It happened around 4:30 p.m. at the Urban Outfitters store near Broadway and Fulton.
Video from our sister station, Eyewitness News in New York, streamed live on social media showed thousands of bees gathered at the base of the planter.
WATCH: NYPD beekeeper responds to swarm in Lower Manhattan
A beekeeper from the NYPD was vacuuming up the bees to remove them to a safer location.
There were no reports of any injuries.