I chipped my Guitar. Help!?

Ok I have a 2007 Fender Mexican made Stratocaster that I bought in 09. Today, I took it out of my gig bag and I started playing in the basement. I hadn't played any gigs so no "stage damage" occured. I was playing and needed to work on the neck so I took it off and to my surprise as I was unscrewing it right next to the neck the paint/finish (black Fender) was chipped down to the wood. I screwed back in the neck and examined the spotand a loose flake came off. I looked around for the other peice and it was where I took my guitar out of the bag! And I definitely didn't hit it over there against anything. Now, my question is will the wood rot? I'm not worried about the look, it makes it cool, but do I need to get it fixed or some how seal the wood. Right now my strat is locked in my hardshell case so answers quick please.