modified_halobacteria_medium_2

CultureMech:002191 archaea COMPLEX LIQUID
Original name: MODIFIED HALOBACTERIA MEDIUM-2

Overview

External ontology
mediadive.medium:J1007 (source link unavailable) — MODIFIED HALOBACTERIA MEDIUM-2
Applications
  • Microbial cultivation
pH
8.0
Notes
Source: JCM | Link: https://www.jcm.riken.jp/cgi-bin/jcm/jcm_grmd?GRMD=1007 Source preparation excerpts: "Add components to distilled water and bring volume to 1.0 L."; "Unless otherwise stated, sterilize media by autoclaving at 121°C for 15 min.". These instructions are not converted into an inferred step ordering. Separate JCM1007 excerpt: "After autoclaving, adjust pH to 8.0 with sterile Na2CO3 solution.". The modified recipe explicitly states 1.0 g/L MgSO4 heptahydrate (final), also reported as 1 g/L by TOGO M1064. Record this source-stated target, not 20 g/L copied from the base or an inferred 21 g/L sum. The word supplemented and the base recipe's 20 g per 1 L leave a preparation ambiguity: literal addition to the unchanged base cannot produce the stated lower target. This curation does not claim that operational ambiguity is resolved.

Composition

flowchart LR
    CultureMech_002191["modified_halobacteria_medium_2"]
    ing0_Casamino_acids["Casamino acids"]
    CultureMech_002191 --> ing0_Casamino_acids
    ing1_Yeast_extract["Yeast extract"]
    CultureMech_002191 --> ing1_Yeast_extract
    ing2_Na_glutamate["Na glutamate"]
    CultureMech_002191 --> ing2_Na_glutamate
    CHEBI_64220["CHEBI:64220"]
    ing2_Na_glutamate -.-> CHEBI_64220
    ing3_Trisodium_citrate["Trisodium citrate"]
    CultureMech_002191 --> ing3_Trisodium_citrate
    CHEBI_53258["CHEBI:53258"]
    ing3_Trisodium_citrate -.-> CHEBI_53258
    ing4_MgSO4_x_7_H2O["MgSO4 x 7 H2O"]
    CultureMech_002191 --> ing4_MgSO4_x_7_H2O
    CHEBI_31795["CHEBI:31795"]
    ing4_MgSO4_x_7_H2O -.-> CHEBI_31795
    ing5_KCl["KCl"]
    CultureMech_002191 --> ing5_KCl
    CHEBI_32588["CHEBI:32588"]
    ing5_KCl -.-> CHEBI_32588
    ing6_NaCl["NaCl"]
    CultureMech_002191 --> ing6_NaCl
    CHEBI_26710["CHEBI:26710"]
    ing6_NaCl -.-> CHEBI_26710
    ing7_FeCl2_x_4_H2O["FeCl2 x 4 H2O"]
    CultureMech_002191 --> ing7_FeCl2_x_4_H2O
    CHEBI_86249["CHEBI:86249"]
    ing7_FeCl2_x_4_H2O -.-> CHEBI_86249
    ing8_MnCl2_x_4_H2O["MnCl2 x 4 H2O"]
    CultureMech_002191 --> ing8_MnCl2_x_4_H2O
    CHEBI_86368["CHEBI:86368"]
    ing8_MnCl2_x_4_H2O -.-> CHEBI_86368
    ing9_distilled_water["distilled water"]
    CultureMech_002191 --> ing9_distilled_water
    ing10_sodium_pyruvate["sodium pyruvate"]
    CultureMech_002191 --> ing10_sodium_pyruvate

Ingredients (11)

# Ingredient Concentration Ontology Notes
1 Casamino acids 5 G_PER_L Copied from referenced JCM Medium 168 JCM168 specifies 5.0 g in the recipe brought to 1.0 L; 5.0 g / 1.0 L gives the stated per-liter rate. Separate exact volume excerpt: "Add components to distilled water and bring volume to 1.0 L.". Hydrate form is retained; no molar or density conversion is used. JCM1007 inherits this base component; separate exact cross-reference: "Use Medium No. 168 supplemented with 1.0 g/L sodium pyruvate and 1.0 g/L MgSO4·7H2O (final).".
2 Yeast extract 5 G_PER_L Copied from referenced JCM Medium 168 JCM168 specifies 5.0 g in the recipe brought to 1.0 L; 5.0 g / 1.0 L gives the stated per-liter rate. Separate exact volume excerpt: "Add components to distilled water and bring volume to 1.0 L.". Hydrate form is retained; no molar or density conversion is used. JCM1007 inherits this base component; separate exact cross-reference: "Use Medium No. 168 supplemented with 1.0 g/L sodium pyruvate and 1.0 g/L MgSO4·7H2O (final).".
3 Na glutamate
C5H8NO4.Na 169.112 g/mol
1 G_PER_L CHEBI:64220
monosodium glutamate
 Copied from referenced JCM Medium 168 JCM168 specifies 1.0 g in the recipe brought to 1.0 L; 1.0 g / 1.0 L gives the stated per-liter rate. Separate exact volume excerpt: "Add components to distilled water and bring volume to 1.0 L.". Hydrate form is retained; no molar or density conversion is used. JCM1007 inherits this base component; separate exact cross-reference: "Use Medium No. 168 supplemented with 1.0 g/L sodium pyruvate and 1.0 g/L MgSO4·7H2O (final).".
4 Trisodium citrate
C6H5O7.3Na 258.069 g/mol
3 G_PER_L CHEBI:53258
sodium citrate
 Copied from referenced JCM Medium 168 JCM168 specifies 3.0 g in the recipe brought to 1.0 L; 3.0 g / 1.0 L gives the stated per-liter rate. Separate exact volume excerpt: "Add components to distilled water and bring volume to 1.0 L.". Hydrate form is retained; no molar or density conversion is used. JCM1007 inherits this base component; separate exact cross-reference: "Use Medium No. 168 supplemented with 1.0 g/L sodium pyruvate and 1.0 g/L MgSO4·7H2O (final).".
5 MgSO4 x 7 H2O
7H2O.Mg.O4S 246.473 g/mol
1 G_PER_L CHEBI:31795
magnesium sulfate heptahydrate
 Copied from referenced JCM Medium 168 The modified recipe explicitly states 1.0 g/L MgSO4 heptahydrate (final), also reported as 1 g/L by TOGO M1064. Record this source-stated target, not 20 g/L copied from the base or an inferred 21 g/L sum. The word supplemented and the base recipe's 20 g per 1 L leave a preparation ambiguity: literal addition to the unchanged base cannot produce the stated lower target. This curation does not claim that operational ambiguity is resolved.
6 KCl
Cl.K 74.551 g/mol
2 G_PER_L CHEBI:32588
potassium chloride
 Copied from referenced JCM Medium 168 JCM168 specifies 2.0 g in the recipe brought to 1.0 L; 2.0 g / 1.0 L gives the stated per-liter rate. Separate exact volume excerpt: "Add components to distilled water and bring volume to 1.0 L.". Hydrate form is retained; no molar or density conversion is used. JCM1007 inherits this base component; separate exact cross-reference: "Use Medium No. 168 supplemented with 1.0 g/L sodium pyruvate and 1.0 g/L MgSO4·7H2O (final).".
7 NaCl
Cl.Na 58.443 g/mol
200 G_PER_L CHEBI:26710
sodium chloride
 Copied from referenced JCM Medium 168 JCM168 specifies 200.0 g in the recipe brought to 1.0 L; 200.0 g / 1.0 L gives the stated per-liter rate. Separate exact volume excerpt: "Add components to distilled water and bring volume to 1.0 L.". Hydrate form is retained; no molar or density conversion is used. JCM1007 inherits this base component; separate exact cross-reference: "Use Medium No. 168 supplemented with 1.0 g/L sodium pyruvate and 1.0 g/L MgSO4·7H2O (final).".
8 FeCl2 x 4 H2O
Cl2Fe.4H2O 198.811 g/mol
36 MG_PER_L CHEBI:86249
iron dichloride tetrahydrate
 Copied from referenced JCM Medium 168 JCM168 specifies 36.0 mg in the recipe brought to 1.0 L; 36.0 mg / 1.0 L gives the stated per-liter rate. Separate exact volume excerpt: "Add components to distilled water and bring volume to 1.0 L.". Hydrate form is retained; no molar or density conversion is used. JCM1007 inherits this base component; separate exact cross-reference: "Use Medium No. 168 supplemented with 1.0 g/L sodium pyruvate and 1.0 g/L MgSO4·7H2O (final).".
9 MnCl2 x 4 H2O
Cl2Mn.4H2O 197.904 g/mol
0.36 MG_PER_L CHEBI:86368
manganese(II) chloride tetrahydrate
 Copied from referenced JCM Medium 168 JCM168 specifies 0.36 mg in the recipe brought to 1.0 L; 0.36 mg / 1.0 L gives the stated per-liter rate. Separate exact volume excerpt: "Add components to distilled water and bring volume to 1.0 L.". Hydrate form is retained; no molar or density conversion is used. JCM1007 inherits this base component; separate exact cross-reference: "Use Medium No. 168 supplemented with 1.0 g/L sodium pyruvate and 1.0 g/L MgSO4·7H2O (final).".
10 distilled water Distilled water is used to bring the recipe to 1.0 L final volume. Its individual input volume and mass are unspecified; the imported 1 g/L is not supported, and the table's 1 L is not a fixed water dose.
11 sodium pyruvate 1 G_PER_L Explicit 1.0 g/L sodium pyruvate supplement in JCM1007; not present in unmodified JCM168.

Preparation

  1. Use Medium No. 168 supplemented with 1.0 g/L sodium pyruvate and 1.0 g/L MgSO4 x 7H2O (final). After autoclaving, adjust pH to 8.0 with sterile Na2CO3 solution.

Solutions

Na2CO3 solution

Sterile Na2CO3 solution is added after autoclaving to adjust pH to 8.0. Neither a fixed dose nor a stock strength is supplied; no inline strength is invented.

Target organisms

No target organisms are recorded.

Provenance

TimestampCuratorActionNotes
2026-01-26T17:53:18.299869Z mediadive-import Imported from MediaDive Source: JCM, ID: J1007
2026-02-03T11:26:52.541518 quality-tagger-v1.0 Added data quality flag Marked as incomplete_composition due to placeholder ingredients
2026-03-13T06:19:11.116154Z culturemech-id-assigner-v1.0 Assigned CultureMech ID Assigned stable identifier: CultureMech:002191
2026-03-17T19:45:23.867364+00:00 normalize_media_names_to_snake_case.py NAME_NORMALIZED Normalized name from "MODIFIED HALOBACTERIA MEDIUM-2" to "modified_halobacteria_medium_2" for consistent matching
2026-04-04T18:49:19.141159 copy_referenced_compositions RESOLVED_REFERENCE Resolved reference by copying from halobacteria_medium (CultureMech:002527)
2026-05-16T08:58:09.562529+00:00 migrate_data_quality_flags.py MIGRATED_DATA_QUALITY_FLAGS dict(2 keys) -> list(1 entries)
2026-06-05T07:41:36.676377+00:00 mim-legacy-to-chebi-migration-v1.0 Refreshed legacy MediaIngredientMech links to CHEBI keying Replaced 8 legacy mediaingredientmech_term link(s) with mediaingredientmech_chebi_term (id-safe: ingredient's own CHEBI + label). MIM deprecated the MediaIngredientMech:NNNNNN id scheme.
2026-06-08T23:19:48.800597+00:00 chebi-regrounding-v1.0 Corrected CHEBI ingredient grounding (audit G21/G22) Re-grounded 2 term reference(s) to the correct CHEBI (see reports/chebi_grounding_audit.md). Label-conditional fixes for pyridoxine/pyridoxamine, glycerol, MnSO4, Ca(NO3)2, selenate; casamino acids de-grounded (mixture, no single CHEBI).
2026-10-09T12:51:15.611095+00:00 codex CURATED_HALOBACTERIA_SOURCE_CONCENTRATIONS Source-specific ingredient review with exact PURL-backed excerpts. Trace metals use mg/L, water is final-volume make-up, and modified-medium magnesium retains the explicit source target and preparation ambiguity. Existing chemical mappings and high-metal flags are preserved; no taxa-media claims are added.