W500
The Physcomitrella Illumina Infinium SNP Array: Informing Genetics and Genomics in Mosses

Date: Saturday, January 12, 2013
Time: 5:10 PM
Room: Sunrise
Wellington Muchero , BioEnergy Science Center, Oak Ridge National Laboratory, Oak Ridge, TN
Andrew C Cuming , University of Leeds, UK, Leeds, United Kingdom
Stuart McDaniel , University of Florida, Gainesville, FL
Daniel Lang , University of Freiburg Plant Biotechnology
Stefan A. Rensing , Faculty of Biology, University of Marburg, Marburg, Germany
Priya Ranjan , University of Tennessee, Knoxville, Knoxville, TN
Uffe Hellsten , DOE Joint Genome Institute, Walnut Creek, CA
Ann Wymore , Oak Ridge National Laboratory, Oak Ridge, TN
Lee Gunter , Oak Ridge National Laboratory, Oak Ridge, TN
Jerry Jenkins , DOE Joint Genome Institute, Huntsville, AL
David Weston , Oak Ridge National Laboratory, Oak Ridge, TN
Jeremy Schmutz , HudsonAlpha Institute for Biotechnology, Huntsville, AL
Gerald A. Tuskan , Oak Ridge National Laboratory, Oak Ridge, TN
PDF file
We developed and implemented a high-throughput Illumina Infinium SNP genotyping platform with 5,542 probes selected for comprehensive genome coverage to characterize genetic polymorphisms in Physcomitrella patens. More than 1,000 individuals representing segregating progeny from a cross between Gransden and Villersexel genotypes, mutagenized genotypes, and geographically diverse ecotypes were successfully genotyped. Based on the high-throughput assays, 4,309 SNPs were polymorphic of which 4,179 (97%) had less than 10% missing data. We will report application of these data towards genetic map construction, biological trait analysis, and the on-going improvements of the Physcomitrella reference genome. We will also discuss cross genera transferability of SNP markers between Physcomitrella and Sphagnum spp.
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