KAT-Independent Gene Regulation by Tip60 Promotes ESC Self-Renewal but Not Pluripotency

Cell Reports - Tập 19 - Trang 671-679 - 2017
Diwash Acharya1, Sarah J. Hainer1, Yeonsoo Yoon2, Feng Wang1, Ingolf Bach1, Jaime A. Rivera-Pérez2, Thomas G. Fazzio1
1Department of Molecular, Cell and Cancer Biology, University of Massachusetts Medical School, Worcester, MA 01605, USA
2Division of Genes and Development, Department of Pediatrics, University of Massachusetts Medical School, Worcester, MA 01605, USA

Tài liệu tham khảo

Aloia, 2013, Polycomb complexes in stem cells and embryonic development, Development, 140, 2525, 10.1242/dev.091553 Altaf, 2009, Connection between histone H2A variants and chromatin remodeling complexes, Biochem. Cell Biol., 87, 35, 10.1139/O08-140 Buenrostro, 2013, Transposition of native chromatin for fast and sensitive epigenomic profiling of open chromatin, DNA-binding proteins and nucleosome position, Nat. Methods, 10, 1213, 10.1038/nmeth.2688 Buenrostro, 2015, ATAC-seq: A method for assaying chromatin accessibility genome-wide, Curr. Protoc. Mol. Biol., 109, 21.29.1, 10.1002/0471142727.mb2129s109 Chen, 2014, Chromatin modifiers and remodellers: regulators of cellular differentiation, Nat. Rev. Genet., 15, 93, 10.1038/nrg3607 Chen, 2013, Hdac6 regulates Tip60-p400 function in stem cells, eLife, 2, e01557, 10.7554/eLife.01557 Chen, 2015, R loops regulate promoter-proximal chromatin architecture and cellular differentiation, Nat. Struct. Mol. Biol., 22, 999, 10.1038/nsmb.3122 Cong, 2013, Multiplex genome engineering using CRISPR/Cas systems, Science, 339, 819, 10.1126/science.1231143 Dooley, 1989, Transactivation of the adenovirus EIIa promoter in the absence of adenovirus E1A protein is restricted to mouse oocytes and preimplantation embryos, Development, 107, 945, 10.1242/dev.107.4.945 Doyon, 2004, Structural and functional conservation of the NuA4 histone acetyltransferase complex from yeast to humans, Mol. Cell. Biol., 24, 1884, 10.1128/MCB.24.5.1884-1896.2004 Farria, 2015, KATs in cancer: functions and therapies, Oncogene, 34, 4901, 10.1038/onc.2014.453 Fazzio, 2008, An RNAi screen of chromatin proteins identifies Tip60-p400 as a regulator of embryonic stem cell identity, Cell, 134, 162, 10.1016/j.cell.2008.05.031 Fazzio, 2008, Chromatin regulation Tip(60)s the balance in embryonic stem cell self-renewal, Cell Cycle, 7, 3302, 10.4161/cc.7.21.6928 Gévry, 2007, p21 transcription is regulated by differential localization of histone H2A.Z, Genes Dev., 21, 1869, 10.1101/gad.1545707 Hainer, 2015, Suppression of pervasive noncoding transcription in embryonic stem cells by esBAF, Genes Dev., 29, 362, 10.1101/gad.253534.114 Herrmann, 1991, Expression pattern of the Brachyury gene in whole-mount TWis/TWis mutant embryos, Development, 113, 913, 10.1242/dev.113.3.913 Hooper, 1987, HPRT-deficient (Lesch-Nyhan) mouse embryos derived from germline colonization by cultured cells, Nature, 326, 292, 10.1038/326292a0 Hu, 2009, Homozygous disruption of the Tip60 gene causes early embryonic lethality, Dev. Dyn., 238, 2912, 10.1002/dvdy.22110 Ikura, 2000, Involvement of the TIP60 histone acetylase complex in DNA repair and apoptosis, Cell, 102, 463, 10.1016/S0092-8674(00)00051-9 Jiang, 2011, Tip60-mediated acetylation activates transcription independent apoptotic activity of Abl, Mol. Cancer, 10, 88, 10.1186/1476-4598-10-88 Keller, 2005, Embryonic stem cell differentiation: emergence of a new era in biology and medicine, Genes Dev., 19, 1129, 10.1101/gad.1303605 Keogh, 2006, The Saccharomyces cerevisiae histone H2A variant Htz1 is acetylated by NuA4, Genes Dev., 20, 660, 10.1101/gad.1388106 Kusch, 2004, Acetylation by Tip60 is required for selective histone variant exchange at DNA lesions, Science, 306, 2084, 10.1126/science.1103455 Lakso, 1996, Efficient in vivo manipulation of mouse genomic sequences at the zygote stage, Proc. Natl. Acad. Sci. USA, 93, 5860, 10.1073/pnas.93.12.5860 Lalonde, 2014, Histone target selection within chromatin: an exemplary case of teamwork, Genes Dev., 28, 1029, 10.1101/gad.236331.113 Mali, 2013, RNA-guided human genome engineering via Cas9, Science, 339, 823, 10.1126/science.1232033 Melters, 2015, Chromatin dynamics in vivo: a game of musical chairs, Genes (Basel), 6, 751, 10.3390/genes6030751 Mizuguchi, 2004, ATP-driven exchange of histone H2AZ variant catalyzed by SWR1 chromatin remodeling complex, Science, 303, 343, 10.1126/science.1090701 Papamichos-Chronakis, 2011, Global regulation of H2A.Z localization by the INO80 chromatin-remodeling enzyme is essential for genome integrity, Cell, 144, 200, 10.1016/j.cell.2010.12.021 Pradhan, 2016, EP400 deposits H3.3 into promoters and enhancers during gene activation, Mol. Cell, 61, 27, 10.1016/j.molcel.2015.10.039 Rando, 2009, Genome-wide views of chromatin structure, Annu. Rev. Biochem., 78, 245, 10.1146/annurev.biochem.78.071107.134639 Ravens, 2015, Tip60 complex binds to active Pol II promoters and a subset of enhancers and co-regulates the c-Myc network in mouse embryonic stem cells, Epigenetics Chromatin, 8, 45, 10.1186/s13072-015-0039-z Rivera-Pérez, 2005, Primitive streak formation in mice is preceded by localized activation of Brachyury and Wnt3, Dev. Biol., 288, 363, 10.1016/j.ydbio.2005.09.012 Selleck, 2005, The Saccharomyces cerevisiae Piccolo NuA4 histone acetyltransferase complex requires the Enhancer of Polycomb A domain and chromodomain to acetylate nucleosomes, Mol. Cell. Biol., 25, 5535, 10.1128/MCB.25.13.5535-5542.2005 Simon, 2013, Occupying chromatin: Polycomb mechanisms for getting to genomic targets, stopping transcriptional traffic, and staying put, Mol. Cell, 49, 808, 10.1016/j.molcel.2013.02.013 Squatrito, 2006, Tip60 in DNA damage response and growth control: many tricks in one HAT, Trends Cell Biol., 16, 433, 10.1016/j.tcb.2006.07.007 Sui, 2013, Signaling pathways during maintenance and definitive endoderm differentiation of embryonic stem cells, Int. J. Dev. Biol., 57, 1, 10.1387/ijdb.120115ls Sykes, 2006, Acetylation of the p53 DNA-binding domain regulates apoptosis induction, Mol. Cell, 24, 841, 10.1016/j.molcel.2006.11.026 Tang, 2006, Tip60-dependent acetylation of p53 modulates the decision between cell-cycle arrest and apoptosis, Mol. Cell, 24, 827, 10.1016/j.molcel.2006.11.021 Tsang, 2004, Promotion and attenuation of FGF signaling through the Ras-MAPK pathway, Sci. STKE, 2004, pe17, 10.1126/stke.2282004pe17 Van Den Broeck, 2012, Activation of a Tip60/E2F1/ERCC1 network in human lung adenocarcinoma cells exposed to cisplatin, Carcinogenesis, 33, 320, 10.1093/carcin/bgr292 Whitman, 2001, TGF-beta superfamily signaling and left-right asymmetry, Sci. STKE, 2001, re1, 10.1126/stke.2001.64.re1 Xu, 2011, Chromatin dynamics and the repair of DNA double strand breaks, Cell Cycle, 10, 261, 10.4161/cc.10.2.14543 Xu, 2010, The p400 ATPase regulates nucleosome stability and chromatin ubiquitination during DNA repair, J. Cell Biol., 191, 31, 10.1083/jcb.201001160 Xu, 2012, Histone H2A.Z controls a critical chromatin remodeling step required for DNA double-strand break repair, Mol. Cell, 48, 723, 10.1016/j.molcel.2012.09.026 Ying, 2008, The ground state of embryonic stem cell self-renewal, Nature, 453, 519, 10.1038/nature06968