I have come across multiple fungal qPCR works that employ primers targeting the 18S region, however I am aware that (as referred to Rooney et al. 2005 in PNAS) rRNA genes in Eukaroya exists in multiple copies per genome. A lot of the qPCR papers only looked at Ct value vs copy number mainly after dilution curves (as an assessment of amplification efficiency) without addressing the multiple-copy per genome issue.
I am trying hard to look for fungal qPCR primers which targets a gene conserved across different phyla, and that contains only a single-copy per genome, I found a paper (Black et al., 2013 in Journal of Biomolecular Techniques) investigating the single-copy gene benA (coding for beta-tubulin). However, as promising as it sounds, they used different primers for different fungal organisms.
Does anyone know of a single primer pair that targets a single-copy gene with broad enough coverage to detect most members of Fungi?
Thank you very much!