| Rajai Davis | RF | 5/11/2013 | on 15-day DL | Strained oblique |
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| J.A. Happ | P | 5/8/2013 | on 15-day DL | Head contusion |
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| Josh Johnson | P | 4/29/2013 | on 15-day DL | Right triceps inflammation |
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| Sergio Santos | P | 4/14/2013 | on 60-day DL | Right triceps strain |
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| Jose Reyes | SS | 4/13/2013 | on 60-day DL | Sprained left ankle |
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| Dustin McGowan | P | 3/27/2013 | on 60-day DL | Sore right shoulder |
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| Drew Hutchison | P | 3/22/2013 | on 60-day DL | Recovery from right elbow surgery |
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| Kyle Drabek | P | 2/25/2013 | on 60-day DL | Recovery from right elbow surgery |
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| Luis Perez | P | 2/23/2013 | on 60-day DL | Recovery from left elbow surgery |
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