Epigenetic Obstacles Encountered by Transcription Factors: Reprogramming Against All Odds

Overview

Journal Curr Opin Genet Dev

Publisher Elsevier

Specialties Biology
Genetics

Date 2012 Aug 28

PMID 22922161

Citations 16

Authors

Casey A Gifford

Alexander Meissner

Affiliations

Soon will be listed here.

Abstract

Reprogramming of a somatic nucleus to an induced pluripotent state can be achieved in vitro through ectopic expression of Oct4 (Pou5f1), Sox2, Klf4 and c-Myc. While the ability of these factors to regulate transcription in a pluripotent context has been studied extensively, their ability to interact with and remodel a somatic genome remains underexplored. Several recent studies have begun to provide mechanistic insights that will eventually lead to a more rational design and improved understanding of nuclear reprogramming.

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References

Carey B, Markoulaki S, Hanna J, Faddah D, Buganim Y, Kim J . Reprogramming factor stoichiometry influences the epigenetic state and biological properties of induced pluripotent stem cells. Cell Stem Cell. 2011; 9(6):588-98. DOI: 10.1016/j.stem.2011.11.003. View

Loewer S, Cabili M, Guttman M, Loh Y, Thomas K, Park I . Large intergenic non-coding RNA-RoR modulates reprogramming of human induced pluripotent stem cells. Nat Genet. 2010; 42(12):1113-7. PMC: 3040650. DOI: 10.1038/ng.710. View

Okano M, BELL D, Haber D, Li E . DNA methyltransferases Dnmt3a and Dnmt3b are essential for de novo methylation and mammalian development. Cell. 1999; 99(3):247-57. DOI: 10.1016/s0092-8674(00)81656-6. View

Boulting G, Kiskinis E, Croft G, Amoroso M, Oakley D, Wainger B . A functionally characterized test set of human induced pluripotent stem cells. Nat Biotechnol. 2011; 29(3):279-86. PMC: 3229307. DOI: 10.1038/nbt.1783. View

Huangfu D, Maehr R, Guo W, Eijkelenboom A, Snitow M, Chen A . Induction of pluripotent stem cells by defined factors is greatly improved by small-molecule compounds. Nat Biotechnol. 2008; 26(7):795-7. PMC: 6334647. DOI: 10.1038/nbt1418. View

Clark K, Halay E, Lai E, Burley S . Co-crystal structure of the HNF-3/fork head DNA-recognition motif resembles histone H5. Nature. 1993; 364(6436):412-20. DOI: 10.1038/364412a0. View

Ambrosetti D, Basilico C, Dailey L . Synergistic activation of the fibroblast growth factor 4 enhancer by Sox2 and Oct-3 depends on protein-protein interactions facilitated by a specific spatial arrangement of factor binding sites. Mol Cell Biol. 1997; 17(11):6321-9. PMC: 232483. DOI: 10.1128/MCB.17.11.6321. View

Pereira C, Terranova R, Ryan N, Santos J, Morris K, Cui W . Heterokaryon-based reprogramming of human B lymphocytes for pluripotency requires Oct4 but not Sox2. PLoS Genet. 2008; 4(9):e1000170. PMC: 2527997. DOI: 10.1371/journal.pgen.1000170. View

Li R, Liang J, Ni S, Zhou T, Qing X, Li H . A mesenchymal-to-epithelial transition initiates and is required for the nuclear reprogramming of mouse fibroblasts. Cell Stem Cell. 2010; 7(1):51-63. DOI: 10.1016/j.stem.2010.04.014. View

10.

Wernig M, Meissner A, Cassady J, Jaenisch R . c-Myc is dispensable for direct reprogramming of mouse fibroblasts. Cell Stem Cell. 2008; 2(1):10-2. DOI: 10.1016/j.stem.2007.12.001. View

11.

Williams S, Cantwell C, Johnson P . A family of C/EBP-related proteins capable of forming covalently linked leucine zipper dimers in vitro. Genes Dev. 1991; 5(9):1553-67. DOI: 10.1101/gad.5.9.1553. View

12.

Smit D, Smith A, Parsons P, Muscat G, Sturm R . Domains of Brn-2 that mediate homodimerization and interaction with general and melanocytic transcription factors. Eur J Biochem. 2000; 267(21):6413-22. DOI: 10.1046/j.1432-1327.2000.01737.x. View

13.

Jauch R, Aksoy I, Hutchins A, Ng C, Tian X, Chen J . Conversion of Sox17 into a pluripotency reprogramming factor by reengineering its association with Oct4 on DNA. Stem Cells. 2011; 29(6):940-51. DOI: 10.1002/stem.639. View

14.

Sridharan R, Tchieu J, Mason M, Yachechko R, Kuoy E, Horvath S . Role of the murine reprogramming factors in the induction of pluripotency. Cell. 2009; 136(2):364-77. PMC: 3273494. DOI: 10.1016/j.cell.2009.01.001. View

15.

Brandeis M, Frank D, Keshet I, Siegfried Z, Mendelsohn M, Nemes A . Sp1 elements protect a CpG island from de novo methylation. Nature. 1994; 371(6496):435-8. DOI: 10.1038/371435a0. View

16.

Xu J, Watts J, Pope S, Gadue P, Kamps M, Plath K . Transcriptional competence and the active marking of tissue-specific enhancers by defined transcription factors in embryonic and induced pluripotent stem cells. Genes Dev. 2009; 23(24):2824-38. PMC: 2800090. DOI: 10.1101/gad.1861209. View

17.

Robinton D, Daley G . The promise of induced pluripotent stem cells in research and therapy. Nature. 2012; 481(7381):295-305. PMC: 3652331. DOI: 10.1038/nature10761. View

18.

Rahl P, Lin C, Seila A, Flynn R, McCuine S, Burge C . c-Myc regulates transcriptional pause release. Cell. 2010; 141(3):432-45. PMC: 2864022. DOI: 10.1016/j.cell.2010.03.030. View

19.

Tada M, Tada T, Lefebvre L, Barton S, Surani M . Embryonic germ cells induce epigenetic reprogramming of somatic nucleus in hybrid cells. EMBO J. 1997; 16(21):6510-20. PMC: 1170256. DOI: 10.1093/emboj/16.21.6510. View

20.

Feng R, Desbordes S, Xie H, Tillo E, Pixley F, Stanley E . PU.1 and C/EBPalpha/beta convert fibroblasts into macrophage-like cells. Proc Natl Acad Sci U S A. 2008; 105(16):6057-62. PMC: 2327209. DOI: 10.1073/pnas.0711961105. View