메뉴 건너뛰기




Volumn 46, Issue 9, 2014, Pages 973-981

A strand-specific switch in noncoding transcription switches the function of a Polycomb/Trithorax response element

Author keywords

[No Author keywords available]

Indexed keywords

HISTONE H3; MESSENGER RNA; POLYCOMB REPRESSIVE COMPLEX 2; RNA POLYMERASE II; UNTRANSLATED RNA; CHROMATIN; DNA BINDING PROTEIN; DROSOPHILA PROTEIN; HISTONE LYSINE METHYLTRANSFERASE; NONHISTONE PROTEIN; POLYCOMB GROUP PROTEIN; PRC2 PROTEIN, DROSOPHILA; TRANSCRIPTION FACTOR; TRITHORAX PROTEIN, DROSOPHILA;

EID: 84938310296     PISSN: 10614036     EISSN: 15461718     Source Type: Journal    
DOI: 10.1038/ng.3058     Document Type: Article
Times cited : (90)

References (54)
  • 1
    • 84885393469 scopus 로고    scopus 로고
    • Transcriptional regulation by Polycomb group proteins
    • Di Croce, L. & Helin, K. Transcriptional regulation by Polycomb group proteins. Nat. Struct. Mol. Biol. 20, 1147-1155 (2013
    • (2013) Nat. Struct. Mol. Biol , vol.20 , pp. 1147-1155
    • Di Croce, L.1    Helin, K.2
  • 2
    • 84899482505 scopus 로고    scopus 로고
    • What are memories made of? How Polycomb and Trithorax proteins mediate epigenetic memory
    • Steffen, P.A. & Ringrose, L. What are memories made of?. How Polycomb and Trithorax proteins mediate epigenetic memory. Nat. Rev. Mol. Cell Biol. 15, 340-356 (2014
    • (2014) Nat. Rev. Mol. Cell Biol , vol.15 , pp. 340-356
    • Steffen, P.A.1    Ringrose, L.2
  • 3
    • 33748419671 scopus 로고    scopus 로고
    • Polycomb response elements and targeting of Polycomb group proteins in Drosophila
    • Müller, J. & Kassis, J.A. Polycomb response elements and targeting of Polycomb group proteins in Drosophila. Curr. Opin. Genet. Dev. 16, 476-484 (2006
    • (2006) Curr. Opin. Genet. Dev , vol.16 , pp. 476-484
    • Müller, J.1    Kassis, J.A.2
  • 4
    • 66349089138 scopus 로고    scopus 로고
    • Non-coding RNAs in polycomb/trithorax regulation
    • Hekimoglu, B. & Ringrose, L. Non-coding RNAs in polycomb/trithorax regulation. RNA Biol. 6, 129-137 (2009
    • (2009) RNA Biol , vol.6 , pp. 129-137
    • Hekimoglu, B.1    Ringrose, L.2
  • 5
    • 79957538539 scopus 로고    scopus 로고
    • RNA templating the epigenome: Long noncoding RNAs as molecular scaffolds
    • Spitale, R.C., Tsai, M.C. & Chang, H.Y. RNA templating the epigenome: long noncoding RNAs as molecular scaffolds. Epigenetics 6, 539-543 (2011
    • (2011) Epigenetics , vol.6 , pp. 539-543
    • Spitale, R.C.1    Tsai, M.C.2    Chang, H.Y.3
  • 6
    • 84875418596 scopus 로고    scopus 로고
    • Noncoding RNA and Polycomb recruitment
    • Brockdorff, N. Noncoding RNA and Polycomb recruitment. RNA 19, 429-442 (2013
    • (2013) RNA , vol.19 , pp. 429-442
    • Brockdorff, N.1
  • 7
    • 34250729138 scopus 로고    scopus 로고
    • Functional demarcation of active and silent chromatin domains in human HOX loci by noncoding RNAs
    • Rinn, J.L. et al. Functional demarcation of active and silent chromatin domains in human HOX loci by noncoding RNAs. Cell 129, 1311-1323 (2007
    • (2007) Cell , vol.129 , pp. 1311-1323
    • Rinn, J.L.1
  • 8
    • 55349109963 scopus 로고    scopus 로고
    • Polycomb proteins targeted by a short repeat RNA to the mouse X chromosome
    • Zhao, J., Sun, B.K., Erwin, J.A., Song, J.J. & Lee, J.T. Polycomb proteins targeted by a short repeat RNA to the mouse X chromosome. Science 322, 750-756 (2008
    • (2008) Science , vol.322 , pp. 750-756
    • Zhao, J.1    Sun, B.K.2    Erwin, J.A.3    Song, J.J.4    Lee, J.T.5
  • 9
    • 77953107585 scopus 로고    scopus 로고
    • Short RNAs are transcribed from repressed polycomb target genes and interact with polycomb repressive complex-2
    • Kanhere, A. et al. Short RNAs are transcribed from repressed polycomb target genes and interact with polycomb repressive complex-2. Mol. Cell 38, 675-688 (2010
    • (2010) Mol. Cell , vol.38 , pp. 675-688
    • Kanhere, A.1
  • 10
    • 78650253763 scopus 로고    scopus 로고
    • Genome-wide identification of polycomb-associated RNAs by RIP-seq
    • Zhao, J. et al. Genome-wide identification of polycomb-associated RNAs by RIP-seq. Mol. Cell 40, 939-953 (2010
    • (2010) Mol. Cell , vol.40 , pp. 939-953
    • Zhao, J.1
  • 11
    • 79953748673 scopus 로고    scopus 로고
    • A long noncoding RNA maintains active chromatin to coordinate homeotic gene expression
    • Wang, K.C. et al. A long noncoding RNA maintains active chromatin to coordinate homeotic gene expression. Nature 472, 120-124 (2011
    • (2011) Nature , vol.472 , pp. 120-124
    • Wang, K.C.1
  • 12
    • 84863718299 scopus 로고    scopus 로고
    • Intronic RNAs mediate EZH2 regulation of epigenetic targets
    • Guil, S. et al. Intronic RNAs mediate EZH2 regulation of epigenetic targets. Nat. Struct. Mol. Biol. 19, 664-670 (2012
    • (2012) Nat. Struct. Mol. Biol , vol.19 , pp. 664-670
    • Guil, S.1
  • 14
    • 84904507962 scopus 로고    scopus 로고
    • Regulatory interactions between RNA and Polycomb repressive complex 2
    • 29 May 2014
    • Cifuentes-Rojas, C., Hernandez, A.J., Sarma, K. & Lee, J.T. Regulatory interactions between RNA and Polycomb repressive complex 2. Mol. Cell doi: 10.1016/j.molcel.2014.05.009 (29 May 2014
    • Mol. Cell
    • Cifuentes-Rojas, C.1    Hernandez, A.J.2    Sarma, K.3    Lee, J.T.4
  • 15
    • 0027483619 scopus 로고
    • Allocation of the thoracic imaginal primordia in the Drosophila embryo
    • Cohen, B., Simcox, A.A. & Cohen, S.M. Allocation of the thoracic imaginal primordia in the Drosophila embryo. Development 117, 597-608 (1993
    • (1993) Development , vol.117 , pp. 597-608
    • Cohen, B.1    Simcox, A.A.2    Cohen, S.M.3
  • 16
    • 0026296832 scopus 로고
    • Control of Drosophila wing and haltere development by the nuclear vestigial gene product
    • Williams, J.A., Bell, J.B. & Carroll, S.B. Control of Drosophila wing and haltere development by the nuclear vestigial gene product. Genes Dev. 5, 2481-2495 (1991
    • (1991) Genes Dev , vol.5 , pp. 2481-2495
    • Williams, J.A.1    Bell, J.B.2    Carroll, S.B.3
  • 17
    • 63049083213 scopus 로고    scopus 로고
    • Alternative requirements for Vestigial Scalloped, and Dmef2 during muscle differentiation in Drosophila melanogaster
    • Deng, H., Hughes, S.C., Bell, J.B. & Simmonds, A.J. Alternative requirements for Vestigial, Scalloped, and Dmef2 during muscle differentiation in Drosophila melanogaster. Mol. Biol. Cell 20, 256-269 (2009
    • (2009) Mol. Biol. Cell , vol.20 , pp. 256-269
    • Deng, H.1    Hughes, S.C.2    Bell, J.B.3    Simmonds, A.J.4
  • 18
    • 0042062207 scopus 로고    scopus 로고
    • Control of apterous by vestigial drives indirect flight muscle development in Drosophila
    • Bernard, F. et al. Control of apterous by vestigial drives indirect flight muscle development in Drosophila. Dev. Biol. 260, 391-403 (2003
    • (2003) Dev. Biol , vol.260 , pp. 391-403
    • Bernard, F.1
  • 19
    • 51549104471 scopus 로고    scopus 로고
    • Vestigial expression in the Drosophila embryonic central nervous system
    • Guss, K.A., Mistry, H. & Skeath, J.B. Vestigial expression in the Drosophila embryonic central nervous system. Dev. Dyn. 237, 2483-2489 (2008
    • (2008) Dev. Dyn , vol.237 , pp. 2483-2489
    • Guss, K.A.1    Mistry, H.2    Skeath, J.B.3
  • 20
    • 78751595020 scopus 로고    scopus 로고
    • Polycomb preferentially targets stalled promoters of coding and noncoding transcripts
    • Enderle, D. et al. Polycomb preferentially targets stalled promoters of coding and noncoding transcripts. Genome Res. 21, 216-226 (2011
    • (2011) Genome Res , vol.21 , pp. 216-226
    • Enderle, D.1
  • 21
    • 79953060951 scopus 로고    scopus 로고
    • Comprehensive analysis of the chromatin landscape in Drosophila melanogaster
    • Kharchenko, P.V. et al. Comprehensive analysis of the chromatin landscape in Drosophila melanogaster. Nature 471, 480-485 (2011
    • (2011) Nature , vol.471 , pp. 480-485
    • Kharchenko, P.V.1
  • 22
    • 27744555810 scopus 로고    scopus 로고
    • Suppression of Polycomb group proteins by JNK signalling induces transdetermination in Drosophila imaginal discs
    • Lee, N., Maurange, C., Ringrose, L. & Paro, R. Suppression of Polycomb group proteins by JNK signalling induces transdetermination in Drosophila imaginal discs. Nature 438, 234-237 (2005
    • (2005) Nature , vol.438 , pp. 234-237
    • Lee, N.1    Maurange, C.2    Ringrose, L.3    Paro, R.4
  • 23
    • 79960179424 scopus 로고    scopus 로고
    • Enhancer-PRE communication contributes to the expansion of gene expression domains in proliferating primordia
    • Pérez, L. et al. Enhancer-PRE communication contributes to the expansion of gene expression domains in proliferating primordia. Development 138, 3125-3134 (2011
    • (2011) Development , vol.138 , pp. 3125-3134
    • Pérez, L.1
  • 24
    • 57049141484 scopus 로고    scopus 로고
    • Dynamic regulation by polycomb group protein complexes controls pattern formation and the cell cycle in Drosophila
    • Oktaba, K. et al. Dynamic regulation by polycomb group protein complexes controls pattern formation and the cell cycle in Drosophila. Dev. Cell 15, 877-889 (2008
    • (2008) Dev. Cell , vol.15 , pp. 877-889
    • Oktaba, K.1
  • 25
    • 33745225872 scopus 로고    scopus 로고
    • Genome-wide analysis of Polycomb targets in Drosophila melanogaster
    • Schwartz, Y.B. et al. Genome-wide analysis of Polycomb targets in Drosophila melanogaster. Nat. Genet. 38, 700-705 (2006
    • (2006) Nat. Genet , vol.38 , pp. 700-705
    • Schwartz, Y.B.1
  • 26
    • 79952701283 scopus 로고    scopus 로고
    • Quantitative analysis of polycomb response elements (PREs) at identical genomic locations distinguishes contributions of PRE sequence and genomic environment
    • Okulski, H., Druck, B., Bhalerao, S. & Ringrose, L. Quantitative analysis of polycomb response elements (PREs) at identical genomic locations distinguishes contributions of PRE sequence and genomic environment. Epigenetics Chromatin 4, 4 (2011
    • (2011) Epigenetics Chromatin , vol.4 , Issue.4
    • Okulski, H.1    Druck, B.2    Bhalerao, S.3    Ringrose, L.4
  • 27
    • 0025221554 scopus 로고
    • The embryonic development of larval muscles in Drosophila
    • Bate, M. The embryonic development of larval muscles in Drosophila. Development 110, 791-804 (1990
    • (1990) Development , vol.110 , pp. 791-804
    • Bate, M.1
  • 28
    • 40949087581 scopus 로고    scopus 로고
    • The role of Polycomb-group response elements in regulation of engrailed transcription in Drosophila
    • DeVido, S.K., Kwon, D., Brown, J.L. & Kassis, J.A. The role of Polycomb-group response elements in regulation of engrailed transcription in Drosophila. Development 135, 669-676 (2008
    • (2008) Development , vol.135 , pp. 669-676
    • DeVido, S.K.1    Kwon, D.2    Brown, J.L.3    Kassis, J.A.4
  • 29
    • 78651514974 scopus 로고    scopus 로고
    • Polycomb-dependent regulatory contacts between distant Hox loci in Drosophila
    • Bantignies, F. et al. Polycomb-dependent regulatory contacts between distant Hox loci in Drosophila. Cell 144, 214-226 (2011
    • (2011) Cell , vol.144 , pp. 214-226
    • Bantignies, F.1
  • 30
    • 84887460647 scopus 로고    scopus 로고
    • PRC2 binds active promoters and contacts nascent RNAs in embryonic stem cells
    • Kaneko, S., Son, J., Shen, S.S., Reinberg, D. & Bonasio, R. PRC2 binds active promoters and contacts nascent RNAs in embryonic stem cells. Nat. Struct. Mol. Biol. 20, 1258-1264 (2013
    • (2013) Nat. Struct. Mol. Biol , vol.20 , pp. 1258-1264
    • Kaneko, S.1    Son, J.2    Shen, S.S.3    Reinberg, D.4    Bonasio, R.5
  • 31
    • 79551610291 scopus 로고    scopus 로고
    • Genome-wide analysis of promoter architecture in Drosophila melanogaster
    • Hoskins, R.A. et al. Genome-wide analysis of promoter architecture in Drosophila melanogaster. Genome Res. 21, 182-192 (2011
    • (2011) Genome Res , vol.21 , pp. 182-192
    • Hoskins, R.A.1
  • 32
    • 16644389991 scopus 로고    scopus 로고
    • Integrated analysis of the genome and the transcriptome by FANTOM
    • Katayama, S., Kanamori, M. & Hayashizaki, Y. Integrated analysis of the genome and the transcriptome by FANTOM. Brief. Bioinform. 5, 249-258 (2004
    • (2004) Brief. Bioinform , vol.5 , pp. 249-258
    • Katayama, S.1    Kanamori, M.2    Hayashizaki, Y.3
  • 33
    • 44649117905 scopus 로고    scopus 로고
    • Integration of external signaling pathways with the core transcriptional network in embryonic stem cells
    • Chen, X. et al. Integration of external signaling pathways with the core transcriptional network in embryonic stem cells. Cell 133, 1106-1117 (2008
    • (2008) Cell , vol.133 , pp. 1106-1117
    • Chen, X.1
  • 34
    • 72249119297 scopus 로고    scopus 로고
    • Jarid2/Jumonji coordinates control of PRC2 enzymatic activity and target gene occupancy in pluripotent cells
    • Peng, J.C. et al. Jarid2/Jumonji coordinates control of PRC2 enzymatic activity and target gene occupancy in pluripotent cells. Cell 139, 1290-1302 (2009
    • (2009) Cell , vol.139 , pp. 1290-1302
    • Peng, J.C.1
  • 35
    • 84865192845 scopus 로고    scopus 로고
    • Flowering time control: Another window to the connection between antisense RNA and chromatin
    • Ietswaart, R., Wu, Z. & Dean, C. Flowering time control: another window to the connection between antisense RNA and chromatin. Trends Genet. 28, 445-453 (2012
    • (2012) Trends Genet , vol.28 , pp. 445-453
    • Ietswaart, R.1    Wu, Z.2    Dean, C.3
  • 36
    • 4444355645 scopus 로고    scopus 로고
    • Transcription cofactor Vgl-2 is required for skeletal muscle differentiation
    • Chen, H.H., Maeda, T., Mullett, S.J. & Stewart, A.F. Transcription cofactor Vgl-2 is required for skeletal muscle differentiation. Genesis 39, 273-279 (2004
    • (2004) Genesis , vol.39 , pp. 273-279
    • Chen, H.H.1    Maeda, T.2    Mullett, S.J.3    Stewart, A.F.4
  • 37
    • 84887995915 scopus 로고    scopus 로고
    • Gene regulation by antisense transcription
    • Pelechano, V. & Steinmetz, L.M. Gene regulation by antisense transcription. Nat. Rev. Genet. 14, 880-893 (2013
    • (2013) Nat. Rev. Genet , vol.14 , pp. 880-893
    • Pelechano, V.1    Steinmetz, L.M.2
  • 38
    • 0028299150 scopus 로고
    • Organization of wing formation and induction of a wing-patterning gene at the dorsal/ventral compartment boundary
    • Williams, J.A., Paddock, S.W., Vorwerk, K. & Carroll, S.B. Organization of wing formation and induction of a wing-patterning gene at the dorsal/ventral compartment boundary. Nature 368, 299-305 (1994
    • (1994) Nature , vol.368 , pp. 299-305
    • Williams, J.A.1    Paddock, S.W.2    Vorwerk, K.3    Carroll, S.B.4
  • 39
    • 0029901697 scopus 로고    scopus 로고
    • Integration of positional signals and regulation of wing formation and identity by Drosophila vestigial gene
    • Kim, J. et al. Integration of positional signals and regulation of wing formation and identity by Drosophila vestigial gene. Nature 382, 133-138 (1996
    • (1996) Nature , vol.382 , pp. 133-138
    • Kim, J.1
  • 40
    • 67349270900 scopus 로고    scopus 로고
    • Enzymatic assembly of DNA molecules up to several hundred kilobases
    • Gibson, D.G. et al. Enzymatic assembly of DNA molecules up to several hundred kilobases. Nat. Methods 6, 343-345 (2009
    • (2009) Nat. Methods , vol.6 , pp. 343-345
    • Gibson, D.G.1
  • 41
    • 0030513237 scopus 로고    scopus 로고
    • FISH in whole-mount Drosophila embryos. RNA: Activation of a transcriptional locus DNA: Gene architecture and expression
    • Gemkow, M.J., Buchenau, P. & Arndt-Jovin, D.J. FISH in whole-mount Drosophila embryos. RNA: activation of a transcriptional locus, DNA: gene architecture and expression. Bioimaging 4, 107-120 (1996
    • (1996) Bioimaging , vol.4 , pp. 107-120
    • Gemkow, M.J.1    Buchenau, P.2    Arndt-Jovin, D.J.3
  • 42
    • 0030071741 scopus 로고    scopus 로고
    • Cell cycling and patterned cell proliferation in the wing primordium of Drosophila
    • Milán, M., Campuzano, S. & Garcia-Bellido, A. Cell cycling and patterned cell proliferation in the wing primordium of Drosophila. Proc. Natl. Acad. Sci. USA 93, 640-645 (1996
    • (1996) Proc. Natl. Acad. Sci. USA , vol.93 , pp. 640-645
    • Milán, M.1    Campuzano, S.2    Garcia-Bellido, A.3
  • 43
    • 33947095101 scopus 로고    scopus 로고
    • Model for the regulation of size in the wing imaginal disc of Drosophila
    • Aegerter-Wilmsen, T., Aegerter, C.M., Hafen, E. & Basler, K. Model for the regulation of size in the wing imaginal disc of Drosophila. Mech. Dev. 124, 318-326 (2007
    • (2007) Mech. Dev , vol.124 , pp. 318-326
    • Aegerter-Wilmsen, T.1    Aegerter, C.M.2    Hafen, E.3    Basler, K.4
  • 44
    • 34447530305 scopus 로고    scopus 로고
    • A genome-wide transgenic RNAi library for conditional gene inactivation in Drosophila
    • Dietzl, G. et al. A genome-wide transgenic RNAi library for conditional gene inactivation in Drosophila. Nature 448, 151-156 (2007
    • (2007) Nature , vol.448 , pp. 151-156
    • Dietzl, G.1
  • 45
    • 84864326647 scopus 로고    scopus 로고
    • A modular toolset for recombination transgenesis and neurogenetic analysis of Drosophila
    • Wang, J.W., Beck, E.S. & McCabe, B.D. A modular toolset for recombination transgenesis and neurogenetic analysis of Drosophila. PLoS ONE 7, e42102 (2012
    • (2012) PLoS ONE , vol.7 , pp. e42102
    • Wang, J.W.1    Beck, E.S.2    McCabe, B.D.3
  • 46
    • 84893100512 scopus 로고    scopus 로고
    • Elements of the polycomb repressor SU(Z)12 needed for histone H3-K27 methylation, the interface with E(Z), and in vivo function
    • Rai, A.N. et al. Elements of the polycomb repressor SU(Z)12 needed for histone H3-K27 methylation, the interface with E(Z), and in vivo function. Mol. Cell. Biol. 33, 4844-4856 (2013
    • (2013) Mol. Cell. Biol , vol.33 , pp. 4844-4856
    • Rai, A.N.1
  • 47
    • 84878565676 scopus 로고    scopus 로고
    • Quantitative in vivo analysis of chromatin binding of Polycomb and Trithorax group proteins reveals retention of ASH1 on mitotic chromatin
    • Steffen, P.A. et al. Quantitative in vivo analysis of chromatin binding of Polycomb and Trithorax group proteins reveals retention of ASH1 on mitotic chromatin. Nucleic Acids Res. 41, 5235-5250 (2013
    • (2013) Nucleic Acids Res , vol.41 , pp. 5235-5250
    • Steffen, P.A.1
  • 49
    • 0032169352 scopus 로고    scopus 로고
    • Binding of trithorax and Polycomb proteins to the bithorax complex: Dynamic changes during early Drosophila embryogenesis
    • Orlando, V., Jane, E.P., Chinwalla, V., Harte, P.J. & Paro, R. Binding of trithorax and Polycomb proteins to the bithorax complex: dynamic changes during early Drosophila embryogenesis. EMBO J. 17, 5141-5150 (1998
    • (1998) EMBO J. , vol.17 , pp. 5141-5150
    • Orlando, V.1    Jane, E.P.2    Chinwalla, V.3    Harte, P.J.4    Paro, R.5
  • 50
    • 0030478780 scopus 로고    scopus 로고
    • The Drosophila Enhancer of zeste gene encodes a chromosomal protein: Examination of wild-type and mutant protein distribution
    • Carrington, E.A. & Jones, R.S. The Drosophila Enhancer of zeste gene encodes a chromosomal protein: examination of wild-type and mutant protein distribution. Development 122, 4073-4083 (1996
    • (1996) Development , vol.122 , pp. 4073-4083
    • Carrington, E.A.1    Jones, R.S.2
  • 51
    • 62349130698 scopus 로고    scopus 로고
    • And memory-efficient alignment of short DNA sequences to the human genome
    • Langmead, B., Trapnell, C., Pop, M. & Salzberg, S.L. Ultrafast and memory-efficient alignment of short DNA sequences to the human genome. Genome Biol. 10, R25 (2009
    • (2009) Genome Biol , vol.10 , pp. R25
    • Langmead, B.1    Trapnell, C.2    Pop, M.3    Ultrafast, L.S.S.4
  • 52
    • 84870830152 scopus 로고    scopus 로고
    • Fast multiple overlaps of genomic regions
    • Aszódi, A. MULTOVL: fast multiple overlaps of genomic regions. Bioinformatics 28, 3318-3319 (2012
    • (2012) Bioinformatics , vol.28 , pp. 3318-3319
    • Multovl, A.A.1
  • 53
    • 50849090969 scopus 로고    scopus 로고
    • Genome-wide analysis of transcription factor binding sites based on ChIP-Seq data
    • Valouev, A. et al. Genome-wide analysis of transcription factor binding sites based on ChIP-Seq data. Nat. Methods 5, 829-834 (2008
    • (2008) Nat. Methods , vol.5 , pp. 829-834
    • Valouev, A.1
  • 54
    • 28744458859 scopus 로고    scopus 로고
    • Bioconductor: Open software development for computational biology and bioinformatics
    • Gentleman, R.C. et al. Bioconductor: open software development for computational biology and bioinformatics. Genome Biol. 5, R80 (2004
    • (2004) Genome Biol , vol.5 , pp. R80
    • Gentleman, R.C.1


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.