MSA - Systematics/Evolution
Schmitt, Imke , Crespo, Ana , Divakar, Pradeep , Fankhauser, John , Luecking, Robert , Nelsen, Mathew P , Nelson, Nicolaas , Rivas-Plata, Eimy , Sackett Hermann, Erin , Shimp, Adam D. , Widhelm, Todd , Lumbsch, H. Thorsten .
New and promising single-copy genes for ascomycete phylogenetics.
Reconstructing robust fungal phylogenies requires selection of suitable molecular markers. A recent study by Aguileta et al. (Systematic Biology 57: 613–627, 2008) reported two new single-copy genes, which have outstanding potential to recover fungal phylogenies. The authors showed using bioinformatics methods that the phylogenetic signal present in MS277 and MS456 outperforms all other single-copy genes present in fungal genomes. We developed degenerate primers to amplify approximately 600-700bp of MS277 and MS456 in a variety of lichenized Ascomycota belonging to the classes Eurotiomycetes, Lecanoromycetes, and Lichinomycetes. We assessed variability, phylogenetic signal, resolution power, and overall phylogenetic utility at deep and shallow branches in the phylogeny. Our sampling was designed to show variability at taxonomic levels ranging from class to species. Here we report the new primer sequences, compare amplification success to other commonly used single copy genes, such as RPB1 and RPB2, discuss properties of the amplified gene regions, and project utility of the genes for ascomycete phylogenetics at different taxonomic levels.
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1 - University of Minnesota, Plant Biology, 1445 Gortner Ave, St. Paul, MN, 55108, USA
2 - Universidad Complutense de Madrid, Departamento de Biología Vegetal II, Facultad de Farmacia, Madrid, 28040, Spain
3 - The Field Museum, Department of Botany, 1400 S. Lake Shore Dr., Chicago, IL, 60605, USA
protein coding genes
Presentation Type: Oral Paper:Papers for Topics
Location: Cottonwood A/Snowbird Center
Date: Tuesday, July 28th, 2009
Time: 1:45 PM