Gordon Beckham went from hitting ninth to leading off, with Jordan Danks dropping from the top of the order to eighth. Alexei Ramirez moved from seventh to second, while Dayan Viciedo went from batting eighth to seventh.
Danks started his second straight game in center field, with Alejandro De Aza bothered by tightness in his back.
Following Chicago's loss to the Royals, Youkilis said he hoped to play on Wednesday.
"When you have aches and pains for a while it just got to the point where you have to slow down," Youkilis said.
Chris Silva contributed to this report.