Rodent diversity and detection of Yersinia pestis in rodents. [Dataset 1. KaratuTz]

Description

These rodent data were collected from Karatu district Tanzania for the purpose of assessing factors that may influence plague disease in plague foci villages and non-plague foci villages within the district. Rodents were captured with Sherman live animal traps and anaesthetized for collection of blood sample that were used to make blood smear on a glass slide for the purpose of observation of Yersinia pestis under compound light microscope and then were identified using a guide book for rodent identification. The euthanized rodent were then dissected and organs such as lungs and spleen were taken for confirmation of (pla) gene of Y.pestis DNA under qPCR technic following the results from the microscopic observation of stained blood smear

Steps to reproduce

1. Request research permit from the relevant authority. 2. Rodent trapping using Sherman traps baited with peanut butter mixed with maize flour. 3. Leave traps on the field for at least three consecutive nights while inspecting every morning and afternoon for captured rodents; re-bait traps that has no baits. 4. Take the captured rodent to the processing area immediately for processing. 5. At the processing area; gently remove rodent from the trap using animal handling bag, anaesthetize rodent by putting in a bottle contained with cotton wool soaked with Diethyl ether. 6. Remove animal from the bottle after becoming immobile (seized any movement) and lost consciousness but still breathing (irregularly). Take blood sample with a microcapillary tubes through supraorbital vein puncture or direct from the heart using syringe and needle (terminal process). 7. Make blood smear with one drop of blood on a glass slide, air dry for at least 10 s, then fix in absolute methanol for 3 min to 5 min. 8. Preserve blood smear in dry place in a slide box for laboratory observation of Yersinia pestis coccobacilli using compound light microscope after staining with wright-giemsa stain. 9. For rodent's organ collection: Dissect a euthanized rodent and collect lungs and spleen for molecular confirmation of (pla) gene of Y.pestis DNA by using qPCT technic following results obtained from the microscope observation. 10. Preserve organ in Absolute Ethanol for long preservation of quality DNA of Y.pestis 11. DATA: Analyze rodent abundance and diversity using R programming language software and PAST software for diversity (Shannon–Wiener diversity index (H'). Present descriptive data in form of tables and charts. 12. Analyze factors influencing rodent abundance such as (habitat type, season of the year -wet and dry season, plague and non-plague foci villages and rodent species)

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