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Volumn 27, Issue 16, 2013, Pages 1769-1786

Epigenomic enhancer annotation reveals a key role for NFIX in neural stem cell quiescence

Author keywords

Epigenetics; Genomics; Neural stem cells; NFIX; Nuclear factor one; Quiescence; Transcription factor

Indexed keywords

BONE MORPHOGENETIC PROTEIN 4; DNA; EPIDERMAL GROWTH FACTOR; FIBROBLAST GROWTH FACTOR 2; HISTONE; NUCLEAR FACTOR I; PUROMYCIN; RNA; SHORT HAIRPIN RNA; TRANSCRIPTION FACTOR;

EID: 84882709882     PISSN: 08909369     EISSN: 15495477     Source Type: Journal    
DOI: 10.1101/gad.216804.113     Document Type: Article
Times cited : (156)

References (86)
  • 2
    • 0344629659 scopus 로고    scopus 로고
    • Nuclear factor I/thyroid transcription factor 1 interactions modulate surfactant protein C transcription
    • Bachurski C.J., Yang GH, Currier TA, Gronostajski RM, Hong D. 2003. Nuclear factor I/thyroid transcription factor 1 interactions modulate surfactant protein C transcription. Mol Cell Biol 23: 9014-9024.
    • (2003) Mol Cell Biol , vol.23 , pp. 9014-9024
    • Bachurski, C.J.1    Yang, G.H.2    Currier, T.A.3    Gronostajski, R.M.4    Hong, D.5
  • 3
    • 33746550363 scopus 로고    scopus 로고
    • Persistent and high levels of Hes1 expression regulate boundary formation in the developing central nervous system
    • Baek J.H., Hatakeyama J, Sakamoto S, Ohtsuka T, Kageyama R. 2006. Persistent and high levels of Hes1 expression regulate boundary formation in the developing central nervous system. Development 133: 2467-2476.
    • (2006) Development , vol.133 , pp. 2467-2476
    • Baek, J.H.1    Hatakeyama, J.2    Sakamoto, S.3    Ohtsuka, T.4    Kageyama, R.5
  • 9
    • 0242353154 scopus 로고    scopus 로고
    • Vertebrate neurogenesis is counteracted by Sox1-3 activity
    • Bylund M., Andersson E, Novitch BG, Muhr J. 2003. Vertebrate neurogenesis is counteracted by Sox1-3 activity. Nat Neurosci 6: 1162-1168.
    • (2003) Nat Neurosci , vol.6 , pp. 1162-1168
    • Bylund, M.1    Andersson, E.2    Novitch, B.G.3    Muhr, J.4
  • 12
    • 84871603152 scopus 로고    scopus 로고
    • Adhesion in the stem cell niche: Biological roles and regulation
    • Chen S., Lewallen M, Xie T. 2013. Adhesion in the stem cell niche: Biological roles and regulation. Development 140: 255-265.
    • (2013) Development , vol.140 , pp. 255-265
    • Chen, S.1    Lewallen, M.2    Xie, T.3
  • 13
  • 14
    • 77249144782 scopus 로고    scopus 로고
    • Neural stem cell systems: Physiological players or in vitro entities?
    • Conti L., Cattaneo E. 2010. Neural stem cell systems: Physiological players or in vitro entities? Nat Rev Neurosci 11: 176-187.
    • (2010) Nat Rev Neurosci , vol.11 , pp. 176-187
    • Conti, L.1    Cattaneo, E.2
  • 17
    • 33845461219 scopus 로고    scopus 로고
    • The transcription factor NFIA controls the onset of gliogenesis in the developing spinal cord
    • Deneen B., Ho R, Lukaszewicz A, Hochstim CJ, Gronostajski RM, Anderson DJ. 2006. The transcription factor NFIA controls the onset of gliogenesis in the developing spinal cord. Neuron 52: 953-968.
    • (2006) Neuron , vol.52 , pp. 953-968
    • Deneen, B.1    Ho, R.2    Lukaszewicz, A.3    Hochstim, C.J.4    Gronostajski, R.M.5    Anderson, D.J.6
  • 21
    • 48849109215 scopus 로고    scopus 로고
    • Physical activity and the regulation of neurogenesis in the adult and aging brain
    • Fabel K., Kempermann G. 2008. Physical activity and the regulation of neurogenesis in the adult and aging brain. Neuromolecular Med 10: 59-66.
    • (2008) Neuromolecular Med , vol.10 , pp. 59-66
    • Fabel, K.1    Kempermann, G.2
  • 22
    • 84872498439 scopus 로고    scopus 로고
    • Signaling mechanisms regulating adult neural stem cells and neurogenesis
    • Faigle R., Song H. 2013. Signaling mechanisms regulating adult neural stem cells and neurogenesis. Biochim Biophys Acta 1830: 2435-2448.
    • (2013) Biochim Biophys Acta , vol.1830 , pp. 2435-2448
    • Faigle, R.1    Song, H.2
  • 23
    • 1642603951 scopus 로고    scopus 로고
    • Socializing with the neighbors: Stem cells and their niche
    • Fuchs E., Tumbar T, Guasch G. 2004. Socializing with the neighbors: Stem cells and their niche. Cell 116: 769-778.
    • (2004) Cell , vol.116 , pp. 769-778
    • Fuchs, E.1    Tumbar, T.2    Guasch, G.3
  • 28
    • 84861865698 scopus 로고    scopus 로고
    • Nuclear factor I genes regulate neuronal migration
    • Heng Y.H., Barry G, Richards LJ, Piper M. 2012a. Nuclear factor I genes regulate neuronal migration. Neurosignals 20: 159-167.
    • (2012) Neurosignals , vol.20 , pp. 159-167
    • Heng, Y.H.1    Barry, G.2    Richards, L.J.3    Piper, M.4
  • 30
    • 84861138973 scopus 로고    scopus 로고
    • Orchestrating transcriptional control of adult neurogenesis
    • Hsieh J. 2012. Orchestrating transcriptional control of adult neurogenesis. Genes Dev 26: 1010-1021.
    • (2012) Genes Dev , vol.26 , pp. 1010-1021
    • Hsieh, J.1
  • 31
    • 0029087659 scopus 로고
    • Direct adhesion to bone marrow stroma via fibronectin receptors inhibits hematopoietic progenitor proliferation
    • Hurley R.W., McCarthy JB, Verfaillie CM. 1995. Direct adhesion to bone marrow stroma via fibronectin receptors inhibits hematopoietic progenitor proliferation. J Clin Invest 96: 511-519.
    • (1995) J Clin Invest , vol.96 , pp. 511-519
    • Hurley, R.W.1    McCarthy, J.B.2    Verfaillie, C.M.3
  • 32
    • 70849099495 scopus 로고    scopus 로고
    • The extracellular matrix: Not just pretty fibrils
    • Hynes RO. 2009. The extracellular matrix: Not just pretty fibrils. Science 326: 1216-1219.
    • (2009) Science , vol.326 , pp. 1216-1219
    • Hynes, R.O.1
  • 33
    • 77749336752 scopus 로고    scopus 로고
    • Essential roles of Notch signaling in maintenance of neural stem cells in developing and adult brains
    • Imayoshi I., Sakamoto M, Yamaguchi M, Mori K, Kageyama R. 2010. Essential roles of Notch signaling in maintenance of neural stem cells in developing and adult brains. J Neurosci 30: 3489-3498.
    • (2010) J Neurosci , vol.30 , pp. 3489-3498
    • Imayoshi, I.1    Sakamoto, M.2    Yamaguchi, M.3    Mori, K.4    Kageyama, R.5
  • 34
    • 77954857356 scopus 로고    scopus 로고
    • Quiescence and activation of stem and precursor cell populations in the subependymal zone of the mammalian brain are associated with distinct cellular and extracellular matrix signals
    • Kazanis I., Lathia JD, Vadakkan TJ, Raborn E, Wan R, Mughal MR, Eckley DM, Sasaki T, Patton B, Mattson MP, et al. 2010. Quiescence and activation of stem and precursor cell populations in the subependymal zone of the mammalian brain are associated with distinct cellular and extracellular matrix signals. J Neurosci 30: 9771-9781.
    • (2010) J Neurosci , vol.30 , pp. 9771-9781
    • Kazanis, I.1    Lathia, J.D.2    Vadakkan, T.J.3    Raborn, E.4    Wan, R.5    Mughal, M.R.6    Eckley, D.M.7    Sasaki, T.8    Patton, B.9    Mattson, M.P.10
  • 35
    • 34748926972 scopus 로고    scopus 로고
    • Novel extracellular matrix structures in the neural stem cell niche capture the neurogenic factor fibroblast growth factor 2 from the extracellular milieu
    • Kerever A., Schnack J, Vellinga D, Ichikawa N, Moon C, Arikawa-Hirasawa E., Efird JT, Mercier F. 2007. Novel extracellular matrix structures in the neural stem cell niche capture the neurogenic factor fibroblast growth factor 2 from the extracellular milieu. Stem Cells 25: 2146-2157.
    • (2007) Stem Cells , vol.25 , pp. 2146-2157
    • Kerever, A.1    Schnack, J.2    Vellinga, D.3    Ichikawa, N.4    Moon, C.5    Arikawa-Hirasawa, E.6    Efird, J.T.7    Mercier, F.8
  • 36
    • 34547145922 scopus 로고    scopus 로고
    • Loss of a quiescent niche but not follicle stem cells in the absence of bone morphogenetic protein signaling
    • Kobielak K., Stokes N, de la Cruz J, Polak L, Fuchs E. 2007. Loss of a quiescent niche but not follicle stem cells in the absence of bone morphogenetic protein signaling. Proc Natl Acad Sci 104: 10063-10068.
    • (2007) Proc Natl Acad Sci , vol.104 , pp. 10063-10068
    • Kobielak, K.1    Stokes, N.2    de la Cruz, J.3    Polak, L.4    Fuchs, E.5
  • 37
    • 77956241246 scopus 로고    scopus 로고
    • Adult SVZ lineage cells home to and leave the vascular niche via differential responses to SDF1/CXCR4 signaling
    • Kokovay E., Goderie S, Wang Y, Lotz S, Lin G, Sun Y, Roysam B, Shen Q., Temple S. 2010. Adult SVZ lineage cells home to and leave the vascular niche via differential responses to SDF1/CXCR4 signaling. Cell Stem Cell 7: 163-173.
    • (2010) Cell Stem Cell , vol.7 , pp. 163-173
    • Kokovay, E.1    Goderie, S.2    Wang, Y.3    Lotz, S.4    Lin, G.5    Sun, Y.6    Roysam, B.7    Shen, Q.8    Temple, S.9
  • 38
    • 84864603513 scopus 로고    scopus 로고
    • VCAM1 is essential to maintain the structure of the SVZ niche and acts as an environmental sensor to regulate SVZ lineage progression
    • Kokovay E, Wang Y, Kusek G, Wurster R, Lederman P, Lowry N, Shen Q., Temple S. 2012. VCAM1 is essential to maintain the structure of the SVZ niche and acts as an environmental sensor to regulate SVZ lineage progression. Cell Stem Cell 11: 220-230.
    • (2012) Cell Stem Cell , vol.11 , pp. 220-230
    • Kokovay, E.1    Wang, Y.2    Kusek, G.3    Wurster, R.4    Lederman, P.5    Lowry, N.6    Shen, Q.7    Temple, S.8
  • 39
    • 79953177468 scopus 로고    scopus 로고
    • Aligning short sequencing reads with Bowtie
    • Langmead B. 2010. Aligning short sequencing reads with Bowtie. Curr Protoc Bioinformatics 32: 11.7.1-11.7.14.
    • (2010) Curr Protoc Bioinformatics , vol.32 , pp. 1171-11714
    • Langmead, B.1
  • 41
    • 59649113226 scopus 로고    scopus 로고
    • GADEM: A genetic algorithm guided formation of spaced dyads coupled with an EM algorithm for motif discovery
    • Li L. 2009. GADEM: A genetic algorithm guided formation of spaced dyads coupled with an EM algorithm for motif discovery. J Comput Biol 16: 317-329.
    • (2009) J Comput Biol , vol.16 , pp. 317-329
    • Li, L.1
  • 42
    • 75749146169 scopus 로고    scopus 로고
    • Coexistence of quiescent and active adult stem cells in mammals
    • Li L., Clevers H. 2010. Coexistence of quiescent and active adult stem cells in mammals. Science 327: 542-545.
    • (2010) Science , vol.327 , pp. 542-545
    • Li, L.1    Clevers, H.2
  • 43
    • 80052298366 scopus 로고    scopus 로고
    • Genome-wide maps of histone modifications unwind in vivo chromatin states of the hair follicle lineage
    • Lien W.H., Guo X, Polak L, Lawton LN, Young RA, Zheng D, Fuchs E. 2011. Genome-wide maps of histone modifications unwind in vivo chromatin states of the hair follicle lineage. Cell Stem Cell 9: 219-232.
    • (2011) Cell Stem Cell , vol.9 , pp. 219-232
    • Lien, W.H.1    Guo, X.2    Polak, L.3    Lawton, L.N.4    Young, R.A.5    Zheng, D.6    Fuchs, E.7
  • 45
    • 71549167579 scopus 로고    scopus 로고
    • Regulation of adult neurogenesis by stress, sleep disruption, exercise and inflammation: Implications for depression and antidepressant action
    • Lucassen P.J., Meerlo P, Naylor AS, van Dam AM, Dayer AG, Fuchs E., Oomen CA, Czeh B. 2010. Regulation of adult neurogenesis by stress, sleep disruption, exercise and inflammation: Implications for depression and antidepressant action. Eur Neuropsychopharmacol 20: 1-17.
    • (2010) Eur Neuropsychopharmacol , vol.20 , pp. 1-17
    • Lucassen, P.J.1    Meerlo, P.2    Naylor, A.S.3    van Dam, A.M.4    Dayer, A.G.5    Fuchs, E.6    Oomen, C.A.7    Czeh, B.8
  • 46
    • 77955368742 scopus 로고    scopus 로고
    • Quiescent and active hippocampal neural stem cells with distinct morphologies respond selectively to physiological and pathological stimuli and aging
    • Lugert S., Basak O, Knuckles P, Haussler U, Fabel K, Gotz M, Haas C.A., Kempermann G, Taylor V, Giachino C. 2010. Quiescent and active hippocampal neural stem cells with distinct morphologies respond selectively to physiological and pathological stimuli and aging. Cell Stem Cell 6: 445-456.
    • (2010) Cell Stem Cell , vol.6 , pp. 445-456
    • Lugert, S.1    Basak, O.2    Knuckles, P.3    Haussler, U.4    Fabel, K.5    Gotz, M.6    Haas, C.A.7    Kempermann, G.8    Taylor, V.9    Giachino, C.10
  • 47
    • 68649094716 scopus 로고    scopus 로고
    • Activity-dependent extrinsic regulation of adult olfactory bulb and hippocampal neurogenesis
    • Ma D.K., Kim WR, Ming GL, Song H. 2009. Activity-dependent extrinsic regulation of adult olfactory bulb and hippocampal neurogenesis. Ann NY Acad Sci 1170: 664-673.
    • (2009) Ann NY Acad Sci , vol.1170 , pp. 664-673
    • Ma, D.K.1    Kim, W.R.2    Ming, G.L.3    Song, H.4
  • 48
    • 79958117256 scopus 로고    scopus 로고
    • MEME-ChIP: Motif analysis of large DNA datasets
    • Machanick P., Bailey TL. 2011. MEME-ChIP: Motif analysis of large DNA datasets. Bioinformatics 27: 1696-1697.
    • (2011) Bioinformatics , vol.27 , pp. 1696-1697
    • McHanick, P.1    Bailey, T.L.2
  • 50
    • 0033980393 scopus 로고    scopus 로고
    • Helix-loop-helix proteins: Regulators of transcription in eucaryotic organisms
    • Massari M.E., Murre C. 2000. Helix-loop-helix proteins: Regulators of transcription in eucaryotic organisms. Mol Cell Biol 20: 429-440.
    • (2000) Mol Cell Biol , vol.20 , pp. 429-440
    • Massari, M.E.1    Murre, C.2
  • 57
    • 80053277715 scopus 로고    scopus 로고
    • Activation of postnatal neural stem cells requires nuclear receptor TLX
    • Niu W., Zou Y, Shen C, Zhang CL. 2011. Activation of postnatal neural stem cells requires nuclear receptor TLX. J Neurosci 31: 13816-13828.
    • (2011) J Neurosci , vol.31 , pp. 13816-13828
    • Niu, W.1    Zou, Y.2    Shen, C.3    Zhang, C.L.4
  • 58
    • 38349132624 scopus 로고    scopus 로고
    • Deconstructing stem cell selfrenewal: Genetic insights into cell-cycle regulation
    • Orford K.W., Scadden DT. 2008. Deconstructing stem cell selfrenewal: Genetic insights into cell-cycle regulation. Nat Rev Genet 9: 115-128.
    • (2008) Nat Rev Genet , vol.9 , pp. 115-128
    • Orford, K.W.1    Scadden, D.T.2
  • 62
    • 65549112127 scopus 로고    scopus 로고
    • Simultaneous prospective purification of adult subventricular zone neural stem cells and their progeny
    • Pastrana E., Cheng LC, Doetsch F. 2009. Simultaneous prospective purification of adult subventricular zone neural stem cells and their progeny. Proc Natl Acad Sci 106: 6387-6392.
    • (2009) Proc Natl Acad Sci , vol.106 , pp. 6387-6392
    • Pastrana, E.1    Cheng, L.C.2    Doetsch, F.3
  • 64
    • 79958175738 scopus 로고    scopus 로고
    • Epigenomics of human embryonic stem cells and induced pluripotent stem cells: Insights into pluripotency and implications for disease
    • Rada-Iglesias A, Wysocka J. 2011. Epigenomics of human embryonic stem cells and induced pluripotent stem cells: Insights into pluripotency and implications for disease. Genome Med 3: 36.
    • (2011) Genome Med , vol.3 , pp. 36
    • Rada-Iglesias, A.1    Wysocka, J.2
  • 68
    • 36448982477 scopus 로고    scopus 로고
    • Brain micro-ecologies: Neural stem cell niches in the adult mammalian brain
    • Riquelme P.A., Drapeau E, Doetsch F. 2008. Brain micro-ecologies: Neural stem cell niches in the adult mammalian brain. Philos Trans R Soc Lond B Biol Sci 363: 123-137.
    • (2008) Philos Trans R Soc Lond B Biol Sci , vol.363 , pp. 123-137
    • Riquelme, P.A.1    Drapeau, E.2    Doetsch, F.3
  • 69
    • 4644223417 scopus 로고    scopus 로고
    • Interactions between ID and OLIG proteins mediate the inhibitory effects of BMP4 on oligodendroglial differentiation
    • Samanta J., Kessler JA. 2004. Interactions between ID and OLIG proteins mediate the inhibitory effects of BMP4 on oligodendroglial differentiation. Development 131: 4131-4142.
    • (2004) Development , vol.131 , pp. 4131-4142
    • Samanta, J.1    Kessler, J.A.2
  • 70
    • 50149117285 scopus 로고    scopus 로고
    • Control of the reversibility of cellular quiescence by the transcriptional repressor HES1
    • Sang L., Coller HA, Roberts JM. 2008. Control of the reversibility of cellular quiescence by the transcriptional repressor HES1. Science 321: 1095-1100.
    • (2008) Science , vol.321 , pp. 1095-1100
    • Sang, L.1    Coller, H.A.2    Roberts, J.M.3
  • 71
    • 0345491600 scopus 로고    scopus 로고
    • Deletion of a4 integrins from adult hematopoietic cells reveals roles in homeostasis, regeneration, and homing
    • Scott L.M., Priestley GV, Papayannopoulou T. 2003. Deletion of a4 integrins from adult hematopoietic cells reveals roles in homeostasis, regeneration, and homing. Mol Cell Biol 23: 9349-9360.
    • (2003) Mol Cell Biol , vol.23 , pp. 9349-9360
    • Scott, L.M.1    Priestley, G.V.2    Papayannopoulou, T.3
  • 74
    • 0037220615 scopus 로고    scopus 로고
    • Abnormal development of forebrain midline glia and commissural projections in Nfia knock-out mice
    • Shu T., Butz KG, Plachez C, Gronostajski RM, Richards LJ. 2003. Abnormal development of forebrain midline glia and commissural projections in Nfia knock-out mice. J Neurosci 23: 203-212.
    • (2003) J Neurosci , vol.23 , pp. 203-212
    • Shu, T.1    Butz, K.G.2    Plachez, C.3    Gronostajski, R.M.4    Richards, L.J.5
  • 76
    • 79958195179 scopus 로고    scopus 로고
    • Interplay between FGF2 and BMP controls the self-renewal, dormancy and differentiation of rat neural stem cells
    • Sun Y., Hu J, Zhou L, Pollard SM, Smith A. 2011. Interplay between FGF2 and BMP controls the self-renewal, dormancy and differentiation of rat neural stem cells. J Cell Sci 124: 1867-1877.
    • (2011) J Cell Sci , vol.124 , pp. 1867-1877
    • Sun, Y.1    Hu, J.2    Zhou, L.3    Pollard, S.M.4    Smith, A.5
  • 77
    • 0035499887 scopus 로고    scopus 로고
    • The development of neural stem cells
    • Temple S. 2001. The development of neural stem cells. Nature 414: 112-117.
    • (2001) Nature , vol.414 , pp. 112-117
    • Temple, S.1
  • 84
    • 67650711619 scopus 로고    scopus 로고
    • A clustering approach for identification of enriched domains from histone modification ChIP-seq data
    • Zang C., Schones DE, Zeng C, Cui K, Zhao K, Peng W. 2009. A clustering approach for identification of enriched domains from histone modification ChIP-seq data. Bioinformatics 25: 1952-1958.
    • (2009) Bioinformatics , vol.25 , pp. 1952-1958
    • Zang, C.1    Schones, D.E.2    Zeng, C.3    Cui, K.4    Zhao, K.5    Peng, W.6
  • 85
    • 80051564877 scopus 로고    scopus 로고
    • Epigenetic signatures distinguish multiple classes of enhancers with distinct cellular functions
    • Zentner G.E., Tesar PJ, Scacheri PC. 2011. Epigenetic signatures distinguish multiple classes of enhancers with distinct cellular functions. Genome Res 21: 1273-1283.
    • (2011) Genome Res , vol.21 , pp. 1273-1283
    • Zentner, G.E.1    Tesar, P.J.2    Scacheri, P.C.3


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