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Volumn 32, Issue 10, 2012, Pages 2030-2040

Nucleosome stability dramatically impacts the targeting of somatic hypermutation

Author keywords

[No Author keywords available]

Indexed keywords

IMMUNOGLOBULIN; MP2 PROTEIN; PROTEIN; RNA POLYMERASE; UNCLASSIFIED DRUG;

EID: 84861371523     PISSN: 02707306     EISSN: 10985549     Source Type: Journal    
DOI: 10.1128/MCB.06722-11     Document Type: Article
Times cited : (22)

References (43)
  • 1
    • 0034598944 scopus 로고    scopus 로고
    • Sequence and position-dependence of the equilibrium accessibility of nucleosomal DNA target sites
    • Anderson JD, Widom J. 2000. Sequence and position-dependence of the equilibrium accessibility of nucleosomal DNA target sites. J. Mol. Biol. 296:979-987.
    • (2000) J. Mol. Biol. , vol.296 , pp. 979-987
    • Anderson, J.D.1    Widom, J.2
  • 2
    • 19344367559 scopus 로고    scopus 로고
    • Activation-induced cytidine deaminase initiates immunoglobulin gene conversion and hypermutation by a common intermediate
    • Arakawa H, Saribasak H, Buerstedde JM. 2004. Activation-induced cytidine deaminase initiates immunoglobulin gene conversion and hypermutation by a common intermediate. PLoS Biol. 2:E179.
    • (2004) PLoS Biol , vol.2
    • Arakawa, H.1    Saribasak, H.2    Buerstedde, J.M.3
  • 3
    • 0028270307 scopus 로고
    • Elements regulating somatic hypermutation of an immunoglobulin kappa gene: critical role for the intron enhancer/matrix attachment region
    • Betz AG, et al. 1994. Elements regulating somatic hypermutation of an immunoglobulin kappa gene: critical role for the intron enhancer/matrix attachment region. Cell 77:239-248.
    • (1994) Cell , vol.77 , pp. 239-248
    • Betz, A.G.1
  • 4
    • 0037452080 scopus 로고    scopus 로고
    • Transcription-targeted DNA deamination by the AID antibody diversification enzyme
    • Chaudhuri J, et al. 2003. Transcription-targeted DNA deamination by the AID antibody diversification enzyme. Nature 422:726-730.
    • (2003) Nature , vol.422 , pp. 726-730
    • Chaudhuri, J.1
  • 5
    • 67650725820 scopus 로고    scopus 로고
    • The biology of chromatin remodeling complexes
    • Clapier CR, Cairns BR. 2009. The biology of chromatin remodeling complexes. Annu. Rev. Biochem. 78:273-304.
    • (2009) Annu. Rev. Biochem. , vol.78 , pp. 273-304
    • Clapier, C.R.1    Cairns, B.R.2
  • 6
    • 67650744339 scopus 로고    scopus 로고
    • Primary B cell immunodeficiencies: comparisons and contrasts
    • Conley ME, et al. 2009. Primary B cell immunodeficiencies: comparisons and contrasts. Annu. Rev. Immunol. 27:199-227.
    • (2009) Annu. Rev. Immunol. , vol.27 , pp. 199-227
    • Conley, M.E.1
  • 7
    • 77956184148 scopus 로고    scopus 로고
    • The histone shuffle: histone chaperones in an energetic dance
    • Das C, Tyler JK, Churchill ME. 2010. The histone shuffle: histone chaperones in an energetic dance. Trends Biochem. Sci. 35:476-489.
    • (2010) Trends Biochem. Sci. , vol.35 , pp. 476-489
    • Das, C.1    Tyler, J.K.2    Churchill, M.E.3
  • 9
    • 77957659555 scopus 로고    scopus 로고
    • Cytidine deaminases: AIDing DNA demethylation?
    • Fritz EL, Papavasiliou FN. 2010. Cytidine deaminases: AIDing DNA demethylation? Genes Dev. 24:2107-2114.
    • (2010) Genes Dev , vol.24 , pp. 2107-2114
    • Fritz, E.L.1    Papavasiliou, F.N.2
  • 10
    • 79956057367 scopus 로고    scopus 로고
    • A polar barrier to transcription can be circumvented by remodeler-induced nucleosome translocation
    • Gaykalova DA, et al. 2011. A polar barrier to transcription can be circumvented by remodeler-induced nucleosome translocation. Nucleic Acids Res. 39:3520-3528.
    • (2011) Nucleic Acids Res , vol.39 , pp. 3520-3528
    • Gaykalova, D.A.1
  • 11
    • 77955407609 scopus 로고    scopus 로고
    • An in vitro-identified high-affinity nucleosomepositioning signal is capable of transiently positioning a nucleosome in vivo
    • Gracey LE, et al. 2010. An in vitro-identified high-affinity nucleosomepositioning signal is capable of transiently positioning a nucleosome in vivo. Epigenetics Chromatin 3:13.
    • (2010) Epigenetics Chromatin , vol.3 , pp. 13
    • Gracey, L.E.1
  • 12
    • 64249157351 scopus 로고    scopus 로고
    • Epigenetic reprogramming and induced pluripotency
    • Hochedlinger K, Plath K. 2009. Epigenetic reprogramming and induced pluripotency. Development 136:509-523.
    • (2009) Development , vol.136 , pp. 509-523
    • Hochedlinger, K.1    Plath, K.2
  • 13
    • 77953287072 scopus 로고    scopus 로고
    • Synergistic action of RNA polymerases in overcoming the nucleosomal barrier
    • Jin J, et al. 2010. Synergistic action of RNA polymerases in overcoming the nucleosomal barrier. Nat. Struct. Mol. Biol. 17:745-752.
    • (2010) Nat. Struct. Mol. Biol. , vol.17 , pp. 745-752
    • Jin, J.1
  • 15
    • 3542998667 scopus 로고    scopus 로고
    • Nucleosomes facilitate their own invasion
    • Li G, Widom J. 2004. Nucleosomes facilitate their own invasion. Nat. Struct. Mol. Biol. 11:763-769.
    • (2004) Nat. Struct. Mol. Biol. , vol.11 , pp. 763-769
    • Li, G.1    Widom, J.2
  • 17
    • 0032512794 scopus 로고    scopus 로고
    • New DNA sequence rules for high affinity binding to histone octamer and sequence-directed nucleosome positioning
    • Lowary PT, Widom J. 1998. New DNA sequence rules for high affinity binding to histone octamer and sequence-directed nucleosome positioning. J. Mol. Biol. 276:19-42.
    • (1998) J. Mol. Biol. , vol.276 , pp. 19-42
    • Lowary, P.T.1    Widom, J.2
  • 18
    • 1842411320 scopus 로고    scopus 로고
    • Crystal structure of the nucleosome core particle at 2.8 A resolution
    • Luger K, Mader AW, Richmond RK, Sargent DF, Richmond TJ. 1997. Crystal structure of the nucleosome core particle at 2.8 A resolution. Nature 389:251-260.
    • (1997) Nature , vol.389 , pp. 251-260
    • Luger, K.1    Mader, A.W.2    Richmond, R.K.3    Sargent, D.F.4    Richmond, T.J.5
  • 19
    • 69949176722 scopus 로고    scopus 로고
    • Acetylation of histone H3 at the nucleosome dyad alters DNA-histone binding
    • Manohar M, et al. 2009. Acetylation of histone H3 at the nucleosome dyad alters DNA-histone binding. J. Biol. Chem. 284:23312-23321.
    • (2009) J. Biol. Chem. , vol.284 , pp. 23312-23321
    • Manohar, M.1
  • 20
    • 0036169650 scopus 로고    scopus 로고
    • Effects of sequence and structure on the hypermutability of immunoglobulin genes
    • Michael N, et al. 2002. Effects of sequence and structure on the hypermutability of immunoglobulin genes. Immunity 16:123-134.
    • (2002) Immunity , vol.16 , pp. 123-134
    • Michael, N.1
  • 21
    • 10644282845 scopus 로고    scopus 로고
    • Activation-induced cytidine deaminase deaminates 5-methylcytosine in DNA and is expressed in pluripotent tissues: implications for epigenetic reprogramming
    • Morgan HD, Dean W, Coker HA, Reik W, Petersen-Mahrt SK. 2004. Activation-induced cytidine deaminase deaminates 5-methylcytosine in DNA and is expressed in pluripotent tissues: implications for epigenetic reprogramming. J. Biol. Chem. 279:52353-52360.
    • (2004) J. Biol. Chem. , vol.279 , pp. 52353-52360
    • Morgan, H.D.1    Dean, W.2    Coker, H.A.3    Reik, W.4    Petersen-Mahrt, S.K.5
  • 22
    • 68149108057 scopus 로고    scopus 로고
    • Using DNA mechanics to predict in vitro nucleosome positions and formation energies
    • Morozov AV, et al. 2009. Using DNA mechanics to predict in vitro nucleosome positions and formation energies. Nucleic Acids Res. 37: 4707-4722.
    • (2009) Nucleic Acids Res , vol.37 , pp. 4707-4722
    • Morozov, A.V.1
  • 23
    • 67651101173 scopus 로고    scopus 로고
    • Chromatin remodelers act globally, sequence positions nucleosomes locally
    • Partensky PD, Narlikar GJ. 2009. Chromatin remodelers act globally, sequence positions nucleosomes locally. J. Mol. Biol. 391:12-25.
    • (2009) J. Mol. Biol. , vol.391 , pp. 12-25
    • Partensky, P.D.1    Narlikar, G.J.2
  • 24
    • 36949015428 scopus 로고    scopus 로고
    • Oncogenic events triggered by AID, the adverse effect of antibody diversification
    • Perez-Duran P, de Yebenes VG, Ramiro AR. 2007. Oncogenic events triggered by AID, the adverse effect of antibody diversification. Carcinogenesis 28:2427-2433.
    • (2007) Carcinogenesis , vol.28 , pp. 2427-2433
    • Perez-Duran, P.1    de Yebenes, V.G.2    Ramiro, A.R.3
  • 25
    • 0030063726 scopus 로고    scopus 로고
    • Somatic hypermutation of immunoglobulin genes is linked to transcription initiation
    • Peters A, Storb U. 1996. Somatic hypermutation of immunoglobulin genes is linked to transcription initiation. Immunity 4:57-65.
    • (1996) Immunity , vol.4 , pp. 57-65
    • Peters, A.1    Storb, U.2
  • 26
    • 17344392308 scopus 로고    scopus 로고
    • A new mathematical model for relative quantification in real-time RT-PCR
    • Pfaffl MW. 2001. A new mathematical model for relative quantification in real-time RT-PCR. Nucleic Acids Res. 29:e45.
    • (2001) Nucleic Acids Res , vol.29
    • Pfaffl, M.W.1
  • 27
    • 0037926476 scopus 로고    scopus 로고
    • Processive AID-catalysed cytosine deamination on single-stranded DNA simulates somatic hypermutation
    • Pham P, Bransteitter R, Petruska J, Goodman MF. 2003. Processive AID-catalysed cytosine deamination on single-stranded DNA simulates somatic hypermutation. Nature 424:103-107.
    • (2003) Nature , vol.424 , pp. 103-107
    • Pham, P.1    Bransteitter, R.2    Petruska, J.3    Goodman, M.F.4
  • 28
    • 44149119036 scopus 로고    scopus 로고
    • Spontaneous access to DNA target sites in folded chromatin fibers
    • Poirier MG, Bussiek M, Langowski J, Widom J. 2008. Spontaneous access to DNA target sites in folded chromatin fibers. J. Mol. Biol. 379: 772-786.
    • (2008) J. Mol. Biol. , vol.379 , pp. 772-786
    • Poirier, M.G.1    Bussiek, M.2    Langowski, J.3    Widom, J.4
  • 29
    • 0028791330 scopus 로고
    • Mechanism of protein access to specific DNA sequences in chromatin: a dynamic equilibrium model for gene regulation
    • Polach KJ, Widom J. 1995. Mechanism of protein access to specific DNA sequences in chromatin: a dynamic equilibrium model for gene regulation. J. Mol. Biol. 254:130-149.
    • (1995) J. Mol. Biol. , vol.254 , pp. 130-149
    • Polach, K.J.1    Widom, J.2
  • 30
    • 77249148019 scopus 로고    scopus 로고
    • Genome-wide erasure of DNA methylation in mouse primordial germ cells is affected by AID deficiency
    • Popp C, et al. 2010. Genome-wide erasure of DNA methylation in mouse primordial germ cells is affected by AID deficiency. Nature 463:1101-1105.
    • (2010) Nature , vol.463 , pp. 1101-1105
    • Popp, C.1
  • 31
    • 57649196594 scopus 로고    scopus 로고
    • DNA demethylation in zebrafish involves the coupling of a deaminase, a glycosylase, and gadd45
    • Rai K, et al. 2008. DNA demethylation in zebrafish involves the coupling of a deaminase, a glycosylase, and gadd45. Cell 135:1201-1212.
    • (2008) Cell , vol.135 , pp. 1201-1212
    • Rai, K.1
  • 32
    • 33747500567 scopus 로고    scopus 로고
    • A genomic code for nucleosome positioning
    • Segal E, et al. 2006. A genomic code for nucleosome positioning. Nature 442:772-778.
    • (2006) Nature , vol.442 , pp. 772-778
    • Segal, E.1
  • 33
    • 66049129496 scopus 로고    scopus 로고
    • The activation-induced cytidine deaminase (AID) efficiently targets DNA in nucleosomes but only during transcription
    • Shen HM, et al. 2009. The activation-induced cytidine deaminase (AID) efficiently targets DNA in nucleosomes but only during transcription. J. Exp. Med. 206:1057-1071.
    • (2009) J. Exp. Med. , vol.206 , pp. 1057-1071
    • Shen, H.M.1
  • 34
    • 28544447014 scopus 로고    scopus 로고
    • Targeting of the activation-induced cytosine deaminase is strongly influenced by the sequence and structure of the targeted DNA
    • Shen HM, Ratnam S, Storb U. 2005. Targeting of the activation-induced cytosine deaminase is strongly influenced by the sequence and structure of the targeted DNA. Mol. Cell. Biol. 25:10815-10821.
    • (2005) Mol. Cell. Biol. , vol.25 , pp. 10815-10821
    • Shen, H.M.1    Ratnam, S.2    Storb, U.3
  • 37
    • 70349934757 scopus 로고    scopus 로고
    • Somatic hypermutation: processivity of the cytosine deaminase AID and error-free repair of the resulting uracils
    • Storb U, Shen HM, Nicolae D. 2009. Somatic hypermutation: processivity of the cytosine deaminase AID and error-free repair of the resulting uracils. Cell Cycle 8:3097-3101.
    • (2009) Cell Cycle , vol.8 , pp. 3097-3101
    • Storb, U.1    Shen, H.M.2    Nicolae, D.3
  • 39
    • 0028125847 scopus 로고
    • A histone octamer can step around a transcribing polymerase without leaving the template
    • Studitsky VM, Clark DJ, Felsenfeld G. 1994. A histone octamer can step around a transcribing polymerase without leaving the template. Cell 76: 371-382.
    • (1994) Cell , vol.76 , pp. 371-382
    • Studitsky, V.M.1    Clark, D.J.2    Felsenfeld, G.3
  • 40
    • 0039837085 scopus 로고    scopus 로고
    • Sequence motifs and free energies of selected natural and non-natural nucleosome positioning DNA sequences
    • Thastrom A, et al. 1999. Sequence motifs and free energies of selected natural and non-natural nucleosome positioning DNA sequences. J. Mol. Biol. 288:213-229.
    • (1999) J. Mol. Biol. , vol.288 , pp. 213-229
    • Thastrom, A.1
  • 41
    • 0031564633 scopus 로고    scopus 로고
    • Identification and characterization of genomic nucleosome-positioning sequences
    • Widlund HR, et al. 1997. Identification and characterization of genomic nucleosome-positioning sequences. J. Mol. Biol. 267:807-817.
    • (1997) J. Mol. Biol. , vol.267 , pp. 807-817
    • Widlund, H.R.1
  • 42
    • 0026517738 scopus 로고
    • A relationship between the helical twist of DNA and the ordered positioning of nucleosomes in all eukaryotic cells
    • Widom J. 1992. A relationship between the helical twist of DNA and the ordered positioning of nucleosomes in all eukaryotic cells. Proc. Natl. Acad. Sci. U. S. A. 89:1095-1099.
    • (1992) Proc. Natl. Acad. Sci. U. S. A. , vol.89 , pp. 1095-1099
    • Widom, J.1
  • 43
    • 68249142923 scopus 로고    scopus 로고
    • Intrinsic histone-DNA interactions are not the major determinant of nucleosome positions in vivo
    • Zhang Y, et al. 2009. Intrinsic histone-DNA interactions are not the major determinant of nucleosome positions in vivo. Nat. Struct. Mol. Biol. 16:847-852.
    • (2009) Nat. Struct. Mol. Biol. , vol.16 , pp. 847-852
    • Zhang, Y.1


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.