Obtainium vs Aurora Store for Updates

I’ve wondered about this. I am using a similar setup, with the method Side of Burritos shows in his video tutorial, where the main user is just for downloading and updating apps. It seems that all app stores catch on to the fact one of the apps in their store is on your device, nomatter where you downloaded it from. I never know if it matters where I update from (if I have to remember where I originally downloaded from).