Microcephaly gene links trithorax and REST/NRSF to control neural stem cell proliferation and differentiation

Cell

Volumn 151, Issue 5, 2012, Pages 1097-1112

  Yang, Yawei J ^a,b,c,d,e   Baltus, Andrew E ^a,d,m   Mathew, Rebecca S ^c,d   Murphy, Elisabeth A ^a,d,f   Evrony, Gilad D ^a,b,c,d   Gonzalez, Dilenny M ^a,d   Wang, Estee P ^a,b,d,g,n   Marshall Walker, Christine A ^a,d,o   Barry, Brenda J ^a,d   Murn, Jernej ^a,c   Tatarakis, Antonis ^c,d   Mahajan, Muktar A ^h   Samuels, Herbert H ^h   Shi, Yang ^a,c   Golden, Jeffrey A ⁱ   Mahajnah, Muhammad ^j,l   Shenhav, Ruthie ^k   Walsh, Christopher A ^a,b,c,d  

^a BOSTON CHILDREN S HOSPITAL   (United States)

^b BROAD INSTITUTE OF MIT AND HARVARD   (United States)

^c HARVARD MEDICAL SCHOOL   (United States)

^d HOWARD HUGHES MEDICAL INSTITUTE   (United States)

^e HARVARD MIT DIVISION OF HEALTH SCIENCES AND TECHNOLOGY   (United States)

^f NORTHEASTERN UNIVERSITY   (United States)

^g HARVARD SCHOOL OF DENTAL MEDICINE   (United States)

^h NEW YORK UNIVERSITY SCHOOL OF MEDICINE   (United States)

ⁱ BRIGHAM AND WOMEN S HOSPITAL   (United States)

^j HILLEL YAFFE MEDICAL CENTER   (Israel)

^k RABIN MEDICAL CENTER   (Israel)

^l TECHNION ISRAEL INSTITUTE OF TECHNOLOGY   (Israel)

^m Addgene   (United States)

ⁿ UNIVERSITY OF MICHIGAN   (United States)

^o Phillips Academy Andover   (United States)

more..

Author keywords

[No Author keywords available]

Indexed keywords

METHYLTRANSFERASE; UNCLASSIFIED DRUG; ZINC FINGER PROTEIN; ZNF335 PROTEIN;

ANIMAL CELL; ANIMAL EXPERIMENT; ARTICLE; AUTOPSY; BRAIN CORTEX; BRAIN DEVELOPMENT; BRAIN MATURATION; CELL CYCLE; CELL DEATH; CELL MATURATION; CELL PROLIFERATION; CELL RENEWAL; CELL STRUCTURE; CHROMATIN STRUCTURE; CHROMOSOME 20Q; CONSANGUINEOUS MARRIAGE; DENDRITE; EMBRYO DEVELOPMENT; GENE EXPRESSION; GENE SILENCING; GENETIC LINKAGE; HUMAN; HUMAN TISSUE; MICROCEPHALY; MISSENSE MUTATION; MOUSE; NERVE CELL DEGENERATION; NERVE CELL DIFFERENTIATION; NERVE FIBER GROWTH; NERVOUS SYSTEM DEVELOPMENT; NEURAL STEM CELL; NEWBORN DEATH; NONHUMAN; PHYSICAL DEVELOPMENT; PRIORITY JOURNAL; PROTEIN METHYLATION; PROTEIN PROTEIN INTERACTION; RNA INTERFERENCE; SILENCER GENE; SINGLE NUCLEOTIDE POLYMORPHISM; SPLICING DEFECT; VERTEBRATE;

EID: 84870025256     PISSN: 00928674     EISSN: 10974172     Source Type: Journal    
DOI: 10.1016/j.cell.2012.10.043     Document Type: Article

References (51)

1. Y.S. Ang, S.Y. Tsai, D.F. Lee, J. Monk, J. Su, K. Ratnakumar, J. Ding, Y. Ge, H. Darr, and B. Chang Wdr5 mediates self-renewal and reprogramming via the embryonic stem cell core transcriptional network Cell 145 2011 183 197
2. N. Ballas, C. Grunseich, D.D. Lu, J.C. Speh, and G. Mandel REST and its corepressors mediate plasticity of neuronal gene chromatin throughout neurogenesis Cell 121 2005 645 657
3. A.J. Bannister, and T. Kouzarides Regulation of chromatin by histone modifications Cell Res. 21 2011 381 395
4. A.J. Barkovich, K.R. Moore, B.V. Jones, G. Vezina, B.L. Koch, C. Raybaud, P.E. Grant, S.I. Blaser, G.L. Hedlund, and A. Illner Diagnostic Imaging: Pediatric Neuroradiology, First Edition 2007 Amirsys Salt Lake City, UT
5. B.E. Bernstein, M. Kamal, K. Lindblad-Toh, S. Bekiranov, D.K. Bailey, D.J. Huebert, S. McMahon, E.K. Karlsson, E.J. Kulbokas III, and T.R. Gingeras Genomic maps and comparative analysis of histone modifications in human and mouse Cell 120 2005 169 181
6. L. Cartegni, S.L. Chew, and A.R. Krainer Listening to silence and understanding nonsense: exonic mutations that affect splicing Nat. Rev. Genet. 3 2002 285 298
7. J.A. Chong, J. Tapia-Ramírez, S. Kim, J.J. Toledo-Aral, Y. Zheng, M.C. Boutros, Y.M. Altshuller, M.A. Frohman, S.D. Kraner, and G. Mandel REST: a mammalian silencer protein that restricts sodium channel gene expression to neurons Cell 80 1995 949 957
8. B.K. Dredge, and K.B. Jensen NeuN/Rbfox3 nuclear and cytoplasmic isoforms differentially regulate alternative splicing and nonsense-mediated decay of Rbfox2 PLoS ONE 6 2011 e21585
9. S.A. Fietz, and W.B. Huttner Cortical progenitor expansion, self-renewal and neurogenesis-a polarized perspective Curr. Opin. Neurobiol. 21 2011 23 35
10. C.L. Fisher, and A.G. Fisher Chromatin states in pluripotent, differentiated, and reprogrammed cells Curr. Opin. Genet. Dev. 21 2011 140 146
11. S. Garapaty, C.F. Xu, P. Trojer, M.A. Mahajan, T.A. Neubert, and H.H. Samuels Identification and characterization of a novel nuclear protein complex involved in nuclear hormone receptor-mediated gene regulation J. Biol. Chem. 284 2009 7542 7552
12. S. Glaser, S. Lubitz, K.L. Loveland, K. Ohbo, L. Robb, F. Schwenk, J. Seibler, D. Roellig, A. Kranz, K. Anastassiadis, and A.F. Stewart The histone 3 lysine 4 methyltransferase, Mll2, is only required briefly in development and spermatogenesis Epigenetics Chromatin 2 2009 5
13. J.A. Gorski, T. Talley, M. Qiu, L. Puelles, J.L. Rubenstein, and K.R. Jones Cortical excitatory neurons and glia, but not GABAergic neurons, are produced in the Emx1-expressing lineage J. Neurosci. 22 2002 6309 6314
14. J. Hoyer, A.B. Ekici, S. Endele, B. Popp, C. Zweier, A. Wiesener, E. Wohlleber, A. Dufke, E. Rossier, and C. Petsch Haploinsufficiency of ARID1B, a member of the SWI/SNF-a chromatin-remodeling complex, is a frequent cause of intellectual disability Am. J. Hum. Genet. 90 2012 565 572
15. O. Isken, and L.E. Maquat Quality control of eukaryotic mRNA: safeguarding cells from abnormal mRNA function Genes Dev. 21 2007 1833 1856
16. R. Johnson, C.H. Teh, G. Kunarso, K.Y. Wong, G. Srinivasan, M.L. Cooper, M. Volta, S.S. Chan, L. Lipovich, and S.M. Pollard REST regulates distinct transcriptional networks in embryonic and neural stem cells PLoS Biol. 6 2008 e256
17. M.K. Lehtinen, and C.A. Walsh Neurogenesis at the brain-cerebrospinal fluid interface Annu. Rev. Cell Dev. Biol. 27 2011 653 679
18. J.A. Lessard, and G.R. Crabtree Chromatin regulatory mechanisms in pluripotency Annu. Rev. Cell Dev. Biol. 26 2010 503 532
19. J.H. Lui, D.V. Hansen, and A.R. Kriegstein Development and evolution of the human neocortex Cell 146 2011 18 36
20. D.K. Ma, M.C. Marchetto, J.U. Guo, G.L. Ming, F.H. Gage, and H. Song Epigenetic choreographers of neurogenesis in the adult mammalian brain Nat. Neurosci. 13 2010 1338 1344
21. S. Mahmood, W. Ahmad, and M.J. Hassan Autosomal Recessive Primary Microcephaly (MCPH): clinical manifestations, genetic heterogeneity and mutation continuum Orphanet J. Rare Dis. 6 2011 39
22. Z. Mao, A. Bonni, F. Xia, M. Nadal-Vicens, and M.E. Greenberg Neuronal activity-dependent cell survival mediated by transcription factor MEF2 Science 286 1999 785 790
23. G.H. Mochida Genetics and biology of microcephaly and lissencephaly Semin. Pediatr. Neurol. 16 2009 120 126
24. B.J. Molyneaux, P. Arlotta, J.R. Menezes, and J.D. Macklis Neuronal subtype specification in the cerebral cortex Nat. Rev. Neurosci. 8 2007 427 437
25. R.K. Ng, and J.B. Gurdon Epigenetic inheritance of cell differentiation status Cell Cycle 7 2008 1173 1177
26. J.G. Omichinski, P.V. Pedone, G. Felsenfeld, A.M. Gronenborn, and G.M. Clore The solution structure of a specific GAGA factor-DNA complex reveals a modular binding mode Nat. Struct. Biol. 4 1997 122 132
27. B. Papp, and J. Müller Histone trimethylation and the maintenance of transcriptional ON and OFF states by trxG and PcG proteins Genes Dev. 20 2006 2041 2054
28. R. Paro, H. Strutt, and G. Cavalli Heritable chromatin states induced by the Polycomb and trithorax group genes Novartis Found Symp. 214 1998 51 61
29. C.J. Schoenherr, and D.J. Anderson Silencing is golden: negative regulation in the control of neuronal gene transcription Curr. Opin. Neurobiol. 5 1995 566 571
30. B. Schuettengruber, A.M. Martinez, N. Iovino, and G. Cavalli Trithorax group proteins: switching genes on and keeping them active Nat. Rev. Mol. Cell Biol. 12 2011 799 814
31. Y. Shen, F. Yue, D.F. McCleary, Z. Ye, L. Edsall, S. Kuan, U. Wagner, J. Dixon, L. Lee, V.V. Lobanenkov, and B. Ren A map of the cis-regulatory sequences in the mouse genome Nature 488 2012 116 120
32. Y.M. Sun, D.J. Greenway, R. Johnson, M. Street, N.D. Belyaev, J. Deuchars, T. Bee, S. Wilde, and N.J. Buckley Distinct profiles of REST interactions with its target genes at different stages of neuronal development Mol. Biol. Cell 16 2005 5630 5638
33. G.K. Thornton, and C.G. Woods Primary microcephaly: do all roads lead to Rome? Trends Genet. 25 2009 501 510
34. J.N. Zheng, T.X. Ma, J.Y. Cao, X.Q. Sun, J.C. Chen, W. Li, R.M. Wen, Y.F. Sun, and D.S. Pei Knockdown of Ki-67 by small interfering RNA leads to inhibition of proliferation and induction of apoptosis in human renal carcinoma cells Life Sci. 78 2006 724 729
35. Adams, N.C.; Tomoda, T.; Cooper, M.; Dietz, G.; and Hatten, M.E. (2002). Mice that lack astrotactin have slowed neuronal migration. Development 129, 965-972.
36. Anders, S. (2007). HTSeq: Analysing high-throughput sequencing data with Python (Free Software Foundation, Inc.).
37. Anders, S.; and Huber, W. (2010). Differential expression analysis for sequence count data. Genome Biol. 11, R106.
38. Ashburner, M.; Ball, C.A.; Blake, J.A.; Botstein, D.; Butler, H.; Cherry, J.M.; Davis, A.P.; Dolinski, K.; Dwight, S.S.; Eppig, J.T.; et al.; The Gene Ontology Consortium (2000). Gene ontology: tool for the unification of biology. Nat. Genet. 25, 25-29.
39. Barrera, L.O.; Li, Z.; Smith, A.D.; Arden, K.C.; Cavenee, W.K.; Zhang, M.Q.; Green, R.D.; and Ren, B. (2008). Genome-wide mapping and analysis of active promoters in mouse embryonic stem cells and adult organs. Genome Res. 18, 46-59.
40. Chen, C.; Jin, J.; James, D.A.; Adams-Cioaba, M.A.; Park, J.G.; Guo, Y.; Tenaglia, E.; Xu, C.; Gish, G.; Min, J.; and Pawson, T. (2009). Mouse Piwi interactome identifies binding mechanism of Tdrkh Tudor domain to arginine methylated Miwi. Proc. Natl. Acad. Sci. USA 106, 20336-20341.
41. Kent, W.J.; Sugnet, C.W.; Furey, T.S.; Roskin, K.M.; Pringle, T.H.; Zahler, A.M.; and Haussler, D. (2002). The human genome browser at UCSC. Genome Res. 12, 996-1006.
42. Kim, T.K.; Hemberg, M.; Gray, J.M.; Costa, A.M.; Bear, D.M.; Wu, J.; Harmin, D.A.; Laptewicz, M.; Barbara-Haley, K.; Kuersten, S.; et al. (2010). Widespread transcription at neuronal activity-regulated enhancers. Nature 465, 182-187.
43. Langmead, B.; Trapnell, C.; Pop, M.; and Salzberg, S.L. (2009). Ultrafast and memory-efficient alignment of short DNA sequences to the human genome. Genome Biol. 10, R25.
44. Morrison, M.E.; and Mason, C.A. (1998). Granule neuron regulation of Purkinje cell development: striking a balance between neurotrophin and glutamate signaling. J. Neurosci. 18, 3563-3573.
45. Nagata, I.; Ono, K.; Kawana, A.; and Kimura-Kuroda, J. (2006). Aligned neurite bundles of granule cells regulate orientation of Purkinje cell dendrites by perpendicular contact guidance in two-dimensional and three-dimensional mouse cerebellar cultures. J. Comp. Neurol. 499, 274-289.
46. Ogawa, H.; Ishiguro, K.; Gaubatz, S.; Livingston, D.M.; and Nakatani, Y. (2002). A complex with chromatin modifiers that occupies E2F- and Myc-responsive genes in G0 cells. Science 296, 1132-1136.
47. Olson, E.C.; Kim, S.; and Walsh, C.A. (2006). Impaired neuronal positioning and dendritogenesis in the neocortex after cell-autonomous Dab1 suppression. J. Neurosci. 26, 1767-1775.
48. Renthal, W.; Kumar, A.; Xiao, G.; Wilkinson, M.; Covington, H.E.; III, Maze, I.; Sikder, D.; Robison, A.J.; LaPlant, Q.; Dietz, D.M.; et al. (2009). Genome-wide analysis of chromatin regulation by cocaine reveals a role for sirtuins. Neuron 62, 335-348.
49. Smeyne, R.J.; Chu, T.; Lewin, A.; Bian, F.; Sanlioglu, S.; Kunsch, C.; Lira, S.A.; and Oberdick, J. (1995). Local control of granule cell generation by cerebellar Purkinje cells. Mol. Cell. Neurosci. 6, 230-251.
50. Tsankova, N.M.; Kumar, A.; and Nestler, E.J. (2004). Histone modifications at gene promoter regions in rat hippocampus after acute and chronic electroconvulsive seizures. J. Neurosci. 24, 5603-5610.
51. Zhang, Y.; Liu, T.; Meyer, C.A.; Eeckhoute, J.; Johnson, D.S.; Bernstein, B.E.; Nusbaum, C.; Myers, R.M.; Brown, M.; Li, W.; and Liu, X.S. (2008). Model-based analysis of ChIP-Seq (MACS). Genome Biol. 9, R137.