Cilia are microscopic hair-like structures lining the surface of fluid-filled cavities and tubes of the body that interact with bacteria, such as the respiratory and urinary system. Here, we visualize the surprisingly complex, 3D flow patterns generated by organized cilia beating in an intact organism, the Hawaiian bobtail squid. This suggests that in the body, cilia fluid dynamics could play an important role in sensing, sampling, and sorting flow-borne bacteria, and thus aid in maintaining a healthy microbiome by preventing bacterial infection while allowing beneficial microbes to persist.
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