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A common cause of diarrhoea and bloating in reptiles is an overgrowth in the bowel of a group of parasites called flagellates. These microscopic organisms are found as part of the normal flora in the gut of reptiles but in some cases their numbers increase and they start to cause problems. Recently I had a Central Bearded Dragon present with diarrhoea. I was able to get a fresh faecal sample from him (he went all over the consult table!) and look at it under the microscope. Here is a video of wh
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