBr -.-> CHEBI_63004
    ing10_H3BO3["H3BO3"]
    CultureMech_002566 --> ing10_H3BO3
    CHEBI_33118["CHEBI:33118"]
    ing10_H3BO3 -.-> CHEBI_33118
    ing11_SrCl2_x_6_H2O["SrCl2 x 6 H2O"]
    CultureMech_002566 --> ing11_SrCl2_x_6_H2O
    CHEBI_36385["CHEBI:36385"]
    ing11_SrCl2_x_6_H2O -.-> CHEBI_36385
    ing12_KI["KI"]
    CultureMech_002566 --> ing12_KI
    CHEBI_8346["CHEBI:8346"]
    ing12_KI -.-> CHEBI_8346
    ing13_CaCl2["CaCl2"]
    CultureMech_002566 --> ing13_CaCl2
    CHEBI_3312["CHEBI:3312"]
    ing13_CaCl2 -.-> CHEBI_3312
    ing14_KH2PO4["KH2PO4"]
    CultureMech_002566 --> ing14_KH2PO4
    CHEBI_63036["CHEBI:63036"]
    ing14_KH2PO4 -.-> CHEBI_63036
    ing15__NH4_2Ni_SO4_2_x_6_H2O["(NH4)2Ni(SO4)2 x 6 H2O"]
    CultureMech_002566 --> ing15__NH4_2Ni_SO4_2_x_6_H2O
    CHEBI_86149["CHEBI:86149"]
    ing15__NH4_2Ni_SO4_2_x_6_H2O -.-> CHEBI_86149
    ing16_Nitrilotriacetic_acid["Nitrilotriacetic acid"]
    CultureMech_002566 --> ing16_Nitrilotriacetic_acid
    CHEBI_44557["CHEBI:44557"]
    ing16_Nitrilotriacetic_acid -.-> CHEBI_44557
    ing17_MnSO4_x_n_H2O["MnSO4 x n H2O"]
    CultureMech_002566 --> ing17_MnSO4_x_n_H2O
    CHEBI_86360["CHEBI:86360"]
    ing17_MnSO4_x_n_H2O -.-> CHEBI_86360
    ing18_FeSO4_x_7_H2O["FeSO4 x 7 H2O"]
    CultureMech_002566 --> ing18_FeSO4_x_7_H2O
    CHEBI_75836["CHEBI:75836"]
    ing18_FeSO4_x_7_H2O -.-> CHEBI_75836
    ing19_CoSO4_x_7_H2O["CoSO4 x 7 H2O"]
    CultureMech_002566 --> ing19_CoSO4_x_7_H2O
    CHEBI_91244["CHEBI:91244"]
    ing19_CoSO4_x_7_H2O -.-> CHEBI_91244
    ing20_CaCl2_x_2_H2O["CaCl2 x 2 H2O"]
    CultureMech_002566 --> ing20_CaCl2_x_2_H2O
    CHEBI_86158["CHEBI:86158"]
    ing20_CaCl2_x_2_H2O -.-> CHEBI_86158
    ing21_ZnSO4_x_7_H2O["ZnSO4 x 7 H2O"]
    CultureMech_002566 --> ing21_ZnSO4_x_7_H2O
    CHEBI_32312["CHEBI:32312"]
    ing21_ZnSO4_x_7_H2O -.-> CHEBI_32312
    ing22_CuSO4_x_5_H2O["CuSO4 x 5 H2O"]
    CultureMech_002566 --> ing22_CuSO4_x_5_H2O
    CHEBI_31440["CHEBI:31440"]
    ing22_CuSO4_x_5_H2O -.-> CHEBI_31440
    ing23_AlK_SO4_2["AlK(SO4)2"]
    CultureMech_002566 --> ing23_AlK_SO4_2
    CHEBI_86463["CHEBI:86463"]
    ing23_AlK_SO4_2 -.-> CHEBI_86463
    ing24_Na2MoO4_x_2_H2O["Na2MoO4 x 2 H2O"]
    CultureMech_002566 --> ing24_Na2MoO4_x_2_H2O
    CHEBI_75213["CHEBI:75213"]
    ing24_Na2MoO4_x_2_H2O -.-> CHEBI_75213

Ingredients (25)

# Ingredient Concentration Ontology Notes
1 Citric acid
C6H8O7 192.123 g/mol
0.00490196 G_PER_L CHEBI:30769
citric acid
Copied from referenced JCM Medium 203
2 Yeast extract 1.96078 G_PER_L Copied from referenced JCM Medium 203
3 Sulfur
S 32.067 g/mol
29.4118 G_PER_L CHEBI:26833
sulfur atom
Copied from referenced JCM Medium 203
4 Resazurin
C12H7NO4 229.191 g/mol
0.000980392 G_PER_L CHEBI:8806
Resazurin
Copied from referenced JCM Medium 203
5 Na2S x 9 H2O
9H2O.2Na.S 240.182 g/mol
10 G_PER_L CHEBI:76209
sodium sulfide nonahydrate
Copied from referenced JCM Medium 203
6 NaCl
Cl.Na 58.443 g/mol
14.85 G_PER_L CHEBI:26710
sodium chloride
[Merged 2 duplicates: 13.85, 1.0] | Copied from JCM Medium 203
7 MgSO4 x 7 H2O
7H2O.Mg.O4S 246.473 g/mol
6.5 G_PER_L CHEBI:31795
magnesium sulfate heptahydrate
[Merged 2 duplicates: 3.5, 3.0] | Copied from JCM Medium 203
8 MgCl2 x 6 H2O
2Cl.6H2O.Mg 203.301 g/mol
2.75 G_PER_L CHEBI:86345
magnesium dichloride hexahydrate
Copied from referenced JCM Medium 203
9 KCl
Cl.K 74.551 g/mol
0.325 G_PER_L CHEBI:32588
potassium chloride
Copied from referenced JCM Medium 203
10 NaBr
Br.Na 102.894 g/mol
0.05 G_PER_L CHEBI:63004
sodium bromide
Copied from referenced JCM Medium 203
11 H3BO3
H3BO3 61.833 g/mol
0.025 G_PER_L CHEBI:33118
boric acid
[Merged 2 duplicates: 0.015, 0.01] | Copied from JCM Medium 203
12 SrCl2 x 6 H2O
Cl2Sr.6H2O 266.616 g/mol
0.0075 G_PER_L CHEBI:36385
strontium dichloride hexahydrate
Copied from referenced JCM Medium 203
13 KI
I.K 166.002 g/mol
5e-05 G_PER_L CHEBI:8346
potassium iodide
Copied from referenced JCM Medium 203
14 CaCl2
Ca.2Cl 110.984 g/mol
0.75 G_PER_L CHEBI:3312
calcium dichloride
Copied from referenced JCM Medium 203
15 KH2PO4
H2O4P.K 136.084 g/mol
0.5 G_PER_L CHEBI:63036
potassium dihydrogen phosphate
Copied from referenced JCM Medium 203
16 (NH4)2Ni(SO4)2 x 6 H2O
6H2O.2H4N.Ni.2O4S 394.987 g/mol
0.002 G_PER_L CHEBI:86149
ammonium nickel sulfate hexahydrate
Copied from referenced JCM Medium 203
17 Nitrilotriacetic acid
C6H9NO6 191.139 g/mol
1.5 G_PER_L CHEBI:44557
nitrilotriacetic acid
Copied from referenced JCM Medium 203
18 MnSO4 x n H2O
Mn.O4S 151.001 g/mol
0.5 G_PER_L CHEBI:86360
manganese(II) sulfate
Copied from referenced JCM Medium 203
19 FeSO4 x 7 H2O
Fe.7H2O.O4S 278.013 g/mol
0.1 G_PER_L CHEBI:75836
iron(2+) sulfate heptahydrate
Copied from referenced JCM Medium 203
20 CoSO4 x 7 H2O
Co.7H2O.O4S 281.101 g/mol
0.1 G_PER_L CHEBI:91244
cobalt(2+) sulfate heptahydrate
Copied from referenced JCM Medium 203
21 CaCl2 x 2 H2O
Ca.2Cl.2H2O 147.014 g/mol
0.1 G_PER_L CHEBI:86158
calcium chloride dihydrate
Copied from referenced JCM Medium 203
22 ZnSO4 x 7 H2O
7H2O.O4S.Zn 287.558 g/mol
0.1 G_PER_L CHEBI:32312
zinc sulfate heptahydrate
Copied from referenced JCM Medium 203
23 CuSO4 x 5 H2O
Cu.5H2O.O4S 249.684 g/mol
0.01 G_PER_L CHEBI:31440
copper(II) sulfate pentahydrate
Copied from referenced JCM Medium 203
24 AlK(SO4)2
Al.K.2O4S 258.206 g/mol
0.01 G_PER_L CHEBI:86463
potassium aluminium sulfate
Copied from referenced JCM Medium 203
25 Na2MoO4 x 2 H2O
2H2O.MoO4.2Na 241.946 g/mol
0.01 G_PER_L CHEBI:75213
sodium molybdate dihydrate
Copied from referenced JCM Medium 203

Preparation

  1. Use Medium No. 203 with 0.2 g/L (final) yeast extract.

Target organisms

No target organisms are recorded.

Provenance

Merged from 3 source records.

TimestampCuratorActionNotes
2026-01-26T17:53:15.956210Z mediadive-import Imported from MediaDive Source: JCM, ID: J204
2026-02-03T11:26:54.132478 quality-tagger-v1.0 Added data quality flag Marked as incomplete_composition due to placeholder ingredients
2026-03-13T06:19:14.203652Z culturemech-id-assigner-v1.0 Assigned CultureMech ID Assigned stable identifier: CultureMech:002566
2026-03-17T19:45:27.420200+00:00 normalize_media_names_to_snake_case.py NAME_NORMALIZED Normalized name from "PYRODICTIUM OCULTUM MEDIUM" to "pyrodictium_ocultum_medium" for consistent matching
2026-04-04T18:49:19.226792 copy_referenced_compositions RESOLVED_REFERENCE Resolved reference by copying from pyrodictium_brockii_medium (CultureMech:002565)
2026-05-16T08:58:13.702066+00:00 migrate_data_quality_flags.py MIGRATED_DATA_QUALITY_FLAGS dict(2 keys) -> list(1 entries)
2026-06-05T07:41:43.447941+00:00 mim-legacy-to-chebi-migration-v1.0 Refreshed legacy MediaIngredientMech links to CHEBI keying Replaced 22 legacy mediaingredientmech_term link(s) with mediaingredientmech_chebi_term (id-safe: ingredient's own CHEBI + label). MIM deprecated the MediaIngredientMech:NNNNNN id scheme.
2026-06-10T07:47:10.721946+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.
2026-08-06T03:04:32.536995+00:00 recipe-merger Merged 3 duplicate recipes into canonical record Sources: pyrodictium_abysii_medium, pyrodictium_brockii_medium, pyrodictium_ocultum_medium
2026-08-06T03:04:32.537058+00:00 merge_recipes.py MERGED_RECIPES merged 3 source recipe(s) on fingerprint 440d69e3dec5445595b9094373d58ce7db78f3deeb65deba4496e9e3b113f97a