Dear Professors and researchers,

I am working in rumen methane mitigation  using plant compounds. One of my aim is to quantify Ruminococcus albus, R. flavefaciens, Fibrobacter succinogens, methanogens and protozoa using qPCR. Except protozoa I use total bacteria (16sRNA) for normalization. My question is how can I normalize total protozoa population since it is 18sRNA. 

Relative quantification = 2- delta CT (Target)- delta CT(Control)