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Filtering for snps with high selective constraint augments mid-parent heterosis predictions in wheat(Triticum aestivum L.)

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The Crop Journal 2023年第1期11卷 166-176页

作者： Abhishek Gogna Jie Zhang Yong Jiang Albert W.Schulthess Yusheng Zhao Jochen C.Reif Leibniz Institute of Plant Genetics and Crop Plant Research(IPK) 06466 Stadt SeelandGermany

To extend the contemporary understanding into the grain yield heterosis of wheat, the current study investigated the contribution of deleterious alleles in shaping mid-parent heterosis(MPH). These alleles occur at low frequency in the genome and are often missed by automated genotyping platforms like snp arrays. The deleterious alleles herein were detected using a quantitative measurement of evolutionary conservation based on the phylogeny of wheat and investigations were made to:(1) assess the benefit of including deleterious alleles into MPH prediction models and(2) understand the genetic underpinnings of deleterious snps for grain yield MPH using contrasting crosses viz. elite × elite(Exp. 1) and elite × plant genetic resources(PGR;Exp. 2). In our study, we found a lower allele frequency of moderately deleterious alleles in elites compared to PGRs. This highlights the role of purifying selection for the development of elite wheat cultivars. It was shown that deleterious alleles are informative for MPH prediction models: modelling their additive-by-additive effects in Exp. 1 and dominance as well as associated digenic epistatic effects in Exp. 2 significantly boosts prediction accuracies of MPH. Furthermore,heterotic-quantitative trait loci's underlying MPH was investigated and their properties were contrasted in the two crosses. Conclusively, it was proposed that incomplete dominance of deleterious alleles contributes to grain yield heterosis in elite crosses(Exp. 1).

关键词： Hybrid wheat Genomic evolutionary rate profiling deleterious snp Heterotic Quantitative trait loci

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