Mapping of genomic regions associated with net form of netblotch resistance in barley

Raman, Harsh; Platz, G. J.; Chalmers, K. J.; Raman, Rosy; Read, B. J.; Barr, A. R.; Moody, D. Branch

doi:10.1071/ar03026

Cited by 46 publications

(45 citation statements)

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“…Using the RFLP markers MWG733 and ABC261 as reference points between the DArT consensus map (Wenzl et al, 2006) and the linkage group defi ning the Un8 location (Eckstein et al, 2002), the Un8 gene maps to the 127-133 cM interval on chromosome 1H on the DArT consensus map. This locus has also been identifi ed by Steffenson et al (1996) and Raman et al (2003). Grewal et al (2008) identifi ed several QTL infl uencing resistance to net-form net blotch isolate WR858, including a major QTL explaining 65% of the variability on chromosome 6H at interval 75-78 cM on the DArT consensus map.…”

Section: Association Mappingmentioning

confidence: 72%

Association Mapping of Malting Quality Data from Western Canadian Two‐row Barley Cooperative Trials

Beattie

Edney²,

Scoles

et al. 2010

Crop Science

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A ssociation analysis is a genome-wide genetic mapping tool that has been adopted by plant breeders to identify genomic regions linked to traits of interest. Its application and accessibility to plant breeding has coincided with advances in lower cost, high throughput genotyping platforms and improved statistical analysis (and software). Linear models that incorporate population stratification control, such as model-based Bayesian clustering (Pritchard et al., 2000) or principal component analysis (Price et al., 2006), and familial relatedness, such as the QK mixed-model approach (Yu et al., 2006), reduce the occurrence of spurious associations.Association mapping off ers greater resolution and effi ciency than linkage-based mapping. The historical recombination present in unrelated populations off ers a greater pool of meiotic events to exploit than the limited number produced in biparental crosses (Flint-Garcia et al., 2003). The greater density of recombination events over time diminishes the distance over which linkage disequilibrium (LD) exists (the basis of AM) and produces greater mapping resolution. As a secondary benefi t, the more diverse populations suitable for AM allow a breeder to select and analyze ABSTRACT Re-examining historical datasets is a proposed use for association mapping (AM) and is particularly valuable when the data describes timeconsuming and/or expensive to measure traits. A collection of 91 elite two-row malting barley (Hordeum vulgare L.) lines entered in the western Canadian Cooperative Two-Row Barley Trials over a 13-yr period were analyzed by AM to identify markers associated with seven malting quality traits. A linear mixed-model incorporating population structure and familial relatedness identifi ed 27 diversity array technology (DArT) markers associated with malting quality. These markers will assist selection of parents with complementary allele combinations for future crosses and help identify progeny with the desired alleles. Putative candidate expressed sequence tags (ESTs) responsible for markertrait associations were identifi ed for 19 of the 27 DArT markers and include genes important for seed storage protein accumulation, gibberellinmediated gene expression, seed storage mobilization, and dormancy. Efforts to identify novel variability in these genes may present opportunities to improve malting quality.

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Section: Association Mappingmentioning

confidence: 72%

Association Mapping of Malting Quality Data from Western Canadian Two‐row Barley Cooperative Trials

Beattie

Edney²,

Scoles

et al. 2010

Crop Science

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“…2006). Raman et al. (2003) also identified a QTL on 3HL in ‘Alexis’ and ‘Arapiles’ as minor genes ( R 2 values ranged 13–16% for the closest AFLP marker P14/M61‐154), where their locations are in the similar position of 3H in ‘Pompadour’ based on one of the common linked SSR marker Bmag0225.…”

Section: Discussionmentioning

confidence: 93%

“…Similarly, QTL on 2H, 3H, 4H and 6H were also identified in the Australian cultivars at seeding and adult stages against different isolates which included NB50, NB81 and NB52B used in this study (Cakir et al. 2003, Raman et al. 2003, Emebiri et al.…”

mentioning

confidence: 74%

Quantitative trait loci and epistatic interactions in barley conferring resistance to net type net blotch (Pyrenophora teres f. teres) isolates

Gupta

Loughman

et al. 2009

Plant Breeding

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Net type net blotch (NTNB) is an important barley disease in Australia and elsewhere, with significant yield reduction. This trait is important in selection along with other traits of quality and agronomic value. Two-hundred doubled-haploid lines were generated through anther culture from a cross between ÔPompadourÕ and ÔStirlingÕ. Quantitative trait loci (QTL) were identified against five isolates of Pyrenophora teres f. teres, which represent virulences across Australia. QTL were mapped on chromosomes 3H and 6H using simple sequence repeat (SSR) markers. The resistance locus on 6H was detected with all isolates while the 3H locus was detected with two isolates. The 6H QTL from ÔPompadourÕ contributed resistance to isolates 97NB1, 95NB100 and NB81, whereas 6H QTL from ÔStirlingÕ contributed resistance to isolates NB50 and NB52B. The 3H QTL from ÔPompa-dourÕ contributed resistance to NB50 and NB52B. Significant epistatic interactions were detected between QTL on 3H and 6H. These resistance QTL are a useful resource and identifying closely linked SSR markers with allelic combinations will facilitate in marker-assisted selection to develop NTNB resistant breeding lines.

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“…Several studies using various RIL and doubled haploid (DH) mapping populations have identified a region on chromosome 3H which, on the basis of common markers, appears to be in the same region as the major 3H QTLs reported here (Graner et al ., ; Gupta et al ., , ; Raman et al ., ; Yun et al ., ). At least three of these studies also used the Australian isolate NB50 (Gupta et al ., , ; Raman et al ., ). Using this same NB50 isolate on the HN population, we also detected a major QTL on 3H ( R 2 = 0.66) in addition to two minor effect QTLs on 3HL and 5HS.…”

Section: Discussionmentioning

confidence: 97%

“…() used NB50 to evaluate four DH populations, all using the same susceptible parent, and a 3H QTL alone was identified in two of the populations, but the major QTL mapped to either chromosome 6H or 4H in the other two populations. In the DH population of Sloop/Halcyon, seedling resistance to NB50 mapped to chromosomes 4H and 3H with R 2 = 0.64 and 0.09, respectively (Raman et al ., ). Similarly, the Californian isolate 6A has been shown previously to have virulence towards a dominant susceptibility gene on chromosome 6H in the DH population of Rika × Kombar (Abu Qamar et al ., ; Liu et al ., ).…”

Section: Discussionmentioning

confidence: 99%

Necrotrophic effector‐triggered susceptibility (NETS) underlies the barley–Pyrenophora teres f. teres interaction specific to chromosome 6H

Liu

Holmes

Faris

et al. 2014

Molecular Plant Pathology

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Barley net form net blotch (NFNB), caused by the necrotrophic fungus Pyrenophora teres f. teres, is a destructive foliar disease in barley-growing regions worldwide. Little is known about the genetic and molecular basis of this pathosystem. Here, we identified a small secreted proteinaceous necrotrophic effector (NE), designated PttNE1, from intercellular wash fluids of the susceptible barley line Hector after inoculation with P. teres f. teres isolate 0-1. Using a barley recombinant inbred line (RIL) population developed from a cross between the sensitive/susceptible line Hector and the insensitive/resistant line NDB 112 (HN population), sensitivity to PttNE1, which we have named SPN1, mapped to a common resistance/susceptibility region on barley chromosome 6H. PttNE1-SPN1 interaction accounted for 31% of the disease variation when the HN population was inoculated with the 0-1 isolate. Strong accumulation of hydrogen peroxide and increased levels of electrolyte leakage were associated with the susceptible reaction, but not the resistant reaction. In addition, the HN RIL population was evaluated for its reactions to 10 geographically diverse P. teres f. teres isolates. Quantitative trait locus (QTL) mapping led to the identification of at least 10 genomic regions associated with disease, with chromosomes 3H and 6H harbouring major QTLs for resistance/susceptibility. SPN1 was associated with all the 6H QTLs, except one. Collectively, this information indicates that the barley-P. teres f. teres pathosystem follows, at least partially, an NE-triggered susceptibility (NETS) model that has been described in other necrotrophic fungal disease systems, especially in the Dothideomycete class of fungi.

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Mapping of genomic regions associated with net form of netblotch resistance in barley

Cited by 46 publications

References 47 publications

Association Mapping of Malting Quality Data from Western Canadian Two‐row Barley Cooperative Trials

Association Mapping of Malting Quality Data from Western Canadian Two‐row Barley Cooperative Trials

Quantitative trait loci and epistatic interactions in barley conferring resistance to net type net blotch (Pyrenophora teres f. teres) isolates

Necrotrophic effector‐triggered susceptibility (NETS) underlies the barley–Pyrenophora teres f. teres interaction specific to chromosome 6H

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