This study intends to create a ratiometric fluorescence probe utilizing aptamers for the detection of Vibrio parahaemolyticus (V. parahaemolyticus) in aquatic products. In this design, aptamer-functionalized magnetic nanoparticles specifically capture V. parahaemolyticus, while boric acid on Eu (III)-Based Metal-Organic Framework (Eu-MOF) interacts with glycolipids present on bacterial cells, thereby achieving dual recognition of V. parahaemolyticus. This fluorescent probe quantitatively detects V. parahaemolyticus by measuring the intensity of ratio fluorescence. The sensor demonstrates a detection range from 77 to 7.7 × 10