Its sounds like the skimmer is insufficient if you're having this problem. It might be time for an upgrade. What is your current skimmer and how large is your system? Blasting air bubbles into the tank shouldn't hurt the fish but trapped air bubbles around the tissue of coral could kill them if you have any.
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Originally Posted by HaZRaTTy
The low oxygen would be direct cause from the algae using it for photosynthesis. I'm no biologist but it makes sense!
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Photosynthesis in plants and algae produces oxygen. Respiration in animals and fish uses it up and produces carbon dioxide.