The officer was part of a task force entering the home on Bayview Avenue just after 6:30 a.m.
When the pit bull attacked the officer, a NYPD officer working with the U.S. Marshals in the execution of the warrant opened fire, killing the dog.
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One of the rounds struck the federal agent in the left foot. The Marshal was taken to the hospital with a non-life threatening injury.
The dog was pronounced dead at the scene.
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The suspect was taken into custody on the warrant, and charges are pending.
He was identified as 25-year-old Javan Reaves, who is a suspect in a robbery that took place in New York.
The Hudson County Prosecutor's Office is investigating.