Seasonal variations in zooplankton abundance, diversity and the physicochemical properties of the Niger River were studied during 2018 and 2019.The aim of this study is to carry out a comparative study of water quality and the zooplankton community in the River Niger between the high-water period (February 2019) and the low-water period (April 2018). To do this, three water samples were taken at each period and at each station, in order to determine the physico-chemical parameters and then identify the zooplankton. Qualitative analysis of zooplankton revealed the presence of 48 taxa belonging to three main taxonomic groups: Rotifera, Cladocera and Copepoda. During low-water periods, the most frequent taxa were rotifers (74.89%), followed by copepods and copepodites (20.17%) and cladocera (4.93%). In contrast to high-water sampling, copepods and copepodites are the most important (53.2%), followed by rotifers (32.63%) and cladocerans (14.09%).Rotifers are the most abundant group and the most resistant to changes in environmental variables. The physicochemical parameters that significantly influence zooplankton populations are pH, dissolved oxygen, temperature, total phosphorus, silica and chlorophyll-a.