Continuity vs Change
Yeah, Republican Bob Gates is staying on as Secretary of Defense under Obama, but the good news is that many of those under him will be moving on.

Deputy Defense Secretary Gordon England, Gates's right-hand man in running the Pentagon day to day, is widely expected to leave his post...
...
The anticipated turnover of many key positions suggests that although Gates will help provide some continuity, the status quo will not necessarily endure at the Pentagon.
...
The four undersecretaries of defense are also expected to leave, Pentagon and transition officials said.