gs_medium

CultureMech:003151 bacterial COMPLEX LIQUID
Original name: GS MEDIUM

Overview

External ontology
mediadive.medium:J806 (source link unavailable) — GS MEDIUM
Applications
  • Microbial cultivation
Notes
Source: JCM | Link: https://www.jcm.riken.jp/cgi-bin/jcm/jcm_grmd?GRMD=806 Composition recovery source: https://togomedium.org/medium/M841 (TOGO snapshot of JCM medium J806).

Composition

flowchart LR
    CultureMech_003151["gs_medium"]
    ing0_KCl["KCl"]
    CultureMech_003151 --> ing0_KCl
    CHEBI_32588["CHEBI:32588"]
    ing0_KCl -.-> CHEBI_32588
    ing1_MgCl2_x_6H2O["MgCl2 x 6H2O"]
    CultureMech_003151 --> ing1_MgCl2_x_6H2O
    CHEBI_86345["CHEBI:86345"]
    ing1_MgCl2_x_6H2O -.-> CHEBI_86345
    ing2_MgSO4_x_7H2O["MgSO4 x 7H2O"]
    CultureMech_003151 --> ing2_MgSO4_x_7H2O
    CHEBI_31795["CHEBI:31795"]
    ing2_MgSO4_x_7H2O -.-> CHEBI_31795
    ing3_NH4Cl["NH4Cl"]
    CultureMech_003151 --> ing3_NH4Cl
    CHEBI_31206["CHEBI:31206"]
    ing3_NH4Cl -.-> CHEBI_31206
    ing4_CaCl2_x_2H2O["CaCl2 x 2H2O"]
    CultureMech_003151 --> ing4_CaCl2_x_2H2O
    CHEBI_86158["CHEBI:86158"]
    ing4_CaCl2_x_2H2O -.-> CHEBI_86158
    ing5_KH2PO4["KH2PO4"]
    CultureMech_003151 --> ing5_KH2PO4
    CHEBI_63036["CHEBI:63036"]
    ing5_KH2PO4 -.-> CHEBI_63036
    ing6_NaCl["NaCl"]
    CultureMech_003151 --> ing6_NaCl
    CHEBI_26710["CHEBI:26710"]
    ing6_NaCl -.-> CHEBI_26710
    ing7_Fe_NH4_2_SO4_2_x_6H2O["Fe(NH4)2(SO4)2 x 6H2O"]
    CultureMech_003151 --> ing7_Fe_NH4_2_SO4_2_x_6H2O
    CHEBI_76181["CHEBI:76181"]
    ing7_Fe_NH4_2_SO4_2_x_6H2O -.-> CHEBI_76181
    ing8_NaHCO3["NaHCO3"]
    CultureMech_003151 --> ing8_NaHCO3
    CHEBI_32139["CHEBI:32139"]
    ing8_NaHCO3 -.-> CHEBI_32139
    ing9_Glucose["Glucose"]
    CultureMech_003151 --> ing9_Glucose
    CHEBI_17234["CHEBI:17234"]
    ing9_Glucose -.-> CHEBI_17234
    ing10_Yeast_extract__BD_Difco_["Yeast extract (BD-Difco)"]
    CultureMech_003151 --> ing10_Yeast_extract__BD_Difco_
    ing11_Trypticase_peptone__BD_BBL_["Trypticase peptone (BD-BBL)"]
    CultureMech_003151 --> ing11_Trypticase_peptone__BD_BBL_
    ing12_Resazurin["Resazurin"]
    CultureMech_003151 --> ing12_Resazurin
    CHEBI_8806["CHEBI:8806"]
    ing12_Resazurin -.-> CHEBI_8806
    ing13_Distilled_water["Distilled water"]
    CultureMech_003151 --> ing13_Distilled_water
    CHEBI_15377["CHEBI:15377"]
    ing13_Distilled_water -.-> CHEBI_15377

Ingredients (14)

# Ingredient Concentration Ontology Notes
1 KCl
Cl.K 74.551 g/mol
0.355 G_PER_L CHEBI:32588
potassium chloride
 JCM Medium 265 lists 0.355 g KCl.
2 MgCl2 x 6H2O
2Cl.6H2O.Mg 203.301 g/mol
4.0 G_PER_L CHEBI:86345
magnesium dichloride hexahydrate
 JCM Medium 265 lists 4.0 g MgCl2 x 6H2O.
3 MgSO4 x 7H2O
7H2O.Mg.O4S 246.473 g/mol
3.45 G_PER_L CHEBI:31795
magnesium sulfate heptahydrate
 JCM Medium 265 lists 3.45 g MgSO4 x 7H2O.
4 NH4Cl
Cl.H4N 53.492 g/mol
0.25 G_PER_L CHEBI:31206
ammonium chloride
 JCM Medium 265 lists 0.25 g NH4Cl.
5 CaCl2 x 2H2O
Ca.2Cl.2H2O 147.014 g/mol
0.14 G_PER_L CHEBI:86158
calcium chloride dihydrate
 JCM Medium 265 lists 0.14 g CaCl2 x 2H2O.
6 KH2PO4
H2O4P.K 136.084 g/mol
0.14 G_PER_L CHEBI:63036
potassium dihydrogen phosphate
 JCM Medium 265 lists 0.14 g KH2PO4.
7 NaCl
Cl.Na 58.443 g/mol
6.0 G_PER_L CHEBI:26710
sodium chloride
 JCM Medium 262 uses JCM 265 with 6.0 g/L final NaCl.
8 Fe(NH4)2(SO4)2 x 6H2O
Fe.6H2O.2H4N.2O4S 392.139 g/mol
2.0 MG_PER_L CHEBI:76181
ferrous ammonium sulfate hexahydrate
 JCM Medium 265 lists 2.0 mg Fe(NH4)2(SO4)2 x 6H2O.
9 NaHCO3
CHO3.Na 84.006 g/mol
5.0 G_PER_L CHEBI:32139
sodium hydrogencarbonate
 JCM Medium 265 lists 5.0 g NaHCO3.
10 Glucose
C6H12O6 180.156 g/mol
1.8 G_PER_L CHEBI:17234
glucose
 JCM Medium 806 replaces JCM 265 sodium acetate with 1.8 g/L glucose.
11 Yeast extract (BD-Difco) 2.0 G_PER_L JCM Medium 265 lists 2.0 g yeast extract.
12 Trypticase peptone (BD-BBL) 2.0 G_PER_L JCM Medium 265 lists 2.0 g Trypticase peptone.
13 Resazurin
C12H7NO4 229.191 g/mol
1.0 MG_PER_L CHEBI:8806
Resazurin
 JCM Medium 265 lists 1.0 mg resazurin.
14 Distilled water
H2O 18.015 g/mol
980.0 ML_PER_L CHEBI:15377
water
 JCM Medium 265 lists 980.0 ml distilled water.

Preparation

  1. Mix JCM Medium 265 base components except NaHCO3, with 6.0 g/L final NaCl from JCM Medium 262 and 1.8 g/L glucose replacing sodium acetate for JCM Medium 806.
  2. Adjust to pH 6.5 before adding NaHCO3.
  3. Bring the medium to a boil for 5-10 sec, cool under H2-CO2 (80:20, v/v), and add NaHCO3.
  4. Dispense the medium into Hungate tubes under H2-CO2 (80:20, v/v), seal with butyl rubber stoppers, autoclave, and stand overnight.
  5. Aseptically and anaerobically add 5% L-Cysteine HCl H2O and 5% Na2S x 9H2O solutions stored under N2 at the JCM Medium 265 per-liter ratios.
  6. Cultivate JCM Medium 806 under an N2-CO2 (80:20, v/v) gas mixture.

Solutions

Wolfe's mineral solution

Dose: 10.0 ML_PER_L

Stock composition
IngredientConcentrationNotes
Trace minerals (JCM Medium 151) 1000.0 ML_PER_L JCM Medium 265 Wolfe's mineral solution uses 1.0 L trace minerals.
NiCl2 x 6H2O 0.02 G_PER_L JCM Medium 265 Wolfe's mineral solution lists 0.02 g NiCl2 x 6H2O.
Na2SeO3 0.001 G_PER_L JCM Medium 265 Wolfe's mineral solution lists 0.001 g Na2SeO3.
Na2WO4 x 2H2O 0.01 G_PER_L JCM Medium 265 Wolfe's mineral solution lists 0.01 g Na2WO4 x 2H2O.
JCM Medium 265 adds 10.0 ml/L of its Wolfe's mineral solution.

Trace vitamins (JCM Medium 197)

Dose: 10.0 ML_PER_L

JCM Medium 265 adds 10.0 ml/L Trace vitamins from JCM 197.

5% L-Cysteine HCl H2O solution

Dose: 10.0 ML_PER_L

Stock composition
IngredientConcentrationNotes
L-Cysteine HCl H2O 50.0 G_PER_L Solute of the 5% L-Cysteine HCl H2O stock added by JCM Medium 265.
JCM Medium 265 adds 10.0 ml/L autoclaved 5% L-Cysteine HCl H2O solution.

5% Na2S x 9H2O solution

Dose: 10.0 ML_PER_L

Stock composition
IngredientConcentrationNotes
Na2S x 9H2O 50.0 G_PER_L Solute of the 5% Na2S x 9H2O stock added by JCM Medium 265.
JCM Medium 265 adds 10.0 ml/L autoclaved 5% Na2S x 9H2O solution.

Target organisms

No target organisms are recorded.

Provenance

TimestampCuratorActionNotes
2026-01-26T17:53:17.650773Z mediadive-import Imported from MediaDive Source: JCM, ID: J806
2026-02-03T11:26:56.164146 quality-tagger-v1.0 Added data quality flag Marked as incomplete_composition due to placeholder ingredients
2026-03-13T06:19:18.147675Z culturemech-id-assigner-v1.0 Assigned CultureMech ID Assigned stable identifier: CultureMech:003151
2026-03-17T19:45:31.962788+00:00 normalize_media_names_to_snake_case.py NAME_NORMALIZED Normalized name from "GS MEDIUM" to "gs_medium" for consistent matching
2026-04-04T18:49:19.293538 copy_referenced_compositions RESOLVED_REFERENCE Resolved reference by copying from methanoculleus_medium (CultureMech:002620)
2026-05-16T08:57:04.881392+00:00 migrate_data_quality_flags.py MIGRATED_DATA_QUALITY_FLAGS dict(2 keys) -> list(1 entries)
2026-08-06T07:56:36.079156+00:00 curate_placeholder_composition.py REMOVED_PLACEHOLDER_INGREDIENT Removed the 'See source for composition' placeholder ingredient; the record carries no imported composition and is flagged incomplete (#175).
2026-08-25T00:00:00-07:00 repair_jcm_missing_from_togo.py RECOVERED_JCM_COMPOSITION_FROM_TOGO Recovered JCM J806 from source-equivalent TOGO M841. Preserved final ingredients and stock-solution boundaries; did not flatten referenced media or stocks.
2026-08-26T02:12:25.124196+00:00 apply_mim_groundings.py Adopted MIM published grounding Grounded 10 ingredient(s) from MIM's ingredient_mappings.sssom.tsv (2026-08-18), exactMatch only, where this record carried no CHEBI term (#308).
2026-09-11T00:00:00-07:00 repair_jcm_806_gs_score15.py RESOLVED_JCM_806_GS_SCORE15 JCM Medium 806 wraps JCM Medium 262, which wraps JCM Medium 265. This record uses the JCM 265 base with 6.0 g/L final NaCl from JCM 262, replaces sodium acetate with 1.8 g/L glucose for JCM 806, moves gas-phase H2, CO2, and N2 out of the ingredient list, and restores Wolfe's mineral, JCM 197 Trace vitamins, cysteine, and sulfide as stock solutions.