PY-glucose-rumen Fluid

kgmicrobe.ingredient:py_glucose_rumen_fluid complex MAPPED kgmicrobe.ingredient FALLBACK_REGISTRY

Ontology mapping

Primary identifier
kgmicrobe.ingredient:py_glucose_rumen_fluid
Notes
Imported from microbedecoder (source_id=kgmicrobe.compound:py_glucose_rumen_fluid); no CAS-RN or CHEBI/NCIT match. Curator review needed.

Synonyms (1)

SynonymTypeSourceOccurrences
PY-glucose-rumen Fluid RAW_TEXT microbedecoder

Evidence (1)

MANUAL_CURATION via MIM curation (#213/#308)

Components taken from the curated microbedecoder research decomposition (mappings/microbedecoder_residual_research_decomposition.tsv, strategy=split): the label names its constituents. 4 constituent(s), 4 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.

Material components

Method
ABBREVIATION_EXPANSION
Completeness
UNKNOWN
ComponentIdentifierScopeConcentration
peptone MICRO:0000178 MIM_CATALOG not stated
yeast extract FOODON:03315426 MIM_CATALOG not stated
glucose CHEBI:17234 MIM_CATALOG not stated
clarified rumen fluid MICRO:0000520 MIM_CATALOG not stated

Decomposition evidence

CURATED_DATASET mappings/microbedecoder_residual_research_decomposition.tsv — PY-glucose-rumen Fluid

Reviewed row: strategy=split, confidence=high; PY base + glucose + clarified rumen fluid. Rumen fluid: MICRO:0000520 (broadMatch) / UBERON:0010228 ruminal fluid; no exact term.

This is an ingredient/mixture has-part assertion, not an identity mapping, variant hierarchy, or complete culturing recipe.

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:py_glucose_rumen_fluid); 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/PY-glucose-rumen_Fluid-edison-literature.md (local artifact — research/ is gitignored, so the findings are quoted here rather than linked). Report verdict: **Recommended interpretation:** a legacy shorthand for a **multi-component culture formulation**, most plausibly **peptone–yeast medium supplemented with glucose and rumen fluid**. It is not a single chemical, salt, hydrate, buffer, or chemically defined ingredient. 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 apply_curated_decompositions DECOMPOSED_FROM_CURATED_RESEARCH MAPPED UNMAPPED_0768 -> kgmicrobe.ingredient:py_glucose_rumen_fluid (FALLBACK_REGISTRY). Components taken from the curated microbedecoder research decomposition (mappings/microbedecoder_residual_research_decomposition.tsv, strategy=split): the label names its constituents. 4 constituent(s), 4 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) (EXTERNAL_TERM, MIM_CATALOG); constituent names, identifiers, and concentrations were not changed.
2026-08-30T10:54:21.025609+00:00 claude_culturemech_residual_grounding UPDATED_COMPONENT_SCOPE reference_scope EXTERNAL_TERM -> MIM_CATALOG for component 3 (clarified rumen fluid): MICRO:0000520 was outside MIM when this partonomy was written and now has a record, so the component resolves inside the catalog rather than out of it.