I hope someone can help me to resolve my problem. I am trying to perform PFGE on archaea (Thermococcales) but I do not understand why my genomic DNA gives a smear and not visible bands ?
HI Remi, I hope you are doing well. It seems that your enzyme is contaminated or it has an aggravated star activity. did you try to use a different enzyme? try a control without the enzyme to check the CQ of you DNA?
I will try with another enzyme next week. Normaly AvrII has no star activity. It is impossible here to control quality of DNA since DNA is enclosed into agarose plug.