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Mol Biol Cell. Mar 2000; 11(3): 833–848.
PMCID: PMC14814

Glucose Depletion Rapidly Inhibits Translation Initiation in Yeast

Marvin P. Wickens, Monitoring Editor

Abstract

Glucose performs key functions as a signaling molecule in the yeast Saccharomyces cerevisiae. Glucose depletion is known to regulate gene expression via pathways that lead to derepression of genes at the transcriptional level. In this study, we have investigated the effect of glucose depletion on protein synthesis. We discovered that glucose withdrawal from the growth medium led to a rapid inhibition of protein synthesis and that this effect was readily reversed upon readdition of glucose. Neither the inhibition nor the reactivation of translation required new transcription. This inhibition also did not require activation of the amino acid starvation pathway or inactivation of the TOR kinase pathway. However, mutants in the glucose repression (reg1, glc7, hxk2, and ssn6), hexose transporter induction (snf3 rgt2), and cAMP-dependent protein kinase (tpk1w and tpk2w) pathways were resistant to the inhibitory effects of glucose withdrawal on translation. These findings highlight the intimate connection between the nutrient status of the cell and its translational capacity. They also help to define a new area of posttranscriptional regulation in yeast.

INTRODUCTION

The ability to sense and respond to changes in the nutritional environment is essential for the flexibility of growth exhibited by the yeast Saccharomyces cerevisiae. The signal transduction pathways that control this flexibility can be induced by levels of specific nutrients such as amino acids and glucose. In general, these pathways bring about changes in gene expression (most commonly transcription) or posttranslational modifications (Thevelein, 1994 blue right-pointing triangle).

Nutrients also control the level of protein synthesis in cells. Starvation for amino acids or purines is known to cause a general inhibition of translation (summarized in Figure Figure1A)1A) as well as an activation of many genes involved in amino acid biosynthesis (Hinnebusch, 1984 blue right-pointing triangle; Tzamarias et al., 1989 blue right-pointing triangle; Rolfes and Hinnebusch, 1993 blue right-pointing triangle). A detailed model to account for this has been presented (Hinnebusch, 1996 blue right-pointing triangle). It proposes that the accumulation of uncharged tRNAs activates the Gcn2p protein kinase, which phosphorylates the α-subunit (Sui2p) of the translation initiation factor eIF2 (Dever et al., 1992 blue right-pointing triangle; Ramirez et al., 1992 blue right-pointing triangle). This phosphorylation traps eIF2 in an inactive GDP-bound form via sequestration of the eIF2B guanine nucleotide exchange factor. As eIF2-GTP is required for translation initiation, the accumulation of eIF2-GDP results in a general inhibition of translation (Trachsel, 1996 blue right-pointing triangle).

Figure 1
Summary of the signaling pathways involving translational or glucose-mediated controls in S. cerevisiae. Arrows represent activating signals, and blunt-ended lines represent inhibitory signals.

Another example of signal-mediated translational control in yeast involves the inhibition of the TOR kinase pathway (Figure (Figure1B).1B). This pathway is inhibited by both nutrient starvation and the drug rapamycin, leading to the inhibition of translation (Barbet et al., 1996 blue right-pointing triangle). The targets of rapamycin, Tor1p and Tor2p, are phosphatidylinositol kinase homologues. Mutations in these kinases generate a rapamycin-resistant phenotype. Tor1p and Tor2p are thought to control translation initiation by stimulating the association of type 2A (PP2A) and type 2A–related (Sit4p) phosphatases with Tap42p via phosphorylation of Tap42p (Di Como and Arndt, 1996 blue right-pointing triangle; Jiang and Broach, 1999 blue right-pointing triangle). A mutant form of Tap42p, Tap42-11p, confers partial rapamycin resistance to cells by maintaining its association with the phosphatases even when Tor1p and Tor2p are inactivated. The mechanism by which Tap42p controls translation initiation is not currently understood, although rapamycin treatment has been shown to lead to the degradation of eIF4G (a component of the eIF4F cap-binding complex) (Berset et al., 1998 blue right-pointing triangle). More recent studies have also shown that rapamycin treatment affects both amino acid transporters and transcription of the ribosomal protein genes (Schmidt et al., 1998 blue right-pointing triangle; Powers and Walter, 1999 blue right-pointing triangle).

Glucose is one of the major signaling nutrients for S. cerevisiae as well as its preferred carbon source. Several well-characterized signal transduction pathways (summarized in Figure Figure1,1, C–E) allow yeast to perceive the level of glucose, and collectively these pathways initiate the appropriate response to this level (Thevelein, 1994 blue right-pointing triangle; Gancedo, 1998 blue right-pointing triangle). In general, many of these responses involve alterations in programs of gene expression, and the majority of these alterations occur at the level of mRNA transcription.

In this paper, we have made use of a preliminary observation from our laboratory and from others (Martinez-Pastor and Estruch, 1996 blue right-pointing triangle) that protein synthesis in yeast is inhibited by removal of the carbon source from the growth medium, whereas transcription is unaffected. We have expanded on this observation to show that the translational inhibition is rapid, reversible, and specific for glucose or fructose removal. The inhibition and its reversal do not require new transcription and do not make use of previously described nutrient-based translational control pathways. However, the inhibition is overcome in glucose repression, hexose transporter (HXT) induction, and cAMP-dependent protein kinase (cAPK) mutants. These results suggest that the yeast translational apparatus is tightly controlled by the nutritional status of the cell, and they indicate the existence of a previously undescribed pathway that can lead to the rapid inhibition of protein synthesis in response to environmental changes.

MATERIALS AND METHODS

Strains and Growth Conditions

The strains used in this study are listed in Table Table1.1. They are listed as yAS numbers with their more common names in parentheses. The strain yAS2568 (W3031A) was used as the wild-type strain unless stated otherwise. Strains were grown on either standard yeast extract/peptone medium (YP) or synthetic complete (SC) yeast nitrogen base/ammonium sulfate/amino acid medium supplemented with 2% carbon source, as indicated (Guthrie and Fink, 1991 blue right-pointing triangle). Strains were grown at 30°C except for temperature-sensitive (ts) mutants, which were grown at 26°C. The identities of most mutant strains were confirmed with the use of growth phenotypes specific to each strain. The gcn2::URA3 mutant (yAS2569) was generated with the use of standard methods by transformation of yAS2568 with a BstEII–SnaBI fragment from the plasmid p781 (Wek et al., 1992 blue right-pointing triangle). The SNF1::G418 strains (yAS2605 [reg1Δ snf1Δ], yAS2606 [hxk2Δ snf1Δ], and yAS2602 [snf3Δ rgt2Δ snf1Δ]) were generated by transformation of strains yAS2576, yAS2578, and yAS2537 with a PCR product containing 40 base pairs found upstream and downstream of the SNF1 ORF surrounding the KanMX2 gene (Wach et al., 1994 blue right-pointing triangle). Insertions were verified by Southern blotting. yAS2570 and yAS2571 were generated by five backcrosses of the H1645 strain (Dever et al., 1992 blue right-pointing triangle) to yAS2568 followed by replacement of the resident SUI2 URA3 plasmid with either the wild-type or mutant SUI2 LEU2 plasmid (strains and plasmids used here were kindly provided by Tom Dever, National Institutes of Health). yAS2566 and yAS2567 were generated by transformation of yAS2531 (yM4127) with the plasmids pBM3259 (SNF3-1) and pBM3270 (RGT2-1), respectively (Özcan et al., 1998 blue right-pointing triangle) (strains and plasmids used here were kindly provided by Mark Johnston, Washington University).

Table 1
Yeast strains used in this study

Analysis of Ribosomal Distribution on Sucrose Density Gradients

Yeast cultures were grown to an OD600 of 0.4, and 200 ml was harvested at 8000 × g for 10 min at 30°C in a Sorvall (Newtown, CT) GSA rotor. Cells were resuspended in 200 ml of medium either with or without a carbon source. After a specific time (10 min in the majority of experiments), the culture was added to cold 200-ml centrifuge bottles containing 2 ml of 10 mg/ml cycloheximide. All subsequent steps were performed at 4°C. The cells were centrifuged at 8000 × g for 10 min in a Sorvall GSA rotor and washed in 50 ml of lysis buffer (20 mM HEPES, pH 7.4, 2 mM MgOAc, 100 mM KOAc, 100 μg/ml cycloheximide, 0.5 mM DTT). Cells were pelleted for 3 min with the use of a clinical centrifuge, resuspended in 800 μl of lysis buffer, and transferred to 1.5-ml microcentrifuge tubes. After pelleting for 5 min at 7000 rpm in an Eppendorf (Westbury, NY) microcentrifuge, cells were resuspended in an equal volume of lysis buffer and lysed in the presence of 1 volume of glass beads by vortexing six times for 20 s at 40-s intervals. Lysates were cleared briefly at 10,000 rpm for 5 min in an Eppendorf microcentrifuge, followed by a 20-min 10,000-rpm centrifugation to give the final lysate. The A260 was measured, and 9 A260 units were loaded onto 15–50% linear sucrose gradients as described by Luthe (1983) blue right-pointing triangle. The gradients were centrifuged in a SW41 rotor (Beckman Instruments, Palo Alto, CA) for 2.5 h at 40,000 rpm, after which the gradients were collected from the bottom. The A254 was measured continuously to generate the traces shown in the figures.

[35S]Methionine Incorporation Assays

These were performed as described by Sachs and Deardorff (1992) blue right-pointing triangle. Briefly, yeast were grown in SCD lacking methionine (SCD-met) to an OD600 of 0.4, and two 7.5-ml aliquots were pelleted in a clinical centrifuge for 3 min. The two cell pellets were resuspended immediately in 20 ml of SCD-met and SC-met, respectively. Methionine was added to a final concentration of 60 ng/ml, of which 0.5 ng/ml was [35S]methionine (cell-labeling grade, 1175 Ci/mmol; New England Nuclear, Boston, MA). One-milliliter samples were added to 1 ml of 20% trichloroacetic acid (TCA) at the various time points and heated at 95°C for 20 min in glass tubes. The protein precipitate was collected on GFC filters (Whatman, Clifton, NJ), washed with 10 ml of 10% TCA and then with 10 ml of 95% ethanol, and counted in Scintiverse (Fisher, Pittsburgh, PA) scintillation fluid. This process was scaled down and fewer time points were taken for screening through the glc7 mutants.

Northern Blotting

Yeast (yAS2568) were grown in YPD to an OD600 of 0.5. One 15-ml aliquot plus two 30-ml aliquots were centrifuged in a clinical centrifuge. The 15-ml aliquot cell pellet was immediately frozen in liquid N2. The two 30-ml aliquot cell pellets were resuspended in 30 ml of YPD or YP. Fifteen-milliliter aliquots were pelleted, and the pellets were frozen after 5 and 10 min. RNA was extracted from the frozen pellets and used for Northern blots as described by Boeck et al. (1998) blue right-pointing triangle. The following probes were used: ACT1, a 165-base pair EcoRI fragment from pAS340; PGK1, a 3.1-kilobase HindIII fragment from pAS214; CYH2, a 1.6-kilobase SalI fragment from pAS215; PAB1, a 785-base pair NdeI–SpeI fragment from pAS77; and MFA2, a 326-base pair EcoRI fragment from pAS225.

Immunoblotting of eIF4G

Yeast were grown in YPD to an OD600 of 0.5. Ten-milliliter aliquots were pelleted and resuspended in YPD or YP for various times. Cells were pelleted, frozen in liquid N2, and resuspended in 500 μl of TCA/lysis buffer (10% TCA, 10 mM Tris, pH 8.0, 100 mM NH4OAc, 1 mM EDTA, 1 mM PMSF, 0.5 μg/ml leupeptin, 0.7 μg/ml pepstatin). Cells were lysed with 0.5 volume of glass beads at 4°C by vortexing (six times for 20 s at 40-s intervals). The TCA precipitates in the lysate were then pelleted and resuspended in loading buffer (3.5% SDS, 14% glycerol, 120 mM Tris base, 0.0025% bromphenol blue, 8 mM EDTA, 120 mM DTT). Samples were boiled and electrophoretically separated with the use of an 8% SDS polyacrylamide gel. Western blotting for eIF4G was performed as described by Tarun and Sachs (1996) blue right-pointing triangle.

ATP Measurements

The protocol used was adapted slightly from that of Simpson and Hammond (1989) blue right-pointing triangle. Yeast were grown in SCD to an OD600 of 0.5. As a control, a 20-μl sample was removed from the original culture and added to 20 μl of 10% TCA. This was further processed as described below and then used as the 100% standard. Two 15-ml culture aliquots were centrifuged in a clinical centrifuge for 3 min at 30°C. The two cell pellets were resuspended in 15 ml of SCD or SC, and 20-μl aliquots were removed after 1, 2.5, 5, 7.5, 10, 15, 20, and 30 min. Immediately after removal, these aliquots were mixed with 20 μl of 10% TCA. This was vortexed for 1 min, and 10 μl was removed and added to 990 μl of reaction buffer (25 mM HEPES, pH 7.75, 2 mM EDTA). This was mixed, and 100 μl was added directly to 100 μl of Enliten luciferin/luciferase reagent (Promega, Madison, WI). Luminescence was measured on a Turner Designs (Sunnyvale, CA) TD-20/20 luminometer with the use of a 10-s integration period. Standard curves were determined with the use of ATP standards, and these were used to ensure linearity under these conditions. Assays were performed at least twice for each strain, with maximal errors of ±5% of the value shown.

RESULTS

Glucose Withdrawal Results in a Loss of Polyribosomes

When extracts were prepared from yeast grown and washed for 10 min in standard glucose-containing medium (YPD), they exhibited a normal polyribosome profile (Figure (Figure2A).2A). Such a profile includes an accumulation of multiple ribosomes bound to single mRNAs (polysomes) toward the bottom of the gradient. When cells grown in YPD were washed for 10 min in YP lacking glucose, however, polysomes were lost and the level of single 80S ribosomes increased (Figure (Figure2A).2A). This change in polysome profile has been noted previously for many temperature-sensitive strains bearing mutations in key translation initiation factors upon transfer to the restrictive temperature and is indicative of an inhibition of translational initiation (Hartwell and McLaughlin, 1969 blue right-pointing triangle; Mathews et al., 1996 blue right-pointing triangle). We also found that polysomes could be maintained in cells washed in buffer provided that glucose and amino acids were present (our unpublished results).

Figure 2
Glucose or fructose removal from yeast medium specifically inhibits translation initiation. (A) Polyribosome traces from the wild-type strain (yAS2568). Yeast was grown in YPD and resuspended in YP medium lacking (YP) or containing (YPD) glucose for the ...

Glucose Withdrawal Inhibits Translation Rapidly and Reversibly

The kinetics of polysome redistribution upon glucose withdrawal was investigated. Extracts from cells that had been washed for increasing amounts of time in the absence of glucose were examined on polysome gradients (Figure (Figure2A).2A). A redistribution of polysomes into the 80S peak was evident after 1 min of glucose depletion, and after 2.5 min this redistribution was almost complete.

The rate of protein synthesis was measured by [35S]methionine incorporation to confirm that the redistribution in polysomes was associated with an inhibition of protein synthesis. Cells were transferred to medium containing or lacking glucose and labeled with [35S]methionine for the next 10 min (Figure (Figure2D).2D). Yeast cells incorporated [35S]methionine linearly in the presence of glucose. However, upon transfer to medium lacking glucose, there was an almost complete inhibition of further [35S]methionine incorporation. These data, together with the nearly complete loss of polysomes in the absence of glucose, indicate that translation initiation is inhibited by glucose removal.

We also asked how quickly the polysome profile could be restored by the readdition of glucose to inhibited cells (Figure (Figure2B).2B). As expected, a 10-min wash without glucose (YP 10′) drastically reduced polysome levels. Subsequent addition of glucose-containing medium led to a marked increase in polysomes after 1–2.5 min and a complete restoration of polysomes after 5 min. Therefore, glucose removal causes a sudden inhibition of translation initiation that can be rapidly reversed.

The Polysome Redistribution Is Carbon Source Specific

We next investigated whether the loss of polyribosomes was specific to glucose withdrawal or a general consequence of carbon source depletion. Accordingly, yeast were grown on various carbon sources (glucose [D], fructose [F], galactose [G], maltose [M], sucrose [S], and raffinose [R]) and then washed for 10 min in the presence or absence of the carbon source. Only yeast growing on glucose or fructose before polysome analysis exhibited polysome loss upon carbon source depletion (Figure (Figure2,2, B, C, and E). Yeast cells grown on other carbon sources had nearly normal levels of polysomes, even after carbon source removal. These polysomes are indicative of elongating ribosomes, because after galactose withdrawal the yeast continues to incorporate [35S]methionine at approximately half the rate observed when galactose is maintained (Figure (Figure22D).

We also determined how long it took after galactose removal for a decrease in translation to become evident (Figure (Figure2E).2E). After 15 min, there was no major effect of galactose removal upon translation, but at times thereafter, a gradual decrease in the level of polysomes was observed. It is interesting to compare the polysome profile 1 min after glucose removal (Figure (Figure2A)2A) with that produced 40 or 60 min after galactose removal (Figure (Figure2E);2E); they have a very similar pattern, even though the length of time in the absence of a carbon source was vastly different.

We conclude from these data that the rapid inhibition of translation upon carbon source withdrawal is specific to the removal of either glucose or fructose. This carbon source specificity is identical to that of many previously described glucose-dependent signal transduction pathways (Thevelein, 1994 blue right-pointing triangle). We also found that 2-deoxyglucose had a general inhibitory effect on translation and therefore could not be used to determine whether the absence of glucose or a glucose metabolite leads to translational inhibition (our unpublished results).

Translational Inhibition Is Not Caused by a Gross Decrease in mRNA Abundance

One possible explanation for the inhibition of translation initiation upon glucose withdrawal is that it occurs indirectly via a massive decay of mRNA. Therefore, we assessed the abundance of specific mRNAs with a range of half-lives (11 min for PAB1, 45 min for PGK1, 30 min for ACT1, 43 min for CYH2, and 2.5 min for MFA2 [Herrick et al., 1990 blue right-pointing triangle]) by Northern blot analysis after glucose removal (Figure (Figure3A).3A). In general, the level of mRNAs did not decrease when glucose was withdrawn. In fact, the level of certain mRNAs (e.g., CYH2) increased when glucose was removed. This effect could be due to the inhibition of translation, which presumably has already taken place and leads to the stabilization of certain mRNAs (Peltz et al., 1992 blue right-pointing triangle; Beelman and Parker, 1994 blue right-pointing triangle). These results rule out the formal possibility that glucose withdrawal leads to translational inhibition as a result of increased mRNA instability.

Figure 3
Neither mRNA degradation nor transcription contributes to the inhibition of translation upon glucose withdrawal or the recovery after glucose readdition. (A) Northern blot stained with methylene blue to visualize the rRNA levels (upper panel). The same ...

Neither Translational Inhibition nor Recovery Requires New Transcription

The rpb1-1 temperature-sensitive mutant was used to assess whether an additional round of gene expression is a requirement for the process of translational inhibition. This strain harbors a mutation in an RNA polymerase II gene, and after a shift to the restrictive temperature, it is rapidly inhibited for the transcription of most mRNAs (Nonet et al., 1987 blue right-pointing triangle; Herrick et al., 1990 blue right-pointing triangle). rpb1-1 or its isogenic wild-type parent was shifted to 37°C 5 min before a 10-min incubation in medium with or without glucose (Figure (Figure3B).3B). In wild-type yeast, this temperature shift did not affect the polysome profile in the presence of glucose (Figure (Figure3Ci),3Ci), and the removal of glucose still inhibited translation (Figure (Figure3Cii).3Cii). For the rpb1-1 mutant, the 15-min 37°C incubation would be expected to lead to a substantial decrease in the quantity of mRNA and therefore polysomes, because the average half-life of a yeast mRNA is ~15 min. Indeed, as shown in Figure Figure3Civ,3Civ, after 15 min at 37°C the rpb1-1 strain contains approximately half the polysomes present in the wild-type parent. However, even allowing for this decrease in polysomes after transcriptional shutdown, there was still a rapid additional decrease in polysome levels when glucose was removed from the medium (Figure (Figure33Cv).

A similar result was observed for the recovery of translational activity after the readdition of glucose. In these experiments, glucose was removed from yeast for 10 min to allow for the inhibition of translation. Halfway through this period, the yeast cells were shifted to 37°C to completely inhibit mRNA transcription in the rpb1-1 strain. The levels of polysomes were then assayed after readdition of glucose for another 10 min (Figure (Figure3B).3B). In the wild-type strain (Figure (Figure3Ciii),3Ciii), the shift in temperature to 37°C did not affect its ability to recover polysomes after readdition of glucose. For the rpb1-1 strain (Figure (Figure3Cvi),3Cvi), polysomes recovered to almost the same level as that seen when transcription was inhibited in the presence of glucose (Figure (Figure3Civ).3Civ). These results indicate that new transcription is not required for glucose withdrawal to inhibit translation or for glucose readdition to stimulate translation.

The Inhibition of Translation by Glucose Withdrawal Does Not Occur through Previously Described Translational Inhibitory Mechanisms

As described in the INTRODUCTION, some prominent examples of signal-mediated translational inhibition have been discovered. First, starvation for amino acids leads to a global inhibition of translation (Tzamarias et al., 1989 blue right-pointing triangle). We confirmed this result (Figure (Figure4A)4A) with the use of a wild-type strain in which the withdrawal of amino acids reduced the level of polysomes. Surprisingly, glucose removal had a more severe effect than even amino acid depletion, because it generated a greater reduction in polysomes. The amino acid starvation pathway of translational inhibition requires the Gcn2p protein kinase, which phosphorylates the α-subunit of eIF2 (a translation initiation factor encoded by the SUI2 gene). The mutation of Ser51 to Ala in Sui2p disrupts this regulatory circuit (Dever et al., 1992 blue right-pointing triangle). This mutation was used to investigate whether the translational inhibition by glucose withdrawal occurs by a similar mechanism. Consistent with previous results, the SUI2-S51A strain was resistant to the inhibition of translation caused by amino acid withdrawal (Figure (Figure4A).4A). However, the mutant was sensitive to the removal of glucose at the translational level (Figure (Figure4A).4A). Similar effects were found with a gcn2 null strain (our unpublished results). These results support the conclusion that glucose removal and amino acid starvation elicit translational inhibition via different mechanisms.

Figure 4
Mutants in other translational control pathways are still inhibited for translation upon glucose withdrawal. (A) Polyribosome traces from the wild-type (yAS2570) and SUI2-S51A (yAS2571) strains. Yeast was grown in SCD-Leu medium and washed for 10 min ...

Another signal-mediated translational inhibitory response is induced by inactivation of the TOR signaling pathway (Barbet et al., 1996 blue right-pointing triangle). For example, rapamycin or nutrient starvation inhibits the TOR proteins, which are normally capable of phosphorylating Tap42p. A specific mutation, tap42-11, confers rapamycin resistance (Di Como et al., 1996 blue right-pointing triangle). If the inhibition of translation by glucose removal is brought about via inactivation of Tor1p and Tor2p, we reasoned that the tap42-11 mutant would be at least partially resistant to glucose withdrawal. However, the tap42-11 mutant exhibited the same level of translational inhibition on glucose withdrawal as its isogenic parent (Figure (Figure4B).4B). The kinetics and magnitude of the rapamycin-dependent inhibition of translation also bear little relation to those of the inhibition of translation by glucose depletion (Barbet et al., 1996 blue right-pointing triangle; Powers and Walter, 1999 blue right-pointing triangle). Previously, even 30 min after rapamycin treatment only a limited decrease in polysomes was observed (Powers and Walter, 1999 blue right-pointing triangle), whereas there was almost complete loss of polysomes 2.5 min after glucose depletion in the present study. It has also been suggested that rapamycin leads to the selective degradation of the translation initiation factor eIF4G (Berset et al., 1998 blue right-pointing triangle). When glucose was withdrawn from yeast cells, we found no evidence that eIF4G was degraded (our unpublished results). These results suggest that the inhibition of translation by glucose removal is unlikely to result from the inactivation of the TOR pathway.

Specific Glucose Repression Mutants Exhibit Resistance to Translational Inhibition by Glucose Withdrawal

Growth in the presence of glucose represses the expression of a wide variety of genes whose products are involved in the use of alternative carbon sources and oxidative metabolism (Gancedo, 1998 blue right-pointing triangle). This process involves the signal transduction pathway summarized in Figure Figure1C.1C. One of the most significant changes that occurs in yeast cells depleted of glucose is the activation of the glucose derepression pathway. The absence of glucose generates an active Snf1p protein kinase complex that inhibits the activity of several transcriptional repressors. This leads to the derepression of many glucose-repressed genes. We analyzed a series of mutants in the glucose repression/derepression pathway to test whether this pathway is involved in the inhibition of translation upon glucose removal. These mutants have been isolated and characterized during many years of study of this pathway (Entian, 1980 blue right-pointing triangle; Celenza and Carlson, 1986 blue right-pointing triangle; Niederacher and Entian, 1987 blue right-pointing triangle; Schüller and Entian, 1987 blue right-pointing triangle; Vallier and Carlson, 1994 blue right-pointing triangle; Tu and Carlson, 1994 blue right-pointing triangle, 1995 blue right-pointing triangle; Devit et al., 1997 blue right-pointing triangle; Sherwood and Carlson, 1997 blue right-pointing triangle).

A number of mutants in the glucose repression pathway that give constitutive derepression were identified as translationally resistant to the removal of glucose. For example, as shown in Figure Figure55 and Table Table2,2, reg1Δ, hxk2Δ, and ssn6-Δ6 were resistant to translational inhibition on glucose removal. However, other glucose repression mutations, such as glc7-T152K, mig1Δ, gsf1-1, and gsf2-Δ1, did not give resistance to the translational inhibition by glucose withdrawal, even though these mutants are derepressed.

Figure 5
Polyribosome analyses for a selection of strains used in this study. Examples of polyribosome traces generated with the use of the wild-type strain (yAS2572 [FY250]) and various mutant strains (yAS2576 [reg1Δ], ...
Table 2
A summary of the sensitivity/resistance of various mutant yeast strains to glucose removal at the translational level

Reg1p is a regulatory subunit of the Glc7p protein phosphatase 1. It is thought to directly maintain Snf1p in an inactive state via its dephosphorylation (Tu and Carlson, 1995 blue right-pointing triangle; Ludin et al., 1998 blue right-pointing triangle). Therefore, it was unexpected that a reg1 mutant was resistant to glucose removal but the glc7-T152K mutant (which has been shown to be defective in Reg1p binding) was not. To further examine this discrepancy, we analyzed a series of strains containing mutations in the GLC7 gene (see Ramaswamy et al. [1998] for a full listing of the mutants used). One of these mutations, glc7-Q48K, conferred mild resistance to the inhibition of translation by glucose withdrawal by both the polysome and [35S]methionine-labeling assays (Table (Table2).2). This mutant also exhibited constitutive derepression, as judged by its growth on sucrose in the presence of 2-deoxyglucose. Interestingly, the Gln48 residue lies in a similar region of the modeled structure of PP1A (based on the rabbit protein phosphatase type 1) as Thr152 and many other residues involved in glucose repression (see Baker et al., 1997 blue right-pointing triangle). The identification of a glc7 mutation that confers resistance to glucose withdrawal is consistent with current models of Reg1p action (Ludin et al., 1998 blue right-pointing triangle; Alms et al., 1999 blue right-pointing triangle). As such, the resistance of the reg1Δ mutant would be via the inactivation of Glc7p toward specific substrates.

It has been shown that deletion of Hxk2p hexokinase, but not Glk1p and Hxk1p (which are also responsible for phosphorylating glucose to give glucose-6-phosphate), leads to constitutive derepression (Entian, 1980 blue right-pointing triangle). This result has been interpreted to indicate that further metabolism of glucose to glucose-6-phosphate is not the primary signaling event for glucose repression. We tested a mutant strain deleted for both hxk1 and glk1 and found that protein synthesis was still inhibited upon glucose removal (Table (Table2).2). This finding shows that resistance to the inhibition of translation follows the same hexokinase specificity as the glucose repression pathway (i.e., only hxk2Δ has a phenotype). It was also suggested recently that Reg1p/Glc7p can dephosphorylate Hxk2p and that this event is involved in glucose repression (Randez-Gil et al., 1998 blue right-pointing triangle; Alms et al., 1999 blue right-pointing triangle). Therefore, we tested a strain containing a mutation at the site of Hxk2p phosphorylation (Ser15 to Ala15) that has been reported to be derepressed (Randez-Gil et al., 1998 blue right-pointing triangle). This mutation did not lead to resistance to glucose withdrawal at the translational level (Table (Table2).2). We conclude from this result that maintenance of Hxk2 Ser15 phosphorylation in a reg1Δ strain is not the reason why cells are resistant to the translational inhibition induced by glucose removal.

As only a subset of glucose repression mutants exhibited resistance to translational inhibition by glucose withdrawal, it seemed possible that these mutations either had common effects outside glucose repression or generated a higher level of derepression than the mutants that had no effect. If the glucose repression pathway is involved in the resistance phenotype, then a SNF1 null mutation in the reg1Δ or hxk2Δ mutant (in which constitutively active Snf1p is normally maintained [Jiang and Carlson, 1996 blue right-pointing triangle; Ludin et al., 1998 blue right-pointing triangle]) would be expected to reestablish sensitivity to translational inhibition on glucose removal. As shown in Figure Figure55 and Table Table2,2, translation was inhibited in both the hxk2Δ snf1Δ and reg1Δ snf1Δ mutants upon glucose removal to the same extent as in the wild type (FY250). This result demonstrates that the constitutive Snf1p activity associated with the reg1Δ and hxk2Δ mutants is required for their resistance to glucose removal at the translational level. In combination with the involvement of proteins throughout the repression pathway (from Hxk2p at the cell membrane to the transcriptional repressor Ssn6p), this suggests that derepression of the glucose repression pathway leads to the observed resistance phenotype. Thus, it seems likely that the level of constitutive derepression in a mutant is critical in determining whether it is resistant or sensitive to glucose removal at the translational level.

Our observation that a transcriptional repression mutant (ssn6Δ) is resistant to the translational inhibition upon glucose removal is difficult to integrate with the finding that new transcription is not required for the inhibition of translation or its recovery after glucose readdition (Figure (Figure3C).3C). This contradiction suggests that mutants in the glucose repression pathway could be acting in an indirect way to confer resistance to the effects of glucose withdrawal upon translation (see DISCUSSION).

The snf3Δ rgt2Δ Mutant Is Resistant to the Translational Inhibition upon Glucose Withdrawal

A different pathway has been described in which the presence of glucose is sensed by two integral membrane proteins, Rgt2p and Snf3p. These are high- and low-affinity glucose sensors, respectively, and they signal the presence of glucose to allow for the transcription of the HXT genes (Figure (Figure1D)1D) (Özcan et al., 1996a blue right-pointing triangle,b blue right-pointing triangle, 1998 blue right-pointing triangle). This pathway involves Grr1p, which forms part of the SCF ubiquitin-conjugating complex that is involved in protein degradation. It has been proposed that this complex targets the transcriptional repressor Rgt1p for degradation and thus allows HXT gene expression (Li and Johnson, 1997 blue right-pointing triangle). We chose to investigate whether these glucose sensors were responsible for signaling changes in glucose levels in the medium to the translational apparatus.

The constitutive activation of this pathway via the deletion of rgt1 or the presence of dominant active SNF3-1 or RGT2-1 mutations did not prevent the rapid inhibition of translation induced by glucose depletion (Table (Table2).2). Inactivation of the pathway via deletion of grr1, snf3, or rgt2 also did not prevent the response to glucose. However, the snf3Δ rgt2Δ double mutant did exhibit resistance (Figure (Figure55 and Table Table2).2). This strain, however, exhibits complex phenotypes. For instance, the strain grows poorly on glucose, perhaps explaining the lower level of polysomes even in the presence of glucose. In addition, like the reg1Δ and hxk2Δ mutants, this strain is constitutively derepressed. One explanation for this is that this mutant reacts as if glucose were limiting as a result of the decreased glucose transport caused by the constitutive transcriptional repression of the HXT genes (Schmidt et al., 1999 blue right-pointing triangle). Interestingly, the grr1Δ mutant (which is also constitutively derepressed for a similar reason [Flick and Johnston, 1991 blue right-pointing triangle; Vallier et al., 1994 blue right-pointing triangle]) is sensitive to glucose removal at the translational level. Because Grr1p lies downstream of the Rgt2p and Snf3p glucose sensors, it seems unlikely that the resistance observed in the snf3Δ rgt2Δ mutant is a consequence of its derepression phenotype. However, to test this directly, we deleted SNF1 in the snf3Δ rgt2Δ background to abolish derepression (Schmidt et al., 1999 blue right-pointing triangle). In the snf3Δ rgt2Δ mutant, deletion of SNF1 does not reestablish the inhibition of translation upon glucose removal (Figure (Figure55 and Table Table2).2). This result demonstrates that, in contrast to the reg1Δ and hxk2Δ mutants, the snf3Δ rgt2Δ mutant is not resistant as a consequence of constitutively active Snf1p. This opens the possibility that the Snf3p and Rgt2p glucose sensors may be directly involved in signaling the levels of glucose in the medium to the translational machinery.

Low Levels of cAPK Activity Prevent the Inhibition of Translation on Glucose Removal

Other signal transduction pathways in which glucose has been implicated as a signaling nutrient converge on the cAPK (Figure (Figure1E).1E). Two tpkw mutants (tpk1w1 tpk2Δ tpk3Δ and tpk1Δ tpk2w1 tpk3Δ), in which two of the genes encoding cAPK were deleted and the third was severely impaired, were resistant to the effects of glucose removal at the translational level (Figure (Figure55 and Table Table2).2). These mutants have an undetectable level of cAPK activity and therefore represent an extreme inhibition (Cameron et al., 1988 blue right-pointing triangle). Interestingly, another of these tpkw mutants (tpk1Δ tpk2Δ tpk3w1) was not resistant to the inhibition of translation caused by glucose depletion (Table (Table2).2). This mutant was also previously shown to have the highest cAPK activity of these three mutants (Nikawa et al., 1987 blue right-pointing triangle).

In low-cAPK mutants such as the tpkw mutants, the transcription factors Msn2p and Msn4p are constitutively nuclear, and as a result, the stress-controlled genes are constitutively expressed. Interestingly, the removal of glucose has been shown to induce the stress response, and this is mediated via the relocalization of the Msn2p and Msn4p transcription factors from the cytoplasm to the nucleus. This relocalization is thought to require inactivation of cAPK upon glucose removal (Görner et al., 1998 blue right-pointing triangle). We examined whether the resistance to glucose removal at the translational level in low-cAPK mutants is a result of the constitutive activity of the stress response pathway in these mutants. We used a strain that is deleted for MSN2 and MSN4 as well as all of the cAPK genes (TPK1, TPK2, and TPK3). In this strain, the deletion of the Msn2p and Msn4p transcription factors abolishes the constitutive stress response that is characteristic of low-cAPK mutants (Smith et al., 1998 blue right-pointing triangle). However, this strain is still largely resistant to the translational inhibition caused by glucose removal (Figure (Figure55 and Table Table2).2). In addition, when glucose is removed from a wild-type strain in which the stress response genes are preinduced (via heat, salt, or ethanol stress), translation is still largely inhibited (our unpublished results). Therefore, the activity of the stress response pathway does not explain the translational resistance to glucose withdrawal that is evident in low-cAPK mutants.

In [35S]methionine incorporation assays, the rate of incorporation in the presence of glucose for the tpkw mutants was significantly lower than that for the wild-type parent (our unpublished results). This correlates with their slow growth (Table (Table2).2). However, it was clear that in the absence of glucose these mutants incorporated [35S]methionine, whereas the wild-type strain showed impaired incorporation (Table (Table2).2). In addition, the tpk1Δ tpk2Δ tpk3Δ msn2Δ msn4Δ strain has only a slightly impaired growth rate compared with wild-type strains and yet is still resistant to glucose withdrawal at the translational level (Table (Table22).

Two pathways have been described that regulate cAPK activity in response to glucose. These are the RAS/cAMP pathway and the fermentable growth medium–induced pathway. The RAS/cAMP pathway is involved in the metabolic switch that occurs when cells are transferred onto glucose (Jiang et al., 1998 blue right-pointing triangle), and the fermentable growth medium–induced pathway is involved in the maintenance of high cAPK activity during growth on glucose (Thevelein, 1991 blue right-pointing triangle; Crauwels et al., 1997 blue right-pointing triangle). Neither activating nor inhibitory mutations in various components of these pathways (Bcy1Δ, RAS2val19, gpa2Δ, gpr1Δ, cdc35-11, and sch9Δ) were found to have a significant effect on the level of translational inhibition caused by glucose removal (Table (Table2).2). It seems likely that the inhibitory mutations in these pathways do not reduce the cAPK activity sufficiently to allow resistance to glucose removal at the translational level.

An Analysis of ATP Levels after Removal of the Carbon Source

Our identification of yeast mutants resistant to the inhibitory effects of glucose withdrawal on translation supports the hypothesis that this translational inhibition is a signal-mediated event. However, our interpretations are complicated by the fact that glucose is also the main energy source of the cells (Thevelein, 1994 blue right-pointing triangle). Therefore, an alternative possibility is that upon glucose removal the energy levels in the cell decrease to such an extent that translation can no longer proceed, because translation is one of the major energy-consuming processes in the cell.

To investigate whether energy depletion explains the translational inhibition, we measured ATP levels with the use of a luciferin/luciferase assay. This assay has the advantage that it can be used to assess the ATP levels quickly with a minimum of cellular manipulations (Simpson and Hammond, 1989 blue right-pointing triangle). Figure Figure66 shows the results of time-course experiments whereby yeast was incubated in the presence or absence of glucose, with the amount of ATP expressed as a percentage of the starting ATP level of the culture. The precise starting ATP levels for all the strains tested were remarkably similar, falling in a range between 250 and 350 amol/cell. This correlates well with previous measures of the intracellular ATP level in yeast (Simpson and Hammond, 1989 blue right-pointing triangle).

Figure 6
Measurement of intracellular ATP levels after glucose withdrawal from the growth medium. The percentage of the starting intracellular ATP level for 30 min after transfer of yeast to medium with glucose (□) or without glucose (♦) is plotted. ...

We found that after glucose removal, wild-type strains (FY250 [yAS2572], SP1 [yAS962], and W3031A [yAS2568]) exhibited a rapid (after 1 min or less) decrease in ATP level to ~20% of the starting value (Figure (Figure6).6). This is consistent with the results of Wilson et al. (1996) blue right-pointing triangle, who showed that the AMP/ATP ratio increases immediately after glucose removal. A decrease to ~70% of the starting level of ATP also was observed in the presence of glucose. It is not clear why this decrease occurred, but it may relate to the cellular manipulations during the experiment. The decrease in ATP level that was observed upon glucose removal coincides with the translational inhibition described above. However, there was a variation in the rate of recovery of the ATP level (Figure (Figure6,6, compare FY250, SP1, and W3031A). In some wild-type strains, the ATP level quickly recovered to >70% of that found before glucose withdrawal after 10 min (Figure (Figure6,6, W3031A) (our unpublished results). Only in one wild-type background, FY250, did the low ATP level persist in the absence of glucose (Figure (Figure6).6). The recovery of ATP levels is consistent with the results of Ditzelmüller et al. (1983) blue right-pointing triangle, who found that ATP levels remained remarkably constant under a range of different growth conditions. Even though there was a wide variation between strain backgrounds in the level of ATP reduction and recovery after glucose removal, all of these strains were equally inhibited at the translational level. Therefore, it is possible that the decrease in ATP is either required for or generated by the inhibition of translation. However, it does not seem likely that reduced energy levels account directly for the translational inhibition upon glucose removal, because ATP levels recover rapidly to near normal levels in some inhibited strains.

The removal of galactose from a wild-type culture grown on galactose (W3031A gal) or the removal of glucose from the reg1Δ, hxk2Δ, and tpk1w1 tpk2Δ tpk3Δ mutants growing on glucose did not result in an initial decrease in ATP. As under these conditions strains are resistant to the translational inhibition upon carbon source removal, this might suggest that the initial decrease in ATP is involved in the translational inhibition. However, some of the glucose repression mutants that were not resistant to the translation inhibition exhibited no decrease in ATP after glucose removal. The most convincing example of this involves the grr1Δ strain, which exhibited a complete inhibition of translation on glucose removal (Figure (Figure5)5) but did not show a significant decrease in ATP when glucose was withdrawn (Figure (Figure6).6). This result supports the conclusion that the decrease in ATP resulting from glucose removal is not required to generate the inhibition of translation.

Since GTP hydrolysis is also required for both the initiation and the elongation steps of translation, the levels of GTP could affect the translational capacity of the cell after glucose removal. We do not favor this hypothesis for several reasons. First, our identification of yeast mutants that have no connection with the regulation of GTP levels and yet are resistant to the inhibitory effects of glucose withdrawal on translation does not support this hypothesis. In addition, the “runoff” of polysomes observed after glucose removal requires that translational elongation continues while initiation is inhibited (Mathews et al., 1996 blue right-pointing triangle). Translational elongation of a polypeptide requires at least two GTP molecules per amino acid added, whereas initiation requires only one or two GTP molecules per polypeptide chain (Merrick and Hershey, 1996 blue right-pointing triangle). The fact that translational elongation continues after glucose removal and allows for the runoff of polysomes is highly suggestive that GTP levels are not limiting. Finally, the level of GTP is intrinsically linked to the level of ATP, because GDP is converted to GTP by the enzyme nucleoside diphosphate kinase, which uses ATP as the phosphate donor (Parks and Argawal, 1973 blue right-pointing triangle). As with ATP levels, the levels of GTP have been shown to remain relatively constant as long as cell viability is maintained (Ditzelmüller et al., 1983 blue right-pointing triangle). As the ATP levels do not correlate with the inhibition of translation upon glucose removal, it seems likely that GTP levels will also fail to correlate.

DISCUSSION

In S. cerevisiae, the action of glucose as a signaling molecule affects a diverse number of biochemical pathways. Here we extend this diversity by showing that glucose depletion leads to an almost complete inhibition of translation. This inhibition is specific to either glucose or fructose as the carbon source, and it occurs very rapidly after carbon source removal. Readdition of glucose causes a rapid reversal of this inhibition. The inhibition does not come about via a gross decay of mRNA, and neither the inhibition nor its reversal by readdition of glucose requires transcription of new mRNAs. We found that translational inhibition by glucose removal does not require activation of the amino acid starvation pathway or inactivation of the TOR pathway, and it is unlikely to occur via a direct effect of ATP depletion. Furthermore, an investigation of a large number of mutants previously implicated in glucose-related signal transduction pathways highlighted possible roles for components of the main glucose repression, HXT induction, and cAPK pathways in the regulation of a cell's translational response to rapid glucose removal.

The glucose repression mutants reg1Δ and hxk2Δ, which are constitutively derepressed for the glucose-repressible genes, are resistant to the translational inhibition. This resistance requires Snf1p kinase activity. A mutant in the Ssn6p transcriptional repressor is also derepressed and translationally resistant. Therefore, it seems that when the glucose derepression pathway is constitutively active, the yeast are resistant to glucose removal at the translational level. This could explain why cells growing on galactose are resistant to carbon source removal, because these cells are also derepressed. Mutants with constitutively low cAPK activity are also resistant to the removal of glucose at the translational level. It has been shown previously that these mutants are not derepressed for the glucose-repressible genes (Hubbard et al., 1992 blue right-pointing triangle). The translational phenotypes of the glucose repression and cAPK mutants are consistent with previous observations that the Snf1p kinase and cAPK act antagonistically to affect a similar set of cellular functions (Thompson-Jaeger et al., 1991 blue right-pointing triangle; Hubbard et al., 1992 blue right-pointing triangle).

Translation is rapidly inhibited when glucose is replaced with an alternative carbon source such as galactose, and this inhibition is maintained for >2 h (our unpublished results). It seems likely that the recovery of translational activity under these circumstances is different from the rapid recovery seen when glucose is added back soon after glucose removal. We favor a model (Figure (Figure7)7) in which glucose removal leads to activation of the derepression pathway and to cAPK inactivation. This would allow for the expression or modification of a factor(s) that could slowly overcome the inhibitory effect on translation caused by glucose removal. In this model, mutations in pathways that result in constitutive expression or modification of the factor(s) in cells growing in glucose would confer resistance to the translational inhibition caused by glucose removal. Such cells would be preadapted to the inhibitory effects of glucose removal upon translation.

Figure 7
Multiple pathways may be involved in glucose-dependent translational control. Glucose removal is shown to inhibit translation. Translation resumes after switching carbon sources via a process termed adaptation. Adaptation might either directly reverse ...

The candidate gene strategy described here was adopted with the hope that we would identify the components of the pathway responsible for both sensing and transducing the signal for translational inhibition generated by glucose depletion. Intriguingly, the snf3Δ rgt2Δ mutant is partially resistant to the translational inhibition caused by glucose removal. This resistance is not affected by the reversal of the derepression phenotype associated with this mutant. Rgt2p and Snf3p are integral membrane proteins that are thought to sense the level of glucose. Clearly, this may indicate that the absence of glucose is somehow sensed and a signal is transmitted to the translational apparatus via these integral membrane proteins. However, this interpretation is complicated by results from dominant RGT2 or SNF3 mutants. These mutants constitutively signal the presence of glucose, as judged by the expression level of the HXT genes (Özcan et al., 1996a blue right-pointing triangle), and yet translation is still regulated by glucose removal. An alternative possibility is that the snf3Δ rgt2Δ mutant is adapted to glucose removal by an as yet uncharacterized mechanism.

This example highlights the importance of distinguishing whether a particular resistant mutant alters the sensing/transduction pathway or induces adaptation. The classification of resistant mutants will require a greater understanding of how translation is inhibited upon glucose removal and how the putative adaptation process occurs. Then, by understanding the nature of the mutations in each class, we imagine that it will be possible to generate a more complete view of how glucose removal leads to the inhibition of translation.

Although the precise physiological role of the translational inhibition described here is unknown, there are many possibilities. The regulation of translation could preserve energy until alternative carbon sources are available. Because protein synthesis is one of the major energy-consuming processes in the cell, its shutdown might allow for the maintenance of ATP levels in the cell. However, this explanation is difficult to reconcile with the result that the ATP levels of a series of resistant mutants stay high even though translation continues in these cells (Figure (Figure6).6). Another possibility is that the translational shutdown could be involved in the efficient switch in gene expression that occurs when yeast is starved of glucose. This might be an indirect effect in which the absence of protein synthesis allows the existing mRNA and protein pools to turn over, thereby facilitating the efficient reprogramming of gene expression. In addition, it is also possible that the translational inhibition makes a direct contribution to the switch in gene expression. In this scenario, only those mRNAs that facilitate the switch to alternative metabolic or growth pathways would be translated. A precedent exists for specific translational activation under conditions of general translational repression in the amino acid starvation pathway. In this system, translation of a specific mRNA (GCN4) is actually activated via small upstream ORFs even though general mRNA translation is inhibited (Hinnebusch, 1996 blue right-pointing triangle).

Yeast respond to glucose starvation by redirecting gene expression to alter metabolism. This reprogramming of the gene expression of the cell may involve both transcriptional and translational controls. The precise role of translational controls in allowing the efficient reprogramming of gene expression has been assessed only in a relatively small number of cases. It will be interesting in future work to determine how the regulation described here relates to other translational controls and whether specific mRNAs are immune to this regulation. Together with future work aimed at understanding the basic mechanism underlying the glucose effect on translation, these studies should help to elucidate how a cell can rapidly control its gene expression in response to rapid environmental changes.

ACKNOWLEDGMENTS

We thank Kim Arndt, John Cannon, Marian Carlson, Tom Dever, Anita Hopper, Mark Johnston, Kelly Tatchell, Stephen Garrett, and Jose Antonio Prieto for their generous and expeditious donations of strains and plasmids. We also thank Lucy Otero, Hilary Ashe, and Panda Hershey for their help in performing some of the time-course experiments. We thank Sandy Wells, Lucy Otero, and Ronald Boeck for their help and advice, along with the whole Sachs laboratory staff past and present for their helpful encouragement and discussion. This work was supported in part by National Institutes of Health grant GM50308 to A.B.S. and by a European Molecular Biology Organization long-term fellowship to M.P.A.

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