The 20-year-old from York City has been signed on a one-year-deal.
And the Dumfries team say that the right back has been on the radar of Queens manager Gary Naysmith for some time.
Naysmith said: “Shaun first came to my attention playing with Queens Park before he moved to Dunfermline Athletic and then on to York.
“He is around 6ft 3in and likes to get forward to support the attack.
“Although he is primarily a right back, he has also played in the centre of defence for York this season so his versatility will be important for the season ahead.”
Naysmith added: “He is a good age and has a lot of experience from someone not yet 21.
“I am looking forward to working with him and the rest of the squad when we report back on June 16 for testing.”
Shaun Rooney is the fourth new signing of the summer, following the additions of Alan Martin, Calum Fordyce and Andy Stirling, and played with Calum Fordyce during their time together at Dunfermline.