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American Society of Plant Biologists PMR6, a Pectate LyaseLike Gene Required for Powdery Mildew Susceptibility in ArabidopsisDepartment of Plant Biology, Carnegie Institution of Washington, Stanford, California 94305 2 To whom correspondence should be addressed. E-mail john.vogel{at}ucr.edu; fax 909-787-4294
The plant genes required for the growth and reproduction of plant pathogens are largely unknown. In an effort to identify these genes, we isolated Arabidopsis mutants that do not support the normal growth of the powdery mildew pathogen Erysiphe cichoracearum. Here, we report on the cloning and characterization of one of these genes, PMR6. PMR6 encodes a pectate lyaselike protein with a novel C-terminal domain. Consistent with its predicted gene function, mutations in PMR6 alter the composition of the plant cell wall, as shown by Fourier transform infrared spectroscopy. pmr6-mediated resistance requires neither salicylic acid nor the ability to perceive jasmonic acid or ethylene, indicating that the resistance mechanism does not require the activation of well-described defense pathways. Thus, pmr6 resistance represents a novel form of disease resistance based on the loss of a gene required during a compatible interaction rather than the activation of known host defense pathways.
When a plant interacts with a pathogen, there are two possible outcomes: either the pathogen grows and reproduces normally on the plant, in which case the plant is said to be susceptible, or the pathogen fails to grow and reproduce normally, in which case the plant is said to be resistant. For obvious reasons, a tremendous amount of research has focused on identifying the plant genes involved in mediating resistance to a diverse array of pathogens. From this intense scrutiny, a picture of the pathways leading from perception of the pathogen by resistance genes to the activation of host defenses is emerging. In Arabidopsis, two pathways through which defense genes can be activated have been described. One pathway requires salicylic acid (SA) as a signaling intermediary, and the other requires the simultaneous perception of ethylene and jasmonic acid (JA). Numerous mutations that affect signaling through these pathways have been identified, and some of the corresponding genes have been cloned.
In contrast to our knowledge of the plant genes involved in resistance, little is known about the plant genes required for susceptibility. The best examples of susceptibility factors are plant metabolites that serve as chemoattractants or cues for the induction of bacterial genes involved in symbiosis or pathogenesis (Stachel et al., 1985
In an effort to identify plant genes required for susceptibility, we began studying the interaction between Arabidopsis and the powdery mildew Erysiphe cichoracearum UCSC1 (Adam and Somerville, 1996 Given the intimacy and complexity of this interaction, we reasoned that many plant factors would be required for powdery mildew growth. Assuming that these factors are not redundant, mutations in the corresponding genes, if not lethal, would be expected to reduce pathogen growth. Such mutations can be considered a novel form of disease resistance based not on resistance genes or the activation of host defenses but on the loss of the host's ability to support the pathogen.
Previously, we screened 26,000 M2 ethyl methanesulfonate mutants for individuals that were resistant to powdery mildew. In an effort to avoid mutants in which host defenses were activated constitutively, we excluded mutants that constitutively expressed PR1 or formed spontaneous lesions. This left 32 confirmed powdery mildewresistant mutants. Twelve of these mutants formed lesions after inoculation and were set aside. Crosses between the remaining 20 mutants defined four recessive loci, pmr1 to pmr4 (Vogel and Somerville, 2000
Neither the SA-dependent nor the JA/ethylene-dependent defense pathway was activated constitutively in pmr1 to pmr4, indicating that the resistance was not attributable to the constitutive activation of known defense pathways. Also notable was the absence of cell death at infection sites, indicating that resistance was not mediated by cell death. Thus, the resistance observed in these mutants is qualitatively different from resistance genemediated resistance, which typically involves a hypersensitive response. pmr-mediated resistance also is qualitatively different from previously described disease-resistant mutants that either constitutively express host defenses (e.g., cpr, lsd, cim, acd, and mlo) (Jørgensen, 1992
It is important to note that for the two previously described powdery mildewresistant mutants, mlo and edr1, resistance seems to be mediated by an enhancement of host defenses rather than by the loss of susceptibility factors. The barley mlo mutant is a lesion-mimic mutant in which resistance is correlated with a greatly enhanced papilla (a callose-rich barrier deposited at the site of attack) response (Wolter et al., 1993 In addition to powdery mildew resistance, pmr1, pmr3, and pmr4 mutants display obvious phenotypic defects: pmr1 has a defect in pollen tube growth, pmr3 is a conditional dwarf, and pmr4 has epinastic leaves. Thus, PMR1, PMR3, and PMR4 play roles in normal plant growth and development. This is to be expected for susceptibility factors because it is unlikely that the plant evolved genes with the sole function of servicing pathogens. Rather, the fungus has evolved to use the plant's normal machinery to create an environment favorable to disease. Here, we describe the cloning and characterization of PMR6.
Mutant Isolation and Fungal Growth During the initial screen in which pmr1 to pmr4 were identified, we also identified six additional recessive mutants at two other loci, pmr5 (one allele) and pmr6 (five alleles). pmr6 plants are highly resistant to powdery mildew (Figure 1). To quantify that resistance and determine if pmr6 resistance was correlated with a block at a defined stage of fungal development, we measured fungal growth at various times after inoculation (Vogel and Somerville, 2000
In general, fungal spores germinated and began to grow in a wild-type manner on pmr6-1 plants. However, by 2 days after inoculation (DAI) and beyond, colonies on pmr6-1 plants were significantly smaller (P < 0.05 by t test) than those on the wild type (Figure 2A). Eventually, most of the colonies on pmr6-1 plants consisted of shriveled hyphae, which were attached loosely to the leaf surface (data not shown). The production of asexual conidiospores also was reduced significantly (P < 0.0005 by t test) on pmr6-1 plants (Figure 2B). Thus, pmr6 resistance was not correlated with a block at a defined stage in fungal development.
Host Defenses A crucial question regarding the resistance mechanism operating in pmr6 is what role, if any, do known host defense pathways play. If PMR6 is a susceptibility factor, then pmr6 resistance should be largely independent of defense pathways. In Arabidopsis, two pathways through which defense genes can be activated are well characterized (Glazebrook, 2001 To determine if pmr6 resistance was correlated with enhanced activation of the SA pathway, we measured the expression of the SA-responsive defense gene PR1 at various times after inoculation. After inoculation, PR1 mRNA levels in the mutant were similar to those in the wild type (Figure 3), indicating that resistance is not mediated by hyperactivation of the SA pathway. Uninfected pmr6 plants (all alleles) expressed a very low, and variable, level of PR1, indicating that the SA pathway is usually slightly activated in this mutant.
To more directly assess the contribution of the SA pathway to resistance, we crossed the NahG transgene (Lawton et al., 1995
To further exclude a requirement for the SA pathway, we created a pmr6-1 npr1-2 double mutant. The npr1-2 mutant was identified by its inability to express PR1 in response to SA treatment (Cao et al., 1994
Thus, pmr6 resistance does not require NPR1. Importantly, because the poorly understood phenomenon of induced systemic resistance requires NPR1 (Pieterse et al., 1998
As in the experiments with PR1, the plant defensin PDF1.2 was used as a marker for the activation of the JA/ethylene pathway (Penninckx et al., 1996
Cell Death We did note that some leaves on pmr6 plants, all alleles, had a small number of individual dead mesophyll cells. These dead cells typically clustered along veins toward the outer edge of the leaf on a subset of the oldest leaves (Figure 4A). Also, these same cells were autofluorescent, suggesting that phenolic compounds were cross-linked into the cell wall (Figure 4B). It is important to note that these microlesions were seen in only a subset of the oldest leaves, but all leaves were resistant to powdery mildew. Also, there was no obvious increase in microlesions after inoculation. Therefore, resistance is not correlated with microlesions.
We regard the microlesions as a pleiotropic effect of the pmr6 mutations not associated with resistance. These microlesions are most likely the stimulus for the low constitutive expression of PR1 observed in pmr6 plants. Interestingly, this vein-associated lesion phenotype can be phenocopied by heat treating wild-type plants (Figures 4A and 4B). Heat-treated wild-type plants were fully susceptible to E. cichoracearum (data not shown). Regardless of the mechanism of cell death, the fact that uninfected wild-type plants can be induced to form similar lesions without pathogen challenge and remain susceptible to subsequent powdery mildew attack suggests that the lesions are not strictly indicative of an activation of host defenses and are not associated with pmr6-mediated resistance.
Other Pathogens
pmr6-1, like the wild type, was fully susceptible to Pseudomonas DC3000 pLAFR3 (Whalen et al., 1991
Similar to the results with Pseudomonas, pmr6-1 was fully susceptible to the biotrophic pathogen Peronospora Emco5 (Dangl et al., 1992
We also challenged pmr6-1 plants with the closely related powdery mildew Erysiphe orontii MGH1 (Plotnikova et al., 1998
Cloning of PMR6 All 33 powdery mildewresistant individuals in the F2 generation also were resistant to Finale. However, only nine individuals were susceptible to Finale, indicating the presence of more than one T-DNA insert. To convincingly demonstrate cosegregation, it was necessary to identify lines with single T-DNA inserts. To this end, 24 F2 plants that were powdery mildew susceptible and Finale resistant were allowed to set seed. The resultant F3 populations were tested for powdery mildew resistance and then sprayed with Finale.
The segregation results for one line that appeared to contain a single T-DNA insert are as follows: 91 plants were powdery mildew and Finale resistant; 204 plants were powdery mildew susceptible and Finale resistant; and 94 plants were powdery mildew susceptible and Finale sensitive. No plants were powdery mildew resistant and Finale sensitive. These results are consistent with a 1:2:1 segregation ratio ( The gene disrupted in pmr6-3 was identified by cloning DNA flanking the T-DNA insert using a PCR-based approach. To confirm that we had cloned the correct gene, the PMR6 genes from three ethyl methanesulfonate alleles and an additional T-DNA allele were sequenced to identify mutations (Figure 5A). Finally, to corroborate that we had identified the correct gene, we complemented the mutation by introducing a 6.9-kb DNA fragment containing a wild-type version of PMR6 into pmr6-1 plants.
Forty of 40 T1 plants were susceptible to powdery mildew, whereas 200 of 200 control plants (transformed with a vector not containing PMR6) were resistant to powdery mildew (Figure 1). A comparison of the cDNA sequence with the genomic sequence revealed that PMR6 contains three introns (Figure 5A). PMR6 mRNA is expressed approximately equally in all organs tested: mature leaves, flowers/buds, rosettes, and roots (Figure 5B). PMR6 mRNA levels were not affected significantly by powdery mildew infection at 3 DAI (Figure 5B).
PMR6 contains a pectate lyaselike domain fused to a novel 84amino acid C-terminal domain (Figure 5C). Pectate lyases cleave
The high degree of similarity between PMR6 and proteins with demonstrated pectate lyase activity suggests a similar function for PMR6. However, this notion must be tempered by the fact that researchers were unable to demonstrate pectate lyase activity for two pectate lyaselike proteins from tomato, Lat56 and Lat59 (Dircks et al., 1996 Unfortunately, PMR6 has proven difficult to express in Escherichia coli, Pichia pastoris, and a baculoviral system (data not shown), so its enzymatic activity remains untested. Although pathogen-produced pectate lyases are well-characterized virulence factors of various soft rot pathogens, plant-produced pectate lyases have not been shown to play a role in plantpathogen interactions. Because powdery mildews do not macerate tissue, the role PMR6 plays during a compatible interaction is not directly analogous to the role played by pathogen-produced pectate lyases.
The novel C-terminal domain corresponding to the last exon of PMR6 is required for PMR6 function because the transition mutation in pmr6-2 eliminates the C-terminal domain only by altering a splice site to introduce a frameshift mutation in the mature mRNA. Because of a predicted N-terminal endoplasmic reticulum transport sequence and a predicted C-terminal glycosyl-phosphatidylinositol (GPI) modification (Ferguson and Williams, 1988 This feature is not represented in any of the other 26 predicted pectate lyaselike genes in Arabidopsis with significant similarity to PMR6. The presence of a GPI anchor also raises the possibility that PMR6 may need to be released from the plasma membrane to gain access to pectin in the cell wall. The unique features of PMR6 suggest that it serves a specialized function that cannot be compensated for by other members of the gene family.
Cell Wall Analysis
Absorbance peaks attributed to both cellulose and xyloglucan shift down in energy and broaden in the spectra from pmr6-1 cell walls, indicating that pmr6-1 cellulose forms a different hydrogen bond network than does wild-type cellulose (Vinogradov and Linell, 1971 Principal component analysis was used to identify features that differ between pmr6-1 and the wild type but that are not obvious in the raw spectra. The first three principal components explained 85, 5, and 3.6% of the variation in the full data set. The signature peaks of the first principal component suggested that pmr6-1 cell walls are enriched for pectins with a lower degree of esterification and an alteration in the H bonding environment of cellulose microfibrils (Figure 6B). The second principal component, which by itself cannot separate Col from pmr6-1, demonstrated weak signals associated with protein and pectin (Figure 6C). The third principal component did not correspond to any known compounds (data not shown). Col and pmr6 samples formed two distinct populations in a biplot of the first two principal components (Figure 6D).
Pleiotropic Effects Thus, pmr6-1 rosette diameter was 0.77 times the diameter of wild-type rosettes, and the average area of a pmr6-1 epidermal cell was 0.51 times the area of wild-type epidermal cells. By comparing the square of rosette diameter ratio (0.772 = 0.59) with the ratio of the epidermal cell area (0.51), we conclude that the reduction in the size of pmr6 rosettes was attributable largely to a decrease in cell expansion. pmr6 leaves were shorter, rounder, and cupped slightly upward compared with wild-type leaves, which curled down (Figures 1 and 4C). The cupping phenotype indicated that the abaxial epidermal surface expanded more than the adaxial surface in pmr6 mutants, whereas the opposite was true in wild-type plants. Along with susceptibility, normal stature and leaf curling were restored by introducing the PMR6 gene into pmr6-1.
Because mutations in the PMR6 gene confer strong powdery mildew resistance, PMR6 is required for powdery mildew susceptibility. Two hypothesis can explain this resistance. Either PMR6 is required to promote fungal growth, or the loss of PMR6 somehow results in the activation of host defenses that retard fungal infection. Our characterization focused on differentiating between these possibilities.
Because high levels of PR1 or PDF1.2 mRNA were not observed in uninfected pmr6 plants, the resistance was not mediated by the constitutive activation of the SA-dependent or the JA/ethylene-dependent defense pathway. Likewise, because the levels of PR1 and PDF1.2 mRNA were not greater than those in the wild type after infection, pmr6 resistance is not caused by hyperactivation of the SA or JA/ethylene pathway. This sets pmr6 apart from a previously described powdery mildewresistant mutant, edr1, in which resistance was correlated with enhanced PR1 expression (Frye and Innes, 1998 To further exclude the involvement of previously described defense pathways, we constructed double mutants between pmr6-1 and npr1-2, coi1, or etr1-1 and introduced the NahG transgene into pmr6-1 plants. The resultant lines all were still resistant to powdery mildew, indicating that pmr6-mediated resistance is not dependent on signaling through the SA or JA/ethylene pathway. Thus, PMR6 either facilitates powdery mildew growth or somehow activates an undescribed defense pathway.
However, if pmr6 mutations activate a novel defense pathway, it must have a narrow spectrum, because pmr6 plants remain susceptible to Pseudomonas and Peronospora. This is in contrast to the broad-spectrum resistance observed in previously identified disease-resistant mutants (Dietrich et al., 1994 As the next step in trying to assign pmr6 a role in susceptibility or defense, we cloned the corresponding gene. PMR6 shows strong similarity to pectate lyase, suggesting a pectin-degrading activity for PMR6. Importantly, PMR6 does not resemble genes shown previously to be involved in host defense. Consistent with the putative pectin-degrading activity, pmr6 cell walls contain more pectin than wild-type cell walls (Figure 6). Although we do not know the exact role PMR6 plays in the cell, it clearly affects cell wall composition. The alterations in pmr6 cell wall composition may have made pmr6 plants poor hosts for Erysiphe spp. One possibility is that in a wild-type plant, PMR6 degrades pectin in the extrahaustorial matrix, the space between the fungal haustorial cell wall and the plant extrahaustorial membrane, which envelopes the haustorium. Thus, the loss of PMR6 function in the mutant may lead to pectin accumulation and increased hydrogen bonding in the extrahaustorial matrix, resulting in decreased nutrient availability to the pathogen. This idea is consistent with the slow growth of powdery mildew observed on the mutant. Another possibility is that fungal growth is reduced as a result of decreased penetration efficiency, possibly as a result of increased pectin content. However, no dramatic reduction in the frequency of colony initiation was observed during the measurement of fungal growth. Thus, at least the first penetration occurs at approximately the same frequency on pmr6-1 as on the wild type. Mutations in PMR6 result in altered leaf morphology and decreased size. The reduction in size is explained largely by a decrease in cell expansion and is consistent with the putative role pectins play in regulating the complex process of cell wall loosening. The defect in cell expansion may be responsible for the microlesions observed in pmr6, because differential expansion may rip apart individual cells. The similar levels of PMR6 mRNA observed in all tissues examined fit well with the overall reduction in the size of pmr6 plants. The pleiotropic effects of pmr6 mutations are consistent with a role as a susceptibility factor, because it is highly unlikely that a plant would possess genes that function solely to service pathogens. Rather, the pathogen probably evolved the ability to use plant genes to commandeer host functions for its own needs. As a result of our analysis, we are left with a gene that, when mutated, leads to powdery mildew resistance independent of a resistance gene, cell death, and the activation of host defenses controlled by SA, JA, or ethylene. In addition, pmr6 plants are fully susceptible to Pseudomonas and Peronospora, indicating that the resistance is not caused by the activation of a novel broad-spectrum resistance mechanism. Thus, pmr6 resistance can be considered a special form of disease resistance, possibly based on the loss of a host susceptibility gene required by the pathogen for growth and development. In addition to increasing our understanding of compatible plantpathogen interactions, pmr6 resistance potentially can be engineered into crop plants to create durable resistance in the field.
Growth Conditions, Inoculations, RNA Gel Blot Analysis, and Microscopy Except as noted, all experiments were performed as described previously (Vogel and Somerville, 2000
pmr6 Alleles
Construction of Double Mutants
To identify plants homozygous for both etr1-1 and pmr6-1, the ethylene-resistant and powdery mildewresistant F2 plants were allowed to set seed. The resultant F3 seeds were plated on Murashige and Skoog (1962)
To introduce the NahG transgene into pmr6-1 plants, pmr6-1 was crossed to a Columbia (Col) plant containing the NahG transgene (a gift from Iain Wilson, CSIRO Plant Industry, Canberra, Australia). F2 plants were inoculated with powdery mildew to identify pmr6-1 homozygous plants. These plants then were allowed to set seed. F3 seeds were plated onto Murashige and Skoog (1962) To create the pmr6-1 npr1-2 double mutant, pmr6-1 was crossed to npr1-2. F2 plants were inoculated with powdery mildew to identify plants homozygous for pmr6-1. Several of these plants were allowed to set seed. To identify plants homozygous for npr1-2, a RNA gel blot prepared with total RNA from F3 plants inoculated with powdery mildew (3 days after inoculation) was probed with PR1. A line that showed no detectable PR1 expression was chosen as the pmr6-1 npr1-2 double mutant. The male-sterile phenotype of homozygous coi1 plants was used to follow the coi1 mutation during the construction of the pmr6-1 coi1 double mutant. A male-sterile coi1 plant was crossed to pmr6-1. F2 plants then were inoculated with powdery mildew and allowed to grow to determine fertility. Powdery mildewresistant, male-sterile plants were homozygous for both pmr6-1 and coi1. However, because coi1 must be maintained in a heterozygous condition, several plants that were powdery mildew resistant and fertile were allowed to set F3 seed. The resultant F3 plants were grown to determine if the population segregated for male sterility and by inference coi1.
Cloning and Complementation The PMR6 gene, containing 2.2 kb of upstream DNA and 1.3 kb of downstream DNA, was amplified from wild-type genomic DNA using oligonucleotide primers. The resultant 6.9-kb PCR product was cloned into the shuttle vector pGEM-T (Promega). The fragment then was excised from pGEM-T and cloned into the plant transformation vector pCAMBIA3300 (CAMBIA, Canberra, Australia). The resultant plasmid was transformed into pmr6-1 plants using Agrobacterium tumefaciensmediated transformation. Transformants were selected on soil using Finale (AgrEvo, Berlin, Germany) herbicide (0.13% active ingredient). T1 transformants were challenged with powdery mildew. To determine the sequence of the PMR6 mRNA, oligonucleotide primers were designed to amplify a nearly full-length reverse transcriptasemediated (RT)PCR product. Multiple RT-PCR products then were sequenced to determine the cDNA sequence. After sequencing of the RT-PCR products, a database search using PMR6 identified an apparently full-length cDNA clone. This clone was end-sequenced using M13fwd and M13rev primers to determine the 5' and 3' ends of the mature PMR6 mRNA. The complete cDNA sequence was submitted to GenBank.
Alignment
Fourier Transform Infrared Analysis
Collimated synchrotron infrared light from the Advanced Light Source Beamline 1.4.3 (Martin and McKinney, 1998 Each single-beam reflectance spectrum was ratioed to a reflection spectrum from a vapor-deposited gold surface. For each leaf disc, 512 scans were coadded for Fourier transform processing and absorbance spectra calculation. Spectra were collected over the infrared from 4000 to 650 cm-1 at a resolution of 2 cm-1 with a liquid N2-cooled mercury-cadmium-tellurium detector. Water vapor and CO2 in the ambient air were subtracted from each raw spectrum using a library spectrum at equivalent resolution. Each spectrum was manually baseline corrected in OMNIC over the full collection range (4000 to 2000 cm-1; 1850 to 650 cm-1). The baseline-corrected spectra were saved in JCAMP.DX format for further processing.
Exploratory data analysis used the principal components analysiscovariance matrix approach in the Win-DAS software package (Kemsley, 1998
Rosette Size Determination Upon request, all novel materials described in this article will be made available in a timely manner for noncommercial research purposes. No restrictions or conditions will be placed on the use of any materials described in this article that would limit their use for noncommercial research purposes.
Accession Numbers
We thank Iain Wilson for NahG transgenic plants, CAMBIA for pCAMBIA vectors, the Kasusa DNA Research Institute for cDNA clones, and John Turner for coi1 seeds. This work was supported by National Institutes of Health fellowship F32 GN19499-01, by the U.S. Department of Energy Biological Energy Research Program, and by Syngenta. The Advanced Light Source is supported by the U.S. Department of Energy (Grant DE-AC03-76SF00098). This is publication 1496 from the Carnegie Institution of Washington.
Article, publication date, and citation information can be found at www.plantcell.org/cgi/doi/10.1105/tpc.003509.
1 Current address: Department of Plant Pathology, University of California, Riverside, CA 92521. Received April 10, 2002; accepted June 19, 2002.
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