Overview
- External ontology
- nbrc.medium:1117 (source link unavailable) — NBRC Medium 1117
- Notes
- Source: NBRC Medium 1117 | Link: https://www.nite.go.jp/nbrc/catalogue/NBRCMediumDetailServlet?NO=1117 The NBRC Medium for strain JA480 table lists a pH range of 6.6 to 7.4 and a nested Trace element solution SL7 recipe.
Composition
flowchart LR
CultureMech_007457["1118"]
ing0_KH2PO4["KH2PO4"]
CultureMech_007457 --> ing0_KH2PO4
CHEBI_63036["CHEBI:63036"]
ing0_KH2PO4 -.-> CHEBI_63036
ing1_MgSO4_7H2O["MgSO4·7H2O"]
CultureMech_007457 --> ing1_MgSO4_7H2O
ing2_NaCl["NaCl"]
CultureMech_007457 --> ing2_NaCl
CHEBI_26710["CHEBI:26710"]
ing2_NaCl -.-> CHEBI_26710
ing3_NH4Cl["NH4Cl"]
CultureMech_007457 --> ing3_NH4Cl
CHEBI_31206["CHEBI:31206"]
ing3_NH4Cl -.-> CHEBI_31206
ing4_CaCl2_2H2O["CaCl2·2H2O"]
CultureMech_007457 --> ing4_CaCl2_2H2O
ing5_Sodium_pyruvate["Sodium pyruvate"]
CultureMech_007457 --> ing5_Sodium_pyruvate
CHEBI_50144["CHEBI:50144"]
ing5_Sodium_pyruvate -.-> CHEBI_50144
ing6_Sodium_succinate["Sodium succinate"]
CultureMech_007457 --> ing6_Sodium_succinate
CHEBI_63675["CHEBI:63675"]
ing6_Sodium_succinate -.-> CHEBI_63675
ing7_Sodium_acetate["Sodium acetate"]
CultureMech_007457 --> ing7_Sodium_acetate
CHEBI_32954["CHEBI:32954"]
ing7_Sodium_acetate -.-> CHEBI_32954
ing8_Yeast_extract["Yeast extract"]
CultureMech_007457 --> ing8_Yeast_extract
ing9_Ferric_citrate_solution___0_1__["Ferric citrate solution* (0.1%)"]
CultureMech_007457 --> ing9_Ferric_citrate_solution___0_1__
ing10_Trace_element_solution_SL7__["Trace element solution SL7**"]
CultureMech_007457 --> ing10_Trace_element_solution_SL7__
ing11_NaHCO3__10___w_v__["NaHCO3 (10% (w/v))"]
CultureMech_007457 --> ing11_NaHCO3__10___w_v__
ing12_Vitamin_B12__0_002___w_v__["Vitamin B12 (0.002% (w/v))"]
CultureMech_007457 --> ing12_Vitamin_B12__0_002___w_v__
ing13_Na2S_9H2O["Na2S·9H2O"]
CultureMech_007457 --> ing13_Na2S_9H2O
ing14_Resazurin["Resazurin"]
CultureMech_007457 --> ing14_Resazurin
CHEBI_8806["CHEBI:8806"]
ing14_Resazurin -.-> CHEBI_8806
ing15_Distilled_water["Distilled water"]
CultureMech_007457 --> ing15_Distilled_water
CHEBI_15377["CHEBI:15377"]
ing15_Distilled_water -.-> CHEBI_15377
Ingredients (16)
| # | Ingredient | Concentration | Ontology | Notes |
|---|---|---|---|---|
| 1 |
KH2PO4
H2O4P.K 136.084 g/mol
|
0.5 G_PER_L |
CHEBI:63036
potassium dihydrogen phosphate
|
|
| 2 | MgSO4·7H2O | 0.5 G_PER_L | ||
| 3 |
NaCl
Cl.Na 58.443 g/mol
|
0.4 G_PER_L |
CHEBI:26710
sodium chloride
|
|
| 4 |
NH4Cl
Cl.H4N 53.492 g/mol
|
0.68 G_PER_L |
CHEBI:31206
ammonium chloride
|
|
| 5 | CaCl2·2H2O | 0.25 G_PER_L | ||
| 6 |
Sodium pyruvate
C3H3O3.Na 110.044 g/mol
|
0.5 G_PER_L |
CHEBI:50144
Na-pyruvate
|
|
| 7 |
Sodium succinate
C4H4O4.2Na 162.052 g/mol
|
0.5 G_PER_L |
CHEBI:63675
sodium succinate (anhydrous)
|
|
| 8 |
Sodium acetate
C2H3O2.Na 82.034 g/mol
|
0.5 G_PER_L |
CHEBI:32954
sodium acetate
|
|
| 9 | Yeast extract | 0.5 G_PER_L |
FOODON:03315426
Yeast extract
|
|
| 10 | Ferric citrate solution* (0.1%) | 5 ML_PER_L | ||
| 11 | Trace element solution SL7** | 1 ML_PER_L | ||
| 12 | NaHCO3 (10% (w/v)) | 15 ML_PER_L | ||
| 13 | Vitamin B12 (0.002% (w/v)) | 1 ML_PER_L | ||
| 14 | Na2S·9H2O | 0.24 G_PER_L | ||
| 15 |
Resazurin
C12H7NO4 229.191 g/mol
|
1 MG_PER_L |
CHEBI:8806
Resazurin
|
|
| 16 |
Distilled water
H2O 18.015 g/mol
|
1 L |
CHEBI:15377
water
|
Preparation
- Mix ingredients except vitamin B12, NaHCO3, and Na2S·9H2O.
- Autoclave under a N2 atmosphere.
- Separately autoclave Na2S·9H2O solution under N2.
- Filter-sterilize vitamin B12 and NaHCO3 solutions.
- Before inoculation, aseptically and anaerobically add vitamin B12, NaHCO3, and Na2S·9H2O.
Solutions
Trace element solution SL7
| Ingredient | Concentration | Notes |
|---|---|---|
| HCl (25%; 7.7 M) | 10 ML_PER_L | |
| FeCl2·4H2O | 1.5 G_PER_L | |
| ZnCl2 | 70 MG_PER_L | |
| MnCl2·4H2O | 100 MG_PER_L | |
| H3BO3 | 60 MG_PER_L | |
| CoCl2·6H2O | 200 MG_PER_L | |
| CuCl2·2H2O | 20 MG_PER_L | |
| NiCl2·6H2O | 20 MG_PER_L | |
| Na2MoO4·2H2O | 40 MG_PER_L | |
| Distilled water | 990 ML_PER_L |
Target organisms
No target organisms are recorded.
Provenance
| Timestamp | Curator | Action | Notes |
|---|---|---|---|
| 2026-02-20T00:22:36.024227Z | nbrc-import | Imported from NBRC | Source: NBRC, Media No. 1117, URL: http://www.nbrc.nite.go.jp/NBRC2/NBRCMediumDetailServlet?NO=1117. Imported via ethical web scraping. |
| 2026-03-09T08:04:28.303443+00:00 | solution-migrator-v1.0 | Migrated solutions from ingredients to solutions array | Moved 1 solution(s) from ingredients |
| 2026-03-13T03:08:57.086230Z | data-quality-cleanup-v1.0 | Data quality fixes | Merged 64 duplicate ingredient(s) |
| 2026-03-13T06:19:49.144937Z | culturemech-id-assigner-v1.0 | Assigned CultureMech ID | Assigned stable identifier: CultureMech:007457 |
| 2026-03-14T00:00:00+00:00 | schema-defaulter-v1.0 | Applied schema defaults and normalizations | Added default solution name |
| 2026-05-16T09:03:06.581900+00:00 | migrate_legacy_fields.py | MIGRATED_LEGACY_FIELDS | curation_history.date->timestamp=1 |
| 2026-08-19T21:54:22.601758+00:00 | recover_nbrc_composition.py | Recovered composition from source HTML | Re-parsed the NBRC medium 1117 composition table from the preserved scrape; 16 ingredient(s) restored, 1 stock solution(s) nested rather than flattened, 1 unparsed solution blob(s) removed (#299). |
| 2026-08-20T19:01:15.766271+00:00 | apply_mim_groundings.py | Adopted MIM published grounding | Grounded 10 ingredient(s) from MIM's ingredient_mappings.sssom.tsv (2026-08-18), exactMatch only, where this record carried no CHEBI term (#308). |
| 2026-09-07T00:00:00-07:00 | repair_nbrc_partial_score25.py | RESOLVED_NBRC_PARTIAL_SCORE25 | Preserved the recovered NBRC Medium 1117 composition table. |