I need to quantify Actinobacteria and total Eubacterial community in potato skin. for Actinobacteria it was done by a pair of specific primer that covers actinobacterial 16SrDNA. but for quantification of Eubacteria the interference between bacterial 16SrDNA and plastid ribosomal DNA is a problem. is there any idea?
How to deal with the interference between bacterial 16SrDNA and plastid ribosoma
Posted 07 June 2014 - 01:41 AM
How similar are the plastid and eubacterial sequences? It may be that you could re-design the primers.
Posted 18 June 2014 - 02:48 AM
yes thanks, you were right. several internal primers that could cover only the eubacterial gene were designed based on a small difference in the middle of the gene.