As I understand it, this uses the same protocols iTunes uses (or can use even if currently doesn't), so unless Apple breaks iTunes, these should either continue to work as is, or with modifications that will require adaptation.
Backup is done via a completely separate service.
iOS releases do tend to arbitrarily change the security policy of these services, but it's not clear that "Rootless" is anything more than business as usual. Guess we'll find out Monday.