Overview
- External ontology
- TOGO:M225 — Methanocaldococcus Jannaschii Medium
- Applications
-
- Microbial cultivation
- Notes
- Source: https://togomedium.org/medium/M225 Original source: JCM - JCM_M232 Original URL: https://www.jcm.riken.jp/cgi-bin/jcm/jcm_grmd?GRMD=232 Original post-inoculation instruction: Pressurize the inoculated bottles to 200 kPa H2-CO2 (80:20).
Composition
flowchart LR
CultureMech_008846["methanocaldococcus_jannaschii_medium"]
ing0_Distilled_water["Distilled water"]
CultureMech_008846 --> ing0_Distilled_water
CHEBI_15377["CHEBI:15377"]
ing0_Distilled_water -.-> CHEBI_15377
ing1_MgSO4_7H2O["MgSO4・7H2O"]
CultureMech_008846 --> ing1_MgSO4_7H2O
CHEBI_31795["CHEBI:31795"]
ing1_MgSO4_7H2O -.-> CHEBI_31795
ing2_NaCl["NaCl"]
CultureMech_008846 --> ing2_NaCl
CHEBI_26710["CHEBI:26710"]
ing2_NaCl -.-> CHEBI_26710
ing3_CaCl2_2H2O["CaCl2・2H2O"]
CultureMech_008846 --> ing3_CaCl2_2H2O
CHEBI_86158["CHEBI:86158"]
ing3_CaCl2_2H2O -.-> CHEBI_86158
ing4_NH4Cl["NH4Cl"]
CultureMech_008846 --> ing4_NH4Cl
CHEBI_31206["CHEBI:31206"]
ing4_NH4Cl -.-> CHEBI_31206
ing5_K2HPO4["K2HPO4"]
CultureMech_008846 --> ing5_K2HPO4
CHEBI_131527["CHEBI:131527"]
ing5_K2HPO4 -.-> CHEBI_131527
ing6_Resazurin["Resazurin"]
CultureMech_008846 --> ing6_Resazurin
CHEBI_8806["CHEBI:8806"]
ing6_Resazurin -.-> CHEBI_8806
ing7_MgCl2_6H2O["MgCl2・6H2O"]
CultureMech_008846 --> ing7_MgCl2_6H2O
CHEBI_86345["CHEBI:86345"]
ing7_MgCl2_6H2O -.-> CHEBI_86345
ing8_KCl["KCl"]
CultureMech_008846 --> ing8_KCl
CHEBI_32588["CHEBI:32588"]
ing8_KCl -.-> CHEBI_32588
ing9_NaHCO3["NaHCO3"]
CultureMech_008846 --> ing9_NaHCO3
CHEBI_32139["CHEBI:32139"]
ing9_NaHCO3 -.-> CHEBI_32139
ing10_NiCl2_6H2O["NiCl2・6H2O"]
CultureMech_008846 --> ing10_NiCl2_6H2O
CHEBI_34887["CHEBI:34887"]
ing10_NiCl2_6H2O -.-> CHEBI_34887
ing11_Na2SeO3_5H2O["Na2SeO3・5H2O"]
CultureMech_008846 --> ing11_Na2SeO3_5H2O
CHEBI_131361["CHEBI:131361"]
ing11_Na2SeO3_5H2O -.-> CHEBI_131361
ing12_Fe_NH4_2_SO4_2_6H2O["Fe(NH4)2(SO4)2・6H2O"]
CultureMech_008846 --> ing12_Fe_NH4_2_SO4_2_6H2O
CHEBI_76181["CHEBI:76181"]
ing12_Fe_NH4_2_SO4_2_6H2O -.-> CHEBI_76181
ing13_Carbon_dioxide_gas["Carbon dioxide gas"]
CultureMech_008846 --> ing13_Carbon_dioxide_gas
CHEBI_16526["CHEBI:16526"]
ing13_Carbon_dioxide_gas -.-> CHEBI_16526
ing14_N2["N2"]
CultureMech_008846 --> ing14_N2
CHEBI_17997["CHEBI:17997"]
ing14_N2 -.-> CHEBI_17997
ing15_Hydrogen_gas["Hydrogen gas"]
CultureMech_008846 --> ing15_Hydrogen_gas
CHEBI_18276["CHEBI:18276"]
ing15_Hydrogen_gas -.-> CHEBI_18276
Ingredients (16)
| # | Ingredient | Concentration | Ontology | Notes |
|---|---|---|---|---|
| 1 |
Distilled water
H2O 18.015 g/mol
|
0.98 L |
CHEBI:15377
water
|
Role: Solvating media; Properties: Inorganic compound, Defined component, Simple component Source water batch input: 980 ml = 0.98 L. This is not a measured final volume. |
| 2 |
MgSO4・7H2O
7H2O.Mg.O4S 246.473 g/mol
|
CHEBI:31795
magnesium sulfate heptahydrate
|
Role: Mineral source; Properties: Inorganic compound, Defined component, Simple component Source batch input: 3.4 g. Final preparation volume is not independently established; the unsupported g/L assertion is withdrawn, not replaced by an assumed one-liter concentration. | |
| 3 |
NaCl
Cl.Na 58.443 g/mol
|
CHEBI:26710
sodium chloride
|
Role: Mineral source; Properties: Inorganic compound, Defined component, Simple component Source batch input: 30 g. Final preparation volume is not independently established; the unsupported g/L assertion is withdrawn, not replaced by an assumed one-liter concentration. | |
| 4 |
CaCl2・2H2O
Ca.2Cl.2H2O 147.014 g/mol
|
CHEBI:86158
calcium chloride dihydrate
|
Role: Mineral source; Properties: Inorganic compound, Defined component, Simple component Source batch input: 0.14 g. Final preparation volume is not independently established; the unsupported g/L assertion is withdrawn, not replaced by an assumed one-liter concentration. | |
| 5 |
NH4Cl
Cl.H4N 53.492 g/mol
|
CHEBI:31206
ammonium chloride
|
Role: Nitrogen source; Properties: Inorganic compound, Defined component, Simple component Source batch input: 0.25 g. Final preparation volume is not independently established; the unsupported g/L assertion is withdrawn, not replaced by an assumed one-liter concentration. | |
| 6 |
K2HPO4
HO4P.2K 174.174 g/mol
|
CHEBI:131527
dipotassium hydrogen phosphate
|
Role: Buffer; Properties: Inorganic compound, Defined component, Simple component Source batch input: 0.14 g. Final preparation volume is not independently established; the unsupported g/L assertion is withdrawn, not replaced by an assumed one-liter concentration. | |
| 7 |
Resazurin
C12H7NO4 229.191 g/mol
|
CHEBI:8806
Resazurin
|
Role: pH dependent redox indicator; Properties: Organic compound, Defined component, Simple component Source batch input: 1 mg. Final preparation volume is not independently established; the unsupported g/L assertion is withdrawn, not replaced by an assumed one-liter concentration. | |
| 8 |
MgCl2・6H2O
2Cl.6H2O.Mg 203.301 g/mol
|
CHEBI:86345
magnesium dichloride hexahydrate
|
Role: Mineral source; Properties: Inorganic compound, Defined component, Simple component Source batch input: 2.7 g. Final preparation volume is not independently established; the unsupported g/L assertion is withdrawn, not replaced by an assumed one-liter concentration. | |
| 9 |
KCl
Cl.K 74.551 g/mol
|
CHEBI:32588
potassium chloride
|
Role: Mineral source; Properties: Inorganic compound, Defined component, Simple component Source batch input: 0.33 g. Final preparation volume is not independently established; the unsupported g/L assertion is withdrawn, not replaced by an assumed one-liter concentration. | |
| 10 |
NaHCO3
CHO3.Na 84.006 g/mol
|
CHEBI:32139
sodium hydrogencarbonate
|
Role: Buffer; Properties: Inorganic compound, Defined component, Simple component Source batch input: 1 g. Final preparation volume is not independently established; the unsupported g/L assertion is withdrawn, not replaced by an assumed one-liter concentration. | |
| 11 |
NiCl2・6H2O
Cl2Ni 129.599 g/mol
|
CHEBI:34887
nickel dichloride
|
Role: Mineral source; Properties: Inorganic compound, Defined component, Simple component Source batch input: 0.75 mg. Final preparation volume is not independently established; the unsupported g/L assertion is withdrawn, not replaced by an assumed one-liter concentration. | |
| 12 |
Na2SeO3・5H2O
5H2O.2Na.O3Se 263.012 g/mol
|
CHEBI:131361
disodium selenite pentahydrate
|
Role: Mineral source; Properties: Inorganic compound, Defined component, Simple component Source batch input: 0.5 mg. Final preparation volume is not independently established; the unsupported g/L assertion is withdrawn, not replaced by an assumed one-liter concentration. | |
| 13 |
Fe(NH4)2(SO4)2・6H2O
Fe.6H2O.2H4N.2O4S 392.139 g/mol
|
CHEBI:76181
ferrous ammonium sulfate hexahydrate
|
Role: Mineral source; Properties: Inorganic compound, Defined component, Simple component Source batch input: 0.01 g. Final preparation volume is not independently established; the unsupported g/L assertion is withdrawn, not replaced by an assumed one-liter concentration. | |
| 14 |
Carbon dioxide gas
CO2 44.009 g/mol
|
CHEBI:16526
carbon dioxide
|
Properties: ガス Source atmosphere context, not a fixed gas input or dissolved concentration. Removed the unsupported VARIABLE placeholder. | |
| 15 |
N2
N2 28.014 g/mol
|
CHEBI:17997
dinitrogen
|
Properties: ガス Source atmosphere context, not a fixed gas input or dissolved concentration. Removed the unsupported VARIABLE placeholder. | |
| 16 |
Hydrogen gas
H2 2.016 g/mol
|
CHEBI:18276
dihydrogen
|
Properties: ガス Source atmosphere context, not a fixed gas input or dissolved concentration. Removed the unsupported VARIABLE placeholder. |
Preparation
- Mix ingredients, except NaHCO3, cysteine·HCl and Na2S·9H2O, and adjust pH to 6.0.
- Bring to a boil for 5-10 sec, then, cool down under a stream of H2-CO2 (80:20) and add NaHCO3 to the medium.
- Dispense the medium into suitable culture vessels (e.g., 20 ml of the medium in 120 ml serum bottles) under a stream of H2-CO2 (80:20) and seal with butyl rubber stoppers.
- After autoclaving, stand the medium overnight.
- Separately autoclave cysteine·HCl and Na2S·9H2O as 5% solutions, respectively, under a N2 atmosphere.
- Prior to inoculation, aseptically and anaerobically add the cysteine·HCl and Na2S·9H2O solutions.
Solutions
Trace minerals (see Medium [M142])
Dose: 0.01 L
| Ingredient | Concentration | Notes |
|---|---|---|
| Distilled water | 1 L | Source water batch input: 1 L = 1 L. This is not a measured final volume. |
| MgSO4・7H2O | Source batch input: 3 g. Final preparation volume is not independently established; the source batch amount is retained without asserting a final concentration. | |
| NaCl | Source batch input: 1 g. Final preparation volume is not independently established; the source batch amount is retained without asserting a final concentration. | |
| CaCl2・2H2O | Source batch input: 0.1 g. Final preparation volume is not independently established; the source batch amount is retained without asserting a final concentration. | |
| Na2MoO4・2H2O | Source batch input: 0.01 g. Final preparation volume is not independently established; the source batch amount is retained without asserting a final concentration. | |
| H3BO3 | Source batch input: 0.01 g. Final preparation volume is not independently established; the source batch amount is retained without asserting a final concentration. | |
| FeSO4・7H2O | Source batch input: 0.1 g. Final preparation volume is not independently established; the source batch amount is retained without asserting a final concentration. | |
| ZnSO4・7H2O | Source batch input: 0.1 g. Final preparation volume is not independently established; the source batch amount is retained without asserting a final concentration. | |
| CuSO4・5H2O | Source batch input: 0.01 g. Final preparation volume is not independently established; the source batch amount is retained without asserting a final concentration. | |
| CoSO4・7H2O | Source batch input: 0.1 g. Final preparation volume is not independently established; the source batch amount is retained without asserting a final concentration. | |
| Nitrilotriacetic acid | Source batch input: 1.5 g. Final preparation volume is not independently established; the source batch amount is retained without asserting a final concentration. | |
| MnSO4・xH2O | Source batch input: 0.5 g. Final preparation volume is not independently established; the source batch amount is retained without asserting a final concentration. | |
| AlK(SO4)2 | Source batch input: 0.01 g. Final preparation volume is not independently established; the source batch amount is retained without asserting a final concentration. |
Cross-reference to Medium M142
Source stock addition: 10 ml = 0.01 L per receiving batch, not grams per liter or a dose per final liter.
Expand only this named stock table, not the complete referenced medium or its other stocks/preparation. Stock water is an input, not an established final stock volume; a 2 x label does not supply a volume denominator.
KOH solution
Stock pH-adjustment reagent with no fixed dose or numeric strength.
Trace vitamins (see Medium [M190])
Dose: 0.01 L
| Ingredient | Concentration | Notes |
|---|---|---|
| Distilled water | 1 L | Source water batch input: 1 L = 1 L. This is not a measured final volume. |
| Biotin | Source batch input: 2 mg. Final preparation volume is not independently established; the source batch amount is retained without asserting a final concentration. | |
| p--Aminobenzoic acid | Source batch input: 5 mg. Final preparation volume is not independently established; the source batch amount is retained without asserting a final concentration. | |
| Thiamine・HCl | Source batch input: 5 mg. Final preparation volume is not independently established; the source batch amount is retained without asserting a final concentration. | |
| Calcium pantothenate | Source batch input: 5 mg. Final preparation volume is not independently established; the source batch amount is retained without asserting a final concentration. | |
| Pyridoxine・HCl | Source batch input: 10 mg. Final preparation volume is not independently established; the source batch amount is retained without asserting a final concentration. | |
| Folic acid | Source batch input: 2 mg. Final preparation volume is not independently established; the source batch amount is retained without asserting a final concentration. | |
| Vitamin B12 | Source batch input: 0.1 mg. Final preparation volume is not independently established; the source batch amount is retained without asserting a final concentration. | |
| Riboflavin | Source batch input: 5 mg. Final preparation volume is not independently established; the source batch amount is retained without asserting a final concentration. | |
| Nicotinic acid | Source batch input: 5 mg. Final preparation volume is not independently established; the source batch amount is retained without asserting a final concentration. | |
| Lipoic acid | Source batch input: 5 mg. Final preparation volume is not independently established; the source batch amount is retained without asserting a final concentration. |
Cross-reference to Medium M190
Source stock addition: 10 ml = 0.01 L per receiving batch, not grams per liter or a dose per final liter.
Expand only this named stock table, not the complete referenced medium or its other stocks/preparation. Stock water is an input, not an established final stock volume; a 2 x label does not supply a volume denominator.
Na2S・9H2O separately prepared solution
| Ingredient | Concentration | Notes |
|---|---|---|
| Na2S・9H2O | Role: Reducing agent; Properties: Inorganic compound, Defined component, Simple component Source batch input: 0.5 g. Final preparation volume is not independently established; the unsupported g/L assertion is withdrawn, not replaced by an assumed one-liter concentration. This is the contribution specified for the receiving medium batch, not the mass for preparing an unspecified volume of stock. |
Separate reducing-agent preparation; composition notes retain the 0.5 g receiving-batch contribution, not a stock-batch recipe. Stock solvent volume and addition volume are unspecified. The source 5% label has unspecified percentage basis; no numeric stock strength or derived dose is asserted.
L--Cysteine・HCl・H2O separately prepared solution
| Ingredient | Concentration | Notes |
|---|---|---|
| L--Cysteine・HCl・H2O | Properties: Defined component, Organic compound, Simple component Source batch input: 0.5 g. Final preparation volume is not independently established; the unsupported g/L assertion is withdrawn, not replaced by an assumed one-liter concentration. This is the contribution specified for the receiving medium batch, not the mass for preparing an unspecified volume of stock. |
Separate reducing-agent preparation; composition notes retain the 0.5 g receiving-batch contribution, not a stock-batch recipe. Stock solvent volume and addition volume are unspecified. The source 5% label has unspecified percentage basis; no numeric stock strength or derived dose is asserted.
Target organisms
No target organisms are recorded.
Provenance
| Timestamp | Curator | Action | Notes |
|---|---|---|---|
| 2026-01-27T06:35:54.656035Z | togo-import | Imported from TOGO Medium | Source: JCM, ID: M225 |
| 2026-01-28T19:48:19.610506Z | 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: N2; Added default concentration for ingredient: Hydrogen gas |
| 2026-03-09T08:04:32.459025+00:00 | solution-migrator-v1.0 | Migrated solutions from ingredients to solutions array | Moved 2 solution(s) from ingredients |
| 2026-03-13T06:20:00.721111Z | culturemech-id-assigner-v1.0 | Assigned CultureMech ID | Assigned stable identifier: CultureMech:008846 |
| 2026-03-14T00:00:00+00:00 | schema-defaulter-v1.0 | Applied schema defaults and normalizations | Added default solution name; Added default solution name |
| 2026-03-17T06:30:07.000000Z | mediaingredientmech-enrichment-v1.0 | Added MediaIngredientMech links | Linked ingredients to MediaIngredientMech identifiers |
| 2026-03-17T19:46:19.400580+00:00 | normalize_media_names_to_snake_case.py | NAME_NORMALIZED | Normalized name from "Methanocaldococcus Jannaschii Medium" to "methanocaldococcus_jannaschii_medium" for consistent matching |
| 2026-05-16T09:03:12.706558+00:00 | migrate_legacy_fields.py | MIGRATED_LEGACY_FIELDS | curation_history.date->timestamp=2 |
| 2026-06-05T07:40:35.880843+00:00 | mim-legacy-to-chebi-migration-v1.0 | Refreshed legacy MediaIngredientMech links to CHEBI keying | Replaced 7 legacy mediaingredientmech_term link(s) with mediaingredientmech_chebi_term (id-safe: ingredient's own CHEBI + label). MIM deprecated the MediaIngredientMech:NNNNNN id scheme. |
| 2026-06-10T06:57:25.810517+00:00 | mgso4-heptahydrate-term-fix-v1.0 | Corrected MgSO4·7H2O primary term grounding to heptahydrate | Re-grounded 1 heptahydrate-labelled ingredient(s) from CHEBI:32599 (generic magnesium sulfate) to CHEBI:31795 (magnesium sulfate heptahydrate). Generic/hexahydrate labels untouched. |
| 2026-06-10T07:46:48.730088+00:00 | primary-term-label-canonicalization-v1.0 | Canonicalized primary term label to OBO canonical (OAK) | 2 primary term(s); ingredient name resolved by OAK sqlite:obo:chebi. |
| 2026-10-08T19:42:13.273749+00:00 | codex | RESTORED_REDUCING_AGENT_AND_STOCK_PREPARATION_SCOPES_WITH_EVIDENCE | Separated collapsed preparation inputs, restored named stock compositions and batch-volume doses, and removed unsupported final-rate and VARIABLE assertions. Preserved exact batch masses, separately prepared reducing agents, annotations and history with evidence. No final volume, percent basis or molar conversion inferred. |