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. 2023 Sep;64(3):377-391.
doi: 10.1007/s13353-023-00758-8. Epub 2023 Apr 29.

Genome-wide association mapping in elite winter wheat breeding for yield improvement

Mirosław Tyrka  1 , Paweł Krajewski  2 , Piotr Tomasz Bednarek  3 , Kinga Rączka  4 , Tadeusz Drzazga  5 , Przemysław Matysik  6 , Róża Martofel  7 , Urszula Woźna-Pawlak  7 , Dorota Jasińska  7 , Małgorzata Niewińska  8 , Bogusława Ługowska  8 , Dominika Ratajczak  8 , Teresa Sikora  8 , Edward Witkowski  9 , Ada Dorczyk  9 , Dorota Tyrka  4
Affiliations

Genome-wide association mapping in elite winter wheat breeding for yield improvement

Mirosław Tyrka et al. J Appl Genet. 2023 Sep.

Erratum in

Abstract

Increased grain yield (GY) is the primary breeding target of wheat breeders. We performed the genome-wide association study (GWAS) on 168 elite winter wheat lines from an ongoing breeding program to identify the main determinants of grain yield. Sequencing of Diversity Array Technology fragments (DArTseq) resulted in 19,350 single-nucleotide polymorphism (SNP) and presence-absence variation (PAV) markers. We identified 15 main genomic regions located in ten wheat chromosomes (1B, 2B, 2D, 3A, 3D, 5A, 5B, 6A, 6B, and 7B) that explained from 7.9 to 20.3% of the variation in grain yield and 13.3% of the yield stability. Loci identified in the reduced genepool are important for wheat improvement using marker-assisted selection. We found marker-trait associations between three genes involved in starch biosynthesis and grain yield. Two starch synthase genes (TraesCS2B03G1238800 and TraesCS2D03G1048800) and a sucrose synthase gene (TraesCS3D03G0024300) were found in regions of QGy.rut-2B.2, QGy.rut-2D.1, and QGy.rut-3D, respectively. These loci and other significantly associated SNP markers found in this study can be used for pyramiding favorable alleles in high-yielding varieties or to improve the accuracy of prediction in genomic selection.

Keywords: Genome-wide association studies; Marker-trait associations; Single-nucleotide polymorphisms; Yield.

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Conflict of interest statement

The authors declare no competing interests.

Figures

Fig. 1
Fig. 1
Distribution of experimental stations in Poland. DED—Dębina, KBP—Kobierzyce, KOH—Kończewice, KRZ—Krzemlin, MOB—Modzurów, NAD—Nagradowice, POB—Polanowice, RAH—Radzików, SMH—Smolice, and STH—Strzelce
Fig. 2
Fig. 2
Physical distribution of selected 8233 SNP (A) and 11,117 silicoDArT markers (B) on wheat chromosomes (IWGSC RefSeq v 2.1). Seven chromosomes were numbered in A, B, and D genome. Mbp – millions of base pairs
Fig. 3
Fig. 3
Number of populations identified with 1706 SNP (A) and 2383 silicoDArT (B) markers representing linkage blocks
Fig. 4
Fig. 4
Distribution of MTA for grain yield (GY) for BLUP values, relative to standard (GY%), lines yield at selected locations at A1 and A2 level (GY_LOC_A1 and GY_LOC_A2, respectively), days to heading (DTH), thousand kernel weight (TKW), lodging (LDG), plant height (PH), and stability (GY_STA) on chromosomes covered with SNP markers
Fig. 5
Fig. 5
Distribution of MTA for grain yield (GY) for BLUP values, relative to standard (GY%), lines yield at selected locations at A1 and A2 level (GY_LOC_A1 and GY_LOC_A2, respectively), days to heading (DTH), thousand kernel weight (TKW), lodging (LDG), and plant height (PH) on chromosomes covered by with silicoDArT markers
See this image and copyright information in PMC

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