Identification of 50 K Illumina-chip SNPs associated with resistance to spot blotch in barley

BMC Plant Biology
Irina V BykovaElena K Khlestkina

Abstract

Spot blotch, caused by Cochliobolus sativus, is one of the most widespread and harmful diseases in barley. Identification of genetic loci associated with resistance to C. sativus is of importance for future marker-assisted selection. The goal of the current study was to identify loci conferring seedling resistance to two different pathotypes of C. sativus in the Siberian spring barley core collection. A total of 96 spring barley cultivars and lines were phenotyped at the seedling stage with two C. sativus isolates (Kr2 and Ch3). According to the Fetch-Steffenson rating scale 16%/17% of genotypes were resistant and 26%/30% were moderate-resistant to the Kr2/Ch3 isolates respectively. A total of 94 genotypes were analyzed with the barley 50 K Illumina Infinium iSELECT assay. From 44,040 SNPs, 40,703 were scorable, from which 39,140 were polymorphic. 27,319 SNPs passed filtering threshold and were used for association mapping. Data analysis by GLM revealed 48 and 41 SNPs for Kr2 and Ch3 isolates, respectively. After application of 5% Bonferroni multiple test correction, only 3 and 27 SNPs were identified, respectively. A total of three genomic regions were associated with the resistance. The region on chromosome 3H associated with...Continue Reading

References

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Citations

Jan 4, 2018·BMC Plant Biology·Yuriy L OrlovElena A Salina
Feb 11, 2020·BMC Genomics·Irina V RozanovaElena K Khlestkina
Jul 17, 2020·Frontiers in Plant Science·Andrea VisioniRamesh Pal Singh Verma

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Methods Mentioned

BETA
Genotyping

Software Mentioned

TASSEL
MEGA
iSelect

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