UNDER EMBARGO - This dataset originates from the BE/2023 sampling campaign conducted in southwest Greenland fjords (Igaliku and Tunulliarfik) and quantifies grazing impacts by micro- and mesozooplankton on phytoplankton and heterotrophic microbial communities (including bacteria) in two fjord systems characterized by contrasting glacial regimes. Grazing and microbial growth rates were estimated using two-point dilution experiments (two-point dilution experiments), alongside experiments assessing mesozooplankton and copepod grazing on both phytoplankton and microzooplankton. Community responses were resolved using imaging flow cytometry, enabling the identification of plankton functional groups (autotrophic, mixotrophic, and heterotrophic) and size classes. The dataset also includes measurements of chlorophyll a variability determined by high-performance liquid chromatography. Overall, the dataset supports analyses of trophic interactions and grazing dynamics across the microbial food web under differing glacier-influenced environmental conditions.