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Volumn 16, Issue 2, 2013, Pages 192-198

Entering the era of bacterial epigenomics with single molecule real time DNA sequencing

Author keywords

[No Author keywords available]

Indexed keywords

BACTERIAL DNA; DNA BINDING PROTEIN; DNA METHYLTRANSFERASE;

EID: 84877052914     PISSN: 13695274     EISSN: 18790364     Source Type: Journal    
DOI: 10.1016/j.mib.2013.01.011     Document Type: Review
Times cited : (92)

References (39)
  • 1
    • 70350028850 scopus 로고    scopus 로고
    • Mammalian cytosine methylation at a glance
    • Ooi S.K.T., O'Donnell A.H., Bestor T.H. Mammalian cytosine methylation at a glance. J Cell Sci 2009, 122:2787-2791.
    • (2009) J Cell Sci , vol.122 , pp. 2787-2791
    • Ooi, S.K.T.1    O'Donnell, A.H.2    Bestor, T.H.3
  • 2
    • 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. Tet-mediated formation of 5-carboxylcytosine and its excision by TDG in mammalian DNA. Science 2011, 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
  • 3
    • 80052461558 scopus 로고    scopus 로고
    • Tet proteins can convert 5-methylcytosine to 5-formylcytosine and 5-carboxylcytosine
    • Ito S., Shen L., Dai Q., Wu S.C., Collins L.B., Swenberg J.A., He C., Zhang Y. Tet proteins can convert 5-methylcytosine to 5-formylcytosine and 5-carboxylcytosine. Science 2011, 333:1300-1303.
    • (2011) Science , vol.333 , pp. 1300-1303
    • Ito, S.1    Shen, L.2    Dai, Q.3    Wu, S.C.4    Collins, L.B.5    Swenberg, J.A.6    He, C.7    Zhang, Y.8
  • 4
    • 84864722177 scopus 로고    scopus 로고
    • 5-Formylcytosine and 5-carboxylcytosine reduce the rate and substrate specificity of RNA polymerase II transcription
    • Kellinger M.W., Song C-X., Chong J., Lu X-Y., He C., Wang D. 5-Formylcytosine and 5-carboxylcytosine reduce the rate and substrate specificity of RNA polymerase II transcription. Nat Struct Mol Biol 2012, 19:831-833.
    • (2012) Nat Struct Mol Biol , vol.19 , pp. 831-833
    • Kellinger, M.W.1    Song, C.-X.2    Chong, J.3    Lu, X.-Y.4    He, C.5    Wang, D.6
  • 5
    • 33749246561 scopus 로고    scopus 로고
    • Epigenetic gene regulation in the bacterial world
    • Casadesus J., Low D. Epigenetic gene regulation in the bacterial world. Microbiol Mol Biol Rev 2006, 70:830-856.
    • (2006) Microbiol Mol Biol Rev , vol.70 , pp. 830-856
    • Casadesus, J.1    Low, D.2
  • 6
    • 42049092774 scopus 로고    scopus 로고
    • Clocks and switches: bacterial gene regulation by DNA adenine methylation
    • Low D.A., CasadesúsF J. Clocks and switches: bacterial gene regulation by DNA adenine methylation. Curr Opin Microbiol 2008, 11:106-112.
    • (2008) Curr Opin Microbiol , vol.11 , pp. 106-112
    • Low, D.A.1    CasadesúsF, J.2
  • 7
    • 75549086595 scopus 로고    scopus 로고
    • REBASE-a database for DNA restriction and modification: enzymes, genes and genomes
    • Roberts R.J., Vincze T., Posfai J., Macelis D. REBASE-a database for DNA restriction and modification: enzymes, genes and genomes. Nucleic Acids Res 2009, 38:D234-D236.
    • (2009) Nucleic Acids Res , vol.38
    • Roberts, R.J.1    Vincze, T.2    Posfai, J.3    Macelis, D.4
  • 10
    • 0029013489 scopus 로고
    • Sequence motifs characteristic for DNA [cytosine-N4] and DNA [adenine-N6] methyltransferases. Classification of all DNA methyltransferases
    • Timinskas A., Butkus V., Janulaitis A. Sequence motifs characteristic for DNA [cytosine-N4] and DNA [adenine-N6] methyltransferases. Classification of all DNA methyltransferases. Gene 1995, 157:3-11.
    • (1995) Gene , vol.157 , pp. 3-11
    • Timinskas, A.1    Butkus, V.2    Janulaitis, A.3
  • 11
    • 33646579552 scopus 로고    scopus 로고
    • Undetectable levels of N6-methyl adenine in mouse DNA: cloning and analysis of PRED28, a gene coding for a putative mammalian DNA adenine methyltransferase
    • Ratel D., Ravanat J-L., Charles M-P., Platet N., Breuillaud L., Lunardi J., Berger F., Wion D. Undetectable levels of N6-methyl adenine in mouse DNA: cloning and analysis of PRED28, a gene coding for a putative mammalian DNA adenine methyltransferase. FEBS Lett 2006, 580:3179-3184.
    • (2006) FEBS Lett , vol.580 , pp. 3179-3184
    • Ratel, D.1    Ravanat, J.-L.2    Charles, M.-P.3    Platet, N.4    Breuillaud, L.5    Lunardi, J.6    Berger, F.7    Wion, D.8
  • 15
    • 0015192625 scopus 로고
    • DNA restriction and modification mechanisms in bacteria
    • Boyer H.W. DNA restriction and modification mechanisms in bacteria. Annu Rev Microbiol 1971, 25:153-176.
    • (1971) Annu Rev Microbiol , vol.25 , pp. 153-176
    • Boyer, H.W.1
  • 17
    • 17344370012 scopus 로고    scopus 로고
    • The phasevarion: a genetic system controlling coordinated, random switching of expression of multiple genes
    • Srikhanta Y.N., Maguire T.L., Stacey K.J., Grimmond S.M., Jennings M.P. The phasevarion: a genetic system controlling coordinated, random switching of expression of multiple genes. Proc Natl Acad Sci U S A 2005, 102:5547-5551.
    • (2005) Proc Natl Acad Sci U S A , vol.102 , pp. 5547-5551
    • Srikhanta, Y.N.1    Maguire, T.L.2    Stacey, K.J.3    Grimmond, S.M.4    Jennings, M.P.5
  • 18
    • 76949108806 scopus 로고    scopus 로고
    • The phasevarion: phase variation of type III DNA methyltransferases controls coordinated switching in multiple genes
    • Srikhanta Y.N., Fox K.L., Jennings M.P. The phasevarion: phase variation of type III DNA methyltransferases controls coordinated switching in multiple genes. Nat Rev Microbiol 2010, 8:196-206.
    • (2010) Nat Rev Microbiol , vol.8 , pp. 196-206
    • Srikhanta, Y.N.1    Fox, K.L.2    Jennings, M.P.3
  • 19
    • 33646008874 scopus 로고    scopus 로고
    • N6-methyl-adenine: an epigenetic signal for DNA-protein interactions
    • Wion D., Casadesús J. N6-methyl-adenine: an epigenetic signal for DNA-protein interactions. Nat Rev Microbiol 2006, 4:183-192.
    • (2006) Nat Rev Microbiol , vol.4 , pp. 183-192
    • Wion, D.1    Casadesús, J.2
  • 20
    • 36749067835 scopus 로고    scopus 로고
    • A DNA methylation ratchet governs progression through a bacterial cell cycle
    • Collier J., McAdams H.H., Shapiro L. A DNA methylation ratchet governs progression through a bacterial cell cycle. Proc Natl Acad Sci U S A 2007, 104:17111-17116.
    • (2007) Proc Natl Acad Sci U S A , vol.104 , pp. 17111-17116
    • Collier, J.1    McAdams, H.H.2    Shapiro, L.3
  • 21
    • 71849115781 scopus 로고    scopus 로고
    • Epigenetic regulation of the bacterial cell cycle
    • Collier J. Epigenetic regulation of the bacterial cell cycle. Curr Opin Microbiol 2009, 12:722-729.
    • (2009) Curr Opin Microbiol , vol.12 , pp. 722-729
    • Collier, J.1
  • 23
    • 84862590549 scopus 로고    scopus 로고
    • Going beyond five bases in DNA sequencing
    • Korlach J., Turner S.W. Going beyond five bases in DNA sequencing. Curr Opin Struct Biol 2012, 22:251-261.
    • (2012) Curr Opin Struct Biol , vol.22 , pp. 251-261
    • Korlach, J.1    Turner, S.W.2
  • 24
    • 84861221693 scopus 로고    scopus 로고
    • Quantitative sequencing of 5-methylcytosine and 5-hydroxymethylcytosine at single-base resolution
    • Booth M.J., Branco M.R., Ficz G., Oxley D., Krueger F., Reik W., Balasubramanian S. Quantitative sequencing of 5-methylcytosine and 5-hydroxymethylcytosine at single-base resolution. Science 2012, 336:934-937.
    • (2012) Science , vol.336 , pp. 934-937
    • Booth, M.J.1    Branco, M.R.2    Ficz, G.3    Oxley, D.4    Krueger, F.5    Reik, W.6    Balasubramanian, S.7
  • 32
    • 1642588255 scopus 로고    scopus 로고
    • Structures of mismatch replication errors observed in a DNA polymerase
    • Johnson S.J., Beese L.S. Structures of mismatch replication errors observed in a DNA polymerase. Cell 2004, 116:803-816.
    • (2004) Cell , vol.116 , pp. 803-816
    • Johnson, S.J.1    Beese, L.S.2
  • 38
    • 53849113697 scopus 로고    scopus 로고
    • Base J: discovery, biosynthesis, and possible functions
    • Borst P., Sabatini R. Base J: discovery, biosynthesis, and possible functions. Annu Rev Microbiol 2008, 62:235-251.
    • (2008) Annu Rev Microbiol , vol.62 , pp. 235-251
    • Borst, P.1    Sabatini, R.2


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.