Chemical Genetics Reveals a Specific Requirement for Cdk2 Activity in the DNA Damage Response and Identifies Nbs1 as a Cdk2 Substrate in Human Cells
The cyclin-dependent kinases (CDKs) that promote cell-cycle progression are targets for negative regulation by signals from damaged or unreplicated DNA, but also play active roles in response to DNA lesions. The requirement for activity in the face of DNA damage implies that there are mechanisms to insulate certain CDKs from checkpoint inhibition. It remains difficult, however, to assign precise functions to specific CDKs in protecting genomic integrity. In mammals, Cdk2 is active throughout S and G2 phases, but Cdk2 protein is dispensable for survival, owing to compensation by other CDKs. That plasticity obscured a requirement for Cdk2 activity in proliferation of human cells, which we uncovered by replacement of wild-type Cdk2 with a mutant version sensitized to inhibition by bulky adenine analogs. Here we show that transient, selective inhibition of analog-sensitive (AS) Cdk2 after exposure to ionizing radiation (IR) enhances cell-killing. In extracts supplemented with an ATP analog used preferentially by AS kinases, Cdk2as phosphorylated the Nijmegen Breakage Syndrome gene product Nbs1—a component of the conserved Mre11-Rad50-Nbs1 complex required for normal DNA damage repair and checkpoint signaling—dependent on a consensus CDK recognition site at Ser432. In vivo, selective inhibition of Cdk2 delayed and diminished Nbs1-Ser432 phosphorylation during S phase, and mutation of Ser432 to Ala or Asp increased IR–sensitivity. Therefore, by chemical genetics, we uncovered both a non-redundant requirement for Cdk2 activity in response to DNA damage and a specific target of Cdk2 within the DNA repair machinery.
Vyšlo v časopise:
Chemical Genetics Reveals a Specific Requirement for Cdk2 Activity in the DNA Damage Response and Identifies Nbs1 as a Cdk2 Substrate in Human Cells. PLoS Genet 8(8): e32767. doi:10.1371/journal.pgen.1002935
Kategorie:
Research Article
prolekare.web.journal.doi_sk:
https://doi.org/10.1371/journal.pgen.1002935
Souhrn
The cyclin-dependent kinases (CDKs) that promote cell-cycle progression are targets for negative regulation by signals from damaged or unreplicated DNA, but also play active roles in response to DNA lesions. The requirement for activity in the face of DNA damage implies that there are mechanisms to insulate certain CDKs from checkpoint inhibition. It remains difficult, however, to assign precise functions to specific CDKs in protecting genomic integrity. In mammals, Cdk2 is active throughout S and G2 phases, but Cdk2 protein is dispensable for survival, owing to compensation by other CDKs. That plasticity obscured a requirement for Cdk2 activity in proliferation of human cells, which we uncovered by replacement of wild-type Cdk2 with a mutant version sensitized to inhibition by bulky adenine analogs. Here we show that transient, selective inhibition of analog-sensitive (AS) Cdk2 after exposure to ionizing radiation (IR) enhances cell-killing. In extracts supplemented with an ATP analog used preferentially by AS kinases, Cdk2as phosphorylated the Nijmegen Breakage Syndrome gene product Nbs1—a component of the conserved Mre11-Rad50-Nbs1 complex required for normal DNA damage repair and checkpoint signaling—dependent on a consensus CDK recognition site at Ser432. In vivo, selective inhibition of Cdk2 delayed and diminished Nbs1-Ser432 phosphorylation during S phase, and mutation of Ser432 to Ala or Asp increased IR–sensitivity. Therefore, by chemical genetics, we uncovered both a non-redundant requirement for Cdk2 activity in response to DNA damage and a specific target of Cdk2 within the DNA repair machinery.
Zdroje
1. AylonY, LiefshitzB, KupiecM (2004) The CDK regulates repair of double-strand breaks by homologous recombination during the cell cycle. Embo J 23: 4868–4875.
2. FerreiraMG, CooperJP (2004) Two modes of DNA double-strand break repair are reciprocally regulated through the fission yeast cell cycle. Genes Dev 18: 2249–2254.
3. IraG, PellicioliA, BalijjaA, WangX, FioraniS, et al. (2004) DNA end resection, homologous recombination and DNA damage checkpoint activation require CDK1. Nature 431: 1011–1017.
4. HuertasP, Cortes-LedesmaF, SartoriAA, AguileraA, JacksonSP (2008) CDK targets Sae2 to control DNA-end resection and homologous recombination. Nature 455: 689–692.
5. WohlboldL, FisherRP (2009) Behind the wheel and under the hood: functions of cyclin-dependent kinases in response to DNA damage. DNA Repair (Amst) 8: 1018–1024.
6. YataK, EsashiF (2009) Dual role of CDKs in DNA repair: to be, or not to be. DNA Repair (Amst) 8: 6–18.
7. ChenL, NieveraCJ, LeeAY, WuX (2008) Cell cycle-dependent complex formation of BRCA1.CtIP.MRN is important for DNA double-strand break repair. J Biol Chem 283: 7713–7720.
8. HuertasP, JacksonSP (2009) Human CtIP mediates cell cycle control of DNA end resection and double strand break repair. J Biol Chem 284: 9558–9565.
9. Morgan DO (2007) The Cell Cycle: Principles of Control. London: New Science Press Ltd.
10. MerrickKA, LarochelleS, ZhangC, AllenJJ, ShokatKM, et al. (2008) Distinct activation pathways confer cyclin binding selectivity on Cdk1 and Cdk2 in human cells. Mol Cell 32: 662–672.
11. KatsunoY, SuzukiA, SugimuraK, OkumuraK, ZineldeenDH, et al. (2009) Cyclin A-Cdk1 regulates the origin firing program in mammalian cells. Proc Natl Acad Sci U S A 106: 3184–3189.
12. KoseogluMM, GravesLM, MarzluffWF (2008) Phosphorylation of threonine 61 by cyclin a/Cdk1 triggers degradation of stem-loop binding protein at the end of S phase. Mol Cell Biol 28: 4469–4479.
13. BerthetC, AleemE, CoppolaV, TessarolloL, KaldisP (2003) Cdk2 knockout mice are viable. Curr Biol 13: 1775–1785.
14. OrtegaS, PrietoI, OdajimaJ, MartinA, DubusP, et al. (2003) Cyclin-dependent kinase 2 is essential for meiosis but not for mitotic cell division in mice. Nat Genet 35: 25–31.
15. SantamariaD, BarriereC, CerqueiraA, HuntS, TardyC, et al. (2007) Cdk1 is sufficient to drive the mammalian cell cycle. Nature 448: 811–815.
16. HocheggerH, DejsuphongD, SonodaE, SaberiA, RajendraE, et al. (2007) An essential role for Cdk1 in S phase control is revealed via chemical genetics in vertebrate cells. J Cell Biol 178: 257–268.
17. DeansAJ, KhannaKK, McNeesCJ, MercurioC, HeierhorstJ, et al. (2006) Cyclin-dependent kinase 2 functions in normal DNA repair and is a therapeutic target in BRCA1-deficient cancers. Cancer Res 66: 8219–8226.
18. JazayeriA, FalckJ, LukasC, BartekJ, SmithGC, et al. (2006) ATM- and cell cycle-dependent regulation of ATR in response to DNA double-strand breaks. Nat Cell Biol 8: 37–45.
19. SatyanarayanaA, HiltonMB, KaldisP (2008) p21 Inhibits Cdk1 in the Absence of Cdk2 to Maintain the G1/S Phase DNA Damage Checkpoint. Mol Biol Cell 19: 65–77.
20. CerqueiraA, SantamariaD, Martinez-PastorB, CuadradoM, Fernandez-CapetilloO, et al. (2009) Overall Cdk activity modulates the DNA damage response in mammalian cells. J Cell Biol 187: 773–780.
21. ChungJH, BunzF (2010) Cdk2 is required for p53-independent G2/M checkpoint control. PLoS Genet 6: e1000863 doi:10.1371/journal.pgen.1000863.
22. AleemE, KiyokawaH, KaldisP (2005) Cdc2-cyclin E complexes regulate the G1/S phase transition. Nat Cell Biol 7: 831–836.
23. L'ItalienL, TanudjiM, RussellL, SchebyeXM (2006) Unmasking the redundancy between Cdk1 and Cdk2 at G2 phase in human cancer cell lines. Cell Cycle 5: 984–993.
24. KnightZA, ShokatKM (2005) Features of selective kinase inhibitors. Chem Biol 12: 621–637.
25. BishopAC, UbersaxJA, PetschDT, MatheosDP, GrayNS, et al. (2000) A chemical switch for inhibitor-sensitive alleles of any protein kinase. Nature 407: 395–401.
26. KraybillBC, ElkinLL, BlethrowJD, MorganDO, ShokatKM (2002) Inhibitor scaffolds as new allele specific kinase substrates. J Am Chem Soc 124: 12118–12128.
27. LarochelleS, MerrickKA, TerretME, WohlboldL, BarbozaNM, et al. (2007) Requirements for Cdk7 in the assembly of Cdk1/cyclin B and activation of Cdk2 revealed by chemical genetics in human cells. Mol Cell 25: 839–850.
28. MerrickKA, WohlboldL, ZhangC, AllenJJ, HoriuchiD, et al. (2011) Switching Cdk2 on or off with small molecules to reveal requirements in human cell proliferation. Mol Cell 42: 624–636.
29. DemuthI, DigweedM (2007) The clinical manifestation of a defective response to DNA double-strand breaks as exemplified by Nijmegen breakage syndrome. Oncogene 26: 7792–7798.
30. StrackerTH, PetriniJH (2011) The MRE11 complex: starting from the ends. Nat Rev Mol Cell Biol 12: 90–103.
31. PardeeAB (1974) A restriction point for control of normal animal cell proliferation. Proc Natl Acad Sci U S A 71: 1286–1290.
32. LarochelleS, BatlinerJ, GambleMJ, BarbozaNM, KraybillBC, et al. (2006) Dichotomous but stringent substrate selection by the dual-function Cdk7 complex revealed by chemical genetics. Nat Struct Mol Biol 13: 55–62.
33. WohlboldL, LarochelleS, LiaoJC, LivshitsG, SingerJ, et al. (2006) The cyclin-dependent kinase (CDK) family member PNQALRE/CCRK supports cell proliferation but has no intrinsic CDK-activating kinase (CAK) activity. Cell Cycle 5: 546–554.
34. JiangXR, JimenezG, ChangE, FrolkisM, KuslerB, et al. (1999) Telomerase expression in human somatic cells does not induce changes associated with a transformed phenotype. Nat Genet 21: 111–114.
35. TakemuraH, RaoVA, SordetO, FurutaT, MiaoZH, et al. (2006) Defective Mre11-dependent activation of Chk2 by ataxia telangiectasia mutated in colorectal carcinoma cells in response to replication-dependent DNA double strand breaks. J Biol Chem 281: 30814–30823.
36. ChahwanC, NakamuraTM, SivakumarS, RussellP, RhindN (2003) The fission yeast Rad32 (Mre11)-Rad50-Nbs1 complex is required for the S-phase DNA damage checkpoint. Mol Cell Biol 23: 6564–6573.
37. UbersaxJA, WoodburyEL, QuangPN, ParazM, BlethrowJD, et al. (2003) Targets of the cyclin-dependent kinase Cdk1. Nature 425: 859–864.
38. UenoM, NakazakiT, AkamatsuY, WatanabeK, TomitaK, et al. (2003) Molecular characterization of the Schizosaccharomyces pombe nbs1+ gene involved in DNA repair and telomere maintenance. Mol Cell Biol 23: 6553–6563.
39. GrayNS, WodickaL, ThunnissenAM, NormanTC, KwonS, et al. (1998) Exploiting chemical libraries, structure, and genomics in the search for kinase inhibitors. Science 281: 533–538.
40. MeijerL, BorgneA, MulnerO, ChongJP, BlowJJ, et al. (1997) Biochemical and cellular effects of roscovitine, a potent and selective inhibitor of the cyclin-dependent kinases cdc2, cdk2 and cdk5. Eur J Biochem 243: 527–536.
41. WadaT, TakagiT, YamaguchiY, WatanabeD, HandaH (1998) Evidence that P-TEFb alleviates the negative effect of DSIF on RNA polymerase II-dependent transcription in vitro. Embo J 17: 7395–7403.
42. MirzoevaOK, PetriniJH (2003) DNA replication-dependent nuclear dynamics of the Mre11 complex. Mol Cancer Res 1: 207–218.
43. AdelmanCA, DeS, PetriniJH (2009) Rad50 is dispensable for the maintenance and viability of postmitotic tissues. Mol Cell Biol 29: 483–492.
44. AdelmanCA, PetriniJH (2009) Division of labor: DNA repair and the cell cycle specific functions of the Mre11 complex. Cell Cycle 8: 1510–1514.
45. MaserRS, ZinkelR, PetriniJH (2001) An alternative mode of translation permits production of a variant NBS1 protein from the common Nijmegen breakage syndrome allele. Nat Genet 27: 417–421.
46. SullivanKE, VekslerE, LedermanH, Lees-MillerSP (1997) Cell cycle checkpoints and DNA repair in Nijmegen breakage syndrome. Clin Immunol Immunopathol 82: 43–48.
47. RichardsonC, ElliottB, JasinM (1999) Chromosomal double-strand breaks introduced in mammalian cells by expression of I-Sce I endonuclease. Methods Mol Biol 113: 453–463.
48. BuisJ, StonehamT, SpehalskiE, FergusonDO (2012) Mre11 regulates CtIP-dependent double-strand break repair by interaction with CDK2. Nat Struct Mol Biol 19: 246–252.
49. D'AmoursD, JacksonSP (2002) The Mre11 complex: at the crossroads of dna repair and checkpoint signalling. Nat Rev Mol Cell Biol 3: 317–327.
50. StrackerTH, CoutoSS, Cordon-CardoC, MatosT, PetriniJH (2008) Chk2 suppresses the oncogenic potential of DNA replication-associated DNA damage. Mol Cell 31: 21–32.
51. VerdunRE, CrabbeL, HaggblomC, KarlsederJ (2005) Functional human telomeres are recognized as DNA damage in G2 of the cell cycle. Mol Cell 20: 551–561.
52. ZhuXD, KusterB, MannM, PetriniJH, de LangeT (2000) Cell-cycle-regulated association of RAD50/MRE11/NBS1 with TRF2 and human telomeres. Nat Genet 25: 347–352.
53. SartoriAA, LukasC, CoatesJ, MistrikM, FuS, et al. (2007) Human CtIP promotes DNA end resection. Nature 450: 509–514.
54. YuX, ChenJ (2004) DNA damage-induced cell cycle checkpoint control requires CtIP, a phosphorylation-dependent binding partner of BRCA1 C-terminal domains. Mol Cell Biol 24: 9478–9486.
55. EsashiF, ChristN, GannonJ, LiuY, HuntT, et al. (2005) CDK-dependent phosphorylation of BRCA2 as a regulatory mechanism for recombinational repair. Nature 434: 598–604.
56. DiffleyJF (2004) Regulation of early events in chromosome replication. Curr Biol 14: R778–786.
57. CostanzoM, NishikawaJL, TangX, MillmanJS, SchubO, et al. (2004) CDK activity antagonizes Whi5, an inhibitor of G1/S transcription in yeast. Cell 117: 899–913.
58. HarrisonJC, HaberJE (2006) Surviving the breakup: the DNA damage checkpoint. Annu Rev Genet 40: 209–235.
59. RuffnerH, JiangW, CraigAG, HunterT, VermaIM (1999) BRCA1 is phosphorylated at serine 1497 in vivo at a cyclin-dependent kinase 2 phosphorylation site. Mol Cell Biol 19: 4843–4854.
60. Muller-TidowC, JiP, DiederichsS, PotratzJ, BaumerN, et al. (2004) The cyclin A1-CDK2 complex regulates DNA double-strand break repair. Mol Cell Biol 24: 8917–8928.
61. MyersJS, ZhaoR, XuX, HamAJ, CortezD (2007) Cyclin-dependent kinase 2 dependent phosphorylation of ATRIP regulates the G2-M checkpoint response to DNA damage. Cancer Res 67: 6685–6690.
62. ShiromizuT, GotoH, TomonoY, BartekJ, TotsukawaG, et al. (2006) Regulation of mitotic function of Chk1 through phosphorylation at novel sites by cyclin-dependent kinase 1 (Cdk1). Genes Cells 11: 477–485.
63. XuN, LibertiniS, BlackEJ, LaoY, HegaratN, et al. (2012) Cdk-mediated phosphorylation of Chk1 is required for efficient activation and full checkpoint proficiency in response to DNA damage. Oncogene 31: 1086–1094.
64. ChowJP, SiuWY, HoHT, MaKH, HoCC, et al. (2003) Differential contribution of inhibitory phosphorylation of CDC2 and CDK2 for unperturbed cell cycle control and DNA integrity checkpoints. J Biol Chem 278: 40815–40828.
65. NiggEA (2001) Mitotic kinases as regulators of cell division and its checkpoints. Nat Rev Mol Cell Biol 2: 21–32.
66. CoulonvalK, KookenH, RogerPP (2011) Coupling of T161 and T14 phosphorylations protects cyclin B-CDK1 from premature activation. Mol Biol Cell 22: 3971–3985.
Štítky
Genetika Reprodukčná medicínaČlánok vyšiel v časopise
PLOS Genetics
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