methanobacterium_medium_ii_with_formae (CultureMech:003049)

Overview

External ontology

mediadive.medium:J703 (source link unavailable) — METHANOBACTERIUM MEDIUM (II) WITH FORMAE

Applications

Microbial cultivation

pH

7.0

Notes

JCM Medium 703 was recovered from source-equivalent TOGO M725; the recipe uses JCM Medium 702 supplemented with 0.3% final sodium formate and 10 ml/L Trace minerals from M142, 10 ml/L Trace vitamins from M190, 25 ml/L 8% NaHCO3, and 10 ml/L 3% Na2S x 9H2O.

Composition

flowchart LR
    CultureMech_003049["methanobacterium_medium_ii_with_formae"]
    ing0_Distilled_water["Distilled water"]
    CultureMech_003049 --> ing0_Distilled_water
    CHEBI_15377["CHEBI:15377"]
    ing0_Distilled_water -.-> CHEBI_15377
    ing1_Yeast_extract["Yeast extract"]
    CultureMech_003049 --> ing1_Yeast_extract
    ing2_NaCl["NaCl"]
    CultureMech_003049 --> ing2_NaCl
    CHEBI_26710["CHEBI:26710"]
    ing2_NaCl -.-> CHEBI_26710
    ing3_CaCl2_x_2H2O["CaCl2 x 2H2O"]
    CultureMech_003049 --> ing3_CaCl2_x_2H2O
    CHEBI_86158["CHEBI:86158"]
    ing3_CaCl2_x_2H2O -.-> CHEBI_86158
    ing4_KH2PO4["KH2PO4"]
    CultureMech_003049 --> ing4_KH2PO4
    CHEBI_63036["CHEBI:63036"]
    ing4_KH2PO4 -.-> CHEBI_63036
    ing5_NH4Cl["NH4Cl"]
    CultureMech_003049 --> ing5_NH4Cl
    CHEBI_31206["CHEBI:31206"]
    ing5_NH4Cl -.-> CHEBI_31206
    ing6_K2HPO4["K2HPO4"]
    CultureMech_003049 --> ing6_K2HPO4
    CHEBI_131527["CHEBI:131527"]
    ing6_K2HPO4 -.-> CHEBI_131527
    ing7_Resazurin["Resazurin"]
    CultureMech_003049 --> ing7_Resazurin
    CHEBI_8806["CHEBI:8806"]
    ing7_Resazurin -.-> CHEBI_8806
    ing8_MgCl2_x_6H2O["MgCl2 x 6H2O"]
    CultureMech_003049 --> ing8_MgCl2_x_6H2O
    CHEBI_86345["CHEBI:86345"]
    ing8_MgCl2_x_6H2O -.-> CHEBI_86345
    ing9_KCl["KCl"]
    CultureMech_003049 --> ing9_KCl
    CHEBI_32588["CHEBI:32588"]
    ing9_KCl -.-> CHEBI_32588
    ing10_Sodium_acetate["Sodium acetate"]
    CultureMech_003049 --> ing10_Sodium_acetate
    CHEBI_32954["CHEBI:32954"]
    ing10_Sodium_acetate -.-> CHEBI_32954
    ing11_L_Cysteine_x_HCl_x_H2O["L-Cysteine x HCl x H2O"]
    CultureMech_003049 --> ing11_L_Cysteine_x_HCl_x_H2O
    CHEBI_91248["CHEBI:91248"]
    ing11_L_Cysteine_x_HCl_x_H2O -.-> CHEBI_91248
    ing12_Sodium_formate["Sodium formate"]
    CultureMech_003049 --> ing12_Sodium_formate
    CHEBI_62965["CHEBI:62965"]
    ing12_Sodium_formate -.-> CHEBI_62965
    ing13_CO2["CO2"]
    CultureMech_003049 --> ing13_CO2
    CHEBI_16526["CHEBI:16526"]
    ing13_CO2 -.-> CHEBI_16526
    ing14_N2["N2"]
    CultureMech_003049 --> ing14_N2
    CHEBI_17997["CHEBI:17997"]
    ing14_N2 -.-> CHEBI_17997

Ingredients (15)

#	Ingredient	Concentration	Ontology	Notes
1	Distilled water H2O 18.015 g/mol	1 L	CHEBI:15377 water	JCM Medium 703 / TOGO M725 lists 1 L Distilled water.
2	Yeast extract	0.5 G_PER_L	FOODON:03315426 yeast extract	JCM Medium 703 / TOGO M725 lists 0.5 g/L Yeast extract.
3	NaCl Cl.Na 58.443 g/mol	0.6 G_PER_L	CHEBI:26710 sodium chloride	JCM Medium 703 / TOGO M725 lists 0.6 g/L NaCl.
4	CaCl2 x 2H2O Ca.2Cl.2H2O 147.014 g/mol	0.1 G_PER_L	CHEBI:86158 calcium chloride dihydrate	JCM Medium 703 / TOGO M725 lists 0.1 g/L CaCl2 x 2H2O.
5	KH2PO4 H2O4P.K 136.084 g/mol	0.3 G_PER_L	CHEBI:63036 potassium dihydrogen phosphate	JCM Medium 703 / TOGO M725 lists 0.3 g/L KH2PO4.
6	NH4Cl Cl.H4N 53.492 g/mol	1 G_PER_L	CHEBI:31206 ammonium chloride	JCM Medium 703 / TOGO M725 lists 1 g/L NH4Cl.
7	K2HPO4 HO4P.2K 174.174 g/mol	0.3 G_PER_L	CHEBI:131527 dipotassium hydrogen phosphate	JCM Medium 703 / TOGO M725 lists 0.3 g/L K2HPO4.
8	Resazurin C12H7NO4 229.191 g/mol	0.5 MG_PER_L	CHEBI:8806 Resazurin	JCM Medium 703 / TOGO M725 lists 0.5 mg/L Resazurin.
9	MgCl2 x 6H2O 2Cl.6H2O.Mg 203.301 g/mol	0.2 G_PER_L	CHEBI:86345 magnesium dichloride hexahydrate	JCM Medium 703 / TOGO M725 lists 0.2 g/L MgCl2 x 6H2O.
10	KCl Cl.K 74.551 g/mol	0.1 G_PER_L	CHEBI:32588 potassium chloride	JCM Medium 703 / TOGO M725 lists 0.1 g/L KCl.
11	Sodium acetate C2H3O2.Na 82.034 g/mol	0.5 G_PER_L	CHEBI:32954 sodium acetate	JCM Medium 703 / TOGO M725 lists 0.5 g/L Sodium acetate.
12	L-Cysteine x HCl x H2O C3H7NO2S.H2O.HCl 175.637 g/mol	0.5 G_PER_L	CHEBI:91248 L-cysteine hydrochloride hydrate	JCM Medium 703 / TOGO M725 lists 0.5 g/L L-Cysteine x HCl x H2O.
13	Sodium formate CHO2.Na 68.007 g/mol	0.3 PERCENT_W_V	CHEBI:62965 sodium formate	JCM Medium 703 supplements JCM Medium 702 with 0.3% final sodium formate.
14	CO2 CO2 44.009 g/mol	variable VARIABLE	CHEBI:16526 carbon dioxide	JCM Medium 703 uses an N2-CO2 gas phase at 80:20 by volume.
15	N2 N2 28.014 g/mol	variable VARIABLE	CHEBI:17997 dinitrogen	JCM Medium 703 uses an N2-CO2 gas phase at 80:20 by volume.

Preparation

Mix the base components except NaHCO3, Na2S x 9H2O, and trace vitamins.
Bring the medium to a boil for several seconds and cool under N2-CO2 (80:20, v/v).
Distribute under N2-CO2, seal with butyl rubber stoppers, and autoclave.
Add the sterile NaHCO3, Na2S x 9H2O, and trace vitamin solutions per liter.
Check pH of the medium to be about 7.0.
Pressurize inoculated bottles to 200 kPa with N2-CO2 (80:20, v/v).

Solutions

Trace minerals (TOGO Medium M142)

Dose: 10 ML_PER_L

Stock composition
Ingredient	Concentration	Notes
MgSO4 x 7H2O	3 G_PER_L	TOGO M142 trace minerals prints this component in its stock solution.
NaCl	1 G_PER_L	TOGO M142 trace minerals prints this component in its stock solution.
CaCl2 x 2H2O	0.1 G_PER_L	TOGO M142 trace minerals prints this component in its stock solution.
Na2MoO4 x 2H2O	0.01 G_PER_L	TOGO M142 trace minerals prints this component in its stock solution.
H3BO3	0.01 G_PER_L	TOGO M142 trace minerals prints this component in its stock solution.
FeSO4 x 7H2O	0.1 G_PER_L	TOGO M142 trace minerals prints this component in its stock solution.
ZnSO4 x 7H2O	0.1 G_PER_L	TOGO M142 trace minerals prints this component in its stock solution.
CuSO4 x 5H2O	0.01 G_PER_L	TOGO M142 trace minerals prints this component in its stock solution.
CoSO4 x 7H2O	0.1 G_PER_L	TOGO M142 trace minerals prints this component in its stock solution.
Nitrilotriacetic acid	1.5 G_PER_L	TOGO M142 trace minerals prints this component in its stock solution.
MnSO4 x n H2O	0.5 G_PER_L	TOGO M142 trace minerals prints this component in its stock solution.
AlK(SO4)2	0.01 G_PER_L	TOGO M142 trace minerals prints this component in its stock solution.
KOH solution	variable VARIABLE	TOGO M142 trace minerals prints this component in its stock solution.

JCM Medium 703 / TOGO M725 adds 10 ml/L Trace minerals from TOGO M142.

Trace vitamins (TOGO Medium M190)

Dose: 10 ML_PER_L

Stock composition
Ingredient	Concentration	Notes
Biotin	0.002 G_PER_L	TOGO M190 trace vitamins prints this component in its stock solution.
p-Aminobenzoic acid	0.005 G_PER_L	TOGO M190 trace vitamins prints this component in its stock solution.
Thiamine-HCl	0.005 G_PER_L	TOGO M190 trace vitamins prints this component in its stock solution.
Calcium pantothenate	0.005 G_PER_L	TOGO M190 trace vitamins prints this component in its stock solution.
Pyridoxine-HCl	0.01 G_PER_L	TOGO M190 trace vitamins prints this component in its stock solution.
Folic acid	0.002 G_PER_L	TOGO M190 trace vitamins prints this component in its stock solution.
Vitamin B12	0.0001 G_PER_L	TOGO M190 trace vitamins prints this component in its stock solution.
Riboflavin	0.005 G_PER_L	TOGO M190 trace vitamins prints this component in its stock solution.
Nicotinic acid	0.005 G_PER_L	TOGO M190 trace vitamins prints this component in its stock solution.
Lipoic acid	0.005 G_PER_L	TOGO M190 trace vitamins prints this component in its stock solution.

JCM Medium 703 / TOGO M725 adds 10 ml/L Trace vitamins from TOGO M190.

8% NaHCO3 solution

Dose: 25 ML_PER_L

Stock composition
Ingredient	Concentration	Notes
NaHCO3	80 G_PER_L	JCM Medium 703 / TOGO M725 prints this component in its stock solution.

JCM Medium 703 / TOGO M725 adds 25 ml/L 8% NaHCO3 solution.

3% Na2S x 9H2O solution

Dose: 10 ML_PER_L

Stock composition
Ingredient	Concentration	Notes
Na2S x 9H2O	30 G_PER_L	JCM Medium 703 / TOGO M725 prints this component in its stock solution.

JCM Medium 703 / TOGO M725 adds 10 ml/L 3% Na2S x 9H2O solution.

Target organisms

No target organisms are recorded.

Provenance

Timestamp	Curator	Action	Notes
2026-01-26T17:53:17.345769Z	mediadive-import	Imported from MediaDive	Source: JCM, ID: J703
2026-02-03T11:26:55.791067	quality-tagger-v1.0	Added data quality flag	Marked as incomplete_composition due to placeholder ingredients
2026-03-13T06:19:17.421535Z	culturemech-id-assigner-v1.0	Assigned CultureMech ID	Assigned stable identifier: CultureMech:003049
2026-03-17T19:45:31.113331+00:00	normalize_media_names_to_snake_case.py	NAME_NORMALIZED	Normalized name from "METHANOBACTERIUM MEDIUM (II) WITH FORMAE" to "methanobacterium_medium_ii_with_formae" for consistent matching
2026-04-05T17:20:25.524547	mark_unavailable_media	MARKED_UNAVAILABLE	Source database has no composition data. Category: EMPTY. JCM page returns "Nothing found"
2026-05-16T08:58:05.965418+00:00	migrate_data_quality_flags.py	MIGRATED_DATA_QUALITY_FLAGS	dict(2 keys) -> list(2 entries)
2026-08-06T07:56:36.071855+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 J703 from source-equivalent TOGO M725. Preserved final ingredients and stock-solution boundaries; did not flatten referenced media or stocks.
2026-08-26T02:12:20.436263+00:00	apply_mim_groundings.py	Adopted MIM published grounding	Grounded 9 ingredient(s) from MIM's ingredient_mappings.sssom.tsv (2026-08-18), exactMatch only, where this record carried no CHEBI term (#308).
2026-09-10T00:00:00-07:00	repair_halomarina_jcm703_score15.py	RESOLVED_HALOMARINA_JCM703_SCORE15	JCM Medium 703 was recovered from source-equivalent TOGO M725; the recipe uses JCM Medium 702 supplemented with 0.3% final sodium formate and 10 ml/L Trace minerals from M142, 10 ml/L Trace vitamins from M190, 25 ml/L 8% NaHCO3, and 10 ml/L 3% Na2S x 9H2O.