PAX-18 (polyaluminum chloride) is frequently used in WWTPs (wastewater treatment plants) to overcome sludge bulking. An alternative biological method is the usage of Lecane rotifers, which can be endangered by predacious fungi. We investigated the influence of different PAX-18 concentrations on the relationship between Lecane inermis and predacious fungi (Zoophagus and Lecophagus) differing in feeding mode. High PAX concentration (6 mg Al3+ L−1) strongly limited the number of the rotifers, which in low concentration (1.2 mg Al3+ L−1), after an initial decline, increased, but significantly slower than in control. Under the simultaneous influence of Lecophagus and PAX, rotifers were driven almost extinct at the high concentration, but survived at the lower concentration and increased in the control. When treated with Zoophagus, only one or two rotifers survived in treatments and control. High concentrations of PAX significantly restricted the growth of fungi, whereas in low concentrations and control conditions, their length increased, with Zoophagus growing much quicker than Lecophagus. Zoophagus was significantly more efficient in trapping rotifers regardless of PAX concentration. The trapping ability of mycelium following extended exposure to PAX was strongly limited at high concentrations, in comparison to control. Conidia of Zoophagus turned out to be considerably more resistant to PAX-18 and starvation than Lecophagus conidia.