The 24-year-old leading run-scorer in England during their 3-2 Ashes win, will miss the Twenty20 and five one-day internationals starting on August 31.
Essex uncapped left-arm pace bowler Reece Topley, 21, has been named in a 13-man T20 squad BBC.
Ali Moeen-road, rested for ODIs against New Zealand this summer, it has been recalled for both formats.
The one-day squad has five players – MOEEN, Jos Buttler, Steven Finn, Ben Stokes and Mark Wood – who helped England win the Ashes.
James Topley and batter Vince, who were in the squad for the last T20 international against New Zealand, but did not play in the victory by 56 runs at Old Trafford,
retain their places.
Replace seamer Chris Woakes returns after injury.
Topley has taken 16 wickets at an average of 22.93 with a 9.02 economy rate in 11 T20 games Explosion Essex this season, while Vince Hampshire is the highest English
scorer in the competition run jointly 641.
There is no place in any squad for Jonny Bairstow.
England T20 squad:
Eoin Morgan (capt) , Moeen Ali , Sam Billings , Jos Buttler , Steven Finn , Alex Hales , Adil Rashid , Jason Roy ), Ben Stokes ), Reece Topley , James Vince , David Willey , Chris Woakes .
England ODI squad:
Eoin Morgan (capt) , Moeen Ali , Sam Billings , Jos Buttler , Steven Finn , Alex Hales , Liam Plunkett , Adil Rashid , Jason Roy , Ben Stokes , James Taylor , David Willey , Chris Woakes , Mark Wood
England v Australia limited-overs schedule
31 Aug: T20, Cardiff, 15:00 BST
3 Sep: 1st ODI, Southampton, 14:00
5 Sep: 2nd ODI, Lord’s, 10:30
8 Sep: 3rd ODI, Old Trafford, 14:00
11 Sep: 4th ODI, Headingley, 10:30
13 Sep: 5th ODI, Old Trafford, 10:30