AID/APOBEC cytosine deaminase induces genome-wide kataegis

Biology Direct

Volumn 7, Issue , 2012, Pages

  Lada, Artem G ^a   Dhar, Alok ^b   Boissy, Robert J ^b   Hirano, Masayuki ^c   Rubel, Aleksandr A ^d,e   Rogozin, Igor B ^f,g   Pavlov, Youri I ^a,d  

^a UNIVERSITY OF NEBRASKA MEDICAL CENTER   (United States)

^b UNIVERSITY OF NEBRASKA MEDICAL CENTER   (United States)

^c EMORY UNIVERSITY SCHOOL OF MEDICINE   (United States)

^d ST PETERSBURG STATE UNIVERSITY   (Russian Federation)

^e VAVILOV INSTITUTE OF GENERAL GENETICS   (Russian Federation)

^f NATIONAL INSTITUTES OF HEALTH   (United States)

^g INSTITUTE OF CYTOLOGY AND GENETICS   (Russian Federation)

Author keywords

APOBEC; Cancer; Deaminase; Diploid yeast; Hypermutation; Kataegis; Mutation

Indexed keywords

PETROMYZON; PETROMYZON MARINUS;

AICDA (ACTIVATION INDUCED CYTIDINE DEAMINASE); AICDA (ACTIVATION-INDUCED CYTIDINE DEAMINASE); CYTIDINE DEAMINASE;

ANIMAL; ARTICLE; BREAST TUMOR; GENE EXPRESSION REGULATION; GENETIC ASSOCIATION; GENETICS; LAMPREY; METABOLISM; MOLECULAR EVOLUTION; MULTIGENE FAMILY; MUTATION; SACCHAROMYCES CEREVISIAE; SEQUENCE ANALYSIS;

ANIMALS; BREAST NEOPLASMS; CYTIDINE DEAMINASE; EVOLUTION, MOLECULAR; GENE EXPRESSION REGULATION; GENOME-WIDE ASSOCIATION STUDY; LAMPREYS; MULTIGENE FAMILY; MUTATION; SACCHAROMYCES CEREVISIAE; SEQUENCE ANALYSIS, PROTEIN;

MLCS; MLOWN;

EID: 84871174239     PISSN: None     EISSN: 17456150     Source Type: Journal    
DOI: 10.1186/1745-6150-7-47     Document Type: Article

References (15)

1. Loeb LA. Human cancers express mutator phenotypes: origin, consequences and targeting. Nat Rev Cancer 2011, 11:450-457. 10.1038/nrc3063, 21593786.
2. Nik-Zainal S, Alexandrov LB, Wedge DC, Van Loo P, Greenman CD, Raine K, Jones D, Hinton J, Marshall J, Stebbings LA, et al. Mutational processes molding the genomes of 21 breast cancers. Cell 2012, 149:979-993. 10.1016/j.cell.2012.04.024, 3414841, 22608084.
3. Roberts SA, Sterling J, Thompson C, Harris S, Mav D, Shah R, Klimczak LJ, Kryukov GV, Malc E, Mieczkowski PA, et al. Clustered mutations in yeast and in human cancers can arise from damaged long single-strand DNA regions. Mol Cell 2012, 46:424-435. 10.1016/j.molcel.2012.03.030, 22607975.
4. Pham P, Bransteitter R, Petruska J, Goodman MF. Processive AID-catalysed cytosine deamination on single-stranded DNA simulates somatic hypermutation. Nature 2003, 424:103-107. 10.1038/nature01760, 12819663.
5. Lada AG, Waisertreiger IS, Grabow CE, Prakash A, Borgstahl GE, Rogozin IB, Pavlov YI. Replication protein A (RPA) hampers the processive action of APOBEC3G cytosine deaminase on single-stranded DNA. PLoS One 2011, 6:e24848. 10.1371/journal.pone.0024848, 3174200, 21935481.
6. Liu M, Duke JL, Richter DJ, Vinuesa CG, Goodnow CC, Kleinstein SH, Schatz DG. Two levels of protection for the B cell genome during somatic hypermutation. Nature 2008, 451:841-845. 10.1038/nature06547, 18273020.
7. Shinohara M, Io K, Shindo K, Matsui M, Sakamoto T, Tada K, Kobayashi M, Kadowaki N, Takaori-Kondo A. APOBEC3B can impair genomic stability by inducing base substitutions in genomic DNA in human cells. Sci Rep 2012, 2:806. 3496164, 23150777.
8. Poltoratsky V, Heacock M, Kissling GE, Prasad R, Wilson SH. Mutagenesis dependent upon the combination of activation-induced deaminase expression and a double-strand break. Mol Immunol 2010, 48:164-170. 10.1016/j.molimm.2010.08.013, 3023910, 20828826.
9. Rogozin IB, Iyer LM, Liang L, Glazko GV, Liston VG, Pavlov YI, Aravind L, Pancer Z. Evolution and diversification of lamprey antigen receptors: evidence for involvement of an AID-APOBEC family cytosine deaminase. Nat Immunol 2007, 8:647-656.
10. Conticello SG, Langlois MA, Yang Z, Neuberger MS. DNA deamination in immunity: AID in the context of its APOBEC relatives. Adv Immunol 2007, 94:37-73.
11. Waisertreiger IS, Liston VG, Menezes MR, Kim HM, Lobachev KS, Stepchenkova EI, Tahirov TH, Rogozin IB, Pavlov YI. Modulation of mutagenesis in eukaryotes by DNA replication fork dynamics and quality of nucleotide pools. Environ Mol Mutagen 2012, 53:699-724. 10.1002/em.21735, 23055184.
12. Kozmin SG, Schaaper RM, Shcherbakova PV, Kulikov VN, Noskov VN, Guetsova ML, Alenin VV, Rogozin IB, Makarova KS, Pavlov YI. Multiple antimutagenesis mechanisms affect mutagenic activity and specificity of the base analog 6-N-hydroxylaminopurine in bacteria and yeast. Mutat Res 1998, 402:41-50. 10.1016/S0027-5107(97)00280-7, 9675240.
13. Bohning D, Dietz E, Schlattmann P. Recent developments in computer-assisted analysis of mixtures. Biometrics 1998, 54:525-536. 10.2307/3109760, 9660629.
14. Rogozin IB, Pavlov YI. Theoretical analysis of mutation hotspots and their DNA sequence context specificity. Mutat Res 2003, 544:65-85. 10.1016/S1383-5742(03)00032-2, 12888108.
15. Iyer LM, Zhang D, Rogozin IB, Aravind L. Evolution of the deaminase fold and multiple origins of eukaryotic editing and mutagenic nucleic acid deaminases from bacterial toxin systems. Nucleic Acids Res 2011, 39:9473-9497. 10.1093/nar/gkr691, 3239186, 21890906.