Most people run 17s on JKs, though I believe the Sport level ones came with 16s. You will find a much better selection of wheels and tires at 17 though.
Be careful when buying wheels, because the bolt pattern changed when they released the JK. The old TJs which last year was 2006 had a 4.5 on 5 and they tend to use 15s. JKs have a 5.5 on 5 bolt pattern and many sites I looked at when i upgraded my wheels would say both would fit, even though it was not true.
So yes, many 16s will fit, but look around at tires before buying, because 17s in my experience are much much easier to get tires for. Also, bigger fatter tires may not fit if there is not enough backspace on the new wheel.
with a 2.5 lift, you could probably fit 35s, but unless it's a Rubicon anything above 33" would essentially need you to regear.
Tell us a bit about your jeep as different years, trim levels, and transmissions (manual vs auto) make a difference.