Journal
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
Volume 19, Issue 10, Pages -Publisher
MDPI
DOI: 10.3390/ijms19103011
Keywords
marker-trait association; haplotype block; genes; root traits; D-genome; genotyping-by-sequencing; single nucleotide polymorphism; durum wheat; bread wheat; complex traits
Funding
- Monsanto Beachell-Borlaug International Scholarship Program
- CRP WHEAT
- Ministry of Food, Agriculture and Livestock of Turkey
- Bill and Melinda Gates Foundation
- UK Department for International Development [OPP1133199]
- Russian Science Foundation [16-16-10005]
- Hatch project [NEB-22-328, AFRI/2011-68002-30029]
- USDA National Institute of Food and Agriculture, International Wheat Yield Partnership [2017-67007-25939]
- CERES Trust Organic Research Initiative
- USDA [59-0790-4-092]
- Hardin Distinguished Graduate Fellowship
- U.S. Wheat and Barley Scab Initiative
- Russian Science Foundation [16-16-10005] Funding Source: Russian Science Foundation
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Synthetic hexaploid wheat (SHW; 2n = 6x = 42, AABBDD, Triticum aestivum L.) is produced from an interspecific cross between durum wheat (2n = 4x = 28, AABB, T. turgidum L.) and goat grass (2n = 2x = 14, DD, Aegilops tauschii Coss.) and is reported to have significant novel alleles-controlling biotic and abiotic stresses resistance. A genome-wide association study (GWAS) was conducted to unravel these loci [marker-trait associations (MTAs)] using 35,648 genotyping-by-sequencing-derived single nucleotide polymorphisms in 123 SHWs. We identified 90 novel MTAs (45, 11, and 34 on the A, B, and D genomes, respectively) and haplotype blocks associated with grain yield and yield-related traits including root traits under drought stress. The phenotypic variance explained by the MTAs ranged from 1.1% to 32.3%. Most of the MTAs (120 out of 194) identified were found in genes, and of these 45 MTAs were in genes annotated as having a potential role in drought stress. This result provides further evidence for the reliability of MTAs identified. The large number of MTAs (53) identified especially on the D-genome demonstrate the potential of SHWs for elucidating the genetic architecture of complex traits and provide an opportunity for further improvement of wheat under rapidly changing climatic conditions.
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