alkaline lysis - (Sep/23/2008 )

Hello,
After I centrifuge the product from alkaline lysis, i can see a lot of debris floating. I am wondering what will happen if i take the floating debris to next step( for example phenol chloroform extraction)
Thank you

you will have more work to do as all that floating debris will end up on the phenol/aqueous interphase.

pellet will also be harder to resuspend compared to a cleaner pellet if you dry the pellet too much.

aside from that there is no harm. You could pour the supernatant into a new tube and spin that down again to remove all the floating debris. (Saves on the phenol, boss will be happy) It depends on how much junk is floating around.