The Deep Scattering Layer (DSL), a stratum of marine Diel Vertical Migration (DVM) organisms inhabiting the mesopelagic ocean, plays a crucial role in transporting carbon and nutrients from the surface to depth through the migration of its organisms. Here, using 18 months in-situ observations and altimeter sea level data, we observed for the first time the intraseasonal variation of the DSL and the DVM of zooplankton and micronekton to the east of the Taiwan Island, and revealed the underlying dynamics. The vertical speeds returned from the Acoustic Doppler Current Profiler are used to investigate the distribution and variation of the DVM innovatively. Results of power spectrum analysis of the scattering intensity indicate that the DSL exhibits a significant intraseasonal variability (ISV) with an 80-day period. Simultaneously, the variation of the DVM is linked to the DSL, and also shows an 80-day ISV during the observation. Dynamically, the ISV of the DSL to the east of the Taiwan Island is correlated with the westward-propagating mesoscale eddies. When anticyclonic (cyclonic) eddies move towards the Taiwan Island, the local isotherms bend downward (upward), resulting in warming (cooling) in the DSL, and thus the upper boundary layer of the DSL gradually deepens (rises). These findings highlight the significant influence of mesoscale eddies on biological activity in the mesopelagic ocean.