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Gastro-Intestinal TractPractical Class
Mohammad Altamimi, MD, PhD
GIT module microbiology
Third year, Faculty of Medicine, Hashemite University
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Common causes of gastroenteritis
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Diagnostics Microbiology for GIT infections
• Stool analysis
• Microscopic examination
• Culture
• Biochemical identification
• Toxin assay
• Antigen and antibody detection
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1. Stool analysis
• Macroscopic and microscopic examination
• RBCs and WBCs
• Parasites and bacteria
• Stool for occult blood
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Protozoa: Entamoeba histolytica
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Flagellates: Giardia lamblia
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Nematodes: 1. Enterobius vermicularis(pinworm)
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Nemtaodes: 2. Trichuris trichiura (whipworm)
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Female Trichuris trichiura Male
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Nematodes: 3. Ascaris lumbricoides
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Adult worm of A. lumbricoides
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A ball of Ascaris lumbricoides worms removed from the colon of an adult
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Unfertilized Ascaris eggFertilized Ascaris Egg
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Nematodes: 4. Hookworms (Ancylostomadudenale, Necator americanus)
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Hookworm Egg
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Nematodes: 5. Strongyloides stercoralis
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Cestodes: 1. Taenia saginata(beef tapworms)
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Cestodes: 2. Diphyllobotrium latum (fish tapworns)
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Trematodes: Schistosomiasis
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S. japonicumS. haematobiumS. mansoni
Lateral spine
Terminal spine Rounded spine
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2. Stool culture
• Enriched media
• Shigella-Salmonella agar
• Macconeky agar
• Thiosulphate Citrate Bile Sucrose (TCBS) agar
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Yellow colonies of V. cholorae
due to sucrose fermentation