AID Induces Double-Strand Breaks at Immunoglobulin Switch Regions and Causing Chromosomal Translocations in Yeast THO Mutants
Transcription of the switch (S) regions of immunoglobulin genes in B cells generates stable R-loops that are targeted by Activation Induced Cytidine Deaminase (AID), triggering class switch recombination (CSR), as well as translocations with c-MYC responsible for Burkitt's lymphomas. In Saccharomyces cerevisiae, stable R-loops are formed co-transcriptionally in mutants of THO, a conserved nuclear complex involved in mRNP biogenesis. Such R-loops trigger genome instability and facilitate deamination by human AID. To understand the mechanisms that generate genome instability mediated by mRNP biogenesis impairment and by AID, we devised a yeast chromosomal system based on different segments of mammalian S regions and c-MYC for the analysis of chromosomal rearrangements in both wild-type and THO mutants. We demonstrate that AID acts in yeast at heterologous S and c-MYC transcribed sequences leading to double-strand breaks (DSBs) which in turn cause chromosomal translocations via Non-Homologous End Joining (NHEJ). AID–induced translocations were strongly enhanced in yeast THO null mutants, consistent with the idea that AID–mediated DSBs depend on R-loop formation. Our study not only provides new clues to understand the role of mRNP biogenesis in preventing genome rearrangements and the mechanism of AID-mediated genome instability, but also shows that, once uracil residues are produced by AID–mediated deamination, these are processed into DSBs and chromosomal rearrangements by the general and conserved DNA repair functions present from yeast to human cells.
Vyšlo v časopise:
AID Induces Double-Strand Breaks at Immunoglobulin Switch Regions and Causing Chromosomal Translocations in Yeast THO Mutants. PLoS Genet 7(2): e32767. doi:10.1371/journal.pgen.1002009
Kategorie:
Research Article
prolekare.web.journal.doi_sk:
https://doi.org/10.1371/journal.pgen.1002009
Souhrn
Transcription of the switch (S) regions of immunoglobulin genes in B cells generates stable R-loops that are targeted by Activation Induced Cytidine Deaminase (AID), triggering class switch recombination (CSR), as well as translocations with c-MYC responsible for Burkitt's lymphomas. In Saccharomyces cerevisiae, stable R-loops are formed co-transcriptionally in mutants of THO, a conserved nuclear complex involved in mRNP biogenesis. Such R-loops trigger genome instability and facilitate deamination by human AID. To understand the mechanisms that generate genome instability mediated by mRNP biogenesis impairment and by AID, we devised a yeast chromosomal system based on different segments of mammalian S regions and c-MYC for the analysis of chromosomal rearrangements in both wild-type and THO mutants. We demonstrate that AID acts in yeast at heterologous S and c-MYC transcribed sequences leading to double-strand breaks (DSBs) which in turn cause chromosomal translocations via Non-Homologous End Joining (NHEJ). AID–induced translocations were strongly enhanced in yeast THO null mutants, consistent with the idea that AID–mediated DSBs depend on R-loop formation. Our study not only provides new clues to understand the role of mRNP biogenesis in preventing genome rearrangements and the mechanism of AID-mediated genome instability, but also shows that, once uracil residues are produced by AID–mediated deamination, these are processed into DSBs and chromosomal rearrangements by the general and conserved DNA repair functions present from yeast to human cells.
Zdroje
1. AguileraA 2002 The connection between transcription and genomic instability. EMBO J 21 195 201
2. DattaAJinks-RobertsonS 1995 Association of increased spontaneous mutation rates with high levels of transcription in yeast. Science 268 1616 1619
3. SaxeDDattaAJinks-RobertsonS 2000 Stimulation of mitotic recombination events by high levels of RNA polymerase II transcription in yeast. Mol Cell Biol 20 5404 5414
4. MirkinEVMirkinSM 2007 Replication fork stalling at natural impediments. Microbiol Mol Biol Rev 71 13 35
5. HuertasPAguileraA 2003 Cotranscriptionally formed DNA:RNA hybrids mediate transcription elongation impairment and transcription-associated recombination. Mol Cell 12 711 721
6. YuKChedinFHsiehCLWilsonTELieberMR 2003 R-loops at immunoglobulin class switch regions in the chromosomes of stimulated B cells. Nat Immunol 4 442 451
7. ChaudhuriJAltFW 2004 Class-switch recombination: interplay of transcription, DNA deamination and DNA repair. Nat Rev Immunol 4 541 552
8. MuramatsuMSankaranandVSAnantSSugaiMKinoshitaK 1999 Specific expression of activation-induced cytidine deaminase (AID), a novel member of the RNA-editing deaminase family in germinal center B cells. J Biol Chem 274 18470 18476
9. NambuYSugaiMGondaHLeeCGKatakaiT 2003 Transcription-coupled events associating with immunoglobulin switch region chromatin. Science 302 2137 2140
10. BesmerEMarketEPapavasiliouFN 2006 The transcription elongation complex directs activation-induced cytidine deaminase-mediated DNA deamination. Mol Cell Biol 26 4378 4385
11. PavriRGazumyanAJankovicMDi VirgilioMKleinI Activation-induced cytidine deaminase targets DNA at sites of RNA polymerase II stalling by interaction with Spt5. Cell 143 122 133
12. CanugoviCSamaranayakeMBhagwatAS 2009 Transcriptional pausing and stalling causes multiple clustered mutations by human activation-induced deaminase. FASEB J 23 34 44
13. ChaudhuriJTianMKhuongCChuaKPinaudE 2003 Transcription-targeted DNA deamination by the AID antibody diversification enzyme. Nature 422 726 730
14. RamiroARStavropoulosPJankovicMNussenzweigMC 2003 Transcription enhances AID-mediated cytidine deamination by exposing single-stranded DNA on the nontemplate strand. Nat Immunol 4 452 456
15. YuKRoyDBayramyanMHaworthISLieberMR 2005 Fine-structure analysis of activation-induced deaminase accessibility to class switch region R-loops. Mol Cell Biol 25 1730 1736
16. ShenHMStorbU 2004 Activation-induced cytidine deaminase (AID) can target both DNA strands when the DNA is supercoiled. Proc Natl Acad Sci U S A 101 12997 13002
17. RadaCDi NoiaJMNeubergerMS 2004 Mismatch recognition and uracil excision provide complementary paths to both Ig switching and the A/T-focused phase of somatic mutation. Mol Cell 16 163 171
18. SchraderCELinehanEKMochegovaSNWoodlandRTStavnezerJ 2005 Inducible DNA breaks in Ig S regions are dependent on AID and UNG. J Exp Med 202 561 568
19. Di NoiaJMWilliamsGTChanDTBuersteddeJMBaldwinGS 2007 Dependence of antibody gene diversification on uracil excision. J Exp Med 204 3209 3219
20. LiuMDukeJLRichterDJVinuesaCGGoodnowCC 2008 Two levels of protection for the B cell genome during somatic hypermutation. Nature 451 841 845
21. KuppersRDalla-FaveraR 2001 Mechanisms of chromosomal translocations in B cell lymphomas. Oncogene 20 5580 5594
22. RamiroARJankovicMEisenreichTDifilippantonioSChen-KiangS 2004 AID is required for c-myc/IgH chromosome translocations in vivo. Cell 118 431 438
23. RobbianiDFBothmerACallenEReina-San-MartinBDorsettY 2008 AID is required for the chromosomal breaks in c-myc that lead to c-myc/IgH translocations. Cell 135 1028 1038
24. RabbittsTH 1994 Chromosomal translocations in human cancer. Nature 372 143 149
25. NussenzweigANussenzweigMC Origin of chromosomal translocations in lymphoid cancer. Cell 141 27 38
26. RichardsonCJasinM 2000 Frequent chromosomal translocations induced by DNA double-strand breaks. Nature 405 697 700
27. LieberMR The mechanism of double-strand DNA break repair by the nonhomologous DNA end-joining pathway. Annu Rev Biochem 79 181 211
28. ElliottBRichardsonCJasinM 2005 Chromosomal translocation mechanisms at intronic alu elements in mammalian cells. Mol Cell 17 885 894
29. PutnamCDPennaneachVKolodnerRD 2005 Saccharomyces cerevisiae as a model system to define the chromosomal instability phenotype. Mol Cell Biol 25 7226 7238
30. MieczkowskiPALemoineFJPetesTD 2006 Recombination between retrotransposons as a source of chromosome rearrangements in the yeast Saccharomyces cerevisiae. DNA Repair (Amst) 5 1010 1020
31. LeeJACarvalhoCMLupskiJR 2007 A DNA replication mechanism for generating nonrecurrent rearrangements associated with genomic disorders. Cell 131 1235 1247
32. RuizJFGomez-GonzalezBAguileraA 2009 Chromosomal translocations caused by either pol32-dependent or pol32-independent triparental break-induced replication. Mol Cell Biol 29 5441 5454
33. AguileraA 2005 Cotranscriptional mRNP assembly: from the DNA to the nuclear pore. Curr Opin Cell Biol 17 242 250
34. ChavezSGarcia-RubioMPradoFAguileraA 2001 Hpr1 is preferentially required for transcription of either long or G+C-rich DNA sequences in Saccharomyces cerevisiae. Mol Cell Biol 21 7054 7064
35. Garcia-RubioMChavezSHuertasPTousCJimenoS 2008 Different physiological relevance of yeast THO/TREX subunits in gene expression and genome integrity. Mol Genet Genomics 279 123 132
36. Gomez-GonzalezBAguileraA 2007 Activation-induced cytidine deaminase action is strongly stimulated by mutations of the THO complex. Proc Natl Acad Sci U S A 104 8409 8414
37. DanielsGALieberMR 1995 RNA:DNA complex formation upon transcription of immunoglobulin switch regions: implications for the mechanism and regulation of class switch recombination. Nucleic Acids Res 23 5006 5011
38. TianMAltFW 2000 Transcription-induced cleavage of immunoglobulin switch regions by nucleotide excision repair nucleases in vitro. J Biol Chem 275 24163 24172
39. DuquetteMLHandaPVincentJATaylorAFMaizelsN 2004 Intracellular transcription of G-rich DNAs induces formation of G-loops, novel structures containing G4 DNA. Genes Dev 18 1618 1629
40. ChavezSAguileraA 1997 The yeast HPR1 gene has a functional role in transcriptional elongation that uncovers a novel source of genome instability. Genes Dev 11 3459 3470
41. Gomez-GonzalezBAguileraA 2009 R-loops do not accumulate in transcription-defective hpr1-101 mutants: implications for the functional role of THO/TREX. Nucleic Acids Res 37 4315 4321
42. HuangFTYuKBalterBBSelsingEOrucZ 2007 Sequence dependence of chromosomal R-loops at the immunoglobulin heavy-chain Smu class switch region. Mol Cell Biol 27 5921 5932
43. RajagopalDMaulRWGhoshAChakrabortyTKhamlichiAA 2009 Immunoglobulin switch mu sequence causes RNA polymerase II accumulation and reduces dA hypermutation. J Exp Med 206 1237 1244
44. DuquetteMLPhamPGoodmanMFMaizelsN 2005 AID binds to transcription-induced structures in c-MYC that map to regions associated with translocation and hypermutation. Oncogene 24 5791 5798
45. ShinkuraRTianMSmithMChuaKFujiwaraY 2003 The influence of transcriptional orientation on endogenous switch region function. Nat Immunol 4 435 441
46. DunnickWHertzGZScappinoLGritzmacherC 1993 DNA sequences at immunoglobulin switch region recombination sites. Nucleic Acids Res 21 365 372
47. PoltoratskyVPWilsonSHKunkelTAPavlovYI 2004 Recombinogenic phenotype of human activation-induced cytosine deaminase. J Immunol 172 4308 4313
48. ZarrinAATianMWangJBorjesonTAltFW 2005 Influence of switch region length on immunoglobulin class switch recombination. Proc Natl Acad Sci U S A 102 2466 2470
49. DuquetteMLHuberMDMaizelsN 2007 G-rich proto-oncogenes are targeted for genomic instability in B-cell lymphomas. Cancer Res 67 2586 2594
50. Gonzalez-AguileraCTousCGomez-GonzalezBHuertasPLunaR 2008 The THP1-SAC3-SUS1-CDC31 complex works in transcription elongation-mRNA export preventing RNA-mediated genome instability. Mol Biol Cell 19 4310 4318
51. RoyDYuKLieberMR 2008 Mechanism of R-loop formation at immunoglobulin class switch sequences. Mol Cell Biol 28 50 60
52. RoyDZhangZLuZHsiehCLLieberMR 2010 Competition between the RNA transcript and the nontemplate DNA strand during R-loop formation in vitro: a nick can serve as a strong R-loop initiation site. Mol Cell Biol 30 146 159
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Genetika Reprodukčná medicínaČlánok vyšiel v časopise
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