neutral_oligotrophic_haloarchaeal_medium_no_3

CultureMech:007514 archaea COMPLEX LIQUID
Original name: Neutral Oligotrophic Haloarchaeal Medium NO.3

Overview

External ontology
TOGO:M1001 — Neutral Oligotrophic Haloarchaeal Medium NO.3
Applications
  • Microbial cultivation
Notes
Source: https://togomedium.org/medium/M1001 Original source: JCM - JCM_M954 Original URL: https://www.jcm.riken.jp/cgi-bin/jcm/jcm_grmd?GRMD=954

Composition

flowchart LR
    CultureMech_007514["neutral_oligotrophic_haloarchaeal_medium_no_3"]
    ing0_Distilled_water["Distilled water"]
    CultureMech_007514 --> ing0_Distilled_water
    CHEBI_15377["CHEBI:15377"]
    ing0_Distilled_water -.-> CHEBI_15377
    ing1_Yeast_extract["Yeast extract"]
    CultureMech_007514 --> ing1_Yeast_extract
    ing2_Sodium_acetate["Sodium acetate"]
    CultureMech_007514 --> ing2_Sodium_acetate
    CHEBI_32954["CHEBI:32954"]
    ing2_Sodium_acetate -.-> CHEBI_32954
    ing3_Sodium_pyruvate["Sodium pyruvate"]
    CultureMech_007514 --> ing3_Sodium_pyruvate
    CHEBI_50144["CHEBI:50144"]
    ing3_Sodium_pyruvate -.-> CHEBI_50144
    ing4_Sodium_lactate["Sodium lactate"]
    CultureMech_007514 --> ing4_Sodium_lactate
    CHEBI_75228["CHEBI:75228"]
    ing4_Sodium_lactate -.-> CHEBI_75228
    ing5_Fish_peptone__Fluka_["Fish peptone (Fluka)"]
    CultureMech_007514 --> ing5_Fish_peptone__Fluka_
    ing6_Sodium_formate["Sodium formate"]
    CultureMech_007514 --> ing6_Sodium_formate
    CHEBI_62965["CHEBI:62965"]
    ing6_Sodium_formate -.-> CHEBI_62965

Ingredients (7)

# Ingredient Concentration Ontology Notes
1 Distilled water
H2O 18.015 g/mol
0.233 L CHEBI:15377
water
 Role: Solvating media; Properties: Defined component, Inorganic compound, Simple component Source batch input: 233 ml = 0.233 L. This is an input volume, not g/L, ml/L, or a final-medium volume. No density or final-volume assumption is made.
2 Yeast extract 1 G_PER_L Role: Nutrient source; Properties: Undefined component JCM954 specifies 1.0 g per recipe batch for this component. The existing G_PER_L value is retained but remains unverified: 767 ml MDS salt water plus 233 ml water precede post-autoclave additions of 5 ml ammonium chloride stock and 2 ml phosphate buffer; no final make-up volume is specified. The evidence supports this batch-mass note only, not the retained final-medium concentration.
3 Sodium acetate
C2H3O2.Na 82.034 g/mol
0.25 G_PER_L CHEBI:32954
sodium acetate
 Role: Buffer; Properties: Organic compound, Simple component, Defined component JCM954 specifies 0.25 g per recipe batch for this component. The existing G_PER_L value is retained but remains unverified: 767 ml MDS salt water plus 233 ml water precede post-autoclave additions of 5 ml ammonium chloride stock and 2 ml phosphate buffer; no final make-up volume is specified. The evidence supports this batch-mass note only, not the retained final-medium concentration.
4 Sodium pyruvate
C3H3O3.Na 110.044 g/mol
0.25 G_PER_L CHEBI:50144
sodium pyruvate
 Role: Carbon source; Properties: Simple component, Defined component, Organic compound JCM954 specifies 0.25 g per recipe batch for this component. The existing G_PER_L value is retained but remains unverified: 767 ml MDS salt water plus 233 ml water precede post-autoclave additions of 5 ml ammonium chloride stock and 2 ml phosphate buffer; no final make-up volume is specified. The evidence supports this batch-mass note only, not the retained final-medium concentration.
5 Sodium lactate
C3H5O3.Na 112.06 g/mol
0.25 G_PER_L CHEBI:75228
sodium lactate
 Role: Carbon source; Properties: Defined component, Organic compound, Simple component JCM954 specifies 0.25 g per recipe batch for this component. The existing G_PER_L value is retained but remains unverified: 767 ml MDS salt water plus 233 ml water precede post-autoclave additions of 5 ml ammonium chloride stock and 2 ml phosphate buffer; no final make-up volume is specified. The evidence supports this batch-mass note only, not the retained final-medium concentration.
6 Fish peptone (Fluka) 0.25 G_PER_L Role: Nutrient source; Properties: Undefined component JCM954 specifies 0.25 g per recipe batch for this component. The existing G_PER_L value is retained but remains unverified: 767 ml MDS salt water plus 233 ml water precede post-autoclave additions of 5 ml ammonium chloride stock and 2 ml phosphate buffer; no final make-up volume is specified. The evidence supports this batch-mass note only, not the retained final-medium concentration.
7 Sodium formate
CHO2.Na 68.007 g/mol
0.25 G_PER_L CHEBI:62965
sodium formate
 Properties: Defined component, Inorganic compound, Simple component JCM954 specifies 0.25 g per recipe batch for this component. The existing G_PER_L value is retained but remains unverified: 767 ml MDS salt water plus 233 ml water precede post-autoclave additions of 5 ml ammonium chloride stock and 2 ml phosphate buffer; no final make-up volume is specified. The evidence supports this batch-mass note only, not the retained final-medium concentration.

Solutions

MDS salt water (see Medium [M578])

Dose: 0.767 L

Cross-reference to Medium M578 Source batch input: 767 ml = 0.767 L. This is an input volume, not g/L, ml/L, or a final-medium volume. No density or final-volume assumption is made.

1 M NH4Cl solution*

Dose: 0.005 L

Stock composition
IngredientConcentrationNotes
NH4Cl 1 MOLAR Explicit 1 M NH4Cl stock strength, not its final-medium concentration. The batch addition remains 5 ml; no final dilution is calculated.
Role: Nitrogen source; Properties: Defined component, Inorganic compound, Solution Source batch input: 5 ml = 0.005 L. This is an input volume, not g/L, ml/L, or a final-medium volume. No density or final-volume assumption is made. Add after autoclaving and cooling; stock strength is distinct from dose.

Potassium phosphate buffer (see Medium [M578])

Dose: 0.002 L

Cross-reference to Medium M578 Source batch input: 2 ml = 0.002 L. This is an input volume, not g/L, ml/L, or a final-medium volume. No density or final-volume assumption is made. Add after autoclaving and cooling; stock strength is distinct from dose.

Target organisms

No target organisms are recorded.

Provenance

TimestampCuratorActionNotes
2026-01-27T06:35:53.735201Z togo-import Imported from TOGO Medium Source: JCM, ID: M1001
2026-01-28T19:48:09.997248Z chebi-enrichment Added CHEBI ontology terms to ingredients Enriched using MicrobeMediaParam and MediaDive chemical mappings
2026-03-09T08:04:16.275232+00:00 solution-migrator-v1.0 Migrated solutions from ingredients to solutions array Moved 3 solution(s) from ingredients
2026-03-13T06:19:49.319982Z culturemech-id-assigner-v1.0 Assigned CultureMech ID Assigned stable identifier: CultureMech:007514
2026-03-14T00:00:00+00:00 schema-defaulter-v1.0 Applied schema defaults and normalizations Added default solution name; Added default solution name; Added default solution name
2026-03-17T06:29:46.000000Z mediaingredientmech-enrichment-v1.0 Added MediaIngredientMech links Linked ingredients to MediaIngredientMech identifiers
2026-03-17T19:46:07.647625+00:00 normalize_media_names_to_snake_case.py NAME_NORMALIZED Normalized name from "Neutral Oligotrophic Haloarchaeal Medium NO.3" to "neutral_oligotrophic_haloarchaeal_medium_no_3" for consistent matching
2026-05-16T09:03:06.790224+00:00 migrate_legacy_fields.py MIGRATED_LEGACY_FIELDS curation_history.date->timestamp=1
2026-06-05T07:40:29.585802+00:00 mim-legacy-to-chebi-migration-v1.0 Refreshed legacy MediaIngredientMech links to CHEBI keying Replaced 5 legacy mediaingredientmech_term link(s) with mediaingredientmech_chebi_term (id-safe: ingredient's own CHEBI + label). MIM deprecated the MediaIngredientMech:NNNNNN id scheme.
2026-10-08T09:28:19.729810+00:00 codex CORRECTED_TOGO_JCM954_INPUT_VOLUMES_AND_STOCK_STRENGTH Source-pinned TOGO/JCM954 pair. Corrected four batch-volume units; added explicit NH4Cl stock strength. Batch-mass notes do not validate retained G_PER_L values. No inferred final volume, organism claims, chemical mappings, or historical events changed.