Overview
- External ontology
- mediadive.medium:J151 (source link unavailable) — PYROCOCCUS MEDIUM
- Applications
-
- Microbial cultivation
- pH
- 6.5
- Notes
- Source: JCM | Link: https://www.jcm.riken.jp/cgi-bin/jcm/jcm_grmd?GRMD=151
Composition
flowchart LR
CultureMech_002510["pyrococcus_medium"]
ing0_Citric_acid["Citric acid"]
CultureMech_002510 --> ing0_Citric_acid
CHEBI_30769["CHEBI:30769"]
ing0_Citric_acid -.-> CHEBI_30769
ing1_Yeast_extract["Yeast extract"]
CultureMech_002510 --> ing1_Yeast_extract
ing2_Bacto_peptone["Bacto peptone"]
CultureMech_002510 --> ing2_Bacto_peptone
ing3_Sulfur["Sulfur"]
CultureMech_002510 --> ing3_Sulfur
CHEBI_26833["CHEBI:26833"]
ing3_Sulfur -.-> CHEBI_26833
ing4_Resazurin["Resazurin"]
CultureMech_002510 --> ing4_Resazurin
CHEBI_8806["CHEBI:8806"]
ing4_Resazurin -.-> CHEBI_8806
ing5_H2SO4["H2SO4"]
CultureMech_002510 --> ing5_H2SO4
Ingredients (6)
| # | Ingredient | Concentration | Ontology | Notes |
|---|---|---|---|---|
| 1 |
Citric acid
C6H8O7 192.123 g/mol
|
CHEBI:30769
citric acid
|
Source batch input: 5 mg. Final preparation volume is not independently established; the unsupported g/L assertion is withdrawn, not replaced by an assumed one-liter concentration. | |
| 2 | Yeast extract | Source batch input: 1 g. Final preparation volume is not independently established; the unsupported g/L assertion is withdrawn, not replaced by an assumed one-liter concentration. Source qualifier: BD-Difco. | ||
| 3 | Bacto peptone | Source batch input: 5 g. Final preparation volume is not independently established; the unsupported g/L assertion is withdrawn, not replaced by an assumed one-liter concentration. Source qualifier: BD-Difco. | ||
| 4 |
Sulfur
S 32.067 g/mol
|
CHEBI:26833
sulfur atom
|
Source batch input: 30 g. Final preparation volume is not independently established; the unsupported g/L assertion is withdrawn, not replaced by an assumed one-liter concentration. Source qualifier: powder. | |
| 5 |
Resazurin
C12H7NO4 229.191 g/mol
|
CHEBI:8806
Resazurin
|
Source batch input: 1 mg. Final preparation volume is not independently established; the unsupported g/L assertion is withdrawn, not replaced by an assumed one-liter concentration. | |
| 6 | H2SO4 | Source-explicit pH adjustment with no fixed dose. Strength, when stated as 1 N, is retained in preparation text; no molarity is inferred. |
Preparation
- Mix ingredients, except sulfur and Na2S x 9H2O, and adjust pH to 6.5 with H2SO4. Sterilize by filtration under a N2 atmosphere. Steam sulfur for 3 hr on each of 3 successive days. Neutralize Na2S x 9H2O as a 5% solution, and autoclave under a N2 atmosphere. Aseptically and anaerobically add sterile sulfur to the medium. Prior to inoculation, add the sterile Na2S x 9H2O solution, and readjust pH to 6.5, if necessary.
Solutions
Salt base solution
Dose: 1 L
| Ingredient | Concentration | Notes |
|---|---|---|
| NaCl | 13.85 G_PER_L | [Merged 2 duplicates: 13.85, 1.0] Source stock batch input: 13.85 g. Retain provider-declared stock g_l=13.85 only, not a final-medium concentration or an independently verified final stock volume. Prior duplicate-merge notes describe the superseded flattened record. |
| MgSO4 x 7 H2O | 3.5 G_PER_L | [Merged 2 duplicates: 3.5, 3.0] Source stock batch input: 3.5 g. Retain provider-declared stock g_l=3.5 only, not a final-medium concentration or an independently verified final stock volume. Prior duplicate-merge notes describe the superseded flattened record. |
| MgCl2 x 6 H2O | 2.75 G_PER_L | Source stock batch input: 2.75 g. Retain provider-declared stock g_l=2.75 only, not a final-medium concentration or an independently verified final stock volume. Prior duplicate-merge notes describe the superseded flattened record. |
| KCl | 0.325 G_PER_L | Source stock batch input: 0.325 g. Retain provider-declared stock g_l=0.325 only, not a final-medium concentration or an independently verified final stock volume. Prior duplicate-merge notes describe the superseded flattened record. |
| NaBr | 0.05 G_PER_L | Source stock batch input: 0.05 g. Retain provider-declared stock g_l=0.05 only, not a final-medium concentration or an independently verified final stock volume. Prior duplicate-merge notes describe the superseded flattened record. |
| H3BO3 | 0.015 G_PER_L | [Merged 2 duplicates: 0.015, 0.01] Source stock batch input: 15 mg. Retain provider-declared stock g_l=0.015 only, not a final-medium concentration or an independently verified final stock volume. Prior duplicate-merge notes describe the superseded flattened record. |
| SrCl2 x 6 H2O | 0.0075 G_PER_L | Source stock batch input: 7.5 mg. Retain provider-declared stock g_l=0.0075 only, not a final-medium concentration or an independently verified final stock volume. Prior duplicate-merge notes describe the superseded flattened record. |
| KI | 0.00005 G_PER_L | Source stock batch input: 0.05 mg. Retain provider-declared stock g_l=5e-05 only, not a final-medium concentration or an independently verified final stock volume. Prior duplicate-merge notes describe the superseded flattened record. |
| CaCl2 | 0.75 G_PER_L | Source stock batch input: 0.75 g. Retain provider-declared stock g_l=0.75 only, not a final-medium concentration or an independently verified final stock volume. Prior duplicate-merge notes describe the superseded flattened record. |
| KH2PO4 | 0.5 G_PER_L | Source stock batch input: 0.5 g. Retain provider-declared stock g_l=0.5 only, not a final-medium concentration or an independently verified final stock volume. Prior duplicate-merge notes describe the superseded flattened record. |
| (NH4)2Ni(SO4)2 x 6 H2O | 0.002 G_PER_L | Source stock batch input: 2 mg. Retain provider-declared stock g_l=0.002 only, not a final-medium concentration or an independently verified final stock volume. Prior duplicate-merge notes describe the superseded flattened record. |
| Distilled water | 1 L | Source water batch input: 1000 ml = 1 L. This is not a measured final volume. Prior duplicate-collapse notes describe the superseded flattened record. |
Source stock addition: 1000 ml = 1 L per receiving batch, not grams per liter or a dose per final liter.
Trace minerals
Dose: 0.01 L
| Ingredient | Concentration | Notes |
|---|---|---|
| Nitrilotriacetic acid | 1.5 G_PER_L | Source stock batch input: 1.5 g. Retain provider-declared stock g_l=1.5 only, not a final-medium concentration or an independently verified final stock volume. Prior duplicate-merge notes describe the superseded flattened record. |
| MgSO4 x 7 H2O | 3 G_PER_L | [Merged 2 duplicates: 3.5, 3.0] Source stock batch input: 3 g. Retain provider-declared stock g_l=3 only, not a final-medium concentration or an independently verified final stock volume. Prior duplicate-merge notes describe the superseded flattened record. |
| MnSO4 x n H2O | 0.5 G_PER_L | Source stock batch input: 0.5 g. Retain provider-declared stock g_l=0.5 only, not a final-medium concentration or an independently verified final stock volume. Prior duplicate-merge notes describe the superseded flattened record. |
| NaCl | 1 G_PER_L | [Merged 2 duplicates: 13.85, 1.0] Source stock batch input: 1 g. Retain provider-declared stock g_l=1 only, not a final-medium concentration or an independently verified final stock volume. Prior duplicate-merge notes describe the superseded flattened record. |
| FeSO4 x 7 H2O | 0.1 G_PER_L | Source stock batch input: 0.1 g. Retain provider-declared stock g_l=0.1 only, not a final-medium concentration or an independently verified final stock volume. Prior duplicate-merge notes describe the superseded flattened record. |
| CoSO4 x 7 H2O | 0.1 G_PER_L | Source stock batch input: 0.1 g. Retain provider-declared stock g_l=0.1 only, not a final-medium concentration or an independently verified final stock volume. Prior duplicate-merge notes describe the superseded flattened record. |
| CaCl2 x 2 H2O | 0.1 G_PER_L | Source stock batch input: 0.1 g. Retain provider-declared stock g_l=0.1 only, not a final-medium concentration or an independently verified final stock volume. Prior duplicate-merge notes describe the superseded flattened record. |
| ZnSO4 x 7 H2O | 0.1 G_PER_L | Source stock batch input: 0.1 g. Retain provider-declared stock g_l=0.1 only, not a final-medium concentration or an independently verified final stock volume. Prior duplicate-merge notes describe the superseded flattened record. |
| CuSO4 x 5 H2O | 0.01 G_PER_L | Source stock batch input: 0.01 g. Retain provider-declared stock g_l=0.01 only, not a final-medium concentration or an independently verified final stock volume. Prior duplicate-merge notes describe the superseded flattened record. |
| AlK(SO4)2 | 0.01 G_PER_L | Source stock batch input: 0.01 g. Retain provider-declared stock g_l=0.01 only, not a final-medium concentration or an independently verified final stock volume. Prior duplicate-merge notes describe the superseded flattened record. |
| H3BO3 | 0.01 G_PER_L | [Merged 2 duplicates: 0.015, 0.01] Source stock batch input: 0.01 g. Retain provider-declared stock g_l=0.01 only, not a final-medium concentration or an independently verified final stock volume. Prior duplicate-merge notes describe the superseded flattened record. |
| Na2MoO4 x 2 H2O | 0.01 G_PER_L | Source stock batch input: 0.01 g. Retain provider-declared stock g_l=0.01 only, not a final-medium concentration or an independently verified final stock volume. Prior duplicate-merge notes describe the superseded flattened record. |
| Distilled water | 1 L | Source water batch input: 1000 ml = 1 L. This is not a measured final volume. Prior duplicate-collapse notes describe the superseded flattened record. |
| KOH solution | Source-explicit pH adjustment with no fixed dose. Strength, when stated as 1 N, is retained in preparation text; no molarity is inferred. |
Source stock addition: 10 ml = 0.01 L per receiving batch, not grams per liter or a dose per final liter.
Na2S x 9 H2O separately prepared solution
| Ingredient | Concentration | Notes |
|---|---|---|
| Na2S x 9 H2O | Source batch input: 0.5 g. Final preparation volume is not independently established; the unsupported g/L assertion is withdrawn, not replaced by an assumed one-liter concentration. This is the contribution specified for the receiving medium batch, not the mass for preparing an unspecified volume of stock. |
The source specifies a separate percentage-labelled preparation but does not establish percentage basis or its addition volume. No numeric stock strength or dose is asserted. Composition notes record the receiving-batch contribution only.
Target organisms
No target organisms are recorded.
Provenance
| Timestamp | Curator | Action | Notes |
|---|---|---|---|
| 2026-01-26T17:53:15.825983Z | mediadive-import | Imported from MediaDive | Source: JCM, ID: J151 |
| 2026-03-13T03:09:39.671970Z | data-quality-cleanup-v1.0 | Data quality fixes | Merged 3 duplicate ingredient(s) |
| 2026-03-13T06:19:13.895413Z | culturemech-id-assigner-v1.0 | Assigned CultureMech ID | Assigned stable identifier: CultureMech:002510 |
| 2026-03-17T06:30:51.000000Z | mediaingredientmech-enrichment-v1.0 | Added MediaIngredientMech links | Linked ingredients to MediaIngredientMech identifiers |
| 2026-03-17T19:45:27.067522+00:00 | normalize_media_names_to_snake_case.py | NAME_NORMALIZED | Normalized name from "PYROCOCCUS MEDIUM" to "pyrococcus_medium" for consistent matching |
| 2026-06-05T07:40:16.712141+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. |
| 2026-06-10T07:46:42.789062+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. |
| 2026-10-08T13:52:57.998884+00:00 | codex | RESTORED_JCM_STOCK_PREPARATION_BOUNDARIES_WITH_EVIDENCE | Restored preparation boundaries and explicit stock-dose bases. Preserved source-specific conflicts, chemical annotations and earlier history. Batch-mass notes do not assert final concentrations; provider-declared stock rates remain qualified. No growth or identity equivalence claim inferred. |
| 2026-10-08T14:34:18.972918+00:00 | codex | RESTORED_JCM261_VARIANT_FORMULATION_WITH_EVIDENCE | Source-defined variant overrides and reciprocal links restored. Parent formulations and prior history preserved. Batch amounts and stock composition are not final-medium concentrations. Unknown percentage basis/dose remains unresolved; chemical annotations preserved, not recertified. |