- Research article
- Open Access
Loss of compatibility might explain resistance of the Arabidopsis thaliana accession Te-0 to Golovinomyces cichoracearum
© Fabro and Alvarez; licensee BioMed Central Ltd. 2012
- Received: 13 April 2012
- Accepted: 3 August 2012
- Published: 11 August 2012
The establishment of compatibility between plants and pathogens requires compliance with various conditions, such as recognition of the right host, suppression of defence mechanisms, and maintenance of an environment allowing pathogen reproduction. To date, most of the plant factors required to sustain compatibility remain unknown, with the few best characterized being those interfering with defence responses. A suitable system to study host compatibility factors is the interaction between Arabidopsis thaliana and the powdery mildew (PM) Golovinomyces cichoracearum. As an obligate biotrophic pathogen, this fungus must establish compatibility in order to perpetuate. In turn, A. thaliana displays natural variation for susceptibility to this invader, with some accessions showing full susceptibility (Col-0), and others monogenic dominant resistance (Kas-1). Interestingly, Te-0, among other accessions, displays recessive partial resistance to this PM.
In this study, we characterized the interaction of G. cichoracearum with Te-0 plants to investigate the basis of this plant resistance. We found that Te-0´s incompatibility was not associated with hyper-activation of host inducible defences. Te-0 plants allowed germination of conidia and development of functional haustoria, but could not support the formation of mature conidiophores. Using a suppressive subtractive hybridization technique, we identified plant genes showing differential expression between resistant Te-0 and susceptible Col-0 plants at the fungal pre-conidiation stage.
Te-0 resistance is likely caused by loss of host compatibility and not by stimulation of inducible defences. Conidiophores formation is the main constraint for completion of fungal life cycle in Te-0 plants. The system here described allowed the identification of genes proposed as markers for susceptibility to this PM.
- A. thaliana
- G. cichoracearum
- Compatibility factors
- Powdery mildews
- Conidiophore maturation
- Loss of susceptibility
- Haustorial staining
- Haustorial imaging
Plant disease is a rare event in natural environments, as constant improvement of defence programs effectively controls most microbial pathogens. In addition to pre-formed barriers, plants typically exhibit two lines of inducible defence responses. First, a surveillance system detects pathogens by sensing microbe-associated molecular patterns (MAMPs) or host-self modified components to activate pattern triggered immunity (PTI) . This broad-spectrum immune response activates a complex signaling cascade, including the early and transient accumulation of reactive oxygen species (ROS), the deposition of the beta-glucan callose at the plant cell wall and a massive transcriptional reprogramming .
Although PTI effectively restricts the majority of “non-adapted” pathogens, particular “adapted” microbes can inactivate this pathway establishing compatible interactions with the plant. This latter condition implies an intimate communication between host and invader, and requires the coordinated action of pathogen-derived effectors over their host molecule targets [3–5]. These host targets are elements of defence signaling cascades, metabolic pathways, or structural cell components, whose modification by effectors favors pathogen’s nutrition or growth and thus can be considered as "compatibility factors" .
A second line of defence participates in the control of adapted pathogens. This response involves the action of resistance proteins (R) which recognize effectors, or products of their activity, to induce effector triggered immunity (ETI) providing race-specific resistance. PTI and ETI share several components but only ETI leads to the collapse of invaded cells, generating a Hypersensitive Response (HR) . In addition, broad-spectrum resistance against several species of the same genera of pathogens may also display HR features . The components of these pathways have been deeply characterized over the past decades, including the plant hormones salicylic acid (SA) and jasmonic acid (JA), whose mutual balance modulates resistance to biotrophic and necrotrophic pathogens . In contrast, little is known about the nature or function of host compatibility factors supporting disease development. Forward and reverse genetic approaches have revealed a few monogenic recessive loci whose loss of function reduced disease, therefore suggesting they encode compatibility components . Conversely, interactomic approaches such as yeast-two-hybrid and co-immunoprecipitation assays, mostly identified defence-related elements as targets of biotrophic or hemi-biotrophic pathogen effectors [11–13].
The interaction of plants with powdery mildews (PMs) offers suitable conditions for the study of compatibility and identification of plant and pathogen factors supporting disease development. PMs are adapted obligate pathogens par excellence, entirely depending on living tissue to grow and reproduce . Compatibility with these pathogens requires a delicate balance between the successful extraction of resources and maintenance of host viability [14, 15]. In particular, three Arabidopsis PM diseases have been well characterized, involving the following PM species: Golovinomyces cichoracearum (formerly Erysiphe cichoracearum) , Golovinomyces orontii (formerly Erysiphe orontii) , and Erysiphe cruciferarum . These pathosystems were used to clone genes involved in broad-spectrum disease resistance  and non-host resistance [19–21], as well as genes encoding compatibility factors [22–25]. Additionally, it has been recently described that another PM species, named Oidium neolycopersici, is able to complete its life cycle in Arabidopsis . Interestingly, different A. thaliana accessions display variable levels of susceptibility to G. cichoracearum. Among these, Tenela (Te-0) shows no macroscopic signs of disease, with a moderate resistance being conferred by a recessively inherited locus named RPW3 (recognition of powdery mildew 3) raising the possibility that plant components necessary for pathogen development or propagation are missing or altered in Te-0 plants . We here evaluated whether Te-0 resistance may result from defects in the establishment of compatibility. The defence and infection features observed in this interaction, indicated that Te-0 plants hold the formation of functional haustoria, but not the maturation of conidiophores. Thus, this experimental system would result suitable for characterization of compatibility conditions affecting the final stages of PM differentiation.
PTI/ETI-like responses in Te-0 plants infected with G. cichoracearumUCSC1
To evaluate the basis of Te-0 resistance to G. cichoracearum, we monitored the activation of defence markers in this interaction. As controls, we used the fully susceptible Columbia (Col-0) plant, and the resistant Kashmir (Kas-1) plant. In the last accession, RPW8, an atypical R gene confers broad-spectrum resistance to several PM species by inducing SA-dependent defences, ROS accumulation and cell death in a reaction similar to the HR activated by classical R genes [8, 16, 27]. Three cytological markers of PTI/HR induction were initially analyzed, by monitoring accumulation of ROS with 3,3 diaminobenzidine (DAB) , deposition of callose at plant cell wall with aniline blue [29, 30], and host cell death with lactophenol trypan blue [31, 32].
Callose deposits densely contouring epidermal cell walls were observed in Kas-1 infected tissues at 24 and 72 hpi, either at fungal contact sites or below non-germinated conidia (Figure 1b). Conversely, Te-0 and Col-0 infected epidermal cells, and adjacent mesophyll cells were devoid of callose deposits at the cell wall. In these two accessions fluorescence was detected around the haustoria (Figure 1b), probably as consequence of fungal auto-fluorescence and/or callose encasements becoming brighter with haustorial age [15, 29, 32, 33].
As expected, dead cells were also observed in infected Kas-1 tissues. Near half of the epidermal cells contacting the pathogen showed trypan blue staining at 24 hpi (Additional file 1a). Later on, by 48 hpi, the few haustoria formed in these tissues were surrounded by plant stained cytoplasmic content (Figure 1c, inset). In addition, some mesophyll cells underlying the sites of interaction showed death signs in this plant (Additional file 1b). In contrast, cell death was almost absent in challenged Te-0 and Col-0 tissues until 72 hpi (Figure 1c; Additional file 1a).
In A. thaliana, susceptibility to biotrophic pathogens is modulated by the balance between the SA- and JA- dependent defence pathways [34–36]. We analyzed whether resistance of Te-0 plants to G. cichoracearum resulted from constitutive expression or hyper-activation of these pathways. For this purpose, we monitored the expression of the SA-sensitive gene marker PR1 (pathogenesis-related gene 1), and the JA- inducible genes LOX2 (lipoxygenase 2), VSP2 (vegetative storage protein 2) and PDF1.2 (beta-glucanase 1.2).
Uninfected tissues of Col-0, Te-0 and Kas-1 plants, showed no accumulation of PR1 transcript. After infection, PR1 activation was first detected in Kas-1 (24 hpi), then in Col-0 (72 hpi) and later on Te-0 plants (240 hpi) (Figure 2a). Concerning the JA marker genes, pathogen-mediated VSP2 activation was weak and similar in all three plants (Figure 2b; Additional file 2). For LOX2 and PDF1.2, these were up-regulated in uninfected Kas-1 and/or Te-0, with minor changes in expression after infection in Te-0 plants. Hence, the expression patterns of these gene markers suggested that the Te-0 plants showed neither strong basal stimulation nor fungal-induced activation of the SA and JA pathways. To search for signs of alterations in the equilibrium between the SA and JA pathways in Te-0, we examined the transcriptional activity of two genes sensitive to the interaction between these pathways in response to G. cichoracearum. The genes were the SA-dependent and JA-repressible glycoside hydrolase (GH14), and the JA-dependent and SA-repressible tumor related protein (TURP) . We found that Col-0 and Te-0 plants expressed both genes with similar pattern during the course of infection (Figure 2c; Additional file 2).
In summary, our analysis suggested that resistance of Te-0 plants to G. cichoracearum is not accompanied by constitutive activation of PTI or exacerbation of ETI pathways.
Limiting stages for development of G. cichoracearumon Te-0 plants
Leaves inoculated with conidia were sampled every 6 h during the initial 72 hpi, stained with trypan blue and analyzed by bright-field optical microscopy to quantify fungal structures (Figure 3; Additional file 3). Compared to Col-0 plants, conidial germination was severely reduced in Kas-1 but less affected in Te-0 plants (Figure 3a,b). These differences were maintained until 72 hpi, where 90.5 ± 8.4%, 64.2 ± 5.3% and 42.6 ± 4.7% of the inoculated conidia germinated in Col-0, Te-0 and Kas-1 plants, respectively (Figure 3b). After germination, at 48 hpi, the pattern of fungal structures developed on Te-0 tissues was very similar to the one found in Col-0, but substantially different to that observed on Kas-1 tissues (Figure 3c). At this time, comparable levels of R colonies were present in Te-0 and Col-0 plants (29 and 36% of germinated conidia, respectively), while this differentiation stage was never reached in Kas-1 plants, where fungal development was stopped at the PGT (41%) or HA (42%) stages (Figure 3c, Additional file 3c).
The fungal growth was delayed on Te-0 with respect to Col-0 plants in 6–12 h (Additional file 3a,b). Interestingly, despite the presence of R colonies in Te-0 plants (Figure 3c), the formation of Cph was severely reduced in these tissues (Figure 3d). By scoring the number of Cph (mCph and iCph) per colony, we found that Col-0 tissues harbored 15 ± 6 Cph/colony by 5 days post-inoculation (dpi) and a maximum of 52 ± 10 Cph/colony at 10 dpi, while Te-0 tissues showed no Cph at 5 dpi, and just 12 ± 4 Cph/colony at 10 dpi. This reduction in Cph content was maintained until late infection stages suggesting it was not merely due to delayed fungal growth on Te-0 plants. Although the fungal colonies formed in Te-0 were slightly smaller and less ramified than the ones developed in Col-0 (Figure 3a, 72 hpi), the number of haustoria present in colonies of comparable size was similar for both plants (12 ± 4 in Col-0, 10 ± 3 inTe-0, at 72 hpi). Strikingly, most Cph found in Te-0 showed an incomplete development as they only reached the stage of iCph (Figure 3a, 72 hpi).
In conclusion, conidia germinating in Te-0 tissues were able to differentiate HA and form R colonies, but never completed the formation of mCph, suggesting the latter process is a limiting step for G. cichoracearum asexual reproduction in this plant.
Structural features of the fungal haustoria formed in Te-0 plants
In these plants, the epidermal cells harboring haustoria showed no evidence of cell wall thickening or plasma membrane alterations (Figure 4a,d,c,f). Furthermore, no signs of organelle or cytoplasm disruption were found in these cells, which maintained intact nuclei located in the proximity of the haustorium (Figure 4a,f). Multi-lobbed haustoria (Figure 4b,c,e), and abundant mitochondria and multi-vesicular bodies congregated around or inside haustoria (Figure 4b,c,f) were present in both accessions. In addition, the electro-lucent appearance of the extrahaustorial matrix was similar in both plants (Figure 4c,e,f), and discontinuities or alterations in fungal cell wall and extra haustorial membrane were not observed in these tissues.
At all examined stages, the haustoria generated in Te-0 were indistinguishable from those developed in Col-0, but clearly different from the ones present in Kas-1 plants, that actively counteract the fungal infection (Figure 5). Col-0 and Te-0 plants contained normal haustoria with single rounded nucleus, and vesicular-like compartments surrounded by a continuous thin structure likely corresponding to the EHM  (Figure 5). In contrast, 60-80% of haustoria formed on Kas-1 were abnormal at this time (Additional file 1a), presenting cytoplasmic disorganization and fainting of DAPI staining (Additional file 4), which suggested a degenerative process. In Col-0 and Te-0 these abnormalities were only observed at 72 hpi for a small subset of haustoria (18.00 ± 8.33 and 12.00 ± 9.33%, respectively, Additional file 1a). Using 3D reconstruction of images taken at 48 hpi, the maximum haustorial diameter was determined, revealing similar values for Te-0 and Col-0 samples (20.98 ± 2.49 and 21.52 ± 1.87 μm, respectively; T-test p < 0.05), and a significant reduction for haustorial diameter in Kas-1, respect to Col-0 samples (16.67 ± 3.96 μm, T-test p = 0.0034).
Transport of L-arginine through haustoria established in Te-0 plants
The haustorium of obligate biotrophic fungi like powdery mildews and rusts participates in the absorption of sugars, amino acids, S, P, and other nutrients required for fungal growth [43–46]. To evaluate the functionality of the haustoria formed in Te-0, we analyzed their capacity to transport L-arginine C14 (ArgC14) from plant to fungal cells. In these experiments, leaf discs were excised at different times post-infection and floated for 5 h in ArgC14 solution. Then, the fungal material present on the disks surface was stripped using an adhesive tape and the amount of C14 in the tape was quantified. Sibling infected discs were sampled in parallel to determine the haustoria content per disc by trypan blue staining. In addition, discs from uninfected leaves were exposed to the same treatment to quantify and subtract the residual radioactivity transferred to the tape as result of the stripping process. Similar assays have been previously used for identical purpose [44, 45].
We found that Kas-1 samples contained constant negligible levels of ArgC14 over the entire analyzed period (24–96 hpi; Additional file 5a). In contrast, Te-0-derived strips revealed an increase in the ArgC14 content during infection, with these values representing almost half of those corresponding to Col-0 samples until 72 hpi (Additional file 5a). Over this period, the differences observed may probably result from delayed fungal proliferation on Te-0 plants (Figure 3b,c, Additional file 3b). Considering this possibility, we normalized the levels of ArgC14 by the number of haustoria, and found no differences in the uptake of ArgC14 during the initial 72 hpi between mycelia installed in Te-0 and Col-0 plants (Additional file 5b). Interestingly, at 96 hpi, a net increase in radioactivity was detected in Col-0, but not in Te-0 samples. It was unknown whether this variation was also due to differences in fungal biomass. However, as maturation of Cph occurred at this time in the sensitive plant, the result might suggest that higher levels of nutrients are required under such condition. In agreement with this, such an increase was never reached, even at later time points, in Te-0 plants unable to hold mCph (these samples contained near 400 cpm of ArgC14 per stripped leaf disc at 120 hpi).
In conclusion, the results suggested that haustoria installed in Te-0 function in a very similar manner to those formed in Col-0 plants, at least with respect to the Arg uptake. Therefore, the conidiation deficiency observed in Te-0 would not result from severe failures in the absorption of nutrients.
A. thaliana genes differentially expressed in Te-0 plants during the interaction with G. cichoracearum
To further characterize the interaction between Te-0 plants and G. cichoracearum, we identified genes having a differential expression in Col-0 and Te-0 tissues at late infection stages. For this purpose, cDNA libraries were generated from tissue samples isolated at 72 hpi, and used in suppressive subtractive hybridization assays (SSH) to confront Col-0 72 hpi cDNA samples (tester) against Te-0 72 hpi cDNAs samples (driver). The resulting non-subtracted cDNAs were cloned and sequenced, revealing 8 genes under-expressed in Te-0 compared to Col-0 samples. These differentially expressed genes encode for the following proteins: PR1, methallothionein 1a (MT1a), heat shock cognate protein 70.1 (HSP70.1), endoplasmin (END, HSP90.7), GRF7/GF14v 14-3-3 protein (GRF7), sucrose transporter 4 (STP4), chlorophyll a/b binding protein LHCB1.2, and an oxidoreductase. In principle, these genes could be considered markers of either ineffective defence activation or compatibility between A. thaliana and G. cichoracearum. We disregarded the study of defence-related genes encoding PR1, oxidoreductase, and chlorophyll a/b binding protein, whose role and/or behavior has been previously characterized for infections with this pathogen [36, 37].
PMs establish long term relationships with their host forcing the maintenance of compatibility conditions . The large and diverse collections of effectors encoded in the PM genomes  might indicate redundant functions of these compounds on their target molecules in the plant. This may explain why gene-for-gene resistance has negligible effect on the control of PM diseases in the field, and why plant resistance is overcome without apparent loss of fitness by the pathogen . The identification of such effectors and their targets will be key to understand PM diseases, and design new alternatives to generate long-lasting passive resistance. To move in this direction, new experimental systems allowing the evaluation of compatibility as well as resistance by loss of susceptibility are required. In relation to the later condition, we have characterized the interaction between A. thaliana Te-0 plants and G. cichoracearum, where the host offers compatibility conditions during the initial, but not later stages of infection. In this plant, conidial germination is partially reduced and fungal growth is slightly delayed. Both features have been described in resistant interactions involving PTI or ETI/HR activation [8, 20, 30, 34]. However, Te-0 infected tissues showed no signs of active defences (ROS accumulation, callose deposition, or cell death), in a response clearly distinguishable from that of infected Kas-1 tissues. Therefore, Te-0 resistance seems to be different from RPW8-mediated immunity, which confers broad-spectrum protection to powdery mildews in many different accessions of A. thaliana by activation of HR-like responses [8, 27, 49–51]. The SA-dependent pathway mediating resistance to biotrophic pathogens was neither induced under basal conditions, nor over-stimulated in Te-0 fungal-infected tissues. In addition, the JA signaling cascade did not seem to increase resistance against G. cichoracearum in Te-0 plants. The LOX2 and PDF1.2 gene markers had mild basal expression without activation after infection, whereas VSP2 showed no basal expression and weak induction by pathogen, suggesting that resistance to the fungus was not due to major enhancement of JA-dependent defences. Curiously, the effect of the JA pathway on the interaction of A. thaliana with PMs is still unclear. The JA levels transiently increase in A. thaliana tissues infected with G. cichoracearum . Resistance to PMs is enhanced in wild type plants treated with JA, as well as in cev1 mutants that constitutively activate the JA pathway . However, the coi1-1 and jar1-1 mutants, impaired in the JA-pathway, are not hyper-susceptible to PMs . Therefore, in natural infection conditions, activation of the JA/ET pathway may not be sufficient to confer resistance to PMs .
Te-0 plants did not show signs of premature senescence, alterations in size, or developmental-induced callose accumulation (http://www.arabidopsis.org/ABRC and Additional file 7). Neither did these plants stimulate strong defence features upon fungal infection. These observations argue against the possibility that resistance of Te-0 plants might originate from mutations in genes encoding PMR2, PMR4, EDR1, EDR2 and PUX2, previously described as PM-susceptibility factors, causing hyper-activation of defence responses [22, 25, 34, 38, 54].
In A. thaliana, PMR5 and the pectate lyase PMR6 have been recognized as factors that potentiate susceptibility to PMs. PMR5 is involved in cell expansion whereas PMR6 functions in cell wall modeling [23, 24], with both proteins being required for normal composition of plant cell wall pectin, and establishment of compatibility with PMs. Resistance of pmr5/pmr6 mutants does not involve the SA or JA/ET pathways, resembling resistance of Te-0 plants. However, these mutants are stunted, show reduction in cell size, constitutive sporadic mesophyll cell death, and deposition of auto-fluorescent compounds along the veins. As none of these features were observed in healthy or G. cichoracearum-infected Te-0 tissues, it is likely that resistance does not result from deficient PMR5/6 function in these plants.
To date, the two best characterized limiting stages for development of PMs are penetration of epidermal cells [20, 55] and development of haustoria [56, 57]. Interestingly, G. cichoracearum was not prevented from reaching any of these stages in Te-0 plants. More than 50% of inoculated conidia germinated in Te-0 tissues further developing penetration hyphae and functional haustoria. In contrast, fungal asexual reproduction was the main limiting stage for proliferation of the pathogen in this plant. Limitations in this developmental stage have been previously described for PM diseases in A. thaliana [34, 38]. In ascomycetes, coniditiation is regulated by several factors including inoculum density, light, temperature, humidity, and nutrient availability [58, 59]. While significant progress has been made in elucidating this developmental program in model fungi (Neurospora spp, Aspergillus spp), its genetic basis and sensitivity to host clues remain elusive for obligate fungal biotrophs. In this sense, our results suggest that conidiation of G. cichoracearum in A. thaliana requires particular host conditions or signals which are present in Col-0, but not in Te-0 plants. Alternatively, Te-0 might offer limitations for optimal fungal development affecting for instance nutrient uptake, which negatively impact on Cph maturation, even though we found that the haustoria placed in these plants display normal assimilation of ArgC14.
Interestingly, Te-0 supports abundant mycelial development and moderate conidiation of the G. cichoracearum relative Erysiphe cruciferarum  and is susceptible to field isolates of the oomycete Albugo spp. (E Kemen, JD Jones, unpublished results). Thus, the following evidences support the possibility that Te-0 is altered in components necessary for compatibility with G. cichoracearum: i) genetic nature of plant resistance (recessive), ii) susceptibility of the plant to other biotrophic pathogens, including a close relative species; iii) absence of active defences (markers of PTI, ETI, SA and JA pathways) in this interaction.
To characterize gene expression changes occurring under compatibility conditions, we looked for transcriptional differences in Te-0- and Col-0 infected tissues at the pre-conidiation stage. By SSH, we identified 8 differentially expressed genes, including classical defence-related genes (PR1, oxidoreductase), and genes affecting photosynthesis (chlorophyll a/b binding protein), which have been characterized elsewhere [36, 37]. The remaining 5 candidates (MT1a, HSP70.1, END, GRF7 and STP4) showed increased expression in response to pathogen in susceptible Col-0 plants, but not in resistant Kas-1 plants, indicating they are sensitive to compatibility conditions, but not to ETI activation.
Previous studies reported activation of some of these genes in response to fungal infections. This has been observed for STP4 during the interaction of A. thaliana with G. cichoracearum , and for MT1a and its rice homologue in response to other haustoria-forming fungi [61, 62]. In turn, HSP70.1 is induced by the obligate biotrophic oomycete Hyaloperonospora arabidopsidis (ex. parasitica) , whereas the END- , and GRF7-homologues in barley are up-regulated by PMs .
Depletion of genes encoding host compatibility factors is predicted to reduce pathogen growth. However, the functional redundancy of these genes might hinder the effect of null mutations on single genes. Conversely, an increased expression of one of these genes may generate tractable effects on the invader’s growth. Consistent with this prediction, A. thaliana plants over-expressing HSP70.1 are hyper-susceptible to H. arabidopsidis , and rice plants activating GRFs show negative effects on defence-gene induction and cell death . Furthermore, activation of MT1a leads to increased susceptibility to bacterial pathogens and reduced ROS accumulation in Casuarina glauca . Curiously, plants over-expressing END are more sensitive to salt and drought stresses, although their responsiveness to pathogens has not been evaluated . Therefore, taking these results together, the genes selected by our studies appear to be involved in responses to stress, with some of them acting in cell viability pathways.
This study provides a detailed characterization of the interaction between the obligate biotrophic pathogen G. cichoracearum and the natural variant of the A. thaliana species, Te-0. We found that the limiting stage for fungal development in planta is the formation of condiophores. This limitation did not correlate with activation of cellular or molecular markers of PTI and ETI/HR. Considering the genetic bases reported for resistance of Te-0 plants (recessive and monogenic) , we propose this phenotype may result from the inability of the plant to maintain compatibility conditions at later stages of infection. As Te-0 did not show developmental or reproductive defects described in mutants lacking compatibility factors (pmr2/4/5/6), its resistance would derive from alterations in novel compatibility factors. A preliminary search for such factors allowed identification of candidate compatibility gene markers that must be characterized in the future. Furthermore, this work raises novel questions related to the control of G. cichoracearum asexual reproduction in planta, the existence of putative host molecular clues supporting this stage, and the contribution of the genes here identified to the establishment of compatibility with PMs.
Plant and fungal material
A. thaliana seeds were obtained from ABRC (http://www.arabidopsis.org/ABRC). Surface sterilized, stratified seeds were germinated on GM plates for 10 days, and transferred to soil. Plants were grown at 80% humidity, 21-23°C, 8/16 h light/dark cycles, 100 μE m-2 sec-1 irradiance and used at the age of 5–7 weeks. G. cichoracearum UCSC1 was obtained from Dr. Shauna Somerville  and propagated in Col-0 and squash (Curcubita maxima var. Kuta; Park Seed, Greenwood, SC, USA). Pathogen inoculation on leaf tissues was performed as previously described .
To evaluate plant cell death, pathogen-infected leaves were treated with lactophenol trypan blue staining mix . Samples mounted on glycerol 10% were observed with an Axioplan 135 microscope (Zeiss, Germany) to obtain images with an Axiovision camera system. Accumulation of ROS was detected by DAB (3,3 diaminobenzidine) staining . Briefly, petioles were sectioned under water to avoid air bubbles in the vascular system. Leaves were dipped in 200 μl of DAB (1 mg/ml water, pH = 3.8) for 8 h, bleached in 96% ethanol for 24 hr, re-hydrated, mounted in glycerol 50% and observed as described for cell death. Fungal infective structures were detected and quantified by co-staining with trypan blue [31, 37]. For callose detection, leaves were de-stained in ethanol 96%, re-hydrated in water and dipped in aniline blue solution (0.01%p/v in phosphate buffer 150 mM, pH = 9.5) for 1 hr. Leaves were mounted in 50% glycerol, and observed by confocal laser microscopy (Carl Zeiss Laser Scanning system LSM5 Pascal mounted in an inverted microscope Axiovert 200, Zeiss, Germany) using a 488 nm Argon laser and a c-apochromat 40X objective.
A solution of sulpho-rodamine B (SRB) plus 1-anilinonaphthalene-8-sulfonic acid (ANS) was used to stain fungal haustoria in infected plant tissues. Briefly, excised infected leaves were fixed for 1 h in 2,5% glutaraldehyde, 2,5% paraformaldehyde, and incubated for 20 min in solution containing 2 mg SRB (Molecular Probes, Eugene, OR, USA) and 1 mg ANS (Molecular Probes, Eugene, OR, USA) dissolved in 45 mL of methanol plus 45 mL MilliQ water and 10 mL of acetic acid. Leaves were rinsed for 10 min in PBS and mounted in 50% glycerol. Fluorescent structures were observed by confocal microscopy using the 543 nm laser and the c-apochromat 100X oil DIC objective.
Infected leaves were sampled and fixed for 1 h in 2% paraformaldehyde, 2,5% gluteraldehyde. Fixed samples were included in Spurr resin , stained with osmium tetroxide, sectioned and further processed by the laboratory of electronic microscopy of the IFFIVE (INTA, Cordoba, Argentina).
Fungal amino-acid uptake
Based on previous protocols [44, 45], plants inoculated with conidia (ca. 500 mm2-1), were used to excise leaf discs (2 discs and 20 leaves per gentoype) at different time points. Two sets of discs (20 discs each) were floated either in water or solution of C14 L-Arginine 100 μM (Arg C14) for 5 h on a humid chamber, avoiding contact of mycelia with the solution. Leaf discs were deposited on tissue paper and the mycelium was stripped from the adaxial surface using an adhesive tape (Magic Tape, 3 M). Arg C14 content was determined on the tapes with scintillation counter. Using an identical procedure, discs taken from uninfected plants were used to subtract the radioactivity transferred to the tapes by mechanical damage of tissues. The number of haustoria on samples was determined by using trypan blue staining of the water-floated discs. A similar set of samples was used to estimate fungal biomass. Briefly, 15 Col-0 and Te-0 leaves (3 leaves/plant, 5 plants) were excised and stained with trypan blue at 48, 72 and 120 hpi to determine the leaf area (length x width) covered by fungal colonies using bright field microscopy images (Additional file 5c).
Total RNA was isolated from healthy and G. cichoracearum-infected A. thaliana leaves  and used for Northern blot . Ten micrograms of RNA per sample were blotted and hybridized with radioactive probes generated by random priming using dATP P32 (NEB) of the cDNAs obtained from the ABRC (PR1: U11550, GST: U13302). Total RNA extracted from uninfected (T0) or fungal infected (T72) Col-0 and Te-0 leaves were used for Suppresive Subtractive Hybridization (SSH) assays (Clontech’s PCR Select cDNA Subtraction Kit), following the manufacturer´s instructions. Subtracted cDNAs were cloned and sequenced.
One milligram of A. thaliana total RNA was treated with DNAse I (Invitrogene) for 1 h at 37°C to then be heated at 75°C. Random hexamer primers and MMLV reverse transcriptase (Invitrogen) were added to synthesize cDNA in 20 μl. One μl was used to perform either semi-quantitative (sq) or real time/quantitative (q) PCR (final volume: 25 or 14 μl, respectively).
sqRT-PCR was performed at least two times on biological replicate samples with similar results. Cycle number was tested for each gene to identify the linear phase of the PCR related to the initial amount of cDNA input. Primer sets and cycle number for each gene are stated in Additional file 8.
qPCR assays including the cDNA samples evaluated in Figure 2 and 6, were performed by triplicate using the Biodynamics mix B124-100 containing hot start Taq polymerase and SYBR green fluorophore, and the following protocol in a Rotor GeneQ thermocycler (Qiagen): 95°C for 10 min, then 40 cycles of 95°C for 15 s, 60°C for 15 s, 72°C for 30s, followed by a melting curve (60–95°C). Gene expression was calculated using the ΔΔCt method using UQB5 as housekeeping control. Correction by the primer’s efficiency was performed. Efficiency was determined by developing control reactions with 1/10 dilutions of cDNA from Col-0 T0.
GF and MEA are members of the Researcher Career of CONICET.
We are grateful to Shauna Someville for providing G. cichoracearum UCSC1, Claudia Nome (INTA, IFFIVE) for processing samples for electron microscopy and Carlos Mas (CIQUIBIC-CONICET) for valuable help with confocal microscopy. This work was supported by the Agencia Nacional de Promoción Científica y Tecnológica (grant BID PICT 1542) and Secretaría de Ciencia y Tecnología - Universidad Nacional de Córdoba, to MEA.
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