메뉴 건너뛰기




Volumn 42, Issue 4, 2014, Pages 2235-2244

Collaboration between CpG sites is needed for stable somatic inheritance of DNA methylation states

Author keywords

[No Author keywords available]

Indexed keywords

GENOMIC DNA;

EID: 84895779535     PISSN: 03051048     EISSN: 13624962     Source Type: Journal    
DOI: 10.1093/nar/gkt1235     Document Type: Article
Times cited : (66)

References (53)
  • 1
    • 70350046301 scopus 로고    scopus 로고
    • Rethinking how DNA methylation patterns are maintained
    • Jones, P.A. and Liang, G. (2009) Rethinking how DNA methylation patterns are maintained. Nat. Rev. Genet., 10, 805-811.
    • (2009) Nat. Rev. Genet. , vol.10 , pp. 805-811
    • Jones, P.A.1    Liang, G.2
  • 2
    • 84861912630 scopus 로고    scopus 로고
    • Programming of DNA methylation patterns
    • Cedar, H. and Bergman, Y. (2012) Programming of DNA methylation patterns. Ann. Rev. Biochem., 81, 97-117.
    • (2012) Ann. Rev. Biochem. , vol.81 , pp. 97-117
    • Cedar, H.1    Bergman, Y.2
  • 3
    • 0036144048 scopus 로고    scopus 로고
    • DNA methylation patterns and epigenetic memory
    • Bird, A. (2002) DNA methylation patterns and epigenetic memory. Genes Development, 16, 6-21.
    • (2002) Genes Development , vol.16 , pp. 6-21
    • Bird, A.1
  • 8
    • 79960530899 scopus 로고    scopus 로고
    • Genomic imprinting: The emergence of an epigenetic paradigm
    • Ferguson-Smith, A.C. (2011) Genomic imprinting: the emergence of an epigenetic paradigm. Nat. Rev. Genet., 12, 565-575.
    • (2011) Nat. Rev. Genet. , vol.12 , pp. 565-575
    • Ferguson-Smith, A.C.1
  • 9
    • 0036145156 scopus 로고    scopus 로고
    • Cancer as an epigenetic disease: DNA methylation and chromatin alterations in human tumours
    • Esteller, M. and Herman, J.G. (2002) Cancer as an epigenetic disease: DNA methylation and chromatin alterations in human tumours. J. Pathol., 196, 1-7.
    • (2002) J. Pathol. , vol.196 , pp. 1-7
    • Esteller, M.1    Herman, J.G.2
  • 10
    • 77957970301 scopus 로고    scopus 로고
    • Epigenetic modifications and human disease
    • Portela, A. and Esteller, M. (2010) Epigenetic modifications and human disease. Nat. Biotechnol., 28, 1057-1068.
    • (2010) Nat. Biotechnol. , vol.28 , pp. 1057-1068
    • Portela, A.1    Esteller, M.2
  • 12
    • 0016439429 scopus 로고
    • DNA modification mechanisms and gene activity during development
    • Holliday, R. and Pugh, J.E. (1975) DNA modification mechanisms and gene activity during development. Science, 187, 226-232.
    • (1975) Science , vol.187 , pp. 226-232
    • Holliday, R.1    Pugh, J.E.2
  • 13
    • 0016692220 scopus 로고
    • X inactivation differentiation, and DNA methylation
    • Riggs, A.D. (1975) X inactivation, differentiation, and DNA methylation. Cytogenet. Genome Res., 14, 9-25.
    • (1975) Cytogenet. Genome Res. , vol.14 , pp. 9-25
    • Riggs, A.D.1
  • 14
    • 33644849860 scopus 로고    scopus 로고
    • Accuracy of DNA methylation pattern preservation by the Dnmt1 methyltransferase
    • Goyal, R., Reinhardt, R. and Jeltsch, A. (2006) Accuracy of DNA methylation pattern preservation by the Dnmt1 methyltransferase. Nucleic Acids Res., 34, 1182-1188.
    • (2006) Nucleic Acids Res. , vol.34 , pp. 1182-1188
    • Goyal, R.1    Reinhardt, R.2    Jeltsch, A.3
  • 15
    • 0033615717 scopus 로고    scopus 로고
    • DNA methyltransferases Dnmt3a and Dnmt3b are essential for de novo methylation and mammalian development
    • Okano, M., Bell, D.W., Haber, D.A. and Li, E. (1999) DNA methyltransferases Dnmt3a and Dnmt3b are essential for de novo methylation and mammalian development. Cell, 99, 247-257.
    • (1999) Cell , vol.99 , pp. 247-257
    • Okano, M.1    Bell, D.W.2    Haber, D.A.3    Li, E.4
  • 16
    • 0032102949 scopus 로고    scopus 로고
    • Dnmt2 is not required for de novo and maintenance methylation of viral DNA in embryonic stem cells
    • Okano, M., Xie, S. and Li, E. (1998) Dnmt2 is not required for de novo and maintenance methylation of viral DNA in embryonic stem cells. Nucleic Acids Res., 26, 2536-2540.
    • (1998) Nucleic Acids Res. , vol.26 , pp. 2536-2540
    • Okano, M.1    Xie, S.2    Li, E.3
  • 17
    • 17644398266 scopus 로고    scopus 로고
    • Hemimethylation and non-CpG methylation levels in a promoter region of human LINE-1 (L1) repeated elements
    • Burden, A.F., Manley, N.C., Clark, A.D., Gartler, S.M., Laird, C.D. and Hansen, R.S. (2005) Hemimethylation and non-CpG methylation levels in a promoter region of human LINE-1 (L1) repeated elements. J. Biol. Chem., 280, 14413-14419.
    • (2005) J. Biol. Chem. , vol.280 , pp. 14413-14419
    • Burden, A.F.1    Manley, N.C.2    Clark, A.D.3    Gartler, S.M.4    Laird, C.D.5    Hansen, R.S.6
  • 18
    • 0036837862 scopus 로고    scopus 로고
    • DNA methylation density influences the stability of an epigenetic imprint and Dnmt3a/b-independent de novo methylation
    • Lorincz, M.C., Schubeler, D., Hutchinson, S.R., Dickerson, D.R. and Groudine, M. (2002) DNA methylation density influences the stability of an epigenetic imprint and Dnmt3a/b-independent de novo methylation. Mol. Cell. Biol., 22, 7572-7580.
    • (2002) Mol. Cell. Biol. , vol.22 , pp. 7572-7580
    • Lorincz, M.C.1    Schubeler, D.2    Hutchinson, S.R.3    Dickerson, D.R.4    Groudine, M.5
  • 20
    • 80052933429 scopus 로고    scopus 로고
    • DNA demethylation dynamics
    • Bhutani, N., Burns, D.M. and Blau, H.M. (2011) DNA demethylation dynamics. Cell, 146, 866-872.
    • (2011) Cell , vol.146 , pp. 866-872
    • Bhutani, N.1    Burns, D.M.2    Blau, H.M.3
  • 21
    • 0025119812 scopus 로고
    • Polymerase chain reaction-aided genomic sequencing of an X chromosome-linked CpG island: Methylation patterns suggest clonal inheritance, CpG site autonomy, and an explanation of activity state stability
    • Pfeifer, G.P., Steigerwald, S.D., Hansen, R.S., Gartler, S.M. and Riggs, A.D. (1990) Polymerase chain reaction-aided genomic sequencing of an X chromosome-linked CpG island: methylation patterns suggest clonal inheritance, CpG site autonomy, and an explanation of activity state stability. Proc. Natl Acad. Sci. USA, 87, 8252-8256.
    • (1990) Proc. Natl Acad. Sci. USA , vol.87 , pp. 8252-8256
    • Pfeifer, G.P.1    Steigerwald, S.D.2    Hansen, R.S.3    Gartler, S.M.4    Riggs, A.D.5
  • 22
    • 33748501233 scopus 로고    scopus 로고
    • Dynamics stability and inheritance of somatic DNA methylation imprints
    • Sontag, L.B., Lorincz, M.C. and Georg Luebeck, E. (2006) Dynamics, stability and inheritance of somatic DNA methylation imprints. J. Theor. Biol., 242, 890-899.
    • (2006) J. Theor. Biol. , vol.242 , pp. 890-899
    • Sontag, L.B.1    Lorincz, M.C.2    Georg Luebeck, E.3
  • 23
    • 0025093427 scopus 로고
    • DNA methylation in eukaryotes: Kinetics of demethylation and de novo methylation during the life cycle
    • Otto, S.P. and Walbot, V. (1990) DNA methylation in eukaryotes: kinetics of demethylation and de novo methylation during the life cycle. Genetics, 124, 429-437.
    • (1990) Genetics , vol.124 , pp. 429-437
    • Otto, S.P.1    Walbot, V.2
  • 24
    • 34249080596 scopus 로고    scopus 로고
    • Theoretical analysis of epigenetic cell memory by nucleosome modification
    • Dodd, I.B., Micheelsen, M.A., Sneppen, K. and Thon, G. (2007) Theoretical analysis of epigenetic cell memory by nucleosome modification. Cell, 129, 813.
    • (2007) Cell , vol.129 , pp. 813
    • Dodd, I.B.1    Micheelsen, M.A.2    Sneppen, K.3    Thon, G.4
  • 25
    • 79961172475 scopus 로고    scopus 로고
    • A polycomb-based switch underlying quantitative epigenetic memory
    • Angel, A., Song, J., Dean, C. and Howard, M. (2011) A polycomb-based switch underlying quantitative epigenetic memory. Nature, 476, 105-108.
    • (2011) Nature , vol.476 , pp. 105-108
    • Angel, A.1    Song, J.2    Dean, C.3    Howard, M.4
  • 26
    • 84866072106 scopus 로고    scopus 로고
    • A simple histone code opens many paths to epigenetics
    • Sneppen, K. and Dodd, I.B. (2012) A simple histone code opens many paths to epigenetics. PLoS Comput. Biol., 8, e1002643.
    • (2012) PLoS Comput. Biol. , vol.8
    • Sneppen, K.1    Dodd, I.B.2
  • 27
    • 0036532226 scopus 로고    scopus 로고
    • Self-perpetuating states in signal transduction: Positive feedback double-negative feedback and bistability
    • Ferrell, J.E. Jr (2002) Self-perpetuating states in signal transduction: positive feedback, double-negative feedback and bistability. Curr. Opin. Cell. Biol., 14, 140-148.
    • (2002) Curr. Opin. Cell. Biol. , vol.14 , pp. 140-148
    • Ferrell Jr., J.E.1
  • 28
    • 0036415141 scopus 로고    scopus 로고
    • Dnmt3a and Dnmt1 functionally cooperate during de novo methylation of DNA
    • Fatemi, M., Hermann, A., Gowher, H. and Jeltsch, A. (2002) Dnmt3a and Dnmt1 functionally cooperate during de novo methylation of DNA. Eur. J. Biochem., 269, 4981-4984.
    • (2002) Eur. J. Biochem. , vol.269 , pp. 4981-4984
    • Fatemi, M.1    Hermann, A.2    Gowher, H.3    Jeltsch, A.4
  • 29
    • 34648833002 scopus 로고    scopus 로고
    • UHRF1 plays a role in maintaining DNA methylation in mammalian cells
    • Bostick, M., Kim, J.K., Esteve, P.O., Clark, A., Pradhan, S. and Jacobsen, S.E. (2007) UHRF1 plays a role in maintaining DNA methylation in mammalian cells. Science, 317, 1760-1764.
    • (2007) Science , vol.317 , pp. 1760-1764
    • Bostick, M.1    Kim, J.K.2    Esteve, P.O.3    Clark, A.4    Pradhan, S.5    Jacobsen, S.E.6
  • 31
    • 70449093724 scopus 로고    scopus 로고
    • Np95 interacts with de novo DNA methyltransferases, Dnmt3a and Dnmt3b, and mediates epigenetic silencing of the viral CMV promoter in embryonic stem cells
    • Meilinger, D., Fellinger, K., Bultmann, S., Rothbauer, U., Bonapace, I.M., Klinkert, W.E.F., Spada, F. and Leonhardt, H. (2009) Np95 interacts with de novo DNA methyltransferases, Dnmt3a and Dnmt3b, and mediates epigenetic silencing of the viral CMV promoter in embryonic stem cells. EMBO Rep, 10, 1259-1264.
    • (2009) EMBO Rep , vol.10 , pp. 1259-1264
    • Meilinger, D.1    Fellinger, K.2    Bultmann, S.3    Rothbauer, U.4    Bonapace, I.M.5    Klinkert, W.E.F.6    Spada, F.7    Leonhardt, H.8
  • 32
    • 79952258043 scopus 로고    scopus 로고
    • Nucleosomes containing methylated DNA stabilize DNA methyltransferases 3A/3B and ensure faithful epigenetic inheritance
    • Sharma, S., De Carvalho, D.D., Jeong, S., Jones, P.A. and Liang, G. (2011) Nucleosomes containing methylated DNA stabilize DNA methyltransferases 3A/3B and ensure faithful epigenetic inheritance. PLoS Genet., 7, e1001286.
    • (2011) PLoS Genet. , vol.7
    • Sharma, S.1    De Carvalho, D.D.2    Jeong, S.3    Jones, P.A.4    Liang, G.5
  • 33
    • 0031580212 scopus 로고    scopus 로고
    • Control of methylation spreading in synthetic DNA sequences by the murine DNA methyltransferase
    • Tollefsbol, T.O. and Hutchison, C.A. III (1997) Control of methylation spreading in synthetic DNA sequences by the murine DNA methyltransferase. J. Mol. Biol., 269, 494-504.
    • (1997) J. Mol. Biol. , vol.269 , pp. 494-504
    • Tollefsbol, T.O.1    Hutchison Iii., C.A.2
  • 34
    • 82555176534 scopus 로고    scopus 로고
    • Barriers and silencers: A theoretical toolkit for control and containment of nucleosome-based epigenetic states
    • Dodd, I.B. and Sneppen, K. (2011) Barriers and silencers: a theoretical toolkit for control and containment of nucleosome-based epigenetic states. J. Mol. Biol., 414, 624-637.
    • (2011) J. Mol. Biol. , vol.414 , pp. 624-637
    • Dodd, I.B.1    Sneppen, K.2
  • 35
    • 84901028305 scopus 로고    scopus 로고
    • CpG Islands and DNA Methylation
    • Antequera, F. (2007) CpG Islands and DNA Methylation. eLS.
    • (2007) ELS
    • Antequera, F.1
  • 36
    • 0033485539 scopus 로고    scopus 로고
    • Quantitative comparison of DNA looping in vitro and in vivo: Chromatin increases effective DNA flexibility at short distances
    • Ringrose, L., Chabanis, S., Angrand, P.O., Woodroofe, C. and Stewart, A.F. (1999) Quantitative comparison of DNA looping in vitro and in vivo: chromatin increases effective DNA flexibility at short distances. EMBO J., 18, 6630-6641.
    • (1999) EMBO J. , vol.18 , pp. 6630-6641
    • Ringrose, L.1    Chabanis, S.2    Angrand, P.O.3    Woodroofe, C.4    Stewart, A.F.5
  • 38
    • 84555189745 scopus 로고    scopus 로고
    • DNA methylation: TET proteins-guardians of CpG islands?
    • Williams, K., Christensen, J. and Helin, K. (2011) DNA methylation: TET proteins-guardians of CpG islands? EMBO Rep., 13, 28-35.
    • (2011) EMBO Rep. , vol.13 , pp. 28-35
    • Williams, K.1    Christensen, J.2    Helin, K.3
  • 40
    • 79955948324 scopus 로고    scopus 로고
    • Genome-wide regulation of 5hmC, 5mC, and gene expression by Tet1 hydroxylase in mouse embryonic stem cells
    • Xu, Y., Wu, F., Tan, L., Kong, L., Xiong, L., Deng, J., Barbera, A.J., Zheng, L., Zhang, H., Huang, S. et al. (2011) Genome-wide regulation of 5hmC, 5mC, and gene expression by Tet1 hydroxylase in mouse embryonic stem cells. Mol. Cell, 42, 451-464.
    • (2011) Mol. Cell , vol.42 , pp. 451-464
    • Xu, Y.1    Wu, F.2    Tan, L.3    Kong, L.4    Xiong, L.5    Deng, J.6    Barbera, A.J.7    Zheng, L.8    Zhang, H.9    Huang, S.10
  • 41
    • 59149084538 scopus 로고    scopus 로고
    • The human colon cancer methylome shows similar hypo-and hypermethylation at conserved tissue-specific CpG island shores
    • Irizarry, R.A., Ladd-Acosta, C., Wen, B., Wu, Z., Montano, C., Onyango, P., Cui, H., Gabo, K., Rongione, M., Webster, M. et al. (2009) The human colon cancer methylome shows similar hypo-and hypermethylation at conserved tissue-specific CpG island shores. Nat. Genet., 41, 178-186.
    • (2009) Nat. Genet. , vol.41 , pp. 178-186
    • Irizarry, R.A.1    Ladd-Acosta, C.2    Wen, B.3    Wu, Z.4    Montano, C.5    Onyango, P.6    Cui, H.7    Gabo, K.8    Rongione, M.9    Webster, M.10
  • 42
    • 67349190247 scopus 로고    scopus 로고
    • Linking DNA methylation and histone modification: Patterns and paradigms
    • Cedar, H. and Bergman, Y. (2009) Linking DNA methylation and histone modification: patterns and paradigms. Nat. Rev. Genet., 10, 295-304.
    • (2009) Nat. Rev. Genet. , vol.10 , pp. 295-304
    • Cedar, H.1    Bergman, Y.2
  • 44
    • 77249170184 scopus 로고    scopus 로고
    • Establishing, maintaining and modifying DNA methylation patterns in plants and animals
    • Law, J.A. and Jacobsen, S.E. (2010) Establishing, maintaining and modifying DNA methylation patterns in plants and animals. Nat. Rev. Genet., 11, 204-220.
    • (2010) Nat. Rev. Genet. , vol.11 , pp. 204-220
    • Law, J.A.1    Jacobsen, S.E.2
  • 46
    • 80052495940 scopus 로고    scopus 로고
    • Tet-mediated formation of 5-carboxylcytosine and its excision by TDG in mammalian DNA
    • He, Y.F., Li, B.Z., Li, Z., Liu, P., Wang, Y., Tang, Q., Ding, J., Jia, Y., Chen, Z., Li, L. et al. (2011) Tet-mediated formation of 5-carboxylcytosine and its excision by TDG in mammalian DNA. Science, 333, 1303-1307.
    • (2011) Science , vol.333 , pp. 1303-1307
    • He, Y.F.1    Li, B.Z.2    Li, Z.3    Liu, P.4    Wang, Y.5    Tang, Q.6    Ding, J.7    Jia, Y.8    Chen, Z.9    Li, L.10
  • 47
    • 77956189495 scopus 로고    scopus 로고
    • Role of Tet proteins in 5mC to 5hmC conversion, ES-cell self-renewal and inner cell mass specification
    • Ito, S., D'Alessio, A.C., Taranova, O.V., Hong, K., Sowers, L.C. and Zhang, Y. (2010) Role of Tet proteins in 5mC to 5hmC conversion, ES-cell self-renewal and inner cell mass specification. Nature, 466, 1129-1133.
    • (2010) Nature , vol.466 , pp. 1129-1133
    • Ito, S.1    D'Alessio, A.C.2    Taranova, O.V.3    Hong, K.4    Sowers, L.C.5    Zhang, Y.6
  • 49
    • 84870883633 scopus 로고    scopus 로고
    • Tet3 CXXC domain and dioxygenase activity cooperatively regulate key genes for Xenopus eye and neural development
    • Xu, Y., Xu, C., Kato, A., Tempel, W., Abreu, J.G., Bian, C., Hu, Y., Hu, D., Zhao, B., Cerovina, T. et al. (2012) Tet3 CXXC domain and dioxygenase activity cooperatively regulate key genes for Xenopus eye and neural development. Cell, 151, 1200-1213.
    • (2012) Cell , vol.151 , pp. 1200-1213
    • Xu, Y.1    Xu, C.2    Kato, A.3    Tempel, W.4    Abreu, J.G.5    Bian, C.6    Hu, Y.7    Hu, D.8    Zhao, B.9    Cerovina, T.10
  • 50
    • 78649825211 scopus 로고    scopus 로고
    • TET1 is a DNA-binding protein that modulates DNA methylation and gene transcription via hydroxylation of 5-methylcytosine
    • Zhang, H., Zhang, X., Clark, E., Mulcahey, M., Huang, S. and Shi, Y.G. (2010) TET1 is a DNA-binding protein that modulates DNA methylation and gene transcription via hydroxylation of 5-methylcytosine. Cell Res., 20, 1390-1393.
    • (2010) Cell Res. , vol.20 , pp. 1390-1393
    • Zhang, H.1    Zhang, X.2    Clark, E.3    Mulcahey, M.4    Huang, S.5    Shi, Y.G.6
  • 51
    • 77649104794 scopus 로고    scopus 로고
    • Reprogramming towards pluripotency requires AID-dependent DNA demethylation
    • Bhutani, N., Brady, J.J., Damian, M., Sacco, A., Corbel, S.Y. and Blau, H.M. (2009) Reprogramming towards pluripotency requires AID-dependent DNA demethylation. Nature, 463, 1042-1047.
    • (2009) Nature , vol.463 , pp. 1042-1047
    • Bhutani, N.1    Brady, J.J.2    Damian, M.3    Sacco, A.4    Corbel, S.Y.5    Blau, H.M.6
  • 53
    • 0037133565 scopus 로고    scopus 로고
    • Comprehensive analysis of CpG islands in human chromosomes 21 and 22
    • Takai, D. and Jones, P.A. (2002) Comprehensive analysis of CpG islands in human chromosomes 21 and 22. Proc. Natl Acad. Sci. USA, 99, 3740-3745.
    • (2002) Proc. Natl Acad. Sci. USA , vol.99 , pp. 3740-3745
    • Takai, D.1    Jones, P.A.2


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.