SNP discovery from amphidiploid species and transferability across the Brassicaceae

M McKenzie, Emma Campbell, Michal Lorenc, Paul Berkman, Christina Delay, Christopher Duran, Alice Hayward, Kaitao Lai, Sahana Manoli, Joanne McLanders, Harsh Raman, Robert Redden, Adam Skarshewski, Lars Smits, Jiri Stiller, Reece Tollenaere, David Edwards, Jacqueline Batley

Research output: Other contribution to conferencePoster

Abstract

Single Nucleotide Polymorphisms (SNPs) are the most abundant genetic marker and predominate applications in modern plant genetic analysis, such as diversity analysis, genetic trait mapping, association studies, and marker assisted selection. SNPs are direct markers, as the sequence information provides the exact nature of the allelic variants. Furthermore, this sequence variation can have a major impact on how the organism develops and responds to the environment. Here we present the discovery of SNPs from diploid and amphidiploid Brassica species using GAIIx sequence data, and validation using an Illumina GoldenGate assay. These SNPs have been applied for cross-amplification in Brassica species and wild relatives from an international germplasm collection. Genotyping across diverse Brassica species can be used to assign lines and populations to heterotic groups; to study the evolutionary history of wild relatives; to verify pedigrees and fill in the gaps in incomplete pedigree or selection history, to monitor changes in allele frequencies in cultivars or populations and to help narrow the search for new alleles at loci of interest.
Original languageEnglish
Pages174
Number of pages1
Publication statusPublished - 2011
EventInternational Plant and Animal Genomes Conference - San Diego, California, New Zealand
Duration: 15 Jan 201118 Jan 2011

Conference

ConferenceInternational Plant and Animal Genomes Conference
CountryNew Zealand
Period15/01/1118/01/11

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    McKenzie, M., Campbell, E., Lorenc, M., Berkman, P., Delay, C., Duran, C., Hayward, A., Lai, K., Manoli, S., McLanders, J., Raman, H., Redden, R., Skarshewski, A., Smits, L., Stiller, J., Tollenaere, R., Edwards, D., & Batley, J. (2011). SNP discovery from amphidiploid species and transferability across the Brassicaceae. 174. Poster session presented at International Plant and Animal Genomes Conference, New Zealand.