Genome-Wide Association Study Uncovers Novel Genomic Regions Associated With Coleoptile Length in Hard Winter Wheat.

Successful seedling establishment depends on the optimum depth of seed placement especially in drought-prone conditions, providing an opportunity to exploit subsoil water and increase winter survival in winter wheat. Coleoptile length is a key determinant for the appropriate depth at which seed can be sown. Thus, understanding the genetic basis of coleoptile length is necessary and important for wheat breeding. We conducted a genome-wide association study (GWAS) using a diverse panel of 298 winter wheat genotypes to dissect the genetic architecture of coleoptile length. We identified nine genomic regions associated with the coleoptile length on seven different chromosomes. Of the nine genomic regions, five have been previously reported in various studies, including one mapped to previously known Rht-B1 region. Three novel quantitative trait loci (QTLs), QCL.sdsu-2AS, QCL.sdsu-4BL, and QCL.sdsu-5BL were identified in our study. QCL.sdsu-5BL has a large substitution effect which is comparable to Rht-B1's effect and could be used to compensate for the negative effect of Rht-B1 on coleoptile length. In total, the nine QTLs explained 59% of the total phenotypic variation. Cultivars 'Agate' and 'MT06103' have the longest coleoptile length and interestingly, have favorable alleles at nine and eight coleoptile loci, respectively. These lines could be a valuable germplasm for longer coleoptile breeding. Gene annotations in the candidate regions revealed several putative proteins of specific interest including cytochrome P450-like, expansins, and phytochrome A. The QTLs for coleoptile length linked to single-nucleotide polymorphism (SNP) markers reported in this study could be employed in marker-assisted breeding for longer coleoptile in wheat. Thus, our study provides valuable insights into the genetic and molecular regulation of the coleoptile length in winter wheat.

Effect of GA-sensitivity on wheat early vigor and yield components under deep sowing.

Establishment of seedlings is a key factor in achievement of uniform field stands and, consequently, stable yields. Under Mediterranean conditions, soil moisture in the upper layer is limited and seedlings may be exposed to frequent dehydration events. The presence of the Reduced height (Rht)-B1b and Rht-D1b semi-dominant dwarfing alleles results in insensitivity to gibberellin (GAI) and, hence, poor emergence from deep sowing. Introduction of alternative dwarfing genes and, thereby, preservation of the gibberellin response (GAR) and coleoptile length, contributes to better emergence from deep sowing. Initially 47 wheat cultivars carrying different Rht alleles were screened for their ability to emerge from deep sowing, and then 17 of them were selected for detailed physiological characterization in the field. The modern wheat lines containing GAI alleles showed significantly lower percentages of emergence from deep sowing than the GAR lines, i.e., 52 and 74%, respectively. Differences in early developmental stages were associated with grain yield, as indicated by a reduction of 37.3% in the modern GAI cultivars. Our results demonstrate the potential of alternative dwarfing genes for improving seedling establishment and grain yields in Mediterranean-like environments.