Marker-trait associations for barley grain quality traits identified in Karaganda and Kostanay regions (Kazakhstan) using GWAS

Genievskaya_rec

Genievskaya Y.; Almerekova S.; Abugalieva A.; Abugalieva S.; Turuspekov Y.
Institute of Plant Biology and Biotechnology, Almaty, Kazakhstan; Institute of Plant Biology and Biotechnology, Almaty, Kazakhstan; Kazakh Research Institute of Agriculture and Plant Industry, Almalybak, Kazakhstan; Institute of Plant Biology and Biotechnology, Almaty, Kazakhstan; Institute of Plant Biology and Biotechnology, Almaty, Kazakhstan
Barley (Hordeum vulgare L.) is the second important cereal crop after wheat in Kazakhstan. Spring barley collection, including 557 accessions from the USA and 104 accessions from Kazakhstan, was studied for major grain quality traits of barley grown in two regions of Kazakhstan – Karaganda (center) and Kostanay (north) regions in 2010 and 2011. The collection was previously genotyped using barley iSelect 9K SNP array resulted in 2,344 polymorphic markers. Phenotypic and genotypic data were used for the searching of marker-trait associations using GWAS. As a result, 60 marker-trait associations (P < 0.001) were identified for 9 grain quality traits: 13 for grain protein content, 9 for grain plumpness, 8 for starch content, 7 for amylose content, 7 for grain extractivity, 6 for grain glume, 5 for hordein content, 3 for albumin, and 2 for grain β-glucan content. Sixty marker-trait associations were unified in 27 QTLs, considering the pleiotropic effect of several markers. Seven of these pleiotropic QTLs were previously described as associated with barley yield-related traits. Both negative and positive effects were observed for all studied traits; therefore, QTLs identified in the study may be used for the breeding of barley for different purposes and with different quality of the grain. QTLs detected in different regions of Kazakhstan have a potential usage for local barley breeding programs.

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