Atypical heterochromatin organization and replication are rapidly acquired by somatic cells following fusion-mediated reprogramming by mouse ESCs

References

• Tsubouchi T, Soza-Ried J, Brown K, Piccolo FM, Cantone I, Landeira D, Bagci H, Hochegger H, Merkenschlager M, Fisher AG. DNA synthesis is required for reprogramming mediated by stem cell fusion. Cell 2013; 152:873 - 83; http://dx.doi.org/10.1016/j.cell.2013.01.012; PMID: 23415233
   PubMed Web of Science ®Google Scholar
• Wreggett KA, Hill F, James PS, Hutchings A, Butcher GW, Singh PB. A mammalian homologue of Drosophila heterochromatin protein 1 (HP1) is a component of constitutive heterochromatin. Cytogenet Cell Genet 1994; 66:99 - 103; http://dx.doi.org/10.1159/000133676; PMID: 8287692
   PubMedGoogle Scholar
• Takebayashi S-I, Dileep V, Ryba T, Dennis JH, Gilbert DM. Chromatin-interaction compartment switch at developmentally regulated chromosomal domains reveals an unusual principle of chromatin folding. Proc Natl Acad Sci U S A 2012; 109:12574 - 9; http://dx.doi.org/10.1073/pnas.1207185109; PMID: 22807480
   PubMed Web of Science ®Google Scholar
• Fussner E, Ahmed K, Dehghani H, Strauss M, Bazett-Jones DP. Changes in chromatin fibre density as a marker for pluripotency. Cold Spring Harb Symp Quant Biol 2011; 75:245 - 9; http://dx.doi.org/10.1101/sqb.2010.75.012
   Google Scholar
• White J, Dalton S. Cell cycle control of embryonic stem cells. Stem Cell Rev 2005; 1:131 - 8; http://dx.doi.org/10.1385/SCR:1:2:131; PMID: 17142847
   PubMed Web of Science ®Google Scholar
• Tsubouchi T, Fisher AG. Reprogramming and the pluripotent stem cell cycle. Curr Top Dev Biol 2013; 104:223 - 41; http://dx.doi.org/10.1016/B978-0-12-416027-9.00007-3; PMID: 23587243
   PubMed Web of Science ®Google Scholar
• Hindley C, Philpott A. The cell cycle and pluripotency. Biochem J 2013; 451:135 - 43; http://dx.doi.org/10.1042/BJ20121627; PMID: 23535166
   PubMed Web of Science ®Google Scholar
• Ghule PN, Medina R, Lengner CJ, Mandeville M, Qiao M, Dominski Z, Lian JB, Stein JL, van Wijnen AJ, Stein GS. Reprogramming the pluripotent cell cycle: restoration of an abbreviated G1 phase in human induced pluripotent stem (iPS) cells. J Cell Physiol 2011; 226:1149 - 56; http://dx.doi.org/10.1002/jcp.22440; PMID: 20945438
   PubMed Web of Science ®Google Scholar
• Yang VS, Carter SA, Hyland SJ, Tachibana-Konwalski K, Laskey RA, Gonzalez MA. Geminin escapes degradation in G1 of mouse pluripotent cells and mediates the expression of Oct4, Sox2, and Nanog. Curr Biol 2011; 21:692 - 9; http://dx.doi.org/10.1016/j.cub.2011.03.026; PMID: 21497086
   PubMed Web of Science ®Google Scholar
• Stead E, White J, Faast R, Conn S, Goldstone S, Rathjen J, Dhingra U, Rathjen P, Walker D, Dalton S. Pluripotent cell division cycles are driven by ectopic Cdk2, cyclin A/E and E2F activities. Oncogene 2002; 21:8320 - 33; http://dx.doi.org/10.1038/sj.onc.1206015; PMID: 12447695
   PubMed Web of Science ®Google Scholar
• Koledova Z, Kafkova LR, Calabkova L, Krystof V, Dolezel P, Divoky V. Cdk2 inhibition prolongs G1 phase progression in mouse embryonic stem cells. Stem Cells Dev 2010; 19:181 - 94; http://dx.doi.org/10.1089/scd.2009.0065; PMID: 19737069
   PubMed Web of Science ®Google Scholar
• Calegari F, Huttner WB. An inhibition of cyclin-dependent kinases that lengthens, but does not arrest, neuroepithelial cell cycle induces premature neurogenesis. J Cell Sci 2003; 116:4947 - 55; http://dx.doi.org/10.1242/jcs.00825; PMID: 14625388
   PubMed Web of Science ®Google Scholar
• Bar-On O, Shapira M, Skorecki K, Hershko A, Hershko DD. Regulation of APC/C (Cdh1) ubiquitin ligase in differentiation of human embryonic stem cells. Cell Cycle 2010; 9:1986 - 9; http://dx.doi.org/10.4161/cc.9.10.11727; PMID: 20473026
   PubMed Web of Science ®Google Scholar
• Calder A, Roth-Albin I, Bhatia S, Pilquil C, Lee JH, Bhatia M, Levadoux-Martin M, McNicol J, Russell J, Collins T, et al. Lengthened G1 phase indicates differentiation status in human embryonic stem cells. Stem Cells Dev 2013; 22:279 - 95; http://dx.doi.org/10.1089/scd.2012.0168; PMID: 22827698
   PubMed Web of Science ®Google Scholar
• Koledova Z, Krämer A, Kafkova LR, Divoky V. Cell-cycle regulation in embryonic stem cells: centrosomal decisions on self-renewal. Stem Cells Dev 2010; 19:1663 - 78; http://dx.doi.org/10.1089/scd.2010.0136; PMID: 20594031
   PubMed Web of Science ®Google Scholar
• Orford KW, Scadden DT. Deconstructing stem cell self-renewal: genetic insights into cell-cycle regulation. Nat Rev Genet 2008; 9:115 - 28; http://dx.doi.org/10.1038/nrg2269; PMID: 18202695
   PubMed Web of Science ®Google Scholar
• Ruiz S, Panopoulos AD, Herrerías A, Bissig KD, Lutz M, Berggren WT, Verma IM, Izpisua Belmonte JC. A high proliferation rate is required for cell reprogramming and maintenance of human embryonic stem cell identity. Curr Biol 2011; 21:45 - 52; http://dx.doi.org/10.1016/j.cub.2010.11.049; PMID: 21167714
   PubMed Web of Science ®Google Scholar
• Singh AM, Dalton S. The cell cycle and Myc intersect with mechanisms that regulate pluripotency and reprogramming. Cell Stem Cell 2009; 5:141 - 9; http://dx.doi.org/10.1016/j.stem.2009.07.003; PMID: 19664987
   PubMed Web of Science ®Google Scholar
• Banfalvi G. Cell cycle synchronization of animal cells and nuclei by centrifugal elutriation. Nat Protoc 2008; 3:663 - 73; http://dx.doi.org/10.1038/nprot.2008.34; PMID: 18388949
   PubMed Web of Science ®Google Scholar
• Azuara V, Brown KE, Williams RRE, Webb N, Dillon N, Festenstein R, Buckle V, Merkenschlager M, Fisher AG. Heritable gene silencing in lymphocytes delays chromatid resolution without affecting the timing of DNA replication. Nat Cell Biol 2003; 5:668 - 74; http://dx.doi.org/10.1038/ncb1006; PMID: 12833066
   PubMed Web of Science ®Google Scholar
• O’Keefe RT, Henderson SC, Spector DL. Dynamic organization of DNA replication in mammalian cell nuclei: spatially and temporally defined replication of chromosome-specific alpha-satellite DNA sequences. J Cell Biol 1992; 116:1095 - 110; http://dx.doi.org/10.1083/jcb.116.5.1095; PMID: 1740468
   PubMed Web of Science ®Google Scholar
• Hiratani I, Ryba T, Itoh M, Rathjen J, Kulik M, Papp B, Fussner E, Bazett-Jones DP, Plath K, Dalton S, et al. Genome-wide dynamics of replication timing revealed by in vitro models of mouse embryogenesis. Genome Res 2010; 20:155 - 69; http://dx.doi.org/10.1101/gr.099796.109; PMID: 19952138
   PubMed Web of Science ®Google Scholar
• Ryba T, Hiratani I, Sasaki T, Battaglia D, Kulik M, Zhang J, Dalton S, Gilbert DM. Replication timing: a fingerprint for cell identity and pluripotency. PLoS Comput Biol 2011; 7:e1002225; http://dx.doi.org/10.1371/journal.pcbi.1002225; PMID: 22028635
   PubMed Web of Science ®Google Scholar
• Pereira CF, Terranova R, Ryan NK, Santos J, Morris KJ, Cui W, Merkenschlager M, Fisher AG. Heterokaryon-based reprogramming of human B lymphocytes for pluripotency requires Oct4 but not Sox2. PLoS Genet 2008; 4:e1000170; http://dx.doi.org/10.1371/journal.pgen.1000170; PMID: 18773085
   PubMed Web of Science ®Google Scholar
• Hendzel MJ, Wei Y, Mancini MA, Van Hooser A, Ranalli T, Brinkley BR, Bazett-Jones DP, Allis CD. Mitosis-specific phosphorylation of histone H3 initiates primarily within pericentromeric heterochromatin during G2 and spreads in an ordered fashion coincident with mitotic chromosome condensation. Chromosoma 1997; 106:348 - 60; http://dx.doi.org/10.1007/s004120050256; PMID: 9362543
   PubMed Web of Science ®Google Scholar
• Jacobs SA, Taverna SD, Zhang Y, Briggs SD, Li J, Eissenberg JC, Allis CD, Khorasanizadeh S. Specificity of the HP1 chromo domain for the methylated N-terminus of histone H3. EMBO J 2001; 20:5232 - 41; http://dx.doi.org/10.1093/emboj/20.18.5232; PMID: 11566886
   PubMed Web of Science ®Google Scholar
• Nakayama J, Rice JC, Strahl BD, Allis CD, Grewal SI. Role of histone H3 lysine 9 methylation in epigenetic control of heterochromatin assembly. Science 2001; 292:110 - 3; http://dx.doi.org/10.1126/science.1060118; PMID: 11283354
   PubMed Web of Science ®Google Scholar
• Bannister AJ, Zegerman P, Partridge JF, Miska EA, Thomas JO, Allshire RC, Kouzarides T. Selective recognition of methylated lysine 9 on histone H3 by the HP1 chromo domain. Nature 2001; 410:120 - 4; http://dx.doi.org/10.1038/35065138; PMID: 11242054
   PubMed Web of Science ®Google Scholar
• Grzenda A, Leonard P, Seo S, Mathison AJ, Urrutia G, Calvo E, Iovanna J, Urrutia R, Lomberk G. Functional impact of Aurora A-mediated phosphorylation of HP1γ at serine 83 during cell cycle progression. Epigenet Chromatin. 2013; 6:21; http://dx.doi.org/10.1186/1756-8935-6-21
   PubMed Web of Science ®Google Scholar
• Fischle W, Tseng BS, Dormann HL, Ueberheide BM, Garcia BA, Shabanowitz J, Hunt DF, Funabiki H, Allis CD. Regulation of HP1-chromatin binding by histone H3 methylation and phosphorylation. Nature 2005; 438:1116 - 22; http://dx.doi.org/10.1038/nature04219; PMID: 16222246
   PubMed Web of Science ®Google Scholar
• Hirota T, Lipp JJ, Toh BH, Peters JM. Histone H3 serine 10 phosphorylation by Aurora B causes HP1 dissociation from heterochromatin. Nature 2005; 438:1176 - 80; http://dx.doi.org/10.1038/nature04254; PMID: 16222244
   PubMed Web of Science ®Google Scholar
• Terada Y. Aurora-B/AIM-1 regulates the dynamic behavior of HP1alpha at the G2-M transition. Mol Biol Cell 2006; 17:3232 - 41; http://dx.doi.org/10.1091/mbc.E05-09-0906; PMID: 16687578
   PubMed Web of Science ®Google Scholar
• Dormann HL, Tseng BS, Allis CD, Funabiki H, Fischle W. Dynamic regulation of effector protein binding to histone modifications: the biology of HP1 switching. Cell Cycle 2006; 5:2842 - 51; http://dx.doi.org/10.4161/cc.5.24.3540; PMID: 17172865
   PubMed Web of Science ®Google Scholar
• Lomberk G, Bensi D, Fernandez-Zapico ME, Urrutia R. Evidence for the existence of an HP1-mediated subcode within the histone code. Nat Cell Biol 2006; 8:407 - 15; http://dx.doi.org/10.1038/ncb1383; PMID: 16531993
   PubMed Web of Science ®Google Scholar
• Mitsui K, Tokuzawa Y, Itoh H, Segawa K, Murakami M, Takahashi K, Maruyama M, Maeda M, Yamanaka S. The homeoprotein Nanog is required for maintenance of pluripotency in mouse epiblast and ES cells. Cell 2003; 113:631 - 42; http://dx.doi.org/10.1016/S0092-8674(03)00393-3; PMID: 12787504
   PubMed Web of Science ®Google Scholar
• Chambers I, Colby D, Robertson M, Nichols J, Lee S, Tweedie S, Smith A. Functional expression cloning of Nanog, a pluripotency sustaining factor in embryonic stem cells. Cell 2003; 113:643 - 55; http://dx.doi.org/10.1016/S0092-8674(03)00392-1; PMID: 12787505
   PubMed Web of Science ®Google Scholar
• Ahmed K, Dehghani H, Rugg-Gunn P, Fussner E, Rossant J, Bazett-Jones DP. Global chromatin architecture reflects pluripotency and lineage commitment in the early mouse embryo. PLoS One 2010; 5:e10531; http://dx.doi.org/10.1371/journal.pone.0010531; PMID: 20479880
   PubMedGoogle Scholar
• Rougeulle C, Chaumeil J, Sarma K, Allis CD, Reinberg D, Avner P, Heard E. Differential histone H3 Lys-9 and Lys-27 methylation profiles on the X chromosome. Mol Cell Biol 2004; 24:5475 - 84; http://dx.doi.org/10.1128/MCB.24.12.5475-5484.2004; PMID: 15169908
   PubMed Web of Science ®Google Scholar
• Jørgensen HF, Giadrossi S, Casanova M, Endoh M, Koseki H, Brockdorff N, Fisher AG. Stem cells primed for action: polycomb repressive complexes restrain the expression of lineage-specific regulators in embryonic stem cells. Cell Cycle 2006; 5:1411 - 4; http://dx.doi.org/10.4161/cc.5.13.2927; PMID: 16855402
   PubMed Web of Science ®Google Scholar
• Meshorer E, Misteli T. Chromatin in pluripotent embryonic stem cells and differentiation. Nat Rev Mol Cell Biol 2006; 7:540 - 6; http://dx.doi.org/10.1038/nrm1938; PMID: 16723974
   PubMed Web of Science ®Google Scholar
• Meshorer E, Yellajoshula D, George E, Scambler PJ, Brown DT, Misteli T. Hyperdynamic plasticity of chromatin proteins in pluripotent embryonic stem cells. Dev Cell 2006; 10:105 - 16; http://dx.doi.org/10.1016/j.devcel.2005.10.017; PMID: 16399082
   PubMed Web of Science ®Google Scholar
• Struhl K. Histone acetylation and transcriptional regulatory mechanisms. Genes Dev 1998; 12:599 - 606; http://dx.doi.org/10.1101/gad.12.5.599; PMID: 9499396
   PubMed Web of Science ®Google Scholar
• Niwa H, Masui S, Chambers I, Smith AG, Miyazaki J. Phenotypic complementation establishes requirements for specific POU domain and generic transactivation function of Oct-3/4 in embryonic stem cells. Mol Cell Biol 2002; 22:1526 - 36; http://dx.doi.org/10.1128/MCB.22.5.1526-1536.2002; PMID: 11839818
   PubMed Web of Science ®Google Scholar
• Terranova R, Pereira CF, Du Roure C, Merkenschlager M, Fisher AG. Acquisition and extinction of gene expression programs are separable events in heterokaryon reprogramming. J Cell Sci 2006; 119:2065 - 72; http://dx.doi.org/10.1242/jcs.02945; PMID: 16638804
   PubMed Web of Science ®Google Scholar