Regulation of protein homeostasis in neurodegenerative diseases: the role of coding and non-coding genes

Amyloid-β, Tau, and Dementia

(2017) Akihiko Takashima   JOURNAL OF ALZHEIMERS DISEASE

Enhancing protein disaggregation restores proteasome activity in aged cells

(2016) Veronica Andersson et al.   Aging-US

Widespread Proteome Remodeling and Aggregation in Aging C. elegans

(2015) Dirk M. Walther et al.   CELL

Modelling FUSopathies: focus on protein aggregation: Figure 1

(2015) Tatyana A. Shelkovnikova   BIOCHEMICAL SOCIETY TRANSACTIONS

Pontocerebellar hypoplasia

(2014) Sabine Rudnik-Schöneborn et al.   AMERICAN JOURNAL OF MEDICAL GENETICS PART C-SEMINARS IN MEDICAL GENETICS

Antibodies and protein misfolding: From structural research tools to therapeutic strategies

(2014) Erwin De Genst et al.   BIOCHIMICA ET BIOPHYSICA ACTA-PROTEINS AND PROTEOMICS

Human CLP1 Mutations Alter tRNA Biogenesis, Affecting Both Peripheral and Central Nervous System Function

(2014) Ender Karaca et al.   CELL

CLP1 Founder Mutation Links tRNA Splicing and Maturation to Cerebellar Development and Neurodegeneration

(2014) Ashleigh E. Schaffer et al.   CELL

The Noncoding RNA Revolution—Trashing Old Rules to Forge New Ones

(2014) Thomas R. Cech et al.   CELL

Sorting out the trash: the spatial nature of eukaryotic protein quality control

(2014) Emily M Sontag et al.   CURRENT OPINION IN CELL BIOLOGY

Inhibition of miR-34b and miR-34c enhances α-synuclein expression in Parkinson's disease

(2014) Savan Kabaria et al.   FEBS LETTERS

Peroxisomal Atg37 binds Atg30 or palmitoyl-CoA to regulate phagophore formation during pexophagy

(2014) Taras Y. Nazarko et al.   JOURNAL OF CELL BIOLOGY

Cross-talking noncoding RNAs contribute to cell-specific neurodegeneration in SCA7

(2014) Jennifer Y Tan et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

Dynamic JUNQ inclusion bodies are asymmetrically inherited in mammalian cell lines through the asymmetric partitioning of vimentin

(2014) M. Ogrodnik et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Ribosome stalling induced by mutation of a CNS-specific tRNA causes neurodegeneration

(2014) R. Ishimura et al.   SCIENCE

Alpha-synuclein biology in Lewy body diseases

(2014) Woojin Scott Kim et al.   Alzheimers Research & Therapy

Inclusions in frontotemporal lobar degeneration with TDP-43 proteinopathy (FTLD-TDP) and amyotrophic lateral sclerosis (ALS), but not FTLD with FUS proteinopathy (FTLD-FUS), have properties of amyloid

(2013) Eileen H. Bigio et al.   ACTA NEUROPATHOLOGICA

Molecular Chaperone Functions in Protein Folding and Proteostasis

(2013) Yujin E. Kim et al.   Annual Review of Biochemistry

Fission Yeast Does Not Age under Favorable Conditions, but Does So after Stress

(2013) Miguel Coelho et al.   CURRENT BIOLOGY

Spatial sequestration of misfolded proteins by a dynamic chaperone pathway enhances cellular fitness during stress

(2013) Stéphanie Escusa-Toret et al.   NATURE CELL BIOLOGY

RNA Toxicity from the ALS/FTD C9ORF72 Expansion Is Mitigated by Antisense Intervention

(2013) Christopher J. Donnelly et al.   NEURON

Neuropathological Alterations in Alzheimer Disease

(2013) A. Serrano-Pozo et al.   Cold Spring Harbor Perspectives in Medicine

Large-scale functional RNAi screen in C. elegans identifies genes that regulate the dysfunction of mutant polyglutamine neurons

(2012) François-Xavier Lejeune et al.   BMC GENOMICS

Mutation of a U2 snRNA Gene Causes Global Disruption of Alternative Splicing and Neurodegeneration

(2012) Yichang Jia et al.   CELL

Cleaning Up: ER-Associated Degradation to the Rescue

(2012) Jeffrey L. Brodsky   CELL

HSF Transcription Factor Family, Heat Shock Response, and Protein Intrinsic Disorder

(2012) Sandy D. Westerheide et al.   CURRENT PROTEIN & PEPTIDE SCIENCE

Pex3-anchored Atg36 tags peroxisomes for degradation inSaccharomyces cerevisiae

(2012) Alison M Motley et al.   EMBO JOURNAL

Transient Aggregation of Ubiquitinated Proteins Is a Cytosolic Unfolded Protein Response to Inflammation and Endoplasmic Reticulum Stress

(2012) Xian-De Liu et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

Non-coding RNAs with essential roles in neurodegenerative disorders

(2012) Evgenia Salta et al.   LANCET NEUROLOGY

Genetic insights in Alzheimer's disease

(2012) Karolien Bettens et al.   LANCET NEUROLOGY

Molecular chaperones and stress-inducible protein-sorting factors coordinate the spatiotemporal distribution of protein aggregates

(2012) Liliana Malinovska et al.   MOLECULAR BIOLOGY OF THE CELL

An integrated encyclopedia of DNA elements in the human genome

(2012)   NATURE

The toxic Aβ oligomer and Alzheimer's disease: an emperor in need of clothes

(2012) Iryna Benilova et al.   NATURE NEUROSCIENCE

The Role of the Parkinson's Disease Gene PARK9 in Essential Cellular Pathways and the Manganese Homeostasis Network in Yeast

(2012) Alessandra Chesi et al.   PLoS One

Compartmentalization of superoxide dismutase 1 (SOD1G93A) aggregates determines their toxicity

(2012) S. J. Weisberg et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Delaying aging and the aging-associated decline in protein homeostasis by inhibition of tryptophan degradation

(2012) A. T. van der Goot et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Neurodegeneration as an RNA disorder

(2012) Rory Johnson et al.   PROGRESS IN NEUROBIOLOGY

Speeding with control: codon usage, tRNAs, and ribosomes

(2012) Eva Maria Novoa et al.   TRENDS IN GENETICS

Confinement to Organelle-Associated Inclusion Structures Mediates Asymmetric Inheritance of Aggregated Protein in Budding Yeast

(2012) Rachel Spokoini et al.   Cell Reports

SERF Protein Is a Direct Modifier of Amyloid Fiber Assembly

(2012) S. Fabio Falsone et al.   Cell Reports

Proteomic analysis of age-dependent changes in protein solubility identifies genes that modulate lifespan

(2011) Pedro Reis-Rodrigues et al.   AGING CELL

Functional Screening of Alzheimer Pathology Genome-wide Association Signals in Drosophila

(2011) Joshua M. Shulman et al.   AMERICAN JOURNAL OF HUMAN GENETICS

Atg35, a micropexophagy-specific protein that regulates micropexophagic apparatus formation inPichia pastoris

(2011) Volodymyr Y. Nazarko et al.   Autophagy

Microautophagy in mammalian cells: Revisiting a 40-year-old conundrum

(2011) Dalibor Mijaljica et al.   Autophagy

The majority of total nuclear-encoded non-ribosomal RNA in a human cell is 'dark matter' un-annotated RNA

(2011) Philipp Kapranov et al.   BMC BIOLOGY

A comparative clinical, pathological, biochemical and genetic study of fused in sarcoma proteinopathies

(2011) T. Lashley et al.   BRAIN

Kynurenine 3-Monooxygenase Inhibition in Blood Ameliorates Neurodegeneration

(2011) Daniel Zwilling et al.   CELL

Amyloid-like Aggregates Sequester Numerous Metastable Proteins with Essential Cellular Functions

(2011) Heidi Olzscha et al.   CELL

Autophagy: Renovation of Cells and Tissues

(2011) Noboru Mizushima et al.   CELL

The Kynurenine Pathway Modulates Neurodegeneration in a Drosophila Model of Huntington's Disease

(2011) Susanna Campesan et al.   CURRENT BIOLOGY

MicroRNA profiling of Parkinson's disease brains identifies early downregulation of miR-34b/c which modulate mitochondrial function

(2011) Elena Miñones-Moyano et al.   HUMAN MOLECULAR GENETICS

Impairment of the tRNA-splicing endonuclease subunit 54 (tsen54) gene causes neurological abnormalities and larval death in zebrafish models of pontocerebellar hypoplasia

(2011) Paul R. Kasher et al.   HUMAN MOLECULAR GENETICS

Hsp42 is required for sequestration of protein aggregates into deposition sites inSaccharomyces cerevisiae

(2011) Sebastian Specht et al.   JOURNAL OF CELL BIOLOGY

Alzheimer's disease

(2011) Clive Ballard et al.   LANCET

Molecular chaperones in protein folding and proteostasis

(2011) F. Ulrich Hartl et al.   NATURE

Identifying polyglutamine protein species in situ that best predict neurodegeneration

(2011) Jason Miller et al.   Nature Chemical Biology

Firefly luciferase mutants as sensors of proteome stress

(2011) Rajat Gupta et al.   NATURE METHODS

Functional Links Between A  Toxicity, Endocytic Trafficking, and Alzheimer's Disease Risk Factors in Yeast

(2011) S. Treusch et al.   SCIENCE

Protein Folding and Quality Control in the ER

(2011) K. Araki et al.   Cold Spring Harbor Perspectives in Biology

Aging as an Event of Proteostasis Collapse

(2011) R. C. Taylor et al.   Cold Spring Harbor Perspectives in Biology

Cellular Strategies of Protein Quality Control

(2011) B. Chen et al.   Cold Spring Harbor Perspectives in Biology

A photoconvertible fluorescent reporter to track chaperone-mediated autophagy

(2011) Hiroshi Koga et al.   Nature Communications

A Genetic Screening Strategy Identifies Novel Regulators of the Proteostasis Network

(2011) M. Catarina Silva et al.   PLoS Genetics

Clinical, neuroradiological and genetic findings in pontocerebellar hypoplasia

(2010) Yasmin Namavar et al.   BRAIN

miR-106b aberrantly expressed in a double transgenic mouse model for Alzheimer's disease targets TGF-β type II receptor

(2010) Hailin Wang et al.   BRAIN RESEARCH

Long non-coding RNAs in nervous system function and disease

(2010) Irfan A. Qureshi et al.   BRAIN RESEARCH

Identification of MOAG-4/SERF as a Regulator of Age-Related Proteotoxicity

(2010) Tjakko J. van Ham et al.   CELL

The Polarisome Is Required for Segregation and Retrograde Transport of Protein Aggregates

(2010) Beidong Liu et al.   CELL

FOXO/4E-BP Signaling in Drosophila Muscles Regulates Organism-wide Proteostasis during Aging

(2010) Fabio Demontis et al.   CELL

Protein folding and aggregation in bacteria

(2010) Raimon Sabate et al.   CELLULAR AND MOLECULAR LIFE SCIENCES

Molecular chaperones and substrate ubiquitination control the efficiency of endoplasmic reticulum-associated degradation

(2010) J. L. Goeckeler et al.   DIABETES OBESITY & METABOLISM

Altered microRNA regulation in Huntington's disease models

(2010) Soon-Tae Lee et al.   EXPERIMENTAL NEUROLOGY

Selective Transport of α-Mannosidase by Autophagic Pathways

(2010) Kuninori Suzuki et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

In vivo regulation of amyloid precursor protein neuronal splicing by microRNAs

(2010) Pascal Smith et al.   JOURNAL OF NEUROCHEMISTRY

Plasma membrane contributes to the formation of pre-autophagosomal structures

(2010) Brinda Ravikumar et al.   NATURE CELL BIOLOGY

Eaten alive: a history of macroautophagy

(2010) Zhifen Yang et al.   NATURE CELL BIOLOGY

Exploring the sequence determinants of amyloid structure using position-specific scoring matrices

(2010) Sebastian Maurer-Stroh et al.   NATURE METHODS

Heat shock factors: integrators of cell stress, development and lifespan

(2010) Malin Åkerfelt et al.   NATURE REVIEWS MOLECULAR CELL BIOLOGY

A myriad of miRNA variants in control and Huntington’s disease brain regions detected by massively parallel sequencing

(2010) Eulàlia Martí et al.   NUCLEIC ACIDS RESEARCH

Spatial protein quality control and the evolution of lineage-specific ageing

(2010) T. Nystrom   PHILOSOPHICAL TRANSACTIONS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES

Protein quality control in the ER: The recognition of misfolded proteins

(2010) Pekka Määttänen et al.   SEMINARS IN CELL & DEVELOPMENTAL BIOLOGY

Integration of Clearance Mechanisms: The Proteasome and Autophagy

(2010) E. Wong et al.   Cold Spring Harbor Perspectives in Biology

Widespread Protein Aggregation as an Inherent Part of Aging in C. elegans

(2010) Della C. David et al.   PLOS BIOLOGY

Evidence for natural antisense transcript-mediated inhibition of microRNA function

(2010) Mohammad Ali Faghihi et al.   GENOME BIOLOGY

Recognition and Processing of Ubiquitin-Protein Conjugates by the Proteasome

(2009) Daniel Finley   Annual Review of Biochemistry

3D tomography reveals connections between the phagophore and endoplasmic reticulum

(2009) Päivi Ylä-Anttila et al.   Autophagy

miR-34a, a microRNA up-regulated in a double transgenic mouse model of Alzheimer's disease, inhibits bcl2 translation

(2009) Xiaoying Wang et al.   BRAIN RESEARCH BULLETIN

Reduced IGF-1 Signaling Delays Age-Associated Proteotoxicity in Mice

(2009) Ehud Cohen et al.   CELL

Atg32 Is a Mitochondrial Protein that Confers Selectivity during Mitophagy

(2009) Tomotake Kanki et al.   DEVELOPMENTAL CELL

Neurodegenerative diseases: Lessons from genome-wide screens in small model organisms

(2009) Tjakko J. van Ham et al.   EMBO Molecular Medicine

E. coli Transports Aggregated Proteins to the Poles by a Specific and Energy-Dependent Process

(2009) Assaf Rokney et al.   JOURNAL OF MOLECULAR BIOLOGY

The Bifunctional microRNA miR-9/miR-9* Regulates REST and CoREST and Is Downregulated in Huntington's Disease

(2009) A. N. Packer et al.   JOURNAL OF NEUROSCIENCE

A Genomic Screen for Yeast Mutants Defective in Selective Mitochondria Autophagy

(2009) Tomotake Kanki et al.   MOLECULAR BIOLOGY OF THE CELL

A subdomain of the endoplasmic reticulum forms a cradle for autophagosome formation

(2009) Mitsuko Hayashi-Nishino et al.   NATURE CELL BIOLOGY

α-Synuclein is part of a diverse and highly conserved interaction network that includes PARK9 and manganese toxicity

(2009) Aaron D Gitler et al.   NATURE GENETICS

Collapse of proteostasis represents an early molecular event in Caenorhabditis elegans aging

(2009) A. Ben-Zvi et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Association ofFOXO3Avariation with human longevity confirmed in German centenarians

(2009) Friederike Flachsbart et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Life and death of a BiP substrate

(2009) Joel H. Otero et al.   SEMINARS IN CELL & DEVELOPMENTAL BIOLOGY

Endoplasmic Reticulum Stress in Disease Pathogenesis

(2008) Jonathan H. Lin et al.   Annual Review of Pathology-Mechanisms of Disease

ERdj3, a Luminal ER DnaJ Homologue, Binds Directly to Unfolded Proteins in the Mammalian ER: Identification of Critical Residues†

(2008) Yi Jin et al.   BIOCHEMISTRY

Protein folding diseases and neurodegeneration: Lessons learned from yeast

(2008) Joris Winderickx et al.   BIOCHIMICA ET BIOPHYSICA ACTA-MOLECULAR CELL RESEARCH

Yeast as a model for studying human neurodegenerative disorders

(2008) Leonor Miller-Fleming et al.   Biotechnology Journal

SMN Deficiency Causes Tissue-Specific Perturbations in the Repertoire of snRNAs and Widespread Defects in Splicing

(2008) Zhenxi Zhang et al.   CELL

Protein Quality Control: On IPODs and Other JUNQ

(2008) Katrin Bagola et al.   CURRENT BIOLOGY

Function and structure of inherently disordered proteins

(2008) A Keith Dunker et al.   CURRENT OPINION IN STRUCTURAL BIOLOGY

PpAtg30 Tags Peroxisomes for Turnover by Selective Autophagy

(2008) Jean-Claude Farré et al.   DEVELOPMENTAL CELL

Regulated association of misfolded endoplasmic reticulum lumenal proteins with P58/DNAJc3

(2008) Kseniya Petrova et al.   EMBO JOURNAL

Regulated release of ERdj3 from unfolded proteins by BiP

(2008) Yi Jin et al.   EMBO JOURNAL

Proteotoxic stress and inducible chaperone networks in neurodegenerative disease and aging

(2008) R. I. Morimoto   GENES & DEVELOPMENT

A systematic RNAi screen reveals involvement of endocytic pathway in neuronal dysfunction in α-synuclein transgenic C . elegans

(2008) Tomoki Kuwahara et al.   HUMAN MOLECULAR GENETICS

Autophagosome formation from membrane compartments enriched in phosphatidylinositol 3-phosphate and dynamically connected to the endoplasmic reticulum

(2008) Elizabeth L. Axe et al.   JOURNAL OF CELL BIOLOGY

The Expression of MicroRNA miR-107 Decreases Early in Alzheimer's Disease and May Accelerate Disease Progression through Regulation of  -Site Amyloid Precursor Protein-Cleaving Enzyme 1

(2008) W.-X. Wang et al.   JOURNAL OF NEUROSCIENCE

ERdj4 and ERdj5 Are Required for Endoplasmic Reticulum-associated Protein Degradation of Misfolded Surfactant Protein C

(2008) Mei Dong et al.   MOLECULAR BIOLOGY OF THE CELL

Misfolded proteins partition between two distinct quality control compartments

(2008) Daniel Kaganovich et al.   NATURE

tRNA splicing endonuclease mutations cause pontocerebellar hypoplasia

(2008) Birgit S Budde et al.   NATURE GENETICS

miR-19, miR-101 and miR-130 co-regulate ATXN1 levels to potentially modulate SCA1 pathogenesis

(2008) Yoontae Lee et al.   NATURE NEUROSCIENCE

One step at a time: endoplasmic reticulum-associated degradation

(2008) Shruthi S. Vembar et al.   NATURE REVIEWS MOLECULAR CELL BIOLOGY

Loss of microRNA cluster miR-29a/b-1 in sporadic Alzheimer's disease correlates with increased BACE1/ -secretase expression

(2008) S. S. Hebert et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Selective benefits of damage partitioning in unicellular systems and its effects on aging

(2008) N. Erjavec et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Specific expression of long noncoding RNAs in the mouse brain

(2008) T. R. Mercer et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Hypothesis-based RNAi screening identifies neuroprotective genes in a Parkinson's disease model

(2008) S. Hamamichi et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

FOXO3A genotype is strongly associated with human longevity

(2008) B. J. Willcox et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Asymmetric segregation of protein aggregates is associated with cellular aging and rejuvenation

(2008) A. B. Lindner et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Functionally significant insulin-like growth factor I receptor mutations in centenarians

(2008) Y. Suh et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

MicroRNA expression in the adult mouse central nervous system

(2008) M. Bak et al.   RNA

C. elegans Model Identifies Genetic Modifiers of α-Synuclein Inclusion Formation During Aging

(2008) Tjakko J. van Ham et al.   PLoS Genetics

A microRNA-based gene dysregulation pathway in Huntington's disease

(2007) Rory Johnson et al.   NEUROBIOLOGY OF DISEASE

The role of protein stability, solubility, and net charge in amyloid fibril formation

(2003) Jason P. Schmittschmitt et al.   PROTEIN SCIENCE