m
Lewy body disease
Parkinson's disease
RNA methylation
dementia with Lewy bodies
epitranscriptomics
m6A
mild cognitive impairment
Journal
Neuropathology and applied neurobiology
ISSN: 1365-2990
Titre abrégé: Neuropathol Appl Neurobiol
Pays: England
ID NLM: 7609829
Informations de publication
Date de publication:
02 2023
02 2023
Historique:
revised:
13
12
2022
received:
05
08
2022
accepted:
13
12
2022
pubmed:
30
1
2023
medline:
3
3
2023
entrez:
29
1
2023
Statut:
ppublish
Résumé
N Using microscopy and a machine learning approach, we performed cellular profiling of m In non-diseased tissue, we found that m These results provide evidence for disrupted m
Substances chimiques
RNA
63231-63-0
RNA, Messenger
0
Types de publication
Journal Article
Research Support, Non-U.S. Gov't
Langues
eng
Sous-ensembles de citation
IM
Pagination
e12885Informations de copyright
© 2023 The Authors. Neuropathology and Applied Neurobiology published by John Wiley & Sons Ltd on behalf of British Neuropathological Society.
Références
Dominissini D, Moshitch-Moshkovitz S, Schwartz S, et al. Topology of the human and mouse m6A RNA methylomes revealed by m6A-seq. Nature. 2012;485(7397):201-206. doi:10.1038/nature11112
Meyer KD, Saletore Y, Zumbo P, Elemento O, Mason CE, Jaffrey SR. Comprehensive analysis of mRNA methylation reveals enrichment in 3′ UTRs and near stop codons. Cell. 2012;149(7):1635-1646. doi:10.1016/j.cell.2012.05.003
Huang H, Weng H, Sun W, et al. Recognition of RNA N6-methyladenosine by IGF2BP proteins enhances mRNA stability and translation. Nat Cell Biol. 2018;20(3):285-295. doi:10.1038/s41556-018-0045-z
Liu N, Dai Q, Zheng G, He C, Parisien M, Pan T. N(6)-methyladenosine-dependent RNA structural switches regulate RNA-protein interactions. Nature. 2015;518(7540):560-564. doi:10.1038/nature14234
Li A, Chen YS, Ping XL, et al. Cytoplasmic m6a reader YTHDF3 promotes mRNA translation. Cell Res. 2017;27(3):444-447. doi:10.1038/cr.2017.10
Li Y, Bedi RK, Moroz-Omori EV, Caflisch A. Structural and dynamic insights into redundant function of YTHDF proteins. J Chem Inf Model. 2020;60(12):5932-5935. doi:10.1021/acs.jcim.0c01029
Kontur C, Jeong M, Cifuentes D, Giraldez AJ. Ythdf m6a readers function redundantly during zebrafish development. Cell Rep. 2020;33(13):108598. doi:10.1016/j.celrep.2020.108598
Luo S, Tong L. Molecular basis for the recognition of methylated adenines in RNA by the eukaryotic YTH domain. Proc Natl Acad Sci U S a. 2014;111(38):13834-13839. doi:10.1073/pnas.1412742111
Ries RJ, Zaccara S, Klein P, et al. m6a enhances the phase separation potential of mRNA. Nature. 2019;571(7765):424-428. doi:10.1038/s41586-019-1374-1
Lasman L, Krupalnik V, Viukov S, et al. Context-dependent functional compensation between Ythdf m6a reader proteins. Genes Dev. 2020;34(19-20):1373-1391. doi:10.1101/gad.340695.120
Arguello AE, DeLiberto AN, Kleiner RE. RNA chemical proteomics reveals the N6-methyladenosine (m6A)-regulated protein-RNA Interactome. J am Chem Soc. 2017;139(48):17249-17252. doi:10.1021/jacs.7b09213
Edupuganti RR, Geiger S, Lindeboom RGH, et al. N6-methyladenosine (m6a) recruits and repels proteins to regulate mRNA homeostasis. Nat Struct Mol Biol. 2017;24(10):870-878. doi:10.1038/nsmb.3462
Breydo L, Wu JW, Uversky VN. Alpha-synuclein misfolding and Parkinson's disease. Biochim Biophys Acta. 2012;1822(2):261-285. doi:10.1016/j.bbadis.2011.10.002
Martinez De La Cruz B, Markus R, Malla S, et al. Modifying the m6a brain methylome by ALKBH5-mediated demethylation: a new contender for synaptic tagging. Mol Psychiatry. 2021;26(12):7141-7153. doi:10.1038/s41380-021-01282-z
Xu H, Dzhashiashvili Y, Shah A, et al. m6a mRNA methylation is essential for oligodendrocyte maturation and CNS myelination. Neuron. 2020;105(2):293-309 e5. doi:10.1016/j.neuron.2019.12.013
Yoon KJ, Ringeling FR, Vissers C, et al. Temporal control of mammalian cortical neurogenesis by m6a methylation. Cell. 2017;171(4):877-89 e17. doi:10.1016/j.cell.2017.09.003
Hess ME, Hess S, Meyer KD, et al. The fat mass and obesity associated gene (Fto) regulates activity of the dopaminergic midbrain circuitry. Nat Neurosci. 2013;16(8):1042-1048. doi:10.1038/nn.3449
Shi H, Zhang X, Weng YL, et al. m6a facilitates hippocampus-dependent learning and memory through YTHDF1. Nature. 2018;563(7730):249-253. doi:10.1038/s41586-018-0666-1
Zhang Z, Wang M, Xie D, et al. METTL3-mediated N6-methyladenosine mRNA modification enhances long-term memory consolidation. Cell Res. 2018;28(11):1050-1061. doi:10.1038/s41422-018-0092-9
Merkurjev D, Hong WT, Iida K, et al. Synaptic N6-methyladenosine (m6a) epitranscriptome reveals functional partitioning of localized transcripts. Nat Neurosci. 2018;21(7):1004-1014. doi:10.1038/s41593-018-0173-6
McKeith IG, Boeve BF, Dickson DW, et al. Diagnosis and management of dementia with Lewy bodies: fourth consensus report of the DLB consortium. Neurology. 2017;89(1):88-100. doi:10.1212/WNL.0000000000004058
Aarsland D. Cognitive impairment in Parkinson's disease and dementia with Lewy bodies. Parkinsonism Relat Disord. 2016;22(Suppl 1):S144-S148. doi:10.1016/j.parkreldis.2015.09.034
Aarsland D, Bronnick K, Fladby T. Mild cognitive impairment in Parkinson's disease. Curr Neurol Neurosci Rep. 2011;11(4):371-378. doi:10.1007/s11910-011-0203-1
Ferman TJ, Smith GE, Kantarci K, et al. Nonamnestic mild cognitive impairment progresses to dementia with Lewy bodies. Neurology. 2013;81(23):2032-2038. doi:10.1212/01.wnl.0000436942.55281.47
Goedert M, Spillantini MG, Del Tredici K, Braak H. 100 years of Lewy pathology. Nat Rev Neurol. 2013;9(1):13-24. doi:10.1038/nrneurol.2012.242
Spillantini MG, Schmidt ML, Lee VM, Trojanowski JQ, Jakes R, Goedert M. Alpha-synuclein in Lewy bodies. Nature. 1997;388(6645):839-840. doi:10.1038/42166
Damier P, Hirsch EC, Agid Y, Graybiel AM. The substantia nigra of the human brain. II. Patterns of loss of dopamine-containing neurons in Parkinson's disease. Brain. 1999;122(Pt 8):1437-1448. doi:10.1093/brain/122.8.1437
Tsuboi Y, Uchikado H, Dickson DW. Neuropathology of Parkinson's disease dementia and dementia with Lewy bodies with reference to striatal pathology. Parkinsonism Relat Disord. 2007;13(Suppl 3):S221-S224. doi:10.1016/S1353-8020(08)70005-1
Wu T, Hallett M. The cerebellum in Parkinson's disease. Brain. 2013;136(Pt 3):696-709. doi:10.1093/brain/aws360
Colom-Cadena M, Pegueroles J, Herrmann AG, et al. Synaptic phosphorylated alpha-synuclein in dementia with Lewy bodies. Brain. 2017;140(12):3204-3214. doi:10.1093/brain/awx275
Schulz-Schaeffer WJ. The synaptic pathology of alpha-synuclein aggregation in dementia with Lewy bodies, Parkinson's disease and Parkinson's disease dementia. Acta Neuropathol. 2010;120(2):131-143. doi:10.1007/s00401-010-0711-0
Beach TG, Adler CH, Lue L, et al. Unified staging system for Lewy body disorders: correlation with nigrostriatal degeneration, cognitive impairment and motor dysfunction. Acta Neuropathol. 2009;117(6):613-634. doi:10.1007/s00401-009-0538-8
Luk KC, Song C, O'Brien P, et al. Exogenous alpha-synuclein fibrils seed the formation of Lewy body-like intracellular inclusions in cultured cells. Proc Natl Acad Sci U S a. 2009;106(47):20051-20056. doi:10.1073/pnas.0908005106
Gao Y, Pei G, Li D, et al. Multivalent m6a motifs promote phase separation of YTHDF proteins. Cell Res. 2019;29(9):767-769. doi:10.1038/s41422-019-0210-3
Edelstein A, Amodaj N, Hoover K, Vale R, Stuurman N. Computer control of microscopes using microManager. Curr Protoc Mol Biol. 2010;92(1):Unit14.20. doi:10.1002/0471142727.mb1420s92
Berg S, Kutra D, Kroeger T, et al. Ilastik: interactive machine learning for (bio)image analysis. Nat Methods. 2019;16(12):1226-1232. doi:10.1038/s41592-019-0582-9
Kan A. Machine learning applications in cell image analysis. Immunol Cell Biol. 2017;95(6):525-530. doi:10.1038/icb.2017.16
Johnson ECB, Carter EK, Dammer EB, et al. Large-scale deep multi-layer analysis of Alzheimer's disease brain reveals strong proteomic disease-related changes not observed at the RNA level. Nat Neurosci. 2022;25(2):213-225. doi:10.1038/s41593-021-00999-y
Yu L, Tasaki S, Schneider JA, et al. Cortical proteins associated with cognitive resilience in community-dwelling older persons. JAMA Psych. 2020;77(11):1172-1180. doi:10.1001/jamapsychiatry.2020.1807
Agarwala SD, Blitzblau HG, Hochwagen A, Fink GR. RNA methylation by the MIS complex regulates a cell fate decision in yeast. PLoS Genet. 2012;8(6):e1002732. doi:10.1371/journal.pgen.1002732
Wang Y, Li Y, Toth JI, Petroski MD, Zhang Z, Zhao JC. N6-methyladenosine modification destabilizes developmental regulators in embryonic stem cells. Nat Cell Biol. 2014;16(2):191-198. doi:10.1038/ncb2902
Ma C, Chang M, Lv H, et al. RNA m6a methylation participates in regulation of postnatal development of the mouse cerebellum. Genome Biol. 2018;19(1):68. doi:10.1186/s13059-018-1435-z
Rolland AS, Herrero MT, Garcia-Martinez V, Ruberg M, Hirsch EC, Francois C. Metabolic activity of cerebellar and basal ganglia-thalamic neurons is reduced in parkinsonism. Brain. 2007;130(Pt 1):265-275. doi:10.1093/brain/awl337
Linder B, Grozhik AV, Olarerin-George AO, Meydan C, Mason CE, Jaffrey SR. Single-nucleotide-resolution mapping of m6A and m6Am throughout the transcriptome. Nat Methods. 2015;12(8):767-772. doi:10.1038/nmeth.3453
Dresios J, Aschrafi A, Owens GC, Vanderklish PW, Edelman GM, Mauro VP. Cold stress-induced protein Rbm3 binds 60S ribosomal subunits, alters microRNA levels, and enhances global protein synthesis. Proc Natl Acad Sci U S a. 2005;102(6):1865-1870. doi:10.1073/pnas.0409764102
Smart F, Aschrafi A, Atkins A, et al. Two isoforms of the cold-inducible mRNA-binding protein RBM3 localize to dendrites and promote translation. J Neurochem. 2007;101(5):1367-1379. doi:10.1111/j.1471-4159.2007.04521.x
Zhang Y, Hamada M. Identification of m6A-associated RNA binding proteins using an integrative computational framework. Front Genet. 2021;12:625797. doi:10.3389/fgene.2021.625797
Peretti D, Bastide A, Radford H, et al. RBM3 mediates structural plasticity and protective effects of cooling in neurodegeneration. Nature. 2015;518(7538):236-239. doi:10.1038/nature14142
Alarcon CR, Goodarzi H, Lee H, Liu X, Tavazoie S, Tavazoie SF. HNRNPA2B1 is a mediator of m6A-dependent nuclear RNA processing events. Cell. 2015;162(6):1299-1308. doi:10.1016/j.cell.2015.08.011
Jiang L, Lin W, Zhang C, et al. Interaction of tau with HNRNPA2B1 and N6-methyladenosine RNA mediates the progression of tauopathy. Mol Cell. 2021;81(20):4209-27.e12. doi:10.1016/j.molcel.2021.07.038
Liu J, Li K, Cai J, et al. Landscape and regulation of m6A and m6am methylome across human and mouse tissues. Mol Cell. 2020;77(2):426-440.e6. doi:10.1016/j.molcel.2019.09.032
Fujiwara H, Hasegawa M, Dohmae N, et al. Alpha-synuclein is phosphorylated in synucleinopathy lesions. Nat Cell Biol. 2002;4(2):160-164. doi:10.1038/ncb748
Tofaris GK, Razzaq A, Ghetti B, Lilley KS, Spillantini MG. Ubiquitination of alpha-synuclein in Lewy bodies is a pathological event not associated with impairment of proteasome function. J Biol Chem. 2003;278(45):44405-44411. doi:10.1074/jbc.M308041200
Liu SY, Feng Y, Wu JJ, et al. M6 a facilitates YTHDF-independent phase separation. J Cell Mol Med. 2020;24(2):2070-2072. doi:10.1111/jcmm.14847
Wang J, Wang L, Diao J, et al. Binding to m6a RNA promotes YTHDF2-mediated phase separation. Protein Cell. 2020;11(4):304-307. doi:10.1007/s13238-019-00660-2