Size-fractionated chlorophyll-a (chl-a) concentrations and the in situ grazing rates of the copepods, Pseudodiaptomus hessei and Acartia longipatella, were assessed seasonally at the temporarily open/closed Kasouga estuary situated along the southeast coast of southern Africa. Total integrated chl-a concentration ranged between 1.17 and 12.18 mg chl-a m^(–3) and was always dominated by small phytoplankton cells (<20 ?m), which comprised up to 86% (range 64–86%) of the total pigment. Total zooplankton abundance ranged between 2676 and 62 043 individuals m^(–3). These copepods numerically dominated the zooplankton counts, accounting for between 79% and 91% of the total. Gut pigment concentrations of the two species at night were significantly higher than the daytime values (P<0.05 in all cases). The observed pattern could be related to the marked diurnal vertical migration patterns exhibited by the copepods. Gut evacuation rates of P. hessei during the study ranged between 0.29 and 0.77 h^(–1) and between 0.39 and 0.58 h^(–1) for A. longipatella. The rate of gut pigment destruction for P. hessei and A. longipatella ranged between 55% and 81% and between 88% and 92% of the total chl-a ingested, respectively. The combined grazing impact of the two copepods ranged between 0.65 and 4.37 mg chl-a m^(–3), or between 4.3% and 35.9% of the available chl-a in the water column. Variations in the grazing activity of the two species could be attributed largely to seasonality in water temperature and shifts in the phytoplankton community structure and zooplankton abundance.