- Research article
- Open Access
Suppression of plant defense responses by extracellular metabolites from Pseudomonas syringae pv. tabaci in Nicotiana benthamiana
© Lee et al.; licensee BioMed Central Ltd. 2013
- Received: 21 November 2012
- Accepted: 13 April 2013
- Published: 18 April 2013
Pseudomonas syringae pv. tabaci (Pstab) is the causal agent of wildfire disease in tobacco plants. Several pathovars of Pseudomonas syringae produce a phytotoxic extracellular metabolite called coronatine (COR). COR has been shown to suppress plant defense responses. Interestingly, Pstab does not produce COR but still actively suppresses early plant defense responses. It is not clear if Pstab produces any extracellular metabolites that actively suppress early defense during bacterial pathogenesis.
We found that the Pstab extracellular metabolite extracts (Pstab extracts) remarkably suppressed stomatal closure and nonhost hypersensitive response (HR) cell death induced by a nonhost pathogen, P. syringae pv. tomato T1 (Pst T1), in Nicotiana benthamiana. We also found that the accumulation of nonhost pathogens, Pst T1 and P. syringae pv. glycinea (Psgly), was increased in N. benthamiana plants upon treatment with Pstab extracts . The HR cell death induced by Pathogen-Associated Molecular Pattern (INF1), gene-for-gene interaction (Pto/AvrPto and Cf-9/AvrCf-9) and ethanol was not delayed or suppressed by Pstab extracts. We performed metabolite profiling to investigate the extracellular metabolites from Pstab using UPLC-qTOF-MS and identified 49 extracellular metabolites from the Pstab supernatant culture. The results from gene expression profiling of PR-1, PR-2, PR-5, PDF1.2, ABA1, COI1, and HSR203J suggest that Pstab extracellular metabolites may interfere with SA-mediated defense pathways.
In this study, we found that Pstab extracts suppress plant defense responses such as stomatal closure and nonhost HR cell death induced by the nonhost bacterial pathogen Pst T1 in N. benthamiana.
- Nicotiana benthamiana
- Pseudomonas syringae pv. tabaci
- Extracellular metabolites
- Hypersensitive response (HR)
- Nonhost resistance
Foliar bacterial phytopathogens such as the Pseudomonas syringae species survive on the plant leaf surface as epiphytes . During the initial infection process, the bacterial pathogens produce virulence factors including effector proteins and secondary metabolites, to inactivate early plant defense responses such as stomata-based immunity [2, 3] and hypersensitive response (HR) cell death at the site of infection . The failure of early pathogen recognition delays initiation of the downstream defense cascade and results in the development of disease symptoms in plants. Therefore, the suppression of early plant defense responses is one of the important steps for bacterial pathogens to successfully colonize plant tissues, leading to disease.
It has long been thought that stomata are the passive portal for entry of phytopathogens. However, recent studies demonstrated that stomata play an active role in restricting bacterial invasion as part of the plant innate immune system [2, 5]. Perception of multiple bacterial pathogen-associated molecular patterns (PAMPs), including flagellin, lipopolysaccharide (LPS) and elongation factor Tu (EF-Tu) induces closure of stomata in leaf epidermal peels of Arabidopsis. It is now believed that stomatal closure is a common plant defense response initiated by the perception of bacterial PAMPs and limits bacterial invasion in plants. However, certain bacterial pathogens have evolved to deliver specific virulence factors such as coronatine (COR) to overcome PAMP-triggered immunity (PTI) and stomata-based defense.
COR is a nonhost-specific, non-proteinaceous virulence effector produced by several pathovars of P. syringae[7, 8]. This is one of the most extensively studied phytobacterial secondary metabolites that modulate plant hormonal defense signaling and functions as a stomatal-based immunity suppressor. COR has structural and functional similarity to jasmonates including 12-oxo-phytodienoic acid (12-OPDA) and jasmonic acid-isoleucine (JA-Ile), and activates the JA pathway in Arabidopsis and tomato [9–11]. The virulent pathogen P. syringae pv. tomato strain DC3000 (Pst DC3000) produces COR on the plant surface to reopen closed stomata, allowing increased bacterial entry [2, 3]. A Pst DC3000 mutant (Pst DC3118) that is deficient in COR production has severely attenuated virulence when dip- or spray-inoculated onto Arabidopsis and tomato leaves . However, this defect can be restored in Arabidopsis mutants (fls2, ost1 and gpa1) that are defective in abscisic acid (ABA)- and PAMP-regulated stomatal closure [12, 13].
In contrast to the number of studies done for COR-producing bacterial pathogens, it has been largely overlooked that other pathovars of P. syringae without COR may also produce non-proteinaceous virulence factors to suppress plant innate immunity. Xanthomonas campestris pv. campestris (Xcc) that has a broad host range including Brassicaceae family is shown to overcome stomatal defense in Arabidopsis . The extracellular metabolite secreted from Xcc is regulated by rpf (regulation of pathogenicity factor) gene cluster. The rpf mutant strains of Xcc were unable to reopen stomata, but the stomata closure was reverted when ethyl acetate extracts from Xcc culture supernatants were added to the mutant strains in Arabidopsis . Two other P. syringae strains, P. s. pv. tabaci (Pstab) and P. s. pv. tomato strain T1 (Pst T1), do not produce COR, but these bacterial strains can actively reopen stomata in tobacco and tomato plants, respectively [3, 5].
Hypersensitive response (HR) is another important form of early defense response against bacterial pathogens. HR is associated with defenses that are highly manifested by development of rapid cell death. A number of HR elicitors from bacterial pathogens have been described. Phytobacterial avirulent proteins (Avr) cause HR during incompatible interactions in plants containing corresponding plant resistance (R) genes (gene-for-gene resistance-mediated HR). Protein products of the hrp (hypersensitive response and pathogenicity) gene family cause HR in nonhost plants (nonhost disease resistance-mediated HR; nonhost HR). The nonhost HR cell death is the common phenomenon observed in many plants in response to non-adapted bacterial pathogens . The bacterial effector proteins of P. syringae are injected into plant cells by the pathogen type III secretion system (TTSS) to suppress basal resistance in host plants [16, 17]. The TTSS- and Hrp-deficient mutants cannot elicit nonhost HR cell death or be pathogenic on host plants . Moreover, several effectors from Pst DC3000 play an important role in suppression of the R-gene mediated HR in tomato [19–21]. In addition, it has been also shown that the Pst DC3000 effector, AvrPto, suppresses nonhost HR cell death in Nicotiana benthamiana and tomato . We recently showed that COR can also suppress HR induced by a nonhost pathogen in N. benthmaina.
In the current study, we report that the extracellular metabolite(s) from Pstab suppresses plant defense responses such as stomata-based immunity and hypersensitive response (HR) cell death. We performed extracellular metabolite profiling of Pstab by ultra high performance liquid chromatography coupled to hybrid quadrupole time-of-flight mass spectrometry (UHPLC-qTOF-MS) and isolated putative metabolites involved in the suppression of early plant defense responses in N. benthamiana. The patterns of plant defense gene expression suggest that the SA-mediated defense pathway may be modulated by extracellular metabolites from Pstab.
Bacterial pathogens, Pstab and Pst T1, suppress early defense responses in their host plants, N. benthamianaand tomato, respectively
Extracellular nonpolar metabolites from Pstab suppress stomatal closure induced by the nonhost bacterial pathogen PstT1
Pstabextracts suppress hypersensitive response (HR) cell death triggered by nonhost pathogens
To determine if Pstab extracts play a role in virulence, we examined the growth of two nonhost bacterial pathogens, Pst T1 and P. syringae pv. glycinea (Psgly), in the N. benthamiana leaves in the presence of Pstab extracts. After co-inoculation of Pst T1 or Psgly with Pstab extracts, the bacterial growth was significantly higher on the inoculated area of both Pst T1 + Pstab extracts and Psgly + Pstab extracts than in the co-inoculated area of Pst T1 or Psgly with MG medium extracts (mock) (Figure 3C and 3D). Since N. benthamiana is a nonhost for both Psgly and Pst T1, their populations gradually decreased two days after inoculation in the mock control. The bacterial populations of Psgly and Pst T1 with Pstab extracts also decreased, but the populations were higher than the population after the mock inoculation. No visible disease symptoms were found in either Psgly + Pstab extracts or Pst T1 + Pstab extracts in the inoculated area of the leaves when compared to mock controls.
Metabolite profiling of the extracellular metabolites from Pstab
Altered expression of defense-related genes by Pstabextracts
It has been known that coronatine insensitive 1 (COI1) gene is involved in the stomatal defense in response to bacterial pathogens . Thus, we examined the gene expressions of COI1 to determine if Pstab extracts target the expression of this gene. The level of expression of COI1 gradually decreased upon infiltration of MG extracts and Pstab extracts alone (Additional file 2: Figure S1). This finding agrees with the results of Arabidopsis gene expressions data in the eFP Browser (http://bar.utoronto.ca/efp/cgi-bin/efpWeb.cgi) that the gene expressions are down-regulated 6 and 12 hrs after distilled water infiltration in Arabidopsis. After nonhost pathogen Pst T1 inoculation, COI1 gene was significantly down-regulated by Pstab extracts at 6 hrs post inoculation. However, COI1 expression pattern with Pst T1 inoculation appeared similar to that of the COI1 expression pattern upon infiltration of MG extracts and Pstab extracts alone (Figure 6; Additional file 2: Figure S1). This finding indicates that COI1 expression is decreased at 6 hpi by Pstab extracts and may interfere with the COI1-mediated defense pathway.
Abscisic acid (ABA) is the critical phytohormone for regulating stomatal opening and closure. ABA1 is induced by ABA and a marker gene for the ABA signaling pathway. The expression of ABA1 was similar to that of COI1 where in the expression was down-regulated upon infiltration with MG extracts and Pstab extracts alone (Additional file 2: Figure S1). In Arabidopsis, ABA1 expression is reduced 6 hrs after water or buffer infiltration (http://bar.utoronto.ca/efp/cgi-bin/efpWeb.cgi). Pst T1 infection did not alter the expression of ABA1 compared to infiltration with MG extracts and Pstab extracts alone (Figure 6; Additional file 2: Figure S1). In addition, the expression pattern of ABA1 was not significantly different among Pst T1 + MG extracts inoculated leaves and Pst T1 + Pstab extracts inoculated leaves.
Studies on the mechanisms of bacterial elicitation of early plant defense responses have unraveled important questions during plant-pathogen interactions [29–31]. It is remarkable that bacteria have evolved to deliver diverse virulence factors to defeat sophisticated plant defense systems [30, 32]. Apart from the numerous proteinaceous effectors that the bacteria can deliver into plants, COR is the first discovered virulence metabolite secreted from several P. syringae strains and can suppress plant defense responses [2, 7, 10, 33–35]. However, we still don’t know whether other non-COR-producing pathovars of P. syringae produce metabolites that have virulence function. It is still not clear how extracellular metabolites from bacterial pathogens can suppress plant defense responses.
In this study, we showed that extracellular metabolites from the non-COR producing Pseudomonas syringae pathogen, Pstab, can suppress plant defense responses including stomatal closure and nonhost HR cell death in N. benthamiana. Most stomata in epidermal peels of N. benthamiana close within 3 hrs upon inoculation with the nonhost pathogen Pst T1. Both Pst T1 and Pstab do not produce COR (due to lack of genes involved in biosynthesis of COR), but they can still reopen stomata in their respective host plants (Figure 2). We demonstrated that Pstab extracts suppress stomatal defense in N. benthamiana; however, it is unknown how Pst T1 suppresses stomatal defense in tomato. COR has been shown to suppress stomatal closure in Arabidopsis [2, 12], and this is important for a virulent bacterium to enter the leaf apoplast. Interestingly, when a nonhost pathogen, Pst T1, was inoculated on N. benthamiana with Pstab extracts, the stomatal closure induced by Pst T1 was suppressed (Figure 2). This finding suggests that the non-COR-producing strain Pstab may produce other uncharacterized extracellular metabolites that may have a similar function as COR in opening stomata.
We also found that the nonhost HR cell death induced by Pst T1 in N. benthamiana was also suppressed when inoculated with Pstab extracts (Figure 3). It has been known that Pstab produces tabtoxin that induces chlorosis and is associated with the symptoms of wildfire disease on tobacco and halo blight of oats . Tabtoxin is a dipeptide which is not biologically active and needs to be hydrolyzed by peptidase for an active toxic component, tabtoxinine-β-Lactam (TβL). TβL is released by zinc-dependent aminopeptidases in the periplasm of the bacterium or by enzymes in the plant cell, and inhibits the enzyme glutamine synthetase that results in chlorosis [37, 38]. Raaijmakers et al.  described that TβL is proved to be difficult to synthesize due to the toxin’s instability. Tabtoxin is a relatively unstable molecule in vivo and during the procedures of toxin purification [40, 41]. It has been demonstrated that the biological activity of a tabtoxin solution decreases with a half-life of approximately one day at room temperature . In addition, chlorosis is the most characteristic symptom of tabtoxin in tobacco leaves . We, therefore, hypothesized that Pstab extracts does not contain tabtoxin. To prove that metabolites but not active proteins play a role in stomata opening and HR suppression, the Pstab culture supernatant was extracted using an organic solvent, ethyl acetate with 1% formic acid. The process of ethyl acetate extraction removes peptides from Pstab. We also examined whether the Pstab extracts have any toxic activity in N. benthamiana leaves. The inoculated leaves did not produce any visible symptoms contrary to tabtoxin that produces yellowing (Figure 3A) .
P. syringae pathovars produce several non-effector type virulence factors such as tabtoxin, phaseolotoxin, mangotoxin, and COR . All these phytotoxins except COR are made of small peptide molecules. COR is a non-proteinaceous phytotoxin that is involved in stomata opening and suppressing SA-dependent host defense responses . COR was isolated from P. syringae pv. tomato using HPLC fractionation . However, we used a metabolomics approach to isolate bioactive metabolite(s) from Pstab extracts using UHPLC-qTOF-MS for metabolite profiling. The metabolite profiling determined the total number of metabolites secreted from Pstab in the bacterial culture. This metabolite profiling technique has been effectively used to isolate metabolites differentially expressed in different bacterial strains . Since there were not a large number of metabolites (Figure 5), we can further examine bioactive metabolite(s) which can suppress stomatal closure and nonhost HR cell death using HPLC fractionation. The identification of the Pstab extracellular metabolite(s) that suppresses early plant defense responses in the future will advance our understanding of bacterial pathogen-plant infections.
Salicylic acid (SA) is an important plant hormone for regulating defense responses like stomatal closure and HR [3, 45]. The bacterial growth of both nonhost pathogens, Psgly and Pst T1, was significantly higher in N. benthamiana when they were co-inoculated with Pstab extracts (Figure 3). This could be due to suppression of SA-mediated early defense signaling (Figure 6) by Pstab extracts or due to the suppression of HR. The level of nonhost bacterial population gradually decreased three days after inoculation, and no disease symptoms appeared on the inoculated leaves (Figure 3A and 3B) suggesting that Pstab extracts suppress only early defense responses but do not function as pathogenicity factors.
We determined whether Pstab extracts also modulate the jasmonic acid (JA)-mediated defense pathway by examining the level of PDF1.2 and COI1 gene expression. The bacterial virulence factor COR stimulates the JA pathway, thereby suppressing the SA pathway in Arabidopsis and tomato [11, 35]. It has been shown that COR targets COI1 (F-box subunit of the SCFCOI1 ubiquitin ligase)/JAI1 (Jasmonic Acid Insensitive 1)-dependent pathways to promote suppression of stomatal-based immunity [3, 46]. JAZ proteins are repressors of JA signaling, and few JAZ proteins (JAZ1, JAZ3, and JAZ9) have been shown to interact with COI1. It has also been shown that COI1 plays a role in plant cell death during plant-microbe interaction. When COI1 was silenced in N. benthamiana, cell death-induced by potato virus X (PVX) was accelerated . Devadas et al.  reported that a hrl1 (hypersensitive response-like lesions 1) coi1 double mutant exacerbated cell death lesions, suggesting that COI1 is necessary for cell death limitation.
Interestingly, in our study, we observed that nonhost HR cell death was suppressed by Pstab extracts, but not for any of the specific R-AVR or PAMP triggered cell death. It is possible that the unknown metabolite in Pstab extracts may specifically inhibits the defense mechanism involved in nonhost resistance. Further studies should be performed to isolate the metabolite and identity its function for the suppression of nonhost HR cell death in response to bacterial pathogens.
It is demonstrated here that another Pseudomonas pathogen, Pstab that does not produce COR, can still actively suppress stomatal defense and nonhost HR cell death in N. benthamiana. This finding clearly suggests that Pseudomonas syringae strains can produce metabolite(s) other than COR to suppress plant defense responses. Isolation and characterization of the Pstab extracellular metabolite(s) will facilitate a better understanding of strategies used by bacterial pathogens to cause disease in host plants.
N. benthamiana was sowed on soilless potting mix BM7 (Berger Co., Quebec, Canada) and grown in a growth room at 22 to 25°C for two weeks under a 12 hr photoperiod with light intensity ranging from 300 to 400 μmol m-2 s-1. Two-week-old seedlings were transplanted to 10 cm diameter round pots containing potting soil (BM7) (Berger Co., Quebec, Canada), with one plant per pot, and grown in the greenhouse at 23°C with 16 hrs of extended day-light and supplemental lighting at 100 μmol m-2 s-1. Plants were regularly fertilized (20-10-20). Three- to four-week-old N. benthamiana plants were used for the experiments.
Seeds of tomato (Solanum lycopersicum cv. Glamour) were obtained from Stokes Seeds Inc (Buffalo, NY, USA). Plants were grown in Scott-200® mix (The Scotts Co., Marysville, Ohio, U.S.A.) and maintained in growth chambers (24°C, 40-70% RH, 12 h photoperiod, photon flux density of 150–200 μmol m-2 sec-1). Three-week-old seedlings were transplanted to 10 cm diameter round pots and maintained the same as the N. benthamiana plants described above.
Metabolite extracts from the Pstabculture supernatant
To extract metabolites secreted from Pstab, we followed the extraction method used for COR with minor modifications . The bacterial strain Pstab was grown on a KB plate containing appropriate antibiotics. A single colony of Pstab was incubated in 10 ml of Manitol-Glutamate (MG) medium (manitol, 10 g; L-glutamic acid, 2 g; KH2PO4, 0.5 g; NaCl, 0.2 g; MgSO4, 0.2 g with pH7/liter) at 28°C with 250 rpm for 48 hr. The 2.5 ml of Pstab culture was added to 47.5 ml fresh MG medium and cultured for six days at 18°C with 220 rpm in a rotary shaker. The Pstab cultures (150 ml) were centrifuged for 30 min at 3,700×g at 4°C, and the supernatant was transferred to a sterile glass tube. The Pstab cell pellets were used for analysis of intracellular metabolites and the supernatant for analysis of extracellular metabolites. For extraction of intracellular metabolites, the Pstab cell pellets were placed in a glass vial with 5 ml ethyl acetate containing 1% (v/v) formic acid and then sonicated for 20 min. The ethyl acetate fraction was collected through centrifugation (3,700×g, 30 min) and completely dried, using N2 gas. For extraction of extracellular metabolites, the Pstab supernatant was extracted with ethyl acetate containing 1% formic acid. The ratio of the culture supernatant to the acidified ethyl acetate was 3:5. The ethyl acetate fraction was collected and completely dried, using N2 gas. The MG medium without Pstab was extracted as a control, following the above procedures. The dried extracts were resuspended in 600 μl of 16.7% methanol in H2O. For stomatal and nonhost HR cell death bioassays, 6 μl of extracts were used for every milliliter of inoculation buffer (10 mM MES, pH 6.5).
Assays for suppression of stomatal closure by Pstabextracts
Pst T1 was grown in KB medium overnight at 28°C. The bacterial culture was centrifuged at 3,500 rpm for 10 min and resuspended in nanopure water at a concentration of 1×107 CFU/ml. For assay of the bacterial migration through stomata, detached N. benthamiana leaves were floated on a bacterial suspension of Pst T1 containing MG media extract or the Pstab extracts for 1 to 4 hrs. After the incubation, leaf disks were collected and a number of bacterial cells in the apoplast were examined. This experiment was repeated three times under the same conditions. For stomatal closure assay, we followed the epidermal peel assay as described [2, 14]. To assure that most stomata are open before beginning experiments, plants were kept under light for 3 hrs, and the epidermis of N. benthamiana leaves was peeled off and immediately floated on stomata opening buffer (10 mM MES-KOH, 30 mM KCl, pH6.3) for 3 hrs. At various time points, the epidermal peels were treated with pathogens, chemicals and bacterial secreted metabolites. An average of 100 random stomatal apertures was measured each treatment, and three samples were collected from each experiment with two replications.
Assays for suppression of nonhost HR cell death by Pstabextracts
Five P. syringae species, one host (Pstab) and four nonhost pathogens [Pst T1, P. s. pv. glycinea (Psgly), P. s. pv. phaseolicola (Psp) and P. s. pv. maculicola (Psm)] were used for this experiment. The bacterial pathogens were cultured in KB medium with appropriate antibiotics overnight at 28°C on a rotary shaker (250 rpm). Bacteria were collected by centrifugation (3500 rpm/10 min) and resuspended in MES buffer (MES 10 mM, pH 6.5). The bacterial suspension was syringe-infiltrated to fully expanded N. benthamiana leaves for determining bacterial growth (for Psgly) and nonhost HR cell death (for Pst T1). To determine whether the bacterial growth is promoted by Pstab extracts, the nonhost pathogen Psgly that does not induce HR cell death was inoculated with either MG medium or the Pstab extracts. The bacterial population in the apoplast was examined for 0, 1, 3 and 5 days. For nonhost HR cell death assay, each metabolite sample was infiltrated with Pst T1 using a needle-less syringe on six-week-old N. benthamiana leaves. We selected fully extended upper leaves for the inoculation. In all experiments, the extracts from Pstab supernatant and MG medium were included as positive and negative controls. To eliminate any contaminating proteins in Pstab extracts, the extracts were treated at 95°C for 5 min. Two additional nonhost bacterial pathogens, Psp and Psm, including Pst T1 were inoculated along with the boiled Pstab extracts in N. benthamiana. Symptoms of nonhost HR cell death were determined from 12 hrs to 72 hrs after inoculation.
To determine the specificity of Pstab extracts suppressing nonhost HR cell death, we used several Avr-R gene combinations (35S:AvrPto-35S:Pto and 35S:Avr9-35S:Cf9) [51, 52]. Agrobacterium containing the respective constructs were cultured in 5 mL LB medium containing respective antibiotics for 24 hr at 28°C. The bacterial culture was centrifuged at 1,500 g for 10 min and resuspended in 5 mL of infiltration buffer (10 mM morpholinoethane sulfonic acid (MES) and 200 mM acetosyringone). Then, the culture was incubated at room temperature for three to five hrs. After incubation, bacterial cells were harvested by centrifugation and diluted to 5×105 CFU/ml (inf1, Pto, and AvrPto) and 2×107 CFU/ml (Cf9 and AvrCf9) for infiltration. Pto and AvrPto, and Cf9 and AvrCf9 constructs were mixed to 1:1 ratio before infiltration to N. benthamiana leaves.
Metabolite profiling of the Pstabsupernatant extracts
The dried Pstab extracts were resuspended in 150 μl of 80% methanol in H2O and analyzed using a UHPLC-ESI(-)-qTOF-MS instrument (Waters Premier qTOF) with a reverse-phase column (ACQUITY UPLC™ BEH C18 1.7 μm, 2.1 mm × 150 mm), which was maintained at 60°C, and components were eluted using a multi-step gradient from 95 to 30% A (eluent A, 0.1% aqueous acetic acid) over 30 min, 30 to 5% over 3 min and 5 to 95% A over 3 min at a flow rate 0.56 mL/min. The complementary eluent B was acetonitrile. TOF-MS spectra were acquired under the following conditions: spectral acquisition rate: 3.13 per second; detector voltage: 2600 V; threshold: 2037; ESI: -4500 V; desolvation temperature: 300°C; nebulizer pressure: 350 kPa; interface: 100°C. Mass measurement accuracy was within 20 ppm. The MS system was calibrated using sodium formate, and raffinose was used as the lock mass for internal calibration. Data obtained from metabolite analyses were processed using MarkerLynx 4.1 (Waters) for accurate data mass extraction. Relative abundance was normalized by dividing each peak area by the value of the internal standard peak area.
Determination of defense signaling modulated by Pstabextracts
To examine the expression patterns of genes involved in SA-, JA- and ABA-related plant signal transduction pathways, N. benthamiana leaf samples were collected at various time points after treatments. RNA was isolated from leaves at 0, 6 and 12 hrs after inoculation with Pst T1 + Pstab extracts (Pstab ext./Pst T1) or with Pst T1 + MG medium extracts as control (MG ext./Pst T1). All RNA samples were extracted using Qiagen RNeasy Mini Kit (Qiagen, Valencia Calif.), and cDNA was synthesized using Superscript III reverse transcriptase (Invitrogen, Grand Island, N.Y.). Quantification and purity of RNA and cDNA were determined using NanoDrop (Thermo Scientific, Wilmington, Del.). Expressions of PR1, PR2, PR5, PDF1.2, ABA1, and COI1, representative genes for each ABA, SA and JA signal pathway, and HSR203J for HR cell death, were determined by quantitative real-time PCR. At least three biological replicates of each sample and three technical replicates of each biological replicate were analyzed for real-time PCR analysis. The amount of transcripts for each gene in different RNA samples was normalized with the transcripts of the internal control gene NbActin to ensure an equal amount of cDNA was used for individual reactions.
This study was supported by The Samuel Roberts Noble Foundation. The authors thank Pierce Young (Texas A&M University) for technical assistance during the 2011 Noble Foundation summer intern program, Mr. David Huhman for performing the UHPLC-qTOF-MS analyses and Hee-Kyung Lee for RNA sample preparations. We also thank Janie Gallaway and Colleen Elles for greenhouse support and Jackie Kelley for manuscript editing.
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