Overview
- External ontology
- TOGO:M1401 — Freshwater Medium With Rhamnose
- Applications
-
- Microbial cultivation
- High-metal flag
- True
- Notes
- Source: https://togomedium.org/medium/M1401 Original source: JCM - JCM_M1304 Original URL: https://www.jcm.riken.jp/cgi-bin/jcm/jcm_grmd?GRMD=1304
Composition
flowchart LR
CultureMech_007938["freshwater_medium_with_rhamnose"]
ing0_Distilled_water["Distilled water"]
CultureMech_007938 --> ing0_Distilled_water
CHEBI_15377["CHEBI:15377"]
ing0_Distilled_water -.-> CHEBI_15377
ing1_NaCl["NaCl"]
CultureMech_007938 --> ing1_NaCl
CHEBI_26710["CHEBI:26710"]
ing1_NaCl -.-> CHEBI_26710
ing2_CaCl2_2H2O["CaCl2・2H2O"]
CultureMech_007938 --> ing2_CaCl2_2H2O
CHEBI_86158["CHEBI:86158"]
ing2_CaCl2_2H2O -.-> CHEBI_86158
ing3_KH2PO4["KH2PO4"]
CultureMech_007938 --> ing3_KH2PO4
CHEBI_63036["CHEBI:63036"]
ing3_KH2PO4 -.-> CHEBI_63036
ing4_NH4Cl["NH4Cl"]
CultureMech_007938 --> ing4_NH4Cl
CHEBI_31206["CHEBI:31206"]
ing4_NH4Cl -.-> CHEBI_31206
ing5_Resazurin["Resazurin"]
CultureMech_007938 --> ing5_Resazurin
CHEBI_8806["CHEBI:8806"]
ing5_Resazurin -.-> CHEBI_8806
ing6_MgCl2_6H2O["MgCl2・6H2O"]
CultureMech_007938 --> ing6_MgCl2_6H2O
CHEBI_86345["CHEBI:86345"]
ing6_MgCl2_6H2O -.-> CHEBI_86345
ing7_KCl["KCl"]
CultureMech_007938 --> ing7_KCl
CHEBI_32588["CHEBI:32588"]
ing7_KCl -.-> CHEBI_32588
ing8_Carbon_dioxide_gas["Carbon dioxide gas"]
CultureMech_007938 --> ing8_Carbon_dioxide_gas
CHEBI_16526["CHEBI:16526"]
ing8_Carbon_dioxide_gas -.-> CHEBI_16526
ing9_Nitrogen_gas["Nitrogen gas"]
CultureMech_007938 --> ing9_Nitrogen_gas
CHEBI_17997["CHEBI:17997"]
ing9_Nitrogen_gas -.-> CHEBI_17997
ing10_N2["N2"]
CultureMech_007938 --> ing10_N2
ing10_N2 -.-> CHEBI_17997
ing11_Na2MoO4_2H2O["Na2MoO4-2H2O"]
CultureMech_007938 --> ing11_Na2MoO4_2H2O
CHEBI_75213["CHEBI:75213"]
ing11_Na2MoO4_2H2O -.-> CHEBI_75213
ing12_H3BO3["H3BO3"]
CultureMech_007938 --> ing12_H3BO3
CHEBI_33118["CHEBI:33118"]
ing12_H3BO3 -.-> CHEBI_33118
ing13_MnCl2_4H2O["MnCl2・4H2O"]
CultureMech_007938 --> ing13_MnCl2_4H2O
CHEBI_86368["CHEBI:86368"]
ing13_MnCl2_4H2O -.-> CHEBI_86368
ing14_CoCl2_6H2O["CoCl2-6H2O"]
CultureMech_007938 --> ing14_CoCl2_6H2O
ing15_NiCl2_6H2O["NiCl2-6H2O"]
CultureMech_007938 --> ing15_NiCl2_6H2O
ing16_ZnSO4_7H2O["ZnSO4-7H2O"]
CultureMech_007938 --> ing16_ZnSO4_7H2O
CHEBI_32312["CHEBI:32312"]
ing16_ZnSO4_7H2O -.-> CHEBI_32312
ing17_CuCl2_2H2O["CuCl2-2H2O"]
CultureMech_007938 --> ing17_CuCl2_2H2O
CHEBI_86318["CHEBI:86318"]
ing17_CuCl2_2H2O -.-> CHEBI_86318
ing18_FeCl2_4H2O["FeCl2・4H2O"]
CultureMech_007938 --> ing18_FeCl2_4H2O
CHEBI_86249["CHEBI:86249"]
ing18_FeCl2_4H2O -.-> CHEBI_86249
ing19_EDTA_Na2["EDTA・Na2"]
CultureMech_007938 --> ing19_EDTA_Na2
ing20_NaOH["NaOH"]
CultureMech_007938 --> ing20_NaOH
CHEBI_32145["CHEBI:32145"]
ing20_NaOH -.-> CHEBI_32145
Ingredients (21)
| # | Ingredient | Concentration | Ontology | Notes |
|---|---|---|---|---|
| 1 |
Distilled water
H2O 18.015 g/mol
|
956.0 G_PER_L |
CHEBI:15377
water
|
Role: Solvating media; Properties: Inorganic compound, Defined component, Simple component [Merged 2 duplicates: 955.0, 1.0] |
| 2 |
NaCl
Cl.Na 58.443 g/mol
|
1 G_PER_L |
CHEBI:26710
sodium chloride
|
Role: Mineral source; Properties: Inorganic compound, Defined component, Simple component |
| 3 |
CaCl2・2H2O
Ca.2Cl.2H2O 147.014 g/mol
|
0.15 G_PER_L |
CHEBI:86158
calcium chloride dihydrate
|
Role: Mineral source; Properties: Inorganic compound, Defined component, Simple component |
| 4 |
KH2PO4
H2O4P.K 136.084 g/mol
|
0.2 G_PER_L |
CHEBI:63036
potassium dihydrogen phosphate
|
Role: Buffer; Properties: Inorganic compound, Defined component, Simple component |
| 5 |
NH4Cl
Cl.H4N 53.492 g/mol
|
0.25 G_PER_L |
CHEBI:31206
ammonium chloride
|
Role: Nitrogen source; Properties: Inorganic compound, Defined component, Simple component |
| 6 |
Resazurin
C12H7NO4 229.191 g/mol
|
0.5 G_PER_L |
CHEBI:8806
Resazurin
|
Role: pH dependent redox indicator; Properties: Organic compound, Defined component, Simple component |
| 7 |
MgCl2・6H2O
2Cl.6H2O.Mg 203.301 g/mol
|
0.4 G_PER_L |
CHEBI:86345
magnesium dichloride hexahydrate
|
Role: Mineral source; Properties: Inorganic compound, Defined component, Simple component |
| 8 |
KCl
Cl.K 74.551 g/mol
|
0.5 G_PER_L |
CHEBI:32588
potassium chloride
|
Role: Mineral source; Properties: Inorganic compound, Defined component, Simple component |
| 9 |
Carbon dioxide gas
CO2 44.009 g/mol
|
variable VARIABLE |
CHEBI:16526
carbon dioxide
|
Properties: Gas |
| 10 |
Nitrogen gas
N2 28.014 g/mol
|
variable VARIABLE |
CHEBI:17997
dinitrogen
|
Properties: Gas |
| 11 |
N2
N2 28.014 g/mol
|
variable VARIABLE |
CHEBI:17997
dinitrogen
|
Properties: Gas |
| 12 |
Na2MoO4-2H2O
2H2O.MoO4.2Na 241.946 g/mol
|
36 G_PER_L |
CHEBI:75213
sodium molybdate dihydrate
|
Role: Mineral source; Properties: Inorganic compound, Defined component, Simple component |
| 13 |
H3BO3
H3BO3 61.833 g/mol
|
30 G_PER_L |
CHEBI:33118
boric acid
|
Role: Mineral source; Properties: Inorganic compound, Defined component, Simple component |
| 14 |
MnCl2・4H2O
Cl2Mn.4H2O 197.904 g/mol
|
100 G_PER_L |
CHEBI:86368
manganese(II) chloride tetrahydrate
|
Role: Mineral source; Properties: Inorganic compound, Defined component, Simple component |
| 15 | CoCl2-6H2O | 190 G_PER_L | Role: Mineral source; Properties: Inorganic compound, Defined component, Simple component | |
| 16 | NiCl2-6H2O | 24 G_PER_L | Role: Mineral source; Properties: Inorganic compound, Defined component, Simple component | |
| 17 |
ZnSO4-7H2O
7H2O.O4S.Zn 287.558 g/mol
|
144 G_PER_L |
CHEBI:32312
zinc sulfate heptahydrate
|
Role: Mineral source; Properties: Inorganic compound, Defined component, Simple component |
| 18 |
CuCl2-2H2O
Cl2Cu.2H2O 170.482 g/mol
|
2 G_PER_L |
CHEBI:86318
copper(II) chloride dihydrate
|
Role: Mineral source; Properties: Inorganic compound, Defined component, Simple component |
| 19 |
FeCl2・4H2O
Cl2Fe.4H2O 198.811 g/mol
|
1 G_PER_L |
CHEBI:86249
iron dichloride tetrahydrate
|
Role: Mineral source; Properties: Inorganic compound, Defined component, Simple component |
| 20 | EDTA・Na2 | 5.2 G_PER_L | Properties: Defined component, Organic compound, Simple component | |
| 21 |
NaOH
HO.Na 39.997 g/mol
|
variable VARIABLE |
CHEBI:32145
sodium hydroxide
|
Properties: Defined component, Inorganic compound, Solution |
Solutions
8% NaHCO3 solution*
Dose: 30 G_PER_L
Role: Buffer; Properties: Defined component, Inorganic compound, Solution
10% Yeast extract solution
Dose: 5 G_PER_L
Role: Nutrient source; Properties: Undefined component
0.5 M L-Rhamnose solution*
Dose: 10 G_PER_L
Role: Carbon source; Properties: Solution
Modified trace element mixture (see below)
Dose: 1 G_PER_L
Vitamin solution (see Medium [M560])
Dose: 1 G_PER_L
Cross-reference to Medium M560
Selenite--tungstate solution (see Medium [M431])
Dose: 0.5 G_PER_L
Cross-reference to Medium M431
5% Na2S・9H2O solution
Dose: 5 G_PER_L
Role: Reducing agent; Properties: Inorganic compound, Solution, Defined component
Target organisms
No target organisms are recorded.
Provenance
| Timestamp | Curator | Action | Notes |
|---|---|---|---|
| 2026-01-27T06:35:54.499358Z | togo-import | Imported from TOGO Medium | Source: JCM, ID: M1401 |
| 2026-01-28T19:48:20.324244Z | 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: Nitrogen gas; Added default concentration for ingredient: N2; Added default concentration for ingredient: NaOH |
| 2026-03-09T08:04:33.682735+00:00 | solution-migrator-v1.0 | Migrated solutions from ingredients to solutions array | Moved 7 solution(s) from ingredients |
| 2026-03-13T03:09:03.169120Z | data-quality-cleanup-v1.0 | Data quality fixes | Merged 1 duplicate ingredient(s) |
| 2026-03-13T06:19:52.629688Z | culturemech-id-assigner-v1.0 | Assigned CultureMech ID | Assigned stable identifier: CultureMech:007938 |
| 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; Added default solution name |
| 2026-03-17T06:30:08.000000Z | mediaingredientmech-enrichment-v1.0 | Added MediaIngredientMech links | Linked ingredients to MediaIngredientMech identifiers |
| 2026-03-17T19:46:11.095702+00:00 | normalize_media_names_to_snake_case.py | NAME_NORMALIZED | Normalized name from "Freshwater Medium With Rhamnose" to "freshwater_medium_with_rhamnose" for consistent matching |
| 2026-05-16T09:03:10.000950+00:00 | migrate_legacy_fields.py | MIGRATED_LEGACY_FIELDS | curation_history.date->timestamp=2 |
| 2026-06-05T07:40:33.013663+00:00 | mim-legacy-to-chebi-migration-v1.0 | Refreshed legacy MediaIngredientMech links to CHEBI keying | Replaced 11 legacy mediaingredientmech_term link(s) with mediaingredientmech_chebi_term (id-safe: ingredient's own CHEBI + label). MIM deprecated the MediaIngredientMech:NNNNNN id scheme. |
| 2026-06-10T07:46:47.796222+00:00 | primary-term-label-canonicalization-v1.0 | Canonicalized primary term label to OBO canonical (OAK) | 3 primary term(s); ingredient name resolved by OAK sqlite:obo:chebi. |