{ "vercy": "1.0-draft", "publication": { "status": "research-draft", "adjudicationStatus": "unreviewed", "publishableCanonical": false, "generatedAt": "2026-09-12T08:32:09Z", "providers": [ "Codex" ], "breadth": "recalled by Codex without web access - no source was read", "missingProviders": [], "pass": 2, "cost": { "grok": { "seconds": 21.8, "error": "Reading additional input from stdin...\nOpenAI Codex v0.153.4\n--------\nworkdir: R:\\02_PROJECTS\\02_Meta_Models_Platforms\\Ver.cy\\current\\thing-registry-backlog\nmodel: gpt-6-astra\nprovider: openai\napproval: never\nsandbox: read-only\nreasoning effort: none\nreasoning summaries: none\nsession id: 01a094bd-6e8d-7f91-a6df-c9e70680d585\n--------\nuser\nDescribe what is already known about one registered thing. Answer as JSON only, no prose around it.\n\nThing: cereulide\nSense to describe: (none recorded)\nDomain code: PHY.MAT\nAlso known as: (none)\n\n\nContext for this batch of 1001 things:\n# Batch 043: 1001 regis", "usd": 0.0, "recall": true }, "codex": { "seconds": 91.8, "error": "Reading additional input from stdin...\nOpenAI Codex v0.153.4\n--------\nworkdir: R:\\02_PROJECTS\\02_Meta_Models_Platforms\\Ver.cy\\current\\thing-registry-backlog\nmodel: gpt-6-astra\nprovider: openai\napproval: never\nsandbox: read-only\nreasoning effort: none\nreasoning summaries: none\nsession id: 01a094bd-6e9e-73f1-a2f5-b121b0b0c7bd\n--------\nuser\nYou are drafting a Vercy meta-model for one registered thing. Answer as JSON only, no prose around it.\n\nThing: cereulide\nRegistry id: vr.tr.cereulide\nPlane / domain: PHY / PHY.MAT\nRegistry definition: (none recorded)\nNames folded into this entry: (none)\n\n\nCont" } } }, "metaModel": { "id": "THING-Q14949467", "registryId": "vr.tr.cereulide", "name": "cereulide", "version": "0.1.0-research.1", "entryKind": "thing", "family": "Thing Registry", "domain": [ "PHY.MAT" ], "status": "research-draft" }, "canonicalUrl": "https://ver.cy/models/thing/q14949467/", "model": { "registry_id": "vr.tr.cereulide", "name": "cereulide", "purpose": "Enable an agent to identify cereulide, assess evidence of its presence and condition, and support justified analytical and safety decisions.", "definition": "Cereulide is a cyclic dodecadepsipeptide toxin produced by certain strains of Bacillus cereus that acts as a potassium ionophore and causes the emetic form of B. cereus food poisoning.", "scope_statement": "This model owns cereulide as the chemical substance registered as vr.tr.cereulide in PHY / PHY.MAT, including molecular identity, specimen composition, analytical evidence, persistence, and hazard interpretation.", "in_scope": [ "Cereulide molecular identity and boundaries with related compounds", "Purity, concentration, matrix association, and reference-material identity", "Chemical confirmation and uncertainty in measured amounts", "Condition-dependent persistence and evidence of degradation", "Toxicological evidence and applicable handling or decision constraints" ], "out_of_scope": [ "Bacillus cereus taxonomy, organism state, and cultivation", "Manufacturing or biosynthetic production procedures", "Complete models of contaminated foods and their supply chains", "Clinical diagnosis and treatment of food poisoning", "Other toxins or cereulide analogues as independent substances" ], "distinguishing_features": [ "Require the characteristic cyclic dodecadepsipeptide structure and stereochemistry; similarity to valinomycin is insufficient for identity. [Primary chemical study](https://pmc.ncbi.nlm.nih.gov/articles/PMC127581/)", "Confirm the chemical analyte independently of bacterial counts or evidence that a strain can produce toxin.", "Distinguish cereulide from Bacillus cereus protein enterotoxins by molecular identity rather than the shared producer name.", "Require chromatographic and mass-spectral agreement with an appropriate reference; biological activity alone does not establish identity.", "Record whether an analytical signal represents native cereulide, an isotope-labelled reference, or an unresolved related compound." ], "characteristics": [ { "name": "Structure and stereochemical identity", "kind": "category", "unit_or_values": "Verified structure identifier and stereochemical representation; unresolved", "why_it_matters": "Separates cereulide from structurally related depsipeptides." }, { "name": "External chemical identifiers", "kind": "relation", "unit_or_values": "Source-verified CAS number, PubChem CID, EC identifier where assigned", "why_it_matters": "Connects records without relying on similar names or supplier labels." }, { "name": "Material presentation", "kind": "state", "unit_or_values": "Isolated material; reference solution; matrix-associated analyte; extract; unknown", "why_it_matters": "Determines which composition and condition claims apply." }, { "name": "Cereulide purity", "kind": "measurement", "unit_or_values": "% with mass, molar, or analytical-area basis and method", "why_it_matters": "Prevents an assay-area percentage from being treated as certified mass purity." }, { "name": "Cereulide concentration", "kind": "measurement", "unit_or_values": "µg/kg of matrix or ng/mL of solution, with uncertainty and reporting basis", "why_it_matters": "Makes toxin burden comparable while separating extract values from original-sample values." }, { "name": "Analytical determination state", "kind": "state", "unit_or_values": "Not tested; inconclusive; not detected; detected below quantification limit; quantified", "why_it_matters": "Prevents a limited measurement from becoming an unsupported absence claim." }, { "name": "Detection and quantification limits", "kind": "measurement", "unit_or_values": "Same concentration units and matrix basis as the reported result", "why_it_matters": "Defines what the assay can establish for the particular sample." }, { "name": "Reference-material traceability", "kind": "relation", "unit_or_values": "Supplier, lot, certificate, assigned concentration, purity, and isotope status", "why_it_matters": "Supports confidence in analyte identification and calibration." }, { "name": "Condition history", "kind": "measurement", "unit_or_values": "Temperature in °C, duration in h, pH where meaningful, and solvent or matrix", "why_it_matters": "Makes persistence claims specific to an observed exposure." }, { "name": "Residual cereulide", "kind": "measurement", "unit_or_values": "% remaining or concentration after a documented treatment", "why_it_matters": "Tests a removal or degradation claim directly." }, { "name": "Biological-effect evidence", "kind": "relation", "unit_or_values": "Endpoint, test system, exposure, response, and supporting study", "why_it_matters": "Keeps measured chemical quantity distinct from demonstrated biological effect." }, { "name": "Applicable hazard and decision record", "kind": "relation", "unit_or_values": "Jurisdiction, authority, material form, classification or criterion, effective date", "why_it_matters": "Prevents unsupported universal hazard classifications or acceptance limits." } ], "affordances": [ "Reconcile a cereulide-labelled record with verified structural identity.", "Select an analytical service whose validated scope covers the sample matrix.", "Compare measurements after aligning units, reporting basis, and uncertainty.", "Flag unsupported absence or safety conclusions from bacterial tests or heating history.", "Assess whether a reference material remains suitable for its documented analytical use.", "Route a contamination finding to the responsible food-safety or laboratory workflow." ], "what_it_is_for": [ "Cereulide is encountered in food safety investigations and research on toxin-producing strains of Bacillus cereus.", "Laboratory analysis of food or other relevant samples supports assessment of contamination and suspected emetic food poisoning.", "Detecting the organism alone does not establish the presence or amount of cereulide." ], "standards_and_regulation": [ "Regulation (EC) No 178/2002, adopted by the European Parliament and the Council of the European Union, establishes general food safety obligations relevant to food contaminated with cereulide." ], "failure_modes_and_hazards": [ "Ingestion of contaminated food can cause vomiting and, in severe cases, life-threatening systemic illness.", "The toxin's heat stability can allow a hazard to persist after heating that reduces viable bacteria.", "Reliance on appearance, smell or bacterial counts alone can lead to false reassurance about food safety." ], "facets_not_applicable": { "recognition": "Cereulide has no reliable visual cues that distinguish it in food or laboratory samples, so identification requires analytical testing." } }, "sources": [ { "id": "wikidata", "title": "Wikidata item Q14949467: cereulide", "url": "https://www.wikidata.org/wiki/Q14949467", "url_status": "live", "what_it_supports": "identity and sense of the item", "checked_by": "wikidata-api" }, { "id": "wikipedia-en", "title": "Wikipedia: Cereulide", "url": "https://en.wikipedia.org/wiki/Cereulide", "url_status": "live", "what_it_supports": "general description of the item", "checked_by": "wikidata-api sitelink" } ], "structure": { "bundles": [ { "id": "cereulide-identity", "name": "Cereulide identity", "description": "Resolve the substance independently of producer, symptoms, and similar chemical names.", "rationale": "An incorrect analyte boundary invalidates subsequent measurements and decisions.", "layers": [ { "id": "molecular-definition", "name": "Molecular definition", "description": "Establish structural evidence for the registered substance.", "findings": [ { "id": "structural-identity", "name": "Structural identity", "description": "Require connectivity and stereochemistry when reconciling cereulide identifiers.", "questions": [ { "text": "Which verified structural representation defines cereulide in this record?", "kind": "definition", "id": "structural-identity-q01" }, { "text": "Which authoritative records establish that the supplied identifiers denote that same structure?", "kind": "provenance", "id": "structural-identity-q02" } ] } ] }, { "id": "related-analyte-boundaries", "name": "Related analyte boundaries", "description": "Separate the parent substance from analytical references and neighbouring compounds.", "findings": [ { "id": "parent-versus-related-signal", "name": "Parent versus related signal", "description": "Record whether the reported result is specific to native cereulide or aggregates other signals.", "questions": [ { "text": "Does the result identify native cereulide, a labelled reference, or an unresolved mixture?", "kind": "boundary", "id": "parent-versus-related-signal-q01" }, { "text": "What evidence excludes valinomycin or related cereulide compounds from the assigned signal?", "kind": "measurement", "id": "parent-versus-related-signal-q02" } ] } ] } ] }, { "id": "material-and-matrix", "name": "Material and matrix", "description": "Describe the cereulide-bearing specimen and the basis of its composition claims.", "rationale": "A reference solution, extract, and food specimen require different interpretations of amount and purity.", "layers": [ { "id": "specimen-composition", "name": "Specimen composition", "description": "Locate the substance within an identified material presentation.", "findings": [ { "id": "amount-and-basis", "name": "Amount and basis", "description": "Bind concentration and purity to the material actually measured.", "questions": [ { "text": "Is cereulide present as isolated material, a solution, or an analyte within a named matrix?", "kind": "definition", "id": "amount-and-basis-q01" }, { "text": "What concentration or purity was measured, on which basis, and with what uncertainty?", "kind": "measurement", "id": "amount-and-basis-q02" } ] } ] }, { "id": "reference-and-origin", "name": "Reference and origin", "description": "Trace sample identity and reference suitability without owning production processes.", "findings": [ { "id": "traceable-material", "name": "Traceable material", "description": "Connect a specimen to its lot, custody history, and supporting documentation.", "questions": [ { "text": "Which sample or reference lot and certificate support this cereulide record?", "kind": "provenance", "id": "traceable-material-q01" }, { "text": "Does the documentation establish analyte identity and assigned amount separately from any claimed biological origin?", "kind": "boundary", "id": "traceable-material-q02" } ] } ] } ] }, { "id": "chemical-determination", "name": "Chemical determination", "description": "Establish analyte-specific presence and quantity.", "rationale": "Producer detection and nonspecific activity cannot substitute for a defensible cereulide measurement.", "layers": [ { "id": "identity-confirmation", "name": "Identity confirmation", "description": "Evaluate the chemical evidence behind a positive identification.", "findings": [ { "id": "reference-matched-detection", "name": "Reference-matched detection", "description": "FDA describes LC-MS/MS determination using labelled cereulide and identity checks. [FDA analytical method](https://www.fda.gov/food/laboratory-methods-food/bam-quantitative-analysis-cereulide-food-products)", "questions": [ { "text": "Which chromatographic and mass-spectral acceptance criteria did this sample meet?", "kind": "measurement", "id": "reference-matched-detection-q01" }, { "text": "Which reference material and method version support the identification?", "kind": "provenance", "id": "reference-matched-detection-q02" } ] } ] }, { "id": "quantification-confidence", "name": "Quantification confidence", "description": "Represent the limits of the numerical result.", "findings": [ { "id": "matrix-qualified-result", "name": "Matrix-qualified result", "description": "Require matrix applicability, calibration evidence, reporting limits, and uncertainty.", "questions": [ { "text": "What recovery, matrix-effect, and calibration evidence supports this result in this matrix?", "kind": "measurement", "id": "matrix-qualified-result-q01" }, { "text": "Do the detection and quantification limits justify the reported determination state?", "kind": "measurement", "id": "matrix-qualified-result-q02" }, { "text": "Is confirmation or repeat analysis required before the result supports a decision?", "kind": "action", "id": "matrix-qualified-result-q03" } ] } ] } ] }, { "id": "persistence-and-condition", "name": "Persistence and condition", "description": "Assess whether documented conditions changed the amount or integrity of cereulide.", "rationale": "A treatment history alone does not establish toxin elimination.", "layers": [ { "id": "exposure-history", "name": "Exposure history", "description": "Connect stability interpretations to measured conditions.", "findings": [ { "id": "conditional-resistance", "name": "Conditional resistance", "description": "Cereulide resists heat, acid, and digestive enzymes; this does not specify unlimited stability. [FDA cereulide overview](https://www.fda.gov/food/laboratory-methods-food/bam-quantitative-analysis-cereulide-food-products)", "questions": [ { "text": "Which temperature, duration, pH, and matrix describe the claimed persistence or degradation?", "kind": "measurement", "id": "conditional-resistance-q01" }, { "text": "Was residual cereulide measured, or was its absence inferred from a treatment?", "kind": "boundary", "id": "conditional-resistance-q02" } ] } ] }, { "id": "material-integrity", "name": "Material integrity", "description": "Assess the continuing suitability of stored samples and standards.", "findings": [ { "id": "storage-qualified-use", "name": "Storage-qualified use", "description": "Evaluate storage and expiry evidence for the actual cereulide preparation.", "questions": [ { "text": "Which documented storage conditions and integrity checks apply to this lot and solvent or matrix?", "kind": "provenance", "id": "storage-qualified-use-q01" }, { "text": "Does an excursion or expired assignment require requalification before analytical use?", "kind": "action", "id": "storage-qualified-use-q02" } ] } ] } ] }, { "id": "hazard-and-decisions", "name": "Hazard and decisions", "description": "Translate cereulide evidence into bounded hazard interpretations and accountable actions.", "rationale": "Chemical presence, biological effect, and regulatory disposition require different evidence.", "layers": [ { "id": "toxicological-interpretation", "name": "Toxicological interpretation", "description": "Link exposure evidence to supported effects without diagnosing a patient.", "findings": [ { "id": "effect-and-exposure", "name": "Effect and exposure", "description": "Cereulide is an emetic toxin with mitochondrial ionophore activity. [FDA hazard description](https://www.fda.gov/food/laboratory-methods-food/bam-quantitative-analysis-cereulide-food-products)", "questions": [ { "text": "Which endpoint, exposure route, and test population support the hazard claim?", "kind": "provenance", "id": "effect-and-exposure-q01" }, { "text": "What additional intake information is needed to relate the measured concentration to exposure?", "kind": "measurement", "id": "effect-and-exposure-q02" }, { "text": "Is a biological-effect result being incorrectly treated as an analyte-specific concentration?", "kind": "boundary", "id": "effect-and-exposure-q03" } ] } ] }, { "id": "applicable-controls", "name": "Applicable controls", "description": "Locate current requirements and the authority responsible for disposition.", "findings": [ { "id": "evidence-based-disposition", "name": "Evidence-based disposition", "description": "Require a sourced, applicable criterion before assigning acceptance, handling, or disposal status.", "questions": [ { "text": "Which current jurisdictional criterion or material-specific safety document applies?", "kind": "provenance", "id": "evidence-based-disposition-q01" }, { "text": "What authorized review or control action follows from this result and its uncertainty?", "kind": "action", "id": "evidence-based-disposition-q02" }, { "text": "Does the proposed decision rely only on bacterial absence or heating instead of toxin evidence?", "kind": "boundary", "id": "evidence-based-disposition-q03" } ] } ] } ] }, { "id": "evidence-and-external-alignment", "name": "Evidence and external alignment", "description": "What the world already says about this thing, gathered so the model can be checked against it.", "rationale": "A model that cannot be lined up against existing standards, identifiers and practice cannot be adopted by anyone who already uses them.", "layers": [ { "id": "reported-evidence", "name": "Reported evidence", "description": "Findings from the breadth pass, kept separate from the structural claims.", "findings": [ { "id": "evidence-confidence-notes", "name": "Check these first", "description": "Recalled without web access and unsourced; every item is a lead to verify.", "evidence": [ "This is recalled knowledge, not a source-verified account.", "Verify the current edition and scope of ISO 18465 before laboratory or regulatory use.", "Human dose-response thresholds, jurisdiction-specific limits and numerical thermal-inactivation conditions require research; none are asserted here." ], "questions": [ { "id": "evidence-confidence-notes-q01", "text": "Which of these check these first hold for the sense of cereulide this model covers, and on what evidence?", "kind": "provenance" } ] }, { "id": "evidence-identifiers", "name": "Identifiers and schemes", "description": "Recalled without web access and unsourced; every item is a lead to verify.", "evidence": [ { "scheme": "Molecular formula", "value_or_pattern": "C57H96N6O18", "note": "Describes elemental composition; does not uniquely specify connectivity or stereochemistry." } ], "questions": [ { "id": "evidence-identifiers-q01", "text": "Which of these identifiers and schemes hold for the sense of cereulide this model covers, and on what evidence?", "kind": "provenance" } ] }, { "id": "evidence-standards-and-regulation", "name": "Standards and regulation", "description": "Recalled without web access and unsourced; every item is a lead to verify.", "evidence": [ "ISO 18465, issued by the International Organization for Standardization, specifies quantitative determination of cereulide in food-chain samples using LC-MS/MS." ], "questions": [ { "id": "evidence-standards-and-regulation-q01", "text": "Which of these standards and regulation hold for the sense of cereulide this model covers, and on what evidence?", "kind": "provenance" } ] }, { "id": "evidence-real-world-use", "name": "Real-world use", "description": "Recalled without web access and unsourced; every item is a lead to verify.", "evidence": [ "Target analyte in investigations of emetic food poisoning.", "Reference material for developing and validating food-testing methods.", "Research tool for studying potassium transport and mitochondrial dysfunction." ], "questions": [ { "id": "evidence-real-world-use-q01", "text": "Which of these real-world use hold for the sense of cereulide this model covers, and on what evidence?", "kind": "provenance" } ] }, { "id": "evidence-measurements", "name": "Typical measurements", "description": "Recalled without web access and unsourced; every item is a lead to verify.", "evidence": [ { "quantity": "Molar mass", "typical_range": "Approximately 1153.4", "unit": "g/mol" }, { "quantity": "Concentration in food", "typical_range": "Sample-dependent; commonly quantified using LC-MS/MS", "unit": "µg/kg" } ], "questions": [ { "id": "evidence-measurements-q01", "text": "Which of these typical measurements hold for the sense of cereulide this model covers, and on what evidence?", "kind": "provenance" } ] }, { "id": "evidence-failure-modes-and-hazards", "name": "Failure modes and hazards", "description": "Recalled without web access and unsourced; every item is a lead to verify.", "evidence": [ "Ingestion of toxin already formed in food can cause nausea and vomiting.", "Severe poisoning can cause acute liver failure and can be fatal.", "Its heat resistance means ordinary cooking or reheating cannot be relied upon to eliminate toxin already present.", "Its resistance to acid and digestive enzymes contributes to persistence during ingestion.", "Potassium transport across mitochondrial membranes disrupts membrane potential and cellular energy metabolism." ], "questions": [ { "id": "evidence-failure-modes-and-hazards-q01", "text": "Which of these failure modes and hazards hold for the sense of cereulide this model covers, and on what evidence?", "kind": "provenance" } ] }, { "id": "evidence-neighbours", "name": "Neighbouring kinds and how to tell them apart", "description": "Recalled without web access and unsourced; every item is a lead to verify.", "evidence": [ { "name": "Isocereulides", "difference": "Related structural variants with altered residue composition; they are distinct molecules and may differ in toxicity." }, { "name": "Valinomycin", "difference": "Another cyclic dodecadepsipeptide potassium ionophore, distinguished by its residue sequence and chemical structure." }, { "name": "Bacillus cereus", "difference": "The bacterial organism; cereulide is a toxin produced by only certain strains." }, { "name": "Bacillus cereus diarrhoeal enterotoxins", "difference": "Protein toxins associated with diarrhoeal disease, chemically and mechanistically distinct from cereulide." } ], "questions": [ { "id": "evidence-neighbours-q01", "text": "Which of these neighbouring kinds and how to tell them apart hold for the sense of cereulide this model covers, and on what evidence?", "kind": "provenance" } ] } ] } ] } ] }, "openQuestions": [ "Which authoritative CAS, PubChem, and EC records resolve to the exact cereulide structure, and which identifiers are unassigned?", "Which related cereulide compounds require explicit analytical exclusion, and how should unresolved combined results be labelled without expanding this registry entry?", "Which measured solubility, phase-transition, and decomposition data are reliable for specified purity and conditions, including whether a meaningful boiling point is available?", "Which current exposure benchmarks, food decision criteria, GHS classifications, and occupational limits apply in the intended jurisdictions and material forms?", "What matrix-specific evidence establishes cereulide degradation, residual biological activity, and suitable storage periods?" ], "statistics": { "bundles": 6, "layers": 11, "findings": 17, "questions": 30 } }