Resistance to Oculimacula yallundae and Oculimacula acuformis is conferred by Pch2 in wheat

Authors


Abstract

The recent report of a differential response of wheat lines containing the Pch2 gene to infection with the eyespot pathogens Oculimacula yallundae and O. acuformis has prompted this re-examination of the response to these fungi by the recombinant lines used to map Pch2. Homozygous recombinant substitution lines (RSL) derived from the hybridization of Chinese Spring (CS) and the CS chromosome substitution line Cappelle Desprez 7A (CS/CD7A), previously evaluated for response to glucuronidase (GUS)-transformed O. yallundae, were evaluated for response to infection with GUS-transformed O. acuformis. Based on visual scores and on GUS expression level, which reflects fungal colonization of seedling plants, evidence of a quantitative trait locus (QTL) conferring resistance to O. acuformis was found in two separate growth chamber experiments (logarithm of the odds, LOD, = 2·7 and 6·7 at 305 and 289 cM, respectively) that was equivalent in location to that for resistance to O. yallundae (LOD = 13·2 and 11·4 at 289 and 304 cM, respectively). These results confirm that Pch2 confers some degree of resistance against both O. yallundae and O. acuformis under these conditions.

Introduction

Since the identification of eyespot resistance gene Pch2 on chromosome 7A in the French wheat cultivar Cappelle Desprez (CD) (Law et al., 1976; Strausbaugh & Murray, 1989; de la Peña et al., 1996), there has been much debate over the relative effectiveness of this gene for control of eyespot disease. Law et al. (1976) and Jahier et al. (1978) both reported a positive effect for chromosome 7A in reducing eyespot when the cultivar Chinese Spring (CS) was used as the susceptible parent. Both studies also found that chromosomes 2B and 5D contributed to resistance and found evidence that the effect of chromosome 7A was not entirely independent. More recently, Burt et al. (2011) identified a quantitative trait locus (QTL) on chromosome 5A of Cappelle Desprez that confers resistance in both the seedling and adult stages and confers a similar level of resistance as Pch2. Importantly, the QTL on chromosome 5A may enhance eyespot resistance when combined with Pch2, with the combination providing enhanced disease control.

Estimates of the effectiveness of Pch2 in controlling eyespot vary greatly. Koebner & Martin (1990) reported that variation at the Ep-A1 isozyme locus on chromosome 7A accounted for 28% of the genetic variation in disease scores among CS:CD F3 families. Chapman et al. (2008) found that 35 to 40% of phenotypic variation among F3 families from a cross between CS and the chromosome substitution line Chinese Spring–Cappelle Desprez 7A (CS/CD7A) was accounted for by nearest-marker variation, whereas Burt et al. (2010) found the effect in this region to be non-significant.

Compounding the uncertainty surrounding the effectiveness of Pch2 is the difference among studies in the pathogen species used to evaluate plants for disease resistance. Eyespot disease of wheat and other cereals is caused by the related fungi Oculimacula acuformis (syn: Tapesia acuformis, anamorph Pseudocercosporella herpotrichoides var. acuformis; formerly rye (R)-type) and O. yallundae (syn: Tapesia yallundae, anamorph Pseudocercosporella herpotrichoides var. herpotrichoides; formerly wheat (W)-type) (Crous et al., 2003). Populations of O. acuformis and O. yallundae co exist within fields of the US Pacific Northwest and other wheat growing regions (Murray, 2010); consequently, it is important that wheat varieties have effective resistance to both eyespot pathogens.

Law et al. (1976) conducted a monosomic analysis of Cappelle Desprez using a pathogen isolate now known as O. yallundae. de la Peña et al. (1997) mapped Pch2 to an interval on chromosome 7AL between the loci Xcdo347 and Xwg380 using a set of RSL they developed through hybridization of CS with CS/CD7A, and inoculated with a GUS-transformed isolate of O. yallundae. Koebner & Martin (1990) refined the location of Pch2 using a mixture of isolates they referred to as Pseudocercosporella herpotrichoides, but did not indicate whether they were W- or R-type isolates, and found significant effects for genotype and genotype × environment interaction. Burt et al. (2010) used O. yallundae to evaluate the same lines for eyespot resistance that Chapman et al. (2008) evaluated using O. acuformis, but with different results. They concluded that Pch2 provided seedling resistance against O. acuformis, but was much less effective against O. yallundae.

The goals of this project were to evaluate the RSL developed by de la Peña et al. (1997) for reaction to O. acuformis, to evaluate the effectiveness of Pch2 in these lines against both eyespot pathogens, and to use QTL mapping to identify the presence (or lack) of a QTL conferring resistance to these pathogens.

Materials and methods

Plant materials

One hundred and twelve chromosome 7A homozygous RSL, segregating for the Pch2 gene, from the cross CS × CS/CD7A (de la Peña et al., 1996) were tested for resistance to O. yallundae and O. acuformis. In order to balance the data from all four experiments, 108 RSL were evaluated in the statistical analyses. For quality control purposes, wheat lines Cappelle Desprez (PI518787) and CS (CItr14108) were included in all eyespot resistance experiments. In addition, wheat lines Eltan (PI536994), Hyak (PI511674) and Madsen (PI511673) were included as checks in one O. yallundae resistance experiment, whereas Eltan, Hill-81(CItr17954) and Madsen were included as checks in both O. acuformis experiments. Cappelle Desprez contains Pch2, as well as loci on chromosomes 2B and 5D that contribute to eyespot resistance (Law et al., 1976). Both Madsen and Hyak were derived from VPM-1 and contain Pch1. Eltan and Hill-81 are susceptible to eyespot disease.

Evaluation of eyespot resistance

Two independent growth chamber experiments of eyespot resistance experiments were performed for each pathogen species. Resistance was evaluated by visual score and β-glucuronidase (GUS) assay as described by de la Peña & Murray (1994). Briefly, two seeds of each entry were sown in 6·4 cm pots and grown at 12°C with 10 h per day illumination. At the two-leaf stage, seedlings were inoculated with GUS-transformed isolates of either O. yallundae or O. acuformis as a suspension of conidia in agar (1 × 105 conidia mL−1) pipetted into a 1·5 cm section of plastic drinking straw placed around the seedling stem. Relative humidity in the growth chambers was maintained near 100% for 14 days after inoculation. Each experiment was arranged as a randomized complete block design with three to six replicates resulting in six to 12 plants per entry being evaluated.

Washed 4-cm-long basal stem sections were visually rated for eyespot lesion severity (de la Peña & Murray, 1994) 6–8 weeks post-inoculation and placed on ice or frozen until GUS assays were conducted. Visual ratings were performed on a 1–5 scale based on the area of stem with symptoms as described by de la Peña & Murray (1994), with larger numbers corresponding to increased lesion size. Stems were assayed for GUS activity using a procedure modified from Jefferson et al. (1987) and described by de la Peña & Murray (1994). Response to pathogen infection was represented as the fluorimetrically determined 4-methylumbelliferone (MU) content after conversion from 4-methylumbelliferyl glucuronide by GUS. Glucuronidase activity, as measured by this assay, is highly correlated with mycelial growth (de la Peña & Murray, 1994).

The two O. yallundae experiments were performed in 1997 and 2000, while the O. acuformis experiments were performed in 2011 and 2012. There was some variation in GUS assay methodology among experiments as a result of the time span between the first and last experiments. First, treatment of stems from the O. yallundae resistance experiments were as described by de la Peña et al. (1997) and consisted of grinding the stems in liquid nitrogen, then soaking in 600 μL GUS extraction buffer for 15 min at 4°C. Stems from the O. acuformis resistance experiments were mechanically crushed in a leaf squeezer (Ravenel Specialties Company) and the sap washed into a collection tube with 2·5 mL GUS extraction buffer. Secondly, the MU content of samples inoculated with O. yallundae was determined using a Molecular Devices Emax microplate reader (Molecular Devices Co.) whereas that of samples inoculated with O. acuformis was determined using a SpectraMax M2 microplate reader (Molecular Devices Co.). Thirdly, the first O. yallundae experiment used in these analyses was performed with four replicates, the second with six replicates, and both O. acuformis experiments with three replicates.

Statistical analyses

For these analyses, MU content was treated as a quantitative variable and log-transformed prior to analysis because of the non-independence of mean and variance. A mixed model analysis was implemented using the sas statistical software package (sas v. 9.2, SAS Institute Inc.) to evaluate line, pathogen and interaction effects using the combined data from all experiments in a split-plot design. In this analysis, pathogen was the whole plot factor with experiments nested within pathogen as the error term. Because replicates were nested within both pathogen and experiment, that term was included at the whole plot level. Recombinant substitution lines were the subplot factor. Line × pathogen and line × experiment within pathogen interaction effects were included in the model. Pathogens and lines were considered as fixed effects. A P-value < 0·05 was considered statistically significant. Quantitative trait locus analysis was performed within experiments on line least squares mean values.

Twenty-eight markers, all on wheat chromosome 7A, previously described by de la Peña et al. (1996, 1997) were used in the analysis. Marker map order was as determined by de la Peña et al. (1996). One hundred and eight RSL with both phenotype and genotype measures were used in the QTL analysis. Interval linkage mapping, as implemented in qtl cartographer (Basten et al., 1994), was used to determine the logarithm of the odds (LOD) score for the presence of a QTL at 1 cM intervals on chromosome 7A. The threshold for considering a LOD score as statistically significant evidence of a QTL was determined using a permutation test of 1000 cycles.

Results

Response to O. acuformis and O. yallundae infection varied among lines within experiments (Table 1). The MU values of the previous O. yallundae experiments by de la Peña et al. (1997) were analysed as a categorical variable based on non-significant differences from the resistant parent. Visual scores from that experiment were no longer available. Visual scores and log-transformed MU values from all experiments (where available) were normally distributed (skew and kurtosis <|1·0|). Combining experiments, the visual disease scores and MU values from O. acuformis experiments did not differ from those of the O. yallundae experiments (> 0·05). Recombinant substitution line and line × pathogen interaction effects were statistically significant (< 0·0001 and < 0·001, respectively for both log MU and visual scores). Within pathogen species, the 1997 experiment resulted in lower MU values than the 2000 experiment (< 0·0001). The 2011 O. acuformis experiment had greater visual scores on average, but lower MU values, than did the 2012 experiment (< 0·0001).

Table 1. Response of 102 recombinant substitution lines (RSL) and six wheat cultivars to Oculimacula acuformis and O. yallundae infection measured as either a visual rating or GUS score
SpeciesYearVisual scoreGUS score
n Mean (SD)aRange n Mean (SD)bRange
  1. a

    Visual disease ratings were performed on a 0–4 scale, where 0 = no symptoms (healthy), 1 = a lesion only on the first leaf sheath, 2 = a lesion on the first leaf sheath and a small lesion on the second leaf sheath, 3 = a lesion covering the first leaf sheath and up to half of the second sheath, and 4 = a lesion covering the first and second sheaths (nearly dead).

  2. b

    GUS scores represent the transformed value of 4-methylumbelliferone produced from the β-glucuronidase (GUS) assay (log(MU)+1).

  3. NA: eyespot visual ratings were not available for the 1997 experiment.

O. acuformis 20116722·7 (0·85)0–46723·79 (0·33)2·67–4·96
20126901·9 (0·91)0–46904·00 (0·30)2·76–4·65
O. yallundae 1997NANANA4523·07 (0·35)1·85–4·02
200012413·1 (0·62)1–412374·50 (0·46)2·80–5·73

For both O. yallundae and O. acuformis, visual ratings and GUS scores yielded two peaks <18 cM apart, but not overlapping in their 1-LOD confidence intervals. Peak LOD scores for the visual disease scoring system were 3·8 at 304 cM for the O. yallundae experiment in 2000, and 4·3 at 292 cM and 6·0 at 307 cM for the O. acuformis 2011 and 2012 experiments, respectively (Fig. 1). Peak LOD scores for GUS activity were 13·2 at 289 cM and 11·4 at 304 cM for the O. yallundae 1997 and 2000 experiments; and 2·7 at 305 cM and 6·7 at 289 cM for the O. acuformis 2011 and 2012 experiments, respectively (Fig. 2). The threshold for statistical significance was LOD = 2·5 as determined by permutation test.

Figure 1.

Logarithm of the odds (LOD) scores on wheat chromosome 7A from interval linkage mapping of resistance to Oculimacula acuformis and O. yallundae as indicated by visual assessment of disease severity. Oy2000 indicates the results of an O. yallundae trial performed in 2000; Oa2011 indicates the results of an O. acuformis trial performed in 2011; Oa2012 indicates the results of an O. acuformis trial performed in 2012. A LOD score of 2·5 is the threshold for statistical significance.

Figure 2.

Logarithm of the odds (LOD) scores on wheat chromosome 7A from interval linkage mapping of resistance to β-glucuronidase (GUS)-transformed Oculimacula acuformis and O. yallundae as indicated by GUS activity, which is highly correlated with pathogen growth. Oy1997 are the results of an O. yallundae trial performed in 1997; Oy2000 are the results of an O. yallundae trial performed in 2000; Oa2011 are the results of an O. acuformis trial performed in 2011; Oa2012 are the results of an O. acuformis trial performed in 2012; MU is the 4-methylumbelliferone level. A LOD score of 2·5 is the threshold for statistical significance.

Statistically significant evidence for linkage with a QTL for visual disease severity was also observed at 92 cM near Xwg522 (Fig. 1) in the 1997 and 2000 O. yallundae experiments (LOD = 2·80 and 4·31, respectively) and in the 2011 O. acuformis experiment (LOD = 3·81). This peak is on the short arm of chromosome 7A and was not investigated further in this study.

Evidence of linkage from all experiments was strongest between Xcdo347 and Xpsr121 (Figs  1 & 2). Variation at the Xcdo347 locus accounted for 38·9 and 25·8% of phenotypic variation in GUS activity in the 1997 and 2012 experiments, respectively, and 20·1% of visual score variation in the 2011 experiment. Variation at the RFLP locus Tha accounted for 37·9 and 10·8% of phenotypic variation in GUS activity in the 2000 and 2011 experiments, respectively, and 14·5% of variation in visual score in the 2000 experiment. Variation at Xpsr121 accounted for 21·1% of 2012 visual disease score phenotypic variation.

Discussion

Re-analysis of the response of these homozygous RSL to infection by GUS-transformed O. yallundae, including data from a previously unpublished trial, confirmed the presence of an eyespot disease resistance locus at the terminal end of the long arm of chromosome 7A observed by de la Peña et al. (1997). Two new experiments evaluating these lines for their response to O. acuformis also provided evidence of an eyespot resistance QTL in the same region. In the previous two-point linkage analysis, in which Pch2 was considered as a qualitative trait, Xcdo347 was the most strongly linked locus (de la Peña et al., 1997). In this study, resistance was considered a quantitative trait and evaluated using the original mapping data. The strongest evidence for a QTL was at or somewhat distal to Xcdo347. The length of the map as published by de la Peña et al. (1997) may indicate the presence of genotyping errors when regarded in the context of more contemporary studies. In addition, the existence of two nearby peaks and the variation in peak LOD score location among experiments may indicate inconsistencies between the estimated and true map order of markers in this region, or be a result of stochastic variation. Regardless, this QTL appears to be at, or very near, the location reported by Chapman et al. (2008). Although the marker set in the current study and theirs did not overlap, the publically available linkage map for Courtot × Chinese Spring (Courtot/CS; http://wheat.pw.usda.gov) contains flanking markers for this region used in both studies. Marker loci Xcfa2019 and Xcfa2040 at 224 and 256·2 cM, respectively, on the Courtot/CS map flanked Pch2 on the Chapman map; whereas, XksuD002 and XksuH009 at 232·8 and 267·5 cM, respectively, on the Courtot/CS map flanked the QTL on the map in the current study. Together, this places Pch2 in the interval between the Xcfa2019 and XksuH009 loci and provides strong evidence that the QTL identified in these two studies is the same.

In contrast to Burt et al. (2010), statistically significant evidence of a QTL for resistance to O. yallundae on chromosome 7A was found. Both studies used mapping populations developed from Chinese Spring and the chromosome substitution line Chinese Spring–Cappelle Desprez 7A. One reason for this disparity may be the use, in this study, of completely homozygous RSL as opposed to the F3 families used by Burt et al. (2010), which may have suffered from reduced power to detect linkage as a result of heterozygosity at the Pch2 locus. Alternatively, the extreme variation in estimates of the size of the Pch2 effect among studies and experiments within studies (0–40% of phenotypic variation) may be because of differing contributions to phenotypic variance × environment or gene × environment interaction. Indeed, in this current investigation at least, pathogen species and experiment-specific environment effects were confounded because of the necessity of using separate growth chamber trials. Other potential sources of disparity between this study and Burt et al. (2010) include methodological differences in the controlled environment tests and the use of GUS-transformed isolates in this study. In addition, differences in the visual scoring systems include the use in this study of a 5-point rather than a 7-point scale and assessment based more on lesion spread than on penetration into the leaf sheaths. These differences may have had consequences for the ability to detect a QTL under O. yallundae infection.

Burt et al. (2010) found significantly greater visual disease severity for O. yallundae than O. acuformis, which may be interpreted as less effective resistance against O. yallundae. In the current study, neither the visual disease scores nor the MU values differed between pathogen species, but it is unreliable to draw conclusions from this about disease severity given the confounding between experiment and pathogen effects that are a consequence of the experimental design. It would be of interest to investigate potential differences in disease severity measures between the eyespot pathogen species, given indications that they differ in their distribution within plant tissues and in how they trigger the plant hypersensitive response, but not in their colonization rate (Murray & Ye, 1986).

Given the non-uniform experimental conditions in published works to date, it is premature to draw conclusions concerning the relative effectiveness of Pch2 against O. acuformis and O. yallundae. Indeed, caution must be used when drawing conclusions about pathogen species difference in disease severity from these data, given the methodological changes between the O. yallundae and the more contemporary O. acuformis experiments. Nevertheless, evidence was found of a QTL on chromosome 7AL that influences eyespot disease resistance, regardless of pathogen species or disease rating method, suggesting that Pch2 confers some level of resistance against both species under these conditions.

Acknowledgements

Plant Pathology News Series #0606, Department of Plant Pathology, College of Human, Agricultural and Natural Resources Sciences Agricultural Research Center, Project No. WNP00670, Washington State University, Pullman, WA 99164-6430, USA. Financial support of the Washington Grain Commission is gratefully acknowledged.

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