There are other ebook reading apps than iBooks. If you have them installed, they will show up in the file sharing section. If you want to add books to those apps, you have to so separately. If you only are using iBooks, don't worry about it.
Added: This probably should be moved over to the Apple forum
Last edited by jgaiser; 08-28-2011 at 08:09 PM.
Reason: added note
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