The type locality, a small creek in Juquitiba, is clear, with a slow current, mud, and in some places, sand on the bottom.
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P. juquiae has also been found in the ribeirão Poço Grande, a tributary on the right margin of the Juquiá River; this locality, an old swamp area near the city of Juquiá, is heavily impacted by human activities, and is also used for garbage and sewage disposal.