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MicroRNA-dependent genetic networks during neural development
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  • 作者:Daniel G. Abernathy (1) (2)
    Andrew S. Yoo (1)

    1. Department of Developmental Biology
    ; Washington University School of Medicine ; St. Louis ; MO ; 63110 ; USA
    2. Program of Developmental
    ; Regenerative ; and Stem Cell Biology ; Washington University School of Medicine ; St. Louis ; MO ; 63110 ; USA
  • 关键词:MicroRNAs ; Neural development ; Brain ; Genetic networks ; Direct reprogramming ; Epigenetics
  • 刊名:Cell and Tissue Research
  • 出版年:2015
  • 出版时间:January 2015
  • 年:2015
  • 卷:359
  • 期:1
  • 页码:179-185
  • 全文大小:1,882 KB
  • 参考文献:1. Andr茅s ME, Burger C, Peral-Rubio MJ, Battaglioli E, Anderson ME, Grimes J, Dallman J, Ballas N, Mandel G (1999) CoREST: a functional corepressor required for regulation of neuralspecific gene expression. Proc Natl Acad Sci U S A 96:9873鈥?878 CrossRef
    2. Asli NS, Kessel M (2010) Spatiotemporally restricted regulation of generic motor neuron programs by miR-196-mediated repression of Hoxb8. Dev Biol 344:857鈥?68 CrossRef
    3. Ballas N, Grunseich C, Lu DD, Speh JC, Mandel G (2005) REST and its corepressors mediate plasticity of neuronal gene chromatin throughout neurogenesis. Cell 121:645鈥?57 CrossRef
    4. Bartel DP (2009) MicroRNAs: target recognition and regulatory functions. Cell 136:215鈥?33 CrossRef
    5. Bazzini AA, Lee MT, Giraldez AJ (2012) Ribosome profiling shows that miR-430 reduces translation before causing mRNA decay in zebrafish. Sci Signal 336:233鈥?37
    6. Bentwich I, Avniel A, Karov Y, Aharonov R, Gilad S, Barad O, Barzilai A, Einat P, Einav U, Meiri E et al (2005) Identification of hundreds of conserved and nonconserved human microRNAs. Nat Genet 37:766鈥?70 CrossRef
    7. Bernstein E, Kim SY, Carmell MA, Murchison EP, Alcorn H, Li MZ, Mills AA, Elledge SJ, Anderson KV, Hannon GJ (2003) Dicer is essential for mouse development. Nat Genet 35:215鈥?17 CrossRef
    8. Bonev B, Pisco A, Papalopulu N (2011) MicroRNA-9 reveals regional diversity of neural progenitorsalong the anterior-posterior axis. Dev Cell 20:19鈥?2 CrossRef
    9. Boudreau RL, Jiang P, Gilmore BL, Spengler RM, Tirabassi R, Nelson JA, Ross CA, Xing Y, Davidson BL (2014) Transcriptome-wide discovery of microRNA binding sites in human brain. Neuron 81:294鈥?05 CrossRef
    10. Boutz PL, Stoilov P, Li Q, Lin CH, Chawla G, Ostrow K, Shiue L, Ares M, Black DL (2007) A post-transcriptional regulatory switch in polypyrimidine tract-binding proteins reprograms alternative splicing in developing neurons. Genes Dev 21:1636鈥?652 CrossRef
    11. Buckley BA, Burkhart KB, Gu SG, Spracklin G, Kershner A, Fritz H, Kimble J, Fire A, Kennedy S (2012) A nuclear Argonaute promotes multigenerational epigenetic inheritance and germline immortality. Nature 489:447鈥?51 CrossRef
    12. Cao X, Yeo G, Muotri AR, Kuwabara T (2006) Noncoding RNAs in the mammalian central nervous system. Annu Rev Neurosci 29:77鈥?03 CrossRef
    13. Chen J-A, Huang Y-P, Mazzoni EO, Tan GC, Zavadil J, Wichterle H (2011) Mir-17-3p controls spinal neural progenitor patterning by regulating Olig2/Irx3 cross-repressive loop. Neuron 69:721鈥?35 CrossRef
    14. Chi SW, Zang JB, Mele A, Darnell RB (2009) Argonaute HITS-CLIP decodes microRNA鈥搈RNA interaction maps. Nature 460:479鈥?86
    15. Chi SW, Hannon GJ, Darnell RB (2012) An alternative mode of microRNA target recognition. Nat Struct Mol Biol 19:321鈥?27 CrossRef
    16. Chong JA, Tapia-Ramirez J, Kim S, Toledo-Aral JJ, Zheng Y, Boutros MC, Altshuller YM, Frohman MA, Kraner SD, Mandel G (1995) REST: a mammalian silencer protein that restricts sodium channel gene expression to neurons. Cell 80:949鈥?57 CrossRef
    17. Cochella L, Hobert O (2012) Diverse functions of microRNAs in nervous system development. Curr Top Dev Biol 99:115-143 CrossRef
    18. Conaco C, Otto S, Han JJ, Mandel G (2006) Reciprocal actions of REST and a microRNA promote neuronal identity. Proc Natl Acad Sci U S A 103:2422鈥?427 CrossRef
    19. Coolen M, Katz S, Bally-Cuif L (2013) miR-9: a versatile regulator of neurogenesis. Front Cell Neurosci 7:220 CrossRef
    20. De Pietri Tonelli D, Pulvers JN, Haffner C, Murchison EP, Hannon GJ, Huttner WB (2008) 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. Development 135:3911鈥?921 CrossRef
    21. Djuranovic S, Nahvi A, Green R (2012) miRNA-mediated gene silencing by translational repression followed by mRNA deadenylation and decay. Sci Signal 336:237鈥?40
    22. Ebert MS, Sharp PA (2012) Roles for microRNAs in conferring robustness to biological processes. Cell 149:515鈥?24 CrossRef
    23. G枚tz M, Huttner WB (2005) The cell biology of neurogenesis. Nat Rev Mol Cell Biol 6:777鈥?88 CrossRef
    24. Hafner M, Landthaler M, Burger L, Khorshid M, Hausser J, Berninger P, Rothballer A, Ascano M, Jungkamp A-C, Munschauer M et al (2010) Transcriptome-wide identification of RNA-binding protein and microRNA target sites by PAR-CLIP. Cell 141:129鈥?41 CrossRef
    25. He M, Liu Y, Wang X, Zhang MQ, Hannon GJ, Huang ZJ (2012) Cell-type-based analysis of microRNA profiles in the mouse brain. Neuron 73:35鈥?8 CrossRef
    26. Helwak A, Kudla G, Dudnakova T, Tollervey D (2013) Mapping the human miRNA interactome by CLASH reveals frequent noncanonical binding. Cell 153:654鈥?65 CrossRef
    27. Hobert O, Carrera I, Stefanakis N (2010) The molecular and gene regulatory signature of a neuron. Trends Neurosci 33:435鈥?45 CrossRef
    28. Hu HY, Guo S, Xi J, Yan Z, Fu N, Zhang X, Menzel C, Liang H, Yang H, Zhao M et al (2011) MicroRNA expression and regulation in human, chimpanzee, and macaque brains. PLoS Genet 7:e1002327 CrossRef
    29. Jeffries CD, Fried HM, Perkins DO (2011) Nuclear and cytoplasmic localization of neural stem cell microRNAs. RNA 17:675鈥?86 CrossRef
    30. Jessell TM (2000) Neuronal specification in the spinal cord: inductive signals and transcriptional codes. Nat Rev Genet 1:20鈥?9 CrossRef
    31. Kapsimali M, Kloosterman WP, de Bruijn E, Rosa F, Plasterk RH, Wilson SW (2007) MicroRNAs show a wide diversity of expression profiles in the developing and mature central nervous system. Genome Biol 8:R173 CrossRef
    32. Kawase-Koga Y, Otaegi G, Sun T (2009) Different timings of Dicer deletion affect neurogenesis and gliogenesis in the developing mouse central nervous system. Dev Dyn 238:2800鈥?812 CrossRef
    33. Khudayberdiev SA, Zampa F, Rajman M, Schratt G (2013) A comprehensive characterization of the nuclear microRNA repertoire of post-mitotic neurons. Front Mol Neurosci 6:1鈥?9 CrossRef
    34. Krol J, Loedige I, Filipowicz W (2010) The widespread regulation of microRNA biogenesis, function and decay. Nat Rev Genet 11:597鈥?10
    35. Lagos-Quintana M, Rauhut R, Yalcin A, Meyer J, Lendeckel W, Tuschl T (2002) Identification of tissue-specific microRNAs from mouse. Curr Biol 12:735鈥?39 CrossRef
    36. Lee Y, Jeon K, Lee JT, Kim S, Kim VN (2002) MicroRNA maturation: stepwise processing and subcellular localization. EMBO J 21:4663鈥?670 CrossRef
    37. Lee I, Ajay SS, Yook JI, Kim HS, Hong SH, Kim NH, Dhanasekaran SM, Chinnaiyan AM, Athey BD (2009) New class of microRNA targets containing simultaneous 5鈥?UTR and 3-鈥睻TR interaction sites. Genome Res 19:1175鈥?183 CrossRef
    38. Lessard J, Wu JI, Ranish JA, Wan M, Winslow MM, Staahl BT, Wu H, Aebersold R, Graef IA, Crabtree GR (2007) An essential switch in subunit composition of a chromatin remodeling complex during neural development. Neuron 55:201鈥?15 CrossRef
    39. Li Q, Lee J-A, Black DL (2007) Neuronal regulation of alternative pre-mRNA splicing. Nat Rev Neurosci 8:819鈥?31 CrossRef
    40. Liu C-G, Calin GA, Meloon B, Gamliel N, Sevignani C, Ferracin M, Dumitru CD, Shimizu M, Zupo S, Dono M et al (2004) An oligonucleotide microchip for genome-wide microRNA profiling in human and mouse tissues. Proc Natl Acad Sci U S A 101:9740鈥?744 CrossRef
    41. Lukiw WJ (2012) Evolution and complexity of micro RNA in the human brain. Front Genet 3:166 CrossRef
    42. Lunyak VV (2002) Corepressor-dependent silencing of chromosomal regions encoding neuronal genes. Science 298:1747鈥?752 CrossRef
    43. Lytle JR, Yario TA, Steitz JA (2007) Target mRNAs are repressed as efficiently by microRNA-binding sites in the 5鈥睻TR as in the 3鈥睻TR. Proc Natl Acad Sci U S A 104:9667鈥?672 CrossRef
    44. Makeyev EV, Zhang J, Carrasco MA, Maniatis T (2007) The microRNA miR-124 promotes neuronal differentiation by triggering brain-specific alternative pre-mRNA splicing. Mol Cell 27:435鈥?48 CrossRef
    45. Morris SA, Daley GQ (2013) A blueprint for engineering cell fate: current technologies to reprogram cell identity. Cell Res 23:33鈥?8 CrossRef
    46. 脴rom UA, Nielsen FC, Lund AH (2008) MicroRNA-10a binds the 5鈥睻TR of ribosomal protein mrnas and enhances their translation. Mol Cell 30:460鈥?71 CrossRef
    47. Packer AN, Xing Y, Harper SQ, Jones L, Davidson BL (2008) The bifunctional microRNA miR-9/miR-9* regulates REST and CoREST and is downregulated in Huntington鈥檚 disease. J Neurosci 28:14341鈥?4346 CrossRef
    48. Pasquinelli AE (2012) Non-coding RNA: microRNAs and their targets: recognition, regulation and an emerging reciprocal relationship. Nat Rev Genet 13:271鈥?82
    49. Pauli A, Rinn JL, Schier AF (2011) Non-coding RNAs as regulators of embryogenesis. Nat Rev Genet 12:136鈥?49 CrossRef
    50. Peng Y, Laser J, Shi G, Mittal K, Melamed J, Lee P, Wei J-J (2008) Antiproliferative effects by Let-7 repression of high-mobility group A2 in uterine leiomyoma. Mol Cancer Res 6:663鈥?73 CrossRef
    51. Peter ME (2010) Targeting of mRNAs by multiple miRNAs: the next step. Oncogene 29:2161鈥?164 CrossRef
    52. Qu Q, Sun G, Li W, Yang S, Ye P, Zhao C, Yu RT, Gage FH, Evans RM, Shi Y (2010) Orphan nuclear receptor TLX activates Wnt/beta-catenin signalling to stimulate neural stem cell proliferation and self-renewal. Nat Cell Biol 12:31鈥?0 CrossRef
    53. Ronan JL, Wu W, Crabtree GR (2013) From neural development to cognition: unexpected roles for chromatin. Nat Rev Genet 14:347鈥?59 CrossRef
    54. Roopra A, Sharling L, Wood IC, Briggs T, Bachfischer U, Paquette AJ, Buckley NJ (2000) Transcriptional repression by neuron-restrictive silencer factor is mediated via the Sin3-Histone deacetylase complex. Mol Cell Biol 20:2147鈥?157 CrossRef
    55. Rybak A, Fuchs H, Smirnova L, Brandt C, Pohl EE, Nitsch R, Wulczyn FG (2008) A feedback loop comprising lin-28 and let-7 controls pre-let-7 maturation during neural stem-cell commitment. Nat Cell Biol 10:987鈥?93 CrossRef
    56. Schoenherr CJ, Anderson DJ (1995) The neuron-restrictive silencer factor (NRSF): a coordinate repressor of multiple neuron-specific genes. Science 267:1360鈥?363 CrossRef
    57. Schwamborn JC, Berezikov E, Knoblich JA (2009) The TRIM-NHL protein TRIM32 activates microRNAs and prevents self-renewal in mouse neural progenitors. Cell 136:913鈥?25 CrossRef
    58. Sempere LF, Freemantle S, Pitha-Rowe I, Moss E, Dmitrovsky E, Ambros V (2004) Expression profiling of mammalian microRNAs uncovers a subset of brain-expressed microRNAs with possible roles in murine and human neuronal differentiation. Genome Biol 5:R13 CrossRef
    59. Shibata M, Nakao H, Kiyonari H, Abe T, Aizawa S (2011) MicroRNA-9 regulates neurogenesis in mouse telencephalon by targeting multiple transcription factors. J Neurosci 31:3407鈥?422 CrossRef
    60. Staahl BT, Tang J, Wu W, Sun A, Gitler AD, Yoo AS, Crabtree GR (2013) Kinetic analysis of npBAF to nBAF switching reveals exchange of SS18 with CREST and integration with neural developmental pathways. J Neurosci 33:10348鈥?0361 CrossRef
    61. Stern CD (2005) Neural induction: old problem, new findings, yet more questions. Development 132:2007鈥?021 CrossRef
    62. Sun G, Ruth TY, Evans RM, Shi Y (2007) Orphan nuclear receptor TLX recruits histone deacetylases to repress transcription and regulate neural stem cell proliferation. Proc Natl Acad Sci U S A 104:15282鈥?5287 CrossRef
    63. Sun G, Ye P, Murai K, Lang M-F, Li S, Zhang H, Li W, Fu C, Yin J, Wang A et al (2011) miR-137 forms a regulatory loop with nuclear receptor TLX and LSD1 in neural stem cells. Nat Commun 2:529 CrossRef
    64. Sun AX, Crabtree GR, Yoo AS (2013) MicroRNAs: regulators of neuronal fate. Curr Opin Cell Biol 25:215-221 CrossRef
    65. Ule J, Jensen K, Mele A, Darnell RB (2005) CLIP: a method for identifying protein-RNA interaction sites in living cells. Methods 37:376鈥?86 CrossRef
    66. Visvanathan J, Lee S, Lee B, Lee JW, Lee SK (2007) The microRNA miR-124 antagonizes the anti-neural REST/SCP1 pathway during embryonic CNS development. Genes Dev 21:744鈥?49 CrossRef
    67. Volvert M-L, Rogister F, Moonen G, Malgrange B, Nguyen L (2012) MicroRNAs tune cerebral cortical neurogenesis. Cell Death Differ 19:1573鈥?581 CrossRef
    68. Wu JI, Lessard J, Olave IA, Qiu Z, Ghosh A, Graef IA, Crabtree GR (2007) Regulation of dendritic development by neuron-specific chromatin remodeling complexes. Neuron 56:94鈥?08 CrossRef
    69. Wu S, Huang S, Ding J, Zhao Y, Liang L, Liu T, Zhan R, He X (2010) Multiple microRNAs modulate p21Cip1/Waf1 expression by directly targeting its 3鈥?untranslated region. Oncogene 29:2302鈥?308 CrossRef
    70. Xue Y, Ouyang K, Huang J, Zhou Y, Ouyang H, Li H, Wang G, Wu Q, Wei C, Bi Y et al (2013) Direct conversion of fibroblasts to neurons by reprogramming PTB-regulated microRNA circuits. Cell 152:82鈥?6 CrossRef
    71. Yeo M (2005) Small CTD phosphatases function in silencing neuronal gene expression. Science 307:596鈥?00 CrossRef
    72. Yoo AS, Staahl BT, Chen L, Crabtree GR (2009) MicroRNA-mediated switching of chromatin-remodelling complexes in neural development. Nature 460:642鈥?46
    73. Yoo AS, Sun AX, Li L, Shcheglovitov A, Portmann T, Li Y, Lee-Messer C, Dolmetsch RE, Tsien RW, Crabtree GR (2011) MicroRNA-mediated conversion of human fibroblasts to neurons. Nature 476:228鈥?31 CrossRef
    74. Zhao C, Sun G, Li S, Shi Y (2009) A feedback regulatory loop involving microRNA-9 and nuclear receptor TLX in neural stem cell fate determination. Nat Struct Mol Biol 16:365鈥?71 CrossRef
    75. Zhao C, Sun G, Li S, Lang M-F, Yang S, Li W, Shi Y (2010) MicroRNA let-7b regulates neural stem cell proliferation and differentiation by targeting nuclear receptor TLX signaling. Proc Natl Acad Sci U S A 107:1876鈥?881 CrossRef
  • 刊物类别:Biomedical and Life Sciences
  • 刊物主题:Biomedicine
    Human Genetics
    Proteomics
    Molecular Medicine
  • 出版者:Springer Berlin / Heidelberg
  • ISSN:1432-0878
文摘
The development of the structurally and functionally diverse mammalian nervous system requires the integration of numerous levels of gene regulation. Accumulating evidence suggests that microRNAs are key mediators of genetic networks during neural development. Importantly, microRNAs are found to regulate both feedback and feedforward loops during neural development leading to large changes in gene expression. These repressive interactions provide an additional mechanism that facilitates the establishment of complexity within the nervous system. Here, we review studies that have enabled the identification of microRNAs enriched in the brain and discuss the way that genetic networks in neural development depend on microRNAs.

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