data/rag/knowledge_base/Cellulomonas/flavigena.json

{
  "schema_version": "1.0",
  "level": "species",
  "genus": "Cellulomonas",
  "species": "flavigena",

  "overview": {
    "short": "Cellulomonas flavigena is a Gram-positive, aerobic rod characterized by yellow pigmentation and cellulose-degrading capability.",
    "clinical_context": "Primarily environmental; rarely implicated in opportunistic infections."
  },

  "expected_fields": {
    "Gram Stain": "Positive",
    "Shape": "Rods",
    "Motility": "Negative",
    "Capsule": "Unknown",
    "Spore Formation": "Negative",
    "Haemolysis": "Variable",
    "Haemolysis Type": "Unknown",
    "Media Grown On": [
      "Blood Agar",
      "Nutrient Agar"
    ],
    "Colony Morphology": [
      "Smooth",
      "Yellow",
      "Convex"
    ],
    "Oxygen Requirement": "Aerobe",
    "Growth Temperature": "20//37",
    "Catalase": "Positive",
    "Oxidase": "Negative",
    "Indole": "Negative",
    "Urease": "Negative",
    "Citrate": "Negative",
    "Methyl Red": "Unknown",
    "VP": "Negative",
    "H2S": "Negative",
    "DNase": "Variable",
    "ONPG": "Variable",
    "Coagulase": "Negative",
    "Gelatin Hydrolysis": "Positive",
    "Esculin Hydrolysis": "Positive",
    "Nitrate Reduction": "Variable",
    "NaCl Tolerant (>=6%)": "Negative",
    "Lipase Test": "Negative",
    "Lysine Decarboxylase": "Negative",
    "Ornithine Decarboxylase": "Negative",
    "Ornitihine Decarboxylase": "Negative",
    "Arginine dihydrolase": "Negative",
    "Glucose Fermentation": "Positive",
    "Lactose Fermentation": "Variable",
    "Sucrose Fermentation": "Positive",
    "Maltose Fermentation": "Positive",
    "Mannitol Fermentation": "Variable",
    "Sorbitol Fermentation": "Variable",
    "Xylose Fermentation": "Positive",
    "Rhamnose Fermentation": "Variable",
    "Arabinose Fermentation": "Positive",
    "Raffinose Fermentation": "Variable",
    "Trehalose Fermentation": "Positive",
    "Inositol Fermentation": "Negative",
    "Gas Production": "Negative",
    "TSI Pattern": "Unknown",
    "Colony Pattern": "Unknown",
    "Pigment": "Yellow",
    "Motility Type": "Unknown"
  },

  "species_markers": [
    {
      "field": "Motility",
      "value": "Negative",
      "importance": "high",
      "notes": "Non-motility distinguishes C. flavigena from C. fimi."
    },
    {
      "field": "DNase",
      "value": "Variable",
      "importance": "low",
      "notes": "Occasional DNase activity reported."
    }
  ],

  "common_confusions": [
    {
      "species": "Cellulomonas fimi",
      "reason": "Similar colony pigmentation and carbohydrate fermentation patterns."
    },
    {
      "genus": "Corynebacterium",
      "reason": "Overlapping Gram-positive rod morphology."
    }
  ],

  "when_to_question_identification": [
    "Motility detected.",
    "Strong DNase positivity present.",
    "Growth under anaerobic conditions observed."
  ],

  "recommended_next_tests": [
    {
      "test": "Motility testing",
      "reason": "Primary discriminator between Cellulomonas species.",
      "api_kit": "API Coryne"
    },
    {
      "test": "DNase test",
      "reason": "May assist in supporting identification.",
      "api_kit": "API Coryne"
    },
    {
      "test": "MALDI-TOF MS",
      "reason": "Gold standard confirmation for environmental isolates."
    }
  ]
}