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You should have no problems, I have done this on production servers many times, although caution is always advisable. As soon as you get complacent about these things thats when It hits you. Your more likely to have problem with HBA drivers / Multi-pathing or Vendor hardware drivers.
All our Server are Redhat, so we get them from Redhat, there are also several advantages to doing this.
1 - If it goes wrong you should have support
2 - They have probably already tested the new kernel and packaged it correctly.
3 - Its easier and less time consuming, if you have lots of machines to do.
One minor point is that a kernel update will not be active until a reboot; thus, your MySQL database will require some downtime. If you are not running a mission critical 24/7 system this will not matter: just thought I'd mention it.
Last edited by harry edwards; 01-08-2009 at 06:20 PM.