You’ll still be able to read comics you’ve purchased through in-app purchasing in this new version, but you will need to sync purchases with the new app via the Restore function. And if you want, you can continue to read your existing comics through the old app; you just won’t be able to purchase new comics with it.
This is kind of a bummer. Doing everything through the iOS app was just so much easier.
Count me amongst those who think this is related to comixology being bought by Amazon.