The club announced on Monday, that Coyle, who only took over as coach six months ago, was leaving "by mutual agreement."
The latest defeats had left the Latics languishing in 14th place in the league and on the verge of Europa League elimination.
Coyle's side were swept aside 3-1 by Derby on Sunday with the manager using his post-match press conference to suggest some supporters' expectations were too lofty following an eight-year stint in the Premier League.
"It is with great sadness that we have made this decision and I would like to thank all my football staff and the staff at the club, who have been very supportive of me in my time here," said Coyle.
"I am confident that with this set of players, the team can keep moving in the right direction."
Wigan visit Leeds on Wednesday night and the club have placed first-team coach and former boss Graham Barrow along with assistant manager Sandy Stewart in charge for the clash.
Coyle, chosen ahead of Steve McClaren - the man who led Derby to victory at the DW Stadium - was originally tasked with rebuilding the side following the departure of Roberto Martinez and relegation from the Premier League.