An enclosure experiment was conducted in July–September 2001 in subtropical eutrophic Lake Donghu (China) to test a hypothesis that a moderate cyanobacterial biomass would have a positive effect on small-sized cladocerans. Eight enclosures (12.5 m3) were arranged with different nutrient concentrations using the lake water, tap water, and sediment from Lake Donghu. Microcystis blooms appeared in enclosures with higher nutrient concentrations and the average fresh weight biomass of Microcystis spp. ranged from 4.6 to 30.4 mg l−1 during the bloom period. Three cladocerans (Moina micrura, Diaphanosoma brachyurum, and Ceriodaphniacornuta) and two cyclopoids (Mesocyclops dissimilis and Thermocyclops taihokuensis) dominated the crustacean plankton community during the experimental period. The C. cornuta biomass constituted the greatest percentage (55.9–90.0%) of cladoceran biomass in the Microcystis bloom treatments. When the Microcystis biomass increased, the average biomass of C. cornuta increased and the biomass of M. micrura and D. brachyurum decreased, whereas the cyclopoid biomass did not change significantly. The total biomass of cladoceran and crustacean plankton were significantly positively correlated with the Microcystis biomass. Our results indicate that a moderate biomass of Microcystis spp. can favor crustacean plankton to some extent and, furthermore, may impact food web structures in a eutrophic lake.