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Genome-wide association study and genomic prediction of resistance to stripe rust in current Central and Northern European winter wheat germplasm
Wednesday, 2022/10/05 | 08:42:06

Fahimeh ShahinniaManuel GeyerFriederike SchürmannSabine RudolphiJosef HolzapfelHubert KempfMelanie StadlmeierFranziska LöschenbergerLaura MoralesHermann BuerstmayrJulio Isidro y SánchezDeniz AkdemirVolker MohlerMorten Lillemo & Lorenz Hartl

Theoretical and Applied Genetics October 2022; vol. 135: 3583–3595.

Key message

We found two loci on chromosomes 2BS and 6AL that significantly contribute to stripe rust resistance in current European winter wheat germplasm.


Stripe or yellow rust, caused by the fungus Puccinia striiformis Westend f. sp. tritici, is one of the most destructive wheat diseases. Sustainable management of wheat stripe rust can be achieved through the deployment of rust resistant cultivars. To detect effective resistance loci for use in breeding programs, an association mapping panel of 230 winter wheat cultivars and breeding lines from Northern and Central Europe was employed. Genotyping with the Illumina® iSelect® 25 K Infinium® single nucleotide polymorphism (SNP) genotyping array yielded 8812 polymorphic markers. Structure analysis revealed two subpopulations with 92 Austrian breeding lines and cultivars, which were separated from the other 138 genotypes from Germany, Norway, Sweden, Denmark, Poland, and Switzerland. Genome-wide association study for adult plant stripe rust resistance identified 12 SNP markers on six wheat chromosomes which showed consistent effects over several testing environments. Among these, two marker loci on chromosomes 2BS (RAC875_c1226_652) and 6AL (Tdurum_contig29607_413) were highly predictive in three independent validation populations of 1065, 1001, and 175 breeding lines. Lines with the resistant haplotype at both loci were nearly free of stipe rust symptoms. By using mixed linear models with those markers as fixed effects, we could increase predictive ability in the three populations by 0.13–0.46 compared to a standard genomic best linear unbiased prediction approach. The obtained results facilitate an efficient selection for stripe rust resistance against the current pathogen population in the Northern and Central European winter wheat gene pool.


See https://link.springer.com/article/10.1007/s00122-022-04202-z

Figure 2: Effects of allelic combination of the markers located on chromosomes 2B (RAC875_c1226_652, A and G alleles) and 6A (Tdurum_contig29607_413, C and T alleles) on disease severity (%) in validation populations of a 1065 and b 1001 breeding lines evaluated in Lemgo in 2020 and 2021, respectively, and c 175 breeding lines evaluated in Lenglern in 2021. The more susceptible alleles are shown in yellow. The number of lines in each group is presented at the top of each box plot


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