TYGVS + Glucose

kgmicrobe.ingredient:tygvs_glucose complex MAPPED kgmicrobe.ingredient FALLBACK_REGISTRY

Ontology mapping

Primary identifier
kgmicrobe.ingredient:tygvs_glucose
Notes
MicrobeDecoder TYGVS + glucose belongs to Treponema medium. Its original formula is not yet verified; oral TYGVS protocols differ in named casein digest. The prior rumen-medium interpretation is not established, and the current inferred components remain provisional.

Synonyms (1)

SynonymTypeSourceOccurrences
TYGVS + Glucose RAW_TEXT microbedecoder

Evidence (1)

MANUAL_CURATION via MIM semantic evidence review (#710)

Local registry label identity retained. It does not certify the still-provisional component decomposition or any particular TYGVS recipe.

Material components

Method
ABBREVIATION_EXPANSION
Completeness
UNKNOWN
ComponentIdentifierScopeConcentration
Trypticase peptone MICRO:0000175 MIM_CATALOG not stated
yeast extract FOODON:03315426 MIM_CATALOG not stated
glucose CHEBI:17234 MIM_CATALOG not stated
volatile fatty acid mixture (undefined) unmapped UNMAPPED not stated

Decomposition evidence

CURATED_DATASET mappings/microbedecoder_residual_research_decomposition.tsv — TYGVS + Glucose

Reviewed row: strategy=split, confidence=medium; Trypticase-Yeast-Glucose-VFA-Salts rumen medium (Caldwell & Bryant 1966) + extra glucose. VFA mix = acetate/propionate/butyrate/isobutyrate/valerate/isovalerate; no single CURIE.

CURATED_DATASET reports/semantic_review_20260921/resolution/components/source-contexts.json — database.csv row 20378; Bergey doi:10.1002/9781118960608.gbm01249

Source-context recovery identifies Treponema medium only. It does not verify the original inferred part list. Counterexamples in primary oral-medium methods name Trypticase (https://pmc.ncbi.nlm.nih.gov/articles/PMC145376/) versus Tryptone (https://academic.oup.com/femspd/article/60/3/251/530699). This provenance is not evidence of complete or exact composition.

Original inferred component claims remain unverified. Raw MicrobeDecoder context is Treponema medium, not a demonstrated rumen/Caldwell preparation. Later primary oral-medium recipes differ in named peptone (Trypticase versus Tryptone); matching the TYGVS acronym or oral context does not establish which preparation the original source used. The original recipe/citation chain must be inspected before constituent identity is certified.

Occurrence statistics

Total occurrences
0
Distinct media
0
Source occurrences
  • Source
    microbedecoder
    Count
    1
    Source columns
    bergey:substrates

Curation history

TimestampCuratorActionNew statusChanges
2026-08-04T02:54:09.684805+00:00 audit_import_ingredients[microbedecoder] CREATED_AS_UNMAPPED UNMAPPED Imported from microbedecoder (source_id=kgmicrobe.compound:tygvs_glucose); no CAS-RN or CHEBI/NCIT match. Curator review needed.
2026-08-05T00:01:30.894952+00:00 microbedecoder-residual-dispositions LLM FLAGGED_NEEDS_EXPERT NEEDS_EXPERT Not a single-compound grounding target: multi-component blend or named medium; no single ontology term grounds it -- needs decomposition into constituents.
2026-08-06T00:00:00+00:00 edison_literature_identity LLM ANNOTATED Edison LITERATURE (PaperQA3) identity research; report at research/ingredients/TYGVS_Glucose-edison-literature.md (local artifact — research/ is gitignored, so the findings are quoted here rather than linked). Report verdict: **Recommended entity class:** named culture-medium formulation / multi-component mixture. It is not a salt, hydrate, buffer, extract alone, or commercial single-product identity. CURIEs discussed: CHEBI:17234. Recorded as provenance only — no grounding applied from this run. Edison's recommendations are deliberately conservative, and a plausible identifier promoted by a mechanism that never decided anything is what #203 and #263 exist to undo. Any CURIE above is a curator's to accept or reject.
2026-08-14T00:00:00+00:00 decompose_substrate_combinations DECOMPOSED_TO_COMPONENTS MAPPED UNMAPPED_0776 -> kgmicrobe.ingredient:tygvs_glucose (FALLBACK_REGISTRY). The label enumerates its own constituents, so this is a decomposition rather than a mapping: no ontology has a term for 'TYGVS + Glucose', and none could — a combination is not a substance. Minted under the #288 STOCK_SOLUTION convention and split on '+', which transcribes the label rather than inferring anything. 1 of 2 constituents resolve to existing MIM records via docs/data/label_index.csv; TYGVS carries no component_id because MIM has no record for it. ingredient_type=UNDEFINED_MIXTURE because at least one constituent is itself an undefined preparation. No concentrations are recorded: the label states none.
2026-08-14T00:00:00+00:00 apply_curated_decompositions REPLACED_COMPONENTS_WITH_CURATED components replaced with the curated research decomposition, superseding the label split. Components taken from the curated microbedecoder research decomposition (mappings/microbedecoder_residual_research_decomposition.tsv, strategy=split): the label names its constituents. 4 constituent(s), 3 carrying an identifier. That file was produced by the research pass and never written into the records; this applies it. It resolves constituents a label split cannot — abbreviations such as PY, and named media such as BHI, state no composition to split on. ingredient_type=UNDEFINED_MIXTURE. No concentrations are recorded: the curated row states none.
2026-08-15T00:00:00+00:00 move_mapped_out_of_unmapped_collection MOVED_TO_MAPPED_COLLECTION Moved from unmapped_ingredients.yaml to mapped_ingredients.yaml (#370). The record was already MAPPED; it had been promoted in place by a path that does not move between collections, and reconcile_sssom reads only the mapped collection — so its mapping was curated but unpublished.
2026-08-24T00:00:00+00:00 migrate_component_partonomy TYPED_COMPONENT_PARTONOMY #369: added method/evidence/completeness and explicit reference scope to 4 existing component(s) (MIM_CATALOG, UNMAPPED); constituent names, identifiers, and concentrations were not changed.
2026-09-21T00:00:00+00:00 mim-semantic-evidence-review LLM ANNOTATED #710: recovered original Treponema medium source context for TYGVS + glucose and explicitly retained the existing decomposition as unverified. Adversarial comparison found Trypticase/Tryptone differences between primary oral-medium protocols; no constituent identity or assertion method was promoted from those different-species recipes.