Microalgae are microorganisms of great importance for aquatic ecosystems. The investigation of their interaction with potential environmental stressors like nanoparticles (NPs) is essential in order to assess their behavior and fate in aquatic ecosystems. The scope of this work is to investigate the response and potential toxic effects of the short-term exposure of Scenedesmus rubescens microalga to zinc oxide (ZnO) NPs with various initial nitrate concentrations in the culture medium. Scenedesmus rubescens was cultivated in four different compositions of modified BG-11 with a nitrate content varying from 0 to 300 mg/L, and it was exposed to four concentrations of ZnO NPs, ranging from 0.081 to 81 mg/L. S. rubescens was found to be resilient towards ZnO NP toxicity. The results also highlight the fact that the toxic effects of ZnO NPs on microalgae are highly dependent on the species tested. The nitrate content of the medium did not affect the toxicity of ZnO NPs but had a significant impact on cell concentration, as it was observed at an initial nitrate concentration of 300 mg/L. Further investigation should focus on studying the morphological and metabolic characteristics and mechanisms contributing to this species’ resilience.