Skip to main content

Thank you for visiting nature.com. You are using a browser version with limited support for CSS. To obtain the best experience, we recommend you use a more up to date browser (or turn off compatibility mode in Internet Explorer). In the meantime, to ensure continued support, we are displaying the site without styles and JavaScript.

  • Letter
  • Published:

Phosphorylation of MLL by ATR is required for execution of mammalian S-phase checkpoint

Abstract

Cell cycle checkpoints are implemented to safeguard the genome, avoiding the accumulation of genetic errors1,2. Checkpoint loss results in genomic instability and contributes to the evolution of cancer. Among G1-, S-, G2- and M-phase checkpoints, genetic studies indicate the role of an intact S-phase checkpoint in maintaining genome integrity3,4. Although the basic framework of the S-phase checkpoint in multicellular organisms has been outlined, the mechanistic details remain to be elucidated. Human chromosome-11 band-q23 translocations disrupting the MLL gene lead to poor prognostic leukaemias5,6,7,8,9. Here we assign MLL as a novel effector in the mammalian S-phase checkpoint network and identify checkpoint dysfunction as an underlying mechanism of MLL leukaemias. MLL is phosphorylated at serine 516 by ATR in response to genotoxic stress in the S phase, which disrupts its interaction with, and hence its degradation by, the SCFSkp2 E3 ligase, leading to its accumulation. Stabilized MLL protein accumulates on chromatin, methylates histone H3 lysine 4 at late replication origins and inhibits the loading of CDC45 to delay DNA replication. Cells deficient in MLL showed radioresistant DNA synthesis and chromatid-type genomic abnormalities, indicative of S-phase checkpoint dysfunction. Reconstitution of Mll−/− (Mll also known as Mll1) mouse embryonic fibroblasts with wild-type but not S516A or ΔSET mutant MLL rescues the S-phase checkpoint defects. Moreover, murine myeloid progenitor cells carrying an Mll–CBP knock-in allele that mimics human t(11;16) leukaemia show a severe radioresistant DNA synthesis phenotype. MLL fusions function as dominant negative mutants that abrogate the ATR-mediated phosphorylation/stabilization of wild-type MLL on damage to DNA, and thus compromise the S-phase checkpoint. Together, our results identify MLL as a key constituent of the mammalian DNA damage response pathway and show that deregulation of the S-phase checkpoint incurred by MLL translocations probably contributes to the pathogenesis of human MLL leukaemias.

This is a preview of subscription content, access via your institution

Access options

Buy this article

Prices may be subject to local taxes which are calculated during checkout

Figure 1: MLL accumulates in the S phase on DNA insults and MLL dysfunction results in S-phase checkpoint defects.
Figure 2: ATR signalling prevents the SCF Skp2 -mediated degradation of MLL.
Figure 3: Phosphorylation of MLL at Ser 516 by ATR disrupts its interaction with Skp2 and is required for the integrity of the S-phase checkpoint.
Figure 4: On DNA damage, MLL accumulates on chromatin to methylate H3K4, resulting in diminished CDC45 loading.

Similar content being viewed by others

References

  1. Zhou, B.-B. S. & Elledge, S. J. The DNA damage response: putting checkpoints in perspective. Nature 408, 433–439 (2000)

    Article  CAS  ADS  Google Scholar 

  2. Kastan, M. B. & Bartek, J. Cell-cycle checkpoints and cancer. Nature 432, 316–323 (2004)

    Article  CAS  ADS  Google Scholar 

  3. Bartek, J., Lukas, C. & Lukas, J. Checking on DNA damage in S phase. Nature Rev. Mol. Cell Biol. 5, 792–804 (2004)

    Article  CAS  Google Scholar 

  4. Kolodner, R. D., Putnam, C. D. & Myung, K. Maintenance of genome stability in Saccharomyces cerevisiae. Science 297, 552–557 (2002)

    Article  CAS  ADS  Google Scholar 

  5. Krivtsov, A. V. & Armstrong, S. A. MLL translocations, histone modifications and leukaemia stem-cell development. Natl. Rev. 7, 823–833 (2007)

    Article  CAS  Google Scholar 

  6. Rodriguez-Perales, S., Cano, F., Lobato, M. N. & Rabbitts, T. H. MLL gene fusions in human leukaemias: in vivo modelling to recapitulate these primary tumourigenic events. Int. J. Hematol. 87, 3–9 (2008)

    Article  CAS  Google Scholar 

  7. Liu, H., Cheng, E. H. & Hsieh, J. J. MLL fusions: pathways to leukemia. Cancer Biol. Ther. 8, 1204–1211 (2009)

    Article  CAS  Google Scholar 

  8. Meyer, C. et al. New insights to the MLL recombinome of acute leukemias. Leukemia 23, 1490–1499 (2009)

    Article  CAS  Google Scholar 

  9. Liedtke, M. & Cleary, M. L. Therapeutic targeting of MLL. Blood 113, 6061–6068 (2009)

    Article  CAS  Google Scholar 

  10. Hsieh, J. J., Cheng, E. H. & Korsmeyer, S. J. Taspase1: a threonine aspartase required for cleavage of MLL and proper HOX gene expression. Cell 115, 293–303 (2003)

    Article  CAS  Google Scholar 

  11. Jude, C. D. et al. Unique and independent roles for MLL in adult hematopoietic stem cells and progenitors. Cell Stem Cell 1, 324–337 (2007)

    Article  CAS  Google Scholar 

  12. Liu, H., Cheng, E. H. & Hsieh, J. J. Bimodal degradation of MLL by SCFSkp2 and APCCdc20 assures cell cycle execution: a critical regulatory circuit lost in leukemogenic MLL fusions. Genes Dev. 21, 2385–2398 (2007)

    Article  CAS  Google Scholar 

  13. Takeda, S. et al. Proteolysis of MLL family proteins is essential for taspase1-orchestrated cell cycle progression. Genes Dev. 20, 2397–2409 (2006)

    Article  CAS  Google Scholar 

  14. Yu, B. D., Hess, J. L., Horning, S. E., Brown, G. A. & Korsmeyer, S. J. Altered Hox expression and segmental identity in Mll-mutant mice. Nature 378, 505–508 (1995)

    Article  CAS  ADS  Google Scholar 

  15. Milne, T. A. et al. MLL targets SET domain methyltransferase activity to Hox gene promoters. Mol. Cell 10, 1107–1117 (2002)

    Article  CAS  Google Scholar 

  16. Kumar, A. R. et al. Hoxa9 influences the phenotype but not the incidence of Mll-AF9 fusion gene leukemia. Blood 103, 1823–1828 (2004)

    Article  CAS  Google Scholar 

  17. Milne, T. A. et al. Menin and MLL cooperatively regulate expression of cyclin-dependent kinase inhibitors. Proc. Natl Acad. Sci. USA 102, 749–754 (2005)

    Article  CAS  ADS  Google Scholar 

  18. Xia, Z. B. et al. The MLL fusion gene, MLL-AF4, regulates cyclin-dependent kinase inhibitor CDKN1B (p27kip1) expression. Proc. Natl Acad. Sci. USA 102, 14028–14033 (2005)

    Article  CAS  ADS  Google Scholar 

  19. Tyagi, S., Chabes, A. L., Wysocka, J. & Herr, W. E2F activation of S phase promoters via association with HCF-1 and the MLL family of histone H3K4 methyltransferases. Mol. Cell 27, 107–119 (2007)

    Article  CAS  Google Scholar 

  20. Zinkel, S. S. et al. A role for proapoptotic BID in the DNA-damage response. Cell 122, 579–591 (2005)

    Article  CAS  Google Scholar 

  21. Wang, J. et al. Conditional MLL-CBP targets GMP and models therapy-related myeloproliferative disease. EMBO J. 24, 368–381 (2005)

    Article  Google Scholar 

  22. Eguchi, M. et al. MLL chimeric protein activation renders cells vulnerable to chromosomal damage: an explanation for the very short latency of infant leukemia. Genes Chromosom. Cancer 45, 754–760 (2006)

    Article  CAS  Google Scholar 

  23. Brown, E. J. & Baltimore, D. Essential and dispensable roles of ATR in cell cycle arrest and genome maintenance. Genes Dev. 17, 615–628 (2003)

    Article  CAS  Google Scholar 

  24. Taccioli, G. E. et al. Targeted disruption of the catalytic subunit of the DNA-PK gene in mice confers severe combined immunodeficiency and radiosensitivity. Immunity 9, 355–366 (1998)

    Article  CAS  Google Scholar 

  25. Cimprich, K. A. & Cortez, D. ATR: an essential regulator of genome integrity. Nature Rev. Mol. Cell Biol. 9, 616–627 (2008)

    Article  CAS  Google Scholar 

  26. Arias, E. E. & Walter, J. C. Strength in numbers: preventing rereplication via multiple mechanisms in eukaryotic cells. Genes Dev. 21, 497–518 (2007)

    Article  CAS  Google Scholar 

  27. Santocanale, C. & Diffley, J. F. X. Mec1- and Rad53-dependent checkpoint controls late-firing origins of DNA replication. Nature 395, 615–618 (1998)

    Article  CAS  ADS  Google Scholar 

  28. Sheu, Y. J. & Stillman, B. Cdc7-Dbf4 phosphorylates MCM proteins via a docking site-mediated mechanism to promote S phase progression. Mol. Cell 24, 101–113 (2006)

    Article  CAS  Google Scholar 

  29. Goren, A., Tabib, A., Hecht, M. & Cedar, H. DNA replication timing of the human beta-globin domain is controlled by histone modification at the origin. Genes Dev. 22, 1319–1324 (2008)

    Article  CAS  Google Scholar 

  30. Lim, D.-S. et al. ATM phosphorylates p95/nbs1 in an S-phase checkpoint pathway. Nature 404, 613–617 (2000)

    Article  CAS  ADS  Google Scholar 

  31. Liu, K., Paik, J. C., Wang, B., Lin, F. T. & Lin, W. C. Regulation of TopBP1 oligomerization by Akt/PKB for cell survival. EMBO J. 25, 4795–4807 (2006)

    Article  CAS  Google Scholar 

  32. Hsieh, J. J., Ernst, P., Erdjument-Bromage, H., Tempst, P. & Korsmeyer, S. J. Proteolytic cleavage of MLL generates a complex of N- and C-terminal fragments that confers protein stability and subnuclear localization. Mol. Cell. Biol. 23, 186–194 (2003)

    Article  CAS  Google Scholar 

  33. Kim, H. et al. Hierarchical regulation of mitochondrion-dependent apoptosis by BCL-2 subfamilies. Nature Cell Biol. 8, 1348–1358 (2006)

    Article  CAS  Google Scholar 

  34. Yu, B. D., Hanson, R. D., Hess, J. L., Horning, S. E. & Korsmeyer, S. J. MLL, a mammalian trithorax-group gene, functions as a transcriptional maintenance factor in morphogenesis. Proc. Natl Acad. Sci. USA 95, 10632–10636 (1998)

    Article  CAS  ADS  Google Scholar 

  35. Theunissen, J. W. & Petrini, J. H. Methods for studying the cellular response to DNA damage: influence of the Mre11 complex on chromosome metabolism. Methods Enzymol. 409, 251–284 (2006)

    Article  CAS  Google Scholar 

  36. Tu, H. C. et al. The p53-cathepsin axis cooperates with ROS to activate programmed necrotic death upon DNA damage. Proc. Natl Acad. Sci. USA 106, 1093–1098 (2009)

    Article  CAS  ADS  Google Scholar 

  37. Gupta, A. et al. The mammalian ortholog of Drosophila MOF that acetylates histone H4 lysine 16 is essential for embryogenesis and oncogenesis. Mol. Cell. Biol. 28, 397–409 (2008)

    Article  CAS  Google Scholar 

  38. Méndez, J. & Stillman, B. Chromatin association of human origin recognition complex, cdc6, and minichromosome maintenance proteins during the cell cycle: assembly of prereplication complexes in late mitosis. Mol. Cell. Biol. 20, 8602–8612 (2000)

    Article  Google Scholar 

Download references

Acknowledgements

We thank J. Y. Wang and Z. You for discussions during the inception and the completion of this study, respectively. H.L. is supported by the Scholar award of the American Society of Hematology. The Mll+/ex7(stop)CBP mice were provided by S. Armstrong and the late S. Korsmeyer. This study is supported by CA119008, the Scholar award of the American Society of Hematology, the Scholar award of the American Cancer Society, to J.J.-D.H., and CA129537/CA123232, to T.K.P.

Author information

Authors and Affiliations

Authors

Contributions

H.L. designed and performed the experiments; T.K.P. designed some experiments; S.T., R.K. and T.D.W. performed some experiments; E.J.B. generated essential tools; and E.H.-Y.C. and J.J.-D.H. designed the experiments and supervised the project.

Corresponding author

Correspondence to James J.-D. Hsieh.

Ethics declarations

Competing interests

The authors declare no competing financial interests.

Supplementary information

Supplementary Information

This file contains a Supplementary Discussion, Supplementary Figures 1-13 with legends and additional references. (PDF 1772 kb)

PowerPoint slides

Rights and permissions

Reprints and permissions

About this article

Cite this article

Liu, H., Takeda, S., Kumar, R. et al. Phosphorylation of MLL by ATR is required for execution of mammalian S-phase checkpoint. Nature 467, 343–346 (2010). https://doi.org/10.1038/nature09350

Download citation

  • Received:

  • Accepted:

  • Published:

  • Issue Date:

  • DOI: https://doi.org/10.1038/nature09350

This article is cited by

Comments

By submitting a comment you agree to abide by our Terms and Community Guidelines. If you find something abusive or that does not comply with our terms or guidelines please flag it as inappropriate.

Search

Quick links

Nature Briefing

Sign up for the Nature Briefing newsletter — what matters in science, free to your inbox daily.

Get the most important science stories of the day, free in your inbox. Sign up for Nature Briefing