Pyramiding of scald resistance genes in four spring barley MAGIC populations

Veteläinen, Merja; Manninen, Outi; Isolahti, Mika; Alsheikh, Muath; Bergersen, Stein; Jansen, Constantin; Windju, Susanne Skinnehaugen; Reitan, Lars; Jalli, Marja; Hautsalo, Juho; Orabi, Jihad; Vangdorf, Nana; Jensen, J.; Krusell, Lene; Hjortshøj, Rasmus L.; Robertsen, Charlotte Damsgård; Jahoor, A.; Bengtsson, Tommy; Novakazi, Fluturë; Åhman, Inger; Göransson, Magnus; Hilmarsson, Hrannar Smári; Sveinsson, Sæmundur

doi:10.1007/s00122-021-03930-y

Cited by 11 publications

(14 citation statements)

References 71 publications

(147 reference statements)

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“…The QTL-7H-2 is a QTL with the highest P-value and colocalises with QTL mapped in an Australian cultivar [47]. QTL-3H-1, QTL-7H-3, and QTL-7H-4 are also in areas where QTL were previously identified based on bi-parental population studies [10,19,22,[48][49][50][51]. However, on chromosome 5H, QTL-5H-1 and QTL-5H-2 were detected in regions with no known resistances to rhynchosporium.…”

Section: Genome-wide Association Studiesmentioning

confidence: 74%

“…However, on chromosome 5H, QTL-5H-1 and QTL-5H-2 were detected in regions with no known resistances to rhynchosporium. Unlike chromosomes 2H, 3H, 4H, 6H, and 7H, chromosome 5H contain only five other rhynchosporium resistance QTL identified so far: Qsc5H-Shyri (0.9 Mb) [52], qSUK7_5 (456-526 Mb) [10], QTLCW5H.1 (555.7 Mb) [26], Qsc5H.3 (587.4 Mb) [19], and Qsc_5H_1 (638.2-659.5 Mb) [22]. The first two QTL on chromosome 7H are the only detected loci where the allele associated with resistance is the minor allele, the other putative resistances appear more widespread with frequencies of 0.64 to 0.91 in the landrace collection (Table 3).…”

Section: Genome-wide Association Studiesmentioning

confidence: 99%

“…A further eight QTL originating from wild barley accessions were identified by GWAS in the Nested Association Mapping population HEB-25 [21]. GWAS was also used to map nine rhynchosporium resistance regions, including three new regions, in four multi-parent advanced generation inter-cross (MAGIC) populations tested in northern Europe [22].…”

Section: Introductionmentioning

confidence: 99%

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Genome-Wide Association Study for Resistance to Rhynchosporium in a Diverse Collection of Spring Barley Germplasm

Thauvin

Russell

Vequaud³

et al. 2022

Agronomy

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Rhynchosporium is one of the main biotic stresses on barley production worldwide. A set of 312 spring barley accessions was tested in four different locations over 3 years, to identify novel genetic resistances to rhynchosporium and to explore the allelic diversity for resistance genes present in this global germplasm collection. High-density genotypes from exome capture and RNA-seq were used to conduct high-resolution association mapping. Seven quantitative trait loci (QTL) were detected, including one in the Rrs2 region, amongst five containing known resistances. Relatively short physical intervals harbouring these resistances were proposed, providing a platform for the identification of underlying genes and tightly linked genetic markers for use in marker assisted selection. Genes encoding kinases were present in four of the QTL, in addition to Rrs1 and Rrs18, two loci known to contribute to rhynchosporium resistance. The frequencies and distributions of these novel and known QTL were superimposed on the regional origin of the landrace genotypes comprising the genome-wide association studies (GWAS) panel, highlighting the value of genetic resources as a source of diverse genetically controlled resistance to rhynchosporium. The detected QTL along with their linked genetic markers, could be exploited either directly for breeding purposes or for candidate gene identification in future studies.

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Section: Genome-wide Association Studiesmentioning

confidence: 74%

Section: Genome-wide Association Studiesmentioning

confidence: 99%

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Genome-Wide Association Study for Resistance to Rhynchosporium in a Diverse Collection of Spring Barley Germplasm

Thauvin

Russell

Vequaud³

et al. 2022

Agronomy

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“…The second previously reported locus QRrs-5H.4, was also identi ed with isolate E4 as described above. The last previously identi ed locus was QRrs5H.6 identi ed on chromosome 5H at position 642,241,089 (SSM 12_30566) embedded within the Qsc_5H_1 locus (Hautsalo et al 2021).…”

Section: Isolate Gps71-umentioning

confidence: 99%

Wild barley (Hordeum spontaneum) and landraces (Hordeum vulgare) from Turkey contain an abundance of novel Rhynchosporium commune resistance loci

et al. 2023

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Rhynchosporium commune, the causal agent of the disease scald or leaf blotch of barley is a hemibiotrophic fungal pathogen of global importance, responsible for yield losses ranging from 30-40% on susceptible varieties. To date, over 150 resistance loci have been characterized in barley. However, due to the suspected location of the R. commune host jump in Europe, European germplasm has been the primary source used to screen for R. commune resistance leaving wild (Hordeum spontaneum) and landrace (H. vulgare) barley populations from the center of origin largely underutilized. A diverse population consisting of 94 wild and 188 barley landraces from Turkey were genotyped using PCR-GBS amplicon sequencing and screened with six Turkish R. commune isolates. The isolates were collected from distinct geographic regions of Turkey with two from the Aegean region, two from central Turkey and two from the Fertile Crescent region. The data was utilized for association mapping analysis with a total of 21 loci identi ed, of which 13 were novel, indicating that these diverse primary barley gene pools contain an abundance of novel R. commune resistances that could be utilized for resistance breeding. Key MessageRhychosporium commune is a globally devastating pathogen of barley. Wild and landrace barley are underutilized; however, contain an abundance of loci that can be used as potential sources of resistance.

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“…According to incomplete data, 647 QTLs (including duplicate or redundant loci) for disease resistance to all pathogens have been reported by GWAS in barley to date utilizing a mixed linear model (MLM) analysis ( Igartua, Cantalapiedra & Casas, 2019 ), including Fusarium head blight resistance loci ( Massman et al, 2011 ; Mamo, 2015 ), stem rust resistance loci ( Turuspekov et al, 2016 ) and stripe rust resistance loci ( Belcher et al, 2018 ). Recently, GWAS was performed using the fixed and random model circulating probability unification (FarmCPU) approach to identify barley scald resistance genes ( Hautsalo et al, 2021 ) and net blotch resistance loci ( Clare et al, 2021 ). Compared with the traditional MLM analysis, the FarmCPU approach shortens the calculation time and improves the efficiency of QTL identification ( Liu et al, 2016 ).…”

Section: Introductionmentioning

confidence: 99%

Screening of stable resistant accessions and identification of resistance loci to Barley yellow mosaic virus disease

Pan

Jun

Hong

et al. 2022

PeerJ

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Background The disease caused by Barley yellow mosaic virus (BaYMV) infection is a serious threat to autumn-sown barley (Hordeum vulgare L.) production in Europe, East Asia and Iran. Due to the rapid diversification of BaYMV strains, it is urgent to discover novel germplasm and genes to assist breeding new varieties with resistance to different BaYMV strains, thus minimizing the effect of BaYMV disease on barley cropping. Methods A natural population consisting of 181 barley accessions with different levels of resistance to BaYMV disease was selected for field resistance identification in two separate locations (Yangzhou and Yancheng, Jiangsu Province, China). Additive main effects and multiplicative interaction (AMMI) analysis was used to identify accessions with stable resistance. Genome-wide association study (GWAS) of BaYMV disease resistance was broadly performed by combining both single nucleotide polymorphisms (SNPs) and specific molecular markers associated with the reported BaYMV disease resistance genes. Furthermore, the viral protein genome linked (VPg) sequences of the virus were amplified and analyzed to assess the differences between the BaYMV strains sourced from the different experimental sites. Results Seven barley accessions with lower standardized Area Under the Disease Progress Steps (sAUDPS) index in every environment were identified and shown to have stable resistance to BaYMV disease in each assessed location. Apart from the reported BaYMV disease resistance genes rym4 and rym5, one novel resistance locus explaining 24.21% of the phenotypic variation was identified at the Yangzhou testing site, while two other novel resistance loci that contributed 19.23% and 19.79% of the phenotypic variation were identified at the Yancheng testing site, respectively. Further analysis regarding the difference in the VPg sequence of the predominant strain of BaYMV collected from these two testing sites may explain the difference of resistance loci differentially identified under geographically distinct regions. Our research provides novel genetic resources and resistance loci for breeding barley varieties for BaMYV disease resistance.

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Pyramiding of scald resistance genes in four spring barley MAGIC populations

Cited by 11 publications

References 71 publications

Genome-Wide Association Study for Resistance to Rhynchosporium in a Diverse Collection of Spring Barley Germplasm

Genome-Wide Association Study for Resistance to Rhynchosporium in a Diverse Collection of Spring Barley Germplasm

Wild barley (Hordeum spontaneum) and landraces (Hordeum vulgare) from Turkey contain an abundance of novel Rhynchosporium commune resistance loci

Screening of stable resistant accessions and identification of resistance loci to Barley yellow mosaic virus disease

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