Planta (1995)196:58-63 P l m a t ~ 9 Springer-Verlag 1995 Phosphoenolpyruvate carboxykinase from higher plants: Purification from cucumber and evidence of rapid proteolytic cleavage in extracts from a range of plant tissues Robert P. Walker, Stephen J. Trevanion, Richard C. Leegood Robert Hill Institute and Department of Animal and Plant Sciences, University of Sheffield,Sheffield,$10 2UQ, UK Received: 10 August 1994 / Accepted: 7 September 1994 Abstract. Phosphoenolpyruvate carboxykinase (PEPCK) was purified 600-fold to homogeneity from the cotyledons of cucumber (Cucumis sativus L.) and a polyclonal antiserum raised. After sodium dodecyl sulfate-polyacrylamide gel electrophoresis (SDS-PAGE) the purified preparation contained a single polypeptide of 62 kDa, consistent with previous studies of this enzyme in C4 grasses. Immunoblots of crude extracts showed that a form of P E P C K of approximately this molecular mass predominated in cucumber cotyledons and in a range of plant tissues (cotyledons of fat-storing seedlings, leaves of C4 and Crassulacean acid metabolism plants). However, when these tissues were extracted in the presence of SDS and the extracts analysed by immunoblotting, a larger polypeptide of 68-77 kDa was detected. Thus the enzyme generally measured in crude extracts is a smaller form which arises by rapid proteolysis. This phenomenon means that the native form of PEPCK has never been purified from plants nor its properties determined. Key words: C4 plant - Crassulacean acid metabolism Cucumis - Phosphoenolpyruvate carboxykinase - (Purification) - Proteolytic degradation Introduction In plants, phosphoenolpyruvate carboxykinase (PEPCK, EC 4.1.1.49) catalyses a key step in the conversion of fats to sugars during the germination of fat-storing seeds, in which its activity closely parallels the gluconeogenic flux (Leegood and ap Rees 1978). It also plays an important role in photosynthetic carbon assimilation in some Abbreviations: CAM = Crassulacean acid metabolism; DTT = dithiothreitol; PEG = polyethyleneglycol; PEP = phosphoenolpyruvate, PEPCK = phosphoenolpyruvate carboxykinase; Rubisco = ribulose-l,5-bisphosphate carboxylase-oxygenase Correspondence to: R.C. Leegood; FAX: 44 (1 t4) 2760159; Tel.: 44 (114) 2824780; E-mail: r.leegood@sheffield.ac.uk plants, including partial decarboxylation of C4 acids in one group of C4 plants and in Crassulacean acid metabolism (CAM) plants such as the bromeliads (Leegood and Osmond 1990; Carnal et al. 1993), as well as a role in the CO2-concentrating mechanism of certain algae (Holdsworth and Bruck 1977; Weidner and Ktippers 1982; Reiskind et al. 1988; Reiskind and Bowes 1991). In addition, it plays a role in the ripening of grapes (Ruffner and Kliewer 1975). Phosphoenolpyruvate carboxykinase also occurs widely in animals, fungi and bacteria. There are, however, two types of the enzyme. One type, from mammals, birds and insects, utilises either guanine or inosine nucleotides as a cofactor and has a molecular mass of about 70 kDa. The sequences have a high degree of homology (Reymond et al. 1992). The other type of PEPCK, from higher plants, bacteria, yeast and trypanosomes, preferentially utilises adenine nucleotides. In higher plants, the enzyme has been purified to homogeneity from the leaves of three C4 grasses (Burnell 1986) and partially purified from cotyledons of marrow (Cucurbita pepo) (Leegood and ap Rees 1978) and from the leaves of the CAM plant, pineapple (Daley et al. 1977). The study by Burnell (1986) showed the enzyme to be a hexameric protein, each subunit with a molecular mass of 64 kDa, which is lower than that of the animal enzyme but is similar to, or slightly larger than, PEPCK from yeast (64 kDa; Tortora et al. 1985), Escherichia coli (50-55 kDa; Goldie and Sanwal 1980), Rhizobium (58 kDa; Ostergts et al. 1991) and Trypanosoma brucei (60 kDa; Kueng et al. 1989; Parsons and Smith 1989). Recently, a clone for PEPCK has been isolated from a eDNA library from senescing cucumber cotyledons. The gene codes for a protein which is between 43 and 57% identical to the bacterial (E. coli and Rhizobium), yeast and trypanosomal PEPCKs at the amino-acid level, including a conserved ATP-binding domain. There are no sequence homologies with PEPCK from animals. However, the molecular mass of cucumber PEPCK predicted from the eDNA sequence is about 74 kDa, and a polyclonaI antiserum raised to the protein produced when a portion of the cDNA was over-ex- R.P. Walker et al. : Phosphoenolpyruvate carboxykinase from higher plants p r e s s e d in E. coli r e c o g n i s e d a 7 4 - k D a p r o t e i n in c u c u m b e r e x t r a c t s ( K i m a n d S m i t h 1994). T h e a i m o f this w o r k w a s t o p u r i f y P E P C K f r o m cuc u m b e r c o t y l e d o n s to h o m o g e n e i t y a n d to raise a p o l y c l o n a l a n t i s e r u m . T h e results s h o w t h a t P E P C K f r o m a r a n g e o f tissues o f h i g h e r p l a n t s is i n d e e d a l a r g e r p r o t e i n t h a n e a r l i e r w o r k s u g g e s t e d a n d t h a t the e n z y m e g e n e r a l ly m e a s u r e d in c r u d e e x t r a c t s is a p r o t e o l y t i c a l l y d e g r a d e d f o r m o f t h e e n z y m e w h i c h exists in v i v o . 59 pended in a minimum volume of 2 0 m M 2[bis(2-hydroxyethyl)amino]-2-(hydroxymethyl)-l,3-propanediol (Bistris) propane (pH 6.5), 5 mM DTT, 20% (v/v) glycerol (buffer C). Mono Q chromatography. A 1-ml sample was applied to a Mono Q HR5/5 (Pharmacia, Milton Keynes, UK) fast protein liquid chromatography (FPLC) anion-exchange column at a flow rate of 0.25 ml 9min -1. The column was washed with 10 column volumes of buffer C at a flow rate of 1 ml. m i n - 1. Bound protein was eluted by applying a 0-250 mM linear gradient of NaC1. Protein determination. Protein was determined using a modified Materials and methods Plant material. Seeds of cucumber (Cucumis sativus L. cv. Masterpiece; W. McNair, Portobello, Edinburgh) were imbibed in distilled water for 4 h at 25 ~ C and sown in moist vermiculite. The seedlings were either grown in the light (350 lamol quanta, m - 2 . s -1) or in the dark at a constant temperature of 25 ~ C. For enzyme purification, seeds were germinated and grown at 25 ~ C in the dark for 5 d. Seeds of oil seed rape (Brassica napus L. biennus), peanut (Arachis hypogaea L.), marrow (Cucurbita pepo L. cv. Green Bush), sunflower (Helianthus annuus L.) and nasturtium (Tropaeolum majus L.) were grown in soil for 5 d at 25 ~ C in darkness. Urochloa panicoides and Nidulariumfulgens were grown in a greenhouse under ambient light. Tissues were either used fresh or after freezing in liquid N2 and storage at - 8 0 ~ C. Extraction and assay of PEPCK. Plant material was homogenised in a mortar with 10 volumes of ice-cold extraction buffer A [200 m M N,N-bis(2-hydroxyethyl)glycine (Bicine) K O H (pH 9.0), 20 mM MgC12, 5 m M dithiothreitol (DTT), then clarified by centrifugation at 12 000"g for 5 min. The carboxylation reaction of PEPCK was assayed according to Cooper et al. (1968) at 25 ~ C. The assay contained, in 1 ml: 80 mM 2-(N-morpholino) ethanesulfonic acid (Mes)-NaOH (pH 6.7), 0.35 mM N A D H , 5 mM DTT, 2 mM MnC12, 2 mM phosphoenolpyruvate (PEP), 2 mM ADP, 50 mM KHCO3, 6 U malate dehydrogenase. This assay was used in crude extracts and throughout the purification. The decarboxylation assay was measured in a stopped reaction. The assay contained, in 800 lal: 40 mM Hepes-KOH (pH 8.0), 0.25 m M ATP, 0.5 m M MnC12, 0.1 mM oxaloacetate. After 10 min at 25 ~ C reactions were stopped by heating to 100~ for 2 min. The PEP was determined by adding an aliquot of the reaction mixture to 30 mM K2HPO4/20 m M NaH2PO 4 (pH 7.0), 10 mM MgC12, 1 mM ADP, 1.5 mM NADH, 6 units lactate dehydrogenase and initiating the reaction with 0.5 units pyruvate kinase. version of the procedure described by Lowry et al. (1951), adapted for a micro-titre plate (Fryer et al. 1986). Proteins were precipitated by TCA, resuspended in 2% (w/v) Na2CO 3, 0.1 M NaOH, 1% (w/v) SDS and incubated at 37 ~ C for 1 h. After dissolution of the pellets, aliquots were assayed for protein. Bovine serum albumin was used as a standard. Analysis by SDS-PAGE. Protein samples were added to solubilisation buffer (10% glycerol, 5% SDS, 5% 2-mercaptoethanol, 0.002% bromophenol blue, 62.5 m M Tris-HCl, pH 6.8), placed at 100 ~ C for 3 min and centrifuged at 13 000"g for 3 min. For SDS-PAGE (Laemmli 1970), a 4.7% T/2.7% C stacking gel and a 10.5% T/2.7% C resolving gel were used. After electrophoresis, polypeptides were fixed in gels by immersion in 50% (v/v) methanol and 12% (v/v) acetic acid. Polypeptides were visualised by colloidal Coomassie blue G-250 (Sigma, Poole, Dorset, UK) and then counterstained with silver (Rabilloud et al. 1988). Preparation of an antiserum to PEPCK. A polyclonal antiserum was generated in a New Zealand rabbit. 250 lal of the purified preparation, containing 200 ~tg of protein, was mixed with an equal volume of Freund's complete adjuvant and injected subcutaneously at four sites on the rabbit. Booster injections, each containing 200 tag protein, were done four and six weeks later using Freund's incomplete adjuvant. Two weeks after the final boost, the rabbit was bled. The blood was allowed to clot and the serum obtained was stored at - 2 0 ~ C. An antiserum to rape ribulose-l,5-bisphosphate carboxylase-oxygenase (Rubisco) was generated by the same procedure. Immunoblotting. Transfer of polypeptides from an SDS-PAGE gel to a nitrocellulose membrane was done in a Pharmacia Multiphor apparatus. Immunoreactive polypeptides were visualized using a peroxidase-conjugated second antibody. Purification of PEPCK. All procedures except Mono-Q chromatog- Results and discussion raphy were carried out at 0 ~ ~ C. Cotyledons were homogenised in a mortar containing 2 volumes of extraction buffer B [50 mM 1,4piperazinediethanesulfonic acid (Pipes)-NaOH (pH 6.7), 5 mM EDTA, 5 mM DTT, 20 mM MnC12, 10 mM MgC12, 400 mM sucrose]. Purification o f P E P C K . W h e n P E P C K h a d b e e n p u r i f i e d Ammonium sulfate fractionation. The homogenate was clarified by successive centrifugations at 2500 9g for 10 min and 25 000 9g for 20 min. Protein in the supernatant that precipitated between 40 and 50% saturation with ( N H 4 ) 2 S O 4 w a s collected by centrifugation at 10 000 - g for 15 min. The pellet was resuspended in a minimal volume of 50 mM Pipes-NaOH (pH 6.7), 5 m M DTT and 10 mM MgC12. Acid precipitation. Four volumes of 300 mM Na-acetate (pH 4.2) containing 5 mM DTT were added to the preparation, mixed and left for 30 min. Insoluble material was then removed by centrifugation at 10 000 9 g for 15 min. Polyethylene glycol 6000 (PEG; 40%) in 50 mM Pipes-NaOH (pH 6.7), 5 mM DTT and 10 mM MgC12 was added to the supernatant to a final concentration of 15% (w/v) PEG. After incubation for 30 min, precipitated protein was collected by centrifugation at 10 000 - g for 15 min. The pellet was resus- 6 0 0 - f o l d t h e p r e p a r a t i o n p o s s e s s e d a s i m i l a r specific act i v i t y ( T a b l e 1) to t h a t o f t h e p u r e e n z y m e i s o l a t e d f r o m t h e l e a v e s o f C4 g r a s s e s ( B u r n e l l 1986). A f t e r S D S - P A G E , t h e p r e p a r a t i o n c o n t a i n e d a single p o l y p e p t i d e w h i c h w a s o f a s i m i l a r size (62 k D a ) t o t h a t o f P E P C K f r o m C4 g r a s s e s ( B u r n e l l 1986). A m i n o - a c i d s e q u e n c i n g o f a p e p tide produced by cyanogen bromide cleavage of the purified p r o t e i n s h o w e d a s e q u e n c e o f 12 a m i n o a c i d s i d e n t i cal t o t h a t d e d u c e d f r o m t h e c D N A for P E P C K ( K i m a n d S m i t h 1994), c o n f i r m i n g t h a t this p r o t e i n w a s PEPCK. Gel-filtration chromatography of the purified p r e p a r a t i o n s h o w e d it to be a t e t r a m e r ( a p p r o x . 270 k D a ) s u g g e s t i n g t h a t , in c o m m o n w i t h P E P C K f r o m C 4 g r a s s e s ( h e x a m e r ; B u r n e l l 1986), y e a s t ( t e t r a m e r ; T o r t o r a et al. 1985) a n d Trypanosoma cruzi ( d i m e r ; U r b i n a 1987), t h e cucumber enzyme was a multimer. Whether or not these 60 R.P. Walker et al.: Phosphoenolpyruvate carboxykinase from higher plants Table 1 Purification of the 62-kDa form of PEP CK from 160 g of cucumber cotyledons. The enzyme was extracted and purified as described in Materials and methods Stage Total activity (lamol ' min- 1) Protein (mg) Specific activity Purification (U. rag- 1 protein) ( - fold) Yield (%) Crude extract Soluble fraction 40-50% (NH4)2SO 4 Acid precipitation PEG precipitation Mono-Q chromatography 1270 1186 724 720 356 235 15180 8433 749 128 19 4.9 0.08 0.14 0.97 5.6 18.7 48,0 100 93 57 57 28 19 74 kDa --) 62 kDa ---) Fig. 1. Western blot showing varying stability of PEPCK in extracts of cucumber cotyledons. Cotyledons were homogenised in extraction buffer B at pH 6.7 (see Materials and methods) alone or in the presence of 1% SDS and left at 25~ C for 30 rain. The integrity of PEPCK was assessed by immunoblot analysis of polypeptides separated by SDS-PAGE, using an antiserum specific for PEPCK differences in aggregation state are a consequence of the degradation of the enzyme (see below) is difficult to assess at this stage. The activity of P E P C K was stable for several months when the purified preparation was stored at - 20 ~ C. The presence of D T T was essential at all stages of the purification to prevent loss of activity (see also Ray and Black 1976; Burnell 1986). Kinetic studies using purified enzyme showed that it possessed similar kinetic properties to those of P E P C K s isolated from other plant tissues (Daley et al. 1977; Leegood and ap Rees 1978; Burnell 1986). Adenine nucleotides were preferred for both carboxylation and decarboxylation reactions. The Michaelis constants, determined from Eadie-Hofstee plots, for the carboxylation reaction were: P E P 0.34 mM, A D P 27 laM and CO 2 16 m M ; and for the decarboxylation reaction were: oxaloacetate 17 laM and A T P 14 gM. Forms o f P E P C K in vivo. A polyclonal antiserum was raised against the purified P E P C K and was used to probe Western blots of S D S - P A G E gels. These blots showed that the antiserum recognised specifically the P E P C K polypeptide at all stages of the purification. However, further investigation revealed two forms of PEPCK. One, with a molecular mass of a b o u t 74 k D a was observed when cotyledons were extracted in buffer at p H 6.7 in the 1 1.8 12 70 234 600 Fig. 2. Western blot showing varying stability of PEPCK in extracts of cucumber cotyledons homogenised in extraction buffer A (see Materials and methods) at either pH 7.0 or pH 9.0. After homogenisation, extracts were left at 25~ C for up to 90 min. The integrity of PEPCK was then assessed by immunoblot analysis of polypeptides separated by SDS-PAGE presence of SDS. The other, 62-kDa, form was observed when extracts were prepared in buffer at pH 6.7 and left for short periods before denaturation (Fig. 1). These results imply that a protease rapidly cleaves the 74-kDa form of P E P C K to generate the 62-kDa form. A wide range of protease inhibitors, including leupeptin, pepstatin, antipain, chymostatin, 4-amidinophenylmethanesulfonyl fluoride (APMSF), bestatin, aprotinin and E64, had no effect on cleavage of P E P C K in crude extracts at p H 6.7. We then investigated whether cleavage of the 74-kDa form could be prevented under any conditions. Extraction at a more-alkaline p H (pH 9.0) was shown to result in enhanced stability of the 74-kDa form (Fig. 2), for up to 90 min, suggesting that the protease is inactive at this high p H value. The rapid proteolytic cleavage of P E P C K in extracts of cucumber cotyledons raises the question of the extent to which this is a general phenomenon. As pointed out in the Introduction, P E P C K from other plants, such as C4 grasses, has been shown to have a molecular mass of around 62 kDa. We investigated whether the rapid proteolytic cleavage observed in extracts of cucumber cotyledons was also a feature of other plant tissues. First, we studied a range of tissues close to the peak of gluconeogenesis. This antiserum to cucumber P E P C K possessed a similar affinity for P E P C K from a range of plant tissues. Oil seed rape, peanut and m a r r o w (Fig. 3) and sunflower and nasturtium (data not shown) all showed similar features to cucumber, with a rapid proteolytic cleavage from R.P. Walker et al.: Phosphoenolpyruvate carboxykinase from higher plants 61 Fig. 3. Western blot showing varying stability of PEPCK in extracts of cotyledons of a range of fat-storing seedlings. Cotyledons were homogenised in either extraction buffer A (see Materials and methods) at pH 9.0 containing 1% SDS and boiled immediately or in extraction buffer A at pH 7.0 and incubated at 25~ C for 30 rain Urochloa panicoides Nidularium fulgens Fig. 5. Western blot showing stability of the stromal fructose-l,6bisphosphatase and Rubisco in extracts of cucumber cotyledons homogenised in extraction buffer A at pH 7.0. After homogenisation, extracts were left at 25~ for up to 90min. Changes in polypeptides were monitored by SDS-PAGE and immunoblotting using antisera specific either for fructose-l,6-bisphosphatase or Rubisco i8 kDa--> ~2 kDa--> fulgens prepared at pH 7.0 also showed degradation of a 9 + SDS 7 -SDS 9 7 + SDS -SDS extraction conditions Fig. 4. Western blot showing varying stability of PEPCK in homogenates of leaves of the C4 grass, Uroehloa panicoides and of the CAM bromeliad, Nidulariumfulgens. Leaves were homogenised in either extraction buffer A (see Materials and methods) at pH 9.0 containing 1% SDS and boiled immediately or in extraction buffer A at pH 7.0 and incubated at 25~ C for 30 min. The integrity of PEPCK was then assessed by immunoblot analysis of polypeptides separated by SDS-PAGE a 74-kDa form to a 62-kDa form at lower p H values (pH 7.0) in the absence of SDS. Second, we examined extracts made from the leaves of the P E P C K - t y p e C4 grass, Urochloa panicoides, and the C A M bromeliad, Nidularium fulgens (Fig. 4). Extracts of U. panicoides showed rapid degradation of P E P C K from a 68-kDa form to a 62-kDa form at neutral pH, which was prevented by extraction at pH 9.0 in the presence of SDS. Extracts of N. 77-kDa form, but in this case there were a number of minor bands generated around 60 kDa, rather than than a clearly defined major band at 62 k D a as found in the other tissues. Examination of previous purification protocols shows that several resulted in multiple forms eluting from ion-exchange columns (e.g. Daley et al. 1977; Leegood and ap Rees 1978). Western blots also showed that P E P C K in extracts of cucumber roots was rapidly degraded (data not shown), although the a m o u n t and activity of P E P C K in roots was, on a fresh-weight basis, but a small fraction (less than 2%) of the activity in cotyledons. We also investigated whether any other enzymes might be subject to rapid proteolysis in extracts of cucumber cotyledons. Neither Rubisco nor the stromal fructose-l,6-bisphosphatase was affected by incubation at pH 7.0 in extracts of greened cucumber cotyledons (Fig. 5). The total polypeptide pattern as seen on SDSP A G E gels was also not visibly affected by incubation of the extracts for prolonged periods at p H 7.0 (data not shown). These limited data suggest that the proteolytic activity leading to the cleavage of P E P C K was not entirely promiscuous (compare Usuda and Shimogawara 1994). 62 R.P. Walker et al.: Phosphoenolpyruvate carboxykinase from higher plants Fig. 6. Changes in PEPCK protein, as revealed by SDS-PAGE and immunoblotring, and PEPCK activity in cucumber cotyledons following imbibition by the seed and subsequent growth in darkness at 25~ C. Protein was extracted in extraction buffer A (see Materials and methods) at pH 9.0 containing 1% SDS and boiled immediately. Activity was measured as described in Materials and methods after extraction at pH 9.0 The fact that this cleavage of P E P C K occurs in a wide range of tissues, both gluconeogenic and non-gluconeogenic, suggests that it is unlikely to serve the same physiological function. We checked whether the 62-kDa form of P E P C K was present in cucumber cotyledons at any stage of development. Figure 6 shows Western blots from gels of extracts prepared from the onset of germination through the peak of gluconegenic activity. At no stage was there any evidence for the presence of the 62-kDa form of the enzyme in either dark-grown seedlings (Fig. 6) or light-grown seedlings (data not shown). From these data we conclude that the 62-kDa form of P E P C K does not exist in vivo and is entirely artefactual. There have been m a n y measurements of P E P C K activity reported for a range of tissues. The observation that the enzyme is rapidly cleaved then raises the question of whether cleavage leads to any loss of activity of PEPCK. To test this we t o o k cotyledons and extracted them at both p H 7.0 and p H 9.0 (as in Fig. 2). Both were then assayed spectrophotometrically at p H 6.7. The assay under these conditions was linear immediately after the addition of the extract and the activities were identical for both extracts. These data suggest that cleavage leads to no loss of activity. Figure 6 shows activities of P E P C K measured after extraction at p H 9.0 and assay at p H 7.0. Both the pattern of activity during germination and the absolute activities strongly resemble those already determined in m a r r o w cotyledons (Leegood and ap Rees 1978) and they also resemble the pattern of changes observed for other gluconeogenic enzymes in cucumber (Trelease et al. 1971; Becker et al. 1978). Nevertheless, this phen o m e n o n of rapid proteolysis means first, that P E P C K has never been purified from plant tissues in its native form. Second, it follows that the properties of P E P C K have never been adequately determined in crude extracts of plant tissues, in spite of the fact that the cotyledons of fatty seedlings have long been recognised as a particularly amenable tissue for the assay of enzymes. The work demonstrates the importance of using antibodies to check for such degradation in crude extracts of plant tissues. It should be noted that there are now a number of examples in the literature where rapid proteolytic cleavage has been observed in crude extracts, e.g. with Rubisco (Usuda and Shimogawara 1994); ADPglucose pyrophosphorylase (Plaxton and Preiss 1987; Kleczkowski et al. 1993), N A D P - m a l a t e dehydrogenase (Kampfenkel 1992) and PEP carboxylase (Baur et al. 1992; Usuda and Shim o g a w a r a 1994), often without affecting Vm,x. The observation that the 74-kDa form of P E P C K could be stabilised at high p H values has now enabled us to develop a method for the purification of the 74-kDa form of P E P C K and to investigate its regulation. 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