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Volumn 16, Issue 1, 2015, Pages

Genome-wide target analysis of NEUROD2 provides new insights into regulation of cortical projection neuron migration and differentiation

Author keywords

Axon guidance; Cortical layers; Cortical projection neuron; NEUROD2; Radial migration

Indexed keywords

CYCLIN DEPENDENT KINASE 5; NEURONAL DIFFERENTIATION 2 PROTEIN; PROTEIN CDK5R1; REELIN; TRANSCRIPTION FACTOR; UNCLASSIFIED DRUG; BASIC HELIX LOOP HELIX TRANSCRIPTION FACTOR; NEUROD2 PROTEIN, MOUSE; NEUROPEPTIDE; PROTEIN BINDING;

EID: 84940784713     PISSN: None     EISSN: 14712164     Source Type: Journal    
DOI: 10.1186/s12864-015-1882-9     Document Type: Article
Times cited : (34)

References (56)
  • 1
    • 67650960626 scopus 로고    scopus 로고
    • Molecular regulation of neuronal migration during neocortical development
    • Huang Z. Molecular regulation of neuronal migration during neocortical development. Mol Cell Neurosci. 2009;42:11-22.
    • (2009) Mol Cell Neurosci , vol.42 , pp. 11-22
    • Huang, Z.1
  • 2
    • 84885410089 scopus 로고    scopus 로고
    • In and out from the cortex: development of major forebrain connections
    • Leyva-Diaz E, Lopez-Bendito G. In and out from the cortex: development of major forebrain connections. Neuroscience. 2013;254:26-44.
    • (2013) Neuroscience , vol.254 , pp. 26-44
    • Leyva-Diaz, E.1    Lopez-Bendito, G.2
  • 4
    • 84859319524 scopus 로고    scopus 로고
    • Transcriptional co-regulation of neuronal migration and laminar identity in the neocortex
    • Kwan KY, Sestan N, Anton ES. Transcriptional co-regulation of neuronal migration and laminar identity in the neocortex. Development. 2012;139:1535-46.
    • (2012) Development , vol.139 , pp. 1535-1546
    • Kwan, K.Y.1    Sestan, N.2    Anton, E.S.3
  • 5
    • 84904574575 scopus 로고    scopus 로고
    • Neurogenins in brain development and disease: an overview
    • Yuan L, Hassan BA. Neurogenins in brain development and disease: an overview. Arch Biochem Biophys. 2014;558:10-3.
    • (2014) Arch Biochem Biophys , vol.558 , pp. 10-13
    • Yuan, L.1    Hassan, B.A.2
  • 6
    • 34547838109 scopus 로고    scopus 로고
    • Cell fate specification in the mammalian telencephalon
    • Guillemot F. Cell fate specification in the mammalian telencephalon. Prog Neurobiol. 2007;83:37-52.
    • (2007) Prog Neurobiol , vol.83 , pp. 37-52
    • Guillemot, F.1
  • 7
    • 84884711305 scopus 로고    scopus 로고
    • Proneural genes in neocortical development
    • Wilkinson G, Dennis D, Schuurmans C. Proneural genes in neocortical development. Neuroscience. 2013;253:256-73.
    • (2013) Neuroscience , vol.253 , pp. 256-273
    • Wilkinson, G.1    Dennis, D.2    Schuurmans, C.3
  • 8
    • 3542996324 scopus 로고    scopus 로고
    • Sequential phases of cortical specification involve Neurogenin-dependent and -independent pathways
    • Schuurmans C, Armant O, Nieto M, Stenman JM, Britz O, Klenin N, et al. Sequential phases of cortical specification involve Neurogenin-dependent and -independent pathways. EMBO J. 2004;23:2892-902.
    • (2004) EMBO J , vol.23 , pp. 2892-2902
    • Schuurmans, C.1    Armant, O.2    Nieto, M.3    Stenman, J.M.4    Britz, O.5    Klenin, N.6
  • 9
    • 40749153169 scopus 로고    scopus 로고
    • Basic helix-loop-helix transcription factors cooperate to specify a cortical projection neuron identity
    • Mattar P, Langevin LM, Markham K, Klenin N, Shivji S, Zinyk D, et al. Basic helix-loop-helix transcription factors cooperate to specify a cortical projection neuron identity. Mol Cell Biol. 2008;28:1456-69.
    • (2008) Mol Cell Biol , vol.28 , pp. 1456-1469
    • Mattar, P.1    Langevin, L.M.2    Markham, K.3    Klenin, N.4    Shivji, S.5    Zinyk, D.6
  • 10
    • 0035370246 scopus 로고    scopus 로고
    • NeuroD2 is necessary for development and survival of central nervous system neurons
    • Olson JM, Asakura A, Snider L, Hawkes R, Strand A, Stoeck J, et al. NeuroD2 is necessary for development and survival of central nervous system neurons. Dev Biol. 2001;234:174-87.
    • (2001) Dev Biol , vol.234 , pp. 174-187
    • Olson, J.M.1    Asakura, A.2    Snider, L.3    Hawkes, R.4    Strand, A.5    Stoeck, J.6
  • 11
    • 84872072593 scopus 로고    scopus 로고
    • Neuronal basic helix-loop-helix proteins Neurod2/6 regulate cortical commissure formation before midline interactions
    • Bormuth I, Yan K, Yonemasu T, Gummert M, Zhang M, Wichert S, et al. Neuronal basic helix-loop-helix proteins Neurod2/6 regulate cortical commissure formation before midline interactions. J Neurosci. 2013;33:641-51.
    • (2013) J Neurosci , vol.33 , pp. 641-651
    • Bormuth, I.1    Yan, K.2    Yonemasu, T.3    Gummert, M.4    Zhang, M.5    Wichert, S.6
  • 12
    • 33344473731 scopus 로고    scopus 로고
    • Regulation of thalamocortical patterning and synaptic maturation by NeuroD2
    • Ince-Dunn G, Hall BJ, Hu SC, Ripley B, Huganir RL, Olson JM, et al. Regulation of thalamocortical patterning and synaptic maturation by NeuroD2. Neuron. 2006;49:683-95.
    • (2006) Neuron , vol.49 , pp. 683-695
    • Ince-Dunn, G.1    Hall, B.J.2    Hu, S.C.3    Ripley, B.4    Huganir, R.L.5    Olson, J.M.6
  • 14
    • 77951121610 scopus 로고    scopus 로고
    • GABAergic differentiation induced by Mash1 is compromised by the bHLH proteins Neurogenin2, NeuroD1, and NeuroD2
    • Roybon L, Mastracci TL, Ribeiro D, Sussel L, Brundin P, Li JY. GABAergic differentiation induced by Mash1 is compromised by the bHLH proteins Neurogenin2, NeuroD1, and NeuroD2. Cereb Cortex. 2010;20:1234-44.
    • (2010) Cereb Cortex , vol.20 , pp. 1234-1244
    • Roybon, L.1    Mastracci, T.L.2    Ribeiro, D.3    Sussel, L.4    Brundin, P.5    Li, J.Y.6
  • 17
    • 84859210032 scopus 로고    scopus 로고
    • Fast gapped-read alignment with Bowtie 2
    • Langmead B, Salzberg SL. Fast gapped-read alignment with Bowtie 2. Nat Methods. 2012;9:357-9.
    • (2012) Nat Methods , vol.9 , pp. 357-359
    • Langmead, B.1    Salzberg, S.L.2
  • 18
    • 62349130698 scopus 로고    scopus 로고
    • Ultrafast and memory-efficient alignment of short DNA sequences to the human genome
    • Langmead B, Trapnell C, Pop M, Salzberg SL. Ultrafast and memory-efficient alignment of short DNA sequences to the human genome. Genome Biol. 2009;10:R25.
    • (2009) Genome Biol , vol.10 , pp. R25
    • Langmead, B.1    Trapnell, C.2    Pop, M.3    Salzberg, S.L.4
  • 20
    • 0029791264 scopus 로고    scopus 로고
    • NeuroD2 and neuroD3: distinct expression patterns and transcriptional activation potentials within the neuroD gene family
    • McCormick MB, Tamimi RM, Snider L, Asakura A, Bergstrom D, Tapscott SJ. NeuroD2 and neuroD3: distinct expression patterns and transcriptional activation potentials within the neuroD gene family. Mol Cell Biol. 1996;16:5792-800.
    • (1996) Mol Cell Biol , vol.16 , pp. 5792-5800
    • McCormick, M.B.1    Tamimi, R.M.2    Snider, L.3    Asakura, A.4    Bergstrom, D.5    Tapscott, S.J.6
  • 21
    • 0033025071 scopus 로고    scopus 로고
    • Transcriptional regulation of mouse type 1 inositol 1,4,5-trisphosphate receptor gene by NeuroD-related factor
    • Konishi Y, Ohkawa N, Makino Y, Ohkubo H, Kageyama R, Furuichi T, et al. Transcriptional regulation of mouse type 1 inositol 1,4,5-trisphosphate receptor gene by NeuroD-related factor. J Neurochem. 1999;72:1717-24.
    • (1999) J Neurochem , vol.72 , pp. 1717-1724
    • Konishi, Y.1    Ohkawa, N.2    Makino, Y.3    Ohkubo, H.4    Kageyama, R.5    Furuichi, T.6
  • 22
    • 37849019258 scopus 로고    scopus 로고
    • Crystal structure of E47-NeuroD1/beta2 bHLH domain-DNA complex: heterodimer selectivity and DNA recognition
    • Longo A, Guanga GP, Rose RB. Crystal structure of E47-NeuroD1/beta2 bHLH domain-DNA complex: heterodimer selectivity and DNA recognition. Biochemistry. 2008;47:218-29.
    • (2008) Biochemistry , vol.47 , pp. 218-229
    • Longo, A.1    Guanga, G.P.2    Rose, R.B.3
  • 23
    • 79958117256 scopus 로고    scopus 로고
    • MEME-ChIP: motif analysis of large DNA datasets
    • Machanick P, Bailey TL. MEME-ChIP: motif analysis of large DNA datasets. Bioinformatics. 2011;27:1696-7.
    • (2011) Bioinformatics , vol.27 , pp. 1696-1697
    • Machanick, P.1    Bailey, T.L.2
  • 26
    • 84907420733 scopus 로고    scopus 로고
    • Regulatory analysis of the C. elegans genome with spatiotemporal resolution
    • Araya CL, Kawli T, Kundaje A, Jiang L, Wu B, Vafeados D, et al. Regulatory analysis of the C. elegans genome with spatiotemporal resolution. Nature. 2014;512:400-5.
    • (2014) Nature , vol.512 , pp. 400-405
    • Araya, C.L.1    Kawli, T.2    Kundaje, A.3    Jiang, L.4    Wu, B.5    Vafeados, D.6
  • 27
    • 84873988931 scopus 로고    scopus 로고
    • Cell-type specificity of ChIP-predicted transcription factor binding sites
    • Handstad T, Rye M, Mocnik R, Drablos F, Saetrom P. Cell-type specificity of ChIP-predicted transcription factor binding sites. BMC Genomics. 2012;13:372.
    • (2012) BMC Genomics , vol.13 , pp. 372
    • Handstad, T.1    Rye, M.2    Mocnik, R.3    Drablos, F.4    Saetrom, P.5
  • 28
    • 84865249952 scopus 로고    scopus 로고
    • Transcription factors: from enhancer binding to developmental control
    • Spitz F, Furlong EE. Transcription factors: from enhancer binding to developmental control. Nat Rev Genet. 2012;13:613-26.
    • (2012) Nat Rev Genet , vol.13 , pp. 613-626
    • Spitz, F.1    Furlong, E.E.2
  • 29
    • 84888266922 scopus 로고    scopus 로고
    • Assessing computational methods for transcription factor target gene identification based on ChIP-seq data
    • Sikora-Wohlfeld W, Ackermann M, Christodoulou EG, Singaravelu K, Beyer A. Assessing computational methods for transcription factor target gene identification based on ChIP-seq data. PLoS Comput Biol. 2013;9:e1003342.
    • (2013) PLoS Comput Biol , vol.9 , pp. e1003342
    • Sikora-Wohlfeld, W.1    Ackermann, M.2    Christodoulou, E.G.3    Singaravelu, K.4    Beyer, A.5
  • 31
    • 84865790047 scopus 로고    scopus 로고
    • An integrated encyclopedia of DNA elements in the human genome
    • Consortium EP. An integrated encyclopedia of DNA elements in the human genome. Nature. 2012;489:57-74.
    • (2012) Nature , vol.489 , pp. 57-74
    • Consortium, E.P.1
  • 32
    • 84910155103 scopus 로고    scopus 로고
    • Molecules and mechanisms that regulate multipolar migration in the intermediate zone
    • Cooper JA. Molecules and mechanisms that regulate multipolar migration in the intermediate zone. Front Cell Neurosci. 2014;8:386.
    • (2014) Front Cell Neurosci , vol.8 , pp. 386
    • Cooper, J.A.1
  • 33
    • 80052584757 scopus 로고    scopus 로고
    • Transcriptional programs in transient embryonic zones of the cerebral cortex defined by high-resolution mRNA sequencing
    • Ayoub AE, Oh S, Xie Y, Leng J, Cotney J, Dominguez MH, et al. Transcriptional programs in transient embryonic zones of the cerebral cortex defined by high-resolution mRNA sequencing. Proc Natl Acad Sci U S A. 2011;108:14950-5.
    • (2011) Proc Natl Acad Sci U S A , vol.108 , pp. 14950-14955
    • Ayoub, A.E.1    Oh, S.2    Xie, Y.3    Leng, J.4    Cotney, J.5    Dominguez, M.H.6
  • 35
    • 38749146304 scopus 로고    scopus 로고
    • Satb2 is a postmitotic determinant for upper-layer neuron specification in the neocortex
    • Britanova O, de Juan RC, Cheung A, Kwan KY, Schwark M, Gyorgy A, et al. Satb2 is a postmitotic determinant for upper-layer neuron specification in the neocortex. Neuron. 2008;57:378-92.
    • (2008) Neuron , vol.57 , pp. 378-392
    • Britanova, O.1    Juan, R.C.2    Cheung, A.3    Kwan, K.Y.4    Schwark, M.5    Gyorgy, A.6
  • 36
    • 49649116698 scopus 로고    scopus 로고
    • The Fezf2-Ctip2 genetic pathway regulates the fate choice of subcortical projection neurons in the developing cerebral cortex
    • Chen B, Wang SS, Hattox AM, Rayburn H, Nelson SB, McConnell SK. The Fezf2-Ctip2 genetic pathway regulates the fate choice of subcortical projection neurons in the developing cerebral cortex. Proc Natl Acad Sci U S A. 2008;105:11382-7.
    • (2008) Proc Natl Acad Sci U S A , vol.105 , pp. 11382-11387
    • Chen, B.1    Wang, S.S.2    Hattox, A.M.3    Rayburn, H.4    Nelson, S.B.5    McConnell, S.K.6
  • 37
    • 78651498771 scopus 로고    scopus 로고
    • Tbr1 and Fezf2 regulate alternate corticofugal neuronal identities during neocortical development
    • McKenna WL, Betancourt J, Larkin KA, Abrams B, Guo C, Rubenstein JL, et al. Tbr1 and Fezf2 regulate alternate corticofugal neuronal identities during neocortical development. J Neurosci. 2011;31:549-64.
    • (2011) J Neurosci , vol.31 , pp. 549-564
    • McKenna, W.L.1    Betancourt, J.2    Larkin, K.A.3    Abrams, B.4    Guo, C.5    Rubenstein, J.L.6
  • 38
    • 17744398634 scopus 로고    scopus 로고
    • Tbr1 regulates differentiation of the preplate and layer 6
    • Hevner RF, Shi L, Justice N, Hsueh Y, Sheng M, Smiga S, et al. Tbr1 regulates differentiation of the preplate and layer 6. Neuron. 2001;29:353-66.
    • (2001) Neuron , vol.29 , pp. 353-366
    • Hevner, R.F.1    Shi, L.2    Justice, N.3    Hsueh, Y.4    Sheng, M.5    Smiga, S.6
  • 39
    • 61449172037 scopus 로고    scopus 로고
    • Systematic and integrative analysis of large gene lists using DAVID bioinformatics resources
    • da Huang W, Sherman BT, Lempicki RA. Systematic and integrative analysis of large gene lists using DAVID bioinformatics resources. Nat Protoc. 2009;4:44-57.
    • (2009) Nat Protoc , vol.4 , pp. 44-57
    • Huang, W.1    Sherman, B.T.2    Lempicki, R.A.3
  • 40
    • 58549112996 scopus 로고    scopus 로고
    • Bioinformatics enrichment tools: paths toward the comprehensive functional analysis of large gene lists
    • da Huang W, Sherman BT, Lempicki RA. Bioinformatics enrichment tools: paths toward the comprehensive functional analysis of large gene lists. Nucleic Acids Res. 2009;37:1-13.
    • (2009) Nucleic Acids Res , vol.37 , pp. 1-13
    • Huang, W.1    Sherman, B.T.2    Lempicki, R.A.3
  • 41
    • 84890432056 scopus 로고    scopus 로고
    • Chromatin connectivity maps reveal dynamic promoter-enhancer long-range associations
    • Zhang Y, Wong CH, Birnbaum RY, Li G, Favaro R, Ngan CY, et al. Chromatin connectivity maps reveal dynamic promoter-enhancer long-range associations. Nature. 2013;504:306-10.
    • (2013) Nature , vol.504 , pp. 306-310
    • Zhang, Y.1    Wong, C.H.2    Birnbaum, R.Y.3    Li, G.4    Favaro, R.5    Ngan, C.Y.6
  • 42
    • 84920733366 scopus 로고    scopus 로고
    • Genomic Perspectives of Transcriptional Regulation in Forebrain Development
    • Nord AS, Pattabiraman K, Visel A, Rubenstein JL. Genomic Perspectives of Transcriptional Regulation in Forebrain Development. Neuron. 2015;85:27-47.
    • (2015) Neuron , vol.85 , pp. 27-47
    • Nord, A.S.1    Pattabiraman, K.2    Visel, A.3    Rubenstein, J.L.4
  • 43
    • 84930339882 scopus 로고    scopus 로고
    • MEF2D drives photoreceptor development through a genome-wide competition for tissue-specific enhancers
    • Andzelm MM, Cherry TJ, Harmin DA, Boeke AC, Lee C, Hemberg M, et al. MEF2D drives photoreceptor development through a genome-wide competition for tissue-specific enhancers. Neuron. 2015;86:247-63.
    • (2015) Neuron , vol.86 , pp. 247-263
    • Andzelm, M.M.1    Cherry, T.J.2    Harmin, D.A.3    Boeke, A.C.4    Lee, C.5    Hemberg, M.6
  • 45
    • 1442300201 scopus 로고    scopus 로고
    • Reelin and cyclin-dependent kinase 5-dependent signals cooperate in regulating neuronal migration and synaptic transmission
    • Beffert U, Weeber EJ, Morfini G, Ko J, Brady ST, Tsai LH, et al. Reelin and cyclin-dependent kinase 5-dependent signals cooperate in regulating neuronal migration and synaptic transmission. J Neurosci. 2004;24:1897-906.
    • (2004) J Neurosci , vol.24 , pp. 1897-1906
    • Beffert, U.1    Weeber, E.J.2    Morfini, G.3    Ko, J.4    Brady, S.T.5    Tsai, L.H.6
  • 46
    • 84898620709 scopus 로고    scopus 로고
    • Phosphorylation of drebrin by cyclin-dependent kinase 5 and its role in neuronal migration
    • Tanabe K, Yamazaki H, Inaguma Y, Asada A, Kimura T, Takahashi J, et al. Phosphorylation of drebrin by cyclin-dependent kinase 5 and its role in neuronal migration. PLoS One. 2014;9:e92291.
    • (2014) PLoS One , vol.9 , pp. e92291
    • Tanabe, K.1    Yamazaki, H.2    Inaguma, Y.3    Asada, A.4    Kimura, T.5    Takahashi, J.6
  • 47
    • 0035448915 scopus 로고    scopus 로고
    • p35 and p39 are essential for cyclin-dependent kinase 5 function during neurodevelopment
    • Ko J, Humbert S, Bronson RT, Takahashi S, Kulkarni AB, Li E, et al. p35 and p39 are essential for cyclin-dependent kinase 5 function during neurodevelopment. J Neurosci. 2001;21:6758-71.
    • (2001) J Neurosci , vol.21 , pp. 6758-6771
    • Ko, J.1    Humbert, S.2    Bronson, R.T.3    Takahashi, S.4    Kulkarni, A.B.5    Li, E.6
  • 48
    • 41249099068 scopus 로고    scopus 로고
    • Plexin-A2 and its ligand, Sema6A, control nucleus-centrosome coupling in migrating granule cells
    • Renaud J, Kerjan G, Sumita I, Zagar Y, Georget V, Kim D, et al. Plexin-A2 and its ligand, Sema6A, control nucleus-centrosome coupling in migrating granule cells. Nat Neurosci. 2008;11:440-9.
    • (2008) Nat Neurosci , vol.11 , pp. 440-449
    • Renaud, J.1    Kerjan, G.2    Sumita, I.3    Zagar, Y.4    Georget, V.5    Kim, D.6
  • 49
    • 4143133358 scopus 로고    scopus 로고
    • Roundabout 2 regulates migration of sensory neurons by signaling in trans
    • Kraut R, Zinn K. Roundabout 2 regulates migration of sensory neurons by signaling in trans. Curr Biol. 2004;14:1319-29.
    • (2004) Curr Biol , vol.14 , pp. 1319-1329
    • Kraut, R.1    Zinn, K.2
  • 50
    • 79959385333 scopus 로고    scopus 로고
    • Sclerotome-derived Slit1 drives directional migration and differentiation of Robo2-expressing pioneer myoblasts
    • Halperin-Barlev O, Kalcheim C. Sclerotome-derived Slit1 drives directional migration and differentiation of Robo2-expressing pioneer myoblasts. Development. 2011;138:2935-45.
    • (2011) Development , vol.138 , pp. 2935-2945
    • Halperin-Barlev, O.1    Kalcheim, C.2
  • 51
    • 67650080520 scopus 로고    scopus 로고
    • Regulation of process retraction and cell migration by EphA3 is mediated by the adaptor protein Nck1
    • Hu T, Shi G, Larose L, Rivera GM, Mayer BJ, Zhou R. Regulation of process retraction and cell migration by EphA3 is mediated by the adaptor protein Nck1. Biochemistry. 2009;48:6369-78.
    • (2009) Biochemistry , vol.48 , pp. 6369-6378
    • Hu, T.1    Shi, G.2    Larose, L.3    Rivera, G.M.4    Mayer, B.J.5    Zhou, R.6
  • 52
    • 84920760127 scopus 로고    scopus 로고
    • Cux1 and Cux2 selectively target basal and apical dendritic compartments of layer II-III cortical neurons
    • Cubelos B, Briz CG, Esteban-Ortega GM, Nieto M. Cux1 and Cux2 selectively target basal and apical dendritic compartments of layer II-III cortical neurons. Dev Neurobiol. 2015;75:163-72.
    • (2015) Dev Neurobiol , vol.75 , pp. 163-172
    • Cubelos, B.1    Briz, C.G.2    Esteban-Ortega, G.M.3    Nieto, M.4
  • 53
    • 4744376267 scopus 로고    scopus 로고
    • Expression of Cux-1 and Cux-2 in the subventricular zone and upper layers II-IV of the cerebral cortex
    • Nieto M, Monuki ES, Tang H, Imitola J, Haubst N, Khoury SJ, et al. Expression of Cux-1 and Cux-2 in the subventricular zone and upper layers II-IV of the cerebral cortex. J Comp Neurol. 2004;479:168-80.
    • (2004) J Comp Neurol , vol.479 , pp. 168-180
    • Nieto, M.1    Monuki, E.S.2    Tang, H.3    Imitola, J.4    Haubst, N.5    Khoury, S.J.6
  • 54
    • 77953251284 scopus 로고    scopus 로고
    • Cux1 and Cux2 regulate dendritic branching, spine morphology, and synapses of the upper layer neurons of the cortex
    • Cubelos B, Sebastian-Serrano A, Beccari L, Calcagnotto ME, Cisneros E, Kim S, et al. Cux1 and Cux2 regulate dendritic branching, spine morphology, and synapses of the upper layer neurons of the cortex. Neuron. 2010;66:523-35.
    • (2010) Neuron , vol.66 , pp. 523-535
    • Cubelos, B.1    Sebastian-Serrano, A.2    Beccari, L.3    Calcagnotto, M.E.4    Cisneros, E.5    Kim, S.6


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