A Novel QTL for Powdery Mildew Resistance in Nordic Spring Barley (Hordeum vulgare L. ssp. vulgare) Revealed by Genome-Wide Association Study

Bengtsson, Tommy; Åhman, Inger; Manninen, Outi; Reitan, Lars; Christerson, Therese; Jensen, J.; Krusell, Lene; Jahoor, A.; Orabi, Jihad

doi:10.3389/fpls.2017.01954

Cited by 19 publications

(15 citation statements)

References 52 publications

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“…Our GWAS results showed that there was a major QTL found in chromosome 4H associated with powdery mildew resistance. A similar study reported that a QTL associated with mlo alleles was identified on chromosome 4H 30 , which was also verified in the current study (Fig. 4A).…”

Section: Gwas To Identify Snps Associated With Traits In Spring Barlesupporting

confidence: 92%

Genomic prediction and GWAS of yield, quality and disease-related traits in spring barley and winter wheat

Tsai

Janss

Andersen³

et al. 2020

Sci Rep

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Genome-wide association study (GWAS) and genomic prediction (Gp) are extensively employed to accelerate genetic gain and identify QTL in plant breeding. In this study, 1,317 spring barley and 1,325 winter wheat breeding lines from a commercial breeding program were genotyped with the illumina 9 K barley or 15 K wheat SNP-chip, and phenotyped in multiple years and locations. For GWAS, in spring barley, a QTL on chr. 4H associated with powdery mildew and ramularia resistance were found. There were several SNPs on chr. 4H showing genome-wide significance with yield traits. In winter wheat, GWAS identified two SNPs on chr. 6A, and one SNP on chr. 1B, significantly associated with quality trait moisture, as well as one SNP located on chr. 5B associated with starch content in the seeds. The significant SNPs identified by multiple trait GWAS were generally the same as those found in single trait GWAS. GWAS including genotype-location information in the model identified significant SNPs in each tested location, which were not found previously when including all locations in the GWAS. for Gp, in spring barley, GP using the Bayesian Power Lasso model had higher accuracy than ridge regression BLUP in powdery mildew and yield traits, whereas the prediction accuracies were similar using Bayesian Power Lasso model and rrBLUP for yield traits in winter wheat. Both wheat (Triticum aestivum L.) and barley (Hordeum vulgare L.) are major cereal crops worldwide, ranking as the second and fourth in total grain production. The global wheat and barley production amounted to 736 and 146 million metric tons in 2016, with 21% and 41% contributed by European countries, respectiely 1. Due to their economic role worldwide, the advancement of economically important traits of wheat and barley is indispensable, in order to meet the food demands of growing human population. Recent developments in genome sequencing technologies allow plant breeders to characterize the genetic architecture of economically important cereal crops. The reference genomes are now available in both spring barley and winter wheat 2-4 , raising the possibilities for plant breeders to introduce genome-assisted selection to both crops. Several high-density SNP microarrays enabling association mapping, and increase the resolution of quantitative trait loci (QTLs) mapping using hundreds of thousands of genetic polymorphisms throughout the entire genome, are now available. For example, there are several SNP arrays with the varying number of genetic variants customized for both barley and wheat 5-9. Traditionally, the molecular-assisted breeding, using molecular biology techniques, such as gene identification and gene functional characterization, to explain the genetic mechanism of economically important traits has been used in crops. However, several studies evidenced that most traits of commercial interest in wheat and barley are highly polygenic, with many QTLs that each only account for a small proportion of total genetic variances 10,11. This severely limits the applicatio...

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Section: Gwas To Identify Snps Associated With Traits In Spring Barlesupporting

confidence: 92%

Genomic prediction and GWAS of yield, quality and disease-related traits in spring barley and winter wheat

Tsai

Janss

Andersen³

et al. 2020

Sci Rep

Self Cite

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“…One option for breeding barley, especially winter cultivars, against powdery mildew attack is accumulating (pyramiding, stacking) nonhypersensitive, nonspecific quantitatively inherited resistance genes [ 110 , 115 , 116 , 117 , 118 ] originating from cultivars as well as landraces [ 119 ] and wild barley [ 97 , 98 , 120 , 121 , 122 , 123 , 124 ]. Although not all quantitative genes are necessarily nonspecific, this way shows promise.…”

Section: The Future Beyond Specificitymentioning

confidence: 99%

Specific Resistance of Barley to Powdery Mildew, Its Use and Beyond: A Concise Critical Review

Dreiseitl

2020

Genes

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Powdery mildew caused by the airborne ascomycete fungus Blumeria graminis f. sp. hordei (Bgh) is one of most common diseases of barley (Hordeum vulgare). This, as with many other plant pathogens, can be efficiently controlled by inexpensive and environmentally-friendly genetic resistance. General requirements for resistance to the pathogens are effectiveness and durability. Resistance of barley to Bgh has been studied intensively, and this review describes recent research and summarizes the specific resistance genes found in barley varieties since the last conspectus. Bgh is extraordinarily adaptable, and some commonly recommended strategies for using genetic resistance, including pyramiding of specific genes, may not be effective because they can only contribute to a limited extent to obtain sufficient resistance durability of widely-grown cultivars. In spring barley, breeding the nonspecific mlo gene is a valuable source of durable resistance. Pyramiding of nonspecific quantitative resistance genes or using introgressions derived from bulbous barley (Hordeum bulbosum) are promising ways for breeding future winter barley cultivars. The utilization of a wide spectrum of nonhost resistances can also be adopted once practical methods have been developed.

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“…A barley panel of 490 genotypes, consisting of progenies and founders from four multi-parent populations, was investigated in this study. The founders consisted of cultivars (9), breeding lines (4) and landraces (4) ( Table 1 ) with desirable traits for diseases such as scald, leaf rust, Fusarium and spot form of net blotch and PM [ 62 ]. One goal was to pyramid resistances into adapted background.…”

Section: Methodsmentioning

confidence: 99%

You Had Me at “MAGIC”!: Four Barley MAGIC Populations Reveal Novel Resistance QTL for Powdery Mildew

Novakazi

Krusell

Jensen³

et al. 2020

Genes

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Blumeria graminis f. sp. hordei (Bgh), the causal agent of barley powdery mildew (PM), is one of the most important barley leaf diseases and is prevalent in most barley growing regions. Infection decreases grain quality and yields on average by 30%. Multi-parent advanced generation inter-cross (MAGIC) populations combine the advantages of bi-parental and association panels and offer the opportunity to incorporate exotic alleles into adapted material. Here, four barley MAGIC populations consisting of six to eight founders were tested for PM resistance in field trials in Denmark. Principle component and STRUCTURE analysis showed the populations were unstructured and genome-wide linkage disequilibrium (LD) decay varied between 14 and 38 Mbp. Genome-wide association studies (GWAS) identified 11 regions associated with PM resistance located on chromosomes 1H, 2H, 3H, 4H, 5H and 7H, of which three regions are putatively novel resistance quantitative trait locus/loci (QTL). For all regions high-confidence candidate genes were identified that are predicted to be involved in pathogen defense. Haplotype analysis of the significant SNPs revealed new allele combinations not present in the founders and associated with high resistance levels.

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A Novel QTL for Powdery Mildew Resistance in Nordic Spring Barley (Hordeum vulgare L. ssp. vulgare) Revealed by Genome-Wide Association Study

Cited by 19 publications

References 52 publications

Genomic prediction and GWAS of yield, quality and disease-related traits in spring barley and winter wheat

Genomic prediction and GWAS of yield, quality and disease-related traits in spring barley and winter wheat

Specific Resistance of Barley to Powdery Mildew, Its Use and Beyond: A Concise Critical Review

You Had Me at “MAGIC”!: Four Barley MAGIC Populations Reveal Novel Resistance QTL for Powdery Mildew

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