Don't worry. You can pretty much kill or piss off any NPC in Dark Souls and still finish the game just fine. You'd lose out on certain tactical options, but there's always an alternative method to get the job done.
For example, you could kill the Blacksmiths in the game without getting embers or the ability to upgrade by yourself, but still be able to create strong enough gear by going to Rickert (unkillable) and upgrade powerful weapons using Twinkling Titanite, or Dragon Scale. There are even non-upgradeable armors that are strong enough to finish the game.
Or you could let the firekeepers die and never upgrade your estus flask. You'd still be able to heal well enough with consumable humanity (which can be farmed). There really isn't any way to screw yourself, contrary to popular belief.
Haven't finished the expanded content, but the mushroom lady seems to be mostly there for story reasons. I predict you can still play through the content, you just might miss out on an item and some extra plot points. Though come to think of it, I wonder if killing Dusk before accessing the DLC content will prevent the portal from showing up. She's the reason you're going there in the first place. Knowing Dark Souls, I assume not.)
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