The investigation of the zooplankton community in the upstream part of Stratos reservoir during a 24 months survey (September 2004 -August 2006 revealed 26 invertebrate species (14 rotifers, 6 cladocerans, 5 copepods and one mollusk larva). The mean abundance of the total zooplankton was higher in the first sampling period (2004)(2005) and ranged between 8.81 and 47.74 ind. L −1 , than the second period (2005)(2006) when fluctuated between 1.91 and 43.09 ind. L −1 . The seasonal variation was strongly influenced by the presence of rotifers, which accounting on average for 68.4% in total. Among them Keratella cochlearis and the order Bdelloidea were numerically the most important, while Macrocyclops albidus prevailed among the copepods and Bosmina longirostris among the cladocerans. Dreissena polymorpha was the only mollusk found in the zooplankton community. Rotifers, copepods and cladocerans showed a seasonal succession with the former preceding in the abundance having their first maximum in spring, while copepods and cladocerans followed, having peaks of abundance in early summer and in autumn, respectively. No seasonal succession among the cladoceran species was observed. The intense water flow in the upstream part of the reservoir, as well as temperature, conductivity, DO, pH, phosphates and silicates, were significant parameters controlling abiotic and biotic elements of the ecosystem and consequently influencing the seasonal variation and the dynamics of the zooplankton community.