Identification of a conserved ph1b-mediated 5DS–5BS crossing over site in soft-kernel durum wheat (Triticum turgidum subsp. durum) lines

Abstract

Genetic recombination is the major mechanism and basis of genetic diversity and crop improvement. Recombination typically occurs between homologous chromosomes. In wheat, however, it can also occur between homoeologous chromosomes if a functional Ph1 (Pairing homoeologous-1) locus is absent (ph1b). Recently, the genes for soft kernel trait on the distal 5DS chromosome of common wheat were transferred into chromosome 5BS of durum wheat through ph1b-mediated recombination. Several independent 5DS–5BS recombination lines carrying the 5DS translocation were obtained. However, the specific size of the translocation and region where the translocation breakpoint occurred was not determined for any of the lines. In the present study, four independent 5DS–5BS recombination lines were investigated and the translocation breakpoints were fine-mapped and sequenced. All the analyzed lines lost a 5BS fragment of ~ 20,742,425 bp and gained a 5DS fragment of ~ 28,163,252 bp. The recombination breakpoint in each line was located within a predicted gene in a conserved 39 bp region, suggesting the presence of a recombination hotspot. The information obtained was then used to develop a KASP marker diagnostic for the 5DS–5BS translocation. Finally, a subset of the soft durum wheat lines exhibiting varying degrees of kernel hardness was analyzed through genomic in situ hybridization (GISH) and scanning electron microscopy (SEM). From both the GISH and SEM analyses no major differences were detected among the lines, indicating that factors other than ph1b-mediated recombination or endosperm morphology were responsible for the variation in kernel hardness.