Under times of high loadings, low dissolved oxygen, and general stress; we tend to see more primitive protozoa (flagellates). As the amount of soluble BOD/COD decreases and dissolved oxygen becomes more available the protozoa population becomes more complex with free-swiming ciliates, crawling ciliates, and stalk ciliates becoming increasingly common.
I have included a picture from a refinery activated sludge plant with a stalk ciliate attacted to the bacterial floc. When you see stalked ciliates in a wastewater system you generally have good floc formation, sufficient dissolved oxygen (DO), and efficient BOD/COD removal.