Moving Files on the hub after USB sync

Hello all,

I purchased the hub over the weekend to replace our ATV2/NAS drive setup ion the kitchen.  I did this as interfacing with the NAS was too complex for my wife to use. 

I am syncing our media via USB as I type this, after some playing around it seemed to be the quickest option vs using the network as we have about 750gb of stuff to move over.  My question is once it has all synced can I the content again (quickly)?  I’d like to set up my own folder structure i.e. movies TV shows, family videos etc.  

Many Thanks