- Research article
- Open Access
The SNF1-type serine-threonine protein kinase SAPK4regulates stress-responsive gene expression in rice
© Diédhiou et al; licensee BioMed Central Ltd. 2008
Received: 13 September 2007
Accepted: 28 April 2008
Published: 28 April 2008
Plants respond to extracellularly perceived abiotic stresses such as low temperature, drought, and salinity by activation of complex intracellular signaling cascades that regulate acclimatory biochemical and physiological changes. Protein kinases are major signal transduction factors that have a central role in mediating acclimation to environmental changes in eukaryotic organisms. In this study, we characterized the function of the sucrose nonfermenting 1-related protein kinase2 (SnRK2) SAPK4 in the salt stress response of rice.
Translational fusion of SAPK4 with the green fluorescent protein (GFP) showed subcellular localization in cytoplasm and nucleus. To examine the role of SAPK4 in salt tolerance we generated transgenic rice plants with over-expression of rice SAPK4 under control of the CaMV-35S promoter. Induced expression of SAPK4 resulted in improved germination, growth and development under salt stress both in seedlings and mature plants. In response to salt stress, the SAPK4-overexpressing rice accumulated less Na+ and Cl- and showed improved photosynthesis. SAPK4-regulated genes with functions in ion homeostasis and oxidative stress response were identified: the vacuolar H+-ATPase, the Na+/H+ antiporter NHX1, the Cl- channel OsCLC1 and a catalase.
Our results show that SAPK4 regulates ion homeostasis and growth and development under salinity and suggest function of SAPK4 as a regulatory factor in plant salt stress acclimation. Identification of signaling elements involved in stress adaptation in plants presents a powerful approach to identify transcriptional activators of adaptive mechanisms to environmental changes that have the potential to improve tolerance in crop plants.
Plants respond to abiotic stresses such as cold, drought, and salinity by activation of complex intracellular signaling cascades that regulate biochemical and physiological acclimation. In eukaryotes, protein kinases are key elements involved in signal transduction responsive to metabolism, biotic and abiotic stresses inclusive the major environmental factor salinity. Growth of yeast mutants deficient in the sucrose non-fermenting 1 (SNF1) serine-threonine protein kinase that is related to the mammalian AMP-activated protein kinase was severely inhibited by NaCl indicating a main function of the kinase in regulating adaptative mechanisms to salt stress [1, 2]. In plants, a salt-induced mitogen-activated protein kinase (MAPK) has been, for example, identified from alfalfa with SIMK that is activated by the MAPK kinase SIMKK, and involvement of MAPKs in osmotic stress signaling has been shown in tobacco and A. thaliana [3–5]. Stress-inducible members within the plant family of serine-threonine protein kinases have been identified within the calcium-dependent protein kinases (CDPKs), the CDPK-related kinases (CRKs), the calmodulin-dependent protein kinases (CaMKs), and the SnRKs that are related to SNF1 from yeast. Members of the SnRK1 subgroup function in regulation of metabolism under environmental stress and have a role in plant development [6–8]. Protein kinases of the SnRK2 and SnRK3 type are specific for plants and implication in ABA signaling was shown for several members of these groups [6, 9–11]. A. thaliana SnRK3 kinases function in sugar and ABA signaling and in salt stress responses [12–14]. SnRK3 SOS2 interacts with the Ca2+ sensor SOS3 and the plasma membrane Na+/H+ antiporter SOS1 involved in regulation of intracellular Na+ homeostasis is activated via the SOS pathway .
Important knowledge on stress-inducible signaling pathways has been mainly derived from studies on the stress-sensitive model plants A. thaliana and rice whereas regulatory signaling elements have been rarely identified in naturally stress tolerant species.
The experiments of this study characterize the protein kinase SAPK4 that was identified in a screen for genes regulated by salt stress in the facultative halotolerant grass Festuca rubra ssp. litoralis (red fescue). Expressional analyses in the salt-sensitive rice line IR29 showed down-regulation of the SAPK4 transcript amounts. Over-expression of the rice SAPK4 in rice conferred increased tolerance to salt stress at the seedling stage and in mature plants. In the transgenic rice, Na+ and Cl- accumulation was reduced indicating involvement of SAPK4 in regulation of ion homeostasis. The results presented in this study indicate that SAPK4 is a determinant of plant salt stress acclimation. Identification of signaling transduction elements that have a role in stress adaptation in naturally stress tolerant plants presents a powerful tool to identify transcriptional regulators of adaptive mechanisms to environmental changes that have the potential to improve tolerance in crop plants.
Differences of salt-dependent expression of SAPK4 in rice and in F. rubra ssp. litoralis
Over-expression of SAPK4in transgenic rice plants
SAPK4is involved in tolerance to salt stress in rice
SAPK4regulates ion accumulation in salt-stressed rice
Environmental stresses as drought, cold, and salinity limit the agricultural yield of rice that is one of the most important crops. Experimental approaches such as forward and reverse genetics and transcriptome analyses have been chosen to identify molecular key factors that regulate acclimation of rice to environmental changes. Over-expression of the rice transcription factor OsDREB1A in A. thaliana induced expression of stress-inducible genes and higher tolerance to drought, high-salt, and freezing stresses . Increased salt tolerance of rice was achieved, for example, by transgenic expression of trehalose biosynthetic genes, a Na+/H+ antiporter, an aquaporin, the Ca2+-dependent protein kinase OsCDPK7, and the mitogen-activated protein kinase OsMAPK5 [19–23]. A comparison of high-yielding but stress-sensitive rice cultivars with rice varieties with increased stress tolerance indicates that salt-sensitive rice varieties are hampered by delayed stress-induced transcriptional response .
In the present study a subtractive cDNA library of the halotolerant grass F. rubra ssp. litoralis was screened for transcripts that might be regulated differently by salt stress in F. rubra ssp. litoralis and the salt-sensitive rice line IR29. The identified protein kinase SAPK4 belongs to the rice SnRK2 (sucrose nonfermenting 1-related protein kinase2) family and demonstrated that the kinase mediates salt stress signaling in rice. Constitutive over-expression of rice SAPK4 conferred increased salt tolerance to rice by interfering with ion homeostasis, maintaining unperturbed photosynthesis and inducing an oxidative stress response. Our results demonstrate that the salt-sensitive crop species rice and the related halotolerant grass F. rubra ssp. litoralis differ from each other in the salt-dependent regulation of SAPK4 that apparently plays a role in salt stress signaling. Improved activation of molecular mechanisms of salt adaptation may be seen in transgenic rice plants over-expressing SAPK4. Thus, our results contribute to the understanding of signaling factors that regulate plant salt acclimation. In addition, characterization of SAPK4 and identification of target genes that are regulated either directly or by secondary effects by the kinase extends our knowledge on the function of the rice SnRK2 kinase.
The plant SNF1-related kinases (SnRK) that share homology with the yeast SNF1-type kinases have been divided in the three subgroups SnRK1, SnRK2, and SnRK3 based on domain structure [6, 7, 25]. SnRK1-type proteins have been reported to function in plant development and carbon metabolism such as pollen development in wheat and regulation of enzymes such as an alpha-amylase in wheat embryos and ADP-glucose pyrophosphorylase in potato tubers [26–28]. The wheat SnRK2-subgroup protein PKABA1 is up-regulated by dehydration, cold, and osmotic stress, and involvement in abscisic acid and gibberellin signaling has been shown for the barley homologue [29–32]. Kobayashi et al.  analyzed the transcription of SAPK4 in leaf blades, sheaths, and roots of 30-days-old rice under control conditions, ABA, NaCl, and mannitol treatment and found increased transcription in roots and blades by treatment with ABA and NaCl. In this work the authors found regulation of SnRK2 family members by phosphorylation . In other studies, in the rice genome 10 SnRK2s could be identified that were activated by hyperosmotic stress, and 3 of the proteins responded to abscisic acid whereas in A. thaliana 9 of 10 SnRK2s were regulated by hyperosmolarity but not cold indicating function of the kinases in osmotic stress signaling [33, 34]. Over-expression of SnRK2.8 improves drought tolerance in A. thaliana but did not regulate stomatal movement whereas SnRK2.6 affects ABA-induced stomatal closure . Members of the A. thaliana SnRK3 group interact with calcium-binding proteins and have a role in sugar and abscisic acid signaling and in salt stress responses .
For a more detailed characterization of rice SAPK4 the subcellular partitioning of SAPK4 proteins was addressed by localization of GFP fusions and it was found that the protein kinase was distributed in nucleus and cytoplasm. In yeast it has been shown that the beta subunits of the SNF1 kinase regulate its subcellular localization to the nucleus, vacuole, and cytoplasm . Using GFP protein fusions it was shown that SNF1 kinase beta subunits direct the kinase to the nucleus in a glucose-regulated manner . Direct regulatory interaction between signal transduction pathways mediated by the yeast SNF1 kinase and RNA polymerase II holoenzyme has been suggested to activate transcription of glucose-responsive genes . Accordingly, subcellular localization of rice SAPK4 in both cytoplasm and nucleus may indicate similar regulatory mechanisms of transcriptional control by the kinase in plant cells.
We generated transgenic rice lines over-expressing SAPK4. We found an increased transcript level of SAPK4 in comparison to wild-type rice under non-stress control conditions that was, however, more pronounced under salt treatment. A similar effect has been described for other transcripts as well. Shi et al.  reported no increased transcript level of the plasma membrane Na+/H+ antiporter SOS1 in SOS1-overexpressing A. thaliana when overexpression was driven by the CaMV-35S promoter. The transcript level increased under treatment with NaCl suggesting postranscriptional regulation of SOS1. The authors suggested that the SOS1 transcript might be unstable in the absence of salt stress and that salt stress causes a stabilization of the SOS1 transcript.
Over-expression of SAPK4 in transgenic rice plants improved germination, growth and development at both the seedling and the mature plant stage in the presence of increased NaCl concentrations whereas wild-type rice showed severe developmental and physiological inhibition under the same conditions. The SAPK4 over-expressing plants accumulated less Na+ and Cl- than salt-stressed wild-type rice in response to salt stress. The K+/Na+ ratio was increased in the SAPK4-sense plants. In parallel photosynthesis was not impaired in the salt-stressed transgenic rice. Identification of target genes indicates that SAPK4 regulates the expression of genes that are known to contribute to ion homeostasis and oxidative stress responses: the vacuolar H+-ATPase, the Na+/H+-antiporter NHX1, the Cl-channel OsCLC1, and a catalase.
The vacuolar H+-ATPase mediates electrogenic translocation of protons at endo-membrane compartments of plant cells and energizes processes as cell expansion, secondary activated transport, and adaptation to environmental stress such as salt-induced secondary activated Na+ transport via NHX-type Na+/H+ antiporters at the tonoplast [38, 39]. Stimulated transcription, translation, and enzyme activity, respectively, is known from halophytes as Mesembryanthemum crystallinum and Suaeda salsa and, for example, from the V-ATPase subunit A but not subunit D from A. thaliana [38, 40–42]. Over-expression of the vacuolar NHX1-type Na+/H+ transporter that mediates vacuolar Na+ sequestration improved salt tolerance in tomato and rice [43, 44]. SAPK4 over-expressing rice plants, however, revealed reduced transcript amounts of OsNHX1 and a decreased Na+ accumulation indicating that the improved tolerance to salt was caused by cellular Na+ exclusion rather than vacuolar sequestration of the ion. For example, suppression of the Na+/K+ co-transporter HKT1 reduced Na+ accumulation in wheat roots and resulted in increased salt tolerance , and reduced accumulation of Na+ was induced in A. thaliana by over-expressing the Na+/H+ antiporter SOS1 that mediates cellular extrusion of Na+ at the plasma membrane . Voltage-dependent Cl- channels of the CLC-family function in regulation of membrane potential and cellular pH homeostasis, and involvement of plant CLC-type chloride channels in regulation of stomatal movement has been suggested . In rice, expression of the CLC-type channel OsCLC1 was analyzed showing salt-dependent transcriptional regulation . In the present work transgenic over-expression of SAPK4 in rice repressed both accumulation of Cl- and transcription of OsCLC1 indicating involvement of the kinase in regulation of anion homeostasis in salt-treated rice. A role of down-regulation of Cl- channels as OsCLC1 in the maintenance of turgor and of the intracellular osmotic potential by restricting Cl- fluxes across the plasma membrane has been hypothesized .
In addition to hyperosmotic and hyperionic effects of high salinity, salt-stressed plants are also affected by secondary stresses as excessive generation of reactive oxygen species (ROS). ROS formation is caused by water deficits in salt treated plants that lead to reduced CO2 fixation and reduced regeneration of NADP+ in the Calvin cycle . Reactive oxygen species are scavenged by antioxidant metabolites as ascorbate, glutathione, and tocopherols and by detoxifying enzymes as superoxide dismutase, ascorbate peroxidase, and catalase [50–52]. For example, over-expression of glutathione S-transferase and glutathione peroxidase increased growth of transgenic tobacco exposed to salt stress, and transgenic tobacco with reduced catalase activity showed increased susceptibility to salt [53, 54]. In this study over-expression of SAPK4 was shown to affect expression of a catalase in rice.
In future investigations it will be interesting to determine the detailed function of this enzyme in the salt acclimation in rice to further advance the understanding of adaptive cellular mechanisms in salt-stressed plants.
Plant material, growth conditions, and salt stress
Rice (Oryza sativa L. indica) var. IR29 and Festuca rubra ssp.litoralis were grown in a growth chamber with 14 h light (300 μE m-2 sec-1, 25°C) and 10 h dark (21°C) and 50% relative humidity. Seeds were germinated in vermiculite soaked with a modified half-strength Hoagland's nutrition solution . Seedlings were transferred to aerated hydroponic tanks 10 days after germination. For salt stress, the nutrition medium was supplemented with NaCl at a final concentration of 125 and 500 mM. Non-stressed control plants were grown in parallel and harvested at the same time. For transcript analyses, wild-type rice plants were grown to the age of 3 weeks. Experiments with F. rubra ssp.litoralis were performed at a comparable growth and developmental stage at the age of six weeks. Wild-type and transgenic rice lines were grown to the age of 8 weeks for growth and stress experiments. For germination analyses, seeds of wild-type and of transgenic rice lines were germinated in Petri dishes on sterile filter paper soaked with half-strength Hoagland's nutrition solution. The statistical significance of different germination rates was determined by Student's t-test (p < 0.05). Different NaCl concentrations were chosen for reasons of plant age. Rice plants of the age of 8 weeks were stressed with 125 and 150 mM NaCl that is a severe stress for rice . Germination and growth of seedlings were monitored at 50 mM NaCl. For studies of the transcription of genes regulated by SAPK4 the moderate salt stress of 100 mM NaCl was applied.
Extraction of RNA, Northern hybridization, hybridization of cDNA-arrays, and RT-PCR
Total leaf RNA from rice and of F. rubra ssp. litoralis was extracted as described . Northern hybridizations were performed with 20 μg of total RNA per lane . cDNA was synthesized from 5 μg of total RNA with M-MLV RT II [H-] (Promega) and oligo-dT-priming in 20 μl reactions. cDNA probes for Northern detection were generated by PCR with cDNA synthesized from leaves of rice with gene-specific sense and antisense oligonucleotide primers and digoxigenin-dUTP (Roche, Germany) as a label. Transcript analyses were performed for the following genes: SAPK4 (AB125305, LOC_Os01g64970; primers for cloning the cDNA: 5'-CACCATGGAGAAGTACGAGGCG-3', 5'-TCATATGCGCAGTGAGCTCAT-3', primers for analyses of transcription: 5'-TGGCTACTCCAAGTCATC-3', 5'-TCGTACTCATCTTCCTCC-3'), OsNHX1 (LOC_Os07g47100; primer sequences: 5'-ATCTTCAATGCAGGCTTC-3' and 5'-TGCATCCATCCCAACATA-3'), OsVHA-B (LOC_Os06g37180; primer sequences: 5'-ATTGACAGGCAGCTGCAT-3' and 5'-GCAATGTCCATGCTAGGT-3'), OsCLC1 (LOC_Os01g65500; primer sequences: 5'-TGTACAAGCAGGACTGGA-3' and 5'-AGATAGGCCTTCACCTCA-3', and catalase isozyme A (LOC_Os02g02400; primer sequences: 5'-GGATGACACCAAGACATG-3', 5'-TCACGTTGAGCCTATTCG-3'). Actin was amplified as a loading control (primer sequences: 5'-GTGATCTCCTTGCTCATACG-3' and 5'-GGNACTGGAATGGTNAAGG-3'). Probes for array hybridization were prepared from each 25 μg of total RNA by incorporating digoxigenin-11-dUTP. Northern blot and cDNA-array membranes were washed with 0.5× SSC at 42°C for 30 minutes and hybridization signals were detected with anti-digoxigenin alkaline phosphatase conjugated Fab fragments and CSPD (Roche, Germany) as a substrate. RT-PCR analyses were performed in standard reactions as described . Actin was hybridized and amplified as a loading control. For densitometric analyses the Gelscan software (INTAS, Germany) was used.
Construction of subtraction cDNA-library
mRNA was isolated from total RNA with the PolyATract kit (Promega, Mannheim, Germany). A subtraction cDNA-library of F. rubra ssp. litoralis was synthesized with the PCR-Select Kit (Clontech, Heidelberg, Germany) according to the manufacturer's protocol. Same amounts of mRNA from the salt stress treatments of F. rubra ssp. litoralis were pooled for the tester cDNA: 125 mM NaCl, 250 mM NaCl, and 500 mM NaCl for 6 h, 24 h, 48 h, and 7 days at the ages of 5 and 12 weeks, each leaf and root tissue. Same amounts of mRNA from control plants of the same developmental stage and harvested in parallel to the stressed plants were pooled for the driver cDNA. The subtracted cDNA was cloned into pCR-TOPO II (Invitrogen, Karlsruhe, Germany) and the inserts were amplified by PCR with the nested primers 1 and 2R (Clontech). The PCR products were analyzed on agarose gels and products that yielded single bands were selected for further procedures. BLAST analyses of sequenced PCR products (MWG Biotech, SeqLab, Germany) were performed in the rice TIGR database.
Preparation of cDNA-macroarrays, labeling of probes, and hybridization of cDNA-arrays
The PCR products from the subtraction cDNA-library were purified with QIAquick spin columns (Qiagen, Hilden, Germany) and dissolved in 50% (v/v) DMSO. cDNA-macroarrays with 129 functionally different ESTs were generated at the Center of Genome Research (ZfG) at the University of Bielefeld. The amplified PCR products were transferred in duplicates to nylon membranes (Hybond-N, Amersham Pharmacia Biotech, UK) in a 3 × 3 pattern leaving an empty area in the middle for local background subtraction. The membranes were fixed by baking and UV cross-linking. Labeled detection probes were prepared from each 25 μg RNA with incorporation of digoxigenin-11-dUTP (Roche, Mannheim, Germany) during first strand cDNA synthesis using SuperScript II (Invitrogen) and oligo(dT)-priming. The probes were purified using QIAquick spin columns (Qiagen) to remove unincorporated nucleotides. The probes were denatured at 100°C for 10 min prior to hybridization. The hybridization was performed with the same procedure as described above for Northern hybridizations.
Generation of constructs and transformation of rice
The open reading frame cDNA of SAPK4 was amplified by RT-PCR from rice leaves (var. IR29) with sense and antisense oligonucleotide primers and cloned in pENTR/D-TOPO (Invitrogen, Netherlands). SAPK4 cDNA was subcloned in pK2GW7 for over-expression under the control of the constitutive 35S-CaMV promoter and in pK7FWG2 for over-expression with a C-terminal GFP-fusion under the control of the constitutive 35S-CaMV promoter . Agrobacterium tumefaciens strain LBA4404 was transformed with the constructs and used for transformation of rice. Mature dehusked rice seeds were sterilized in ethanol (94%, v/v) for 30 seconds, in formaldehyde (0.8%, v/v) for 40 min, and in sodium hypochlorite (1.8%, v/v). The seeds were incubated in Petri dishes containing two layers of sterile Whatman paper and 7 ml sterile deionized water at 42°C for 24 hours to allow pre-germination. The seeds were immersed for 10–15 min in liquid co-culture medium (CCL, modified Chu N6 medium with 2 mg/l naphthalene acetic acid, 1 mg/l kinetin, 55 mM glucose, 100 μM acetosyringone, pH 5,2) containing A. tumefaciens. Subsequently, the seeds were transferred into Petri dishes containing solid co-culture medium (CCL with 0.7% (w/v) agarose) and incubated for three days at 25°C in the dark. The seeds were transferred to CCS plates containing cefotaxime (400 mg/l) and were incubated at 25°C under 12/12 h (day/night) photoperiod for three days. To promote tiller and root development, the rice plants were incubated at a photoperiod of 12/12 h (day/night) in N6 medium without hormones plus kanamycin (50 mg/l). Obtained seeds were sterilized as described above and germinated under kanamycin (50 mg/l) treatment. Experiments were performed with transgenic T2 rice plants. Seeds from transformed rice were screened on 0.5 × MS agar medium containing 50 mg/l kanamycin and by RT-PCR of the kanamycin selection marker. Transgenic rice lines transformed with the empty expression vector served as a control.
Isolation of protoplasts and subcellular localization of SAPK4-GFP fusion proteins
Protoplasts were isolated from A. thaliana and were transformed with constructs for expression as described . Transformation of onion epidermal cells was performed according to . For subcellular localization of SAPK4-GFP fusion proteins a confocal laser scanning microscope (Leica DMRE) was used .
Measurement of chlorophyll a fluorescence and of Cl- content
The photosynthetic quantum yield of photosystem II (ΦPSII) was calculated from chlorophyll a fluorescence data obtained from attached rice leaves using the Mini PAM (Walz, Germany). The actinic photon flux density was 300 μE m-2 sec-1 as during growth. Steady state maximum fluorescence emission was excited by application of a saturating light pulse (5000 μmol m-2 s-1). ΦPSII was calculated according to the manufacturer's instructions. The Cl- content was measured in leaf extracts with a micro-chloro-counter (Marius-Utrecht, Netherlands).
The work was supported by the Deutsche Forschungsgemeinschaft (Bonn, Germany). C.J.D. gratefully acknowledges support by the DAAD, Germany.
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