Sealant for wood? Waterproof or not?

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I am turning a large shelf (4' wide 18" deep) into a enclosure for my 2yo beardie. This was a custom made "built in" shelving unit, and it is made out of high quality non treated plywood. I plan on sealing the gap between the wall and the shelf with a bead of general purpose white silicone, that should be fine right? I was wondering what type of paint/sealant I could put on the shelf to prevent poo staining the wood and prevent bacteria from growing (if that is even something I should be concerned about).

Would I still need to seal the sides and floor of the enclosure if i planned on using tile? Also what tile do most people buy, because the tile I have looked at seems to be too slippery.
 
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Mirage came out of brumation on April 26. He was doing great. On May 2 he started acting funny. We just redid his tank, and he keeps going into one of his hides. He just lays there. He shows no intrest in food. HELP!
is tape safe for fixing something in my leopard geckos hide?
Day 3 of brumation. It's a struggle. I really miss my little guy. 😔
Mirage entered brumation yesterday, I'm gonna miss hanging out with my little guy.

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