The autophagosome: origins unknown, biogenesis complex

A novel mammalian trans-membrane protein reveals an alternative initiation pathway for autophagy

(2014) Maria I. Vaccaro et al.   Autophagy

Regulation of nutrient-sensitive autophagy by uncoordinated 51-like kinases 1 and 2

(2013) Fiona McAlpine et al.   Autophagy

Diverse Autophagosome Membrane Sources Coalesce in Recycling Endosomes

(2013) Claudia Puri et al.   CELL

Membrane remodeling by the PX-BAR protein SNX18 promotes autophagosome formation

(2013) Helene Knævelsrud et al.   JOURNAL OF CELL BIOLOGY

Fine mapping of autophagy-related proteins during autophagosome formation in Saccharomyces cerevisiae

(2013) K. Suzuki et al.   JOURNAL OF CELL SCIENCE

ER exit sites are physical and functional core autophagosome biogenesis components

(2013) Martin Graef et al.   MOLECULAR BIOLOGY OF THE CELL

Autophagosomes form at ER–mitochondria contact sites

(2013) Maho Hamasaki et al.   NATURE

Identification of a candidate therapeutic autophagy-inducing peptide

(2013) Sanae Shoji-Kawata et al.   NATURE

mTOR inhibits autophagy by controlling ULK1 ubiquitylation, self-association and function through AMBRA1 and TRAF6

(2013) Francesca Nazio 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

Atg12–Atg5 conjugate enhances E2 activity of Atg3 by rearranging its catalytic site

(2013) Machiko Sakoh-Nakatogawa et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

Autophagy in Human Health and Disease

(2013) Augustine M.K. Choi et al.   NEW ENGLAND JOURNAL OF MEDICINE

A HORMA domain in Atg13 mediates PI 3-kinase recruitment in autophagy

(2013) C. C. Jao et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Bacterial Subversion of Host Innate Immune Pathways

(2013) L. A. Baxt et al.   SCIENCE

Autophagosome formation—The role of ULK1 and Beclin1–PI3KC3 complexes in setting the stage

(2013) Martina Wirth et al.   SEMINARS IN CANCER BIOLOGY

The ER–Golgi intermediate compartment is a key membrane source for the LC3 lipidation step of autophagosome biogenesis

(2013) Liang Ge et al.   eLife

Endocytosis and autophagy: Shared machinery for degradation

(2012) Christopher A. Lamb et al.   BIOESSAYS

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

(2012) Eisuke Itakura et al.   CELL

Architecture of the Atg17 Complex as a Scaffold for Autophagosome Biogenesis

(2012) Michael J. Ragusa et al.   CELL

Ragulator Is a GEF for the Rag GTPases that Signal Amino Acid Levels to mTORC1

(2012) Liron Bar-Peled et al.   CELL

mTOR Signaling in Growth Control and Disease

(2012) Mathieu Laplante et al.   CELL

The pathways of mitophagy for quality control and clearance of mitochondria

(2012) G Ashrafi et al.   CELL DEATH AND DIFFERENTIATION

Regulation of TOR by small GTPases

(2012) Raúl V Durán et al.   EMBO REPORTS

Phosphatidylinositol 3-Phosphatase Myotubularin-related Protein 6 (MTMR6) Is Regulated by Small GTPase Rab1B in the Early Secretory and Autophagic Pathways

(2012) Yasuhiro Mochizuki et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

Atg9 Vesicles Recruit Vesicle-tethering Proteins Trs85 and Ypt1 to the Autophagosome Formation Site

(2012) Soichiro Kakuta et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

Structure-based Analyses Reveal Distinct Binding Sites for Atg2 and Phosphoinositides in Atg18

(2012) Yasunori Watanabe et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

TBC1D14 regulates autophagosome formation via Rab11- and ULK1-positive recycling endosomes

(2012) Andrea Longatti et al.   JOURNAL OF CELL BIOLOGY

Arf6 promotes autophagosome formation via effects on phosphatidylinositol 4,5-bisphosphate and phospholipase D

(2012) Kevin Moreau et al.   JOURNAL OF CELL BIOLOGY

Atg9 vesicles are an important membrane source during early steps of autophagosome formation

(2012) Hayashi Yamamoto et al.   JOURNAL OF CELL BIOLOGY

Mammalian Atg2 proteins are essential for autophagosome formation and important for regulation of size and distribution of lipid droplets

(2012) Anoop Kumar G. Velikkakath et al.   MOLECULAR BIOLOGY OF THE CELL

Dynamic and transient interactions of Atg9 with autophagosomes, but not membrane integration, are required for autophagy

(2012) A. Orsi et al.   MOLECULAR BIOLOGY OF THE CELL

Two-Site Recognition of Phosphatidylinositol 3-Phosphate by PROPPINs in Autophagy

(2012) Sulochanadevi Baskaran et al.   MOLECULAR CELL

TBC1D7 Is a Third Subunit of the TSC1-TSC2 Complex Upstream of mTORC1

(2012) Christian C. Dibble et al.   MOLECULAR CELL

Endoplasmic reticulum–mitochondria contacts: function of the junction

(2012) Ashley A. Rowland et al.   NATURE REVIEWS MOLECULAR CELL BIOLOGY

Structural and functional characterization of the two phosphoinositide binding sites of PROPPINs, a β-propeller protein family

(2012) Roswitha Krick et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Exorcising the Exocyst Complex

(2012) Margaret R. Heider et al.   TRAFFIC

Bidirectional crosstalk between endoplasmic reticulum stress and mTOR signaling

(2012) Christian Appenzeller-Herzog et al.   TRENDS IN CELL BIOLOGY

The Role of Atg Proteins in Autophagosome Formation

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

Resveratrol-mediated autophagy requires WIPI-1-regulated LC3 lipidation in the absence of induced phagophore formation

(2011) Mario Mauthe et al.   Autophagy

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

(2011) Dalibor Mijaljica et al.   Autophagy

Seeing is believing: The impact of electron microscopy on autophagy research

(2011) Eeva-Liisa Eskelinen et al.   Autophagy

RalB and the Exocyst Mediate the Cellular Starvation Response by Direct Activation of Autophagosome Assembly

(2011) Brian O. Bodemann et al.   CELL

Autophagosome Precursor Maturation Requires Homotypic Fusion

(2011) Kevin Moreau et al.   CELL

Membrane shaping by the Bin/amphiphysin/Rvs (BAR) domain protein superfamily

(2011) Yijian Rao et al.   CELLULAR AND MOLECULAR LIFE SCIENCES

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

(2011) Hilla Weidberg et al.   DEVELOPMENTAL CELL

The WD40 Repeat PtdIns(3)P-Binding Protein EPG-6 Regulates Progression of Omegasomes to Autophagosomes

(2011) Qun Lu et al.   DEVELOPMENTAL CELL

Mitochondrial BCL-2 inhibits AMBRA1-induced autophagy

(2011) Flavie Strappazzon et al.   EMBO JOURNAL

RUTBC1 Protein, a Rab9A Effector That Activates GTP Hydrolysis by Rab32 and Rab33B Proteins

(2011) Ryan M. Nottingham et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

OATL1, a novel autophagosome-resident Rab33B-GAP, regulates autophagosomal maturation

(2011) Takashi Itoh et al.   JOURNAL OF CELL BIOLOGY

Role of AMPK-mTOR-Ulk1/2 in the Regulation of Autophagy: Cross Talk, Shortcuts, and Feedbacks

(2011) S. Alers et al.   MOLECULAR AND CELLULAR BIOLOGY

The LC3 recruitment mechanism is separate from Atg9L1-dependent membrane formation in the autophagic response against Salmonella

(2011) Shun Kageyama et al.   MOLECULAR BIOLOGY OF THE CELL

Serine 403 Phosphorylation of p62/SQSTM1 Regulates Selective Autophagic Clearance of Ubiquitinated Proteins

(2011) Gen Matsumoto et al.   MOLECULAR CELL

AMPK and mTOR regulate autophagy through direct phosphorylation of Ulk1

(2011) Joungmok Kim et al.   NATURE CELL BIOLOGY

Autophagosome targeting and membrane curvature sensing by Barkor/Atg14(L)

(2011) W. Fan et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

mTORC1 Senses Lysosomal Amino Acids Through an Inside-Out Mechanism That Requires the Vacuolar H+-ATPase

(2011) R. Zoncu et al.   SCIENCE

mTOR Signaling

(2011) M. Laplante et al.   Cold Spring Harbor Perspectives in Biology

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

(2010) Eisuke Itakura et al.   Autophagy

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

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

Antibacterial autophagy occurs at PI(3)P-enriched domains of the endoplasmic reticulum and requires Rab1 GTPase

(2010) Ju Huang et al.   Autophagy

Bif-1 regulates Atg9 trafficking by mediating the fission of Golgi membranes during autophagy

(2010) Yoshinori Takahashi et al.   Autophagy

Mitochondria Supply Membranes for Autophagosome Biogenesis during Starvation

(2010) Dale W. Hailey et al.   CELL

Ragulator-Rag Complex Targets mTORC1 to the Lysosomal Surface and Is Necessary for Its Activation by Amino Acids

(2010) Yasemin Sancak et al.   CELL

Lipid Kinases: Charging PtdIns(4,5)P2 Synthesis

(2010) Nullin Divecha   CURRENT BIOLOGY

Multisubunit Tethering Complexes and Their Role in Membrane Fusion

(2010) Cornelia Bröcker et al.   CURRENT BIOLOGY

Insulin like growth factor-1-induced phosphorylation and altered distribution of tuberous sclerosis complex (TSC)1/TSC2 in C2C12 myotubes

(2010) Mitsunori Miyazaki et al.   FEBS Journal

α-Synuclein impairs macroautophagy: implications for Parkinson’s disease

(2010) Ashley R. Winslow et al.   JOURNAL OF CELL BIOLOGY

The dynamic interaction of AMBRA1 with the dynein motor complex regulates mammalian autophagy

(2010) Sabrina Di Bartolomeo et al.   JOURNAL OF CELL BIOLOGY

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

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

Autophagy requires endoplasmic reticulum targeting of the PI3-kinase complex via Atg14L

(2010) Kohichi Matsunaga et al.   JOURNAL OF CELL BIOLOGY

Membrane Delivery to the Yeast Autophagosome from the Golgi–Endosomal System

(2010) Yohei Ohashi et al.   MOLECULAR BIOLOGY OF THE CELL

Exit from the Golgi Is Required for the Expansion of the Autophagosomal Phagophore in Yeast Saccharomyces cerevisiae

(2010) Aniek van der Vaart et al.   MOLECULAR BIOLOGY OF THE CELL

Post-Golgi Sec Proteins Are Required for Autophagy in Saccharomyces cerevisiae

(2010) Jiefei Geng et al.   MOLECULAR BIOLOGY OF THE CELL

The Selective Macroautophagic Degradation of Aggregated Proteins Requires the PI3P-Binding Protein Alfy

(2010) Maria Filimonenko et al.   MOLECULAR CELL

Network organization of the human autophagy system

(2010) Christian Behrends et al.   NATURE

Plasma membrane contributes to the formation of pre-autophagosomal structures

(2010) Brinda Ravikumar et al.   NATURE CELL BIOLOGY

TRAPP complexes in membrane traffic: convergence through a common Rab

(2010) Jemima Barrowman et al.   NATURE REVIEWS MOLECULAR CELL BIOLOGY

Trs85 directs a Ypt1 GEF, TRAPPIII, to the phagophore to promote autophagy

(2010) Molly A. Lynch-Day et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Phosphorylation of ULK1 (hATG1) by AMP-Activated Protein Kinase Connects Energy Sensing to Mitophagy

(2010) D. F. Egan et al.   SCIENCE

Chaperone-mediated autophagy: Molecular mechanisms and physiological relevance

(2010) Samantha J. Orenstein et al.   SEMINARS IN CELL & DEVELOPMENTAL BIOLOGY

Physiological role of autophagy as an intracellular recycling system: With an emphasis on nutrient metabolism

(2010) Akiko Kuma et al.   SEMINARS IN CELL & DEVELOPMENTAL BIOLOGY

When autophagy meets viruses: a double-edged sword with functions in defense and offense

(2010) Hee Jin Kim et al.   Seminars in Immunopathology

Modulation of Local PtdIns3P Levels by the PI Phosphatase MTMR3 Regulates Constitutive Autophagy

(2010) Naoko Taguchi-Atarashi et al.   TRAFFIC

Autophagosome Formation Depends on the Small GTPase Rab1 and Functional ER Exit Sites

(2010) Felipe Carlos Martín Zoppino et al.   TRAFFIC

The phospholipase D1 pathway modulates macroautophagy

(2010) Claudia Dall'Armi et al.   Nature Communications

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

(2009) Carol A. Mercer et al.   Autophagy

3D tomography reveals connections between the phagophore and endoplasmic reticulum

(2009) Päivi Ylä-Anttila et al.   Autophagy

Atg101, a novel mammalian autophagy protein interacting with Atg13

(2009) Nao Hosokawa et al.   Autophagy

Control of autophagy initiation by phosphoinositide 3-phosphatase jumpy

(2009) Isabelle Vergne et al.   EMBO JOURNAL

Coordinated regulation of autophagy by p38α MAPK through mAtg9 and p38IP

(2009) Jemma L Webber et al.   EMBO JOURNAL

Nix is a selective autophagy receptor for mitochondrial clearance

(2009) Ivana Novak et al.   EMBO REPORTS

Coordination of membrane events during autophagy by multiple class III PI3-kinase complexes

(2009) Anne Simonsen et al.   JOURNAL OF CELL BIOLOGY

Molecular mechanisms of clathrin-independent endocytosis

(2009) C. G. Hansen et al.   JOURNAL OF CELL SCIENCE

Activation of the Akt-NF- B Pathway by Subtilase Cytotoxin through the ATF6 Branch of the Unfolded Protein Response

(2009) H. Yamazaki et al.   JOURNAL OF IMMUNOLOGY

Hypoxia-Induced Autophagy Is Mediated through Hypoxia-Inducible Factor Induction of BNIP3 and BNIP3L via Their BH3 Domains

(2009) G. Bellot et al.   MOLECULAR AND CELLULAR BIOLOGY

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

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

Two Beclin 1-binding proteins, Atg14L and Rubicon, reciprocally regulate autophagy at different stages

(2009) Kohichi Matsunaga et al.   NATURE CELL BIOLOGY

Rab GTPases as coordinators of vesicle traffic

(2009) Harald Stenmark   NATURE REVIEWS MOLECULAR CELL BIOLOGY

Hypoxia signals autophagy in tumor cells via AMPK activity, independent of HIF-1, BNIP3 and BNIP3L

(2008) I Papandreou et al.   CELL DEATH AND DIFFERENTIATION

Role of HRB in Clathrin-dependent Endocytosis

(2008) Mathilde Chaineau et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

Structural Basis for Sorting Mechanism of p62 in Selective Autophagy

(2008) Yoshinobu Ichimura et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

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

Parkin is recruited selectively to impaired mitochondria and promotes their autophagy

(2008) Derek Narendra et al.   JOURNAL OF CELL BIOLOGY

FIP200, a ULK-interacting protein, is required for autophagosome formation in mammalian cells

(2008) Taichi Hara et al.   JOURNAL OF CELL BIOLOGY

Kinase-Inactivated ULK Proteins Inhibit Autophagy via Their Conserved C-Terminal Domains Using an Atg13-Independent Mechanism

(2008) E. Y. W. Chan et al.   MOLECULAR AND CELLULAR BIOLOGY

Golgi-resident Small GTPase Rab33B Interacts with Atg16L and Modulates Autophagosome Formation

(2008) Takashi Itoh et al.   MOLECULAR BIOLOGY OF THE CELL

An Atg4B Mutant Hampers the Lipidation of LC3 Paralogues and Causes Defects in Autophagosome Closure

(2008) Naonobu Fujita et al.   MOLECULAR BIOLOGY OF THE CELL

AMPK Phosphorylation of Raptor Mediates a Metabolic Checkpoint

(2008) Dana M. Gwinn et al.   MOLECULAR CELL

Membrane lipids: where they are and how they behave

(2008) Gerrit van Meer et al.   NATURE REVIEWS MOLECULAR CELL BIOLOGY

Identification of Barkor as a mammalian autophagy-specific factor for Beclin 1 and class III phosphatidylinositol 3-kinase

(2008) Q. Sun et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

The Rag GTPases Bind Raptor and Mediate Amino Acid Signaling to mTORC1

(2008) Y. Sancak et al.   SCIENCE

Molecular Mechanisms of PLD Function in Membrane Traffic

(2008) Michael G. Roth   TRAFFIC