Home LiteratureArticle Details
PMID: 22312109 Published · ppublish English Journal Article Research Support, Non-U.S. Gov't

Cernunnos influences human immunoglobulin class switch recombination and may be associated with B cell lymphomagenesis.

The Journal of experimental medicine ·Vol. 209 ·No. 2 ·2012-02-13 ·Pages 291-305

Du L, Peng R, Björkman A, Filipe de Miranda N, Rosner C, Kotnis A, Berglund M, Liu C, Rosenquist R, Enblad G, Sundström C, Hojjat-Farsangi M, Rabbani H, Teixeira MR, Revy P, Durandy A, Zeng Y, Gennery AR, de Villartay JP, Pan-Hammarström Q

Abstract

Cernunnos is involved in the nonhomologous end-joining (NHEJ) process during DNA double-strand break (DSB) repair. Here, we studied immunoglobulin (Ig) class switch recombination (CSR), a physiological process which relies on proper repair of the DSBs, in B cells from Cernunnos-deficient patients. The pattern of in vivo generated CSR junctions is altered in these cells, with unusually long microhomologies and a lack of direct end-joining. The CSR junctions from Cernunnos-deficient patients largely resemble those from patients lacking DNA ligase IV, Artemis, or ATM, suggesting that these factors are involved in the same end-joining pathway during CSR. By screening 269 mature B cell lymphoma biopsies, we also identified a somatic missense Cernunnos mutation in a diffuse large B cell lymphoma sample. This mutation has a dominant-negative effect on joining of a subset of DNA ends in an in vitro NHEJ assay. Translocations involving both Ig heavy chain loci and clonal-like, dynamic IgA switching activities were observed in this tumor. Collectively, our results suggest a link between defects in the Cernunnos-dependent NHEJ pathway and aberrant CSR or switch translocations during the development of B cell malignancies.

MeSH Terms
Abnormalities, Multiple/genetics DNA End-Joining Repair/genetics,physiology DNA Primers/genetics DNA Repair Enzymes/deficiency,genetics DNA-Binding Proteins/deficiency,genetics Humans Immunoglobulin A/genetics Immunoglobulin Class Switching/genetics,physiology Immunoglobulin Heavy Chains/genetics In Situ Hybridization, Fluorescence Laser Capture Microdissection Lymphoma, B-Cell/genetics Male Mass Spectrometry Mutagenesis Mutation, Missense/genetics Polymerase Chain Reaction Reverse Transcriptase Polymerase Chain Reaction Sequence Analysis, DNA Translocation, Genetic/genetics
Chemicals
DNA Primers DNA-Binding Proteins Immunoglobulin A Immunoglobulin Heavy Chains NHEJ1 protein, human DNA Repair Enzymes
Authors & Affiliations
20 authors, click to expand affiliations / ORCID
Du Likun
Department of Laboratory Medicine, Karolinska Institutet, Karolinska University Hospital, Huddinge, SE-14186 Stockholm, Sweden.
Peng Roujun
Björkman Andrea
Filipe de Miranda Noel
Rosner Cornelia
Kotnis Ashwin
Berglund Mattias
Liu Chonghai
Rosenquist Richard
Enblad Gunilla
Sundström Christer
Hojjat-Farsangi Mohammad
Rabbani Hodjattallah
Teixeira Manuel R
Revy Patrick
Durandy Anne
Zeng Yixin
Gennery Andrew R
de Villartay Jean-Pierre
Pan-Hammarström Qiang
References (80)
80 references, click to expand
  1. Class switch recombination: a comparison between mouse and human.
    Adv Immunol. 2007;93:1-61 PMID: 17383538
  2. 8q gain is an independent predictor of poor survival in diagnostic needle biopsies from prostate cancer suspects.
    Clin Cancer Res. 2006 Jul 1;12(13):3961-70 PMID: 16818693
  3. Defective DNA repair and increased genomic instability in Cernunnos-XLF-deficient murine ES cells.
    Proc Natl Acad Sci U S A. 2007 Mar 13;104(11):4518-23 PMID: 17360556
  4. RIDDLE immunodeficiency syndrome is linked to defects in 53BP1-mediated DNA damage signaling.
    Proc Natl Acad Sci U S A. 2007 Oct 23;104(43):16910-5 PMID: 17940005
  5. IgH class switching and translocations use a robust non-classical end-joining pathway.
    Nature. 2007 Sep 27;449(7161):478-82 PMID: 17713479
  6. Ku recruits XLF to DNA double-strand breaks.
    EMBO Rep. 2008 Jan;9(1):91-6 PMID: 18064046
  7. Cernunnos/XLF promotes the ligation of mismatched and noncohesive DNA ends.
    Proc Natl Acad Sci U S A. 2007 May 8;104(19):7851-6 PMID: 17470781
  8. Cernunnos interacts with the XRCC4 x DNA-ligase IV complex and is homologous to the yeast nonhomologous end-joining factor Nej1.
    J Biol Chem. 2006 May 19;281(20):13857-60 PMID: 16571728
  9. Mapping of switch recombination junctions, a tool for studying DNA repair pathways during immunoglobulin class switching.
    Adv Immunol. 2010;108:45-109 PMID: 21056729
  10. Inflammatory gene profiles in gastric mucosa during Helicobacter pylori infection in humans.
    J Immunol. 2004 Feb 15;172(4):2595-606 PMID: 14764733
  11. Lymphocyte-specific compensation for XLF/cernunnos end-joining functions in V(D)J recombination.
    Mol Cell. 2008 Sep 5;31(5):631-40 PMID: 18775323
  12. AID is required to initiate Nbs1/gamma-H2AX focus formation and mutations at sites of class switching.
    Nature. 2001 Dec 6;414(6864):660-665 PMID: 11740565
  13. AID mutant analyses indicate requirement for class-switch-specific cofactors.
    Nat Immunol. 2003 Sep;4(9):843-8 PMID: 12910268
  14. Cernunnos, a novel nonhomologous end-joining factor, is mutated in human immunodeficiency with microcephaly.
    Cell. 2006 Jan 27;124(2):287-99 PMID: 16439204
  15. Automated genotyping using the DNA MassArray technology.
    Methods Mol Biol. 2002;187:179-92 PMID: 12013745
  16. Live cell imaging of XLF and XRCC4 reveals a novel view of protein assembly in the non-homologous end-joining pathway.
    Cell Cycle. 2008 May 15;7(10):1321-5 PMID: 18418068
  17. Characterization of human gamma 4 switch region polymorphisms suggests a meiotic recombinational hot spot within the Ig locus: influence of S region length on IgG4 production.
    J Immunol. 1998 Oct 1;161(7):3520-6 PMID: 9759872
  18. MYC translocation and an increased copy number predict poor prognosis in adult diffuse large B-cell lymphoma (DLBCL), especially in germinal centre-like B cell (GCB) type.
    Histopathology. 2008 Aug;53(2):205-17 PMID: 18752503
  19. Alternative end joining during switch recombination in patients with ataxia-telangiectasia.
    Eur J Immunol. 2002 May;32(5):1300-8 PMID: 11981817
  20. Molecular analysis of IgA deficiency. Evidence for impaired switching to IgA.
    J Immunol. 1994 Feb 1;152(3):1442-52 PMID: 8301144
  21. XRCC4:DNA ligase IV can ligate incompatible DNA ends and can ligate across gaps.
    EMBO J. 2007 Feb 21;26(4):1010-23 PMID: 17290226
  22. AID is required for c-myc/IgH chromosome translocations in vivo.
    Cell. 2004 Aug 20;118(4):431-8 PMID: 15315756
  23. The mechanism of human nonhomologous DNA end joining.
    J Biol Chem. 2008 Jan 4;283(1):1-5 PMID: 17999957
  24. Antibody class switching.
    Adv Immunol. 1996;61:79-146 PMID: 8834495
  25. Aberrant immunoglobulin class switch recombination and switch translocations in activated B cell-like diffuse large B cell lymphoma.
    J Exp Med. 2007 Mar 19;204(3):633-43 PMID: 17353367
  26. XLF-Cernunnos promotes DNA ligase IV-XRCC4 re-adenylation following ligation.
    Nucleic Acids Res. 2009 Feb;37(2):482-92 PMID: 19056826
  27. Mechanisms of chromosomal translocations in B cell lymphomas.
    Oncogene. 2001 Sep 10;20(40):5580-94 PMID: 11607811
  28. The stability of AID and its function in class-switching are critically sensitive to the identity of its nuclear-export sequence.
    Proc Natl Acad Sci U S A. 2009 Apr 21;106(16):6736-41 PMID: 19351893
  29. Single-stranded DNA ligation and XLF-stimulated incompatible DNA end ligation by the XRCC4-DNA ligase IV complex: influence of terminal DNA sequence.
    Nucleic Acids Res. 2007;35(17):5755-62 PMID: 17717001
  30. Impaired induction of DNA lesions during immunoglobulin class-switch recombination in humans influences end-joining repair.
    Proc Natl Acad Sci U S A. 2010 Dec 21;107(51):22225-30 PMID: 21135220
  31. Combined polymerase chain reaction methods to detect c-myc/IgH rearrangement in childhood Burkitt's lymphoma for minimal residual disease analysis.
    Haematologica. 2004 Jul;89(7):818-25 PMID: 15257933
  32. Reduced immunoglobulin class switch recombination in the absence of Artemis.
    Blood. 2009 Oct 22;114(17):3601-9 PMID: 19692705
  33. C-terminal deletion of AID uncouples class switch recombination from somatic hypermutation and gene conversion.
    Mol Cell. 2003 Aug;12(2):501-8 PMID: 14536088
  34. Allotype-associated variation in the human gamma3 switch region as a basis for differences in IgG3 production.
    J Immunol. 1997 Jun 15;158(12):5849-59 PMID: 9190937
  35. Mechanism and control of V(D)J recombination at the immunoglobulin heavy chain locus.
    Annu Rev Immunol. 2006;24:541-70 PMID: 16551259
  36. AID is required for the chromosomal breaks in c-myc that lead to c-myc/IgH translocations.
    Cell. 2008 Dec 12;135(6):1028-38 PMID: 19070574
  37. Mechanisms that promote and suppress chromosomal translocations in lymphocytes.
    Annu Rev Immunol. 2011;29:319-50 PMID: 21219174
  38. Cernunnos/XLF: a new player in DNA double-strand break repair.
    Int J Biochem Cell Biol. 2009 Jun;41(6):1237-40 PMID: 18992362
  39. Human Ig S gamma regions and their participation in sequential switching to IgE.
    J Immunol. 1995 Sep 15;155(6):3021-36 PMID: 7673720
  40. Artemis, a novel DNA double-strand break repair/V(D)J recombination protein, is mutated in human severe combined immune deficiency.
    Cell. 2001 Apr 20;105(2):177-86 PMID: 11336668
  41. Class switch recombination and hypermutation require activation-induced cytidine deaminase (AID), a potential RNA editing enzyme.
    Cell. 2000 Sep 1;102(5):553-63 PMID: 11007474
  42. ATM is not required in somatic hypermutation of VH, but is involved in the introduction of mutations in the switch mu region.
    J Immunol. 2003 Apr 1;170(7):3707-16 PMID: 12646636
  43. Requirement for XLF/Cernunnos in alignment-based gap filling by DNA polymerases lambda and mu for nonhomologous end joining in human whole-cell extracts.
    Nucleic Acids Res. 2009 Jul;37(12):4055-62 PMID: 19420065
  44. Partial T and B lymphocyte immunodeficiency and predisposition to lymphoma in patients with hypomorphic mutations in Artemis.
    J Clin Invest. 2003 Feb;111(3):381-7 PMID: 12569164
  45. Class-switch recombination: interplay of transcription, DNA deamination and DNA repair.
    Nat Rev Immunol. 2004 Jul;4(7):541-52 PMID: 15229473
  46. Microphthalmia, facial anomalies, microcephaly, thumb and hallux hypoplasia, and agammaglobulinemia.
    Am J Med Genet. 2001 Jul 1;101(3):209-12 PMID: 11424135
  47. Human non-synonymous SNPs: server and survey.
    Nucleic Acids Res. 2002 Sep 1;30(17):3894-900 PMID: 12202775
  48. Sequences of human immunoglobulin switch regions: implications for recombination and transcription.
    Nucleic Acids Res. 1990 Dec 25;18(24):7305-16 PMID: 2124350
  49. Non-homologous end joining in class switch recombination: the beginning of the end.
    Philos Trans R Soc Lond B Biol Sci. 2009 Mar 12;364(1517):653-65 PMID: 19008195
  50. Immunoglobulin class switch recombination deficiencies.
    Clin Immunol. 2010 May;135(2):193-203 PMID: 20167540
  51. Double-hit B-cell lymphomas.
    Blood. 2011 Feb 24;117(8):2319-31 PMID: 21119107
  52. Immunoglobulin heavy chain variable region gene usage and mutational status of the leukemic B cells in Iranian patients with chronic lymphocytic leukemia.
    Cancer Sci. 2009 Dec;100(12):2346-53 PMID: 19824994
  53. Improved long-distance polymerase chain reaction for the detection of t(8;14)(q24;q32) in Burkitt's lymphomas.
    Am J Pathol. 1999 Nov;155(5):1479-85 PMID: 10550304
  54. The t(14;18) chromosome translocations involved in B-cell neoplasms result from mistakes in VDJ joining.
    Science. 1985 Sep 27;229(4720):1390-3 PMID: 3929382
  55. Extent to which hairpin opening by the Artemis:DNA-PKcs complex can contribute to junctional diversity in V(D)J recombination.
    Nucleic Acids Res. 2007;35(20):6917-23 PMID: 17932067
  56. Artemis and p53 cooperate to suppress oncogenic N-myc amplification in progenitor B cells.
    Proc Natl Acad Sci U S A. 2004 Feb 24;101(8):2410-5 PMID: 14983023
  57. Length-dependent binding of human XLF to DNA and stimulation of XRCC4.DNA ligase IV activity.
    J Biol Chem. 2007 Apr 13;282(15):11155-62 PMID: 17317666
  58. Unrepaired DNA breaks in p53-deficient cells lead to oncogenic gene amplification subsequent to translocations.
    Cell. 2002 Jun 28;109(7):811-21 PMID: 12110179
  59. Cellular and biochemical impact of a mutation in DNA ligase IV conferring clinical radiosensitivity.
    J Biol Chem. 2001 Aug 17;276(33):31124-32 PMID: 11349135
  60. The RAG-1/2 endonuclease causes genomic instability and controls CNS complications of lymphoblastic leukemia in p53/Prkdc-deficient mice.
    Cancer Cell. 2003 Jan;3(1):37-50 PMID: 12559174
  61. Crystal structure of human XLF: a twist in nonhomologous DNA end-joining.
    Mol Cell. 2007 Dec 28;28(6):1093-101 PMID: 18158905
  62. Oncogenic transformation in the absence of Xrcc4 targets peripheral B cells that have undergone editing and switching.
    J Exp Med. 2008 Dec 22;205(13):3079-90 PMID: 19064702
  63. Insights into the molecular pathogenesis of follicular lymphoma arising from analysis of geographic variation.
    Blood. 2002 Jun 15;99(12):4265-75 PMID: 12036852
  64. Polymorphisms in DNA repair genes and risk of non-Hodgkin lymphoma in a pooled analysis of three studies.
    Br J Haematol. 2010 Nov;151(3):239-44 PMID: 20813000
  65. Regulation of switching and production of IgA in human B cells in donors with duplicated alpha1 genes.
    Eur J Immunol. 2001 Dec;31(12):3622-30 PMID: 11745382
  66. Ig Sgamma3 DNA-specifc double strand breaks are induced in mitogen-activated B cells and are implicated in switch recombination.
    J Immunol. 1997 Nov 1;159(9):4139-44 PMID: 9379005
  67. Risk of non-Hodgkin lymphoma (NHL) in relation to germline variation in DNA repair and related genes.
    Blood. 2006 Nov 1;108(9):3161-7 PMID: 16857995
  68. XLF interacts with the XRCC4-DNA ligase IV complex to promote DNA nonhomologous end-joining.
    Cell. 2006 Jan 27;124(2):301-13 PMID: 16439205
  69. Evidence for replicative repair of DNA double-strand breaks leading to oncogenic translocation and gene amplification.
    J Exp Med. 2002 Aug 19;196(4):469-80 PMID: 12186839
  70. Crystal structure of human XLF/Cernunnos reveals unexpected differences from XRCC4 with implications for NHEJ.
    EMBO J. 2008 Jan 9;27(1):290-300 PMID: 18046455
  71. ATM damage response and XLF repair factor are functionally redundant in joining DNA breaks.
    Nature. 2011 Jan 13;469(7329):250-4 PMID: 21160472
  72. Involvement of Artemis in nonhomologous end-joining during immunoglobulin class switch recombination.
    J Exp Med. 2008 Dec 22;205(13):3031-40 PMID: 19075292
  73. Severe combined immunodeficiency and microcephaly in siblings with hypomorphic mutations in DNA ligase IV.
    Eur J Immunol. 2006 Jan;36(1):224-35 PMID: 16358361
  74. Impact of DNA ligase IV on nonhomologous end joining pathways during class switch recombination in human cells.
    J Exp Med. 2005 Jan 17;201(2):189-94 PMID: 15657289
  75. The role of mechanistic factors in promoting chromosomal translocations found in lymphoid and other cancers.
    Adv Immunol. 2010;106:93-133 PMID: 20728025
  76. Different types of V(D)J recombination and end-joining defects in DNA double-strand break repair mutant mammalian cells.
    Eur J Immunol. 2002 Mar;32(3):701-9 PMID: 11870614
  77. Confirmation of the molecular classification of diffuse large B-cell lymphoma by immunohistochemistry using a tissue microarray.
    Blood. 2004 Jan 1;103(1):275-82 PMID: 14504078
  78. Mechanism and regulation of human non-homologous DNA end-joining.
    Nat Rev Mol Cell Biol. 2003 Sep;4(9):712-20 PMID: 14506474
  79. Targeting of human switch recombination breakpoints: implications for the mechanism of mu-gamma isotype switching.
    Eur J Immunol. 1999 Sep;29(9):2779-87 PMID: 10508252
  80. XLF regulates filament architecture of the XRCC4·ligase IV complex.
    Structure. 2010 Nov 10;18(11):1431-42 PMID: 21070942
Article Info
Journal
The Journal of experimental medicine
Abbr.
J Exp Med
ISSN
1540-9538
Published
2012-02-13
Epub
2012-00-06
Pages
291-305
Language
English
Region
United States
NLM ID
2985109R
PMCID
PMC3280866
Subset
IM
Grants
European Research Council · 242551 · International
Analysis Services
Analysis Services

Contact

No. 2 Wenbo Road, Zhangqiu District, Jinan, Shandong

Qilu Normal University · Genelibs Bioinformatics Lab

750 Shunhua Rd, Jinan

2F, Bldg F, University Science Park

Tel: 0531-88819269

WeChat Official Account

Follow our WeChat subscription account for real-time updates and the latest in medical and biological research.


Business Email

E-mail: product@genelibs.com