I don't have to watch the video to have a general idea of all the awful crap people tend to do to animals. I don't think anyone's in favour of animal cruelty, and probably wouldn't object to there being punishment for people participating in particularly inhumane treatment of animals (finning of sharks immediately comes to mind, or the entirety of the ivory trade), but our civilization pretty much can't sustain itself without using animals in some capacity, for all the reasons you mentioned and more. It's not necessarily a bad thing, so long as people respect the animals they're harvesting/ using for domestic purposes. 

Actually, one of the reasons I find Dishonored's setting uncomfortable is the whole harvesting whales and skinning them alive for their oil that seems to power their entire energy industry. For some reason, that bothers me more than like 98% of stuff I've seen in entertainment media.

 But honestly, none of the cruelty really surprises me. We kind of have a long history of being colossal douchebags to one another and the natural world. I mean we used to fling diseased corpses over castle walls to sicken besieged cities and castles and slaughter entire towns because they happened to be born under the rule of the wrong King.