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Genes to Cells (2006) 11, 1367-1379. doi:10.1111/j.1365-2443.2006.01025.x
© 2006 Blackwell Publishing or its licensors

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Fission yeast Tor2 links nitrogen signals to cell proliferation and acts downstream of the Rheb GTPase

Masahiro Uritani1,3,*, Hidetoshi Hidaka1, Yukari Hotta1, Masaru Ueno1,a, Takashi Ushimaru2 and Takashi Toda3

1 Departments of Chemistry and
2 Bioscience, Faculty of Science, Shizuoka University, 836 Oya Suruga-ku Shizuoka, 422-8529 Japan
3 Laboratory of Cell Regulation, Cancer Research UK London Research Institute, Lincoln's Inn Fields Laboratories, 44 Lincoln's Inn Fields, London WC2A 3PX, UK


    Abstract
 Top
 Abstract
 Introduction
 Results
 Discussion
 Experimental procedures
 References
 
The target of rapamycin (Tor) plays a pivotal role in cell growth and metabolism. Yeast contains two related proteins, Tor1 and Tor2. In fission yeast, Tor1 is dispensable for normal growth but is involved in amino acid uptake and cell survival under various stress conditions. In contrast, Tor2 is essential for cell proliferation; however, its physiological function remains unknown. Here we characterize the roles of fission yeast Tor2 by creating temperature sensitive (tor2ts) mutants. Remarkably, we have found that tor2ts mimics nitrogen starvation responses, because the mutant displays a number of phenotypes that are normally induced only on nitrogen deprivation. These include G1 cell-cycle arrest with a small cell size, induction of autophagy and commitment to sexual differentiation. By contrast, tor1{Delta}tor2ts double mutant cells show distinct phenotypes, as the cells cease division with normal cell size in the absence of G1 arrest. Tor2 physically interacts with the conserved Rhb1/GTPase. Intriguingly, over-expression of rhb1+ or deletion of Rhb1-GAP-encoding tsc2+ is capable of rescuing stress-sensitive phenotypes of the tor1 mutant, implying that Tor1 and Tor2 also share functions in cell survival under adverse environment. We propose that Tor1 and Tor2 are involved in both corroborative and independent roles in nutrient sensing and stress response pathways.


    Introduction
 Top
 Abstract
 Introduction
 Results
 Discussion
 Experimental procedures
 References
 
The target of rapamycin [TOR, also known as FRAP (FKBP12-rapamycine-associated protein), RAFT (rapamycin and FKBP12 target) and RAPT (rapamycin target)] is a highly conserved 280 kDa Ser/Thr kinase that plays a central role in the control of cell growth and metabolism (Martin & Hall 2005; Wullschleger et al. 2006). TOR proteins comprise several functional domains (see Fig. 1) (Schmelzle & Hall 2000). The large N-terminal region (~2000 amino acids) consists of stretches of HEAT repeats, which mediate protein–protein interactions (Kunz et al. 2000; Perry & Kleckner 2003). The following C-terminal ~500 amino acid residues contain the FAT domain, also involved in protein–protein interactions (Alarcon et al. 1999; Bosotti et al. 2000), the FKBP12-rapamycin binding (FRB) domain (Zheng et al. 1995) and the kinase catalytic domain, which is highly homologous to phosphoinositide (PI)-3 and PI-4 kinases. Finally, the very C-terminal 33 residues of TOR form the FATC domain, which is reported to be indispensable for TOR function both in vivo and in vitro (Peterson et al. 2000; Takahashi et al. 2000). In the cell, TOR forms two distinct complexes, TOR complex 1 (TORC1) and TOR complex 2 (TORC2). These complexes contain several non-TOR components, in which some of them are shared in common (e.g. Lst8), while others are specific for either TORC1 (e.g. raptor) or TORC2 (e.g. rictor and Avo3) (Hara et al. 2002; Kim et al. 2002; Loewith et al. 2002; Jacinto et al. 2004; Sarbassov et al. 2004). Unlike most of the other higher eukaryotes that contain a single-copy ortholog, Saccharomyces cerevisiae has two TOR proteins, Tor1 and Tor2, in which Tor1 is nonessential while Tor2 is essential for growth (Heitman et al. 1991; Helliwell et al. 1994). Both Tor1 and Tor2 are included in TORC1, while only Tor2 is incorporated into TORC2. It is shown that TORC1 mediates the rapamycin-sensitive signaling branch, while TORC2 is rapamycin-insensitive. In budding yeast, binding of the Rapamycin-FKBP12 complex to TORC1, a mode of action that is conserved from yeast to human, inhibits the TOR kinase activity and elicits a number of responses that appear to mimic nitrogen starvation response (Loewith et al. 2002; Jacinto & Hall 2003). On the other hand, rapamycin-insensitive TORC2 is required for the organization of the actin cytoskeleton (Jacinto et al. 2004).


Figure 1
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Figure 1  Isolation of tor2 temperature-sensitive mutants and their mutation sites. (A) Schematic presentation of fission yeast Tor2 (upper panel) and the amino acid sequences of Tor2 proteins around mutation sites (lower panel) are presented. mTOR, human TOR; ScTor1. Tor1 from S. cerevisiae; ScTor2, Tor2 from S. cerevisiae; SpTor1, Tor1 from S. pombe; SpTor2, Tor2 from S. pombe. Plus (+) and minus (–) represent the space and the amino acid residue identical to that of SpTor2, respectively. The blue, black and red letters represent the amino acid residues in the kinase domain, a gap region and the FATC domain, respectively. (B) Growth of the tor2ts mutants (tor2ts-13 [HU147] and tor2ts-19 [HU150]) at 26 °C and 36 °C on YE5S plates. wt, tor2+ strain (513).

 
In mammalian cells, a major target of TORC1 is translation (Hara et al. 2002; Kim et al. 2002). Mammalian TOR (mTOR) stimulates translation initiation through the phosphorylation of 4E-BP1, an inhibitor of the mRNA-cap binding protein eIF-4E. Phosphorylation of 4E-BP1 promotes its dissociation from eIF-4E, enabling recruitment of the eIF-4E into the translation initiation complex. mTOR also directly phosphorylates and activates the p70 S6 kinase (S6K), which regulates cell size.

Recent evidence indicates that the tuberous sclerosis complex (a TSC1/TSC2 heterodimer) acts as a negative regulator of mTOR (Gao et al. 2002; Inoki et al. 2002; Tee et al. 2002). The inhibition of TOR signaling by the TSC complex is attributed to the ability of the TSC complex to act as a specific GTPase activating protein (GAP) for the small GTPase Rheb (Inoki et al. 2003; Saucedo et al. 2003; Stocker et al. 2003; Tee et al. 2003; Zhang et al. 2003). In line with this notion, transient expression of Rheb leads to the TOR-mediated phosphorylation of 4E-BP1, indicating that Rheb activates TOR. Indeed, human Rheb is able to interact with mTOR (Long et al. 2005).

Despite its excellence as a model system, budding yeast does not contain TSC1/2-GAP. Also the mutant of the RHEB counterpart, RHB1, is neither essential nor the rhb1 mutant mimics TOR inactivation (Urano et al. 2000). This may suggest that the molecular pathways that control TOR signaling might not be identical between budding yeast and mammals. It is therefore important to characterize another simple system by which to investigate evolutional conservations of TOR systems. Fission yeast Schizosaccharomyces pombe might fill this gap, as this organism possesses, in addition to tor1+ and tor2+, the RHEB gene, rhb1+, which is essential for cell viability, and TSC1 and TSC2 orthologs (Mach et al. 2000; Kawai et al. 2001; Weisman & Choder 2001; Matsumoto et al. 2002; van Slegtenhorst et al. 2004). Moreover, components of TORC including Mip1 (Kog1/raptor), Sin1 (Avo1), Ste20 (Avo3/rictor), and Wat1/Pop3 (Lst8) have been identified and characterized to some extent (Kemp et al. 1997; Hilti et al. 1999; Wilkinson et al. 1999; Shinozaki-Yabana et al. 2000; Ochotorena et al. 2001).

Studies in our laboratory as well as others have shown that, as in budding yeast, tor1+ is not essential for growth while tor2+ is essential. The null mutant for tor1+(tor1{Delta}) has defects in cell survival under various stress conditions such as high osmolarity, low and high pH, high temperature, and certain drugs including hydroxyurea (Kawai et al. 2001; Weisman & Choder 2001). The deletion mutant is also defective in the nitrogen-starvation response, in which on nitrogen depletion, unlike wild-type cells, tor1{Delta} cells fail to arrest the cell cycle at G1, which is a prerequisite for sexual development. As a result, tor1{Delta} is sterile. Tor1 has been shown to phosphorylate and activate an AGC kinase/S6K Gad8 (Matsuo et al. 2003), which regulates the growth under stress conditions and the nitrogen-starvation response through unknown mechanisms. In contrast to the knowledge of Tor1, the cellular functions of Tor2 remain to be studied (Kawai et al. 2001; Weisman & Choder 2001).

In order to dissect the physiological roles of Tor2, we created temperature-sensitive tor2 mutants and characterized these phenotypes. We present evidence that tor2 mutants mimic the nitrogen-starvation response at the restrictive temperature, suggesting that Tor2 is a key molecule that senses a nitrogen source, thereby allowing cell proliferation under nutrient-rich conditions. Furthermore, both biochemical and genetic analyses indicate that Rhb1 and Tor2 act in the same pathway that corroborates with Tor1.


    Results
 Top
 Abstract
 Introduction
 Results
 Discussion
 Experimental procedures
 References
 
Isolation of tor2ts mutants and determination of mutation sites

To create tor2 temperature sensitive mutants, PCR-based mutagenesis was carried out that targeted the C-terminal region containing the kinase and FATC domains (Fig. 1A, upper). Two temperature sensitive mutants were obtained, and nucleotide sequencing analysis revealed that they constitute different tor2 alleles, referred to as tor2ts-13 and tor2ts-19, respectively. Both tor2ts-13 and tor2ts-19 mutants grew normally on rich YE5S plates when cultured at 26 °C, but they did not form colonies at 36 °C (Fig. 1B).

Three amino acid changes were found in tor2ts-13: Cys2163 to Arg, Ile2280 to Val and Gln2305 to Leu. Arg2163 was situated in the highly conserved kinase domain, while Val2280 and Leu2305 were present in a gap region between the kinase domain and the FATC domain (Fig. 1A, lower). In tor2ts-19, there were two mutation sites: Ile2241 to Thr, and Ser2293 to Pro. Thr2241 was present in a gap region and Pro2293 located in the FATC domain. This suggests that the gap region and the FATC domain as well as the kinase domain are critical for Tor2 activity and cell survival.

tor2ts mutants display G1-cell cycle arrest with a small cell size at the restrictive temperature

tor2ts-13 and tor2ts-19 mutants did not grow on YE5S plates when cultured at 36 °C (Fig. 1B). The mutant cells were then examined for growth in YE5S liquid medium. Cells were cultured in YE5S at 26 °C to a mid-log phase (3 x 106 cells/mL), transferred to a fresh YE5S and then shifted to 36 °C. While wild-type cells continued to divide, tor2ts-13 cells ceased increasing in cell number after approximately two rounds of cell division (Fig. 2A). Prior to the temperature shift, both cell size and shape were normal in tor2ts-13. When cultured at 36 °C, in contrast, the mutant cells became shorter in size and almost round (Fig. 2B). At 4 h and 8 h after the shift to 36 °C, the average cell length was reduced to 6.4 µM and 6.2 µM, respectively, which were ~50% decreases compared to wild-type cells (13.0 µM and 12.9 µM). Similar results were obtained for tor2ts-19. It is of note that, in contrast to the reduced length, the cell width remained constant in these mutant cells.


Figure 2
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Figure 2  tor2ts mutants are arrested at G1 upon temperature shift. (A) Growth of the tor2ts mutants in YE5S liquid medium after a shift to 36 °C. Pre-cultures grown at 26 °C to the mid-log phase were incubated at 36 °C. The cell number was measured by microscopy. Open circle, tor2+ strain (513); open square, tor2ts-13 (HU147); cross, tor2ts-19 [HU150]. (B) The shape and length of the tor2ts mutant cells after the shift to 36 °C. Photos were taken every 4 h after the shift. For the cell length, 100 cells were measured and the average length is shown with standard deviations. The bar indicates 10 µM. (C) Cell cycle arrest of the tor2ts mutant cells at G1 after the shift to 36 °C. The cells were subjected to flow cytometry analysis after staining with propidium iodide.

 
In S. pombe, the G1 phase is very short during exponentially growing cycles, so that most of the cells display the 2C content of DNA and few cells show the 1C peak (Moreno et al. 1991). When starved for nitrogen, on the other hand, the cells divide twice and then arrest at G1 with a small cell size (Egel & Egel-Mitani 1974; Kumada et al. 1995). The small cell-size phenotypes of tor2 mutants described above led us to examine whether tor2ts-13 and tor2ts-19 mutants mimic the nitrogen-starvation response. In order to address this point, the mutant cells were analyzed with flow cytometry. Before the temperature shift, almost no 1C peak was present in either mutant (and also wild-type cells, Fig. 2C). In sharp contrast, 1C peaks appeared at 4 h and became larger as incubation continued. These results indicate that both tor2ts-13 and tor2ts-19 mutants tend to arrest at G1 with a small cell size and suggest that these mutants responded as if they were starved for nitrogen.

tor2ts mutants induce autophagy and are competent for sexual differentiation under nutrient-rich conditions

Under nitrogen deprivation, two major physiological changes are known to occur, autophagy and sexual differentiation. We next sought to examine whether tor2ts mutants display these responses at the restrictive temperature. First, the mutant cells were examined to see if they conducted autophagy when cultured at 36 °C. Because autophagy accompanies large-scale protein degradation (Nakashima et al. 2006), the production of free amino acids was examined. For this purpose, cells had been labeled with L-[14C] Phe at 26 °C and then transferred to a fresh medium without the radioactive amino acid, followed by a temperature shift to 36 °C. At the indicated times, the amount of protein degradation was measured by counting the acid-soluble radioactivity. Proteins are insoluble to acid but amino acids and small peptides derived from protein degradation are soluble to acid. Thus, radioactivity in acid solution reflects the amount of protein degradation. When cultured at 26 °C, tor2ts-13 as well as the wild-type showed only a basal level of protein degradation (Fig. 3A), which confirmed that autophagy was repressed under nutrient-rich conditions at the permissive temperature in both tor2ts-13 and wild-type. Upon a temperature shift to 36 °C, however, tor2ts-13 cells showed a significant amount of protein degradation, which increased as the incubation time was prolonged. In contrast, wild-type cells showed only a marginal increase in radioactivity. These results imply that the protein degradation observed in tor2ts-13 was not due to the general response to heat shock; instead the inactivation of Tor2 did impose autophagy as if tor2ts-13 cells responded to nitrogen starvation. In tor2ts-19, such protein degradation was obscure (data not shown), the reason for which is unclear. It is possible that the residual Tor2 activity is retained in tor2ts-19 mutant cells, which is sufficient to inhibit autophagy.


Figure 3
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Figure 3  tor2ts mutants mimic nitrogen-starvation response upon temperature shift. (A) Bulk protein degradation of the tor2ts mutant cells after the shift to 36 °C. Cells were labeled with L-[14C] Phe at 26 °C for 4 h in EMM liquid medium, transferred to the fresh medium without the radioactive amino acid, and cultured at 36 °C. Aliquots of the culture were taken and the amount of radioactivity was measured in the acid-soluble fraction. Open square, tor2ts-13 (HU147) at 36 °C; open circle, tor2ts-13 at 26 °C; open diamond, tor2+ strain (513) at 36 °C; open triangle, 513 at 26 °C. (B) Sexual development of the tor2ts mutant cells upon the temperature shift. Homothallic cells (h90) were placed on to YE5S plates and incubated at 33 °C for 2 days before inspection. tor2ts-13, HU148; tor2ts-19, HU152; wt, TP114–2 A. The bar indicates 10 µM. (C) Mating efficiency of the tor2ts mutant cells in (B). Mating efficiency was calculated by dividing the numbers of zygotes, asci and free spores by the numbers of zygotes, asci, free spores and unmated cells. A zygote and an ascus are counted as two cells but a free spore as a half cell. (D) Induction or isp6+, a nitrogen specific gene, in the tor2 mutants upon the temperature shift. RNA was extracted from the cells cultured in YE5S at 36 °C. After being separated with agarose gel electrophoresis, RNA was subjected to Northern hybridization using isp6+ or nda3+ as a probe. tor2ts-13, YH1273; tor2ts-19, YH1263; wt, L972.

 
Nitrogen starvation also triggers sexual differentiation (Egel & Egel-Mitani 1974), which includes conjugation and spore formation. S. pombe has two mating types h+ and h. When starved for nitrogen, haploid cells begin to conjugate with the opposite mating type of the cell. In order to investigate this point, homothallic strains were constructed in the tor2ts-13 or tor2ts-19 background. Cells of the homothallic wild-type, tor2ts-13 or tor2ts-19 strains were placed on YE5S plates and cultured for 2 days at 33 °C (the highest temperature that allows conjugation in the wild-type cells under nitrogen starvation, Nurse & Bissett 1981). Strikingly, more than 70% of the tor2ts-13 cells committed sexual development to form zygotes and spores (Fig. 3B,C). tor2ts-19 also initiated sexual differentiation albeit with less efficiency (16%) and, in contrast, wild-type cells displayed sexual development at a minimal level (7%). Taking these results together, we conclude that tor2ts-13 and tor2ts-19 mimic the nitrogen-starvation response when shifted to the restriction temperature. The above results demonstrate that tor2ts mutants mimic nitrogen starvation response at the restrictive temperatures.

tor2ts mutants induce expression of the nitrogen starvation-specific gene

We then examined whether the mutants would express the genes that are specific for nitrogen starvation. isp6+ encodes a vacuolar protease that is essential for autophagy and its expression is induced specifically with nitrogen starvation (Nakashima et al. 2002, 2006). As shown in Fig. 3D, isp6+ was expressed at a basal level in tor2ts-13 cells before temperature shift; however, it became highly expressed as incubated at 36 °C. In contrast, such an expression pattern was not observed in wild-type cells. A house keeping gene, nda3 (encoding ß-tubulin), did not show such induction. The same experiment was carried out for tor2ts-19, which showed a similar pattern. The results indicate that tor2ts mutants expressed nitrogen starvation specific genes on shift to the restrictive temperature and support the notion that tor2ts mutants mimic nitrogen starvation responses.

tor1{Delta} tor2ts double mutants display additive phenotypes of each single mutant

As described earlier, in S. pombe, TOR is encoded by two genes, tor1+ and tor2+, in which tor2+ is essential for proliferation (Weisman & Choder 2001). In contrast, tor1+ is a nonessential gene; tor1-deletion results in slow growth and hypersensitivity to various stresses, suggesting that the activity of Tor1 is important for cell survival especially when the cells are exposed to an adverse environment (Kawai et al. 2001; Wesiman & Choder 2001). Furthermore, tor1{Delta} was unable to respond properly to nitrogen starvation. In order to examine the function of Tor1 and Tor2 in cell proliferation and stress response, we created tor1{Delta}tor2ts-13 and tor1{Delta}tor2ts-19 double mutants and observed their phenotypes. First we examined the growth of the double mutants at varying temperatures. The mutant cells were spotted on to YE5S plates using a 10-times serial dilution and were cultured for 3 days. Both tor2ts-13 and tor2ts-19 mutants grew normally at 26 °C, 30 °C and even at 32 °C (fifth and sixth rows in Fig. 4A). tor1{Delta} could also form colonies well at these temperatures. The tor1{Delta}tor2ts-13 double mutant, on the other hand, grew only marginally at 30 °C and did not do so at 32 °C (the third row). Similar results were observed for tor1{Delta}tor2ts-19. These results demonstrate that Tor1 as well as Tor2 is important for cell proliferation and, furthermore, although Tor1 is dispensable, Tor1 becomes necessary for cell growth when Tor2 function is compromised.


Figure 4
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Figure 4  Both tor1+ and tor2+ are needed for cell proliferation. (A) Growth of the tor1{Delta}, tor2ts-13, tor2ts-19, tor1{Delta}tor2ts-13, and tor1{Delta}tor2ts-19 mutants on YE5S plates at varying temperatures. The cells were spotted using a 10-times serial dilution on to plates and were incubated for 3 days at the temperatures as indicated. wt, 513; tor1{Delta}, MK11; tor2ts-13, HU147; tor2ts-19, HU150; tor1{Delta}tor2ts-13, HU142; tor1{Delta}tor2ts-19, HU144. (B) Growth of the tor2ts-13, tor2ts-19, tor1{Delta}tor2ts-13 and tor1{Delta}tor2ts-19 mutants in YE5S liquid medium after the shift to 36 °C. Precultures grown at 26 °C to the mid-log phase were incubated at 36 °C. The cell number was measured by microscopy. {circ} tor2ts-19; {triangleup} tor1{Delta}tor2ts-19; {square} tor2ts-13; {lozenge} tor1{Delta}tor2ts-13. (C) The shapes and lengths of the tor1{Delta}tor2ts-13 and tor1{Delta}tor2ts-19tor2ts cells after shift to 36 °C. Photos were taken 4 h and 8 h after the shift. For the cell length, 100 cells were counted and the average length is shown with the standard deviations. The bar indicates 10 µM. (D) Failure of the G1 cell-cycle arrest of the tor1{Delta}tor2ts-13 and tor1{Delta}tor2ts-19 cells after the shift to 36 °C. The cells were subjected to flow cytometry analysis after staining with propidium iodide.

 
In order to address this point further, we observed cell division in YE5S liquid medium. Cells were cultured at 26 °C to a mid-log phase, transferred to a fresh medium, and then incubated at 36 °C (Fig. 4B). Both tor1{Delta}tor2ts-13 and tor1{Delta}tor2ts-19 double mutants stopped proliferation earlier than the tor2ts-13 and tor2ts-19 single mutants. Prior to the temperature shift, tor1{Delta}tor2ts-13 and tor1{Delta}tor2ts-19 showed almost normal cell size, 13.2 µM and 12.9 µM, respectively (Fig. 4C). At 4 h and 8 h after being cultured at 36 °C, the cell length of tor1{Delta}tor2ts-19 was 14.5 µM and 14.2 µM, respectively, which indicates that, in sharp contrast to tor2ts-19, the cell size was not decreased (Fig. 2C). Similar results were also obtained for tor1{Delta}tor2ts-13 (Fig. 4C). In this case, the cell size was somewhat decreased; however, it was still longer than that of tor2ts-13, 9.9 µM and 6.4 µm for tor1{Delta}tor2ts-13 and tor2ts-13 at 4 h, respectively. It should be noted that the cell length of tor1{Delta} was not decreased when starved for nitrogen (Kawai et al. 2001; Weisman & Choder 2001). Given that tor2ts mutants mimic the physiologies of nitrogen starvation, as described earlier, failure to decrease the cell length in the double mutant seems to correspond to the appearance of tor1{Delta} phenotypes in the tor2ts mutant background. It therefore appears that the tor1{Delta}tor2ts double mutants display additive phenotypes of each single mutant.

It is shown that, when starved for nitrogen, tor1{Delta} is defective in G1 arrest (Kawai et al. 2001; Weisman & Choder 2001). We then examined this point by flow cytometry. On the temperature shift, unlike a tor2ts-19 single mutant (see Fig. 2C), tor1{Delta}tor2ts-19 showed only the 2C peak, and no 1C peak appeared at 36 °C (Fig. 4D). Similar results were obtained for tor1{Delta}tor2ts-13, although a small 1C peak appeared after incubation for 4 h. Taken together, the results presented here led us to the following idea. When Tor2 is inactivated, the cells cease proliferation after two rounds of cell cycle and become arrested at G1 with a small cell size. This process requires Tor1 activity. If the function of Tor1 is simultaneously lost, the cells fail to divide at a reduced cell size, and as a result, they became neither arrested at G1 nor smaller (Fig. 4C,D).

Tor2 physically interacts with a small GTPase Rhb1

Several groups have reported that a novel small GTP-binding protein, Rheb, binds and activates mTOR (Long et al. 2005). S. pombe has a Rheb counterpart gene, rhb1+ (Mach et al. 2000). Intriguingly, rhb1 mutants, in which its expression is turned off by promoter shut-off systems, display phenotypes very similar to tor2ts described earlier. Bearing this in mind, we next examined whether Rhb1 would interact with Tor2. In order to detect these two proteins, Tor2 was tagged with HA and Rhb1 with GFP at each N-terminus, and their own promoters were replaced with the thiamine-repressible nmt1 promoter (Maundrell 1993; Bähler et al. 1998). The cells that over-express both HA-Tor2 and GFP-Rhb1 were cultured in liquid medium without thiamine, and protein extracts were prepared and subjected to immunoprecipitation. As shown in Fig. 5A, GFP-Rheb was co-precipitated with HA-Tor2. When the cells were cultured in the presence of thiamine (repressed condition), co-immunoprecipitation of Rhb1 and Tor2 was not observed (data not shown), probably because the amount of each protein was not sufficient for detection of the interaction. This result demonstrates that Rhb1 and Tor2 interact physically with each other, at least under overproduction conditions.


Figure 5
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Figure 5  Physical and genetic interaction between Tor2 and Rheb GTPase. (A) Co-immunoprecipitation of Rhb1 with Tor2. The cells expressing HA-Tor2 (lane 1), GFP-Rhb1 (lane 2), and HA-Tor2 and GFP-Rhb1 (lane 3) were cultured in EMM3. The cell extract was subjected to immunoprecipitation with anti-HA antibody, and the precipitate was analyzed by Western blotting with both anti-HA and anti-GFP antibodies. For tor2+ and rhb1+, their own promoters were replaced with the nmt1+ promoter. WCE, whole cell extract (the extract prior to immunoprecipitation). (B) Suppression of the growth defects of tor1{Delta} with over-expression of rhb1+ or tsc2 deletion. The cells of tor1{Delta} (MK11), tor1{Delta}rhb1o/e (HH101) and tor1{Delta}tsc1{Delta} (HH102) were spotted using a 10-times serial dilution on to EMM3 plates with and without 1 M KCl or 4 mM hydroxyurea and incubated for 3 days at 30 °C. For rhb1+, its own promoter was replaced with the nmt1+ promoter.

 
Genetic interaction between tor2+ and rhb1+

Having seen the physical interaction, we next sought the genetic interaction between rhb1+ and tor2+. As previously described, tor1{Delta} was unable to survive under stress conditions such as high osmotic pressure and certain drugs (Fig. 5B). We reasoned these defects of tor1{Delta} in the following manner. In tor1{Delta}, in which only the Tor2 pathway is functional, the basal level of Tor2 activity is sufficient to support cell division under normal conditions, but it is not sufficient under stress conditions. If this is the case, when the Tor2 pathway is activated, tor1{Delta} cells may become viable under stress conditions.

We have shown that, as in mammalian cells, Tor2 binds Rhb1 (Fig. 5A), and therefore we expected that over-expression of rhb1+ would stimulate Tor2 activity, thereby rescuing the growth defects of tor1{Delta} in stress response. To this end, the promoter of rhb1+ was replaced with the nmt1+ promoter. As shown in Fig. 5B, tor1{Delta}rhb1+ o/e (rhb1+-over-expressing tor1{Delta}) cells were capable of growing on the plates in the presence of either 1 M KCl or 4 mM hydroxyurea (the third row, Fig. 5B). In animals, the Tsc1/Tsc2 complex negatively regulates Rheb, and inactivation of either Tsc1 or Tsc2 results in the hyperactivation of Rheb (Inoki et al. 2003; Saucedo et al. 2003; Stocker et al. 2003; Tee et al. 2003; Zhang et al. 2003). We constructed tor1{Delta}tsc2{Delta} cells and examined their growth under stress conditions. As expected, these double mutants behaved the same as tor1{Delta}rhb1+o/e cells, in which growth was restored under stress conditions (the fourth row). These results substantiated the notion that, in fission yeast, Tor2 acts downstream of Rhb1 and that Tor1 and Tor2 share functions under adverse growth conditions.

Actin organization in tor2ts mutants

In S. cerevisiae, TORC1 operates the growth of cells, whose inhibition leads cells to show nitrogen starvation-like response (Loewith et al. 2002; Jacinto & Hall 2003), while TORC2 is required for the organization of the actin cytoskeleton (Jacinto et al. 2004). Our results strongly suggest that Tor2 in S. pombe functions as TORC1; however, it is also possible that Tor2 is involved in actin organization because Tor2 is essential as in S. cerevisiae. In S. cerevisiae, actin patches localize at buds; however, they became dispersed after temperature shift in tor2ts mutants (Helliwell et al. 1998; Jacinto et al. 2004). In S. pombe, actin localizes at the growing tips or the septa of cells and it also makes fibers along the long axis (Fig. 6A). When cultured at 26 °C, both tor2ts-13 and tor2ts-19 cells showed the actin organization patterns similar to wild-type cells (Fig. 6B,C). At 2 h after shift to 36 °C, actin still localized at the tips of the cells in either tor2ts-13 or tor2ts-19 although it seemed slightly displaced from cell tips. The results suggest that Tor2 is not critically important for action organization.


Figure 6
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Figure 6  tor2ts mutants did not show defects in overall actin organization. Cells cultured in YE5S at 26 °C were shifted to 36 °C and further cultured for 2 h. The cells were fixed and F-actin was stained with rhodamine-phalloidin (red) and nucleus with DAPI (blue). Cells were observed under a fluorescence microscope. (A) wt, L972. (B) tor2ts-13, YH1273. (C) tor2ts-19, YH1263. The bar indicates 10 µM.

 

    Discussion
 Top
 Abstract
 Introduction
 Results
 Discussion
 Experimental procedures
 References
 
Although fission yeast tor2+ is known to play an essential role in viability (Weisman & Choder 2001), its precise role in cell proliferation has not been investigated. In this study, we have obtained and characterized two tor2 temperature-sensitive mutants. Remarkably, when cultured at the restrictive temperature, the tor2ts mutants mimic nitrogen starvation responses. These include G1 cell-cycle arrest with a small cell size (Fig. 2A–C), induction of autophagy and competence for sexual differentiation (Fig. 3A–C). Furthermore, the tor2ts mutants expressed a nitrogen starvation specific gene, isp6+, when shifted to the restrictive temperature (Fig. 3D). These results have led us to propose a working hypothesis that Tor2 senses the nitrogen source, thereby preventing physiological changes that are normally induced only on nitrogen deprivation. It also implies that the activity of Tor2 may become reduced on nitrogen consumption, which makes the cells cease proliferation, arrest at G1 and switch to the physiological status suitable for nutrient-starved conditions.

The C-terminal 33 residues of TOR form the FATC domain. Deletion of the C-terminal Trp as well as small deletions (three or more residues) of the C-terminus abolished mTOR activity both in vivo and in vitro (Peterson et al. 2000; Takahashi et al. 2000). A recent study has shown that the FATC domain forms a novel structural motif consisting of an {alpha}-helix and a C-terminal disulfide bonded loop (Dames et al. 2005). The flexibility of FATC changed upon reduction of the disulfide bond. Therefore, the FATC domain may function to regulate the kinase activity of TOR. In tor2ts-13, one mutation site out of three resides in the FATC domain, which supports the importance of this domain. Failure of the epitope-tagging of Tor2 at its C-terminus is consistent with this notion (M. Uritani, unpublished observation). In tor2ts-13, another mutation site was found at the gap region, and in tor2ts-19, all mutation sites were located at the gap region. The gap region consists of 70 amino acid residues, which are located between the kinase and FATC domains. The significance of the gap region remains to be clarified; however, our results suggest that the gap region is crucial for TOR activity.

In S. cerevisiae, rapamycin treatment but not the tor2 mutation leads to switching the cell from vegetative growth to a nitrogen-starvation response (Helliwell et al. 1998). In contrast, in fission yeast, although growth is not inhibited by rapamycin even at high concentrations (Weisman et al. 1997; Kawai et al. 2001), as shown in this study, inactivation of Tor2 alone is sufficient to commit the cell to the nitrogen-starvation response. Only Tor2 but not Tor1 may fulfilll the budding yeast equivalent "rapamycin-sensitive" function. It is also possible that Tor2 plays a major role in the "rapamycin-sensitive" events, while that of Tor1 is minor. In agreement with this idea, Tor2 did not seem to play an important role in actin organization (Fig. 6), while in the budding yeast, the "rapamycin-insensitive" function of Tor2 is to organize the actin cytoskeleton (Helliwell et al. 1998; Jacinto et al. 2004). If the above idea is true, tor2 mutants may be obtained that are sensitive to rapamycin in the tor1{Delta} background. The tor2ts mutants described in this study did not show rapamycin sensitivity. We have recently obtained rapamycin-sensitive tor2 mutants and their analysis is underway (M. Uritani, unpublished observations).

Previous reports have indicated that tor1+ is necessary for the proper response to nitrogen starvation (Kawai et al. 2001; Weisman & Choder 2001). Given the notion that Tor2 plays a crucial role in nitrogen signaling as shown in the current work, this function of Tor1 agrees with our data that tor1{Delta}tor2ts mutants failed to mimic a nitrogen-starvation response when cultured at the restrictive temperature (Fig. 4B–D). The precise function of Tor1 and Tor2 is still unclear and further study is necessary. At present, we have a working hypothesis that Tor1 is necessary for physiological alterations against nitrogen starvation, while Tor2 prevents them, and its inactivation triggers these responses even in the presence of nitrogen sources (Fig. 7).


Figure 7
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Figure 7  A model of Tor1 and Tor2 functions in fission yeast. Tor1 and Tor2 play both overlapping and separate roles in cell proliferation and survival under nitrogen-rich and adverse growth conditions. Rhb1-GTPase appears to act upstream of Tor2 (see the text for details).

 
S. pombe has all the counterparts of the components of TORC1 and TORC2. For example, it has Mip1 for raptor/Kog1, Wat1/Pop3 for Lst8, Sin1 for Avo1 and Ste20 for rictor/Avo3 (Kemp et al. 1997; Hilti et al. 1999; Wilkinson et al. 1999; Shinozaki-Yabana et al. 2000; Ochotorena et al. 2001). All pop3+, sin1+ and ste20+ genes are nonessential, in which these deletion mutants show phenotypes similar to those of tor1{Delta} (Hilti et al. 1999; Wilkinson et al. 1999; Kawai et al. 2001; Ochotorena et al. 2001; Weisman & Choder 2001). Avo1 and rictor/Avo3 are specific components for the TORC2 complex, and thus in fission yeast Tor1, but not Tor2 as in budding yeast, might interact with Sin1 and Ste20 to form TORC2. In contrast, mip1+ is an essential gene, and similar to tor2+, its role is related to nitrogen starvation and mating response pathways (Shinozaki-Yabana et al. 2000). Raptor/Kog1 is specific for TORC1. It is therefore possible that Tor2 and Mip1 form TORC1, again different from the budding yeast system, in which Tor1 and Tor2 form TORC1. Obviously, more biochemical study with regard to TOR-complexes is necessary for further understanding of the roles of Tor1 and Tor2 in fission yeast. We are currently undertaking investigation of the physical interaction between Tor2 and Mip1.

Both the physical and genetic interactions between Tor2 and Rhb1 presented in this work (Fig. 5A,B) strongly suggest that Rhb1 is an upstream element of the Tor2-mediated signaling pathway (Fig. 7). In line with this, recently Urano et al. (2005) also reported binding between a hyperactive Rheb protein and Tor2, and furthermore, an rhb1 shut-off mutant strain is known to display G1-mimicking phenotypes similar to tor2ts (Mach et al. 2000). We have been attempting to identify the downstream molecules of Tor2 by screening for multicopy suppressors of tor2ts mutants. Understanding of TOR-mediated growth factor/nutrient signaling pathways would be our final goal.


    Experimental procedures
 Top
 Abstract
 Introduction
 Results
 Discussion
 Experimental procedures
 References
 
Strains and culture

The strains used in this study are listed in Table 1. Cells were grown in Edinburgh minimal medium (EMM3) or yeast extract complete medium with uracil, histidine, adenine, lysine, and leucine (YE5S) as previously described (Moreno et al. 1991; Kawai et al. 2001).


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Table 1  Strains used in this study
 
Creation of tor2ts mutants

tor2ts mutants were obtained as follows. First, the kanR cassette was inserted just after the open reading frame of tor2+. Using the set of primers, cctcctctttgagtgttcgtaaatctgtgc and acaatataaagagatgcattctctactaca, a DNA fragment was amplified which was from 200 bp upstream from the conserved Ser1817 that is responsible for FKBP-rapamycin binding in S. cerevisiae and to 200 bp downstream of the kanR insertion. This 3.4 kb DNA fragment was mutagenized with error-prone PCR. 513 (hleu1–32 ura4-D18) was transformed with the DNA fragment. From ~500 G418-resistant colonies, the two colonies were selected that grew on YE5S plates at 26 °C but not at 36 °C. Marker insertion, replacement of the promoter, and tagging were carried out as previously described (Bähler et al. 1998).

Measurement of protein degradation

Protein degradation was measured as previously described (Nakashima et al. 2006). In brief, mid-log cells were labeled with [U-14C]L-phenylalanine (1.85 MBq/mmol) at a final concentration of 11.1 KBq/mL, harvested, washed twice with EMM3-N, and incubated in EMM3-N at 30 °C. At intervals, aliquots (0.1 mL) of the culture were withdrawn, mixed quickly with 11 µL of 100% trichloroacetic acid solution, and kept on ice overnight. To the suspension, 11 µL of a bovine serum albumin solution (10 mg/mL) was added and mixed well. The mixture was centrifuged at 12000 g for 15 min at 4 °C, the supernatant was spotted on to a paper disk (Whatman 3 mM 2.4-cm diameter), and the radioactivity on the disk was measured with a liquid scintillation counter after drying. Results were expressed as the percentage of radioactivity in the acid-soluble fraction compared to the radioactivity in the initial total fraction.

Northern blotting

Cells were cultured in YE5S at 26 °C, and the cells in the mid-log phase were shifted to 36 °C and cultured at the times as indicated in Fig. 3D. Total RNA (25 µg) from the cells was subjected to Northern hybridization with the entire coding region of isp6+ as a probe (Nakashima et al. 2002). As a control probe, the entire region of nda3+ was used. ECL direct labeling and detection system (GE Healthcare) was used for detection.

Others

General, cytological and molecular genetic techniques were followed according to standard protocols (Moreno et al. 1991). Transformation of S. pombe cells was performed by the lithium acetate method (Okazaki et al. 1990). Cell-cycle analyses were conducted as previously described (Kawai et al. 2001).


    Acknowledgements
 
We would like to thank Dr Ayumu Yamamoto for actin staining, Dr T. Matsumoto for strains, Dr Masayuki Yamamoto and Dr Takanori Oyoshi for helpful discussions. This research was partially supported by a Grant-in-Aid for Scientific Research (C) (16570114 to M.U.) from the Ministry of Education, Culture, Sports, Science and Technology of Japan (MEXT). This research was partially carried out at the Institute for Genetic Research and Biotechnology, Shizuoka University and the Center for Instrumental Analysis, Shizuoka University. T.T. is supported by Cancer Research UK.


    Footnotes
 
Communicated by: Nic Jones

aPresent address: Department of Molecular Biotechnology, Graduate School of Advanced Sciences of Matter, Hiroshima University, 1-3-1 Kagamiyama, Higashi-Hiroshima 739-8530, Japan Back

* Correspondence: E-mail: scmurit{at}ipc.shizuoka.ac.jp


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Received: 16 April 2006
Accepted: 31 August 2006




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