Primer sequences : RNA polymerase II 2nd largest subunit, RPB2

Liu et al. (1999) designed a number of fungal-specific primers from this molecule. Later, Reeb et al. (2004) developed 11 more primers in order to resolve phylogenetic relationships between lichenized fungi. Recently, members of our lab developed two more primers that are specific to lichenized fungi in the Peltigerales (Hofstetter et al. 2007). Please let us know if new primers that we are not aware of should be included here.

The above image is a representation of the RPB2 gene according to Liu et al. (1999). The black numbered boxes represent the 12 amino acid regions that are conserved throughout eukaryotes. Positions of the RPB2 primers used for symmetric PCR amplifications and cycle sequencing reactions are represented by black arrows. Primer names in the table are followed by their degenerate oligonucleotide sequences, their positions relative to the RPB2 gene sequence of Saccharomyces cerevisiae (GenBank Accession No. M15693), and their respective sources.

References:

Liu, Y.J., Whelen, S. and Hall, B.D. 1999. Phylogenetic relationships among ascomycetes: evidence from an RNA polymerase II subunit. Mol. Biol. Evol. 16(12): 1799-1808.

Reeb, V., Lutzoni, F. and Roux, C. 2004. Contribution of RPB2 to multilocus phylogenetic studies of the Pezizomycotina (euascomycetes, Fungi) with special emphasis on the lichen-forming Acarosporaceae and evolution of polyspory. Molecular Phylogenetics and Evolution 32:1036-1060.
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Hofstetter, V., Miadlikowska, J., Kauff, F., and Lutzoni, F. 2007. Phylogenetic comparison of protein-coding versus ribosomal RNA-coding sequence data: A case study of the Lecanoromycetes (Ascomycota). Molecular Phylogenetics and Evolution 44:412-426.
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