Epigenetic Codes for Heterochromatin Formation and Silencing
Tóm tắt
Từ khóa
Tài liệu tham khảo
Aagaard, 1999, Functional mammalian homologues of the Drosophila PEV-modifier Su(var)3-9 encode centromere-associated proteins which complex with the heterochromatin component M31, EMBO J., 18, 1923, 10.1093/emboj/18.7.1923
Allshire, 1995, Mutations derepressing silent centromeric domains in fission yeast disrupt chromosome segregation, Genes Dev., 9, 218, 10.1101/gad.9.2.218
Annunziato, 2000, Role of histone acetylation in the assembly and modulation of chromatin structures, Gene Expr., 9, 37, 10.3727/000000001783992687
Bachman, 2001, Dnmt3a and Dnmt3b are transcriptional repressors that exhibit unique localization properties to heterochromatin, J. Biol. Chem., 276, 32282, 10.1074/jbc.M104661200
Bannister, 2001, Selective recognition of methylated lysine 9 on histone H3 by the HP1 chromo domain, Nature, 410, 120, 10.1038/35065138
Bartee, 2001, Arabidopsis cmt3 chromomethylase mutations block non-CG methylation and silencing of an endogenous gene, Genes Dev., 15, 1753, 10.1101/gad.905701
Bird, 1995, Gene number, noise reduction and biological complexity, Trends Genet., 11, 94, 10.1016/S0168-9525(00)89009-5
Boggs, 2001, Differentially methylated forms of histone H3 show unique association patterns with inactive human X chromosomes, Nat. Genet., 30, 73, 10.1038/ng787
Bone, 1994, Acetylated histone H4 on the male X chromosome is associated with dosage compensation in Drosophila, Genes Dev., 8, 96, 10.1101/gad.8.1.96
Brasher, 2000, The structure of mouse HP1 suggests a unique mode of single peptide recognition by the shadow chromo domain dimer, EMBO J., 19, 1587, 10.1093/emboj/19.7.1587
Cervoni, 2001, Demethylase activity is directed by histone acetylation, J. Biol. Chem., 276, 40778, 10.1074/jbc.M103921200
Chuang, 1997, Human DNA-(cytosine-5) methyltransferase-PCNA complex as a target for p21WAF1, Science, 277, 1996, 10.1126/science.277.5334.1996
Clarke, 1993, Selective use of H4 acetylation sites in the yeast Saccharomyces cerevisiae, Biochem. J., 294, 557, 10.1042/bj2940557
Colot, 1999, Eukaryotic DNA methylation as an evolutionary device, Bioessays, 21, 402, 10.1002/(SICI)1521-1878(199905)21:5<402::AID-BIES7>3.0.CO;2-B
Colot, 1996, Interchromosomal transfer of epigenetic states in Ascobolus, Cell, 86, 855, 10.1016/S0092-8674(00)80161-0
Czermin, 2001, Physical and functional association of SU(VAR)3-9 and HDAC1 in Drosophila, EMBO Rep., 2, 915, 10.1093/embo-reports/kve210
Dennis, 2001, Lsh, a member of the SNF2 family, is required for genome-wide methylation, Genes Dev., 15, 2940, 10.1101/gad.929101
Dhalluin, 1999, Structure and ligand of a histone acetyltransferase bromodomain, Nature, 399, 491, 10.1038/20974
Dobosy, 2001, Emerging connections between DNA methylation and histone acetylation, Cell. Mol. Life Sci., 58, 721, 10.1007/PL00000895
Eissenberg, 2000, The HP1 protein family, Curr. Opin. Genet. Dev., 10, 204, 10.1016/S0959-437X(00)00058-7
Ekwall, 1996, Mutations in the fission yeast silencing factors clr4+ and rik1+ disrupt the localisation of the chromo domain protein Swi6p and impair centromere function, J. Cell Sci., 109, 2637, 10.1242/jcs.109.11.2637
Ekwall, 1997, Transient inhibition of histone deacetylation alters the structural and functional imprint at fission yeast centromeres, Cell, 91, 1021, 10.1016/S0092-8674(00)80492-4
Ekwall, 1999, Fission yeast mutants that alleviate transcriptional silencing in centromeric flanking repeats and disrupt chromosome segregation, Genetics, 153, 1153, 10.1093/genetics/153.3.1153
Firestein, 2000, Set domain-dependent regulation of transcriptional silencing and growth control by SUV39H1, a mammalian ortholog of Drosophila Su(var)3-9, Mol. Cell. Biol., 20, 4900, 10.1128/MCB.20.13.4900-4909.2000
Freeman-Cook, 2000, Chromatin contributions to epigenetic transcriptional states in yeast
Gaudin, 2001, Mutations in LIKE HETEROCHROMATIN PROTEIN 1 affect flowering time and plant architecture in Arabidopsis, Development, 128, 4847, 10.1242/dev.128.23.4847
Gibbons, 2000, Mutations in ATRX, encoding a SWI/SNF-like protein, cause diverse changes in the pattern of DNA methylation, Nat. Genet., 24, 368, 10.1038/74191
Grewal, 2000, Transcriptional silencing in fission yeast, J. Cell. Physiol., 184, 311, 10.1002/1097-4652(200009)184:3<311::AID-JCP4>3.0.CO;2-D
Grewal, 2002, Heterochromatin, Curr. Opin. Cell Genet. Dev., 12
Heard, 2001, Methylation of histone H3 at lys-9 is an early mark on the X chromosome during X inactivation, Cell, 107, 727, 10.1016/S0092-8674(01)00598-0
Hebbes, 1994, Core histone hyperacetylation co-maps with generalized DNase I sensitivity in the chicken beta-globin chromosomal domain, EMBO J., 13, 1823, 10.1002/j.1460-2075.1994.tb06451.x
Hecht, 1995, Histone H3 and H4 N-termini interact with SIR3 and SIR4 proteins, Cell, 80, 583, 10.1016/0092-8674(95)90512-X
Hecht, 1996, Spreading of transcriptional repressor SIR3 from telomeric heterochromatin, Nature, 383, 92, 10.1038/383092a0
Henikoff, 2000, Heterochromatin function in complex genomes, Biochim. Biophys. Acta, 1470, 1
Henikoff, 1998, A DNA methyltransferase homolog with a chromodomain exists in multiple polymorphic forms in Arabidopsis, Genetics, 149, 307, 10.1093/genetics/149.1.307
Holliday, 1975, DNA modification mechanisms and gene activity during development, Science, 187, 226, 10.1126/science.1111098
Hwang, 2001, Transcriptional repression of euchromatic genes by Drosophila heterochromatin protein 1 and histone modifiers, Proc. Natl. Acad. Sci. USA, 98, 11423, 10.1073/pnas.211303598
Ivanova, 1998, The chromo and SET domains of the Clr4 protein are essential for silencing in fission yeast, Nat. Genet., 19, 192, 10.1038/566
Jacobs, 2001, Specificity of the HP1 chromo domain for the methylated N-terminus of histone H3, EMBO J., 20, 5232, 10.1093/emboj/20.18.5232
James, 1989, Distribution patterns of HP1, a heterochromatin-associated nonhistone chromosomal protein of Drosophila, Eur. J. Cell Biol., 50, 170
Jeddeloh, 1999, Maintenance of genomic methylation requires a SWI2/SNF2-like protein, Nat. Genet., 22, 94, 10.1038/8803
Jones, 2001, The role of DNA methylation in mammalian epigenetics, Science, 293, 1068, 10.1126/science.1063852
Jones, 1998, Methylated DNA and MeCP2 recruit histone deacetylase to repress transcription, Nat. Genet., 19, 187, 10.1038/561
Jost, 2001, 5-methylcytosine DNA glycosylase participates in the genome-wide loss of DNA methylation occurring during mouse myoblast differentiation, Nucleic Acids Res., 29, 4452, 10.1093/nar/29.21.4452
Kouzminova, 2001, dim-2 encodes a DNA methyltransferase responsible for all known cytosine methylation in Neurospora, EMBO J., 20, 4309, 10.1093/emboj/20.15.4309
Lachner, 2001, Methylation of histone H3 lysine 9 creates a binding site for HP1 proteins, Nature, 410, 116, 10.1038/35065132
Lindroth, 2001, Requirement of CHROMOMETHYLASE3 for maintenance of CpXpG methylation, Science, 292, 2077, 10.1126/science.1059745
Litt, 2001, Transitions in histone acetylation reveal boundaries of three separately regulated neighboring loci, EMBO J., 20, 2224, 10.1093/emboj/20.9.2224
Luger, 1997, Crystal structure of the nucleosome core particle at 2.8 Å resolution, Nature, 389, 251, 10.1038/38444
Macleod, 1999, Absence of genome-wide changes in DNA methylation during development of the zebrafish, Nat. Genet., 23, 139, 10.1038/13767
Martienssen, 2001, DNA methylation and epigenetic inheritance in plants and filamentous fungi, Science, 293, 1070, 10.1126/science.293.5532.1070
Miao, 2000, Short TpA-rich segments of the zeta-eta region induce DNA methylation in Neurospora crassa, J. Mol. Biol., 300, 249, 10.1006/jmbi.2000.3864
Moazed, 2001, Common themes in mechanisms of gene silencing, Mol. Cell, 8, 489, 10.1016/S1097-2765(01)00340-9
Nakayama, 2000, A chromodomain protein, Swi6, performs imprinting functions in fission yeast during mitosis and meiosis, Cell, 101, 307, 10.1016/S0092-8674(00)80840-5
Nakayama, 2001, Role of histone H3 lysine 9 methylation in epigenetic control of heterochromatin assembly, Science, 292, 110, 10.1126/science.1060118
Narlikar, 2002, Cooperation between complexes that regulate chromatin structure and transcription, Cell, 108, 475, 10.1016/S0092-8674(02)00654-2
Ng, 1999, MBD2 is a transcriptional repressor belonging to the MeCP1 histone deacetylase complex, Nat. Genet., 23, 58, 10.1038/12659
Nielsen, 2001, Rb targets histone H3 methylation and HP1 to promoters, Nature, 412, 561, 10.1038/35087620
Noma, 2001, Transitions in distinct histone H3 methylation patterns at the heterochromatin domain boundaries, Science, 293, 1150, 10.1126/science.1064150
Oakeley, 1997, Developmental changes in DNA methylation of the two tobacco pollen nuclei during maturation, Proc. Natl. Acad. Sci. USA, 94, 11721, 10.1073/pnas.94.21.11721
Okano, 1999, DNA methyltransferases Dnmt3a and Dnmt3b are essential for de novo methylation and mammalian development, Cell, 99, 247, 10.1016/S0092-8674(00)81656-6
Papa, 2001, Maize chromomethylase Zea methyltransferase2 is required for CpNpG methylation, Plant Cell, 13, 1919, 10.1105/tpc.13.8.1919
Pelissier, 1999, Heavy de novo methylation at symmetrical and non-symmetrical sites is a hallmark of RNA-directed DNA methylation, Nucleic Acids Res., 27, 1625, 10.1093/nar/27.7.1625
Peters, 2001, Histone H3 lysine 9 methylation is an epigenetic imprint of facultative heterochromatin, Nat. Genet., 30, 77, 10.1038/ng789
Peters, 2001, Loss of the suv39h histone methyltransferases impairs mammalian heterochromatin and genome stability, Cell, 107, 323, 10.1016/S0092-8674(01)00542-6
Ramsahoye, 2000, Non-CpG methylation is prevalent in embryonic stem cells and may be mediated by DNA methyltransferase 3a, Proc. Natl. Acad. Sci. USA, 97, 5237, 10.1073/pnas.97.10.5237
Rea, 2000, Regulation of chromatin structure by site-specific histone H3 methyltransferases, Nature, 406, 593, 10.1038/35020506
Reik, 2001, Epigenetic reprogramming in mammalian development, Science, 293, 1089, 10.1126/science.1063443
Rice, 2001, Histone methylation versus histone acetylation, Curr. Opin. Cell Biol., 13, 263, 10.1016/S0955-0674(00)00208-8
Richards, 1997, DNA methylation and plant development, Trends Genet., 13, 319, 10.1016/S0168-9525(97)01199-2
Riggs, 1975, X inactivation, differentiation, and DNA methylation, Cytogenet. Cell Genet., 14, 9, 10.1159/000130315
Robertson, 2000, DNMT1 forms a complex with Rb, E2F1 and HDAC1 and represses transcription from E2F-responsive promoters, Nat. Genet., 25, 338, 10.1038/77124
Rougier, 1998, Chromosome methylation patterns during mammalian preimplantation development, Genes Dev., 12, 2108, 10.1101/gad.12.14.2108
Rountree, 2000, DNMT1 binds HDAC2 and a new co-repressor, DMAP1, to form a complex at replication foci, Nat. Genet., 25, 269, 10.1038/77023
Santos, 2002, Dynamic reprogramming of DNA methylation in the early mouse embryo, Dev. Biol., 241, 172, 10.1006/dbio.2001.0501
Selker, 1997, Epigenetic phenomena in filamentous fungi, Trends Genet., 13, 296, 10.1016/S0168-9525(97)01201-8
Selker, 1998, Trichostatin A causes selective loss of DNA methylation in Neurospora, Proc. Natl. Acad. Sci. USA, 95, 9430, 10.1073/pnas.95.16.9430
Smith, 2000, The Drosophila MSL complex acetylates histone H4 at lysine 16, a chromatin modification linked to dosage compensation, Mol. Cell. Biol., 20, 312, 10.1128/MCB.20.1.312-318.2000
Struhl, 1999, Fundamentally different logic of gene regulation in eukaryotes and prokaryotes, Cell, 98, 1, 10.1016/S0092-8674(00)80599-1
Suka, 2001, Highly specific antibodies determine histone acetylation site usage in yeast heterochromatin and euchromatin, Mol. Cell, 8, 473, 10.1016/S1097-2765(01)00301-X
Sun, 2000, The fourth chromosome of Drosophila melanogaster, Proc. Natl. Acad. Sci. USA, 97, 5340, 10.1073/pnas.090530797
Sun, 2001, Long-range nucleosome ordering is associated with gene silencing in Drosophila melanogaster pericentric heterochromatin, Mol. Cell. Biol., 21, 2867, 10.1128/MCB.21.8.2867-2879.2001
Tamaru, 2001, A histone H3 methyltransferase controls DNA methylation in Neurospora crassa, Nature, 414, 277, 10.1038/35104508
Tian, 2001, Blocking histone deacetylation in Arabidopsis induces pleiotropic effects on plant gene regulation and development, Proc. Natl. Acad. Sci. USA, 98, 200, 10.1073/pnas.98.1.200
Tschiersch, 1994, The protein encoded by the Drosophila position-effect variegation suppressor gene Su(var)3-9 combines domains of antagonistic regulators of homeotic gene complexes, EMBO J., 13, 3822, 10.1002/j.1460-2075.1994.tb06693.x
Turner, 2000, Histone acetylation and an epigenetic code, Bioessays, 22, 836, 10.1002/1521-1878(200009)22:9<836::AID-BIES9>3.0.CO;2-X
Vaute, 2002, Functional and physical interaction between the histone methyl transferase Suv39H1 and histone deacetylases, Nucleic Acids Res., 30, 475, 10.1093/nar/30.2.475
Vogelauer, 2000, Global histone acetylation and deacetylation in yeast, Nature, 408, 495, 10.1038/35044127
Wang, 2001, Purification and functional characterization of a histone h3-lysine 4-specific methyltransferase, Mol. Cell, 8, 1207, 10.1016/S1097-2765(01)00405-1
Weiler, 1995, Heterochromatin and gene expression in Drosophila, Annu. Rev. Genet., 29, 577, 10.1146/annurev.ge.29.120195.003045
White, 2001, Structure of the yeast nucleosome core particle reveals fundamental changes in internucleosome interactions, EMBO J., 20, 5207, 10.1093/emboj/20.18.5207