Overview
- External ontology
- TOGO:M1136 — Freshwater Iron-Oxidizing Bacteria Medium-II
- Applications
-
- Microbial cultivation
- Notes
- TOGO M1136 records JCM Medium 1067 as a two-layer freshwater iron-oxidizing bacteria medium. JCM 1067 prepares a bottom layer from FeS solution, Modified Wolfe's solution from JCM Medium 628, and Agar, Noble; prepares a top layer from Modified Wolfe's solution and Trace minerals from JCM Medium 151; autoclaves both layers; then adds filter-sterilized Trace vitamins from JCM Medium 197 and 8% NaHCO3 solution to the cooled top layer before replacing the vessel gas phase with N2-CO2 (4:1, v/v).
Composition
flowchart LR
CultureMech_007658["freshwater_iron_oxidizing_bacteria_medium_ii"]
ing0_Agar__Noble__BD_Difco_["Agar, Noble (BD-Difco)"]
CultureMech_007658 --> ing0_Agar__Noble__BD_Difco_
CHEBI_2509["CHEBI:2509"]
ing0_Agar__Noble__BD_Difco_ -.-> CHEBI_2509
ing1_Carbon_dioxide_gas["Carbon dioxide gas"]
CultureMech_007658 --> ing1_Carbon_dioxide_gas
CHEBI_16526["CHEBI:16526"]
ing1_Carbon_dioxide_gas -.-> CHEBI_16526
ing2_Nitrogen_gas["Nitrogen gas"]
CultureMech_007658 --> ing2_Nitrogen_gas
CHEBI_17997["CHEBI:17997"]
ing2_Nitrogen_gas -.-> CHEBI_17997
Ingredients (3)
| # | Ingredient | Concentration | Ontology | Notes |
|---|---|---|---|---|
| 1 | Agar, Noble (BD-Difco) | 15.0 G_PER_L |
CHEBI:2509
agar
|
JCM Medium 1067 lists 1.5 g Agar, Noble in the 100 ml bottom layer; normalized here to 15.0 g/L for that layer. |
| 2 |
Carbon dioxide gas
CO2 44.009 g/mol
|
variable VARIABLE |
CHEBI:16526
carbon dioxide
|
JCM Medium 1067 replaces the gas phase with N2-CO2 (4:1, v/v). |
| 3 |
Nitrogen gas
N2 28.014 g/mol
|
variable VARIABLE |
CHEBI:17997
dinitrogen
|
JCM Medium 1067 replaces the gas phase with N2-CO2 (4:1, v/v). |
Preparation
- Prepare the bottom layer from FeS solution, Modified Wolfe's solution, and Agar, Noble.
- Prepare the top layer from Modified Wolfe's solution and Trace minerals.
- Autoclave both layer solutions at 121 degrees C for 15 min.
- Shortly after autoclaving, pipette the bottom layer into each culture vessel, typically 5 ml in a 60 ml glass vial with a cut pipette tip.
- Cool the bottom layer for at least 30 min to solidify.
- After cooling the top layer, add filter-sterilized Trace vitamins and 8% NaHCO3 solution per liter.
- Add the top layer solution at five to six times the bottom-layer volume to culture vessels containing solidified bottom layer.
- Cap culture vessels with silicone rubber stoppers and replace the gas phase with an N2-CO2 (4:1, v/v) gas mixture.
- For storage, cap vessels with butyl rubber stoppers instead of silicone rubber stoppers and keep the vessels anoxic.
Solutions
FeS solution
Dose: 500.0 ML_PER_L
| Ingredient | Concentration | Notes |
|---|---|---|
| FeSO4 x 7H2O | 154.0 G_PER_L | JCM Medium 628 lists 46.2 g FeSO4 x 7H2O in 300 ml distilled water; normalized here to 154.0 g/L. |
| Na2S x 9H2O | 132.0 G_PER_L | JCM Medium 628 lists 39.6 g Na2S x 9H2O in 300 ml distilled water; normalized here to 132.0 g/L. |
| Distilled water | 1.0 L | JCM Medium 628 prepares FeS stock from 300 ml distilled water. |
JCM Medium 1067 lists 50.0 ml FeS solution in the 100 ml bottom layer; normalized here to 500.0 ml/L for that layer.
Modified Wolfe's solution
Dose: 500.0 ML_PER_L
| Ingredient | Concentration | Notes |
|---|---|---|
| NH4Cl | 1.0 G_PER_L | TOGO M641 / JCM Medium 628 lists 1.0 g/L NH4Cl. |
| MgSO4 x 7H2O | 0.2 G_PER_L | TOGO M641 / JCM Medium 628 lists 0.2 g/L MgSO4 x 7H2O. |
| CaCl2 x 2H2O | 0.1 G_PER_L | TOGO M641 / JCM Medium 628 lists 0.1 g/L CaCl2 x 2H2O. |
| KH2PO4 | 0.05 G_PER_L | TOGO M641 / JCM Medium 628 lists 0.05 g/L KH2PO4. |
| Distilled water | 1.0 L | TOGO M641 / JCM Medium 628 lists 1.0 L Distilled water. |
JCM Medium 1067 lists 50.0 ml Modified Wolfe's solution in the 100 ml bottom layer; normalized here to 500.0 ml/L for that layer.
Modified Wolfe's solution
Dose: 1000.0 ML_PER_L
| Ingredient | Concentration | Notes |
|---|---|---|
| NH4Cl | 1.0 G_PER_L | TOGO M641 / JCM Medium 628 lists 1.0 g/L NH4Cl. |
| MgSO4 x 7H2O | 0.2 G_PER_L | TOGO M641 / JCM Medium 628 lists 0.2 g/L MgSO4 x 7H2O. |
| CaCl2 x 2H2O | 0.1 G_PER_L | TOGO M641 / JCM Medium 628 lists 0.1 g/L CaCl2 x 2H2O. |
| KH2PO4 | 0.05 G_PER_L | TOGO M641 / JCM Medium 628 lists 0.05 g/L KH2PO4. |
| Distilled water | 1.0 L | TOGO M641 / JCM Medium 628 lists 1.0 L Distilled water. |
JCM Medium 1067 lists 1.0 L Modified Wolfe's solution in the top layer.
Trace minerals
Dose: 10.0 ML_PER_L
| Ingredient | Concentration | Notes |
|---|---|---|
| Nitrilotriacetic acid | 1.5 G_PER_L | TOGO M142 / JCM Medium 151 lists 1.5 g/L Nitrilotriacetic acid. |
| MgSO4 x 7H2O | 3.0 G_PER_L | TOGO M142 / JCM Medium 151 lists 3.0 g/L MgSO4 x 7H2O. |
| MnSO4 x xH2O | 0.5 G_PER_L | TOGO M142 / JCM Medium 151 lists 0.5 g/L MnSO4 x xH2O. |
| NaCl | 1.0 G_PER_L | TOGO M142 / JCM Medium 151 lists 1.0 g/L NaCl. |
| FeSO4 x 7H2O | 0.1 G_PER_L | TOGO M142 / JCM Medium 151 lists 0.1 g/L FeSO4 x 7H2O. |
| CoSO4 x 7H2O | 0.1 G_PER_L | TOGO M142 / JCM Medium 151 lists 0.1 g/L CoSO4 x 7H2O. |
| CaCl2 x 2H2O | 0.1 G_PER_L | TOGO M142 / JCM Medium 151 lists 0.1 g/L CaCl2 x 2H2O. |
| ZnSO4 x 7H2O | 0.1 G_PER_L | TOGO M142 / JCM Medium 151 lists 0.1 g/L ZnSO4 x 7H2O. |
| CuSO4 x 5H2O | 0.01 G_PER_L | TOGO M142 / JCM Medium 151 lists 0.01 g/L CuSO4 x 5H2O. |
| AlK(SO4)2 | 0.01 G_PER_L | TOGO M142 / JCM Medium 151 lists 0.01 g/L AlK(SO4)2. |
| H3BO3 | 0.01 G_PER_L | TOGO M142 / JCM Medium 151 lists 0.01 g/L H3BO3. |
| Na2MoO4 x 2H2O | 0.01 G_PER_L | TOGO M142 / JCM Medium 151 lists 0.01 g/L Na2MoO4 x 2H2O. |
| Distilled water | 1.0 L | TOGO M142 / JCM Medium 151 lists 1.0 L Distilled water. |
JCM Medium 1067 lists 10.0 ml Trace minerals in the top layer.
8% NaHCO3 solution
Dose: 5.25 ML_PER_L
| Ingredient | Concentration | Notes |
|---|---|---|
| NaHCO3 | 8.0 PERCENT_W_V | 8% NaHCO3 solution is represented from the stock label as 8.0% w/v NaHCO3. |
JCM Medium 1067 adds 5.25 ml/L filter-sterilized 8% NaHCO3 solution to the cooled top layer.
Trace vitamins
Dose: 10.0 ML_PER_L
| Ingredient | Concentration | Notes |
|---|---|---|
| Biotin | 2.0 MG_PER_L | TOGO M190 / JCM Medium 197 lists 2.0 mg/L Biotin. |
| Folic acid | 2.0 MG_PER_L | TOGO M190 / JCM Medium 197 lists 2.0 mg/L Folic acid. |
| Pyridoxine HCl | 10.0 MG_PER_L | TOGO M190 / JCM Medium 197 lists 10.0 mg/L Pyridoxine HCl. |
| Thiamine HCl | 5.0 MG_PER_L | TOGO M190 / JCM Medium 197 lists 5.0 mg/L Thiamine HCl. |
| Riboflavin | 5.0 MG_PER_L | TOGO M190 / JCM Medium 197 lists 5.0 mg/L Riboflavin. |
| Nicotinic acid | 5.0 MG_PER_L | TOGO M190 / JCM Medium 197 lists 5.0 mg/L Nicotinic acid. |
| Calcium pantothenate | 5.0 MG_PER_L | TOGO M190 / JCM Medium 197 lists 5.0 mg/L Calcium pantothenate. |
| Vitamin B12 | 0.1 MG_PER_L | TOGO M190 / JCM Medium 197 lists 0.1 mg/L Vitamin B12. |
| p-Aminobenzoic acid | 5.0 MG_PER_L | TOGO M190 / JCM Medium 197 lists 5.0 mg/L p-Aminobenzoic acid. |
| Lipoic acid | 5.0 MG_PER_L | TOGO M190 / JCM Medium 197 lists 5.0 mg/L Lipoic acid. |
| Distilled water | 1.0 L | TOGO M190 / JCM Medium 197 lists 1.0 L Distilled water. |
JCM Medium 1067 adds 10.0 ml/L filter-sterilized Trace vitamins to the cooled top layer.
Target organisms
No target organisms are recorded.
Provenance
| Timestamp | Curator | Action | Notes |
|---|---|---|---|
| 2026-01-27T06:35:53.987720Z | togo-import | Imported from TOGO Medium | Source: JCM, ID: M1136 |
| 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: Nitrogen gas |
| 2026-03-09T08:05:04.641732+00:00 | solution-migrator-v1.0 | Migrated solutions from ingredients to solutions array | Moved 6 solution(s) from ingredients |
| 2026-03-13T06:19:50.397246Z | culturemech-id-assigner-v1.0 | Assigned CultureMech ID | Assigned stable identifier: CultureMech:007658 |
| 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; Added default solution name; Added default solution name; Added default solution name |
| 2026-03-17T19:46:08.769351+00:00 | normalize_media_names_to_snake_case.py | NAME_NORMALIZED | Normalized name from "Freshwater Iron-Oxidizing Bacteria Medium-II" to "freshwater_iron_oxidizing_bacteria_medium_ii" for consistent matching |
| 2026-05-16T09:03:07.818418+00:00 | migrate_legacy_fields.py | MIGRATED_LEGACY_FIELDS | curation_history.date->timestamp=2 |
| 2026-09-11T00:00:00-07:00 | repair_togo_m1136_score15.py | RESOLVED_TOGO_M1136_SCORE15 | TOGO M1136 records JCM Medium 1067 as a two-layer freshwater iron-oxidizing bacteria medium. JCM 1067 prepares a bottom layer from FeS solution, Modified Wolfe's solution from JCM Medium 628, and Agar, Noble; prepares a top layer from Modified Wolfe's solution and Trace minerals from JCM Medium 151; autoclaves both layers; then adds filter-sterilized Trace vitamins from JCM Medium 197 and 8% NaHCO3 solution to the cooled top layer before replacing the vessel gas phase with N2-CO2 (4:1, v/v). |