{
  "vercy": "1.0-draft",
  "publication": {
    "status": "research-draft",
    "adjudicationStatus": "unreviewed",
    "publishableCanonical": false,
    "generatedAt": "2026-09-13T20:31:57Z",
    "providers": [
      "Claude"
    ],
    "breadth": "written by Claude from model knowledge without web access - no source was read, every claim is a lead to verify",
    "pass": 2,
    "wave": 4,
    "engine": "claude",
    "enrichment": {
      "pass": 3,
      "engine": "claude",
      "producedAt": "2026-10-06T12:00:00Z",
      "ingestedAt": "2026-10-06T07:35:24+00:00",
      "fields": [
        "agent_conduct",
        "ethics",
        "owners"
      ]
    },
    "gate": {
      "passed": true,
      "version": "1.0",
      "at": "2026-10-06T19:51:56+00:00",
      "evidence": [
        "completeness 1.00",
        "sense: Wikidata description",
        "2 live sources",
        "review by codex: pass"
      ]
    }
  },
  "metaModel": {
    "id": "THING-Q19081",
    "registryId": "vr.tr.prokaryotes",
    "name": "prokaryotes",
    "version": "0.2.0-wave.4",
    "entryKind": "thing",
    "family": "Thing Registry",
    "domain": [
      "PHY.LIV"
    ],
    "status": "research-draft"
  },
  "canonicalUrl": "https://ver.cy/models/thing/q19081/",
  "model": {
    "registry_id": "vr.tr.prokaryotes",
    "name": "prokaryotes",
    "purpose": "Let an agent explain prokaryotes, relay cell structure, diversity, ecology and classification debates from microbiology sources with attribution, describe the named groups, and distinguish prokaryotes from eukaryotes, viruses, Bacteria and Archaea as separate domains, and pathogens specifically.",
    "definition": "Single-celled organisms whose cells lack a membrane-bound nucleus, comprising the domains Bacteria and Archaea, the most abundant and metabolically diverse life on Earth, including groups such as methanotrophs that consume methane and marine prokaryotes that dominate ocean microbial communities; the term prokaryote reflects an older two-way division of life, and since Carl Woese s work in the 1970s many scientists regard Bacteria and Archaea as separate domains and question whether prokaryote is a natural group.",
    "what_it_is_for": "Not applicable; a category of organisms.",
    "affordances": [
      "explain cell structure and diversity",
      "relay classification debates",
      "describe named groups",
      "distinguish related categories"
    ],
    "distinguishing_features": [
      "No nucleus",
      "Circular chromosomes typically",
      "Enormous diversity",
      "Contested term"
    ],
    "appearance": "Microscopic cells, typically spheres, rods or spirals, visible under a microscope.",
    "visual_identification": [
      "Organisms without a cell nucleus",
      "Methanotroph, marine prokaryotes, bacteria, archaea",
      "Eukaryotes have nuclei; viruses are not cells; Bacteria and Archaea are distinct domains; only some prokaryotes cause disease"
    ],
    "physical_properties": [
      {
        "quantity": "typical size",
        "typical_range": "about 0.5-5",
        "unit": "micrometres",
        "note": ""
      },
      {
        "quantity": "three-domain system",
        "typical_range": "1977-1990",
        "unit": "years",
        "note": "Woese and colleagues"
      },
      {
        "quantity": "estimated global prokaryote cells",
        "typical_range": "about 10^30",
        "unit": "count",
        "note": "Whitman et al. 1998"
      }
    ],
    "families_and_kinds": [
      "Bacteria",
      "Archaea",
      "methanotrophs",
      "photosynthetic cyanobacteria",
      "marine and soil prokaryotes",
      "extremophiles"
    ],
    "related_models": [
      {
        "relation": "is a kind of",
        "target": "organism",
        "why": "in registry terms"
      },
      {
        "relation": "includes",
        "target": "Bacteria",
        "why": ""
      },
      {
        "relation": "includes",
        "target": "Archaea",
        "why": ""
      },
      {
        "relation": "is contrasted with",
        "target": "eukaryote",
        "why": ""
      }
    ],
    "identifiers": [],
    "standards_and_regulation": [
      "International Code of Nomenclature of Prokaryotes",
      "Biosafety rules for pathogenic strains"
    ],
    "failure_modes_and_hazards": [
      "Equating prokaryotes with germs",
      "Treating prokaryote as an undisputed clade",
      "Confusing bacteria and archaea"
    ],
    "in_scope": [],
    "out_of_scope": [],
    "characteristics": [],
    "agent_conduct": {
      "may": [
        "Describe prokaryotes and their roles in ecosystems, health and industry.",
        "Explain the difference between Bacteria and Archaea."
      ],
      "must_not": [
        "Assist in cultivating or modifying prokaryotes to cause harm to people, animals or crops.",
        "Treat all bacteria as germs to be killed.",
        "Recommend antibiotics without a clinician.",
        "Release engineered microorganisms outside approved containment."
      ],
      "requires_human": [
        "Work with pathogenic prokaryotes, which needs a qualified human under biosafety rules."
      ]
    },
    "ethics": {
      "considerations": [
        "Misuse of antibiotics breeds resistance that harms everyone.",
        "Knowledge of pathogens is dual use and must not be used to cause harm."
      ],
      "affected_parties": [
        "Patients",
        "Laboratory workers",
        "Ecosystems"
      ]
    },
    "owners": {
      "steward": "Nobody owns them; culture collections hold reference strains.",
      "master_systems": [
        "Microbial culture collections"
      ]
    }
  },
  "sources": [
    {
      "id": "wikidata",
      "title": "Wikidata item Q19081: prokaryotes",
      "url": "https://www.wikidata.org/wiki/Q19081",
      "url_status": "live",
      "what_it_supports": "identity and sense of the item",
      "checked_by": "wikidata-api"
    },
    {
      "id": "wikipedia-en",
      "title": "Wikipedia: Prokaryote",
      "url": "https://en.wikipedia.org/wiki/Prokaryote",
      "url_status": "live",
      "what_it_supports": "general description of the item",
      "checked_by": "wikidata-api sitelink"
    }
  ],
  "structure": {
    "bundles": [
      {
        "id": "understand",
        "name": "Understand",
        "description": "What prokaryotes are.",
        "rationale": "Science.",
        "layers": [
          {
            "id": "definition",
            "name": "Definition",
            "description": "Definition.",
            "findings": [
              {
                "id": "definition-finding",
                "name": "Definition",
                "description": "Definition.",
                "questions": [
                  {
                    "text": "What are prokaryotes, and how do they differ from eukaryotes, viruses, Bacteria versus Archaea and pathogens?",
                    "kind": "definition"
                  },
                  {
                    "text": "Is the question about biology, ecology, infection or classification?",
                    "kind": "boundary"
                  }
                ]
              }
            ]
          },
          {
            "id": "groups",
            "name": "Groups",
            "description": "Named groups.",
            "findings": [
              {
                "id": "groups-finding",
                "name": "Groups",
                "description": "Groups.",
                "questions": [
                  {
                    "text": "What are methanotrophs and marine prokaryotes?",
                    "kind": "definition"
                  },
                  {
                    "text": "Which entry fits the specific group?",
                    "kind": "action"
                  }
                ]
              }
            ]
          }
        ]
      },
      {
        "id": "biology",
        "name": "Biology",
        "description": "Cell biology.",
        "rationale": "Science.",
        "layers": [
          {
            "id": "structure",
            "name": "Structure",
            "description": "Cell structure.",
            "findings": [
              {
                "id": "structure-finding",
                "name": "Structure",
                "description": "Structure.",
                "questions": [
                  {
                    "text": "How are prokaryotic cells organised without a nucleus?",
                    "kind": "provenance"
                  },
                  {
                    "text": "Which references are standard?",
                    "kind": "provenance"
                  }
                ]
              }
            ]
          },
          {
            "id": "metabolism",
            "name": "Metabolism",
            "description": "Metabolic diversity.",
            "findings": [
              {
                "id": "metabolism-finding",
                "name": "Metabolism",
                "description": "Metabolism.",
                "questions": [
                  {
                    "text": "How do prokaryotes use diverse energy sources such as methane?",
                    "kind": "provenance"
                  },
                  {
                    "text": "Which sources are cited?",
                    "kind": "provenance"
                  }
                ]
              }
            ]
          }
        ]
      },
      {
        "id": "classification",
        "name": "Classification",
        "description": "Classification.",
        "rationale": "Attribution.",
        "layers": [
          {
            "id": "domains",
            "name": "Domains",
            "description": "Three domains.",
            "findings": [
              {
                "id": "domains-finding",
                "name": "Domains",
                "description": "Domains.",
                "questions": [
                  {
                    "text": "How did Woese s rRNA work lead to the three-domain system?",
                    "kind": "provenance"
                  },
                  {
                    "text": "Which entry fits three-domain system?",
                    "kind": "action"
                  }
                ]
              }
            ]
          },
          {
            "id": "debate",
            "name": "Debate",
            "description": "Concept debate.",
            "findings": [
              {
                "id": "debate-finding",
                "name": "Debate",
                "description": "Debate.",
                "questions": [
                  {
                    "text": "Why do some scientists argue against the term prokaryote, with positions attributed?",
                    "kind": "provenance"
                  },
                  {
                    "text": "Which entry fits Norman Pace?",
                    "kind": "action"
                  }
                ]
              }
            ]
          }
        ]
      },
      {
        "id": "context",
        "name": "Context",
        "description": "Ecology.",
        "rationale": "Context.",
        "layers": [
          {
            "id": "ocean",
            "name": "Ocean",
            "description": "Marine microbes.",
            "findings": [
              {
                "id": "ocean-finding",
                "name": "Ocean",
                "description": "Ocean.",
                "questions": [
                  {
                    "text": "How do marine prokaryotes drive ocean carbon and nutrient cycles?",
                    "kind": "provenance"
                  },
                  {
                    "text": "Which entry fits Prochlorococcus?",
                    "kind": "action"
                  }
                ]
              }
            ]
          },
          {
            "id": "climate",
            "name": "Climate",
            "description": "Methane cycling.",
            "findings": [
              {
                "id": "climate-finding",
                "name": "Climate",
                "description": "Climate.",
                "questions": [
                  {
                    "text": "How do methanotrophs affect atmospheric methane?",
                    "kind": "provenance"
                  },
                  {
                    "text": "Which entry fits methane cycle?",
                    "kind": "action"
                  }
                ]
              }
            ]
          }
        ]
      }
    ]
  },
  "openQuestions": [
    "Should methanotrophs be a separate entry?",
    "How should microbiology sources be linked?",
    "How should the prokaryote concept debate be recorded?"
  ],
  "statistics": {
    "bundles": 4,
    "layers": 8,
    "findings": 8,
    "questions": 16
  }
}