Regulatory circuits underlying pluripotency and reprogramming

Trends in Pharmacological Sciences

Volumn 30, Issue 6, 2009, Pages 296-302

  Do, Jeong Tae ^a   Schöler, Hans R ^b  

^a CHA University   (South Korea)

^b MAX PLANCK INSTITUTE FOR MOLECULAR BIOMEDICINE   (Germany)

Author keywords

[No Author keywords available]

Indexed keywords

MICRORNA; OCTAMER TRANSCRIPTION FACTOR 4; TRANSCRIPTION FACTOR; TRANSCRIPTION FACTOR NANOG; TRANSCRIPTION FACTOR SOX2;

BASIC RESEARCH; CELL DIFFERENTIATION; CELL FATE; CELL TYPE; CHROMATIN ASSEMBLY AND DISASSEMBLY; CLINICAL RESEARCH; DNA METHYLATION; HUMAN; NONHUMAN; NUCLEAR REPROGRAMMING; PLURIPOTENT STEM CELL; PRIORITY JOURNAL; REVIEW; X CHROMOSOME INACTIVATION;

ANIMALS; CELL DIFFERENTIATION; GERM LAYERS; HUMANS; NUCLEAR REPROGRAMMING; PLURIPOTENT STEM CELLS; SIGNAL TRANSDUCTION;

EID: 68649109365     PISSN: 01656147     EISSN: None     Source Type: Journal    
DOI: 10.1016/j.tips.2009.03.003     Document Type: Review

References (80)

1. Jaenisch R., and Young R. Stem cells, the molecular circuitry of pluripotency and nuclear reprogramming. Cell 132 (2008) 567-582
2. Boiani M., and Scholer H.R. Regulatory networks in embryo-derived pluripotent stem cells. Nat. Rev. Mol. Cell Biol. 6 (2005) 872-884
3. Kanatsu-Shinohara M., et al. Generation of pluripotent stem cells from neonatal mouse testis. Cell 119 (2004) 1001-1012
4. Okita K., et al. Generation of germline-competent induced pluripotent stem cells. Nature 448 (2007) 313-317
5. Chou Y.F., et al. The growth factor environment defines distinct pluripotent ground states in novel blastocyst-derived stem cells. Cell 135 (2008) 449-461
6. Benetti R., et al. A mammalian microRNA cluster controls DNA methylation and telomere recombination via Rbl2-dependent regulation of DNA methyltransferases. Nat. Struct. Mol. Biol. 15 (2008) 268-279
7. Bernstein B.E., et al. A bivalent chromatin structure marks key developmental genes in embryonic stem cells. Cell 125 (2006) 315-326
8. Bibikova M., et al. Unraveling epigenetic regulation in embryonic stem cells. Cell Stem Cell 2 (2008) 123-134
9. Boyer L.A., et al. Core transcriptional regulatory circuitry in human embryonic stem cells. Cell 122 (2005) 947-956
10. Sinkkonen L., et al. MicroRNAs control de novo DNA methylation through regulation of transcriptional repressors in mouse embryonic stem cells. Nat. Struct. Mol. Biol. 15 (2008) 259-267
11. Nagy A., et al. Derivation of completely cell culture-derived mice from early-passage embryonic stem cells. Proc. Natl. Acad. Sci. U. S. A. 90 (1993) 8424-8428
12. Kim J.B., et al. Pluripotent stem cells induced from adult neural stem cells by reprogramming with two factors. Nature 454 (2008) 646-650
13. Shi Y., et al. Induction of pluripotent stem cells from mouse embryonic fibroblasts by Oct4 and Klf4 with small-molecule compounds. Cell Stem Cell 3 (2008) 568-574
14. Brons I.G., et al. Derivation of pluripotent epiblast stem cells from mammalian embryos. Nature 448 (2007) 191-195
15. Tesar P.J., et al. New cell lines from mouse epiblast share defining features with human embryonic stem cells. Nature 448 (2007) 196-199
16. Fortunel N.O., et al. Comment on "'Stemness': transcriptional profiling of embryonic and adult stem cells" and "a stem cell molecular signature". Science 302 (2003) 393
17. Ivanova N.B., et al. A stem cell molecular signature. Science 298 (2002) 601-604
18. Ramalho-Santos M., et al. 'Stemness': transcriptional profiling of embryonic and adult stem cells. Science 298 (2002) 597-600
19. Avilion A.A., et al. Multipotent cell lineages in early mouse development depend on SOX2 function. Genes Dev. 17 (2003) 126-140
20. Chambers I., et al. Functional expression cloning of Nanog, a pluripotency sustaining factor in embryonic stem cells. Cell 113 (2003) 643-655
21. Nichols J., et al. Formation of pluripotent stem cells in the mammalian embryo depends on the POU transcription factor Oct4. Cell 95 (1998) 379-391
22. Mitsui K., et al. The homeoprotein Nanog is required for maintenance of pluripotency in mouse epiblast and ES cells. Cell 113 (2003) 631-642
23. Boyer L.A., et al. Polycomb complexes repress developmental regulators in murine embryonic stem cells. Nature 441 (2006) 349-353
24. Chambers I., et al. Nanog safeguards pluripotency and mediates germline development. Nature 450 (2007) 1230-1234
25. Masui S., et al. Pluripotency governed by Sox2 via regulation of Oct3/4 expression in mouse embryonic stem cells. Nat. Cell Biol. 9 (2007) 625-635
26. Chew J.L., et al. Reciprocal transcriptional regulation of Pou5f1 and Sox2 via the Oct4/Sox2 complex in embryonic stem cells. Mol. Cell. Biol. 25 (2005) 6031-6046
27. Kuroda T., et al. Octamer and Sox elements are required for transcriptional cis regulation of Nanog gene expression. Mol. Cell. Biol. 25 (2005) 2475-2485
28. Rodda D.J., et al. Transcriptional regulation of nanog by OCT4 and SOX2. J. Biol. Chem. 280 (2005) 24731-24737
29. Huangfu D., et al. Induction of pluripotent stem cells from primary human fibroblasts with only Oct4 and Sox2. Nat. Biotechnol. 26 (2008) 1269-1275
30. Nakagawa M., et al. Generation of induced pluripotent stem cells without Myc from mouse and human fibroblasts. Nat. Biotechnol. 26 (2008) 101-106
31. Takahashi K., and Yamanaka S. Induction of pluripotent stem cells from mouse embryonic and adult fibroblast cultures by defined factors. Cell 126 (2006) 663-676
32. Loh Y.H., et al. The Oct4 and Nanog transcription network regulates pluripotency in mouse embryonic stem cells. Nat. Genet. 38 (2006) 431-440
33. Ivanova N., et al. Dissecting self-renewal in stem cells with RNA interference. Nature 442 (2006) 533-538
34. Marson A., et al. Connecting microRNA genes to the core transcriptional regulatory circuitry of embryonic stem cells. Cell 134 (2008) 521-533
35. Navarro P., et al. Molecular coupling of Xist regulation and pluripotency. Science 321 (2008) 1693-1695
36. Wang Y., et al. MicroRNAs in embryonic stem cells. J. Cell. Physiol. 218 (2009) 251-255
37. Jiang J., et al. A core Klf circuitry regulates self-renewal of embryonic stem cells. Nat. Cell Biol. 10 (2008) 353-360
38. Kim J., et al. An extended transcriptional network for pluripotency of embryonic stem cells. Cell 132 (2008) 1049-1061
39. Dejosez M., et al. Ronin is essential for embryogenesis and the pluripotency of mouse embryonic stem cells. Cell 133 (2008) 1162-1174
40. Macfarlan T., et al. Human THAP7 is a chromatin-associated, histone tail-binding protein that represses transcription via recruitment of HDAC3 and nuclear hormone receptor corepressor. J. Biol. Chem. 280 (2005) 7346-7358
41. Roussigne M., et al. The THAP domain: a novel protein motif with similarity to the DNA-binding domain of P element transposase. Trends Biochem. Sci. 28 (2003) 66-69
42. Ko S.Y., et al. Identification of Jmjd1a as a STAT3 downstream gene in mES cells. Cell Struct. Funct. 31 (2006) 53-62
43. Ying Q.L., et al. BMP induction of Id proteins suppresses differentiation and sustains embryonic stem cell self-renewal in collaboration with STAT3. Cell 115 (2003) 281-292
44. Chen X., et al. Integration of external signaling pathways with the core transcriptional network in embryonic stem cells. Cell 133 (2008) 1106-1117
45. Meshorer E., and Misteli T. Chromatin in pluripotent embryonic stem cells and differentiation. Nat. Rev. Mol. Cell Biol. 7 (2006) 540-546
46. Lee T.I., et al. Control of developmental regulators by Polycomb in human embryonic stem cells. Cell 125 (2006) 301-313
47. Schuettengruber B., et al. Genome regulation by polycomb and trithorax proteins. Cell 128 (2007) 735-745
48. Fry C.J., and Peterson C.L. Chromatin remodeling enzymes: who's on first?. Curr. Biol. 11 (2001) R185-R197
49. Wang J., et al. A protein interaction network for pluripotency of embryonic stem cells. Nature 444 (2006) 364-368
50. Liang J., et al. Nanog and Oct4 associate with unique transcriptional repression complexes in embryonic stem cells. Nat. Cell Biol. 10 (2008) 731-739
51. Loh Y.H., et al. Molecular framework underlying pluripotency. Cell Cycle 7 (2008) 885-891
52. Knoepfler P.S., et al. Myc influences global chromatin structure. EMBO J. 25 (2006) 2723-2734
53. Cartwright P., et al. LIF/STAT3 controls ES cell self-renewal and pluripotency by a Myc-dependent mechanism. Development 132 (2005) 885-896
54. Lande-Diner L., and Cedar H. Silence of the genes-mechanisms of long-term repression. Nat. Rev. Genet. 6 (2005) 648-654
55. Chen T., et al. A novel Dnmt3a isoform produced from an alternative promoter localizes to euchromatin and its expression correlates with active de novo methylation. J. Biol. Chem. 277 (2002) 38746-38754
56. Okano M., et al. Dnmt2 is not required for de novo and maintenance methylation of viral DNA in embryonic stem cells. Nucleic Acids Res. 26 (1998) 2536-2540
57. Tsumura A., et al. Maintenance of self-renewal ability of mouse embryonic stem cells in the absence of DNA methyltransferases Dnmt1, Dnmt3a and Dnmt3b. Genes Cells 11 (2006) 805-814
58. Jackson M., et al. Severe global DNA hypomethylation blocks differentiation and induces histone hyperacetylation in embryonic stem cells. Mol. Cell. Biol. 24 (2004) 8862-8871
59. Lorincz M.C., et al. Intragenic DNA methylation alters chromatin structure and elongation efficiency in mammalian cells. Nat. Struct. Mol. Biol. 11 (2004) 1068-1075
60. Bagga S., et al. Regulation by let-7 and lin-4 miRNAs results in target mRNA degradation. Cell 122 (2005) 553-563
61. Du T., and Zamore P.D. microPrimer: the biogenesis and function of microRNA. Development 132 (2005) 4645-4652
62. Zhao Y., and Srivastava D. A developmental view of microRNA function. Trends Biochem. Sci. 32 (2007) 189-197
63. Kloosterman W.P., and Plasterk R.H. The diverse functions of microRNAs in animal development and disease. Dev. Cell 11 (2006) 441-450
64. Houbaviy H.B., et al. Embryonic stem cell-specific MicroRNAs. Dev. Cell 5 (2003) 351-358
65. Chen C., et al. Defining embryonic stem cell identity using differentiation-related microRNAs and their potential targets. Mamm. Genome 18 (2007) 316-327
66. Tay Y., et al. MicroRNAs to Nanog, Oct4 and Sox2 coding regions modulate embryonic stem cell differentiation. Nature 455 (2008) 1124-1128
67. Strauss W.M., et al. Nonrestrictive developmental regulation of microRNA gene expression. Mamm. Genome 17 (2006) 833-840
68. Ivey K.N., et al. MicroRNA regulation of cell lineages in mouse and human embryonic stem cells. Cell Stem Cell 2 (2008) 219-229
69. Do J.T., et al. Enhanced Reprogramming of Xist by induced upregulation of Tsix and Dnmt3a. Stem Cells 26 (2008) 2821-2831
70. Maherali N., et al. Directly reprogrammed fibroblasts show global epigenetic remodeling and widespread tissue contribution. Cell Stem Cell 1 (2007) 55-70
71. Tada M., et al. Nuclear reprogramming of somatic cells by in vitro hybridization with ES cells. Curr. Biol. 11 (2001) 1553-1558
72. Do J.T., and Scholer H.R. Nuclei of embryonic stem cells reprogram somatic cells. Stem Cells 22 (2004) 941-949
73. Do J.T., et al. Reprogramming somatic gene activity by fusion with pluripotent cells. Stem Cell Rev. 2 (2006) 257-264
74. Silva J., et al. Nanog promotes transfer of pluripotency after cell fusion. Nature 441 (2006) 997-1001
75. Wong C.C., et al. High-efficiency stem cell fusion-mediated assay reveals Sall4 as an enhancer of reprogramming. PLoS ONE 3 (2008) e1955
76. Ma D.K., et al. G9a and Jhdm2a regulate embryonic stem cell fusion-induced reprogramming of adult neural stem cells. Stem Cells 26 (2008) 2131-2141
77. Brambrink T., et al. Sequential expression of pluripotency markers during direct reprogramming of mouse somatic cells. Cell Stem Cell 2 (2008) 151-159
78. Okita K., et al. Generation of mouse induced pluripotent stem cells without viral vectors. Science 322 (2008) 949-953
79. Welstead G.G., et al. The reprogramming language of pluripotency. Curr. Opin. Genet. Dev. 18 (2008) 123-129
80. Huangfu D., et al. Induction of pluripotent stem cells by defined factors is greatly improved by small-molecule compounds. Nat. Biotechnol. 26 (2008) 795-797