As you might know already, you can only earn one chest per champion per season. It is possible to earn a chest with a champion without ever getting an S- or better grade by simply playing that champion while having a pre-made friend get an S- or better grade. Doing this will earn you a chest for the champion you are playing, not the one your friend is playing.
So for your specific situation, if you have played Rek'Sai and Shyvana when a pre-made friend earned an S- or better, then you have earned a chest for those champions.