Hussey withdrew from the January 14 clash in Canberra with a calf injury sustained while playing for the Sydney Thunder in the Twenty20 BigBash League on Friday.
Rogers played a key role in the recent Test series against India with six consecutive half-centuries.
“It’s a great honour for me to be selected as captain of the Prime Minister’s XI to take on England,” Rogers said.
“This is an important fixture on the Australian cricketing calendar and is steeped in tradition.
“I’m looking forward to following in the footsteps of Ricky Ponting, Brett Lee and others in leading this PM’s XI at Manuka Oval.”
PM’s XI players Pat Cummins and Glenn Maxwell were on Sunday named in Australia’s squad for next month’s Cricket World Cup in Australia and New Zealand