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PMID: 28346453 Published · ppublish English Journal Article

Activity-induced histone modifications govern Neurexin-1 mRNA splicing and memory preservation.

Nature neuroscience ·Vol. 20 ·No. 5 ·2017-05-00 ·Pages 690-699

Ding X, Liu S, Tian M, Zhang W, Zhu T, Li D, Wu J, Deng H, Jia Y, Xie W, Xie H, Guan JS

Abstract

Epigenetic mechanisms regulate the formation, consolidation and reconsolidation of memories. However, the signaling path from neuronal activation to epigenetic modifications within the memory-related brain circuit remains unknown. We report that learning induces long-lasting histone modifications in hippocampal memory-activated neurons to regulate memory stability. Neuronal activity triggers a late-onset shift in Nrxn1 splice isoform choice at splicing site 4 by accumulating a repressive histone marker, H3K9me3, to modulate the splicing process. Activity-dependent phosphorylation of p66α via AMP-activated protein kinase recruits HDAC2 and Suv39h1 to establish repressive histone markers and changes the connectivity of the activated neurons. Removal of Suv39h1 abolished the activity-dependent shift in Nrxn1 splice isoform choice and reduced the stability of established memories. We uncover a cell-autonomous process for memory preservation in which memory-related neurons initiate a late-onset reduction of their rewiring capacities through activity-induced histone modifications.

MeSH Terms
Animals Calcium-Binding Proteins Coculture Techniques Conditioning, Psychological/physiology Epigenesis, Genetic Female GATA Transcription Factors Hippocampus/physiology Histone Code/physiology Histone Deacetylase 2/metabolism Histones/metabolism,physiology Learning/physiology Male Memory/physiology Methyltransferases/metabolism Mice Mice, Knockout Neural Cell Adhesion Molecules/genetics,metabolism,physiology Neurons/metabolism Primary Cell Culture Protein Isoforms/metabolism Repressor Proteins/metabolism
Chemicals
Calcium-Binding Proteins GATA Transcription Factors Gatad2a protein, mouse Histones Neural Cell Adhesion Molecules Nrxn1 protein, mouse Protein Isoforms Repressor Proteins Suv39h1 protein, mouse Methyltransferases Hdac2 protein, mouse Histone Deacetylase 2
Authors & Affiliations
12 authors, click to expand affiliations / ORCID
Ding Xinlu
MOE Key Laboratory of Protein Sciences, School of Life Sciences, Tsinghua University, Beijing, China. | IDG/McGovern Institute for Brain Research at Tsinghua University, Beijing, China. | Centre for Brain Inspired Computing Research, Tsinghua University, Beijing, China.
Liu Sanxiong
MOE Key Laboratory of Protein Sciences, School of Life Sciences, Tsinghua University, Beijing, China. | IDG/McGovern Institute for Brain Research at Tsinghua University, Beijing, China. | Centre for Brain Inspired Computing Research, Tsinghua University, Beijing, China.
Tian Miaomiao
MOE Key Laboratory of Protein Sciences, School of Life Sciences, Tsinghua University, Beijing, China. | IDG/McGovern Institute for Brain Research at Tsinghua University, Beijing, China. | Centre for Brain Inspired Computing Research, Tsinghua University, Beijing, China.
Zhang Wenhao
MOE Key Laboratory of Protein Sciences, School of Life Sciences, Tsinghua University, Beijing, China.
Zhu Tao
MOE Key Laboratory of Protein Sciences, School of Life Sciences, Tsinghua University, Beijing, China. | IDG/McGovern Institute for Brain Research at Tsinghua University, Beijing, China. | Centre for Brain Inspired Computing Research, Tsinghua University, Beijing, China.
Li Dongdong
MOE Key Laboratory of Protein Sciences, School of Life Sciences, Tsinghua University, Beijing, China. | IDG/McGovern Institute for Brain Research at Tsinghua University, Beijing, China. | Centre for Brain Inspired Computing Research, Tsinghua University, Beijing, China.
Wu Jiawei
MOE Key Laboratory of Protein Sciences, School of Life Sciences, Tsinghua University, Beijing, China.
Deng HaiTeng
MOE Key Laboratory of Protein Sciences, School of Life Sciences, Tsinghua University, Beijing, China.
Jia Yichang
School of Medicine, Tsinghua University, Beijing, China.
Xie Wei
MOE Key Laboratory of Protein Sciences, School of Life Sciences, Tsinghua University, Beijing, China.
Xie Hong
MOE Key Laboratory of Protein Sciences, School of Life Sciences, Tsinghua University, Beijing, China. | IDG/McGovern Institute for Brain Research at Tsinghua University, Beijing, China. | Centre for Brain Inspired Computing Research, Tsinghua University, Beijing, China. | School of Medicine, Tsinghua University, Beijing, China.
Guan Ji-Song ORCID
MOE Key Laboratory of Protein Sciences, School of Life Sciences, Tsinghua University, Beijing, China. | IDG/McGovern Institute for Brain Research at Tsinghua University, Beijing, China. | Centre for Brain Inspired Computing Research, Tsinghua University, Beijing, China.
References (42)
42 references, click to expand
  1. Histone H2A.Z subunit exchange controls consolidation of recent and remote memory.
    Nature. 2014 Nov 27;515(7528):582-6 PMID: 25219850
  2. Dynamics and memory of heterochromatin in living cells.
    Cell. 2012 Jun 22;149(7):1447-60 PMID: 22704655
  3. Disruption of neurexin 1 associated with autism spectrum disorder.
    Am J Hum Genet. 2008 Jan;82(1):199-207 PMID: 18179900
  4. Neurons in medial prefrontal cortex signal memory for fear extinction.
    Nature. 2002 Nov 7;420(6911):70-4 PMID: 12422216
  5. Synaptic adhesion molecules.
    Curr Opin Cell Biol. 2003 Oct;15(5):621-32 PMID: 14519398
  6. HDAC2 negatively regulates memory formation and synaptic plasticity.
    Nature. 2009 May 7;459(7243):55-60 PMID: 19424149
  7. Chromatin acetylation, memory, and LTP are impaired in CBP+/- mice: a model for the cognitive deficit in Rubinstein-Taybi syndrome and its amelioration.
    Neuron. 2004 Jun 24;42(6):947-59 PMID: 15207239
  8. Dnmt1 and Dnmt3a maintain DNA methylation and regulate synaptic function in adult forebrain neurons.
    Nat Neurosci. 2010 Apr;13(4):423-30 PMID: 20228804
  9. The CAMKK2-AMPK kinase pathway mediates the synaptotoxic effects of Aβ oligomers through Tau phosphorylation.
    Neuron. 2013 Apr 10;78(1):94-108 PMID: 23583109
  10. The role of epigenetic regulation in learning and memory.
    Exp Neurol. 2015 Jun;268:30-6 PMID: 24837316
  11. SAM68 regulates neuronal activity-dependent alternative splicing of neurexin-1.
    Cell. 2011 Dec 23;147(7):1601-14 PMID: 22196734
  12. G9a/GLP histone lysine dimethyltransferase complex activity in the hippocampus and the entorhinal cortex is required for gene activation and silencing during memory consolidation.
    J Neurosci. 2012 Apr 18;32(16):5440-53 PMID: 22514307
  13. Targeted combinatorial alternative splicing generates brain region-specific repertoires of neurexins.
    Neuron. 2014 Oct 22;84(2):386-98 PMID: 25284007
  14. Regulation of histone acetylation during memory formation in the hippocampus.
    J Biol Chem. 2004 Sep 24;279(39):40545-59 PMID: 15273246
  15. Epigenetics in alternative pre-mRNA splicing.
    Cell. 2011 Jan 7;144(1):16-26 PMID: 21215366
  16. Epigenetic priming of memory updating during reconsolidation to attenuate remote fear memories.
    Cell. 2014 Jan 16;156(1-2):261-76 PMID: 24439381
  17. Synaptic plasticity and memory: an evaluation of the hypothesis.
    Annu Rev Neurosci. 2000;23:649-711 PMID: 10845078
  18. Regulation of chromatin structure by site-specific histone H3 methyltransferases.
    Nature. 2000 Aug 10;406(6796):593-9 PMID: 10949293
  19. Pattern separation in the dentate gyrus and CA3 of the hippocampus.
    Science. 2007 Feb 16;315(5814):961-6 PMID: 17303747
  20. An epigenetic blockade of cognitive functions in the neurodegenerating brain.
    Nature. 2012 Feb 29;483(7388):222-6 PMID: 22388814
  21. Cell adhesion molecules: signalling functions at the synapse.
    Nat Rev Neurosci. 2007 Mar;8(3):206-20 PMID: 17299456
  22. Channelrhodopsin-2 and optical control of excitable cells.
    Nat Methods. 2006 Oct;3(10):785-92 PMID: 16990810
  23. Cartography of neurexins: more than 1000 isoforms generated by alternative splicing and expressed in distinct subsets of neurons.
    Neuron. 1995 Mar;14(3):497-507 PMID: 7695896
  24. Localization of a stable neural correlate of associative memory.
    Science. 2007 Aug 31;317(5842):1230-3 PMID: 17761885
  25. Generation of a synthetic memory trace.
    Science. 2012 Mar 23;335(6075):1513-6 PMID: 22442487
  26. In vivo imaging of immediate early gene expression reveals layer-specific memory traces in the mammalian brain.
    Proc Natl Acad Sci U S A. 2014 Feb 18;111(7):2788-93 PMID: 24550309
  27. Alternative splicing controls selective trans-synaptic interactions of the neuroligin-neurexin complex.
    Neuron. 2006 Jul 20;51(2):171-8 PMID: 16846852
  28. Memory. Engram cells retain memory under retrograde amnesia.
    Science. 2015 May 29;348(6238):1007-13 PMID: 26023136
  29. Altered histone acetylation is associated with age-dependent memory impairment in mice.
    Science. 2010 May 7;328(5979):753-6 PMID: 20448184
  30. Pattern separation in the hippocampus.
    Trends Neurosci. 2011 Oct;34(10):515-25 PMID: 21788086
  31. p66alpha and p66beta of the Mi-2/NuRD complex mediate MBD2 and histone interaction.
    Nucleic Acids Res. 2006 Jan 13;34(2):397-406 PMID: 16415179
  32. Neuroligins and neurexins link synaptic function to cognitive disease.
    Nature. 2008 Oct 16;455(7215):903-11 PMID: 18923512
  33. Single-molecule imaging of transcriptionally coupled and uncoupled splicing.
    Cell. 2011 Nov 23;147(5):1054-65 PMID: 22118462
  34. Presynaptic neurexin-3 alternative splicing trans-synaptically controls postsynaptic AMPA receptor trafficking.
    Cell. 2013 Jul 3;154(1):75-88 PMID: 23827676
  35. Full-length RNA-seq from single cells using Smart-seq2.
    Nat Protoc. 2014 Jan;9(1):171-81 PMID: 24385147
  36. Optogenetic stimulation of a hippocampal engram activates fear memory recall.
    Nature. 2012 Mar 22;484(7394):381-5 PMID: 22441246
  37. Memory engram storage and retrieval.
    Curr Opin Neurobiol. 2015 Dec;35:101-9 PMID: 26280931
  38. Epigenetic regulation of gene expression: how the genome integrates intrinsic and environmental signals.
    Nat Genet. 2003 Mar;33 Suppl:245-54 PMID: 12610534
  39. A million dollar question: does LTP = memory?
    Neuron. 1998 Jan;20(1):1-2 PMID: 9459434
  40. Characterization of the CaMKKβ-AMPK signaling complex.
    Cell Signal. 2011 Dec;23(12):2005-12 PMID: 21807092
  41. NURD, a novel complex with both ATP-dependent chromatin-remodeling and histone deacetylase activities.
    Mol Cell. 1998 Dec;2(6):851-61 PMID: 9885572
  42. The molecular and systems biology of memory.
    Cell. 2014 Mar 27;157(1):163-86 PMID: 24679534
Article Info
Journal
Nature neuroscience
Abbr.
Nat Neurosci
ISSN
1546-1726
Published
2017-05-00
Epub
2017-00-27
Pages
690-699
Language
English
Region
United States
NLM ID
9809671
Subset
IM
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