Abstract Mesozooplankton play a key role in marine ecosystems as they modulate the transfer of energy from phytoplankton to large marine organisms. In addition, they directly influence the oceanic cycles of carbon and nutrients through vertical migrations, fecal pellet production, respiration, and excretion. Mesozooplankton are mainly made up of metazoans, which undergo important size changes during their life cycle, resulting in significant variations in metabolic rates. However, most marine biogeochemical models represent mesozooplankton as protists-like organisms. Here, we study the potential caveats of this simplistic representation by using a chemostat-like zero-dimensional model with four different Nutrient-Phytoplankton-Zooplankton configurations in which the description of mesozooplankton ranges from protist-type organisms to using a size-based formulation including explicit reproduction and ontogenetic growth. We show that the size-based formulation strongly impacts mesozooplankton. First, it generates a delay of a few months in the response to an increase in food availability. Second, the increase in mesozooplankton biomass displays much larger temporal variations, in the form of successive cohorts, because of the dependency of the ingestion rate to body size. However, the size-based formulation does not affect smaller plankton or nutrient concentrations. A proper assessment of these top-down effects would require implementing our size-resolved approach in a 3-dimensional biogeochemical model. Furthermore, the bottom-up effects on higher trophic levels resulting from the significant changes in the temporal dynamics of mesozooplankton could be estimated in an end-to-end model coupling low and high trophic levels.