ARDC Research Link Australia

ORCID Profile
Orcid icon. 0000-0003-0416-2720

Current Organisations
Perry Foundation , AgriFood Charities Partnership , Agriculture and Horticulture Development Board

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Publications

Publication

One hundred important questions for plant science – reflecting on a decade of plant research

Publisher: Wiley

Date: 16-03-2023

DOI: 10.1111/NPH.18663

Publication

Genome-wide association mapping to candidate polymorphism resolution in the unsequenced barley genome

Publisher: Proceedings of the National Academy of Sciences

Date: 29-11-2010

DOI: 10.1073/PNAS.1010179107

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 (anthocyanin pigmentation) within a 140-kb interval containing three genes. Of these, resequencing the putative anthocyanin pathway gene HvbHLH1 identified a deletion resulting in a premature stop codon upstream of the basic helix-loop-helix domain, which was diagnostic for lack of anthocyanin in our association and biparental mapping populations. The methodology described here is transferable to species with limited genomic resources, providing a paradigm for reducing the threshold of map-based cloning in unsequenced crops.