pyvl_medium

CultureMech:007600 bacterial COMPLEX LIQUID
Original name: Pyvl Medium

Overview

External ontology
TOGO:M1084 — Pyvl Medium
Applications
  • Microbial cultivation
Notes
Source: https://togomedium.org/medium/M1084 Original source: JCM - JCM_M1023 Original URL: https://www.jcm.riken.jp/cgi-bin/jcm/jcm_grmd?GRMD=1023

Composition

flowchart LR
    CultureMech_007600["pyvl_medium"]
    ing0_8___w_v__Na2CO3["8% (w/v) Na2CO3"]
    CultureMech_007600 --> ing0_8___w_v__Na2CO3
    ing1_0_1___w_v__resazurin__Na["0.1% (w/v) resazurin--Na"]
    CultureMech_007600 --> ing1_0_1___w_v__resazurin__Na
    ing2_Distilled_water["Distilled water"]
    CultureMech_007600 --> ing2_Distilled_water
    CHEBI_15377["CHEBI:15377"]
    ing2_Distilled_water -.-> CHEBI_15377
    ing3_L__Lysine["L--Lysine"]
    CultureMech_007600 --> ing3_L__Lysine
    CHEBI_18019["CHEBI:18019"]
    ing3_L__Lysine -.-> CHEBI_18019
    ing4_Yeast_extract__BD_Difco_["Yeast extract (BD-Difco)"]
    CultureMech_007600 --> ing4_Yeast_extract__BD_Difco_
    ing5_Trypticase_peptone__BD_BBL_["Trypticase peptone (BD-BBL)"]
    CultureMech_007600 --> ing5_Trypticase_peptone__BD_BBL_
    ing6_L__Cysteine_HCl_H2O["L--Cysteine・HCl・H2O"]
    CultureMech_007600 --> ing6_L__Cysteine_HCl_H2O
    CHEBI_91248["CHEBI:91248"]
    ing6_L__Cysteine_HCl_H2O -.-> CHEBI_91248
    ing7_Vitamin_mixture__see_below_["Vitamin mixture (see below)"]
    CultureMech_007600 --> ing7_Vitamin_mixture__see_below_
    ing8_Carbon_dioxide_gas["Carbon dioxide gas"]
    CultureMech_007600 --> ing8_Carbon_dioxide_gas
    CHEBI_16526["CHEBI:16526"]
    ing8_Carbon_dioxide_gas -.-> CHEBI_16526
    ing9_Nitrogen_gas["Nitrogen gas"]
    CultureMech_007600 --> ing9_Nitrogen_gas
    CHEBI_17997["CHEBI:17997"]
    ing9_Nitrogen_gas -.-> CHEBI_17997
    ing10_Biotin["Biotin"]
    CultureMech_007600 --> ing10_Biotin
    CHEBI_15956["CHEBI:15956"]
    ing10_Biotin -.-> CHEBI_15956
    ing11_p__Aminobenzoic_acid["p--Aminobenzoic acid"]
    CultureMech_007600 --> ing11_p__Aminobenzoic_acid
    CHEBI_30753["CHEBI:30753"]
    ing11_p__Aminobenzoic_acid -.-> CHEBI_30753
    ing12_Thiamine_HCl["Thiamine・HCl"]
    CultureMech_007600 --> ing12_Thiamine_HCl
    CHEBI_49105["CHEBI:49105"]
    ing12_Thiamine_HCl -.-> CHEBI_49105
    ing13_Folic_acid["Folic acid"]
    CultureMech_007600 --> ing13_Folic_acid
    CHEBI_27470["CHEBI:27470"]
    ing13_Folic_acid -.-> CHEBI_27470
    ing14_Vitamin_B12["Vitamin B12"]
    CultureMech_007600 --> ing14_Vitamin_B12
    CHEBI_176843["CHEBI:176843"]
    ing14_Vitamin_B12 -.-> CHEBI_176843
    ing15_Riboflavin["Riboflavin"]
    CultureMech_007600 --> ing15_Riboflavin
    CHEBI_17015["CHEBI:17015"]
    ing15_Riboflavin -.-> CHEBI_17015
    ing16_Pyridoxamine_2HCl["Pyridoxamine・2HCl"]
    CultureMech_007600 --> ing16_Pyridoxamine_2HCl

Ingredients (17)

# Ingredient Concentration Ontology Notes
1 8% (w/v) Na2CO3 2.5 G_PER_L Role: Buffer; Properties: Defined component, Inorganic compound, Solution
2 0.1% (w/v) resazurin--Na 1 G_PER_L Role: pH dependent redox indicator; Properties: Defined component, Solution
3 Distilled water
H2O 18.015 g/mol
950.0 G_PER_L CHEBI:15377
water
 Role: Solvating media; Properties: Simple component, Inorganic compound, Defined component [Merged 2 duplicates: 850.0, 100.0]
4 L--Lysine
C6H14N2O2 146.19 g/mol
5 G_PER_L CHEBI:18019
L-lysine
 Role: Nitrogen source; Properties: Organic compound, Simple component, Defined component
5 Yeast extract (BD-Difco) 5 G_PER_L Properties: Undefined component
6 Trypticase peptone (BD-BBL) 10 G_PER_L Properties: Undefined component
7 L--Cysteine・HCl・H2O
C3H7NO2S.H2O.HCl 175.637 g/mol
0.3 G_PER_L CHEBI:91248
L-cysteine hydrochloride hydrate
 Properties: Defined component, Simple component, Organic compound
8 Vitamin mixture (see below) 1 G_PER_L
9 Carbon dioxide gas
CO2 44.009 g/mol
variable VARIABLE CHEBI:16526
carbon dioxide
 Properties: ガス
10 Nitrogen gas
N2 28.014 g/mol
variable VARIABLE CHEBI:17997
dinitrogen
 Properties: ガス
11 Biotin
C10H16N2O3S 244.316 g/mol
1 G_PER_L CHEBI:15956
biotin
 Role: Vitamin; Properties: Defined component, Organic compound, Simple component
12 p--Aminobenzoic acid
C7H7NO2 137.138 g/mol
3 G_PER_L CHEBI:30753
4-aminobenzoic acid
 Role: Vitamin; Properties: Organic compound, Defined component, Simple component
13 Thiamine・HCl
C12H17N4OS.Cl.HCl 337.276 g/mol
5 G_PER_L CHEBI:49105
thiamine hydrochloride
 Role: Vitamin; Properties: Defined component, Organic compound, Simple component
14 Folic acid
C19H19N7O6 441.404 g/mol
5 G_PER_L CHEBI:27470
folic acid
 Role: Vitamin; Properties: Defined component, Simple component, Organic compound
15 Vitamin B12 1 G_PER_L CHEBI:176843
vitamin B12
 Role: Vitamin; Properties: Defined component, Simple component, Organic compound
16 Riboflavin
C17H20N4O6 376.369 g/mol
5 G_PER_L CHEBI:17015
riboflavin
 Role: Vitamin; Properties: Defined component, Organic compound, Simple component
17 Pyridoxamine・2HCl 15 G_PER_L Role: Vitamin; Properties: Simple component, Organic compound, Defined component

Solutions

Salt solution No. 1 (see Medium [M124])

Dose: 75 G_PER_L

Cross-reference to Medium M124

Salt solution No. 2 (see Medium [M124])

Dose: 75 G_PER_L

Cross-reference to Medium M124

Target organisms

No target organisms are recorded.

Provenance

TimestampCuratorActionNotes
2026-01-27T06:35:53.883806Z togo-import Imported from TOGO Medium Source: JCM, ID: M1084
2026-01-28T19:48:19.477090Z 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: Carbon dioxide gas; Added default concentration for ingredient: Nitrogen gas
2026-03-09T08:04:32.263286+00:00 solution-migrator-v1.0 Migrated solutions from ingredients to solutions array Moved 2 solution(s) from ingredients
2026-03-13T03:09:01.508575Z data-quality-cleanup-v1.0 Data quality fixes Merged 1 duplicate ingredient(s)
2026-03-13T06:19:49.958024Z culturemech-id-assigner-v1.0 Assigned CultureMech ID Assigned stable identifier: CultureMech:007600
2026-03-14T00:00:00+00:00 schema-defaulter-v1.0 Applied schema defaults and normalizations Added default solution name; Added default solution name
2026-03-17T06:30:06.000000Z mediaingredientmech-enrichment-v1.0 Added MediaIngredientMech links Linked ingredients to MediaIngredientMech identifiers
2026-03-17T19:46:08.313243+00:00 normalize_media_names_to_snake_case.py NAME_NORMALIZED Normalized name from "Pyvl Medium" to "pyvl_medium" for consistent matching
2026-05-16T09:03:07.412880+00:00 migrate_legacy_fields.py MIGRATED_LEGACY_FIELDS curation_history.date->timestamp=2
2026-06-05T07:40:30.262213+00:00 mim-legacy-to-chebi-migration-v1.0 Refreshed legacy MediaIngredientMech links to CHEBI keying Replaced 6 legacy mediaingredientmech_term link(s) with mediaingredientmech_chebi_term (id-safe: ingredient's own CHEBI + label). MIM deprecated the MediaIngredientMech:NNNNNN id scheme.
2026-08-20T19:01:16.698867+00:00 apply_mim_groundings.py Adopted MIM published grounding Grounded 1 ingredient(s) from MIM's ingredient_mappings.sssom.tsv (2026-08-18), exactMatch only, where this record carried no CHEBI term (#308).