Overview
- External ontology
- TOGO:M2124 — RPL medium
- Applications
-
- Microbial cultivation
- Notes
- Source: https://togomedium.org/medium/M2124 Original source: NBRC - NBRC_M1452 Original URL: https://www.nite.go.jp/nbrc/catalogue/NBRCMediumDetailServlet?NO=1452
Composition
flowchart LR
CultureMech_008717["rpl_medium"]
ing0_Distilled_water["Distilled water"]
CultureMech_008717 --> ing0_Distilled_water
CHEBI_15377["CHEBI:15377"]
ing0_Distilled_water -.-> CHEBI_15377
ing1_NaCl["NaCl"]
CultureMech_008717 --> ing1_NaCl
CHEBI_26710["CHEBI:26710"]
ing1_NaCl -.-> CHEBI_26710
ing2_CaCl2_2H2O["CaCl2·2H2O"]
CultureMech_008717 --> ing2_CaCl2_2H2O
CHEBI_86158["CHEBI:86158"]
ing2_CaCl2_2H2O -.-> CHEBI_86158
ing3_KH2PO4["KH2PO4"]
CultureMech_008717 --> ing3_KH2PO4
CHEBI_63036["CHEBI:63036"]
ing3_KH2PO4 -.-> CHEBI_63036
ing4_K2HPO4["K2HPO4"]
CultureMech_008717 --> ing4_K2HPO4
CHEBI_131527["CHEBI:131527"]
ing4_K2HPO4 -.-> CHEBI_131527
ing5_MgCl2_6H2O["MgCl2·6H2O"]
CultureMech_008717 --> ing5_MgCl2_6H2O
CHEBI_86345["CHEBI:86345"]
ing5_MgCl2_6H2O -.-> CHEBI_86345
ing6__NH4_2SO4["(NH4)2SO4"]
CultureMech_008717 --> ing6__NH4_2SO4
CHEBI_62946["CHEBI:62946"]
ing6__NH4_2SO4 -.-> CHEBI_62946
ing7_Vitamin_B12["Vitamin B12"]
CultureMech_008717 --> ing7_Vitamin_B12
CHEBI_176843["CHEBI:176843"]
ing7_Vitamin_B12 -.-> CHEBI_176843
ing8_Sodium_pyruvate["Sodium pyruvate"]
CultureMech_008717 --> ing8_Sodium_pyruvate
CHEBI_50144["CHEBI:50144"]
ing8_Sodium_pyruvate -.-> CHEBI_50144
ing9_Disodium_succinate["Disodium succinate"]
CultureMech_008717 --> ing9_Disodium_succinate
CHEBI_63675["CHEBI:63675"]
ing9_Disodium_succinate -.-> CHEBI_63675
ing10_Agar__if_needed_["Agar (if needed)"]
CultureMech_008717 --> ing10_Agar__if_needed_
ing11_Bacto_Yeast_Extract__Difco_["Bacto Yeast Extract (Difco)"]
CultureMech_008717 --> ing11_Bacto_Yeast_Extract__Difco_
ing12_Na2S2O3_5H2O["Na2S2O3·5H2O"]
CultureMech_008717 --> ing12_Na2S2O3_5H2O
CHEBI_32150["CHEBI:32150"]
ing12_Na2S2O3_5H2O -.-> CHEBI_32150
ing13_N2["N2"]
CultureMech_008717 --> ing13_N2
CHEBI_17997["CHEBI:17997"]
ing13_N2 -.-> CHEBI_17997
ing14_Na2MoO4_2H2O["Na2MoO4·2H2O"]
CultureMech_008717 --> ing14_Na2MoO4_2H2O
CHEBI_75213["CHEBI:75213"]
ing14_Na2MoO4_2H2O -.-> CHEBI_75213
ing15_H3BO3["H3BO3"]
CultureMech_008717 --> ing15_H3BO3
CHEBI_33118["CHEBI:33118"]
ing15_H3BO3 -.-> CHEBI_33118
ing16_MnCl2_4H2O["MnCl2·4H2O"]
CultureMech_008717 --> ing16_MnCl2_4H2O
CHEBI_86368["CHEBI:86368"]
ing16_MnCl2_4H2O -.-> CHEBI_86368
ing17_CoCl2_6H2O["CoCl2·6H2O"]
CultureMech_008717 --> ing17_CoCl2_6H2O
CHEBI_35696["CHEBI:35696"]
ing17_CoCl2_6H2O -.-> CHEBI_35696
ing18_NiCl2_6H2O["NiCl2·6H2O"]
CultureMech_008717 --> ing18_NiCl2_6H2O
CHEBI_34887["CHEBI:34887"]
ing18_NiCl2_6H2O -.-> CHEBI_34887
ing19_CuCl2_2H2O["CuCl2·2H2O"]
CultureMech_008717 --> ing19_CuCl2_2H2O
CHEBI_86318["CHEBI:86318"]
ing19_CuCl2_2H2O -.-> CHEBI_86318
ing20_ZnCl2["ZnCl2"]
CultureMech_008717 --> ing20_ZnCl2
CHEBI_49976["CHEBI:49976"]
ing20_ZnCl2 -.-> CHEBI_49976
ing21_FeCl3_6H2O["FeCl3·6H2O"]
CultureMech_008717 --> ing21_FeCl3_6H2O
CHEBI_86254["CHEBI:86254"]
ing21_FeCl3_6H2O -.-> CHEBI_86254
ing22_Nitrilotriacetic_acid__NTA_["Nitrilotriacetic acid (NTA)"]
CultureMech_008717 --> ing22_Nitrilotriacetic_acid__NTA_
CHEBI_44557["CHEBI:44557"]
ing22_Nitrilotriacetic_acid__NTA_ -.-> CHEBI_44557
ing23_NaOH["NaOH"]
CultureMech_008717 --> ing23_NaOH
CHEBI_32145["CHEBI:32145"]
ing23_NaOH -.-> CHEBI_32145
Ingredients (24)
| # | Ingredient | Concentration | Ontology | Notes |
|---|---|---|---|---|
| 1 |
Distilled water
H2O 18.015 g/mol
|
1.0 G_PER_L |
CHEBI:15377
water
|
Role: Solvating media; Properties: Inorganic compound, Defined component, Simple component [Collapsed 2 identical duplicates: 1.0, 1.0] |
| 2 |
NaCl
Cl.Na 58.443 g/mol
|
1.2 G_PER_L |
CHEBI:26710
sodium chloride
|
Role: Mineral source; Properties: Inorganic compound, Defined component, Simple component [Merged 2 duplicates: 0.2, 1.0] |
| 3 |
CaCl2·2H2O
Ca.2Cl.2H2O 147.014 g/mol
|
0.14500000000000002 G_PER_L |
CHEBI:86158
calcium chloride dihydrate
|
Role: Mineral source; Properties: Inorganic compound, Defined component, Simple component [Merged 2 duplicates: 0.045, 0.1] |
| 4 |
KH2PO4
H2O4P.K 136.084 g/mol
|
0.4 G_PER_L |
CHEBI:63036
potassium dihydrogen phosphate
|
Role: Buffer; Properties: Inorganic compound, Defined component, Simple component |
| 5 |
K2HPO4
HO4P.2K 174.174 g/mol
|
0.6 G_PER_L |
CHEBI:131527
dipotassium hydrogen phosphate
|
Role: Buffer; Properties: Inorganic compound, Defined component, Simple component |
| 6 |
MgCl2·6H2O
2Cl.6H2O.Mg 203.301 g/mol
|
0.2 G_PER_L |
CHEBI:86345
magnesium dichloride hexahydrate
|
Role: Mineral source; Properties: Inorganic compound, Defined component, Simple component |
| 7 |
(NH4)2SO4
2H4N.O4S 132.141 g/mol
|
1 G_PER_L |
CHEBI:62946
ammonium sulfate
|
Role: Nitrogen source; Properties: Inorganic compound, Defined component, Simple component |
| 8 | Vitamin B12 | 0.02 G_PER_L |
CHEBI:176843
vitamin B12
|
Role: Vitamin; Properties: Organic compound, Defined component, Simple component |
| 9 |
Sodium pyruvate
C3H3O3.Na 110.044 g/mol
|
1 G_PER_L |
CHEBI:50144
sodium pyruvate
|
Role: Carbon source; Properties: Organic compound, Defined component, Simple component |
| 10 |
Disodium succinate
C4H4O4.2Na 162.052 g/mol
|
1 G_PER_L |
CHEBI:63675
sodium succinate (anhydrous)
|
Role: Growth factor; Properties: Organic compound, Defined component, Simple component |
| 11 | Agar (if needed) | 18 G_PER_L | Role: Solidifying component | |
| 12 | Bacto Yeast Extract (Difco) | 1 G_PER_L | Properties: Undefined component | |
| 13 |
Na2S2O3·5H2O
5H2O.2Na.O3S2 248.186 g/mol
|
0.5 G_PER_L |
CHEBI:32150
sodium thiosulfate pentahydrate
|
Properties: Defined component, Simple component, Inorganic compound |
| 14 |
N2
N2 28.014 g/mol
|
variable VARIABLE |
CHEBI:17997
dinitrogen
|
Properties: Gas |
| 15 |
Na2MoO4·2H2O
2H2O.MoO4.2Na 241.946 g/mol
|
0.024 G_PER_L |
CHEBI:75213
sodium molybdate dihydrate
|
Role: Mineral source; Properties: Inorganic compound, Defined component, Simple component |
| 16 |
H3BO3
H3BO3 61.833 g/mol
|
0.01 G_PER_L |
CHEBI:33118
boric acid
|
Role: Mineral source; Properties: Inorganic compound, Defined component, Simple component |
| 17 |
MnCl2·4H2O
Cl2Mn.4H2O 197.904 g/mol
|
0.1 G_PER_L |
CHEBI:86368
manganese(II) chloride tetrahydrate
|
Role: Mineral source; Properties: Inorganic compound, Defined component, Simple component |
| 18 |
CoCl2·6H2O
2Cl.Co 129.839 g/mol
|
0.024 G_PER_L |
CHEBI:35696
cobalt dichloride
|
Role: Mineral source; Properties: Inorganic compound, Defined component, Simple component |
| 19 |
NiCl2·6H2O
Cl2Ni 129.599 g/mol
|
0.12 G_PER_L |
CHEBI:34887
nickel dichloride
|
Role: Mineral source; Properties: Inorganic compound, Defined component, Simple component |
| 20 |
CuCl2·2H2O
Cl2Cu.2H2O 170.482 g/mol
|
0.025 G_PER_L |
CHEBI:86318
copper(II) chloride dihydrate
|
Role: Mineral source; Properties: Inorganic compound, Defined component, Simple component |
| 21 |
ZnCl2
2Cl.Zn 136.296 g/mol
|
0.1 G_PER_L |
CHEBI:49976
zinc dichloride
|
Role: Mineral source; Properties: Inorganic compound, Defined component, Simple component |
| 22 |
FeCl3·6H2O
Cl3Fe.6H2O 270.294 g/mol
|
1.35 G_PER_L |
CHEBI:86254
iron trichloride hexahydrate
|
Role: Mineral source; Properties: Inorganic compound, Defined component, Simple component |
| 23 |
Nitrilotriacetic acid (NTA)
C6H9NO6 191.139 g/mol
|
12.8 G_PER_L |
CHEBI:44557
nitrilotriacetic acid
|
Role: Mineral source; Properties: Organic compound, Defined component, Simple component |
| 24 |
NaOH
HO.Na 39.997 g/mol
|
variable VARIABLE |
CHEBI:32145
sodium hydroxide
|
Properties: Defined component, Inorganic compound, Solution |
Solutions
Trace element solution*
Dose: 2 G_PER_L
See mediadive_6187_Trace_element_solution.yaml for composition
Target organisms
No target organisms are recorded.
Provenance
| Timestamp | Curator | Action | Notes |
|---|---|---|---|
| 2026-01-27T06:35:59.123822Z | togo-import | Imported from TOGO Medium | Source: NBRC, ID: M2124 |
| 2026-01-28T19:48:26.441941Z | 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: N2; Added default concentration for ingredient: NaOH |
| 2026-03-09T08:04:43.901954+00:00 | solution-migrator-v1.0 | Migrated solutions from ingredients to solutions array | Moved 1 solution(s) from ingredients |
| 2026-03-13T03:09:14.083082Z | data-quality-cleanup-v1.0 | Data quality fixes | Merged 3 duplicate ingredient(s) |
| 2026-03-13T06:19:59.770305Z | culturemech-id-assigner-v1.0 | Assigned CultureMech ID | Assigned stable identifier: CultureMech:008717 |
| 2026-03-14T00:00:00+00:00 | schema-defaulter-v1.0 | Applied schema defaults and normalizations | Added default solution name |
| 2026-03-17T06:30:21.000000Z | mediaingredientmech-enrichment-v1.0 | Added MediaIngredientMech links | Linked ingredients to MediaIngredientMech identifiers |
| 2026-03-17T19:46:18.410644+00:00 | normalize_media_names_to_snake_case.py | NAME_NORMALIZED | Normalized name from "RPL medium" to "rpl_medium" for consistent matching |
| 2026-05-16T09:04:30.878271+00:00 | migrate_legacy_fields.py | MIGRATED_LEGACY_FIELDS | curation_history.date->timestamp=2 |
| 2026-06-05T07:41:44.683614+00:00 | mim-legacy-to-chebi-migration-v1.0 | Refreshed legacy MediaIngredientMech links to CHEBI keying | Replaced 19 legacy mediaingredientmech_term link(s) with mediaingredientmech_chebi_term (id-safe: ingredient's own CHEBI + label). MIM deprecated the MediaIngredientMech:NNNNNN id scheme. |
| 2026-06-10T07:47:11.083915+00:00 | primary-term-label-canonicalization-v1.0 | Canonicalized primary term label to OBO canonical (OAK) | 4 primary term(s); ingredient name resolved by OAK sqlite:obo:chebi. |
| 2026-09-02T07:38:57.209630+00:00 | repair_merged_duplicates.py | REPAIRED_SUMMED_DUPLICATE_MERGE | Collapsed 1 ingredient row(s) whose concentration was the SUM of identical duplicate values written by cleanup_media_quality.py. Every merged part was the same value, so the pre-merge value is unambiguous and no source lookup was needed. Rows whose merged parts differ were left untouched. |