{
  "id": "AssayMech:catalase-test",
  "name": "catalase test",
  "record_kind": "ONTOLOGY_ASSAY_CONCEPT",
  "categories": [
    "MICROBIAL_CHARACTERIZATION"
  ],
  "description": "An ontology assay concept for testing catalase activity using hydrogen peroxide and visible gas formation.",
  "limitations": [
    "This is an assay concept, with no organism or strain result asserted.",
    "METPO supplies a conceptual definition, not a complete executable protocol, validated threshold or performance estimate."
  ],
  "evidence": [
    {
      "reference": "https://github.com/berkeleybop/metpo/blob/800c9d27913158efdf466edf2cd710dbf1ce893f/metpo.json",
      "title": "METPO ontology at commit 800c9d27913158efdf466edf2cd710dbf1ce893f",
      "claim": "The selected class defines the named assay; its identity alone is not an organism-level positive or negative result.",
      "locator": "/graphs/0/nodes/1440",
      "source_license": "CC-BY-4.0"
    }
  ],
  "ontology_groundings": [
    {
      "term_id": "METPO:1007080",
      "term_name": "catalase test",
      "entity_type": "CLASS",
      "relation": "ASSAY_IDENTITY",
      "source_version": "800c9d27913158efdf466edf2cd710dbf1ce893f",
      "source_path": "metpo.json",
      "source_url": "https://github.com/berkeleybop/metpo/blob/800c9d27913158efdf466edf2cd710dbf1ce893f/metpo.json",
      "evidence": [
        {
          "reference": "https://github.com/berkeleybop/metpo/blob/800c9d27913158efdf466edf2cd710dbf1ce893f/metpo.json",
          "title": "METPO ontology at commit 800c9d27913158efdf466edf2cd710dbf1ce893f",
          "claim": "The pinned node is the named assay parent, distinct from its positive and negative outcome classes.",
          "locator": "/graphs/0/nodes/1440",
          "source_license": "CC-BY-4.0"
        }
      ]
    }
  ],
  "research_gaps": [
    {
      "scope": "cmmmech",
      "reason": "No source-backed correspondence between this assay concept and a specific CMM mechanism was established for this seed."
    },
    {
      "scope": "controls",
      "reason": "The selected METPO definition does not establish an assay-specific positive/negative control protocol."
    },
    {
      "scope": "protocol_parameters",
      "reason": "Reagent concentrations, incubation conditions, decision thresholds and performance characteristics require a separately sourced operational protocol."
    }
  ],
  "method": {
    "summary": "Expose cells to hydrogen peroxide and observe visible bubbling.",
    "evidence": [
      {
        "reference": "https://github.com/berkeleybop/metpo/blob/800c9d27913158efdf466edf2cd710dbf1ce893f/metpo.json",
        "title": "METPO ontology at commit 800c9d27913158efdf466edf2cd710dbf1ce893f",
        "claim": "The selected class defines the named assay; its identity alone is not an organism-level positive or negative result.",
        "locator": "/graphs/0/nodes/1440",
        "source_license": "CC-BY-4.0"
      }
    ]
  },
  "measurement": {
    "target": "Catalase activity",
    "readout": "Visible bubbling as a qualitative test response.",
    "interpretation": "A response must be interpreted under a separately specified protocol and controls; this record assigns no outcome to an organism.",
    "evidence": [
      {
        "reference": "https://github.com/berkeleybop/metpo/blob/800c9d27913158efdf466edf2cd710dbf1ce893f/metpo.json",
        "title": "METPO ontology at commit 800c9d27913158efdf466edf2cd710dbf1ce893f",
        "claim": "The selected class defines the named assay; its identity alone is not an organism-level positive or negative result.",
        "locator": "/graphs/0/nodes/1440",
        "source_license": "CC-BY-4.0"
      }
    ]
  },
  "curation_history": [
    {
      "timestamp": "2026-11-09T02:38:32Z",
      "curator": "assay-stream-c",
      "action": "CREATE",
      "summary": "Curate initial sourced assay concept or scoped operational assay",
      "history_file": "history/records/catalase-test/2026-11-09T023832Z-assay-stream-c-8407c5.yaml"
    }
  ]
}