Update data/rag/knowledge_base/Bartonella/henselae.json

data/rag/knowledge_base/Bartonella/henselae.json

@@ -1,46 +1,102 @@
 {
+  "schema_version": "1.0",
+  "level": "species",
   "genus": "Bartonella",
   "species": "henselae",
-  "full_name": "Bartonella henselae",
-  "clinical_significance": "Most common cause of cat-scratch disease. Also responsible for bacillary angiomatosis and peliosis hepatis in immunocompromised patients. Transmitted by cat scratches, bites, or cat fleas.",
-  "phenotype_profile": {
-    "morphology": "Small pleomorphic Gram-negative rods; intracellular in endothelial cells.",
-    "culture": "Very slow-growing; small white colonies after 1–3 weeks on chocolate agar. CO₂ enhances growth.",
-    "biochemical": [
-      "Oxidase negative",
-      "Catalase negative",
-      "Motility variable",
-      "ONPG negative",
-      "Non-fermentative",
-      "No growth in high-salt media"
-    ]
+
+  "overview": {
+    "short": "Bartonella henselae is a fastidious, Gram-negative bacillus and the primary cause of cat scratch disease.",
+    "clinical_context": "Associated with cat exposure and causes lymphadenitis, bacillary angiomatosis, and culture-negative endocarditis."
   },
-  "differentiation": {
-    "from_close_species": [
-      "Cat exposure is highly suggestive of B. henselae.",
-      "More associated with vasculoproliferative disease than B. quintana.",
-      "PCR of lymph node aspirates is highly specific."
+
+  "expected_fields": {
+    "Gram Stain": "Negative",
+    "Shape": "Rods",
+    "Motility": "Negative",
+    "Capsule": "Negative",
+    "Spore Formation": "Negative",
+    "Haemolysis": "Negative",
+    "Haemolysis Type": "None",
+    "Media Grown On": [
+      "Chocolate Agar",
+      "Blood Agar"
     ],
-    "from_other_genera": [
-      "Negative Gram stain or faint rods distinguish from Pasteurella (cat bite infections).",
-      "Slow growth differentiates from Haemophilus."
-    ]
+    "Colony Morphology": [
+      "Small",
+      "Grey",
+      "Rough"
+    ],
+    "Oxygen Requirement": "Aerobic",
+    "Growth Temperature": "30//37",
+    "Catalase": "Negative",
+    "Oxidase": "Negative",
+    "Indole": "Negative",
+    "Urease": "Negative",
+    "Citrate": "Negative",
+    "Methyl Red": "Unknown",
+    "VP": "Unknown",
+    "H2S": "Negative",
+    "DNase": "Negative",
+    "ONPG": "Negative",
+    "Coagulase": "Negative",
+    "Gelatin Hydrolysis": "Negative",
+    "Esculin Hydrolysis": "Negative",
+    "Nitrate Reduction": "Negative",
+    "NaCl Tolerant (>=6%)": "Negative",
+    "Lipase Test": "Negative",
+    "Lysine Decarboxylase": "Negative",
+    "Ornithine Decarboxylase": "Negative",
+    "Ornitihine Decarboxylase": "Negative",
+    "Arginine dihydrolase": "Negative",
+    "Glucose Fermentation": "Negative",
+    "Lactose Fermentation": "Negative",
+    "Sucrose Fermentation": "Negative",
+    "Maltose Fermentation": "Negative",
+    "Mannitol Fermentation": "Negative",
+    "Sorbitol Fermentation": "Negative",
+    "Xylose Fermentation": "Negative",
+    "Rhamnose Fermentation": "Negative",
+    "Arabinose Fermentation": "Negative",
+    "Raffinose Fermentation": "Negative",
+    "Trehalose Fermentation": "Negative",
+    "Inositol Fermentation": "Negative",
+    "Gas Production": "Negative",
+    "TSI Pattern": "Unknown",
+    "Colony Pattern": "Unknown",
+    "Pigment": "None",
+    "Motility Type": "None"
   },
-  "virulence_factors": [
-    "BadA adhesin (endothelial binding)",
-    "Type IV secretion system",
-    "Angiogenic factors promoting vascular proliferation"
+
+  "species_markers": [
+    {
+      "field": "Clinical Association",
+      "value": "Cat exposure",
+      "importance": "high",
+      "notes": "Strong epidemiological link to cats and cat scratches."
+    }
+  ],
+
+  "common_confusions": [
+    {
+      "species": "Bartonella quintana",
+      "reason": "Similar fastidious growth and biochemical inactivity."
+    }
   ],
-  "confirmation_methods": [
-    "Serology (IgM/IgG anti–B. henselae)",
-    "PCR on lymph node tissue",
-    "Warthin–Starry stain",
-    "Prolonged culture on chocolate agar"
+
+  "when_to_question_identification": [
+    "Absence of cat exposure history.",
+    "Rapid growth on routine laboratory media.",
+    "Positive oxidase or catalase reactions."
   ],
-  "treatment_notes": "Azithromycin is first-line for cat-scratch disease. Doxycycline + rifampicin for bacillary angiomatosis.",
-  "notes": "Often causes unilateral lymphadenopathy in children after cat exposure.",
-  "references": [
-    "Cat-scratch disease guidelines",
-    "Bartonella henselae endothelial infection research"
+
+  "recommended_next_tests": [
+    {
+      "test": "Serology",
+      "reason": "Primary diagnostic method for cat scratch disease."
+    },
+    {
+      "test": "PCR",
+      "reason": "Sensitive detection from lymph node or blood samples."
+    }
   ]
-}
+}