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Spring wheat (Triticum aestivum L.) breeding goals in western Canada include good agronomic characteristics and good end-use quality, and also moderate to elevated resistance to diseases of economic importance. In this study, we aimed to identify quantitative trait loci (QTL) associated with resistance to common bunt (Tilletia tritici and Tilletia laevis), tan spot (Pyrenophora tritici-repentis), leaf rust (Puccinia triticina), and stripe rust (Puccinia striiformis f. sp. tritici). A total of 167 recombinant inbred lines (RILs) derived from a cross between two spring wheat cultivars, ‘Attila’ and ‘CDC Go’, were evaluated for reactions to the four diseases in nurseries from three to eight environments, and genotyped with the Wheat 90K SNP array and three gene-specific markers (Ppd-D1, Vrn-A1, and Rht-B1). The RILs exhibited transgressive segregation for all four diseases, and we observed several lines either superior or inferior to the parents. Broad-sense heritability varied from 0.25 for leaf rust to 0.48 for common bunt. Using a subset of 1203 informative markers (1200 SNPs and 3 gene-specific markers) and average disease scores across all environments, we identified two QTLs (QCbt.dms-1B.2 and QCbt.dms-3A) for common bunt, and three QTLs each for tan spot (QTs.dms-2B, QTs.dms-2D, and QTs.dms-6B), leaf rust (QLr.dms-2D.1, QLr.dms-2D.2, and QLr.dms-3A), and stripe rust (QYr.dms-3A, QYr.dms-4A, and QYr.dms-5B). Each QTL individually explained between 5.9 and 18.7% of the phenotypic variation, and altogether explained from 21.5 to 26.5% of phenotypic and from 52.2 to 86.0% of the genetic variation. The resistance alleles for all QTLs except one for stripe rust (QYr.dms-5B) were from CDC Go. Some of the QTLs are novel, while others mapped close to QTLs and/or genes reported in other studies.

We recently reported genomic regions associated with resistance to four wheat diseases and insensitivity to three Pyrenophora tritici-repentis toxins in an association mapping panel consisting of 81 diverse Canadian western spring wheat (Triticum aestivum L.) cultivars. Here, we report genomic regions and SNPs associated with days to heading, plant maturity, plant height, test weight (grain volume weight), grain yield, and grain protein content in the same population using genome-wide association studies (GWAS). The 81 spring wheat cultivars were evaluated for the above six traits across six environments and genotyped with 19,919 polymorphic SNPs and 14 gene-specific markers. Using mixed liner model and a threshold of p ≤ 3.1 × 10−4, we identified a total of 139 significant marker-trait associations that were mapped at 19 genomic regions on 11 chromosomes for heading (3 regions), maturity (2), plant height (3), test weight (3), grain yield (6), and grain protein (2). Each region consisted of clusters of markers ranging from 2 to 33 and individually explained from 4.5 to 26.1% of the phenotypic variation averaged over six environments. Some the genomic regions identified in the present study are novel, while others, such as the regions for grain protein on 1B, days to heading on 5A, plant height on 4B, and test weight on 7A, were located close to either known genes or QTLs reported in previous studies, but direct comparisons in some cases were challenging due to lack of common set of markers and reliable physical positions among the different studies. Results from this study provide additional information to wheat researchers developing improved spring wheat cultivars.

Recently, we mapped genomic regions associated with resistance to wheat diseases and insensitivity to Pyrenophora tritici-repentis (Ptr) toxins using 81 historical and modern Canadian western spring wheat cultivars genotyped with genome-wide single nucleotide polymorphic (SNP) markers. Here, we investigate the frequency and effects of allelic variants of 50 markers associated with 16 candidate genes that regulate resistance to leaf rust (Puccinia triticina), yellow or stripe rust (P. striiformis f. sp. tritici), tan spot (P. tritici-repentis), and Ptr ToxA reaction in a subset of 70 of the 81 spring wheat cultivars. We evaluated the 70 cultivars in the field for all diseases except Ptr ToxA, which was evaluated in a greenhouse. Using Spearman rank correlation, stepwise discriminant analysis, and partial least squares regression, we identified between 4 and 11 markers as best predictors of each phenotypic trait. Overall, 23 of the 50 markers were associated with one or more of the phenotypic traits of which analysis of variance showed significant differences between allelic variants of 19 markers. In most analyses, markers for Lr34/Yr18 and Tsn1 loci were identified consistently as the best predictor of disease resistance and Ptr ToxA sensitivity, respectively. The same alleles from two Lr34/Yr18 diagnostic SNP markers (wMAS000003 and wMAS000004) not only decreased stripe rust scores up to 1.6 (on a 1 to 9 scale), but also increased grain yield up to 196 kg ha−1 without affecting maturity. Results from this study could aid spring wheat breeders in selecting the best parental combinations and/or marker-assisted selection to integrate disease resistance with early maturity and short stature.

The locus Lr34/Yr18 plays an important role in conferring resistance to a number of fungal diseases and is thus an important component of global wheat breeding efforts. We investigated the differences in disease response and agronomic traits of the ‘CDC Teal’ × ‘CDC Go’ spring wheat population of 187 recombinant inbred lines (RILs) in relation to the presence/absence of the rust resistance gene Lr34/Yr18. Lines carrying the resistant allele of Lr34/Yr18 were taller, matured earlier, and yielded less grain with lower test weights than lines without Lr34/Yr18. Lines with or without the resistant allele of Lr34/Yr18 did not differ for grain protein content, SDS sedimentation volume, and for resistance to leaf spotting and common bunt. Lines with Lr34/Yr18 exhibited lower leaf and stripe rust infection than lines without it. We selected superior lines from the population based on high yield, protein content, SDS sedimentation, and the presence of the resistant allele of Lr34/Yr18 and grew them with continued selection in replicated yield trials over nine site-years. We attempted to combine Lr34/Yr18 with high yield, protein content, and SDS sedimentation suitable for the Canadian western red spring wheat class. Our results suggested that the population size we used was not large enough to obtain recombinants with high yield potential, high grain protein, and acceptable quality attributes. Moreover, selection for Lr34/Yr18 resulted in the elimination of lines with high yield potential. We therefore suggest using a population size of at least 310 to increase the potential of pooling Lr34/Yr18 with high grain yield and desirable agronomic and end-use quality attributes.

In the spring wheat-growing regions of western Canada, early maturity is an important trait for timely harvest to avoid frost damage, and associated harvest and post-harvest problems. Earliness is genetically regulated by vernalization, photoperiod, earliness per se genes, and complex gene interactions. In this study, we explored the effect of these gene complexes on the expression of 11 agronomic traits in the CDC Teal × CDC Go Canadian western red spring wheat-mapping population. The population of 187 recombinant inbred lines was genotyped with 341 DArT polymorphic markers and a functional Vrn-B1 marker, and phenotyped over 3 years in replicated trials. The dominant allele of Vrn-B1 reduced the number of days to heading, flowering and maturity, and increased leaf color concentration and plant height, but did not affect grain yield in the presence of common genetic backgrounds with dominant Vrn-A1a and Ppd-D1 alleles at two epistatic loci, Vrn-A1 and Ppd-D1. A total of 21 QTLs were identified for all phenotypic traits recorded, except plant height and grain protein content. Two earliness per se QTLs were mapped on chromosomes 1A (QEps.dms-1A) and 4A (QEps.dms-4A) in all three growing seasons, contributing 15–27 and 8–10 %, respectively, to the total genetic variation in days to maturity. The two earliness QTLs and Vrn-B1 exhibited additive interaction. Lines carrying dominant alleles at these three loci headed, flowered and matured 1.7, 1.9 and 4 days earlier, respectively, but yielded 0.43 t ha−1 less than lines with recessive alleles.