More info at the link below.
http://wildlife.state.co.us/Colo_Wild_Co/fall1996/Whirling_Disease%5B1%5D.htmIn short it is a parasite that can cause nerve damage, skeletal deformities and death to fish.
"It goes through a complex, two-stage life cycle in which fish are just one of the hosts (animals in which the parasite lives). In the first part of its life cycle, the parasite is released from the bodies of diseased fish in the form of very hardy spores which can withstand drought and freezing and survive for decades in streams. These spores then infect a common type of worm, called tubifex, which lives in the muddy bottoms of streams and rivers. In the worm, the spores grow rapidly, changing into an active form which can infect fish. Once the parasites are released by the worm, the invade the bodies of healthy fish through the skin, migrating parallel to the nerves to the cartilage. Spores can also be transmitted when a fish eats an infected worm. Birds and mammals which have eaten infected fish can spread the spores to unaffected waterways via their feces."