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Regulation of TORC1 by Rag GTPases in nutrient response

Abstract

TORC1 (target of rapamycin complex 1) has a crucial role in the regulation of cell growth and size. A wide range of signals, including amino acids, is known to activate TORC1. Here, we report the identification of Rag GTPases as activators of TORC1 in response to amino acid signals. Knockdown of Rag gene expression suppressed the stimulatory effect of amino acids on TORC1 in Drosophila melanogaster S2 cells. Expression of constitutively active (GTP-bound) Rag in mammalian cells activated TORC1 in the absence of amino acids, whereas expression of dominant-negative Rag blocked the stimulatory effects of amino acids on TORC1. Genetic studies in Drosophila also show that Rag GTPases regulate cell growth, autophagy and animal viability during starvation. Our studies establish a function of Rag GTPases in TORC1 activation in response to amino acid signals.

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Figure 1: dRagA and dRagC are activators of TORC1 in Drosophila S2 cells.
Figure 2: Mammalian Rag GTPases regulate TORC1 activity.
Figure 3: Rag GTPases are involved in the response to amino acids.
Figure 4: dRagA and dRagC promote cell and organ growth in Drosophila.
Figure 5: Relationship between Rag and components of the TOR pathway.
Figure 6: Rag GTPases act in parallel with Rheb to promote fat body cell growth.
Figure 7: Regulation of autophagy by Rag.
Figure 8: High dRagA activity sensitizes Drosophila to starvation.

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References

  1. Hay, N. & Sonenberg, N. Upstream and downstream of mTOR. Genes Dev. 18, 1926–1945 (2004).

    Article  CAS  PubMed  Google Scholar 

  2. Wullschleger, S., Loewith, R. & Hall, M. N. TOR signaling in growth and metabolism. Cell 124, 471–484 (2006).

    Article  CAS  PubMed  Google Scholar 

  3. Sabatini, D. M., Erdjument-Bromage, H., Lui, M., Tempst, P. & Snyder, S. H. RAFT1: a mammalian protein that binds to FKBP12 in a rapamycin-dependent fashion and is homologous to yeast TORs. Cell 78, 35–43 (1994).

    Article  CAS  PubMed  Google Scholar 

  4. Jacinto, E. et al. Mammalian TOR complex 2 controls the actin cytoskeleton and is rapamycin insensitive. Nature Cell Biol. 6, 1122–1128 (2004).

    Article  CAS  PubMed  Google Scholar 

  5. Loewith, R. et al. Two TOR complexes, only one of which is rapamycin sensitive, have distinct roles in cell growth control. Mol. Cell 10, 457–468 (2002).

    Article  CAS  PubMed  Google Scholar 

  6. Sarbassov, D. D. et al. Rictor, a novel binding partner of mTOR, defines a rapamycin-insensitive and raptor-independent pathway that regulates the cytoskeleton. Curr. Biol. 14, 1296–1302 (2004).

    Article  CAS  PubMed  Google Scholar 

  7. Fingar, D. C., Salama, S., Tsou, C., Harlow, E. & Blenis, J. Mammalian cell size is controlled by mTOR and its downstream targets S6K1 and 4EBP1/eIF4E. Genes Dev. 16, 1472–1487 (2002).

    Article  CAS  PubMed  PubMed Central  Google Scholar 

  8. Blommaart, E. F., Luiken, J. J., Blommaart, P. J., van Woerkom, G. M. & Meijer, A. J. Phosphorylation of ribosomal protein S6 is inhibitory for autophagy in isolated rat hepatocytes. J. Biol. Chem. 270, 2320–2326 (1995).

    Article  CAS  PubMed  Google Scholar 

  9. Noda, T. & Ohsumi, Y. Tor, a phosphatidylinositol kinase homologue, controls autophagy in yeast. J. Biol. Chem. 273, 3963–3966 (1998).

    Article  CAS  PubMed  Google Scholar 

  10. Shigemitsu, K. et al. Regulation of translational effectors by amino acid and mammalian target of rapamycin signaling pathways. Possible involvement of autophagy in cultured hepatoma cells. J. Biol. Chem. 274, 1058–1065 (1999).

    Article  CAS  PubMed  Google Scholar 

  11. Gingras, A. C., Kennedy, S. G., O'Leary, M. A., Sonenberg, N. & Hay, N. 4E-BP1, a repressor of mRNA translation, is phosphorylated and inactivated by the Akt(PKB) signaling pathway. Genes Dev. 12, 502–513 (1998).

    Article  CAS  PubMed  PubMed Central  Google Scholar 

  12. Thomas, G. The S6 kinase signaling pathway in the control of development and growth. Biol. Res. 35, 305–313 (2002).

    Article  CAS  PubMed  Google Scholar 

  13. Inoki, K., Li, Y., Zhu, T., Wu, J. & Guan, K. L. TSC2 is phosphorylated and inhibited by Akt and suppresses mTOR signalling. Nature Cell Biol. 4, 648–657 (2002).

    Article  CAS  PubMed  Google Scholar 

  14. Manning, B. D., Tee, A. R., Logsdon, M. N., Blenis, J. & Cantley, L. C. Identification of the tuberous sclerosis complex-2 tumor suppressor gene product tuberin as a target of the phosphoinositide 3-kinase/akt pathway. Mol. Cell 10, 151–162 (2002).

    Article  CAS  PubMed  Google Scholar 

  15. Potter, C. J., Pedraza, L. G. & Xu, T. Akt regulates growth by directly phosphorylating Tsc2. Nature Cell Biol. 4, 658–665 (2002).

    Article  CAS  PubMed  Google Scholar 

  16. Kwiatkowski, D. J. Rhebbing up mTOR: new insights on TSC1 and TSC2, and the pathogenesis of tuberous sclerosis. Cancer Biol. Ther. 2, 471–476 (2003).

    Article  CAS  PubMed  Google Scholar 

  17. Long, X., Ortiz-Vega, S., Lin, Y. & Avruch, J. Rheb binding to mammalian target of rapamycin (mTOR) is regulated by amino acid sufficiency. J. Biol. Chem. 280, 23433–23436 (2005).

    Article  CAS  PubMed  Google Scholar 

  18. Sancak, Y. et al. PRAS40 is an insulin-regulated inhibitor of the mTORC1 protein kinase. Mol. Cell 25, 903–915 (2007).

    Article  CAS  PubMed  Google Scholar 

  19. Hara, K. et al. Amino acid sufficiency and mTOR regulate p70 S6 kinase and eIF-4E BP1 through a common effector mechanism. J. Biol. Chem. 273, 14484–14494 (1998).

    Article  CAS  PubMed  Google Scholar 

  20. Byfield, M. P., Murray, J. T. & Backer, J. M. hVps34 is a nutrient-regulated lipid kinase required for activation of p70 S6 kinase. J. Biol. Chem. 280, 33076–33082 (2005).

    Article  CAS  PubMed  Google Scholar 

  21. Nobukuni, T. et al. Amino acids mediate mTOR/raptor signaling through activation of class 3 phosphatidylinositol 3OH-kinase. Proc. Natl Acad. Sci. USA 102, 14238–14243 (2005).

    Article  CAS  PubMed  PubMed Central  Google Scholar 

  22. Nakashima, N., Noguchi, E. & Nishimoto, T. Saccharomyces cerevisiae putative G protein, Gtr1p, which forms complexes with itself and a novel protein designated as Gtr2p, negatively regulates the Ran/Gsp1p G protein cycle through Gtr2p. Genetics 152, 853–867 (1999).

    CAS  PubMed  PubMed Central  Google Scholar 

  23. Bun-Ya, M., Harashima, S. & Oshima, Y. Putative GTP-binding protein, Gtr1, associated with the function of the Pho84 inorganic phosphate transporter in Saccharomyces cerevisiae. Mol. Cell Biol. 12, 2958–2966 (1992).

    Article  CAS  PubMed  PubMed Central  Google Scholar 

  24. Nakashima, N., Hayashi, N., Noguchi, E. & Nishimoto, T. Putative GTPase Gtr1p genetically interacts with the RanGTPase cycle in Saccharomyces cerevisiae. J. Cell Sci. 109 (Pt 9), 2311–2318 (1996).

  25. Dubouloz, F., Deloche, O., Wanke, V., Cameroni, E. & De Virgilio, C. The TOR and EGO protein complexes orchestrate microautophagy in yeast. Mol. Cell 19, 15–26 (2005).

    Article  CAS  PubMed  Google Scholar 

  26. Gao, M. & Kaiser, C. A. A conserved GTPase-containing complex is required for intracellular sorting of the general amino-acid permease in yeast. Nature Cell Biol. 8, 657–667 (2006).

    Article  CAS  PubMed  Google Scholar 

  27. Schurmann, A., Brauers, A., Massmann, S., Becker, W. & Joost, H. G. Cloning of a novel family of mammalian GTP-binding proteins (RagA, RagBs, RagB1) with remote similarity to the Ras-related GTPases. J. Biol. Chem. 270, 28982–28988 (1995).

    Article  CAS  PubMed  Google Scholar 

  28. Sekiguchi, T., Hirose, E., Nakashima, N., Ii, M. & Nishimoto, T. Novel G proteins, Rag C and Rag D, interact with GTP-binding proteins, Rag A and Rag B. J. Biol. Chem. 276, 7246–7257 (2001).

    Article  CAS  PubMed  Google Scholar 

  29. Hirose, E., Nakashima, N., Sekiguchi, T. & Nishimoto, T. RagA is a functional homologue of S. cerevisiae Gtr1p involved in the Ran/Gsp1–GTPase pathway. J. Cell Sci. 111, 11–21 (1998).

    CAS  PubMed  Google Scholar 

  30. Giot, L. et al. A protein interaction map of Drosophila melanogaster. Science 302, 1727–1736 (2003).

    Article  CAS  PubMed  Google Scholar 

  31. Harrington, L. S. et al. The TSC1-2 tumor suppressor controls insulin–PI3K signaling via regulation of IRS proteins. J. Cell Biol. 166, 213–223 (2004).

    Article  CAS  PubMed  PubMed Central  Google Scholar 

  32. Shah, O. J., Wang, Z. & Hunter, T. Inappropriate activation of the TSC/Rheb/mTOR/S6K cassette induces IRS1/2 depletion, insulin resistance, and cell survival deficiencies. Curr. Biol. 14, 1650–1656 (2004).

    Article  CAS  PubMed  Google Scholar 

  33. Sarbassov, D. D., Guertin, D. A., Ali, S. M. & Sabatini, D. M. Phosphorylation and regulation of Akt/PKB by the rictor–mTOR complex. Science 307, 1098–1101 (2005).

    Article  CAS  PubMed  Google Scholar 

  34. Inoki, K., Li, Y., Xu, T. & Guan, K. L. Rheb GTPase is a direct target of TSC2 GAP activity and regulates mTOR signaling. Genes Dev. 17, 1829–1834 (2003).

    Article  CAS  PubMed  PubMed Central  Google Scholar 

  35. Oldham, S., Montagne, J., Radimerski, T., Thomas, G. & Hafen, E. Genetic and biochemical characterization of dTOR, the Drosophila homolog of the target of rapamycin. Genes Dev. 14, 2689–2694 (2000).

    Article  CAS  PubMed  PubMed Central  Google Scholar 

  36. Zhang, H., Stallock, J. P., Ng, J. C., Reinhard, C. & Neufeld, T. P. Regulation of cellular growth by the Drosophila target of rapamycin dTOR. Genes Dev. 14, 2712–2724 (2000).

    Article  CAS  PubMed  PubMed Central  Google Scholar 

  37. Colombani, J. et al. A nutrient sensor mechanism controls Drosophila growth. Cell 114, 739–749 (2003).

    Article  CAS  PubMed  Google Scholar 

  38. Saucedo, L. J. et al. Rheb promotes cell growth as a component of the insulin/TOR signalling network. Nature Cell Biol. 5, 566–571 (2003).

    Article  CAS  PubMed  Google Scholar 

  39. Radimerski, T., Montagne, J., Hemmings-Mieszczak, M. & Thomas, G. Lethality of Drosophila lacking TSC tumor suppressor function rescued by reducing dS6K signaling. Genes Dev. 16, 2627–2632 (2002).

    Article  CAS  PubMed  PubMed Central  Google Scholar 

  40. Zhang, Y., Billington, Jr., C. J., Pan, D. & Neufeld, T. P. Drosophila target of rapamycin kinase functions as a multimer. Genetics 172, 355–362 (2006).

    Article  CAS  PubMed  PubMed Central  Google Scholar 

  41. Scott, R. C., Schuldiner, O. & Neufeld, T. P. Role and regulation of starvation-induced autophagy in the Drosophila fat body. Dev. Cell 7, 167–178 (2004).

    Article  CAS  PubMed  Google Scholar 

  42. Klionsky, D. J., Cuervo, A. M. & Seglen, P. O. Methods for monitoring autophagy from yeast to human. Autophagy 3, 181–206 (2007).

    Article  CAS  PubMed  Google Scholar 

  43. Britton, J. S., Lockwood, W. K., Li, L., Cohen, S. M. & Edgar, B. A. Drosophila's insulin/PI3-kinase pathway coordinates cellular metabolism with nutritional conditions. Dev. Cell 2, 239–249 (2002).

    Article  CAS  PubMed  Google Scholar 

  44. Juhasz, G., Erdi, B., Sass, M. & Neufeld, T. P. Atg7-dependent autophagy promotes neuronal health, stress tolerance, and longevity but is dispensable for metamorphosis in Drosophila. Genes Dev. 21, 3061–3066 (2007).

    Article  CAS  PubMed  PubMed Central  Google Scholar 

  45. Juhasz, G. et al. The class III PI(3)K Vps34 promotes autophagy and endocytosis but not TOR signaling in Drosophila. J. Cell Biol. 181, 655–666 (2008).

    Article  CAS  PubMed  PubMed Central  Google Scholar 

  46. Clemens, J. C. et al. Use of double-stranded RNA interference in Drosophila cell lines to dissect signal transduction pathways. Proc. Natl Acad. Sci. USA 97, 6499–6503 (2000).

    Article  CAS  PubMed  PubMed Central  Google Scholar 

  47. Scott, R. C., Juhasz, G. & Neufeld, T. P. Direct induction of autophagy by Atg1 inhibits cell growth and induces apoptotic cell death. Curr. Biol. 17, 1–11 (2007).

    Article  CAS  PubMed  PubMed Central  Google Scholar 

  48. Hennig, K. M., Colombani, J. & Neufeld, T. P. TOR coordinates bulk and targeted endocytosis in the Drosophila melanogaster fat body to regulate cell growth. J. Cell Biol. 173, 963–974 (2006).

    Article  CAS  PubMed  PubMed Central  Google Scholar 

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Acknowledgements

The authors wish to thank Ken Inoki for discussions and Mary Stewart for the dS6K antibody. This work is supported by NIH grants to K.L.G. (GM62694 and CA108941) and T.P.N. (GM62509).

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Contributions

K.L.G. conceived the idea of GTPase screen; K.L.G. and E.K. designed, and E.K. performed, the screen and mammalian experiments; P.G.H. and T.P.N. designed and performed the Drosophila experiments with the assistance of E.K.; L.L. performed the LC3 experiments; K.L.G. and T.P.N. coordinated the study; K.L.G., E.K., P.G.H. and T.P.N. wrote the paper; all authors commented on the manuscript.

Note: Supplementary Information is available on the Nature Cell Biology website.

Corresponding authors

Correspondence to Thomas P. Neufeld or Kun-Liang Guan.

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Supplementary Figures S1, S2, S3, S4, S5, S6 and Supplementary Methods (PDF 2401 kb)

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Kim, E., Goraksha-Hicks, P., Li, L. et al. Regulation of TORC1 by Rag GTPases in nutrient response. Nat Cell Biol 10, 935–945 (2008). https://doi.org/10.1038/ncb1753

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