Campus Units
Agronomy
Document Type
Article
Publication Version
Published Version
Publication Date
11-2018
Journal or Book Title
Frontiers in Plant Science
Volume
9
First Page
1589
DOI
10.3389/fpls.2018.01589
Abstract
Durum wheat was introduced in the southern prairies of western Canada in the late nineteenth century. Breeding efforts have mainly focused on improving quality traits to meet the pasta industry demands. For this study, 192 durum wheat lines were genotyped using the Illumina 90K Infinium iSelect assay, and resulted in a total of 14,324 polymorphic SNPs. Genetic diversity changed over time, declining during the first 20 years of breeding in Canada, then increased in the late 1980s and early 1990s. We scanned the genome for signatures of selection, using the total variance Fst-based outlier detection method (Lositan), the hierarchical island model (Arlequin) and the Bayesian genome scan method (BayeScan). A total of 407 outliers were identified and clustered into 84 LD-based haplotype loci, spanning all 14 chromosomes of the durum wheat genome. The association analysis detected 54 haplotype loci, of which 39% contained markers with a complete reversal of allelic state. This tendency to fixation of favorable alleles corroborates the success of the Canadian durum wheat breeding programs over time. Twenty-one haplotype loci were associated with multiple traits. In particular, hap_4B_1 explained 20.6, 17.9 and 16.6% of the phenotypic variance of pigment loss, pasta b∗ and dough extensibility, respectively. The locus hap_2B_9explained 15.9 and 17.8% of the variation of protein content and protein loss, respectively. All these pleiotropic haplotype loci offer breeders the unique opportunity for further improving multiple traits, facilitating marker-assisted selection in durum wheat, and could help in identifying genes as functional annotations of the wheat genome become available.
Creative Commons License
This work is licensed under a Creative Commons Attribution 4.0 International License.
Copyright Owner
N’Diaye, Haile, Nilsen, Walkowiak, Ruan, Singh, Clarke, Clarke and Pozniak
Copyright Date
2018
Language
en
File Format
application/pdf
Recommended Citation
N'Diaye, Amidou; Haile, Jemanesh K.; Nilsen, Kirby T.; Walkowiak, Sean; Ruan, Yuefeng; Singh, Asheesh K.; Clarke, Fran R.; Clarke, John M.; and Pozniak, Curtis J., "Haplotype Loci Under Selection in Canadian Durum Wheat Germplasm Over 60 Years of Breeding: Association With Grain Yield, Quality Traits, Protein Loss, and Plant Height" (2018). Agronomy Publications. 548.
https://lib.dr.iastate.edu/agron_pubs/548
Included in
Agriculture Commons, Agronomy and Crop Sciences Commons, Plant Breeding and Genetics Commons
Comments
This article is published as N'Diaye, Amidou, Jemanesh Kifetew Haile, Kirby Nilsen, Sean Walkowiak, Yuefeng Ruan, Asheesh K. Singh, Fran R. Clarke, John M. Clarke, and Curtis J. Pozniak. "Haplotype Loci under Selection in Canadian Durum Wheat Germplasm over 60 Years of Breeding: Association with Grain Yield, Quality Traits, Protein Loss and Plant Height." Frontiers in Plant Science 9 (2018): 1589. doi: 10.3389/fpls.2018.01589.