Cited by 110Genetics and Neurodevelopmental DisordersFOXO transcription factor regulationGenetic Neurodegenerative Diseases

Histone deacetylase 3 associates with MeCP2 to regulate FOXO and social behavior

Open access
Nott, Alexi, Cheng, Jemmie, Gao, Fan, Lin, Yuan-Ta, Gjoneska, Elizabeta, Ko, Tak, Minhas, Paras, Zamudio, Alicia Viridiana +4 more·2016·Nature Neuroscience

Abstract

Mutations in MECP2 cause the neurodevelopmental disorder Rett syndrome (RTT). The RTT missense MECP2 R306C mutation prevents MeCP2 from interacting with the NCoR/histone deacetylase 3 (HDAC3) complex; however, the neuronal function of HDAC3 is incompletely understood. We found that neuronal deletion of Hdac3 in mice elicited abnormal locomotor coordination, sociability and cognition. Transcriptional and chromatin profiling revealed that HDAC3 positively regulated a subset of genes and was recruited to active gene promoters via MeCP2. HDAC3-associated promoters were enriched for the FOXO transcription factors, and FOXO acetylation was elevated in Hdac3 knockout (KO) and Mecp2 KO neurons. Human RTT-patient-derived MECP2 R306C neural progenitor cells had deficits in HDAC3 and FOXO recruitment and gene expression. Gene editing of MECP2 R306C cells to generate isogenic controls rescued HDAC3-FOXO-mediated impairments in gene expression. Our data suggest that HDAC3 interaction with MeCP2 positively regulates a subset of neuronal genes through FOXO deacetylation, and disruption of HDAC3 contributes to cognitive and social impairment.

The claims and statistics of this paper haven’t been checked yet.

Run the check — free, no account needed. It reads the open-access text and checks the sources it cites.

A few free checks a day · papers already verified open instantly · results are public

Integrity signals

Registry

Crossref · 10.1038/nn.4347

Cites

8 of 8 references verified0 citation errors · 0 not checkable

Statistics

Claims the paper makes

The claims and statistics of this paper haven’t been checked yet.

Run the check — free, no account needed. It reads the open-access text and checks the sources it cites.

A few free checks a day · papers already verified open instantly · results are public

Claims other papers make about this one

Each is checked against this paper’s own text: does it say what the citing paper says it does?

  • Neuron-specific deletion of Hdac3 produces viable mice that gradually develop a phenotype very similar to that of Mecp2 null mice including abnormal motor coordination, reduced sociability and cognitive defects.

    “While both Ncor1 and Hdac3 null mice die as embryos, a neuron-specific deletion of Hdac3 produces viable mice that gradually develop a phenotype very similar to that of Mecp2 null mice including abnormal motor coordination, reduced sociability and cognitive defects [189].”

    From Rett syndrome: a neurological disorder with metabolic components (2018) · cites this paper as [189]

    The Results sections on locomotor behavior and social and cognitive deficits report viable forebrain-neuron Hdac3 conditional knockout mice with impaired motor coordination, aberrant sociability, and memory deficits. The Discussion says these behaviors resemble those in Mecp2 loss-of-function models. The paper does not establish that the deficits developed gradually, and its comparison is to Mecp2 loss-of-function models, particularly forebrain-specific knockouts, rather than specifically to Mecp2 null mice. (LLM, conf=0.87)

    Experimental — accuracy not yet measured

Self-check

Percentages, sums and reported differences re-computed from the paper’s own numbers.

The self-check needs the paper’s full text.

Cites

Flagged first, then by citations

Research works printed but not linked: 48

  1. [1]Pohodich AE Zoghbi HY Rett syndrome: disruption of epigenetic control of postnatal neurological functions Hum Mol Genet 2015 24 R10 6 26060191 PMC4571996
  2. [2]Jones PL Methylated DNA and MeCP2 recruit histone deacetylase to repress transcription Nat Genet 1998 19 187 191 9620779
  3. [3]Nan X Transcriptional repression by the methyl-CpG-binding protein MeCP2 involves a histone deacetylase complex Nature 1998 393 386 389 9620804
  4. [4]Mellén M Ayata P Dewell S Kriaucionis S Heintz N MeCP2 binds to 5hmC enriched within active genes and accessible chromatin in the nervous system Cell 2012 151 1417 1430 23260135 PMC3653293
  5. [6]Ben-Shachar S Chahrour M Thaller C Shaw CA Zoghbi HY Mouse models of MeCP2 disorders share gene expression changes in the cerebellum and hypothalamus Hum Mol Genet 2009 18 2431 2442 19369296 PMC2694691
  6. [7]Li Y Global transcriptional and translational repression in human-embryonic-stem-cell-derived Rett syndrome neurons Cell Stem Cell 2013 13 446 458 24094325 PMC4053296
  7. [8]Yasui DH Integrated epigenomic analyses of neuronal MeCP2 reveal a role for long-range interaction with active genes Proc Natl Acad Sci USA 2007 104 19416 19421 18042715 PMC2148304
  8. [10]Cheng J A role for H3K4 monomethylation in gene repression and partitioning of chromatin readers Mol Cell 2014 53 979 992 24656132 PMC4031464
  9. [11]Lopez-Atalaya JP Ito S Valor LM Benito E Barco A Genomic targets, and histone acetylation and gene expression profiling of neural HDAC inhibition Nucleic Acids Research 2013 41 8072 8084 23821663 PMC3783173
  10. [12]Zupkovitz G Negative and positive regulation of gene expression by mouse histone deacetylase 1 Mol Cell Biol 2006 26 7913 7928 16940178 PMC1636735
  11. [13]Lyst MJ Rett syndrome mutations abolish the interaction of MeCP2 with the NCoR/SMRT co-repressor Nat Neurosci 2013 16 898 902 23770565 PMC3786392
  12. [15]Norwood J Franklin JM Sharma D D’Mello SR Histone deacetylase-3 is necessary for proper brain development J Biol Chem 2014 doi:10.1074/jbc.M114.576397 PMC4263864 25339172 · DOI
  13. [16]Montgomery RL Maintenance of cardiac energy metabolism by histone deacetylase 3 in mice J Clin Invest 2008 118 3588 3597 18830415 PMC2556240
  14. [17]Zeng H Forebrain-specific calcineurin knockout selectively impairs bidirectional synaptic plasticity and working/episodic-like memory Cell 2001 107 617 629 11733061
  15. [18]Gemelli T Postnatal loss of methyl-CpG binding protein 2 in the forebrain is sufficient to mediate behavioral aspects of Rett syndrome in mice Biol Psychiatry 2006 59 468 476 16199017
  16. [19]Su S-H Kao F-C Huang Y-B Liao W MeCP2 in the rostral striatum maintains local dopamine content critical for psychomotor control J Neurosci 2015 35 6209 6220 25878291 PMC6605173
  17. [20]Guy J Hendrich B Holmes M Martin JE Bird A A mouse Mecp2-null mutation causes neurological symptoms that mimic Rett syndrome Nat Genet 2001 27 322 326 11242117
  18. [21]Moretti P Bouwknecht JA Teague R Paylor R Zoghbi HY Abnormalities of social interactions and home-cage behavior in a mouse model of Rett syndrome Hum Mol Genet 2005 14 205 220 15548546
  19. [22]Yasui DH Mice with an isoform-ablating Mecp2 exon 1 mutation recapitulate the neurologic deficits of Rett syndrome Hum Mol Genet 2014 23 2447 2458 24352790 PMC3976336
  20. [23]Pelka GJ Mecp2 deficiency is associated with learning and cognitive deficits and altered gene activity in the hippocampal region of mice Brain 2006 129 887 898 16467389
  21. [24]Moretti P Learning and memory and synaptic plasticity are impaired in a mouse model of Rett syndrome J Neurosci 2006 26 319 327 16399702 PMC6674314
  22. [25]Miyakawa T Yamada M Duttaroy A Wess J Hyperactivity and intact hippocampus-dependent learning in mice lacking the M1 muscarinic acetylcholine receptor J Neurosci 2001 21 5239 5250 11438599 PMC6762828
  23. [26]Frankland PW O’Brien C Ohno M Kirkwood A Silva AJ Alpha-CaMKII-dependent plasticity in the cortex is required for permanent memory Nature 2001 411 309 313 11357133
  24. [27]Baker SA An AT-hook domain in MeCP2 determines the clinical course of Rett syndrome and related disorders Cell 2013 152 984 996 23452848 PMC3641682
  25. [28]Kumar V Uniform, optimal signal processing of mapped deep-sequencing data Nat Biotechnol 2013 31 615 622 23770639
  26. [29]Ernst J Kellis M Discovery and characterization of chromatin states for systematic annotation of the human genome Nat Biotechnol 2010 28 817 825 20657582 PMC2919626
  27. [30]Gjoneska E Conserved epigenomic signals in mice and humans reveal immune basis of Alzheimer’s disease Nature 2015 518 365 369 25693568 PMC4530583
  28. [32]Bhaskara S Deletion of histone deacetylase 3 reveals critical roles in S phase progression and DNA damage control Mol Cell 2008 30 61 72 18406327 PMC2373760
  29. [33]Bhaskara S Hdac3 is essential for the maintenance of chromatin structure and genome stability Cancer Cell 2010 18 436 447 21075309 PMC3004468
  30. [34]Mihaylova MM Class IIa histone deacetylases are hormone-activated regulators of FOXO and mammalian glucose homeostasis Cell 2011 145 607 621 21565617 PMC3117637
  31. [35]Daitoku H Silent information regulator 2 potentiates Foxo1-mediated transcription through its deacetylase activity Proc Natl Acad Sci USA 2004 101 10042 10047 15220471 PMC454161
  32. [36]Hatta M Liu F Cirillo LA Biochemical and Biophysical Research Communications Biochem Biophys Res Commun 2009 379 1005 1008 19146829
  33. [37]Matsuzaki H Acetylation of Foxo1 alters its DNA-binding ability and sensitivity to phosphorylation Proc Natl Acad Sci USA 2005 102 11278 11283 16076959 PMC1183558
  34. [40]McQuown SC HDAC3 is a critical negative regulator of long-term memory formation J Neurosci 2011 31 764 774 21228185 PMC3160172
  35. [42]Kinde B Gabel HW Gilbert CS Griffith EC Greenberg ME Reading the unique DNA methylation landscape of the brain: Non-CpG methylation, hydroxymethylation, and MeCP2 Proc Natl Acad Sci USA 2015 112 6800 6806 25739960 PMC4460470
  36. [43]Choudhary C Lysine acetylation targets protein complexes and co-regulates major cellular functions Science 2009 325 834 840 19608861
  37. [44]Krumm N O’Roak BJ Shendure J Eichler EE A de novo convergence of autism genetics and molecular neuroscience Trends in Neurosciences 2014 37 95 105 24387789 PMC4077788
  38. [46]O’Roak BJ Multiplex targeted sequencing identifies recurrently mutated genes in autism spectrum disorders Science 2012 338 1619 1622 23160955 PMC3528801
  39. [47]Chung R-H An X chromosome-wide association study in autism families identifies TBL1X as a novel autism spectrum disorder candidate gene in males Mol Autism 2011 2 18 22050706 PMC3305893
  40. [48]Pons L A new syndrome of intellectual disability with dysmorphism due to TBL1XR1 deletion Am. J. Med. Genet. A 2015 167A 164 168 25425123
  41. [49]Saitsu H A girl with West syndrome and autistic features harboring a de novo TBL1XR1 mutation J. Hum. Genet 2014 59 581 583 25102098
  42. [50]Shi Y Kirwan P Livesey FJ Directed differentiation of human pluripotent stem cells to cerebral cortex neurons and neural networks Nat Protoc 2012 7 1836 1846 22976355
  43. [51]Anagnostaras SG Josselyn SA Frankland PW Silva AJ Computer-assisted behavioral assessment of Pavlovian fear conditioning in mice Learn Mem 2000 7 58 72 10706603 PMC311321
  44. [52]Livak KJ Schmittgen TD Analysis of relative gene expression data using real-time quantitative PCR and the 2(-Delta Delta C(T)) Method Methods 2001 25 402 408 11846609
  45. [53]Feng D A circadian rhythm orchestrated by histone deacetylase 3 controls hepatic lipid metabolism Science 2011 331 1315 1319 21393543 PMC3389392
  46. [54]Eijkelenboom A Genome-wide analysis of FOXO3 mediated transcription regulation through RNA polymerase II profiling Molecular Systems Biology 2013 9 1 15 PMC3564262 23340844
  47. [55]Karmodiya K Krebs AR Oulad-Abdelghani M Kimura H Tora L H3K9 and H3K14 acetylation co-occur at many gene regulatory elements, while H3K14ac marks a subset of inactive inducible promoters in mouse embryonic stem cells BMC Genomics 2012 13 424 22920947 PMC3473242
  48. [56]Ernst J Kellis M ChromHMM: automating chromatin-state discovery and characterization Nat. Methods 2012 9 215 216 22373907 PMC3577932

Cited by

Sorted by citations

Authors
Nott, A., Cheng, J., Gao, F., Lin, Y.-T., Gjoneska, E., Ko, T., Minhas, P., Zamudio, A. V., Meng, J., Zhang, F., Jin, P., & Tsai, L.-H.
Affiliations
  • Massachusetts Institute of Technology (US)
  • Broad Institute (US)
  • Emory University (US)
Corresponding author
Nott, Alexi
Venue
Nature Neuroscience
Published
2016-07-18
Volume
19
Issue
11
Pages
1497-1505
ISSN
  • 1097-6256 (ISSN-L)
  • 1546-1726
OpenAlex
W2491676496
Cited by
110
References
8
Citations by year
2026: 7 · 2025: 9 · 2024: 8 · 2023: 9 · 2022: 10 · 2021: 10 · 2020: 10 · 2019: 14 · 2018: 15 · 2017: 12 · 2016: 6
FWCI
12.66
Type
journal article
Language
en
Open access
Locations
  • Nature Neuroscience (publishedVersion)
  • PubMed (publishedVersion)
  • Europe PMC (PubMed Central) (acceptedVersion)
  • PubMed Central (acceptedVersion)
  • PMC
Funders
  • National Institute of Mental Health (R01MH076090, R01MH102690)
  • National Institute of General Medical Sciences (T32GM007287)
  • National Institute of Neurological Disorders and Stroke (R01NS079625, R01NS078839, R01NS051630)
Topics
  • Life Sciences › Biochemistry, Genetics and Molecular Biology › Genetics › Genetics and Neurodevelopmental Disorders
  • Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › FOXO transcription factor regulation
  • Life Sciences › Neuroscience › Cellular and Molecular Neuroscience › Genetic Neurodegenerative Diseases
Keywords
Rett syndrome, MeCP2, HDAC3, FOXO, histone deacetylation, transcriptional regulation, social behavior, cognitive impairment, neuronal gene expression, chromatin profiling, neurodevelopmental disorders
MeSH terms
Histone Deacetylase 3, Animals, Histone Deacetylases, Humans, Mice, Transgenic, Mutation, Neurons, Phenotype, Social Behavior, Rett Syndrome, Methyl-CpG-Binding Protein 2, Forkhead Transcription Factors, Neural Stem Cells

About these checks

Registry, retraction, Cites and statistics results are computed, not judged, with one exception: a printed reference that no index lists is read once by a model before it counts as a citation error. Claims are extracted by a model and kept only when their quote appears verbatim in the text; each cited source is then checked, with a model’s help, for whether it says what the claim relies on. Those verdicts can be wrong — read the claim’s quote and the cited source before relying on one.

Statistics and arithmetic are recomputed, not judged.

Confidence bands are shown only for fields calibrated on our annotated test set. None is calibrated yet, so no band is shown.

What counts as a claim ›How we measure confidence ›How we check this ›

Are you an author, or do you see a problem with this page? Request a review