Pocock will skipper the side in Hooper’s absence and shifts into the number seven jersey whilst fellow Brumby Pete Samu resumes his role at number eight, after starring against South Africa last weekend.
Hooper trained on Thursday on the Gold Coast but medical staff decided not to risk the 26-year old tomorrow night.
Qantas Wallabies coach Michael Cheika said: “He felt his hamstring a bit at training yesterday afternoon and with his recent history, we just thought it was best not to push it.
“He was really keen to play this weekend but a week off will be a good thing for him to just get it right,” Cheika said.
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Australia: 15 Dane Haylett-Petty, 14 Israel Folau, 13 Reece Hodge, 12 Matt Toomua, 11 Marika Koroibete, 10 Kurtley Beale, 9 Will Genia, 8 Pete Samu, 7 David Pocock (c), 6 Lukhan Tui, 5 Izack Rodda, 4 Rory Arnold, 3 Allan Alaalatoa, 2 Tatafu Polota-Nau, 1 Scott Sio
Replacements: 16 Folau Faingaa, 17 Sekope Kepu, 18 Taniela Tupou, 19 Adam Coleman, 20 Ned Hanigan, 21 Nick Phipps, 22 Bernard Foley, 23 Jack Maddocks