Abstract. The diel vertical migration (DVM) of zooplankton is one of the largest species migrations to occur globally and is a key driver of regional ecosystems and the marine carbon pump. Previously thought to be hampered by the extreme light regime prevailing in the Arctic Ocean, observations have revealed that DVM does occur in ice-covered Arctic waters and suggest the decline in Arctic sea ice may thereby impact DVM and its role in the Arctic ecosystem. However, coastal polynyas present a unique environment where open water or thin, nearly translucent, ice prevail when offshore winds advect the ice pack away from the coast, allowing light into the surface waters and potentially disrupting DVM. Here, four yearlong time series of acoustic backscatter collected by moored acoustic Doppler current profilers at two opposite sides of the circumpolar polynya system at the Laptev Sea shelf (2007–08) and the Beaufort Sea shelf (2005–06) were used to examine the annual cycle of acoustic scattering, and therefore the annual cycle of DVM in these areas. The acoustic time series were used along with atmospheric and oceanic reanalysis and satellite data to interpret the results. Our observations show that DVM started to occur once the ice-free surface or under-ice layer irradiance exceeds a certain threshold (from ~0.3 to 3.3 lux), which is about two to ten times lower in the Beaufort Sea compared to the Laptev Sea. In the Laptev Sea, DVM does not occur during polar night, while civil twilight in the Beaufort Sea is sufficient to trigger DVM through polar night. This difference in DVM between the Laptev and Beaufort Seas is not entirely assigned to the 3° difference in latitude between the mooring positions, but also to the different light threshold required to trigger DVM, different zooplankton communities' composition, and potentially different depths and predation pressure. We find examples in both the Laptev and Beaufort Seas where the formation of polynyas and large leads caused DVM to abruptly cease or be disrupted, which we attribute to predator avoidance by the zooplankton in response to higher polar cod abundance near the open water. Finally, light attenuation by sea-ice in the Beaufort Sea caused DVM to extend onto the polar day until summer solstice. Overall, our results highlight the role of sea ice in disrupting synchronized DVM, the spatial variability in the relationship between sea ice and DVM, and the potential ecological impact of significant trends toward a more extensive circumpolar Arctic coastal polynya as part of changing ice conditions in the Arctic Ocean.