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Pattinson broke down during last month's second Test against South Africa in Adelaide but was able to train with Australia's Test squad at the MCG nets yesterday morning.
"James is making good progress from the rib injury he sustained against South Africa," Kountouris said.
"He has resumed bowling and building up his bowling workloads to be available for the series against Sri Lanka."
The five-match ODI series starts on January 11 at the MCG.
Pattinson has a tremendous record in his seven-Test career of 31 wickets at an average of 22.09 and the 22-year-old is a key part of Australia's plans for the 2013 Ashes tour.
Allrounder John Hastings, who made his Test debut in Perth last month against South Africa before being rested from Big Bash League games for Melbourne Stars because of a back injury, is also returning to full fitness.
"John has recovered from the back injury. He is preparing to play in the (BBL) for the Melbourne Stars later this week," Kountouris said.
The Stars' next BBL game is in Adelaide against the Strikers on December 27.