Ontology mapping
- Primary identifier
-
CHEBI:132112 - Ontology label
- sodium thiosulfate
- kg-microbe node
CHEBI:132112
Cellular metabolic roles
- Role
- ELECTRON_DONOR
- Confidence
- 0.6
- Evidence
- Reference type
- COMPUTATIONAL_PREDICTION
- Reference text
- Assigned by in-session Claude reasoning (no external API)
- Curator note
- Provisional in-session LLM role assignment; review recommended.
- Reference type
- PEER_REVIEWED_PUBLICATION
- Url
- https://pmc.ncbi.nlm.nih.gov/articles/PMC3382511/
- Reference text
- Kato et al. (2012). Microbial interspecies electron transfer via electric currents through conductive minerals.
- Curator note
- The culture method supplies 20 mM sodium thiosulfate and 20 mM sodium nitrate as donor and acceptor, respectively. Scope is limited to the studied organism and conditions.
- Metabolic context
- Electron donor for Thiobacillus denitrificans during anaerobic growth with nitrate as electron acceptor in aqueous mineral medium.
Synonyms (15)
| Synonym | Type | Source | Occurrences |
|---|---|---|---|
| Properties: Defined component, Inorganic compound, Simple component | RAW_TEXT | CultureMech | |
| Properties: Defined component, Inorganic compound, Solution | RAW_TEXT | CultureMech | |
| Properties: Defined component, Simple component, Inorganic compound | RAW_TEXT | CultureMech | |
| Properties: Inorganic compound, Simple component, Defined component | RAW_TEXT | CultureMech | |
| Sodium thiosulphate | EXACT_SYNONYM | merged_from_duplicate_mim_record | |
| Na-thiosulfate | EXACT_SYNONYM | merged_from_duplicate_mim_record | |
| NaS2O3 | EXACT_SYNONYM | merged_from_duplicate_mim_record | |
| Disodium thiosulfate | EXACT_SYNONYM | kg_microbe | |
| Sodium hyposulfite | EXACT_SYNONYM | kg_microbe | |
| Sodium oxide sulfide | EXACT_SYNONYM | kg_microbe | |
| Thiosulfuric acid, disodium salt | EXACT_SYNONYM | kg_microbe | |
| disodium sulfurothioate | EXACT_SYNONYM | kg_microbe | |
| (5% w/v solution) | RAW_TEXT | CultureMech | |
| Na2S2SO3 | RAW_TEXT | merge_from_UNMAPPED_0472 | |
| Na2S2O3 (if needed) | RAW_TEXT | culturemech:output/ingredient_occurrences.tsv |
Rejected enrichment labels (3)
Provenance-only candidates: these are not synonyms and do not resolve to this record.
| Rejected label | Disposition | Source | Occurrences |
|---|---|---|---|
| 2,5,8,11,14,17,20,23,26-nonaoxaoctacosan-28-ol | REJECTED_LABEL | kg_microbe | |
| O-methyl-nonaethyleneglycol | REJECTED_LABEL | kg_microbe | |
| nonaethylene glycol monomethyl ether | REJECTED_LABEL | kg_microbe |
Chemical properties
- Cas rn
- 7772-98-7
- Data source
- PubChem API
- Retrieval date
- 2026-04-05T19:53:19.078955+00:00
- Molecular formula
- 2Na.O3S2
- Inchi
- InChI=1S/2Na.H2O3S2/c;;1-5(2,3)4/h;;(H2,1,2,3,4)/q2*+1;/p-2
- Smiles
- O=S(=O)([O-])[S-].[Na+].[Na+]
Evidence (2)
DATABASE_MATCH
via CultureMech
Imported from CultureMech pipeline, quality=DIRECT_MATCH
MANUAL_CURATION
via cbclaw_kg_microbe_sweep
Corrected from CHEBI:59168 (nonaethylene glycol monomethyl ether — unrelated compound) to CHEBI:132112 (sodium thiosulfate). CAS-RN 7772-98-7 confirms sodium thiosulfate.
Occurrence statistics
- Total occurrences
- 119
- Distinct media
- 119
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 |
| 2026-04-05T19:53:19.078977+00:00 | fetch_cas_rn_from_pubchem | ADDED_CAS_RN | MAPPED | Added CAS-RN:7772-98-7 from PubChem API via name lookup (Na2S2O3) |
| 2026-04-05T21:48:45.828973+00:00 | fetch_cas_rn_from_culturebot_csv | ADDED_CAS_RN | MAPPED | Added CAS-RN:7772-98-7 from CultureBotHT compounds_to_cas.csv (matched: Sodium Thiosulfate) |
| 2026-04-05T21:48:45.830531+00:00 | fetch_cas_rn_from_culturebot_csv | ADDED_CAS_RN | MAPPED | Added CAS-RN:7772-98-7 from CultureBotHT compounds_to_cas.csv (matched: Sodium thiosulfate) |
| 2026-04-05T21:48:45.832214+00:00 | fetch_cas_rn_from_culturebot_csv | ADDED_CAS_RN | MAPPED | Added CAS-RN:7772-98-7 from CultureBotHT compounds_to_cas.csv (matched: sodium thiosulfate) |
| 2026-04-05T23:45:44.857791+00:00 | fetch_cas_rn_with_preprocessing | ADDED_CAS_RN | MAPPED | Added CAS-RN:7772-98-7 from PubChem API (preprocessed) via name preprocessing (Na-thiosulfate) |
| 2026-04-09T00:32:50.689620+00:00 | enrich_mim_cas_rn_batch | CAS_RN_ADDED | MAPPED | Added CAS-RN 7772-98-7 from PubChem (via CHEBI:132112) |
| 2026-04-18T00:00:00+00:00 | cbclaw_kg_microbe_sweep LLM | REMAPPED | MAPPED | Remapped CHEBI:59168 (nonaethylene glycol monomethyl ether) → CHEBI:132112 (sodium thiosulfate). Original CHEBI was an unrelated compound. |
| 2026-04-18T00:00:00+00:00 | cbclaw_kg_microbe_sweep LLM | ADDED_SYNONYMS | MAPPED | Added 3 synonyms from kg-microbe P4.4 enrichment: 2,5,8,11,14,17,20,23,26-nonaoxaoctacosan-28-ol, O-methyl-nonaethyleneglycol, nonaethylene glycol monomethyl ether |
| 2026-04-18T00:00:00+00:00 | cbclaw_kg_microbe_sweep LLM | ADDED_SYNONYMS | MAPPED | Added 7 synonyms from kg-microbe P4.4 enrichment: Disodium thiosulfate, Na-thiosulfate, Sodium hyposulfite, Sodium oxide sulfide, Sodium thiosulphate, ... (2 more) |
| 2026-04-18T00:00:00+00:00 | cbclaw_kg_microbe_sweep LLM | ADDED_SYNONYMS | MAPPED | Added 6 synonyms from kg-microbe P4.4 enrichment: Disodium thiosulfate, Na-thiosulfate, Sodium hyposulfite, Sodium oxide sulfide, Thiosulfuric acid, disodium salt, ... (1 more) |
| 2026-04-18T00:00:00+00:00 | cbclaw_kg_microbe_sweep LLM | ADDED_SYNONYMS | MAPPED | Added 6 synonyms from kg-microbe P4.4 enrichment: Disodium thiosulfate, Sodium hyposulfite, Sodium oxide sulfide, Sodium thiosulphate, Thiosulfuric acid, disodium salt, ... (1 more) |
| 2026-04-19T07:39:23.955331+00:00 | audit_mim_merge | MERGED_FROM_DUPLICATES | MAPPED | Absorbed 6 duplicate MIM record(s) into this one: Sodium_Thiosulfate.yaml, Sodium_Thiosulphate.yaml, Na-thiosulfate.yaml, Sodium_Thiosulfate_2.yaml, Nas2o3.yaml, Sodium_Thiosulfate_3.yaml. Synonyms, curation_history, and occurrence counts were unioned/summed; winner selected by highest occurrence count with preferred_term readability tie-break. |
| 2026-05-01T07:35:35.230698+00:00 | auto_classify_ingredient_type | AUTO_CLASSIFY_INGREDIENT_TYPE | set ingredient_type=SINGLE_INGREDIENT (CHEBI primary) | |
| 2026-05-01T08:08:31.297956+00:00 | auto_classify_ingredient_type | AUTO_BACKFILL_CHEBI_CHEMISTRY | molecular_formula=2Na.O3S2; inchi=InChI=1S/2Na.H2O3S2/c;;1-5(2,3)4/h;;(H2,1,2,3,4)/q; smiles=O=S(=O)([O-])[S-].[Na+].[Na+] | |
| 2026-05-02T03:12:17.041910+00:00 | auto_classify_ingredient_type | AUTO_CLASSIFY_INGREDIENT_TYPE | set ingredient_type=SINGLE_INGREDIENT (chemical structure populated (molecular_formula)) | |
| 2026-06-09T04:56:30.248076+00:00 | claude_in_session_curation | ANNOTATED | Added media role: ELECTRON_DONOR (confidence: 0.60) | |
| 2026-06-16T00:00:00+00:00 | merge_duplicate_unmapped LLM | MERGED_FROM_UNMAPPED_DUPLICATE | MAPPED | Absorbed duplicate UNMAPPED_0472 "Na2S2SO3". Edison deep research (literature) + MediaDive recipe context + local OAK CHEBI confirm this is a garbled spelling of 'Na2S2O3' (already mapped to CHEBI:132112); promotion would PK-collide, so absorbed here as a synonym. |
| 2026-07-20T00:00:00+00:00 | migrate_media_roles_to_facets | ANNOTATED | Migrated legacy media_roles to role facets (#128): ELECTRON_DONOR -> cellular_metabolic_roles.ELECTRON_DONOR | |
| 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 thiosulfate'; it matches the ChEBI synonym 'Sodium hyposulfite' on CHEBI:132112. 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). | |
| 2026-08-27T03:16:39.519486+00:00 | refresh_occurrence_statistics | CORRECTED | occurrence_statistics 70/70 -> 119/119 (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] | |
| 2026-08-30T04:48:06.233536+00:00 | claude_culturemech_alias_backfill | ADDED_SYNONYMS | Added 1 CultureMech recipe surface form(s) that folded onto this record's published label but were absent from MIM's label index, so CultureMech could not resolve them: 'Na2S2O3 (if needed)' (x2 CultureMech mentions). Source: culturemech:output/ingredient_occurrences.tsv. | |
| 2026-09-20T00:00:00Z | retire_wrong_compound_synonyms LLM | CORRECTED | Marked 3 synonym(s) non-resolving: ['2,5,8,11,14,17,20,23,26-nonaoxaoctacosan-28-ol', 'O-methyl-nonaethyleneglycol', 'nonaethylene glycol monomethyl ether']. ChEBI gives these names to CHEBI:59168, not to this record's CHEBI:132112 -- sodium thiosulfate is not a nonaethylene glycol ether. Kept as REJECTED_LABEL so a rebuild cannot restore them from kg-microbe's synonym list (#669). | |
| 2026-09-22T02:06:34+00:00 | codex_issue_710_semantic_evidence_review LLM | CORRECTED_ROLE_EVIDENCE | Added inspected primary-publication support and bounded organism/condition context to the cellular metabolic role (#710). Retained original computational provenance and confidence. See reports/semantic_review_20260921/resolution/roles/cellular-role-plan.json for the assertion-specific interpretation. |