Tau-Mediated Disruption of the Spliceosome Triggers Cryptic RNA Splicing and Neurodegeneration in Alzheimer’s Disease
暂无分享,去创建一个
Yi-Chen Hsieh | David A. Bennett | Zhandong Liu | Rami Al-Ouran | Allan I. Levey | Caiwei Guo | Joshua M. Shulman | James J. Lah | Nicholas T. Seyfried | Eric B. Dammer | Philip L. De Jager | Measho Abreha | Yarong Li | Hari K. Yalamanchili
[1] M. Folstein,et al. Clinical diagnosis of Alzheimer's disease , 1984, Neurology.
[2] Thomas R. Gingeras,et al. STAR: ultrafast universal RNA-seq aligner , 2013, Bioinform..
[3] V. Plagnol,et al. Quantitative analysis of cryptic splicing associated with TDP-43 depletion , 2016, BMC Medical Genomics.
[4] Sean J. Miller,et al. Tau Protein Disrupts Nucleocytoplasmic Transport in Alzheimer’s Disease , 2018, Neuron.
[5] S. Gygi,et al. Evidence that C9ORF72 Dipeptide Repeat Proteins Associate with U2 snRNP to Cause Mis-splicing in ALS/FTD Patients. , 2017, Cell reports.
[6] Bradley T. Hyman,et al. Neurofibrillary tangles but not senile plaques parallel duration and severity of Alzheimer's disease , 1992, Neurology.
[7] Michael Benatar,et al. Prion-like domain mutations in hnRNPs cause multisystem proteinopathy and ALS , 2013, Nature.
[8] D. Dias-Santagata,et al. Oxidative stress mediates tau-induced neurodegeneration in Drosophila. , 2007, The Journal of clinical investigation.
[9] A. Levey,et al. Quantitative Analysis of the Brain Ubiquitylome in Alzheimer's Disease , 2018, Proteomics.
[10] W. Boelens,et al. The human U1A snRNP protein regulates polyadenylation via a direct interaction with poly(A) polymerase , 1994, Cell.
[11] S. Sugano,et al. Frequent pathway mutations of splicing machinery in myelodysplasia , 2011, Nature.
[12] S. Amara,et al. Tissue-specific expression and cDNA cloning of small nuclear ribonucleoprotein-associated polypeptide N. , 1988, Proceedings of the National Academy of Sciences of the United States of America.
[13] Jeffrey Wilusz,et al. The highways and byways of mRNA decay , 2007, Nature Reviews Molecular Cell Biology.
[14] Tomaž Curk,et al. Analysis of alternative splicing associated with aging and neurodegeneration in the human brain. , 2011, Genome research.
[15] Chadwick M. Hales,et al. U1 small nuclear ribonucleoprotein complex and RNA splicing alterations in Alzheimer’s disease , 2013, Proceedings of the National Academy of Sciences.
[16] P. Wong,et al. TDP-43 repression of nonconserved cryptic exons is compromised in ALS-FTD , 2015, Science.
[17] Brad T. Sherman,et al. Bioinformatics enrichment tools: paths toward the comprehensive functional analysis of large gene lists , 2008, Nucleic acids research.
[18] Daniel J. Muller,et al. Tau protein liquid–liquid phase separation can initiate tau aggregation , 2018, The EMBO journal.
[19] Hu Li,et al. RNA binding proteins co-localize with small tau inclusions in tauopathy , 2018, Acta neuropathologica communications.
[20] M. Mann,et al. Quantitative proteomics reveals subset-specific viral recognition in dendritic cells. , 2010, Immunity.
[21] J. Shulman,et al. Functional screening of Alzheimer pathology genome-wide association signals in Drosophila. , 2011, American journal of human genetics.
[22] J. Weissenbach,et al. Identification and characterization of a spinal muscular atrophy-determining gene , 1995, Cell.
[23] M. Feany,et al. Lysosomal Dysfunction Promotes Cleavage and Neurotoxicity of Tau In Vivo , 2010, PLoS genetics.
[24] E. Zackai,et al. Mutations within the spliceosomal gene SNRPB affect its auto‐regulation and are causative for classic cerebro‐costo‐mandibular syndrome , 2015, Clinical genetics.
[25] D. J. Driscoll,et al. Prader-Willi syndrome. , 1984, Current problems in pediatrics.
[26] C. Cowan,et al. Are Tau Aggregates Toxic or Protective in Tauopathies? , 2013, Front. Neurol..
[27] Benjamin J. Blencowe,et al. Alternative Splicing in the Mammalian Nervous System: Recent Insights into Mechanisms and Functional Roles , 2015, Neuron.
[28] Zhandong Liu,et al. Data Analysis Pipeline for RNA‐seq Experiments: From Differential Expression to Cryptic Splicing , 2017, Current protocols in bioinformatics.
[29] Sarah J. Kurley,et al. The spliceosome is a therapeutic vulnerability in MYC-driven cancer , 2015, Nature.
[30] Xun Hu,et al. TDP-43 Mutations in Familial and Sporadic Amyotrophic Lateral Sclerosis , 2008, Science.
[31] Miguel Beato,et al. bwtool: a tool for bigWig files , 2014, Bioinform..
[32] N. Bonini,et al. Maintaining the brain: insight into human neurodegeneration from Drosophila melanogaster mutants , 2009, Nature Reviews Genetics.
[33] David A. Bennett,et al. Neuropathologic intermediate phenotypes enhance association to Alzheimer susceptibility alleles , 2009, Neurology.
[34] Marco Y. Hein,et al. The Perseus computational platform for comprehensive analysis of (prote)omics data , 2016, Nature Methods.
[35] B. Prusty,et al. Impaired spliceosomal UsnRNP assembly leads to Sm mRNA down-regulation and Sm protein degradation , 2017, The Journal of cell biology.
[36] W. Boelens,et al. A complex secondary structure in U1A pre‐mRNA that binds two molecules of U1A protein is required for regulation of polyadenylation. , 1993, The EMBO journal.
[37] Kim Schneider,et al. Coping with Protein Quality Control Failure. , 2017, Annual review of cell and developmental biology.
[38] A. Hyman,et al. Liquid-liquid phase separation in biology. , 2014, Annual review of cell and developmental biology.
[39] Stephen M. Mount,et al. The Drosophila U1-70K Protein Is Required for Viability, but Its Arginine-Rich Domain Is Dispensable , 2004, Genetics.
[40] Graydon B. Gonsalvez,et al. The Sm-Protein Methyltransferase, Dart5, Is Essential for Germ-Cell Specification and Maintenance , 2006, Current Biology.
[41] H. Braak,et al. Neuropathological stageing of Alzheimer-related changes , 2004, Acta Neuropathologica.
[42] Joshua J. White,et al. Extensive cryptic splicing upon loss of RBM17 and TDP43 in neurodegeneration models. , 2016, Human molecular genetics.
[43] Timothy D. Craggs,et al. Phase Transition of a Disordered Nuage Protein Generates Environmentally Responsive Membraneless Organelles , 2015, Molecular cell.
[44] L. Tora,et al. A fraction of the transcription factor TAF15 participates in interactions with a subset of the spliceosomal U1 snRNP complex. , 2011, Biochimica et biophysica acta.
[45] Joshua M. Shulman,et al. Tauopathy in Drosophila: Neurodegeneration Without Neurofibrillary Tangles , 2001, Science.
[46] Scott Waddell,et al. Olfactory learning skews mushroom body output pathways to steer behavioral choice in Drosophila , 2015, Current Opinion in Neurobiology.
[47] Burkhard Becher,et al. Immune attack: the role of inflammation in Alzheimer disease , 2015, Nature Reviews Neuroscience.
[48] Fidel Ramírez,et al. deepTools: a flexible platform for exploring deep-sequencing data , 2014, Nucleic Acids Res..
[49] Bradley T. Hyman,et al. The Intersection of Amyloid Beta and Tau at Synapses in Alzheimer’s Disease , 2014, Neuron.
[50] R. Zhai,et al. NMNAT suppresses tau-induced neurodegeneration by promoting clearance of hyperphosphorylated tau oligomers in a Drosophila model of tauopathy. , 2012, Human molecular genetics.
[51] Bin Zhang,et al. Integrative transcriptome analyses of the aging brain implicate altered splicing in Alzheimer’s disease susceptibility , 2018, Nature Genetics.
[52] A. Levey,et al. Deep proteomic network analysis of Alzheimer’s disease brain reveals alterations in RNA binding proteins and RNA splicing associated with disease , 2018, Molecular Neurodegeneration.
[53] Bruce L. Miller,et al. Ubiquitinated TDP-43 in Frontotemporal Lobar Degeneration and Amyotrophic Lateral Sclerosis , 2006, Science.
[54] Marco Y. Hein,et al. Accurate Proteome-wide Label-free Quantification by Delayed Normalization and Maximal Peptide Ratio Extraction, Termed MaxLFQ * , 2014, Molecular & Cellular Proteomics.
[55] P. Park,et al. p53 prevents neurodegeneration by regulating synaptic genes , 2014, Proceedings of the National Academy of Sciences.
[56] A. Levey,et al. RNA-binding proteins with basic-acidic dipeptide (BAD) domains self-assemble and aggregate in Alzheimer's disease , 2018, The Journal of Biological Chemistry.
[57] Gene W. Yeo,et al. ALS-causative mutations in FUS/TLS confer gain- and loss-of-function by altered association with SMN and U1-snRNP , 2015, Nature Communications.
[58] Xun Hu,et al. Mutations in FUS, an RNA Processing Protein, Cause Familial Amyotrophic Lateral Sclerosis Type 6 , 2009, Science.
[59] Larry N. Singh,et al. U1 snRNP protects pre-mRNAs from premature cleavage and polyadenylation , 2010, Nature.
[60] Richard Hollister,et al. Neuronal loss correlates with but exceeds neurofibrillary tangles in Alzheimer's disease , 1997, Annals of neurology.
[61] J. Shulman,et al. Genetic modifiers of tauopathy in Drosophila. , 2003, Genetics.
[62] Nele A. Haelterman,et al. MiMIC: a highly versatile transposon insertion resource for engineering Drosophila melanogaster genes , 2011, Nature Methods.
[63] S. Armstrong,et al. Modulation of splicing catalysis for therapeutic targeting of leukemias with spliceosomal mutations , 2016, Nature Medicine.
[64] H. Salz,et al. The Drosophila sex determination gene snf encodes a nuclear protein with sequence and functional similarity to the mammalian U1A snRNP protein. , 1994, Genes & development.
[65] T. Montine,et al. Aggregates of Small Nuclear Ribonucleic Acids (snRNAs) in Alzheimer's Disease , 2014, Brain pathology.
[66] Christopher B. Burge,et al. Maximum Entropy Modeling of Short Sequence Motifs with Applications to RNA Splicing Signals , 2004, J. Comput. Biol..
[67] R. Chitta,et al. Global analysis of TDP-43 interacting proteins reveals strong association with RNA splicing and translation machinery. , 2010, Journal of proteome research.
[68] Roy Parker,et al. Formation and Maturation of Phase-Separated Liquid Droplets by RNA-Binding Proteins. , 2015, Molecular cell.
[69] Yi Tang,et al. Therapeutic approaches to treat human spliceosomal diseases. , 2019, Current opinion in biotechnology.
[70] S. Ackerman,et al. Mutation of a U2 snRNA Gene Causes Global Disruption of Alternative Splicing and Neurodegeneration , 2012, Cell.
[71] Hans-Ulrich Klein,et al. A multi-omic atlas of the human frontal cortex for aging and Alzheimer’s disease research , 2018, Scientific Data.
[72] W. Huber,et al. Moderated estimation of fold change and dispersion for RNA-seq data with DESeq2 , 2014, Genome Biology.
[73] A. Kanagaraj,et al. Phase Separation by Low Complexity Domains Promotes Stress Granule Assembly and Drives Pathological Fibrillization , 2015, Cell.
[74] Madhav Thambisetty,et al. A Multi-network Approach Identifies Protein-Specific Co-expression in Asymptomatic and Symptomatic Alzheimer's Disease. , 2017, Cell systems.
[75] Lili Wan,et al. RNA and Disease , 2009, Cell.
[76] Gene W. Yeo,et al. Long pre-mRNA depletion and RNA missplicing contribute to neuronal vulnerability from loss of TDP-43 , 2011, Nature Neuroscience.
[77] H. Levine,et al. Pathological Tau Promotes Neuronal Damage by Impairing Ribosomal Function and Decreasing Protein Synthesis , 2016, The Journal of Neuroscience.
[78] Douglas L. Black,et al. Neuronal regulation of alternative pre-mRNA splicing , 2007, Nature Reviews Neuroscience.
[79] Marco Y. Hein,et al. A Liquid-to-Solid Phase Transition of the ALS Protein FUS Accelerated by Disease Mutation , 2015, Cell.
[80] David A Bennett,et al. Religious Orders Study and Rush Memory and Aging Project. , 2018, Journal of Alzheimer's disease : JAD.
[81] Hu Li,et al. Interaction of tau with the RNA-Binding Protein TIA1 Regulates tau Pathophysiology and Toxicity. , 2016, Cell reports.
[82] J. Power,et al. Alzheimer’s Disease and Cancer: When Two Monsters Cannot Be Together , 2019, Front. Neurosci..
[83] Diana M. Mitrea,et al. C9orf72 Dipeptide Repeats Impair the Assembly, Dynamics, and Function of Membrane-Less Organelles , 2016, Cell.
[84] C. Lorson,et al. A single nucleotide in the SMN gene regulates splicing and is responsible for spinal muscular atrophy. , 1999, Proceedings of the National Academy of Sciences of the United States of America.
[85] John Q. Trojanowski,et al. Consensus Recommendations for the Postmortem Diagnosis of Alzheimer’s Disease , 1997, Neurobiology of Aging.
[86] Charles C. White,et al. A molecular network of the aging human brain provides insights into the pathology and cognitive decline of Alzheimer’s disease , 2018, Nature Neuroscience.
[87] Lili Wan,et al. SMN Deficiency Causes Tissue-Specific Perturbations in the Repertoire of snRNAs and Widespread Defects in Splicing , 2008, Cell.
[88] S. Lovestone,et al. GSK-3β inhibition reverses axonal transport defects and behavioural phenotypes in Drosophila , 2004, Molecular Psychiatry.
[89] D L Price,et al. Alzheimer's disease: a disorder of cortical cholinergic innervation. , 1983, Science.
[90] D. Ito,et al. RNA binding proteins and the pathological cascade in ALS/FTD neurodegeneration , 2017, Science Translational Medicine.
[91] Qun Pan,et al. Regulation of alternative splicing by the core spliceosomal machinery. , 2011, Genes & development.
[92] Bing Zhang,et al. WebGestalt: an integrated system for exploring gene sets in various biological contexts , 2005, Nucleic Acids Res..
[93] C. Will,et al. Spliceosome structure and function. , 2011, Cold Spring Harbor perspectives in biology.
[94] Lan Lin,et al. rMATS: Robust and flexible detection of differential alternative splicing from replicate RNA-Seq data , 2014, Proceedings of the National Academy of Sciences.
[95] J. Anne. Arginine methylation of SmB is required for Drosophila germ cell development , 2010, Development.
[96] A. Spradling,et al. A genetic toolkit for tagging intronic MiMIC containing genes , 2015, eLife.
[97] Christopher B. Burge,et al. Protein-RNA Networks Regulated by Normal and ALS-Associated Mutant HNRNPA2B1 in the Nervous System , 2016, Neuron.
[98] R. Lührmann,et al. The C-terminal RG Dipeptide Repeats of the Spliceosomal Sm Proteins D1 and D3 Contain Symmetrical Dimethylarginines, Which Form a Major B-cell Epitope for Anti-Sm Autoantibodies* , 2000, The Journal of Biological Chemistry.
[99] Benjamin W Booth,et al. A library of MiMICs allows tagging of genes and reversible, spatial and temporal knockdown of proteins in Drosophila , 2015, eLife.
[100] Brad T. Sherman,et al. Systematic and integrative analysis of large gene lists using DAVID bioinformatics resources , 2008, Nature Protocols.
[101] J. Shulman,et al. Uncoupling neuronal death and dysfunction in Drosophila models of neurodegenerative disease , 2016, Acta neuropathologica communications.
[102] N. Perrimon,et al. Functional screening in Drosophila identifies Alzheimer's disease susceptibility genes and implicates Tau-mediated mechanisms. , 2014, Human molecular genetics.
[103] J. Valcárcel,et al. The splicing regulator TIA‐1 interacts with U1‐C to promote U1 snRNP recruitment to 5′ splice sites , 2002, The EMBO journal.
[104] M. Feany,et al. Comparison of pathways controlling toxicity in the eye and brain in Drosophila models of human neurodegenerative diseases. , 2004, Human molecular genetics.
[105] Dietmar Riedel,et al. Liquid–liquid phase separation of the microtubule-binding repeats of the Alzheimer-related protein Tau , 2017, Nature Communications.
[106] David Shepherd,et al. Soluble hyper-phosphorylated tau causes microtubule breakdown and functionally compromises normal tau in vivo , 2010, Acta Neuropathologica.
[107] Yanhui Hu,et al. FlyBase at 25: looking to the future , 2016, Nucleic Acids Res..
[108] H. Dvinge,et al. Widespread intron retention diversifies most cancer transcriptomes , 2015, Genome Medicine.
[109] B. Snel,et al. STRING: a web-server to retrieve and display the repeatedly occurring neighbourhood of a gene. , 2000, Nucleic acids research.
[110] J. Schneider,et al. The effect of social networks on the relation between Alzheimer's disease pathology and level of cognitive function in old people: a longitudinal cohort study , 2006, The Lancet Neurology.
[111] M. Feany,et al. Glial Fibrillary Tangles and JAK/STAT-Mediated Glial and Neuronal Cell Death in a Drosophila Model of Glial Tauopathy , 2010, The Journal of Neuroscience.
[112] M. Feany,et al. A Conserved Cytoskeletal Signaling Cascade Mediates Neurotoxicity of FTDP-17 Tau Mutations In Vivo , 2017, The Journal of Neuroscience.