Autophagy in Dictyostelium: Mechanisms, regulation and disease in a simple biomedical model

Guidelines for the use and interpretation of assays for monitoring autophagy (3rd edition)

(2016) Daniel J Klionsky et al.   Autophagy

Unraveling the roles of Atg4 proteases from autophagy modulation to targeted cancer therapy

(2016) Lan Zhang et al.   CANCER LETTERS

Ribose 5-phosphate isomerase inhibits LC3 processing and basal autophagy

(2016) Jacob Heintze et al.   CELLULAR SIGNALLING

Structure and function of the ULK1 complex in autophagy

(2016) Mary G Lin et al.   CURRENT OPINION IN CELL BIOLOGY

The two Dictyostelium autophagy eight proteins, ATG8a and ATG8b, associate with the autophagosome in succession

(2016) Jan Matthias et al.   EUROPEAN JOURNAL OF CELL BIOLOGY

Mechanisms of Selective Autophagy

(2016) Gabriele Zaffagnini et al.   JOURNAL OF MOLECULAR BIOLOGY

Ubiquitin-Dependent And Independent Signals In Selective Autophagy

(2016) Aliaksandr Khaminets et al.   TRENDS IN CELL BIOLOGY

An ER-Localized SNARE Protein Is Exported in Specific COPII Vesicles for Autophagosome Biogenesis

(2016) Leticia Lemus et al.   Cell Reports

Modulation of Host Autophagy during Bacterial Infection: Sabotaging Host Munitions for Pathogen Nutrition

(2016) Pedro Escoll et al.   Frontiers in Immunology

Association of four new candidate genetic variants with Parkinson's disease in a Han Chinese population

(2015) Ling Wang et al.   AMERICAN JOURNAL OF MEDICAL GENETICS PART B-NEUROPSYCHIATRIC GENETICS

Dissection of Francisella-Host Cell Interactions in Dictyostelium discoideum

(2015) Elisabeth O. Lampe et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

TipC and the chorea-acanthocytosis protein VPS13A regulate autophagy inDictyosteliumand human HeLa cells

(2015) Sandra Muñoz-Braceras et al.   Autophagy

Atg1 family kinases in autophagy initiation

(2015) Nobuo N. Noda et al.   CELLULAR AND MOLECULAR LIFE SCIENCES

Lipid droplet dynamics at early stages ofMycobacterium marinuminfection inDictyostelium

(2015) Caroline Barisch et al.   CELLULAR MICROBIOLOGY

p62/SQSTM1 functions as a signaling hub and an autophagy adaptor

(2015) Yoshinori Katsuragi et al.   FEBS Journal

Inhibiting cytosolic translation and autophagy improves health in mitochondrial disease

(2015) Min Peng et al.   HUMAN MOLECULAR GENETICS

Manipulation of Autophagy in Phagocytes Facilitates Staphylococcus aureus Bloodstream Infection

(2015) Kate M. O'Keeffe et al.   INFECTION AND IMMUNITY

Secreted Cyclic Di-GMP Induces Stalk Cell Differentiation in the Eukaryote Dictyostelium discoideum

(2015) Zhi-hui Chen et al.   JOURNAL OF BACTERIOLOGY

Diversity of Cyclic Di-GMP-Binding Proteins and Mechanisms

(2015) Shan-Ho Chou et al.   JOURNAL OF BACTERIOLOGY

A Mycobacterial Phosphoribosyltransferase Promotes Bacillary Survival by Inhibiting Oxidative Stress and Autophagy Pathways in Macrophages and Zebrafish

(2015) Soumitra Mohanty et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

Membrane dynamics in autophagosome biogenesis

(2015) S. R. Carlsson et al.   JOURNAL OF CELL SCIENCE

c-di-GMP induction of Dictyostelium cell death requires the polyketide DIF-1

(2015) Yu Song et al.   MOLECULAR BIOLOGY OF THE CELL

The Dictyostelium prestalk inducer differentiation-inducing factor-1 (DIF-1) triggers unexpectedly complex global phosphorylation changes

(2015) Chris Sugden et al.   MOLECULAR BIOLOGY OF THE CELL

Receptor-Bound Targets of Selective Autophagy Use a Scaffold Protein to Activate the Atg1 Kinase

(2015) Roarke A. Kamber et al.   MOLECULAR CELL

Clinical spectrum of valosin containing protein (VCP)-opathy

(2015) Mohamed Kazamel et al.   MUSCLE & NERVE

Huntingtin functions as a scaffold for selective macroautophagy

(2015) Yan-Ning Rui et al.   NATURE CELL BIOLOGY

Salmonellae interactions with host processes

(2015) Doris L. LaRock et al.   NATURE REVIEWS MICROBIOLOGY

Structure of the Atg101–Atg13 complex reveals essential roles of Atg101 in autophagy initiation

(2015) Hironori Suzuki et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

The autophagic machinery ensures nonlytic transmission of mycobacteria

(2015) Lilli Gerstenmaier et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Structure of the Human Atg13-Atg101 HORMA Heterodimer: an Interaction Hub within the ULK1 Complex

(2015) Shiqian Qi et al.   STRUCTURE

Structure of the Atg101–Atg13 complex reveals essential roles of Atg101 in autophagy initiation

(2015) Hironori Suzuki et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

Dissecting the function of Atg1 complex inDictyosteliumautophagy reveals a connection with the pentose phosphate pathway enzyme transketolase

(2015) Ana Mesquita et al.   Open Biology

The phenotypes of ATG9, ATG16 and ATG9/16 knock-out mutants imply autophagy-dependent and -independent functions

(2015) Q. Xiong et al.   Open Biology

Atg9 is required for intraluminal vesicles in amphisomes and autolysosomes

(2015) C. A. Bader et al.   Biology Open

A UDP-glucose derivative is required for vacuolar autophagic cell death

(2014) Emilie Tresse et al.   Autophagy

A specific pathway inducing autophagic cell death is marked by an IP3R mutation

(2014) David Lam et al.   Autophagy

Dissecting the localization and function of Atg18, Atg21 and Ygr223c

(2014) Roswitha Krick et al.   Autophagy

Correlative light and electron microscopy imaging of autophagy in a zebrafish infection model

(2014) Rohola Hosseini et al.   Autophagy

Bulk autophagy, but not mitophagy, is increased in cellular model of mitochondrial disease

(2014) María Morán et al.   BIOCHIMICA ET BIOPHYSICA ACTA-MOLECULAR BASIS OF DISEASE

VMP1-deficient Chlamydomonas exhibits severely aberrant cell morphology and disrupted cytokinesis

(2014) Hezi Tenenboim et al.   BMC PLANT BIOLOGY

The DNA Damage-Regulated Autophagy Modulator DRAM1 Links Mycobacterial Recognition via TLR-MYD88 to Autophagic Defense

(2014) Michiel van der Vaart et al.   Cell Host & Microbe

Transcriptional Regulation by Pho23 Modulates the Frequency of Autophagosome Formation

(2014) Meiyan Jin et al.   CURRENT BIOLOGY

Autophagy and human disease: emerging themes

(2014) Jaime L Schneider et al.   CURRENT OPINION IN GENETICS & DEVELOPMENT

Functional drug screening reveals anticonvulsants as enhancers of mTOR-independent autophagic killing of Mycobacterium tuberculosis through inositol depletion

(2014) M. Schiebler et al.   EMBO Molecular Medicine

Early Steps in Autophagy Depend on Direct Phosphorylation of Atg9 by the Atg1 Kinase

(2014) Daniel Papinski et al.   MOLECULAR CELL

AUTOPHAGY-RELATED11 Plays a Critical Role in General Autophagy- and Senescence-Induced Mitophagy in Arabidopsis

(2014) F. Li et al.   PLANT CELL

Establishment and Validation of Whole-Cell Based Fluorescence Assays to Identify Anti-Mycobacterial Compounds Using the Acanthamoeba castellanii - Mycobacterium marinum Host-Pathogen System

(2014) Sébastien Kicka et al.   PLoS One

Vmp1 Regulates PtdIns3P Signaling During Autophagosome Formation inDictyostelium discoideum

(2014) Javier Calvo-Garrido et al.   TRAFFIC

Mutation in VPS35 associated with Parkinson’s disease impairs WASH complex association and inhibits autophagy

(2014) Eszter Zavodszky et al.   Nature Communications

Phosphatidylinositol 3-kinase and COPII generate LC3 lipidation vesicles from the ER-Golgi intermediate compartment

(2014) Liang Ge et al.   eLife

An Overview of Autophagy: Morphology, Mechanism, and Regulation

(2013) Katherine R. Parzych et al.   ANTIOXIDANTS & REDOX SIGNALING

ATG16L1 meets ATG9 in recycling endosomes

(2013) Claudia Puri et al.   Autophagy

Regulation of autophagy by mTOR-dependent and mTOR-independent pathways: autophagy dysfunction in neurodegenerative diseases and therapeutic application of autophagy enhancers

(2013) Sovan Sarkar   BIOCHEMICAL SOCIETY TRANSACTIONS

Diverse Autophagosome Membrane Sources Coalesce in Recycling Endosomes

(2013) Claudia Puri et al.   CELL

Cyclic Dinucleotides and the Innate Immune Response

(2013) Olga Danilchanka et al.   CELL

The machinery of macroautophagy

(2013) Yuchen Feng et al.   CELL RESEARCH

Chaperone-mediated autophagy: roles in disease and aging

(2013) Ana Maria Cuervo et al.   CELL RESEARCH

WASH-driven actin polymerization is required for efficient mycobacterial phagosome maturation arrest

(2013) Margot Kolonko et al.   CELLULAR MICROBIOLOGY

Chorein Sensitivity of Actin Polymerization, Cell Shape and Mechanical Stiffness of Vascular Endothelial Cells

(2013) Ioana Alesutan et al.   CELLULAR PHYSIOLOGY AND BIOCHEMISTRY

WASH inhibits autophagy through suppression of Beclin 1 ubiquitination

(2013) Pengyan Xia et al.   EMBO JOURNAL

Vitamin D-dependent cathelicidin inhibits Mycobacterium marinum infection in human monocytic cells

(2013) Emi Sato et al.   JOURNAL OF DERMATOLOGICAL SCIENCE

Cyclic di-GMP: the First 25 Years of a Universal Bacterial Second Messenger

(2013) U. Romling et al.   MICROBIOLOGY AND MOLECULAR BIOLOGY REVIEWS

Ndufaf5 deficiency in the Dictyostelium model: new roles in autophagy and development

(2013) Sergio Carilla-Latorre et al.   MOLECULAR BIOLOGY OF THE CELL

WASH is required for lysosomal recycling and efficient autophagic and phagocytic digestion

(2013) Jason S. King et al.   MOLECULAR BIOLOGY OF THE CELL

PtdIns(3)P-bound UVRAG coordinates Golgi–ER retrograde and Atg9 transport by differential interactions with the ER tether and the beclin 1 complex

(2013) Shanshan He et al.   NATURE CELL BIOLOGY

ULK1 induces autophagy by phosphorylating Beclin-1 and activating VPS34 lipid kinase

(2013) Ryan C. Russell et al.   NATURE CELL BIOLOGY

Atg29 phosphorylation regulates coordination of the Atg17-Atg31-Atg29 complex with the Atg11 scaffold during autophagy initiation

(2013) K. Mao et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Francisella tularensis Harvests Nutrients Derived via ATG5-Independent Autophagy to Support Intracellular Growth

(2013) Shaun Steele et al.   PLoS Pathogens

Autophagy across the eukaryotes

(2012) Jason S. King   Autophagy

AMPK-dependent phosphorylation of ULK1 regulates ATG9 localization

(2012) Hildegard I.D. Mack et al.   Autophagy

Lipopolysaccharide induction of autophagy is associated with enhanced bactericidal activity in Dictyostelium discoideum

(2012) Katherine Pflaum et al.   BIOCHEMICAL AND BIOPHYSICAL RESEARCH COMMUNICATIONS

The hereditary spastic paraplegia protein strumpellin: Characterisation in neurons and of the effect of disease mutations on WASH complex assembly and function

(2012) Caroline Freeman et al.   BIOCHIMICA ET BIOPHYSICA ACTA-MOLECULAR BASIS OF DISEASE

Regulation of aggregate size and pattern by adenosine and caffeine in cellular slime molds

(2012) Pundrik Jaiswal et al.   BMC DEVELOPMENTAL BIOLOGY

Extracellular M. tuberculosis DNA Targets Bacteria for Autophagy by Activating the Host DNA-Sensing Pathway

(2012) Robert O. Watson et al.   CELL

Chorein-sensitive polymerization of cortical actin and suicidal cell death in chorea-acanthocytosis

(2012) Michael Föller et al.   FASEB JOURNAL

TOR complex 2 (TORC2) in Dictyostelium suppresses phagocytic nutrient capture independently of TORC1-mediated nutrient sensing

(2012) D. Rosel et al.   JOURNAL OF CELL SCIENCE

VPS13 regulates membrane morphogenesis during sporulation in Saccharomyces cerevisiae

(2012) Jae-Sook Park et al.   JOURNAL OF CELL SCIENCE

The prokaryote messenger c-di-GMP triggers stalk cell differentiation in Dictyostelium

(2012) Zhi-hui Chen et al.   NATURE

The helicase DDX41 recognizes the bacterial secondary messengers cyclic di-GMP and cyclic di-AMP to activate a type I interferon immune response

(2012) Kislay Parvatiyar et al.   NATURE IMMUNOLOGY

Heteromeric p97/p97R155C Complexes Induce Dominant Negative Changes in Wild-Type and Autophagy 9-Deficient Dictyostelium strains

(2012) Khalid Arhzaouy et al.   PLoS One

The Legionella Effector RavZ Inhibits Host Autophagy Through Irreversible Atg8 Deconjugation

(2012) A. Choy et al.   SCIENCE

Salmonella entericaserovars Typhimurium and Typhi as model organisms

(2012) Preeti Garai et al.   Virulence

Biogenesis and Cargo Selectivity of Autophagosomes

(2011) Hilla Weidberg et al.   Annual Review of Biochemistry

The Role of Atg Proteins in Autophagosome Formation

(2011) Noboru Mizushima et al.   Annual Review of Cell and Developmental Biology

A proteolytic cleavage assay to monitor autophagy inDictyostelium discoideum

(2011) Javier Calvo-Garrido et al.   Autophagy

Atg1 allows second-signaled autophagic cell death in Dictyostelium

(2011) Marie-Françoise Luciani et al.   Autophagy

The induction of autophagy by mechanical stress

(2011) Jason S. King et al.   Autophagy

Microautophagy: lesser-known self-eating

(2011) Wen-wen Li et al.   CELLULAR AND MOLECULAR LIFE SCIENCES

Salmonella typhimurium is pathogenic for Dictyostelium cells and subverts the starvation response

(2011) Alessio Sillo et al.   CELLULAR MICROBIOLOGY

Mycobacterium marinum induces a marked LC3 recruitment to its containing phagosome that depends on a functional ESX-1 secretion system

(2011) María Cecilia Lerena et al.   CELLULAR MICROBIOLOGY

Origin and function of the stalk-cell vacuole in Dictyostelium

(2011) Toru Uchikawa et al.   DEVELOPMENTAL BIOLOGY

LC3 and GATE-16 N Termini Mediate Membrane Fusion Processes Required for Autophagosome Biogenesis

(2011) Hilla Weidberg et al.   DEVELOPMENTAL CELL

Vacuolar Protein Sorting Protein 13A, TtVPS13A, Localizes to the Tetrahymena thermophila Phagosome Membrane and Is Required for Efficient Phagocytosis

(2011) Haresha S. Samaranayake et al.   EUKARYOTIC CELL

Atg8: an autophagy-related ubiquitin-like protein family

(2011) Tomer Shpilka et al.   GENOME BIOLOGY

Autophagy in Dictyostelium: Genes and pathways, cell death and infection

(2010) Javier Calvo-Garrido et al.   Autophagy

Characterization of autophagosome formation site by a hierarchical analysis of mammalian Atg proteins

(2010) Eisuke Itakura et al.   Autophagy

Autophagy dysfunction and ubiquitin-positive protein aggregates in Dictyostelium cells lacking Vmp1

(2010) Javier Calvo-Garrido et al.   Autophagy

α-hemolysin is required for the activation of the autophagic pathway inStaphylococcus aureusinfected cells

(2010) Maria Belén Mestre et al.   Autophagy

Quantification of nonselective bulk autophagy inS. cerevisiaeusing Pgk1-GFP

(2010) Evelyn Welter et al.   Autophagy

VCP/p97 is essential for maturation of ubiquitin-containing autophagosomes and this function is impaired by mutations that cause IBMPFD

(2010) Emilie Tresse et al.   Autophagy

Mammalian Atg18 (WIPI2) localizes to omegasome-anchored phagophores and positively regulates LC3 lipidation

(2010) Hannah E.J. Polson et al.   Autophagy

C. elegans Screen Identifies Autophagy Genes Specific to Multicellular Organisms

(2010) Ye Tian et al.   CELL

Loss of Dictyostelium ATG9 results in a pleiotropic phenotype affecting growth, development, phagocytosis and clearance and replication of Legionella pneumophila

(2010) Sze Man Tung et al.   CELLULAR MICROBIOLOGY

Atg1-mediated myosin II activation regulates autophagosome formation during starvation-induced autophagy

(2010) Hong-Wen Tang et al.   EMBO JOURNAL

Unconventional Secretion of AcbA in Dictyostelium discoideum through a Vesicular Intermediate

(2010) Matthew Cabral et al.   EUKARYOTIC CELL

An Atg9-containing compartment that functions in the early steps of autophagosome biogenesis

(2010) Muriel Mari et al.   JOURNAL OF CELL BIOLOGY

MidA is a putative methyltransferase that is required for mitochondrial complex I function

(2010) S. Carilla-Latorre et al.   JOURNAL OF CELL SCIENCE

Autophagic Cell Death in Dictyostelium Requires the Receptor Histidine Kinase DhkM

(2010) Corinne Giusti et al.   MOLECULAR BIOLOGY OF THE CELL

Actin on disease – Studying the pathobiology of cell motility using Dictyostelium discoideum

(2010) Michael J. Carnell et al.   SEMINARS IN CELL & DEVELOPMENTAL BIOLOGY

Dictyostelium as a model for human lysosomal and trafficking diseases

(2010) Markus Maniak   SEMINARS IN CELL & DEVELOPMENTAL BIOLOGY

Pathogen–host interactions in Dictyostelium, Legionella, Mycobacterium and other pathogens

(2010) Michael Steinert   SEMINARS IN CELL & DEVELOPMENTAL BIOLOGY

Lead genetic studies in Dictyostelium discoideum and translational studies in human cells demonstrate that sphingolipids are key regulators of sensitivity to cisplatin and other anticancer drugs

(2010) Stephen Alexander et al.   SEMINARS IN CELL & DEVELOPMENTAL BIOLOGY

The Dictyostelium model for mitochondrial disease

(2010) Lisa M. Francione et al.   SEMINARS IN CELL & DEVELOPMENTAL BIOLOGY

Molecular pharmacology in a simple model system: Implicating MAP kinase and phosphoinositide signalling in bipolar disorder

(2010) Marthe H.R. Ludtmann et al.   SEMINARS IN CELL & DEVELOPMENTAL BIOLOGY

A novel, human Atg13 binding protein, Atg101, interacts with ULK1 and is essential for macroautophagy

(2009) Carol A. Mercer et al.   Autophagy

Autophagy contributes to degradation of Hirano bodies

(2009) Dong-Hwan Kim et al.   Autophagy

Atg101, a novel mammalian autophagy protein interacting with Atg13

(2009) Nao Hosokawa et al.   Autophagy

Legionella pneumophila multiplication is enhanced by chronic AMPK signalling in mitochondrially diseased Dictyostelium cells

(2009) L. Francione et al.   Disease Models & Mechanisms

Targeting the actin-binding protein VASP to late endosomes induces the formation of giant actin aggregates

(2009) Christian Schmauch et al.   EUROPEAN JOURNAL OF CELL BIOLOGY

Deletions in theVPS13B(COH1) gene as a cause of Cohen syndrome

(2009) I. Balikova et al.   HUMAN MUTATION

Tor Directly Controls the Atg1 Kinase Complex To Regulate Autophagy

(2009) Y. Kamada et al.   MOLECULAR AND CELLULAR BIOLOGY

Autophagy genes protect against Salmonella typhimurium infection and mediate insulin signaling-regulated pathogen resistance

(2009) K. Jia et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Infection by Tubercular Mycobacteria Is Spread by Nonlytic Ejection from Their Amoeba Hosts

(2009) M. Hagedorn et al.   SCIENCE

Atg5-Independent Sequestration of Ubiquitinated Mycobacteria

(2009) Cathleen A. Collins et al.   PLoS Pathogens

Clinical studies in familial VCP myopathy associated with Paget disease of bone and frontotemporal dementia

(2008) Virginia. E. Kimonis et al.   AMERICAN JOURNAL OF MEDICAL GENETICS PART A

Autophagic cell death: Analysis in Dictyostelium

(2008) Corinne Giusti et al.   BIOCHIMICA ET BIOPHYSICA ACTA-MOLECULAR CELL RESEARCH

Autophagic or necrotic cell death triggered by distinct motifs of the differentiation factor DIF-1

(2008) M F Luciani et al.   CELL DEATH AND DIFFERENTIATION

Comparative pathogenesis of Mycobacterium marinum and Mycobacterium tuberculosis

(2008) David M. Tobin et al.   CELLULAR MICROBIOLOGY

DIF-1 induces the basal disc of the Dictyostelium fruiting body

(2008) Tamao Saito et al.   DEVELOPMENTAL BIOLOGY

Necrotic cell death: From reversible mitochondrial uncoupling to irreversible lysosomal permeabilization

(2008) Corinne Giusti et al.   EXPERIMENTAL CELL RESEARCH

Evidence for Pore Formation in Host Cell Membranes by ESX-1-Secreted ESAT-6 and Its Role in Mycobacterium marinum Escape from the Vacuole

(2008) J. Smith et al.   INFECTION AND IMMUNITY

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

Vacuole Membrane Protein 1 Is an Endoplasmic Reticulum Protein Required for Organelle Biogenesis, Protein Secretion, and Development

(2008) Javier Calvo-Garrido et al.   MOLECULAR BIOLOGY OF THE CELL