Genetic control of autophagy underlies pathogenesis of inflammatory bowel disease

Soluble bioactive microbial mediators regulate proteasomal degradation and autophagy to protect against inflammation-induced stress

(2016) Yuhei Inaba et al.   AMERICAN JOURNAL OF PHYSIOLOGY-GASTROINTESTINAL AND LIVER PHYSIOLOGY

Autophagy Evasion and Endoplasmic Reticulum Subversion: The Yin and Yang ofLegionellaIntracellular Infection

(2016) Racquel Kim Sherwood et al.   Annual Review of Microbiology

Chemotactic G protein-coupled receptors control cell migration by repressing autophagosome biogenesis

(2016) Pierre-Michaël Coly et al.   Autophagy

HLH-30/TFEB-mediated autophagy functions in a cell-autonomous manner for epithelium intrinsic cellular defense against bacterial pore-forming toxin in C. elegans

(2016) Huan-Da Chen et al.   Autophagy

Structure biology of selective autophagy receptors

(2016) Byeong-Won Kim et al.   BMB Reports

Phosphoribosylation of Ubiquitin Promotes Serine Ubiquitination and Impairs Conventional Ubiquitination

(2016) Sagar Bhogaraju et al.   CELL

Fanconi Anemia Proteins Function in Mitophagy and Immunity

(2016) Rhea Sumpter et al.   CELL

Noncanonical Fungal Autophagy Inhibits Inflammation in Response to IFN-γ via DAPK1

(2016) Vasilis Oikonomou et al.   Cell Host & Microbe

Intrinsic Defense Mechanisms of the Intestinal Epithelium

(2016) Deepshika Ramanan et al.   Cell Host & Microbe

Systemic Analysis of Atg5 -Null Mice Rescued from Neonatal Lethality by Transgenic ATG5 Expression in Neurons

(2016) Saori R. Yoshii et al.   DEVELOPMENTAL CELL

TRIMs and Galectins Globally Cooperate and TRIM16 and Galectin-3 Co-direct Autophagy in Endomembrane Damage Homeostasis

(2016) Santosh Chauhan et al.   DEVELOPMENTAL CELL

Dedicated SNAREs and specialized TRIM cargo receptors mediate secretory autophagy

(2016) Tomonori Kimura et al.   EMBO JOURNAL

Recruitment of TBK1 to cytosol‐invading Salmonella induces WIPI2‐dependent antibacterial autophagy

(2016) Teresa LM Thurston et al.   EMBO JOURNAL

Autophagosome–lysosome fusion in neurons requires INPP5E, a protein associated with Joubert syndrome

(2016) Junya Hasegawa et al.   EMBO JOURNAL

Peroxisomal protein PEX13 functions in selective autophagy

(2016) Ming Y Lee et al.   EMBO REPORTS

A Pleiotropic Missense Variant in SLC39A8 Is Associated With Crohn’s Disease and Human Gut Microbiome Composition

(2016) Dalin Li et al.   GASTROENTEROLOGY

ARC Syndrome-Linked Vps33B Protein Is Required for Inflammatory Endosomal Maturation and Signal Termination

(2016) Mohammed Ali Akbar et al.   IMMUNITY

Genetic Coding Variant in GPR65 Alters Lysosomal pH and Links Lysosomal Dysfunction with Colitis Risk

(2016) Kara G. Lassen et al.   IMMUNITY

Regulation of inflammasomes by autophagy

(2016) Tatsuya Saitoh et al.   JOURNAL OF ALLERGY AND CLINICAL IMMUNOLOGY

An siRNA screen for ATG protein depletion reveals the extent of the unconventional functions of the autophagy proteome in virus replication

(2016) Mario Mauthe et al.   JOURNAL OF CELL BIOLOGY

Fine-tuning of ULK1 mRNA and protein levels is required for autophagy oscillation

(2016) Francesca Nazio et al.   JOURNAL OF CELL BIOLOGY

Precision autophagy directed by receptor regulators – emerging examples within the TRIM family

(2016) Tomonori Kimura et al.   JOURNAL OF CELL SCIENCE

Global Analysis of Host and Bacterial Ubiquitinome in Response to Salmonella Typhimurium Infection

(2016) Evgenij Fiskin et al.   MOLECULAR CELL

The Incredible ULKs: Autophagy and Beyond

(2016) Yan G. Zhao et al.   MOLECULAR CELL

An Autophagic Flux Probe that Releases an Internal Control

(2016) Takeshi Kaizuka et al.   MOLECULAR CELL

The Noncanonical Role of ULK/ATG1 in ER-to-Golgi Trafficking Is Essential for Cellular Homeostasis

(2016) Joung Hyuck Joo et al.   MOLECULAR CELL

The ATG16L1 risk allele associated with Crohn’s disease results in a Rac1-dependent defect in dendritic cell migration that is corrected by thiopurines

(2016) M E Wildenberg et al.   Mucosal Immunology

The amino acid sensor GCN2 controls gut inflammation by inhibiting inflammasome activation

(2016) Rajesh Ravindran et al.   NATURE

Noncanonical autophagy inhibits the autoinflammatory, lupus-like response to dying cells

(2016) Jennifer Martinez et al.   NATURE

Autophagy enforces functional integrity of regulatory T cells by coupling environmental cues and metabolic homeostasis

(2016) Jun Wei et al.   NATURE IMMUNOLOGY

Autophagy wins the 2016 Nobel Prize in Physiology or Medicine: Breakthroughs in baker's yeast fuel advances in biomedical research

(2016) Beth Levine et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Phosphorylation of OPTN by TBK1 enhances its binding to Ub chains and promotes selective autophagy of damaged mitochondria

(2016) Benjamin Richter et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

The ATG conjugation systems are important for degradation of the inner autophagosomal membrane

(2016) Kotaro Tsuboyama et al.   SCIENCE

Gene-microbiota interactions contribute to the pathogenesis of inflammatory bowel disease

(2016) H. Chu et al.   SCIENCE

Ubiquitin-Dependent And Independent Signals In Selective Autophagy

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

Autophagy Beyond Intracellular MHC Class II Antigen Presentation

(2016) Christian Münz   TRENDS IN IMMUNOLOGY

The T300A Crohn’s disease risk polymorphism impairs function of the WD40 domain of ATG16L1

(2016) Emilio Boada-Romero et al.   Nature Communications

RNF166 Determines Recruitment of Adaptor Proteins during Antibacterial Autophagy

(2016) Robert J. Heath et al.   Cell Reports

The Mitochondria-Regulated Immune Pathway Activated in the C. elegans Intestine Is Neuroprotective

(2016) Madhusudana Rao Chikka et al.   Cell Reports

Atg5 Is Essential for the Development and Survival of Innate Lymphocytes

(2016) Timothy E. O’Sullivan et al.   Cell Reports

The autophagy gene Atg16l1 differentially regulates Treg and TH2 cells to control intestinal inflammation

(2016) Agnieszka M Kabat et al.   eLife

The Mucosal Immune System and Its Regulation by Autophagy

(2016) Agnieszka M. Kabat et al.   Frontiers in Immunology

mTOR independent regulation of macroautophagy by Leucine Rich Repeat Kinase 2 via Beclin-1

(2016) Claudia Manzoni et al.   Scientific Reports

Modification of BECN1 by ISG15 plays a crucial role in autophagy regulation by type I IFN/interferon

(2015) Daichao Xu et al.   Autophagy

A large-scale analysis of autophagy-related gene expression identifies new regulators of autophagy

(2015) Amélie Bernard et al.   Autophagy

Molecular basis of ubiquitin recognition by the autophagy receptor CALCOCO2

(2015) Xingqiao Xie et al.   Autophagy

Transcriptional and epigenetic regulation of autophagy in aging

(2015) Louis R Lapierre et al.   Autophagy

CD5L/AIM Regulates Lipid Biosynthesis and Restrains Th17 Cell Pathogenicity

(2015) Chao Wang et al.   CELL

The BioPlex Network: A Systematic Exploration of the Human Interactome

(2015) Edward L. Huttlin et al.   CELL

Lack of Vitamin D Receptor Causes Dysbiosis and Changes the Functions of the Murine Intestinal Microbiome

(2015) Dapeng Jin et al.   CLINICAL THERAPEUTICS

Rph1/KDM4 Mediates Nutrient-Limitation Signaling that Leads to the Transcriptional Induction of Autophagy

(2015) Amélie Bernard et al.   CURRENT BIOLOGY

Role of endoplasmic reticulum stress and autophagy as interlinking pathways in the pathogenesis of inflammatory bowel disease

(2015) Shuhei Hosomi et al.   CURRENT OPINION IN GASTROENTEROLOGY

Emerging themes in bacterial autophagy

(2015) Matthew T Sorbara et al.   CURRENT OPINION IN MICROBIOLOGY

p62 links autophagy and Nrf2 signaling

(2015) Tao Jiang et al.   FREE RADICAL BIOLOGY AND MEDICINE

Autophagy Enhances Intestinal Epithelial Tight Junction Barrier Function by Targeting Claudin-2 Protein Degradation

(2015) Prashant K. Nighot et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

RUN and FYVE domain–containing protein 4 enhances autophagy and lysosome tethering in response to Interleukin-4

(2015) Seigo Terawaki et al.   JOURNAL OF CELL BIOLOGY

TRIM-mediated precision autophagy targets cytoplasmic regulators of innate immunity

(2015) Tomonori Kimura et al.   JOURNAL OF CELL BIOLOGY

Immunologic manifestations of autophagy

(2015) Vojo Deretic et al.   JOURNAL OF CLINICAL INVESTIGATION

Cytosolic HMGB1 controls the cellular autophagy/apoptosis checkpoint during inflammation

(2015) Xiaorong Zhu et al.   JOURNAL OF CLINICAL INVESTIGATION

PLEKHM1 Regulates Autophagosome-Lysosome Fusion through HOPS Complex and LC3/GABARAP Proteins

(2015) David G. McEwan et al.   MOLECULAR CELL

IRGM Governs the Core Autophagy Machinery to Conduct Antimicrobial Defense

(2015) Santosh Chauhan et al.   MOLECULAR CELL

Unique role for ATG5 in neutrophil-mediated immunopathology during M. tuberculosis infection

(2015) Jacqueline M. Kimmey et al.   NATURE

The biology of innate lymphoid cells

(2015) David Artis et al.   NATURE

ATG14 promotes membrane tethering and fusion of autophagosomes to endolysosomes

(2015) Jiajie Diao et al.   NATURE

Regulation of endoplasmic reticulum turnover by selective autophagy

(2015) Aliaksandr Khaminets et al.   NATURE

The ubiquitin kinase PINK1 recruits autophagy receptors to induce mitophagy

(2015) Michael Lazarou et al.   NATURE

Rubicon swaps autophagy for LAP

(2015) Keith B. Boyle et al.   NATURE CELL BIOLOGY

Molecular characterization of LC3-associated phagocytosis reveals distinct roles for Rubicon, NOX2 and autophagy proteins

(2015) Jennifer Martinez et al.   NATURE CELL BIOLOGY

MTMR3risk allele enhances innate receptor-induced signaling and cytokines by decreasing autophagy and increasing caspase-1 activation

(2015) Amit Lahiri et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

A Noncanonical Autophagy Pathway Restricts Toxoplasma gondii Growth in a Strain-Specific Manner in IFN-γ-Activated Human Cells

(2015) Elizabeth M. Selleck et al.   mBio

Metabolite-sensing receptors GPR43 and GPR109A facilitate dietary fibre-induced gut homeostasis through regulation of the inflammasome

(2015) Laurence Macia et al.   Nature Communications

NLRP6 Inflammasome Orchestrates the Colonic Host-Microbial Interface by Regulating Goblet Cell Mucus Secretion

(2014) Marta Wlodarska et al.   CELL

Self and Nonself: How Autophagy Targets Mitochondria and Bacteria

(2014) Felix Randow et al.   Cell Host & Microbe

Activation of Pattern Recognition Receptors Up-Regulates Metallothioneins, Thereby Increasing Intracellular Accumulation of Zinc, Autophagy, and Bacterial Clearance by Macrophages

(2014) Amit Lahiri et al.   GASTROENTEROLOGY

Intestinal epithelial vitamin D receptor deletion leads to defective autophagy in colitis

(2014) Shaoping Wu et al.   GUT

Innate Host Defense Requires TFEB-Mediated Transcription of Cytoprotective and Antimicrobial Genes

(2014) Orane Visvikis et al.   IMMUNITY

Symbiotic Bacterial Metabolites Regulate Gastrointestinal Barrier Function via the Xenobiotic Sensor PXR and Toll-like Receptor 4

(2014) Madhukumar Venkatesh et al.   IMMUNITY

Regulation of autophagy by protein post-translational modification

(2014) Willayat Yousuf Wani et al.   LABORATORY INVESTIGATION

A Crohn’s disease variant in Atg16l1 enhances its degradation by caspase 3

(2014) Aditya Murthy et al.   NATURE

Quantitative proteomics identifies NCOA4 as the cargo receptor mediating ferritinophagy

(2014) Joseph D. Mancias et al.   NATURE

Diverse intracellular pathogens activate type III interferon expression from peroxisomes

(2014) Charlotte Odendall et al.   NATURE IMMUNOLOGY

Bacteria–autophagy interplay: a battle for survival

(2014) Ju Huang et al.   NATURE REVIEWS MICROBIOLOGY

Atg16L1 T300A variant decreases selective autophagy resulting in altered cytokine signaling and decreased antibacterial defense

(2014) K. G. Lassen et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

ATG5 regulates plasma cell differentiation

(2013) Kara L. Conway et al.   Autophagy

LITAF, a BCL6 target gene, regulates autophagy in mature B-cell lymphomas

(2013) Cristina Bertolo et al.   BRITISH JOURNAL OF HAEMATOLOGY

Intestinal Epithelial Autophagy Is Essential for Host Defense against Invasive Bacteria

(2013) Jamaal L. Benjamin et al.   Cell Host & Microbe

Autophagy and human diseases

(2013) Peidu Jiang et al.   CELL RESEARCH

Autophagy sequesters damaged lysosomes to control lysosomal biogenesis and kidney injury

(2013) Ikuko Maejima et al.   EMBO JOURNAL

Atg16l1 is Required for Autophagy in Intestinal Epithelial Cells and Protection of Mice From Salmonella Infection

(2013) Kara L. Conway et al.   GASTROENTEROLOGY

Genomic ATG16L1 risk allele-restricted Paneth cell ER stress in quiescent Crohn's disease

(2013) J Jasper Deuring et al.   GUT

Tubulin Polymerization-promoting Protein (TPPP/p25α) Promotes Unconventional Secretion of α-Synuclein through Exophagy by Impairing Autophagosome-Lysosome Fusion

(2013) Patrick Ejlerskov et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

The ubiquitin ligase parkin mediates resistance to intracellular pathogens

(2013) Paolo S. Manzanillo et al.   NATURE

The histone H4 lysine 16 acetyltransferase hMOF regulates the outcome of autophagy

(2013) Jens Füllgrabe et al.   NATURE

Plasma cells require autophagy for sustainable immunoglobulin production

(2013) Niccolò Pengo et al.   NATURE IMMUNOLOGY

Autosis is a Na+,K+-ATPase-regulated form of cell death triggered by autophagy-inducing peptides, starvation, and hypoxia-ischemia

(2013) Y. Liu et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Polyunsaturated fatty acid saturation by gut lactic acid bacteria affecting host lipid composition

(2013) S. Kishino et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

The Hairpin-type Tail-Anchored SNARE Syntaxin 17 Targets to Autophagosomes for Fusion with Endosomes/Lysosomes

(2012) Eisuke Itakura et al.   CELL

The LRR and RING Domain Protein LRSAM1 Is an E3 Ligase Crucial for Ubiquitin-Dependent Autophagy of Intracellular Salmonella Typhimurium

(2012) Alan Huett et al.   Cell Host & Microbe

ZIP8 Is an Iron and Zinc Transporter Whose Cell-surface Expression Is Up-regulated by Cellular Iron Loading

(2012) Chia-Yu Wang et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

Galectin 8 targets damaged vesicles for autophagy to defend cells against bacterial invasion

(2012) Teresa L. M. Thurston et al.   NATURE

Host–microbe interactions have shaped the genetic architecture of inflammatory bowel disease

(2012) Luke Jostins et al.   NATURE

TRIM27 Negatively Regulates NOD2 by Ubiquitination and Proteasomal Degradation

(2012) Birte Zurek et al.   PLoS One

Crohn disease: A current perspective on genetics, autophagy and immunity

(2011) Thaddeus S. Stappenbeck et al.   Autophagy

SNARE Proteins Are Required for Macroautophagy

(2011) Usha Nair et al.   CELL

Autophagy-based unconventional secretory pathway for extracellular delivery of IL-1β

(2011) Nicolas Dupont et al.   EMBO JOURNAL

Crohn's disease-associated ATG16L1 polymorphism modulates pro-inflammatory cytokine responses selectively upon activation of NOD2

(2011) T. S. Plantinga et al.   GUT

Image-based genome-wide siRNA screen identifies selective autophagy factors

(2011) Anthony Orvedahl et al.   NATURE

Autophagy in immunity and inflammation

(2011) Beth Levine et al.   NATURE

TFEB Links Autophagy to Lysosomal Biogenesis

(2011) C. Settembre et al.   SCIENCE

Virus-Plus-Susceptibility Gene Interaction Determines Crohn's Disease Gene Atg16L1 Phenotypes in Intestine

(2010) Ken Cadwell et al.   CELL

PINK1/Parkin-mediated mitophagy is dependent on VDAC1 and p62/SQSTM1

(2010) Sven Geisler et al.   NATURE CELL BIOLOGY

Genome-wide association identifies multiple ulcerative colitis susceptibility loci

(2010) Dermot P B McGovern et al.   NATURE GENETICS

Autophagy proteins regulate innate immune responses by inhibiting the release of mitochondrial DNA mediated by the NALP3 inflammasome

(2010) Kiichi Nakahira et al.   NATURE IMMUNOLOGY

Mechanisms of mitophagy

(2010) Richard J. Youle et al.   NATURE REVIEWS MOLECULAR CELL BIOLOGY

Involvement of Proton-Sensing TDAG8 in Extracellular Acidification-Induced Inhibition of Proinflammatory Cytokine Production in Peritoneal Macrophages

(2009) C. Mogi et al.   JOURNAL OF IMMUNOLOGY

Mantle skewness and ridge segmentation

(2009) Satish C. Singh et al.   NATURE

Regulation of inflammatory responses by gut microbiota and chemoattractant receptor GPR43

(2009) Kendle M. Maslowski et al.   NATURE

XBP1 Links ER Stress to Intestinal Inflammation and Confers Genetic Risk for Human Inflammatory Bowel Disease

(2008) Arthur Kaser et al.   CELL

A key role for autophagy and the autophagy gene Atg16l1 in mouse and human intestinal Paneth cells

(2008) Ken Cadwell et al.   NATURE

Genome-wide association defines more than 30 distinct susceptibility loci for Crohn's disease

(2008) Jeffrey C Barrett et al.   NATURE GENETICS