Convergent repression of Foxp2 3′UTR by miR-9 and miR-132 in embryonic mouse neocortex: implications for radial migration of neurons

MicroRNAs (miRNAs) are rapidly emerging as a new layer of regulation of mammalian brain development. However, most of the miRNA target genes remain unidentified. Here, we explore gene expression profiling upon miRNA depletion and in vivo target validation as a strategy to identify novel miRNA targets in embryonic mouse neocortex. By this means, we find that Foxp2, a transcription factor associated with speech and language development and evolution, is a novel miRNA target. In particular, we find that miR-9 and miR-132 are able to repress ectopic expression of Foxp2 protein by targeting its 3′ untranslated region (3′UTR) in vivo. Interestingly, ectopic expression of Foxp2 in cortical projection neurons (a scenario that mimics the absence of miRNA-mediated silencing of Foxp2 expression) delays neurite outgrowth in vitro and impairs their radial migration in embryonic mouse neocortex in vivo. Our results uncover a new layer of control of Foxp2 expression that may be required for proper neuronal maturation.

[1]  Alfred Simkin,et al.  MicroRNA-9 , 2011, RNA Biology.

[2]  Nicholas T. Ingolia,et al.  Mammalian microRNAs predominantly act to decrease target mRNA levels , 2010, Nature.

[3]  Erhard Rahm,et al.  FUNC: a package for detecting significant associations between gene sets and ontological annotations , 2007, BMC Bioinformatics.

[4]  J. Buxbaum,et al.  Altered ultrasonic vocalization in mice with a disruption in the Foxp2 gene. , 2005, Proceedings of the National Academy of Sciences of the United States of America.

[5]  Y. Nakamura,et al.  The forkhead transcription factors, Foxp1 and Foxp2, identify different subpopulations of projection neurons in the mouse cerebral cortex , 2010, Neuroscience.

[6]  J. Lieberman,et al.  Desperately seeking microRNA targets , 2010, Nature Structural &Molecular Biology.

[7]  H. Niwa,et al.  Efficient selection for high-expression transfectants with a novel eukaryotic vector. , 1991, Gene.

[8]  T. Tuschl,et al.  Identification of Tissue-Specific MicroRNAs from Mouse , 2002, Current Biology.

[9]  Fay Wang,et al.  The Steady-State Level of the Nervous-System-Specific MicroRNA-124a Is Regulated by dFMR1 in Drosophila , 2008, The Journal of Neuroscience.

[10]  N. Rajewsky,et al.  Widespread changes in protein synthesis induced by microRNAs , 2008, Nature.

[11]  T. Sun,et al.  Different timings of dicer deletion affect neurogenesis and gliogenesis in the developing mouse central nervous system , 2009, Developmental dynamics : an official publication of the American Association of Anatomists.

[12]  T. Maniatis,et al.  The MicroRNA miR-124 promotes neuronal differentiation by triggering brain-specific alternative pre-mRNA splicing. , 2007, Molecular cell.

[13]  G. Schratt,et al.  MicroRNAs in neuronal development, function and dysfunction , 2010, Brain Research.

[14]  D. Storm,et al.  MicroRNA132 Modulates Short-Term Synaptic Plasticity but Not Basal Release Probability in Hippocampal Neurons , 2010, PloS one.

[15]  D. Bartel,et al.  The impact of microRNAs on protein output , 2008, Nature.

[16]  Weiguo Shu,et al.  Characterization of a New Subfamily of Winged-helix/Forkhead (Fox) Genes That Are Expressed in the Lung and Act as Transcriptional Repressors* , 2001, The Journal of Biological Chemistry.

[17]  Johannes Schwarz,et al.  A Humanized Version of Foxp2 Affects Cortico-Basal Ganglia Circuits in Mice , 2009, Cell.

[18]  A. Monaco,et al.  Molecular evolution of FOXP2, a gene involved in speech and language , 2002, Nature.

[19]  S. Aizawa,et al.  MicroRNA-9 Modulates Cajal–Retzius Cell Differentiation by Suppressing Foxg1 Expression in Mouse Medial Pallium , 2008, The Journal of Neuroscience.

[20]  Federico Calegari,et al.  Live Imaging at the Onset of Cortical Neurogenesis Reveals Differential Appearance of the Neuronal Phenotype in Apical versus Basal Progenitor Progeny , 2008, PloS one.

[21]  Luca Muzio,et al.  Emx2 and Pax6 control regionalization of the pre-neuronogenic cortical primordium. , 2002, Cerebral cortex.

[22]  D. Geschwind,et al.  High-throughput analysis of promoter occupancy reveals direct neural targets of FOXP2, a gene mutated in speech and language disorders. , 2007, American journal of human genetics.

[23]  W. Huttner,et al.  Cortical progenitor expansion, self-renewal and neurogenesis—a polarized perspective , 2011, Current Opinion in Neurobiology.

[24]  C. Englund,et al.  Pax6, Tbr2, and Tbr1 Are Expressed Sequentially by Radial Glia, Intermediate Progenitor Cells, and Postmitotic Neurons in Developing Neocortex , 2005, The Journal of Neuroscience.

[25]  M. Götz,et al.  Radial glial cell heterogeneity—The source of diverse progeny in the CNS , 2007, Progress in Neurobiology.

[26]  Olga Varlamova,et al.  A cAMP-response element binding protein-induced microRNA regulates neuronal morphogenesis. , 2005, Proceedings of the National Academy of Sciences of the United States of America.

[27]  W. Filipowicz,et al.  The widespread regulation of microRNA biogenesis, function and decay , 2010, Nature Reviews Genetics.

[28]  E. Lai Micro RNAs are complementary to 3′ UTR sequence motifs that mediate negative post-transcriptional regulation , 2002, Nature Genetics.

[29]  P. Arlotta,et al.  Neuronal subtype specification in the cerebral cortex , 2007, Nature Reviews Neuroscience.

[30]  Kaoru Takahashi,et al.  Expression of Foxp4 in the developing and adult rat forebrain , 2008, Journal of neuroscience research.

[31]  R. Reep,et al.  Conservation and diversity of Foxp2 expression in muroid rodents: Functional implications , 2009, The Journal of comparative neurology.

[32]  Reuven Agami,et al.  RNA-Binding Protein Dnd1 Inhibits MicroRNA Access to Target mRNA , 2007, Cell.

[33]  Guoqiang Sun,et al.  MicroRNA let-7b regulates neural stem cell proliferation and differentiation by targeting nuclear receptor TLX signaling , 2010, Proceedings of the National Academy of Sciences.

[34]  F. Polleux,et al.  Initiating and growing an axon. , 2010, Cold Spring Harbor perspectives in biology.

[35]  J. Jakobsson,et al.  Functional Studies of microRNAs in Neural Stem Cells: Problems and Perspectives , 2012, Front. Neurosci..

[36]  Steve D. M. Brown,et al.  Impaired Synaptic Plasticity and Motor Learning in Mice with a Point Mutation Implicated in Human Speech Deficits , 2008, Current Biology.

[37]  W. Filipowicz,et al.  Mechanisms of miRNA-mediated post-transcriptional regulation in animal cells. , 2009, Current opinion in cell biology.

[38]  D. Arvanitis,et al.  Ephrin-B1 Reverse Signaling Controls a Posttranscriptional Feedback Mechanism via miR-124 , 2010, Molecular and Cellular Biology.

[39]  Susumu Tonegawa,et al.  Cortex-restricted disruption of NMDAR1 impairs neuronal patterns in the barrel cortex , 2000, Nature.

[40]  P. Sarnow,et al.  Modulation of Hepatitis C Virus RNA Abundance by a Liver-Specific MicroRNA , 2005, Science.

[41]  Christiane Haffner,et al.  miRNAs are essential for survival and differentiation of newborn neurons but not for expansion of neural progenitors during early neurogenesis in the mouse embryonic neocortex , 2008, Development.

[42]  Kay E. Davies,et al.  Foxp2 Regulates Gene Networks Implicated in Neurite Outgrowth in the Developing Brain , 2011, PLoS genetics.

[43]  Christopher A Walsh,et al.  Characterization of Foxp2 and Foxp1 mRNA and protein in the developing and mature brain , 2003, The Journal of comparative neurology.

[44]  G. Banker,et al.  The establishment of polarity by hippocampal neurons in culture , 1988, The Journal of neuroscience : the official journal of the Society for Neuroscience.

[45]  C. Burge,et al.  Most mammalian mRNAs are conserved targets of microRNAs. , 2008, Genome research.

[46]  W. Huttner,et al.  Single-cell detection of microRNAs in developing vertebrate embryos after acute administration of a dual-fluorescence reporter/sensor plasmid. , 2006, BioTechniques.

[47]  A. Monaco,et al.  A forkhead-domain gene is mutated in a severe speech and language disorder , 2001, Nature.

[48]  Kaoru Takahashi,et al.  FOXP genes, neural development, speech and language disorders. , 2009, Advances in experimental medicine and biology.

[49]  Hiroshi Kiyonari,et al.  MicroRNA-9 Regulates Neurogenesis in Mouse Telencephalon by Targeting Multiple Transcription Factors , 2011, The Journal of Neuroscience.

[50]  A. Schier,et al.  Members of the miRNA-200 Family Regulate Olfactory Neurogenesis , 2008, Neuron.

[51]  C. Burge,et al.  Conserved Seed Pairing, Often Flanked by Adenosines, Indicates that Thousands of Human Genes are MicroRNA Targets , 2005, Cell.

[52]  N. Nakatsuji,et al.  Efficient gene transfer into the embryonic mouse brain using in vivo electroporation. , 2001, Developmental biology.

[53]  E Meijering,et al.  Design and validation of a tool for neurite tracing and analysis in fluorescence microscopy images , 2004, Cytometry. Part A : the journal of the International Society for Analytical Cytology.

[54]  S. Candiani,et al.  A study of neural-related microRNAs in the developing amphioxus , 2011, EvoDevo.

[55]  Shanru Li,et al.  Transcriptional and DNA Binding Activity of the Foxp1/2/4 Family Is Modulated by Heterotypic and Homotypic Protein Interactions , 2004, Molecular and Cellular Biology.

[56]  Jean-Bernard Manent,et al.  New and improved tools for in utero electroporation studies of developing cerebral cortex. , 2009, Cerebral cortex.

[57]  M. Gulisano,et al.  Two vertebrate homeobox genes related to the Drosophila empty spiracles gene are expressed in the embryonic cerebral cortex. , 1992, The EMBO journal.

[58]  J G Parnavelas,et al.  Neuronal migration in the developing cerebral cortex: observations based on real-time imaging. , 2003, Cerebral cortex.

[59]  Anjali J. Koppal,et al.  Supplementary data: Comprehensive modeling of microRNA targets predicts functional non-conserved and non-canonical sites , 2010 .

[60]  Constance Scharff,et al.  FOXP2 as a molecular window into speech and language. , 2009, Trends in genetics : TIG.

[61]  David G Hendrickson,et al.  Concordant Regulation of Translation and mRNA Abundance for Hundreds of Targets of a Human microRNA , 2009, PLoS biology.

[62]  A. Monaco,et al.  FOXP2 expression during brain development coincides with adult sites of pathology in a severe speech and language disorder. , 2003, Brain : a journal of neurology.

[63]  Aditi Falnikar,et al.  Kinesin-5, a mitotic microtubule-associated motor protein, modulates neuronal migration , 2011, Molecular biology of the cell.

[64]  Mariko Y Momoi,et al.  Ultrasonic vocalization impairment of Foxp2 (R552H) knockin mice related to speech-language disorder and abnormality of Purkinje cells , 2008, Proceedings of the National Academy of Sciences.

[65]  Oliver H. Tam,et al.  Characterization of Dicer-deficient murine embryonic stem cells. , 2005, Proceedings of the National Academy of Sciences of the United States of America.

[66]  Yamamura Ken-ichi,et al.  Efficient selection for high-expression transfectants with a novel eukaryotic vector , 1991 .

[67]  Gail Mandel,et al.  microRNA-132 regulates dendritic growth and arborization of newborn neurons in the adult hippocampus , 2010, Proceedings of the National Academy of Sciences.

[68]  Jaime Grutzendler,et al.  Two modes of radial migration in early development of the cerebral cortex , 2001, Nature Neuroscience.

[69]  R. Russell,et al.  Principles of MicroRNA–Target Recognition , 2005, PLoS biology.

[70]  Stijn van Dongen,et al.  miRBase: tools for microRNA genomics , 2007, Nucleic Acids Res..

[71]  C. Schuurmans,et al.  Validating in utero electroporation for the rapid analysis of gene regulatory elements in the murine telencephalon , 2007, Developmental dynamics : an official publication of the American Association of Anatomists.

[72]  W. Enard FOXP2 and the role of cortico-basal ganglia circuits in speech and language evolution , 2011, Current Opinion in Neurobiology.

[73]  D. O'Leary,et al.  Graded and Areal Expression Patterns of Regulatory Genes and Cadherins in Embryonic Neocortex Independent of Thalamocortical Input , 1999, The Journal of Neuroscience.

[74]  D. Geschwind,et al.  Identification of the transcriptional targets of FOXP2, a gene linked to speech and language, in developing human brain. , 2007, American journal of human genetics.

[75]  Li-Huei Tsai,et al.  Trekking across the Brain: The Journey of Neuronal Migration , 2007, Cell.

[76]  M. Ashburner,et al.  Gene Ontology: tool for the unification of biology , 2000, Nature Genetics.

[77]  Kaoru Takahashi,et al.  Expression of Foxp2, a gene involved in speech and language, in the developing and adult striatum , 2003, Journal of neuroscience research.

[78]  W. Filipowicz,et al.  Relief of microRNA-Mediated Translational Repression in Human Cells Subjected to Stress , 2006, Cell.

[79]  J. Steitz,et al.  Switching from Repression to Activation: MicroRNAs Can Up-Regulate Translation , 2007, Science.

[80]  S. Impey,et al.  Transgenic miR132 Alters Neuronal Spine Density and Impairs Novel Object Recognition Memory , 2010, PloS one.

[81]  K. Kwan,et al.  Foxp4 is essential in maintenance of purkinje cell dendritic arborization in the mouse cerebellum , 2011, Neuroscience.

[82]  Sridhar Hannenhalli,et al.  The evolution of Fox genes and their role in development and disease , 2009, Nature Reviews Genetics.

[83]  S. Pääbo,et al.  Humanized Foxp2 specifically affects cortico-basal ganglia circuits , 2011, Neuroscience.

[84]  Guoqiang Sun,et al.  A feedback regulatory loop involving microRNA-9 and nuclear receptor TLX in neural stem cell fate determination , 2009, Nature Structural &Molecular Biology.

[85]  Hideaki Ando,et al.  An activity-regulated microRNA controls dendritic plasticity by down-regulating p250GAP , 2008, Proceedings of the National Academy of Sciences.

[86]  H. Bokhoven,et al.  MicroRNA networks direct neuronal development and plasticity , 2011, Cellular and Molecular Life Sciences.

[87]  Arnold R Kriegstein,et al.  Patterns of neuronal migration in the embryonic cortex , 2004, Trends in Neurosciences.

[88]  A. Kriegstein,et al.  Development and Evolution of the Human Neocortex , 2011, Cell.

[89]  T. Sun,et al.  MicroRNA miR-9 Modifies Motor Neuron Columns by a Tuning Regulation of FoxP1 Levels in Developing Spinal Cords , 2011, The Journal of Neuroscience.