ArticleBMC plant biology2017
Identification of 50 K Illumina-chip SNPs associated with resistance to spot blotch in barley.
Article in BMC plant biology, 2017. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 9 papers.
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9 citing papers in PubMed.
- The improvement of the in vitro plant regeneration in barley with the epigenetic modifier of histone acetylation, trichostatin A.Journal of applied genetics · 2024Article
- Finding stable and closely linked QTLs against spot blotch in different planting dates during the adult stage in barley.Scientific reports · 2024Article
- Genetic Dissection of Spike Productivity Traits in the Siberian Collection of Spring Barley.Biomolecules · 2023Article
- Population Structure and Genetic Diversity of Two-Rowed Barley Accessions from Kazakhstan Based on SNP Genotyping Data.Plants (Basel, Switzerland) · 2021Article
- GWAS: Fast-forwarding gene identification and characterization in temperate Cereals: lessons from Barley - A review.Journal of advanced research · 2020Review
- Genome Wide Association Mapping of Spot Blotch Resistance at Seedling and Adult Plant Stages in Barley.Frontiers in plant science · 2020Article
- Genomics research at Bioinformatics of Genome Regulation and Structure\ Systems Biology (BGRS\SB) conferences in Novosibirsk.BMC genomics · 2019Article
- SNPs associated with barley resistance to isolates of Pyrenophora teres f. teres.BMC genomics · 2019Article
- Plant Biology at Belyaev Conference - 2017.BMC plant biology · 2017Article
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5 authors.
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Abstract
backgroundSpot 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.
resultsA 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 Ch3-resistance was expanded between markers SCRI_RS_97417 and JHI-Hv50k-2016-158003 and included 11 SNPs, from which JHI-Hv50k-2016-157070, JHI-Hv50k-2016-156842 had the lowest p-values. These two SNPs were also significant in case of Kr2 isolate. The region on chromosome 2H included 16 loci (7 of them with the lowest p-values were tightly linked to BOPA2_12_11504). Three loci corresponding to this region had suggestive p-values in case of Kr2 tests, so the locus on chromosome 2H may also contribute to resistance to Kr2 isolate. The third region with significant p-value in case of Kr2 tests was identified on chromosome 1H at the locus JHI-Hv50k-2016-33568.
conclusionsThree genomic regions associated with the resistance to one or both isolates of C. sativus were identified via screening of the Siberian spring barley core collection. Comparison of their location with QTLs revealed previously either with biparental mapping populations studies or with GWAS of distinct germplasm and other isolates, demonstrated that resistance to isolates Kr2 and Ch3 is conferred by known spot blotch resistance loci. Information on SNPs related can be used further for development of DNA-markers convenient for diagnostics of resistance-associated alleles in barley breeding programs.
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