High-resolution genotyping of wild barley introgression lines and fine-mapping of the threshability locus thresh-1 using the illumina goldengate assay

Inga Schmalenbach, Timothy J. March, Klaus Pillen, Thomas Bringezu, Robbie Waugh

    Research output: Contribution to journalArticle

    51 Citations (Scopus)

    Abstract

    Genetically well-characterized mapping populations are a key tool for rapid and precise localization of quantitative trait loci (QTL) and subsequent identification of the underlying genes. In this study, a set of 73 introgression lines (S42ILs) originating from a cross between the spring barley cultivar Scarlett (Hordeum vulgare ssp. vulgare) and the wild barley accession ISR42-8 (H. v. ssp. spontaneum) was subjected to high-resolution genotyping with an Illumina 1536-SNP array. The array enabled a precise localization of the wild barley introgressions in the elite barley background. Based on 636 informative SNPs, the S42IL set represents 87.3% of the wild barley genome, where each line contains on average 3.3% of the donor genome. Furthermore, segregating high-resolution mapping populations (S42IL-HRs) were developed for 70 S42ILs in order to facilitate QTL fine-mapping and cloning. As a case study, we used the developed genetic resources to rapidly identify and fine-map the novel locus thresh-1 on chromosome 1H that controls grain threshability. Here, the recessive wild barley allele confers a difficult to thresh phenotype, suggesting that thresh-1 played an important role during barley domestication. Using a S42IL-HR population, thresh-1 was fine-mapped within a 4.3cM interval that was predicted to contain candidate genes involved in regulation of plant cell wall composition. The set of wild barley introgression lines and derived high-resolution populations are ideal tools to speed up the process of mapping and further dissecting QTL, which ultimately clears the way for isolating the genes behind QTL effects.

    Original languageEnglish
    Pages (from-to)187-196
    Number of pages10
    JournalG3: Genes, Genomes, Genetics
    Volume1
    Issue number3
    DOIs
    Publication statusPublished - 1 Aug 2011

    Keywords

    • High-resolution mapping populations
    • Illumina goldengate assay
    • Threshability locus thresh-1
    • Wild barley introgression lines

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