Accès gratuit
Numéro
Biologie Aujourd'hui
Volume 207, Numéro 1, 2013
Page(s) 19 - 31
DOI https://doi.org/10.1051/jbio/2013002
Publié en ligne 23 mai 2013
  • Bannister A.J., Kouzarides T., Regulation of chromatin by histone modifications. Cell Research, 2011, 21, 381–395. [CrossRef] [PubMed] [Google Scholar]
  • Bantignies F., Cavalli G., Polycomb group proteins: repression in 3D. Trends Genet, 2011, 27, 454–464. [CrossRef] [PubMed] [Google Scholar]
  • Bantignies F., Grimaud C., Lavrov S., Gabut M., Cavalli G., Inheritance of Polycomb-dependent chromosomal interactions in Drosophila. Genes Dev, 2003, 17, 2406–2420. [CrossRef] [PubMed] [Google Scholar]
  • Bantignies F., Roure V., Comet I., Leblanc B., Schuettengruber B., Bonnet J., Tixier V., Mas A., Cavalli G., Polycomb-dependent regulatory contacts between distant Hox loci in Drosophila. Cell, 2011, 144, 214–226. [CrossRef] [PubMed] [Google Scholar]
  • Beisel C., Paro R., Silencing chromatin: comparing modes and mechanisms. Nat Rev Genet, 2011, 12, 123–135. [CrossRef] [PubMed] [Google Scholar]
  • Branco M.R., Pombo A., Intermingling of chromosome territories in interphase suggests role in translocations and transcription-dependent associations. PLoS Biology, 2006, 4, e138. [CrossRef] [PubMed] [Google Scholar]
  • Buchenau P., Hodgson J., Strutt H., Arndt-Jovin D.J., The distribution of polycomb-group proteins during cell division and development in Drosophila embryos: impact on models for silencing. J Cell Biol, 1998, 141, 469–481. [CrossRef] [PubMed] [Google Scholar]
  • Cheutin T., Bantignies F., Leblanc B., Cavalli G., Chromatin folding: from linear chromosomes to the 4D nucleus. Cold Spring Harb Symp Quant Biol, 2010, 75, 461–473. [CrossRef] [PubMed] [Google Scholar]
  • Choi D., Goo H.G., Yoo J., Kang S., Identification of RNF2-responding loci in long-range chromatin interactions using the novel 4C-ChIP-Cloning technology. J Biotechnol, 2011, 151, 312–318. [CrossRef] [PubMed] [Google Scholar]
  • Classen A.K., Bunker B.D., Harvey K.F., Vaccari T., Bilder D., A tumor suppressor activity of Drosophila Polycomb genes mediated by JAK-STAT signaling. Nat Genet, 2009, 41, 1150–1155. [CrossRef] [PubMed] [Google Scholar]
  • Deal R.B., Henikoff J.G., Henikoff S., Genome-wide kinetics of nucleosome turnover determined by metabolic labeling of histones. Science, 2010, 328, 1161–1164. [CrossRef] [PubMed] [Google Scholar]
  • Dekker J., Rippe K., Dekker M., Kleckner N., Capturing chromosome conformation. Science, 2002, 295, 1306–1311. [CrossRef] [PubMed] [Google Scholar]
  • Dixon J.R., Selvaraj S., Yue F., Kim A., Li Y., Shen Y., Hu M., Liu J.S., Ren B., Topological domains in mammalian genomes identified by analysis of chromatin interactions. Nature, 2012, 485 , 376–380. [CrossRef] [PubMed] [Google Scholar]
  • Duan Z., Andronescu M., Schutz K., McIlwain S., Kim Y.J., Lee C., Shendure J., Fields S., Blau C.A., Noble W.S., A three-dimensional model of the yeast genome. Nature, 2010, 465, 363–367. [CrossRef] [PubMed] [Google Scholar]
  • Enderle D., Beisel C., Stadler M.B., Gerstung M., Athri P., Paro R., Polycomb preferentially targets stalled promoters of coding and noncoding transcripts. Genome Res, 2011, 21, 216–226. [CrossRef] [PubMed] [Google Scholar]
  • Ernst J., Kheradpour P., Mikkelsen T.S., Shoresh N., Ward L.D., Epstein C.B., Zhang X., Wang L., Issner R., Coyne M., Ku M., Durham T, Kellis M., Bernstein B.E., Mapping and analysis of chromatin state dynamics in nine human cell types. Nature, 2011, 473, 43–49. [CrossRef] [PubMed] [Google Scholar]
  • Ferraiuolo M.A., Rousseau M., Miyamoto C., Shenker S., Wang X.Q., Nadler M., Blanchette M., Dostie J., The three-dimensional architecture of Hox cluster silencing. Nucleic Acids Res, 2010, 38, 7472–7484. [CrossRef] [PubMed] [Google Scholar]
  • Ficz G., Heintzmann R., Arndt-Jovin D.J., Polycomb group protein complexes exchange rapidly in living Drosophila. Development, 2005, 132, 3963–3976. [CrossRef] [PubMed] [Google Scholar]
  • Filion G.J., van Bemmel J.G., Braunschweig U., Talhout W., Kind J., Ward L.D., Brugman W., de Castro I.J., Kerkhoven R.M., Bussemaker H.J., van Steensel B., Systematic protein location mapping reveals five principal chromatin types in Drosophila cells. Cell, 2010, 143, 212–224. [CrossRef] [PubMed] [Google Scholar]
  • Fullwood M.J., Liu M.H., Pan Y.F., Liu J., Xu H., Mohamed Y.B., Orlov Y.L., Velkov S., Ho A., Mei P.H., Chew E.G., Huang P.Y., Welboren W.J., Han Y., Ooi H.S., Ariyaratne P.N., Vega V.B., Luo Y., Tan P.Y., Choy P.Y., Wansa K.D., Zhao B., Lim K.S., Leow S.C., Yow J.S., Joseph R., Li H., Desai K.V., Thomsen J.S., Lee Y.K., Karuturi R.K., Hervé T., Bourque G., Stunnenberg H.G., Ruan X., Cacheux-Rataboul V., Sung W.K., Liu E.T., Wei C.L., Cheung E., Ruan Y., An oestrogen-receptor-alpha-bound human chromatin interactome. Nature, 2009, 462, 58–64. [CrossRef] [PubMed] [Google Scholar]
  • Grimaud C., Bantignies F., Pal-Bhadra M., Ghana P., Bhadra U., Cavalli G., RNAi components are required for nuclear clustering of Polycomb group response elements. Cell, 2006, 124, 957–971. [CrossRef] [PubMed] [Google Scholar]
  • Handoko L., Xu H., Li G., Ngan C.Y., Chew E., Schnapp M., Lee C.W., Ye C., Ping J.L., Mulawadi F., Wong E., Sheng J., Zhang Y., Poh T., Chan C.S., Kunarso G., Shahab A., Bourque G., Cacheux-Rataboul V., Sung W.K., Ruan Y., Wei C.L., CTCF-mediated functional chromatin interactome in pluripotent cells. Nat Genet, 2011, 43, 630–638. [CrossRef] [PubMed] [Google Scholar]
  • Hou C., Li L., Qin Z.S., Corces V.G., Gene density, transcription, and insulators contribute to the partition of the Drosophila genome into physical domains. Molecular Cell, 2012, 48, 471–484. [CrossRef] [PubMed] [Google Scholar]
  • Kharchenko P.V., Alekseyenko A.A., Schwartz Y.B., Minoda A., Riddle N.C., Ernst J., Sabo P.J., Larschan E., Gorchakov A.A., Gu T., Linder-Basso D., Plachetka A., Shanower G., Tolstorukov M.Y., Luquette L.J., Xi R., Jung Y.L., Park R.W., Bishop E.P., Canfield T.K., Sandstrom R., Thurman R.E., MacAlpine D.M., Stamatoyannopoulos J.A., Kellis M., Elgin S.C., Kuroda M.I., Pirrotta V., Karpen G.H., Park P.J., Comprehensive analysis of the chromatin landscape in Drosophila melanogaster. Nature, 2011, 471, 480–485. [CrossRef] [PubMed] [Google Scholar]
  • Ku M., Koche R.P., Rheinbay E., Mendenhall E.M., Endoh M., Mikkelsen T.S., Presser A., Nusbaum C., Xie X., Chi A.S., Adli M., Kasif S., Ptaszek L.M., Cowan C.A., Lander E.S., Koseki H., Bernstein B.E., Genomewide analysis of PRC1 and PRC2 occupancy identifies two classes of bivalent domains. PLoS Genet, 2008, 4, e1000242. [CrossRef] [PubMed] [Google Scholar]
  • Lanctot C., Cheutin T., Cremer M., Cavalli G., Cremer T., Dynamic genome architecture in the nuclear space: regulation of gene expression in three dimensions. Nat Rev Genet, 2007, 8, 104–115. [CrossRef] [PubMed] [Google Scholar]
  • Lanzuolo C., Roure V., Dekker J., Bantignies F., Orlando V., Polycomb response elements mediate the formation of chromosome higher-order structures in the bithorax complex. Nat Cell Biol, 2007, 9, 1167–1174. [CrossRef] [PubMed] [Google Scholar]
  • Lewis E.B., A gene complex controlling segmentation in Drosophila. Nature, 1978, 276, 565–570. [CrossRef] [PubMed] [Google Scholar]
  • Li G., Ruan X., Auerbach R.K., Sandhu K.S., Zheng M., Wang P., Poh H.M., Goh Y., Lim J., Zhang J., Sim H.S., Peh S.Q., Mulawadi F.H., Ong C.T., Orlov Y.L., Hong S., Zhang Z., Landt S., Raha D., Euskirchen G., Wei C.L., Ge W., Wang H., Davis C., Fisher-Aylor K.I., Mortazavi A., Gerstein M., Gingeras T., Wold B., Sun Y., Fullwood M.J., Cheung E., Liu E., Sung W.K., Snyder M., Ruan Y., Extensive promoter-centered chromatin interactions provide a topological basis for transcription regulation. Cell, 2012, 148 , 84–98. [CrossRef] [PubMed] [Google Scholar]
  • Lieberman-Aiden E., van Berkum N.L., Williams L., Imakaev M., Ragoczy T., Telling A., Amit I., Lajoie B.R., Sabo P.J, Dorschner M.O., Sandstrom R., Bernstein B, Bender M.A., Groudine M., Gnirke A., Stamatoyannopoulos J., Mirny L.A., Lander E.S., Dekker J., Comprehensive mapping of long-range interactions reveals folding principles of the human genome. Science, 2009, 326, 289–293. [CrossRef] [PubMed] [Google Scholar]
  • Lin C., Yang L., Tanasa B., Hutt K., Ju B.G., Ohgi K., Zhang J., Rose D.W., Fu X.D., Glass C.K., Rosenfeld M.G., Nuclear receptor-induced chromosomal proximity and DNA breaks underlie specific translocations in cancer. Cell, 2009, 139, 1069–1083. [CrossRef] [PubMed] [Google Scholar]
  • Liu T., Rechtsteiner A., Egelhofer T.A., Vielle A., Latorre I., Cheung M.S., Ercan S., Ikegami K., Jensen M., Kolasinska-Zwierz P., Rosenbaum H., Shin H., Taing S., Takasaki T., Iniguez A.L., Desai A., Dernburg A.F., Kimura H., Lieb J.D., Ahringer J., Strome S., Liu X.S., Broad chromosomal domains of histone modification patterns in C. elegans. Genome Res, 2011, 21, 227–236. [CrossRef] [PubMed] [Google Scholar]
  • Lynch M.D., Smith A.J., De Gobbi M., Flenley M., Hughes JR., Vernimmen D., Ayyub H., Sharpe J.A., Sloane-Stanley J.A., Sutherland L., Meek S., Burdon T., Gibbons R.J., Garrick D., Higgs D.R., An interspecies analysis reveals a key role for unmethylated CpG dinucleotides in vertebrate Polycomb complex recruitment. Embo J, 2012, 31, 317–329. [CrossRef] [PubMed] [Google Scholar]
  • Martinez A.M., Schuettengruber B., Sakr S., Janic A., Gonzalez C., Cavalli G., Polyhomeotic has a tumor suppressor activity mediated by repression of Notch signaling. Nat Genet, 2009, 41, 1076–1082. [CrossRef] [PubMed] [Google Scholar]
  • Mendenhall E.M., Koche R.P., Truong T., Zhou V.W., Issac B., Chi A.S., Ku M., Bernstein B.E., GC-rich sequence elements recruit PRC2 in mammalian ES cells. PLoS Genetics, 2010, 6, e1001244. [Google Scholar]
  • Mills A.A., Throwing the cancer switch: reciprocal roles of polycomb and trithorax proteins. Nat Rev Cancer, 2010, 10, 669–682. [CrossRef] [PubMed] [Google Scholar]
  • Mito Y., Henikoff J.G., Henikoff S., Histone replacement marks the boundaries of cis-regulatory domains. Science, 2007, 315 , 1408–1411. [CrossRef] [PubMed] [Google Scholar]
  • Naumova N., Dekker J., Integrating one-dimensional and three-dimensional maps of genomes. J Cell Sci, 2010, 123, 1979–1988. [CrossRef] [PubMed] [Google Scholar]
  • Nègre N., Brown C.D., Ma L., Bristow C.A., Miller S.W., Wagner U., Kheradpour P., Eaton M.L., Loriaux P., Sealfon R., Li Z., Ishii H., Spokony R.F., Chen J., Hwang L., Cheng C., Auburn R.P., Davis M.B., Domanus M., Shah P.K., Morrison C.A., Zieba J., Suchy S., Senderowicz L., Victorsen A., Bild N.A., Grundstad A.J., Hanley D., MacAlpine D.M., Mannervik M., Venken K., Bellen H., White R., Gerstein M., Russell S., Grossman R.L., Ren B., Posakony J.W., Kellis M., White K.P., A cis-regulatory map of the Drosophila genome. Nature, 2011, 471, 527–531. [CrossRef] [PubMed] [Google Scholar]
  • Ng J., Hart C.M., Morgan K., Simon J.A., A Drosophila ESC-E(Z) protein complex is distinct from other polycomb group complexes and contains covalently modified ESC. Mol Cell Biol, 2000, 20, 3069–3078. [CrossRef] [PubMed] [Google Scholar]
  • Nikiforova M.N., Stringer J.R., Blough R., Medvedovic M., Fagin J.A., Nikiforov Y.E., Proximity of chromosomal loci that participate in radiation-induced rearrangements in human cells. Science, 2000, 290, 138–141. [CrossRef] [PubMed] [Google Scholar]
  • Noordermeer D., Leleu M., Splinter E., Rougemont J., De Laat W., Duboule D., The dynamic architecture of Hox gene clusters. Science, 2011, 334, 222–225. [CrossRef] [PubMed] [Google Scholar]
  • Nora E.P., Lajoie B.R., Schulz E.G., Giorgetti L., Okamoto I., Servant N., Piolot T., van Berkum N.L., Meisig J., Sedat J., Gribnau J., Barillot E., Bluthgen N., Dekker J., Heard E., Spatial partitioning of the regulatory landscape of the X-inactivation centre. Nature, 2012, 485, 381–385. [CrossRef] [PubMed] [Google Scholar]
  • Osborne C.S., Chakalova L., Mitchell J.A., Horton A., Wood A.L., Bolland D.J., Corcoran A.E., Fraser P., Myc dynamically and preferentially relocates to a transcription factory occupied by Igh. PLoS Biology, 2007, 5, e192. [CrossRef] [PubMed] [Google Scholar]
  • Pasini D., Bracken A.P., Agger K., Christensen J., Hansen K., Cloos P.A., Helin K., Regulation of stem cell differentiation by histone methyltransferases and demethylases. Cold Spring Harb Symp Quant Biol, 2008, 73, 253–263. [CrossRef] [PubMed] [Google Scholar]
  • Ringrose L., Polycomb comes of age: genome-wide profiling of target sites. Curr Opin Cell Biol, 2007, 19, 290–297. [CrossRef] [PubMed] [Google Scholar]
  • Rodley C.D., Bertels F., Jones B., O’Sullivan J.M., Global identification of yeast chromosome interactions using Genome conformation capture. Fungal Genet Biol, 2009, 46, 879–886. [CrossRef] [PubMed] [Google Scholar]
  • Roix J.J., McQueen P.G., Munson P.J., Parada L.A., Misteli T., Spatial proximity of translocation-prone gene loci in human lymphomas. Nat Genet, 2003, 34, 287–291. [CrossRef] [PubMed] [Google Scholar]
  • Roudier F., Ahmed I., Bérard C., Sarazin A., Mary-Huard T., Cortijo S., Bouyer D., Caillieux E., Duvernois-Berthet E., Al-Shikhley L., Giraut L., Després B., Drevensek S., Barnèche F., Derozier S., Brunaud V., Aubourg S., Schnittger A., Bowler C., Martin-Magniette M.L., Robin S., Caboche M., Colot V., Integrative epigenomic mapping defines four main chromatin states in Arabidopsis. Embo J, 2011, 30, 1928–1938. [Google Scholar]
  • Roure V., Bantignies F., Polycomb group-mediated gene silencing mechanisms: stability versus flexibility. Epigenomics, 2009, 1, 301–318. [CrossRef] [PubMed] [Google Scholar]
  • Saurin A.J., Shiels C., Williamson J., Satijn D.P., Otte A.P., Sheer D., Freemont P.S. The human polycomb group complex associates with pericentromeric heterochromatin to form a novel nuclear domain. J Cell Biol, 1998, 142, 887–898. [CrossRef] [PubMed] [Google Scholar]
  • Schoenfelder S., Sexton T., Chakalova L., Cope N.F., Horton A., Andrews S., Kurukuti S., Mitchell J.A., Umlauf D., Dimitrova D.S., Eskiw C.H., Luo Y., Wei C.L., Ruan Y, Bieker J.J., Fraser P., Preferential associations between co-regulated genes reveal a transcriptional interactome in erythroid cells. Nat Genet, 2010, 42, 53–61. [CrossRef] [PubMed] [Google Scholar]
  • Schuettengruber B., Chourrout D., Vervoort M., Leblanc B., Cavalli G., Genome regulation by polycomb and trithorax proteins. Cell, 2007, 128, 735–745. [CrossRef] [PubMed] [Google Scholar]
  • Sexton T., Bantignies F., Cavalli G., Genomic interactions: chromatin loops and gene meeting points in transcriptional regulation. Semin Cell Dev Biol, 2009, 20, 849–855. [CrossRef] [PubMed] [Google Scholar]
  • Sexton T., Yaffe E., Kenigsberg E., Bantignies F., Leblanc B., Hoichman M., Parrinello H., Tanay A., Cavalli G., Three-dimensional folding and functional organization principles of the Drosophila genome. Cell, 2012, 148, 458–472. [CrossRef] [PubMed] [Google Scholar]
  • Shao Z., Raible F., Mollaaghababa R., Guyon J.R., Wu C.T., Bender W., Kingston R.E., Stabilization of chromatin structure by PRC1, a Polycomb complex. Cell, 1999, 98, 37–46. [CrossRef] [PubMed] [Google Scholar]
  • Shopland L.S., Lynch C.R., Peterson K.A., Thornton K., Kepper N., Hase J., Stein S., Vincent S., Molloy K.R., Kreth G., Cremer C., Bult C.J., O’Brien T.P., Folding and organization of a contiguous chromosome region according to the gene distribution pattern in primary genomic sequence. J Cell Biol, 2006, 174, 27–38. [CrossRef] [PubMed] [Google Scholar]
  • Stock J.K., Giadrossi S., Casanova M., Brookes E., Vidal M., Koseki H., Brockdorff N., Fisher A.G., Pombo A., Ring1-mediated ubiquitination of H2A restrains poised RNA polymerase II at bivalent genes in mouse ES cells. Nat Cell Biol, 2007, 9, 1428–1435. [CrossRef] [PubMed] [Google Scholar]
  • Tanizawa H., Iwasaki O., Tanaka A., Capizzi J.R., Wickramasinghe P., Lee M., Fu Z., Noma K., Mapping of long-range associations throughout the fission yeast genome reveals global genome organization linked to transcriptional regulation. Nucleic Acids Res, 2010, 38, 8164–8177. [CrossRef] [PubMed] [Google Scholar]
  • Tiwari V.K., Cope L., McGarvey K.M., Ohm J.E., Baylin S.B., A novel 6C assay uncovers Polycomb-mediated higher order chromatin conformations. Genome Res, 2008a, 18, 1171–1179. [CrossRef] [PubMed] [Google Scholar]
  • Tiwari V.K., McGarvey K.M., Licchesi J.D., Ohm J.E., Herman J.G., Schubeler D., Baylin S.B., PcG proteins, DNA methylation, and gene repression by chromatin looping. PLoS Biol, 2008b, 6, 2911–2927. [CrossRef] [PubMed] [Google Scholar]
  • Tolhuis B., Blom M., Kerkhoven R.M., Pagie L, Teunissen H., Nieuwland M., Simonis M., de Laat W., van Lohuizen M., van Steensel B., Interactions among Polycomb domains are guided by chromosome architecture. PLoS Genet, 2011, 7, e1001343. [CrossRef] [PubMed] [Google Scholar]
  • Vazquez J., Muller M., Pirrotta V., Sedat J.W., The Mcp element mediates stable long-range chromosome- chromosome interactions in Drosophila. Mol Biol Cell, 2006, 17, 2158–2165. [CrossRef] [PubMed] [Google Scholar]
  • Versteeg R., van Schaik B.D., van Batenburg M.F., Roos M., Monajemi R., Caron H., Bussemaker H.J., van Kampen A.H., The human transcriptome map reveals extremes in gene density, intron length, GC content, and repeat pattern for domains of highly and weakly expressed genes. Genome Res, 2003, 13, 1998–2004. [CrossRef] [PubMed] [Google Scholar]
  • Xu K., Wu Z.J., Groner A.C., He H.H., Cai C., Lis R.T., Wu X., Stack E.C., Loda M., Liu T., Xu H., Cato L., Thornton J.E., Gregory R.I., Morrissey C., Vessella R.L., Montironi R., Magi-Galluzzi C., Kantoff P.W., Balk S.P., Liu X.S, Brown M., EZH2 oncogenic activity in castration-resistant prostate cancer cells is Polycomb-independent. Science, 2012, 338, 1465–1469. [CrossRef] [PubMed] [Google Scholar]

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