Ramiro Pena started at shortstop while Brett Gardner, who had three infield hits and a stolen base on Saturday, moved up to the leadoff spot.
Jeter left Saturday's 7-3 win over the Rangers in the seventh inning due to the cold, and manager Joe Girardi said he planned to give the shortstop the day off if he didn't feel better.
"I noticed it yesterday, and it's been going around our clubhouse. Some guys it affects more than others. I want to see how he's breathing today," Girardi said.
Apparently Jeter didn't look well enough for his manager, who decided to go with Pena at shortstop. Pena has yet to make a start this season and is 0-for-1 at the plate. He hit .287 in 115 at-bats in 2009.
It's a rare day off for Jeter, who has averaged 151 games per season in his 14 full years with the Yankees and has played fewer than 148 only once, in 2003. Jeter had led off all 11 of the Bombers' games this season, hitting .380 with three home runs.