JXB Advance Access originally published online on April 2, 2009
Journal of Experimental Botany 2009 60(7):1991-2003; doi:10.1093/jxb/erp060
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© 2009 The Author(s).
This is an Open Access article distributed under the terms of the Creative Commons Attribution Non-Commercial License (http://creativecommons.org/licenses/by-nc/2.0/uk/) which permits unrestricted non-commercial use, distribution, and reproduction in any medium, provided the original work is properly cited.
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RESEARCH PAPER |
The 
-subunit of the heterotrimeric G-protein affects jasmonate responses in Arabidopsis thaliana
1Department of Plant Sciences, University of Oxford, South Parks Road, Oxford OX1 3RB, UK
2Department of Plant Biochemistry, Albrecht-von-Haller-Institute for Plant Sciences, Georg-August University Göttingen, Justus-von-Liebig-Weg 11, D-37077 Göttingen, Germany
3Sir William Dunn School of Pathology, University of Oxford, South Parks Road, Oxford OX1 3RE, UK
4Department of Biological and Biomedical Sciences, Durham University, South Road, Durham DH1 3LE, UK
* To whom correspondence should be addressed. E-mail: haruko.okamoto{at}plants.ox.ac.uk
Received 20 October 2008; Revised 29 December 2008 Accepted 30 January 2009
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Abstract |
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Heterotrimeric G-proteins have been implicated in having a role in many plant signalling pathways. To understand further the role of G-proteins, a preliminary experiment was performed to assess the impact of the G
subunit loss-of-function mutation gpa1-1 on the Arabidopsis transcriptome. The analysis indicated that the G subunit may play a role in response to jasmonic acid (JA). Consistent with this, G mutants showed a reduced response to JA in inhibition of chlorophyll accumulation and root growth, whilst G gain-of-function plants overexpressing G showed the opposite phenotype. The levels of JA and related compounds were unaffected in the gpa1-1 mutant, as was autoregulation of the Allene Oxide Synthase (AOS) gene that encodes a key enzyme for JA biosynthesis. In contrast, further analyses using G loss- and gain-of-function Arabidopsis lines indicated that G positively modulates the expression of the Vegetative Storage Protein (VSP) gene. This indicates that the G subunit regulates a subset of JA-regulated genes defining a branch point in this signalling pathway in Arabidopsis. Further analysis of the impact of G loss of function upon the JA-regulated transcriptome using Arabidopsis full genome arrays indicated that up to 29% of genes that are >2-fold regulated by JA in the wild type are misregulated in the G mutant. This supports the observation that a significant proportion of, but not all, JA-regulated gene expression is mediated by G.
Key words:
AOS, Arabidopsis, heterotrimeric G-protein, G-protein -subunit (GPA1), jasmonic acid, PDF1.2, VSP
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Introduction |
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TopAbstractIntroductionMaterials and methodsResultsDiscussionSupplementary dataReferences |
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Heterotrimeric G-proteins have been identified in a number of plant species and have been implicated in having a role in several plant signalling pathways. Heterotrimeric G-proteins are composed of distinct
, β, and 
subunits that are thought to be activated by seven transmembrane G-protein-coupled receptors (GPCRs). The G subunit possesses an intrinsic GTPase activity, and its binding to GTP upon activation leads to its dissociation from the Gβ complex. An active GTP-bound form of the G subunit functions on its own, while Gβ and subunits form an obligate heterodimer. This allows both the G subunit and Gβ complex to regulate their respective effectors, thus initiating the downstream signalling cascades (Oldham and Hamm, 2008).
In plants, the basic components of the mammalian G-protein system are found to be conserved; for example, Arabidopsis AtGPA1 and AGB1 are 36% and 42% identical at the amino acid level to human G and Gβ subunits, respectively (Ma, 1994). The 3D structure deduced from these sequences has indicated that the functionally important regions of G-proteins are also highly conserved in the Arabidopsis heterotrimer subunits (Ullah et al., 2003). The Arabidopsis genome encodes a simple heterotrimeric G-protein system comprising a single canonical G gene, AtGPA1 (AGI, 2000; Ma et al., 1990), a Gβ gene, AGB1 (Weiss et al., 1994), and two G genes, AGG1 (Mason and Botella, 2000) and AGG2 (Mason and Botella, 2001). In addition there are reports of a canonical GPCR, GCR1, with seven transmembrane domains (Josefsson and Rask, 1997; Plakidou-Dymock et al., 1998; Jones and Assmann, 2004) and a single Regulator of G-protein Signalling (RGS1) protein (Chen et al., 2003) that accelerates G-protein inactivation in Arabidopsis.
The lack of redundancy of the G-protein subunit genes is conserved across the plant kingdom, and therefore Arabidopsis provides a unique opportunity to investigate the role of G-proteins in a much less complex system than that of animals (Temple and Jones, 2007). Despite the fact that there are only two possible heterotrimeric G-protein complexes in plants, they have been implicated in a wide range of signalling pathways. Pharmacological studies have identified a role for heterotrimeric G-proteins in signalling pathways regulated by a number of phytohormones as well as by biotic and abiotic environmental signals such as pathogens, ozone, and light (Assmann, 2005). Analysis of mutants lacking AGB1 and AtGPA1 have confirmed a role for G-proteins in response to the phytohormones gibberellin (GA) (Ullah et al., 2002), abscisic acid (ABA) (Wang et al., 2001; Ullah et al., 2002; Pandey et al., 2006), auxin (Ullah et al., 2001, 2003), and brassinolides (Chen et al., 2004).
Evidence of G-protein function in plant pathogenesis responses has been demonstrated using the rice dwarf1 (d1) mutant lacking a functional G gene (Ashikari et al., 1999; Fujisawa et al., 1999). d1 mutants were demonstrated to have a reduced hypersensitive response and thus are susceptible to infection by an avirulent form of rice blast fungus, Magnophorthe grisea (Suharsono et al., 2002). It has been reported that stomata closure by pathogen-associated molecular patterns (PAMPs) via inhibition of inward K+ channels requires the G subunit in Arabidopsis (Zhang, 2008). It has also been demonstrated in Arabidopsis that the Gβ subunit is required for resistance to necrotrophic pathogens (Llorente et al., 2005; Trusov et al., 2006).
A transcriptomic analysis has been performed using a Gβ mutant, agb1-2, and the Gβ subunit was found to repress a substantial number of auxin-inducible genes in Arabidopsis (Ullah et al., 2003). However, to date, transcriptome analysis has not been performed with a G mutant. In order to obtain an initial understanding of G-protein regulation of gene expression, a preliminary microarray analysis of the G mutant gpa1-1 was first performed using the Affymetrix (ATH22k) Arabidopsis full genome array. Analysis of genes identified in this screening experiment suggested that the G subunit has a role in modulating the expression of jasmonic acid (JA)-inducible genes. This was investigated in more detail by examining chlorophyll loss, gene expression, and root growth in response to methyl jasmonate (MeJA). Finally, further transcriptome analyses were undertaken to show that 29% of the JA-regulated genes are misregulated by the loss of the G subunit. Possible roles for G-proteins in JA signalling are discussed.
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Materials and methods |
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TopAbstractIntroductionMaterials and methodsResultsDiscussionSupplementary dataReferences |
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Plant material and growth conditions
The T-DNA insertion null mutants of GPA1, gpa1-1 (Ullah et al., 2001) in the Wassilewskija (WS) ecotype background, and gpa1-3 and gpa1-4 (Jones et al., 2003) in the Columbia ecotype background, were used. The wG
line in the WS background that inducibly overexpresses wild-type GPA1 protein was also used (Okamoto et al., 2001). Seeds were surface sterilized and sown on plates containing 0.8% (w/v) agar (plant cell culture tested; Sigma-Aldrich, St Louis, MO, USA) and Murashige and Skoog (MS) medium pH 5.7 (Melford, Suffolk, UK). After sowing, the seeds were stratified at 4 °C in darkness for 2 d before transferring to a temperature-controlled tissue culture chamber for 9 d with a 16 h light (70 µmol m–2s–1) and 8 h dark day/night cycle, both at 21 °C. Plants used for JA measurements were grown on soil under short-day conditions with 8 h light (140 µmol m–2s–1) at 22 °C, 16 h dark at 18 °C of light for 3 weeks before harvesting. Plants used for northern blot hybridization and chlorophyll measurements were grown as described above except that the seedlings were treated with 50 µM MeJA (jasmonate methyl ester, Sigma-Aldrich) or 70 nM dexamethasone (DEX; Sigma-Aldrich). Plants tested for root growth were sown and grown vertically on half-strength MS agar medium with or without MeJA, and Columbia ecotype seedlings were grown side by side with the coronatine-insensitive coi1-16 mutant. It was ensured that seeds all germinated at the same time irrespective of the genotype and the presence or absence of MeJA. Chlorophyll was measured and calculated according to the method described by Chory et al. (1991).
For the Affymetrix arrays, 10 seedlings of 9-d-old wild type (WS ecotype) and gpa1-1 were transferred to multiwell plates containing sterile deionized water for 24 h (as the original experiment involved a comparison with ABA treatment which necessitated pre-submergence to control against induction of osmotically regulated genes in response to hypo-osmotic stress induced by transferring seedlings from plates into liquid). For the transcriptome analysis using 3DNA microarray analysis comparing wild-type (Columbia ecotype) and the gpa1-4 mutant, seedlings were grown for 10 d on agar plates containing half-strength MS medium and then transferred to agar plates containing half-strength MS medium with or without 20 µM MeJA for 6 h. Four biological replicates each consisting of 10 seedlings were harvested for each genotype with and without treatment.
Microarray hybridization
Total RNA was extracted as described below from one biological replicate each of gpa1-1 and WS wild type. RNA samples for Affytmetrix array were processed by The Nottingham Arabidopsis Stock Centre (NASC; http://affymetrix.arabidopsis.info/narrays/experimentpage.pl?experimentid=57), and the normalized CEL files were provided for analysis. Total RNA from four biological replicates for each sample obtained from gpa1-4 and Columbia wild type were used for Operon 70 mer Arabidopsis microarrays and were processed by the authors in Oxford. Samples were processed according to the manufacturer's instructions (Genisphere, Hatfield, PA, USA) except that 2 µg of total RNA was used for cDNA synthesis using the 3DNA 900 indirect labelling kit and Superscript III (Invitrogen). Arabidopsis full genome microarrays (kindly supplied by Professor David Galbraith, University of Arizona, Tucson, AZ, USA: http://ag.arizona.edu/microarray/deconvolutionver3.0.html) were baked at 80 °C for 30 min and then UV cross-linked at 300 mJ. Slides were pre-hybridized for 20 min at 65 °C in a coupling jar containing 3.5x SSC, 0.1% (w/v) SDS, and 10 mg ml–1 bovine serum albumin (BSA), immediately prior to use. Following pre-hybridization, slides were washed for 1 min in distilled water and for 1 min in isopropanol, and then dried using an airbrush. The cDNA was hybridized to the array using SlideBooster SB400 (Advalytix, Munich, Germany) with a power of 27 and a pulse/pause of 3/7 at 55 °C for 16 h. The slides were washed at 55 °C in 2x SSC, 0.2% (w/v) SDS for 10 min followed by room temperature washes of 2x SSC and 0.2x SSC, and dried with an airbrush. The slides were then hybridized with the 3DNA dendrimer capture reagents (Genisphere) for 4 h, washed as before, and scanned using ScanArray Express HT (Perkin Elmer, Waltham, MA, USA) using automatic sensitivity calibration with a maximum signal target ratio of 98%. Dye swap hybridization was made between samples treated with 20 µM MeJA and the control on four slides each for the wild type and gpa1-4.
Transcriptome analysis
One replicate each of wild-type and gpa1-1 Affymetrix array data sets were normalized and 134 genes that were >1.5-fold differentially regulated in gpa1 compared with the wild type and whose present call was 100% in at least one of the arrays were extracted by DChip ver. 1.3 (Harvard Statistics; http://www. biosun1.harvard.edu/complab/dchip/). The purpose of using a relatively moderate cut-off criterion of 1.5-fold to do this assay was to make it possible to work with a cohort of genes of reasonable size. Median probe intensity was used to normalize the arrays and a permutation-only model was used to obtain model-based expression. Publicly available Affymetrix transcriptome data sets from TAIR Microarray experiments (http://www.arabidopsis.org) from 7-d-old seedlings treated with ABA (ME00333), 1-aminocyclopropane-1-carboxylic acid (ACC; ME00334), brassinolide (ME00335), GA (ME00343), IAA (ME00336), MeJA (ME00337), and zeatin (ME00344) were used to direct the analysis of this gene list further. Genes that were >2-fold regulated after either 30 min, 1 h, or 3 h following application of these plant hormones (with a present call of 100% in all slides) were focused on in the analysis.
Microarray images obtained by 3DNA hybridization were analysed and quantified using BlueFuse (BlueGnome, Cambridge, UK). The data were manually flagged within BlueFuse to remove hybridization artefacts. Data analysis was performed using BASE (Saal, 2002) maintained by the Computational Biology Research Group at the University of Oxford. Cross-channel correction was performed using a 2% setting to account for labelling interactions (Cobbold and Saunders, unpublished). Global median normalization was performed using spots with intensity >200, excluding the 10% most intense and weak probes, and the 10% most increased and decreased fold ratios. The mean fold ratios, Student's t-test, and Cyber-T analysis were determined within BASE. The BASE tools were used for cross-channel correction, normalization, and Cyber-T statistical tests (Long et al., 2001). The MIAME compliant data have been submitted to EBI ArrayExpress (www.ebi.ac.uk/arrayexpress) with the accession number: E-MEXP-1822 for public release on publication. The accession numbers of the Array design file (ADF) for these slides are A-MEXP-555 and A-MEXP-1429.
JA measurements
LOX-derived products were analysed as described previously, but with some modifications (Weichert et al., 2002; Göbel et al., 2003). A 1 g aliquot of frozen plant material was added to 20 ml of extraction medium [hexane:2-propanol, 3:2 (v/v), with 0.0025% (v/v) butylated hydroxytoluene] and was immediately homogenized with an Ultra Turrax for 45 s under a stream of argon on ice. The extract was shaken for 10 min and centrifuged at 3200 g at 4 °C for 15 min. The clear upper phase was collected, and a 6.7% (w/v) solution of potassium sulphate was added up to a volume of 32.5 ml. After vigorous shaking and centrifugation at 3200 g at 4 °C for 10 min, the upper hexane-rich layer that contained oxylipins was subsequently dried under a nitrogen stream. The remaining lipids were re-dissolved in 0.2 ml of methanol and stored under an argon atmosphere at –20 °C until use.
For detection of JA, 12-oxo-phytodienoic acid (OPDA), and dinor-OPDA, compounds were converted to their pentafluorobenzyl esters after purification by reversed phase high-performance liquid chromatography (RP-HPLC) according to Mueller and Brodschelm (1994). The analysis was carried out using a ThermoFinnigan Polaris Q mass selective detector connected to a ThermoFinnigan Trace gas chromatograph equipped with a capillary Rtx-5MS column (15 mx0.25 mm, 0.25 µm coating thickness; Resteck). Helium was used as the carrier gas (1 ml min–1). The temperature gradient was 60 °C for 1 min, 60–180 °C at 25 K min–1, 180–270 °C at 5 K min–1, 270 °C for 1 min, 270–300 °C at 10 K min–1, and 300 °C for 20 min. The pentafluorobenzyl esters were detected by negative chemical ionization with ammonium as the ionization gas. Under these conditions, the retention times of the pentafluorobenzyl esters of JA, OPDA, and dinor-OPDA were 11.7, 20.9, and 18.1 min, respectively. For quantification, the ions m/z 209 (JA), 291 (OPDA), and 263 (dinor-OPDA) were used, respectively.
RNA blot analysis
Total RNA was extracted using RNeasy kits (Qiagen, Crawley, UK) according to the manufacturer's protocol, and 10 µg of each RNA sample was used to perform northern hybridization as described previously (Knight et al., 1999). Primers to coding sequences of the genes: Allene Oxide Synthase (AOS; At5g42650) (forward, 5'-TCCACAAGTCGTGGCTTTAC-3'; reverse, 5'-AATCTCTCCGGCACAAACTC-3'), PDF1.2b (At2g26020) (forward, 5'-GTTGATCTCTTAAGCTTAT-3'; reverse, 5'-CCAAGTACCACTTGGCTTC-3'), putative Thionin (At1g66100) (forward, 5'-CAAGTGAAATCGTGAATGGAG-3'; reverse, 5'-TATATGAAGTATCGAGGATCT-3'), Vegetative Storage Protein 1 (VSP1; At5g24780) (forward: 5'-ATGAAAATCCTCTCACTTTC-3'; reverse, 5'-GTGAGATGATGCATGGAAGA-3'), AtMYC2/JIN1/ZBF1 (At1g32640) (forward, 5'-ATGACTGATTACCGGCTACA-3'; reverse, 5'-TCTGCGTCATCGAAACCA-3'), ERF1 (At3g23240) (forward, 5'- TCAGTCCCCATTCTCCGGCT-3'; reverse, 5'-TCACCAAGTCCCACTAT-3'), and GPA1 (At2g26300) (forward, 5'-ATGGCTGCAACTGCAATCTC-3'; reverse, 5'-CTAAGATTTCCGTTCAACCAAGA-3') were used to generate probe DNA by PCR. The β-tubulin probe was prepared from the PCR products using specific primers as described previously (Knight et al., 1999). Probes were labelled with [32P]dCTP using Ready-ToGo probe synthesis beads (Amersham Biosciences) and purified through ProbeQuant G-50 micro columns (Amersham Biosciences).
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Results |
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TopAbstractIntroductionMaterials and methodsResultsDiscussionSupplementary dataReferences |
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Transcriptomic analysis of a GPA1 null mutant suggests a role for G
in JA-dependent gene expressionA role for the G
subunit and G-proteins in ABA signalling is well documented (Wang et al., 2001; Jones and Assmann, 2004; Pandey and Assmann, 2004; Pandey et al., 2006) and it was decided to test the effect of G loss of function on the ABA-responsive transcriptome (http://affymetrix.arabidopsis.info/narrays/experimentpage.pl?experimentid=57). RNA samples were obtained from seedlings treated with or without 100 µM ABA for 3 h. Although 684 genes showed a >2-fold change in expression after ABA treatment in the wild type, >90% of these genes were also regulated >2-fold in gpa1-1. In addition, expression of genes including KIN1/2 and P5CS in response to ABA was indistinguishable between the wild type and gpa1-1 by northern blot analysis (data not shown). The lack of a significant effect of the gpa1-1 mutation on ABA-responsive gene expression in the analysis using whole seedlings may suggest that the role of G in ABA-regulated gene expression is tissue specific (e.g. guard cells). Alternatively, as it has been reported that exogenously applied ABA leads to an increase in GPA1 protein detectable by immunoblot analysis (Pandey et al., 2006), it cannot be ruled out that G is acting independently of changes in gene expression during the first 3 h of response to ABA.
To exploit further the data set generated, the differences in expression of genes in gpa1-1 compared with the wild type was examined in the non-ABA-treated seedlings. It was found that 134 genes were >1.5 times differentially expressed (67 down- and 67 up-regulated) in gpa1-1 compared with the wild-type control in this comparison (for a full list see Supplementary Table S1available at JXB online). Since plant G-proteins mediate the responses of several plant hormones (Fujisawa et al., 2001; Perfus-Barbeoch et al., 2004), it was examined whether these 134 genes were enriched in genes previously reported to be regulated by hormones. The Affymetrix transcriptomic data sets from the TAIR Microarray database (http://www.arabidopsis.org) were used for this analysis. By calculating how many of the genes from the list of 134 gpa1-1-affected genes were also regulated by each hormone, it was determined whether genes which respond to a particular hormone were more abundant in this list than would be expected by chance (Supplementary Table S2). Using this approach, it was observed that genes regulated by ABA and MeJA were most significantly enriched, by 2.7- and 2.8-fold, respectively. Binomial probability analyses indicated that this enrichment was particularly high for ABA- (probability of FALSE; 1.98E-06) and MeJA-regulated (1.45E-03) genes (Supplementary Table S2). Enrichment for genes regulated by ACC (a precursor of ethylene), brassinolide, GA, IAA, and zeatin was not significant. This comparative transcriptomic analysis of gpa1-1 and the the wild type consisted only of a single biological replicate. Nevertheless, it suggested a role for the G subunit in the response of Arabidopsis to MeJA, and consequently further analyses were performed to investigate this.
The G subunit regulates MeJA-dependent chlorophyll reduction
In light of the preliminary transcriptomic data that were obtained, the physiological characteristics of G mutants in response to MeJA were then investigated. It has been reported that JA and related compounds reduce chlorophyll content when applied exogenously to leaves (Parthier, 1990). Test were first carried out to determine whether G mutants were impaired in JA-dependent chlorophyll reduction. Eleven-d-old seedlings were treated with 0 µM or 50 µM MeJA for 3 d and the chlorophyll levels in cotyledons were measured. The ratio of total chlorophyll between MeJA-treated and non-treated cotyledons is shown in Fig. 1A and B. As described by Parthier (1990), MeJA-treated wild-type plants became significantly more yellow, particularly in the cotyledons, and the total chlorophyll was reduced to 33.5% and 19.8% of that of an untreated WS and Columbia ecotype control, respectively. However, gpa1 mutants retained >40% chlorophyll after MeJA treatment.
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Inducible (by DEX) ectopic expression of G
caused leaves to be paler due to a reduction in chlorophyll compared with control plants (Fig. 1C), while DEX treatment did not change the total chlorophyll content in wild-type or in empty vector transformant (VE) control plants. It was previously reported that overexpression of the G subunit resulted in reduced expression of both CAB and RBCS (Okamoto et al., 2001). Whilst this finding cannot be formally attributed to MeJA responses specifically, as this effect occurs in the absence of exogenously applied MeJA, the current results strongly suggest that the G subunit has a role in the regulation of chlorophyll levels in response to JA signalling.
G subunit regulates JA-dependent root growth inhibition
JA regulation of seedling and root growth (Lorenzo and Solano, 2005) is one of the most well examined phenotypes in Arabidopsis. In order to investigate further the role of G in JA signalling, JA-dependent root growth inhibition was measured in gpa1 mutants and a range of JA concentrations that have been used for this assay was tested (Staswick et al., 1992). The results showed that gpa1 mutants are significantly insensitive to 1 µM MeJA compared with the wild type (Fig. 2A, B). Staswick and colleagues demonstrated that at 1 µM MeJA Columbia ecotype roots showed 50% growth inhibition (Staswick et al., 1992), which is consistent with the present assay (Fig. 2A). The difference in root length between the wild type and gpa1 mutants was statistically significant in all four alleles. It was then tested if overexpression of G is also sufficient for the inhibition of root growth. The result showed that the root growth was >50% inhibited by G overexpression (Fig. 2C). These data suggest that G has a positive role in response of roots to JA.
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The gpa1-1 mutant is impaired in JA-inducible gene expression
The Affymetrix transcriptome data indicated that JA regulation of gene expression may be affected in gpa1 mutants. The regulation of one of the best characterized MeJA-inducible genes, VSP1, was therefore examined (although it was not on the Affymetrix arrays that was used). Ther results show that VSP1 was induced by MeJA in wild-type plants, with the highest accumulation detected 4–6 h after MeJA application. Significantly, induction of VSP1 transcript was severely affected in the gpa1-1 mutant, with only very low levels of expression detectable (Fig. 3). It should be noted that the probe used for VSP1 has
90% sequence identity to VSP2 and it cannot be ruled out that the combined expression of both genes is being measured. However, VSP2 is less sensitive than VSP1 to JA induction and it is therefore believed that VSP1 expression is primarily being measured.
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Although they are not solely regulated by JA, the basal expression levels of several PDF1.2 genes were found to be expressed relatively more strongly in gpa1-1 than in wild-type plants in the transcriptome data (Supplementary Table S2at JXB online). PDF1.2b gene expression was therefore examined in gpa1-1. PDF1.2b was induced by MeJA in wild-type plants, with expression peaking at
8 h (Fig. 3), but MeJA-dependent PDF1.2b expression was detectable much earlier in gpa1.
Similarly to PDF1.2b, expression of the putative Thionin gene (At1g66100) was found to be relatively low in gpa1 compared with the wild-type in the transcriptome data. Thionins are small cysteine-rich proteins with antimicrobial activity (Pelegrini and Franco, 2005) and are known to be induced by MeJA. The putative Thionin predicted amino acid sequence shows a sequence identity of 59% and 57% to Thi2.2 (At5g36910) and Thi2.1 (At1g72260) genes, respectively. In order to verify that gpa1-1 is impaired in MeJA induction of this putative Thionin, expression of this gene was also analysed by RNA blot analysis. The result indicated that the putative Thionin gene is inducible by MeJA in wild-type plants and that the expression peaks at 6 h. However, Thionin gene expression was below the level of detection by northern analysis in the gpa1-1 mutant even 6 h after MeJA application (Fig. 3). Together these data suggest that the loss of the G subunit affects JA-responsive gene expression.
The gpa1-1 mutant retains wild-type levels of JA and related precursors
One possible explanation for the enrichment of JA-regulated genes among the gpa1-1-affected genes is that the gpa1-1 mutant might have altered levels of endogenous JA. In order to determine if this was the case, levels of endogenous free JA and the related precursors, OPDA and dinor-OPDA, were measured in 3-week-old rosette leaves of the wild type and gpa1-1. There were no significant differences in any of these JA-related compounds in wild-type and gpa1-1 plants (Fig. 4A). Although the data were obtained from adult leaf tissue and not seedlings, they demonstrate that the gpa1-1 mutant does not show gross effects on JA biosynthesis.
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The JA biosynthesis positive feedback pathway is intact in gpa1
JA biosynthesis is autoregulated, and exogenous application of MeJA induces genes involved in JA biosynthesis such as AOS (Stenzel et al., 2003). In order to determine if the positive feedback mechanism of JA biosynthesis pathways was affected in G
mutants, AOS induction in response to exogenous application of MeJA was examined in wild-type and gpa1-1 mutant plants. As shown in Fig. 4B, MeJA induction of AOS is intact in the gpa1-1 mutant and is indistinguishable from that in the wild type.
To confirm further that G is not modulating the JA biosynthesis pathway, AOS expression in the transgenic line inducibly expressing the G subunit (Okamoto et al., 2001) was analysed in the presence and absence of MeJA. AOS expression was not influenced by the overexpression of the G subunit under either set of conditions (Fig. 4C), indicating that the gain of functional G subunit does not have any effect on JA biosynthesis. These results indicated that the altered basal expression of JA-regulated genes in gpa1 mutants is most likely to have resulted from an alteration in the sensing of or response to JA.
Expression of ERF1 and AtMYC2/JIN1/ZBF1 is not affected in gpa1
PDF1.2 expression is positively regulated via the ethylene response factor 1, ERF1, overexpression of which is sufficient to increase PDF1.2 expression (Anderson et al., 2004). The exaggerated expression of PDF1.2 in gpa1 mutants could therefore have been due to overexpression of ERF1. Thus, the expression of ERF1 in gpa1 was investigated. The level of ERF1 hybridization signal on the gpa1-1 Affymetrix array was similar to that of the wild type. This was confirmed by northern analysis: the basal level of expression as well as MeJA induction of ERF1 in the gpa1-1 mutant was indistinguishable from that of the wild type (Supplementary Fig. S1 at JXB online). These data indicate that increased PDF1.2 expression in gpa1 mutants is therefore unlikely to be caused by misregulation of ERF1 transcription factor gene expression.
Co-overexpression of AtMYC2/JIN1/ZBF1 suppresses the induction of PDF1.2 by ERF1, and AtMYC2/JIN1/ZBF1 has been suggested to act epistatically on ERF1 activation of PDF1.2 (Anderson et al., 2004). Conversely, mutations in AtMYC2/JIN1/ZBF1 result in increased expression of PDF1.2 (Lorenzo et al., 2004) and reduced expression of VSP1 (Berger et al., 1996), leading to the proposal that AtMYC2/JIN1/ZBF1 positively induces VSP1 while it negatively regulates PDF1.2. The expression of VSP1/2 and PDF1.2 in gpa1 is similar to that in the atmyc1/jin1 mutant and it was therefore possible that AtMYC2/JIN1/ZBF1 transcription factor gene expression may be reduced in gpa1. However, this was not the case and, as for ERF1, basal expression as well as MeJA-dependent induction of AtMYC2/JIN1/ZBF1 in the gpa1-1 mutant was indistinguishable from that of the wild type (Supplementary Fig. S1 at JXB online).
G overexpression affects transcription of VSP1/2 but does not affect that of AtMYC2/JIN1/ZBF1
As described above, the gpa1-1 mutant and jin1 mutants lacking AtMYC2/JIN1/ZBF1 show very similar patterns of expression with respect to regulation of VSP1 and PDF1.2 genes. However, unlike jin1 mutants, expression of AtMYC2/JIN1/ZBF1 is indistinguishable from the wild type in gpa1-1. It is therefore possible that G regulates VSP1/2 independently of AtMYC2/JIN1/ZBF1 gene expression. If this is the case, overexpression of the G subunit should not affect AtMYC2/JIN1/ZBF1 gene expression but would still be sufficient for the expression of VSP1/2. G-overexpressing plants accumulated a significantly increased level of VSP1/2 compared with the non-induced control in the absence of MeJA (Fig. 5A). These data show that G overexpression is sufficient for induction of VSP1/2 expression. Significantly though, G overexpression did not induce the accumulation of AtMYC2/JIN1/ZBF1 (Fig. 5A). It should also be noted that VSP1/2 accumulation was not detectable when the DEX-treated G plants were kept in darkness (Fig. 5A), even when G overexpression was induced to 3 times higher levels than in the light (Fig. 5C). This shows that overexpression of the G subunit was sufficient to induce VSP1/2 expression in the light but not in darkness, and indicates that induction of VSP1/2 also requires an additional light input.
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G
overexpression is sufficient for the transcription of PDF1.2 and ERF1In order to examine further the role of G
in the regulation of the PDF1.2 gene, the expression of PDF1.2 in G-overexpressing plants was also tested. Figure 5B shows that G overexpression increases PDF1.2 in the absence of MeJA. Significantly, G-overexpressing plants also had higher accumulation of ERF1 compared with control plants. These data suggest that the accumulation of PDF1.2 transcripts in G-overexpressing plants is likely to be the result of the accumulation of ERF1.
In addition to this, as was seen for the VSP1/2 gene, PDF1.2 gene induction by G overexpression was only detectable when the plants were incubated in the light. In the case of ERF1 gene expression, a moderate induction was consistently detected following G overexpression in the absence of light; however, the induction of ERF1 was higher in the light than in the dark.
Comparative transcriptome analysis of gpa1-4 and the wild type
The preliminary microarray experiment using 22k Affymetrix arrays was performed with the wild type and the gpa1-1 mutant in the WS background. It should be noted that the Affymetrix 22k arrays are designed using the Columbia accession genome sequence. In order to gain further understanding of the global consequence of the loss of G function on gene expression, the transcriptomes of 10-d-old wild-type Columbia ecotype and gpa1-4 mutant seedlings were investigated in a biologically replicated and quantitative microarray comparison. Briefly, seedlings of each biological replicate were treated with 0 µM or 20 µM MeJA for 6 h. Operon Arabidopsis full genome microarrays were used to assess four biological replicates of each genotype. Each slide compared the transcriptomes of MeJA-treated and untreated seedlings of either the wild type or gpa1-4.
A total of 822 genes were identified that were >2-fold regulated by MeJA in wild-type seedlings. This statistically significant (P-values <0.01) cohort of genes are shown in Supplementary Table S3 at JXB online. Some genes were detected several times due to multiplication of the probes. Of these 822 genes, 200 were <2-fold regulated in gpa1-4 (Cluster I; Fig. 6A). Of the remaining 622 genes, 527 genes were >2-fold changed in response to MeJA (P <0.01) in the gpa1-4 mutant. In addition, 43 genes in this group showed a change in response to MeJA that was more than twice that observed in the wild type (Cluster IIa and b; Fig. 6A, i.e. the direction of change was the same but was more exaggerated in the mutant. Taken together, 243 out of 822 genes (29%) regulated by MeJA in wild-type seedlings were differentially regulated in gpa1-4.
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The gene set (822 genes) was then compared with the gene set identified as >2-fold regulated by MeJA (760 genes) from Affymetrix array data available from the NASC [http://www.arabidopsis.org (ME00337)], in order to gain cross-platform validation of these observations. Although the biological materials, experimental conditions, and the microarray platforms differed, 247 genes were common to both experiments and data types. The probability of an overlap between randomly chosen sets of 822 genes and 760 genes on custom and 22k Affymetrix arrays, respectively, is <0.1%, meaning that no overlapping genes would be expected between randomly chosen gene sets of these sizes. Given that both arrays are biologically replicated and the differential expression of these genes by MeJA is statistically significant, the 30% overlap observed is meaningful.
In this group of 247 genes (Supplementary Table S4 at JXB online), 31 genes were <2-fold regulated in gpa1-4 (Cluster I; Fig. 6C). Of the remaining 213 genes, 194 were also >2-fold regulated by MeJA (P <0.01) in gpa1-4. However, 17 genes (Cluster IIa and b; Fig. 6C) in this group of 194 genes showed a fold regulation that was twice that of the wild type. Together, these analyses show that the regulation of 48 out of 247 (19%) MeJA-regulated genes common to both arrays was misregulated in gpa1-4. These data therefore indicate that a loss of the G subunit affects MeJA-regulated gene expression.
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Discussion |
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TopAbstractIntroductionMaterials and methodsResultsDiscussionSupplementary dataReferences |
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The results presented here provide evidence that the Arabidopsis heterotrimeric G
subunit has a role in modulating plant responses to JA. The G-deficient gpa1 mutant showed an altered response to JA regulation of gene expression whether assessed by the Affymetrix or Operon arrays, and in subsequent northern analysis of JA-responsive genes such as VSP1/2 and PDF1.2. In addition, loss of G also affected JA regulation of root growth and chlorophyll accumulation. In contrast, G had no effect on JA biosynthesis or the regulation of JA biosynthesis genes, suggesting that the G subunit functions in a distinct branch of the JA signalling pathway in Arabidopsis.
JA signalling is modulated by G
G loss- and gain-of-function plants show an opposite and complementary response to exogenous application of JA for induction of both chlorophyll accumulation (Fig. 1) and VSP1/2 gene expression (Figs 3, 5). It should be noted that the GPA1 gene is not induced by MeJA in the Affymetrix array performed by Goda and co-workers (ME00337) and in the present custom arrays (Tables S3, S4 at JXB online). These results therefore suggest that G is positively regulating chlorophyll accumulation and VSP1/2 gene expression in response to JA. The former result is consistent with the previous observation that CAB and RBCS gene expression was reduced following G overexpression (Okamoto et al., 2001) and that JA induces expression of the chlorophyllase gene CLH1 in Arabidopsis (Tsuchiya et al., 1999), which results in a reduction of the chlorophyll content of the plants (Parthier, 1990). It is possible that JA acts directly as a ligand for heterotrimeric G-protein signalling in Arabidopsis, and this should be tested in the future.
Interestingly, overexpression of the G subunit was sufficient for induction of the VSP1/2 gene in the light but not in the dark (Fig. 5A). MeJA induction of VSP1 gene expression in Arabidopsis is induced in the presence of light, but not in the dark (Berger et al., 1995). At least some JA and G-protein signalling may therefore require factors only present when plants are exposed to light. JA biosynthesis genes such as AOS and JAR1 in rice (Haga and Iino, 2004; Riemann et al., 2008) and JAR1/FIN219 in Arabidopsis (Hsieh et al., 2000; Chen et al., 2007) have been implicated in light signalling. Additionally, the JA signalling mutant coi1 shows a number of light-insensitive phenotypes (Robson, Okamoto, and Turner, unpublished results). These data suggest that JA and light signalling are operating closely together and G may play a role at the interface of these two signalling pathways. Such a scenario may account for previous observations that G is involved in light signalling responses (Okamoto et al., 2001).
An investigation was also carried out to determine if overexpression of G is sufficient to induce the putative Thionin gene as it is for VSP1/2. However, in the absence of MeJA, expression of this gene was not detectable with G overexpression alone (data not shown). This may be due to a relatively low expression level of the putative Thionin gene compared with VSP1/2. It is also worth noting that unlike the VSP1 gene, the putative Thionin promoter does not have a AtMYC2/JIN1/ZBF1 cis-binding consensus and therefore this gene is likely to be regulated by G in a manner different from VSP1/2.
In contrast to VSP1/2 gene expression and chlorophyll accumulation, the role of G in the regulation of PDF1.2 may be more complex as both the gain- and loss-of-function G resulted in hyperaccumulation of PDF1.2 (Figs 3, 5B). In the case of gain-of-function G analysis, the gene encoding the ERF1 transcription factor, for which there is a cis-binding consensus sequence present in the PDF1.2b promoter, accumulated in the G-overexpressing plants without application of exogenous MeJA (Fig. 5B). It is therefore possible that accumulation of ERF1 is the cause of the increase in PDF1.2 expression. In loss-of-function G, PDF1.2 gene expression increased without significant accumulation of ERF1. Therefore, it is possible that the PDF1.2 accumulation observed in these two results was mediated by two different pathways.
It has been shown that simultaneous application of ethylene reduces VSP1 induction by JA (Tuominen et al., 2004), whilst ethylene and JA acts synergistically on PDF1.2 expression (Penninckx et al., 1998; Ellis and Turner, 2001). The loss-of-function G phenotype may have been the result of increased activation of ethylene signalling. However, this is less likely, as the level of ERF1 transcript that would be expected to be induced in response to ethylene signalling was found to be indistinguishable in gpa1 mutants and the wild type (Supplementary Fig. S1 at JXB online). In contrast to the loss-of-function gpa1-1 mutant, it is possible that G overexpression does indeed lead to the induction of both ERF1 and PDF1.2 and therefore may be affected in ethylene signalling. It has been shown that Gβ mutants show hypersensitivity to an ethylene precursor, ACC, with respect to root growth inhibition in darkness (Pandey et al., 2008). This suggests that Gβ may be suppressing ethylene signalling. However, it is also possible that G may be acting positively in ethylene signalling, and the gain-of-function result suggests the latter. Despite the complex nature of regulation, these data provided further evidence for a role for G in the regulation of gene expression by JA.
A possible regulatory role for G-proteins on AtMYC2/JIN1/ZBF1
Arabidopsis G-proteins work in a wide range of signalling pathways regulated by phytohormones such as GA, ABA, auxin, D-glucose (Chen and Jones, 2004), and brassinolides, as well as by biotic and abiotic environmental signals such as pathogenesis, ozone (Joo et al., 2005), and light (Okamoto et al., 2001). The most likely scenario is that G-proteins are regulating a small number of factors that are common to these signalling pathways. AtMYC2/JIN1/ZBF1 is a common transcription factor not only for light (Yadav et al., 2005) but also for ABA (Abe et al., 2003) and JA (Boter et al., 2004; Lorenzo et al., 2004) signalling pathways in Arabidopsis. The present data show that it is possible that G is regulating the activity of AtMYC2/JIN1/ZBF1, thus providing a potential mechanism for its involvement in light, ABA, and JA signalling pathways. Future work should be directed at testing if G overexpression in a jin1 mutant background has consequences for VSP1/2 gene expression and/or the chlorophyll accumulation phenotype.
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Supplementary data |
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TopAbstractIntroductionMaterials and methodsResultsDiscussionSupplementary dataReferences |
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Fig. S1. AtMYC2/JIN1/ZBF1 and ERF1 induction by MeJA in the gpa1-1 mutant and the wild type.
Table S1. The list of 134 gpa1-1 differentially-regulated genes in the Affymetrix array.
Table S2. Affymetrix array analysis of 134 gpa1-1 differentially regulated and hormone-regulated genes.
Table S3. The list of 822 genes that were more than 2-fold regulated by MeJA in the wild type with P-values of <0.01
Table S4. The list of 247 genes that were common to 10- and 7-d-old seedlings induced by JA.
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Acknowledgements |
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We thank John Baker for his excellent assistance with photography, Andrew Liddell for his assistance with data analyses, Dr Mervin Pool for his help in processing the microarray data, and Drs Sandrine Dhondt, Heather Knight, and Matthew Terry for their discussions and critical reading of the paper. We are grateful for the comments and all the input provided by Professor Alan Jones on this work. We thank the Genome Arabidopsis Research Network (GARNet) committee and the NASC for performing the microarray hybridization. We also thank Prof. J. G. Turner for providing coil-16 seed. This work is part funded by the BBSRC grant awarded to MRK (P14424) and HO (43/JF/20606). HO is a BBSRC David Philips Research Fellow.
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