Journal article
Genome-wide association mapping to candidate polymorphism resolution in the unsequenced barley genome
J Cockram, J White, DL Zuluaga, D Smith, J Comadran, M MacAulay, Z Luo, MJ Kearsey, P Werner, D Harrap, C Tapsell, H Liu, PE Hedley, N Stein, D Schulte, B Steuernagel, DF Marshall, WTB Thomas, L Ramsay, I MacKay Show all
Proceedings of the National Academy of Sciences of the United States of America | Published : 2010
Abstract
Although commonplace in human disease genetics, genome-wide association (GWA) studies have only relatively recently been applied to plants. Using 32 phenotypes in the inbreeding crop barley, we report GWA mapping of 15 morphological traits across ∼500 cultivars genotyped with 1,536 SNPs. In contrast to the majority of human GWA studies, we observe high levels of linkage disequilibrium within and between chromosomes. Despite this, GWA analysis readily detected common alleles of high penetrance. To investigate the potential of combining GWA mapping with comparative analysis to resolve traits to candidate polymorphism level in unsequenced genomes, we fine-mapped a selected phenotype (anthocyani..
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Awarded by Biotechnology and Biological Sciences Research Council
Funding Acknowledgements
We thank J. DeYoung for SNP genotyping, the NIAB Agricultural Food Crops team for phenotypic data, and Eurofins MWG Operon for BAC sequencing. This work was supported by Defra, the Scottish Government, and the Biotechnology and Biological Sciences Research Council through Sustainable Arable LINK Program Grant 302/BB/D522003/1, Association Genetics of UK Elite Barley, and the NIAB Trust.