Development of SNP markers for genes of the phenylpropanoid pathway and their association to kernel and malting traits in barleyReport as inadecuate

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BMC Genetics

, 14:97

Plant population genetics


BackgroundFlavonoids are an important class of secondary compounds in angiosperms. Next to certain biological functions in plants, they play a role in the brewing process and have an effect on taste, color and aroma of beer. The aim of this study was to reveal the haplotype diversity of candidate genes involved in the phenylpropanoid biosynthesis pathway in cultivated barley varieties Hordeum vulgare L. and to determine associations to kernel and malting quality parameters.

ResultsFive genes encoding phenylalanine ammonia-lyase PAL, cinnamate 4-hydroxylase C4H, chalcone synthase CHS, flavanone 3-hydroxylase F3H and dihydroflavonol reductase DFR of the phenylpropanoid biosynthesis pathway were partially resequenced in 16 diverse barley reference genotypes. Their localization in the barley genome, their genetic structure, and their genetic variation e.g. single nucleotide polymorphism SNP and Insertion-Deletion InDel patterns were revealed. In total, 130 SNPs and seven InDels were detected. Of these, 21 polymorphisms were converted into high-throughput pyrosequencing markers. The resulting SNP and haplotype patterns were used to calculate associations with kernel and malting quality parameters.

ConclusionsSNP patterns were found to be highly variable for the investigated genes. The developed high-throughput markers are applicable for assessing the genetic variability and for the determination of haplotype patterns in a set of barley accessions. The candidate genes PAL, C4H and F3H were shown to be associated to several malting properties like glassiness PAL, viscosity C4H or to final attenuation F3H.

KeywordsPhenylpropanoids Barley SNP Haplotype Associations Malting quality parameters Electronic supplementary materialThe online version of this article doi:10.1186-1471-2156-14-97 contains supplementary material, which is available to authorized users.

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Author: Manuela Peukert - Stephan Weise - Marion S Röder - Inge E Matthies


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