Ontology mapping
- Primary identifier
-
CHEBI:63675 - Ontology label
- sodium succinate (anhydrous)
- kg-microbe node
CHEBI:63675
Nutritional roles
- Role
- CARBON_SOURCE
- Confidence
- 0.8
- Evidence
- Reference type
- COMPUTATIONAL_PREDICTION
- Reference text
- Inferred from curated media-role name pattern
- Curator note
- Provisional role from a curated name-pattern rule; review recommended.
- Role
- ENERGY_SOURCE
- Confidence
- 0.7
- Evidence
- Reference type
- COMPUTATIONAL_PREDICTION
- Reference text
- Canonical energy substrate (catabolised for energy)
- Curator note
- Provisional ENERGY_SOURCE added alongside CARBON_SOURCE; review recommended.
Synonyms (10)
| Synonym | Type | Source | Occurrences |
|---|---|---|---|
| Role: Growth factor; Properties: Defined component, Organic compound, Simple component | RAW_TEXT | CultureMech | |
| Role: Growth factor; Properties: Defined component, Simple component, Organic compound | RAW_TEXT | CultureMech | |
| Role: Growth factor; Properties: Organic compound, Defined component, Simple component | RAW_TEXT | CultureMech | |
| Role: Growth factor; Properties: Organic compound, Simple component, Defined component | RAW_TEXT | CultureMech | |
| Role: Growth factor; Properties: Simple component, Defined component, Organic compound | RAW_TEXT | CultureMech | |
| Disodium succinate | EXACT_SYNONYM | kg_microbe | |
| Succinic acid disodium salt | EXACT_SYNONYM | kg_microbe | |
| disodium butanedioate | EXACT_SYNONYM | kg_microbe | |
| disodium succinate (anh.) | EXACT_SYNONYM | kg_microbe | |
| Role: Growth factor; Properties: Simple component, Organic compound, Defined component | RAW_TEXT | CultureMech |
Rejected enrichment labels (1)
Provenance-only candidates: these are not synonyms and do not resolve to this record.
| Rejected label | Disposition | Source | Occurrences |
|---|---|---|---|
| Disodium succinate·6H2O | REJECTED_LABEL | sssom_other_backfill |
Chemical properties
- Cas rn
- 150-90-3
- Data source
- OAK/CHEBI xref
- Retrieval date
- 2026-04-19T07:39:40.088267+00:00
- Molecular formula
- C4H4O4.2Na
- Inchi
- InChI=1S/C4H6O4.2Na/c5-3(6)1-2-4(7)8;;/h1-2H2,(H,5,6)(H,7,8);;/q;2*+1/p-2
- Smiles
- O=C([O-])CCC(=O)[O-].[Na+].[Na+]
Evidence (1)
DATABASE_MATCH
via CultureMech
Imported from CultureMech pipeline, quality=DIRECT_MATCH
Occurrence statistics
- Total occurrences
- 195
- Distinct media
- 195
Curation history
| Timestamp | Curator | Action | New status | Changes |
|---|---|---|---|---|
| 2026-03-09T06:54:18.022301+00:00 | import_from_culturemech | IMPORTED | MAPPED | Initial import from CultureMech pipeline |
| 2026-04-05T19:51:53.072238+00:00 | fetch_cas_rn_from_pubchem | ADDED_CAS_RN | MAPPED | Added CAS-RN:150-90-3 from PubChem API via name lookup (Disodium succinate) |
| 2026-04-05T21:48:45.815550+00:00 | fetch_cas_rn_from_culturebot_csv | ADDED_CAS_RN | MAPPED | Added CAS-RN:6106-21-4 from CultureBotHT compounds_to_cas.csv (matched: Sodium succinate) |
| 2026-04-05T21:48:45.817748+00:00 | fetch_cas_rn_from_culturebot_csv | ADDED_CAS_RN | MAPPED | Added CAS-RN:6106-21-4 from CultureBotHT compounds_to_cas.csv (matched: Sodium Succinate) |
| 2026-04-05T21:48:45.819661+00:00 | fetch_cas_rn_from_culturebot_csv | ADDED_CAS_RN | MAPPED | Added CAS-RN:6106-21-4 from CultureBotHT compounds_to_cas.csv (matched: sodium succinate) |
| 2026-04-18T00:00:00+00:00 | cbclaw_kg_microbe_sweep LLM | ADDED_SYNONYMS | MAPPED | Added 4 synonyms from kg-microbe P4.4 enrichment: Disodium succinate, Succinic acid disodium salt, disodium butanedioate, disodium succinate (anh.) |
| 2026-04-18T00:00:00+00:00 | cbclaw_kg_microbe_sweep LLM | ADDED_SYNONYMS | MAPPED | Added 4 synonyms from kg-microbe P4.4 enrichment: Sodium Succinate, Succinic acid disodium salt, disodium butanedioate, disodium succinate (anh.) |
| 2026-04-19T07:39:40.088622+00:00 | audit_mim_merge | MERGED_FROM_DUPLICATES | MAPPED | Absorbed 3 duplicate MIM record(s) into this one: Disodium_Succinate.yaml, Sodium_Succinate_2.yaml, Sodium_Succinate_3.yaml. Synonyms, curation_history, and occurrence counts were unioned/summed; winner selected by highest occurrence count with preferred_term readability tie-break. |
| 2026-04-19T07:39:40.088267+00:00 | audit_resolve_risky_cas_rn | RESOLVED_CAS_RN_CONFLICT | MAPPED | CAS-RN conflict across merged group (150-90-3|6106-21-4) resolved via OAK canonical xref: 150-90-3 (match) |
| 2026-05-01T07:35:36.354384+00:00 | auto_classify_ingredient_type | AUTO_CLASSIFY_INGREDIENT_TYPE | set ingredient_type=SINGLE_INGREDIENT (CHEBI primary) | |
| 2026-05-01T08:08:32.446923+00:00 | auto_classify_ingredient_type | AUTO_BACKFILL_CHEBI_CHEMISTRY | molecular_formula=C4H4O4.2Na; inchi=InChI=1S/C4H6O4.2Na/c5-3(6)1-2-4(7)8;;/h1-2H2,(H,5; smiles=O=C([O-])CCC(=O)[O-].[Na+].[Na+] | |
| 2026-05-02T03:12:18.510118+00:00 | auto_classify_ingredient_type | AUTO_CLASSIFY_INGREDIENT_TYPE | set ingredient_type=SINGLE_INGREDIENT (chemical structure populated (molecular_formula)) | |
| 2026-06-03T03:22:14.596937+00:00 | infer_roles_from_name_lists | ANNOTATED | Added media role: CARBON_SOURCE (confidence: 0.80) | |
| 2026-06-04T05:38:59.201319+00:00 | infer_energy_source | ANNOTATED | Added media role: ENERGY_SOURCE (confidence: 0.70) | |
| 2026-06-09T05:23:46.836736+00:00 | correct_stale_ontology_labels.py | CORRECTED | ontology_label 'Sodium succinate' -> 'sodium succinate (anhydrous)': synced to canonical CHEBI label (preferred_term 'Sodium succinate' unchanged). | |
| 2026-07-20T00:00:00+00:00 | migrate_media_roles_to_facets | ANNOTATED | Migrated legacy media_roles to role facets (#128): CARBON_SOURCE -> nutritional_roles.CARBON_SOURCE; ENERGY_SOURCE -> nutritional_roles.ENERGY_SOURCE | |
| 2026-08-10T00:00:00+00:00 | regrade_synonym_matches | REGRADED_EXACT_TO_SYNONYM | mapping_quality EXACT_MATCH -> SYNONYM_MATCH (#317). The record's label does not equal the term's primary label 'sodium succinate (anhydrous)'; it matches the ChEBI synonym 'disodium succinate (anh.)' on CHEBI:63675. The schema defines EXACT_MATCH as a direct match to the term and SYNONYM_MATCH as a match to a known synonym, so the recorded grade overstated. ontology_id is unchanged — the term is correct. The SSSOM predicate is unaffected (both grades emit skos:exactMatch). | |
| 2026-08-27T03:16:39.519880+00:00 | refresh_occurrence_statistics | CORRECTED | occurrence_statistics 111/145 -> 195/195 (media_count/total_occurrences), derived from distinct CultureMech recipe ids in the #337 occurrence table. The prior values came from the importer retired in #453, whose media_count counted a list truncated to 50 examples (#449). [source=ingredient_occurrences.tsv culturemech_rev=15a4da5c08 rows=194137 distinct_recipes=15257] | |
| 2026-09-02T17:40:44.716277+00:00 | claude_sssom_surface_form_backfill | ADDED_SYNONYMS | Recovered 1 surface form(s) that the published SSSOM `other` carried but no curated record did, so a rebuild would have dropped them from KGX: 'Disodium succinate·6H2O'. Tokens already present on the kg-microbe ontology node were left out as redundant (#520). | |
| 2026-09-12T00:00:00+00:00 | reject_hidden_hydrate_synonym_collapses | REJECTED_HIDDEN_HYDRATE_SYNONYMS | MAPPED | Marked hidden hydrate synonym(s) as REJECTED_LABEL so this record no longer resolves sibling hydrate identities (#251): 'Disodium succinate·6H2O'. |