2024
Spartin-mediated lipid transfer facilitates lipid droplet turnover
Wan N, Hong Z, Parson M, Korfhage J, Burke J, Melia T, Reinisch K. Spartin-mediated lipid transfer facilitates lipid droplet turnover. Proceedings Of The National Academy Of Sciences Of The United States Of America 2024, 121: e2314093121. PMID: 38190532, PMCID: PMC10801920, DOI: 10.1073/pnas.2314093121.Peer-Reviewed Original Research
2023
LC3 conjugation to lipid droplets
Omrane M, Melia T, Thiam A. LC3 conjugation to lipid droplets. Autophagy 2023, 19: 3251-3253. PMID: 37599471, PMCID: PMC10621252, DOI: 10.1080/15548627.2023.2249390.Peer-Reviewed Original ResearchConceptsLipid dropletsResponse to different signalsDegradation of lipid dropletsUbiquitin-conjugating enzymeLong-term-starved cellsLC3-interacting regionArtificial lipid dropletsPatatin-like phospholipase domainMicrotubule-associated protein 1 light chain 3 betaFYVE domainTethering factorsE2 enzymesLIR motifLD surfaceZinc fingerEndoplasmic reticulumLipidated LC3BPerilipin 1Phospholipase domainAutophagosome formationAssembly platformPromote degradationProlonged starvationSequestosome 1ZFYVE1/DFCP1Growing thin — How bulk lipid transport drives expansion of the autophagosome membrane but not of its lumen
Melia T. Growing thin — How bulk lipid transport drives expansion of the autophagosome membrane but not of its lumen. Current Opinion In Cell Biology 2023, 83: 102190. PMID: 37385155, PMCID: PMC10528516, DOI: 10.1016/j.ceb.2023.102190.Peer-Reviewed Original ResearchLC3B is lipidated to large lipid droplets during prolonged starvation for noncanonical autophagy
Omrane M, Ben M'Barek K, Santinho A, Nguyen N, Nag S, Melia T, Thiam A. LC3B is lipidated to large lipid droplets during prolonged starvation for noncanonical autophagy. Developmental Cell 2023, 58: 1266-1281.e7. PMID: 37315562, PMCID: PMC10686041, DOI: 10.1016/j.devcel.2023.05.009.Peer-Reviewed Original ResearchConceptsProtein 1 light chain 3BLarge lipid dropletsLight chain 3BStarvation triggersLipidation reactionNoncanonical autophagyLysosomal pathwayAutophagic processStore lipidsAutophagy mechanismLipid dropletsATG3Large LDsProlonged starvationHuman liver cellsLC3BTimes of scarcityStarvationLiver cellsMacrolipophagyAutophagicClose proximityAutophagyATG5MicrotubulesATG9 vesicles comprise the seed membrane of mammalian autophagosomes
Olivas T, Wu Y, Yu S, Luan L, Choi P, Guinn E, Nag S, De Camilli P, Gupta K, Melia T. ATG9 vesicles comprise the seed membrane of mammalian autophagosomes. Journal Of Cell Biology 2023, 222: e202208088. PMID: 37115958, PMCID: PMC10148236, DOI: 10.1083/jcb.202208088.Peer-Reviewed Original ResearchConceptsAtg9 vesiclesMammalian autophagosomesStyrene maleic acid lipid particlesLipid scramblase activityLC3-IIAutophagosomes formAutophagosome membraneMature autophagosomesScramblase activityAutophagosome formationAtg9Lipid transportMembrane growthAutophagosomesNanoscale organizationProtein-mediated transferProteinMembrane surface areaOrganellesVesiclesSeed membraneMembraneLipid particlesLipidsDifferent stages
2022
Functionalized DNA-Origami-Protein Nanopores Generate Large Transmembrane Channels with Programmable Size-Selectivity
Shen Q, Xiong Q, Zhou K, Feng Q, Liu L, Tian T, Wu C, Xiong Y, Melia T, Lusk C, Lin C. Functionalized DNA-Origami-Protein Nanopores Generate Large Transmembrane Channels with Programmable Size-Selectivity. Journal Of The American Chemical Society 2022, 145: 1292-1300. PMID: 36577119, PMCID: PMC9852090, DOI: 10.1021/jacs.2c11226.Peer-Reviewed Original ResearchConceptsExchange of macromoleculesCholesterol-rich membranesHybrid nanoporesSynthetic biologyBiophysical toolsSynthetic cellsTransmembrane channelsTransmembrane nanoporesDNA ringsProtein nanoporeCell membraneBacterial toxinsDNA origami techniqueLipid membranesAnalytical chemistryMacromolecule sizeDNA origamiMembraneProgrammable sizeNanoporesSized poresNucleoporinsAverage inner diameterCellsPneumolysinClosing the autophagosome is easy‐PC
Fuller D, Melia T. Closing the autophagosome is easy‐PC. The EMBO Journal 2022, 42: embj2022113046. PMID: 36478568, PMCID: PMC9841321, DOI: 10.15252/embj.2022113046.Peer-Reviewed Original Research
2021
Atg39 selectively captures inner nuclear membrane into lumenal vesicles for delivery to the autophagosome
Chandra S, Mannino PJ, Thaller DJ, Ader NR, King MC, Melia TJ, Lusk CP. Atg39 selectively captures inner nuclear membrane into lumenal vesicles for delivery to the autophagosome. Journal Of Cell Biology 2021, 220: e202103030. PMID: 34714326, PMCID: PMC8575018, DOI: 10.1083/jcb.202103030.Peer-Reviewed Original ResearchMeSH KeywordsAutophagosomesAutophagyAutophagy-Related ProteinsCytoplasmic VesiclesGreen Fluorescent ProteinsNuclear EnvelopeProtein DomainsReceptors, Cytoplasmic and NuclearSaccharomyces cerevisiaeSaccharomyces cerevisiae ProteinsStructure-Activity RelationshipTime FactorsVacuolesVesicular Transport ProteinsConceptsInner nuclear membraneNuclear envelope lumenOuter nuclear membraneNuclear membraneSplit-GFP reporterNuclear envelope localizationINM proteinsAutophagy apparatusEnvelope localizationLumenal vesiclesLumenal domainCargo adaptorsAtg39Sequence elementsCorrelative lightVesiclesAutophagosomesMembraneNucleophagyAdaptorReporterProteinOverexpressionMotifTMEM41B acts as an ER scramblase required for lipoprotein biogenesis and lipid homeostasis
Huang D, Xu B, Liu L, Wu L, Zhu Y, Ghanbarpour A, Wang Y, Chen FJ, Lyu J, Hu Y, Kang Y, Zhou W, Wang X, Ding W, Li X, Jiang Z, Chen J, Zhang X, Zhou H, Li JZ, Guo C, Zheng W, Zhang X, Li P, Melia T, Reinisch K, Chen XW. TMEM41B acts as an ER scramblase required for lipoprotein biogenesis and lipid homeostasis. Cell Metabolism 2021, 33: 1655-1670.e8. PMID: 34015269, DOI: 10.1016/j.cmet.2021.05.006.Peer-Reviewed Original ResearchA model for a partnership of lipid transfer proteins and scramblases in membrane expansion and organelle biogenesis
Ghanbarpour A, Valverde DP, Melia TJ, Reinisch KM. A model for a partnership of lipid transfer proteins and scramblases in membrane expansion and organelle biogenesis. Proceedings Of The National Academy Of Sciences Of The United States Of America 2021, 118: e2101562118. PMID: 33850023, PMCID: PMC8072408, DOI: 10.1073/pnas.2101562118.Peer-Reviewed Original ResearchConceptsLipid transfer proteinEndoplasmic reticulumAutophagy protein ATG2Membrane dynamics processesTransfer proteinOrganelle biogenesisAutophagosome biogenesisCytosolic leafletOrganelle membranesMembrane expansionScramblasesVMP1Lipid homeostasisTMEM41BAtg9BiogenesisBulk lipidsProteinLipidsAtg2GolgiOrganellesReticulumLeafletsHomeostasis
2019
FIB-SEM 3D CLEM of Cultured Cells
Wu Y, Yu S, De Camilli P, Melia T, Liu X. FIB-SEM 3D CLEM of Cultured Cells. Microscopy And Microanalysis 2019, 25: 1044-1045. DOI: 10.1017/s1431927619005956.Peer-Reviewed Original ResearchATG2 transports lipids to promote autophagosome biogenesis
Valverde DP, Yu S, Boggavarapu V, Kumar N, Lees JA, Walz T, Reinisch KM, Melia TJ. ATG2 transports lipids to promote autophagosome biogenesis. Journal Of Cell Biology 2019, 218: 1787-1798. PMID: 30952800, PMCID: PMC6548141, DOI: 10.1083/jcb.201811139.Peer-Reviewed Original ResearchConceptsProtein-mediated lipid transferLipid transferLipid transfer proteinTransfers lipidsAutophagosome biogenesisAutophagosome membraneDonor membranesN-terminal fragmentDifferent organellesAutophagy proteinsAutophagosome formationKO cellsContact sitesSpecific machineryLipid homeostasisClear functionAtg2BiogenesisProteinDelivery of lipidsLipidsATG2AMembraneOrganellesAutophagosomesMaturation and Clearance of Autophagosomes in Neurons Depends on a Specific Cysteine Protease Isoform, ATG-4.2
Hill SE, Kauffman KJ, Krout M, Richmond JE, Melia TJ, Colón-Ramos DA. Maturation and Clearance of Autophagosomes in Neurons Depends on a Specific Cysteine Protease Isoform, ATG-4.2. Developmental Cell 2019, 49: 251-266.e8. PMID: 30880001, PMCID: PMC6482087, DOI: 10.1016/j.devcel.2019.02.013.Peer-Reviewed Original ResearchConceptsGenetic screenForward genetic screenClearance of autophagosomesProtease isoformsAutophagosomesCell bodiesAutophagosome clearanceSynaptic materialNeurodegenerative diseasesMaturationRetrograde transportNeuronal activityAbnormal accumulationNeuronsSingle neuronsClearanceGABARAPVivoTraffickingAutophagyScreenIsoformsMechanismMembraneSynapseDistinct functions of ATG16L1 isoforms in membrane binding and LC3B lipidation in autophagy-related processes
Lystad AH, Carlsson SR, de la Ballina LR, Kauffman KJ, Nag S, Yoshimori T, Melia TJ, Simonsen A. Distinct functions of ATG16L1 isoforms in membrane binding and LC3B lipidation in autophagy-related processes. Nature Cell Biology 2019, 21: 372-383. PMID: 30778222, PMCID: PMC7032593, DOI: 10.1038/s41556-019-0274-9.Peer-Reviewed Original ResearchConceptsMembrane-binding regionTerminal membrane-binding regionLC3B lipidationMembrane-binding amphipathic helixLC3/GABARAPDifferent cellular conditionsDouble-membrane phagophoreSingle-membrane structuresGABARAP proteinsCanonical autophagyCellular conditionsAmphipathic helixTarget membraneMembrane bindingC-terminusDistinct functionsCovalent modificationLipidationΒ isoformsEssential roleKey eventsIsoformsPhagophoreGABARAPMacroautophagy
2018
Delipidation of mammalian Atg8-family proteins by each of the four ATG4 proteases
Kauffman KJ, Yu S, Jin J, Mugo B, Nguyen N, O'Brien A, Nag S, Lystad AH, Melia TJ. Delipidation of mammalian Atg8-family proteins by each of the four ATG4 proteases. Autophagy 2018, 14: 992-1010. PMID: 29458288, PMCID: PMC6103404, DOI: 10.1080/15548627.2018.1437341.Peer-Reviewed Original ResearchConceptsAtg8-family proteinsAtg4 proteasesATG8 proteinsMammalian Atg8 proteinsMacroautophagy/autophagySimilar enzymatic activityProteolytic processing eventsLIR motifATG4 familyProcessing eventsPhysical anchoringProteinEnzymatic activityProteaseSoluble substratesATG4BTerminal glycinePhagophoreHomologLipidsDelipidationAutophagosomesAutophagyMotifSubstrate
2014
Erratum: Lipidation of the LC3/GABARAP family of autophagy proteins relies on a membrane-curvature-sensing domain in Atg3
Nath S, Dancourt J, Shteyn V, Puente G, Fong W, Nag S, Bewersdorf J, Yamamoto A, Antonny B, Melia T. Erratum: Lipidation of the LC3/GABARAP family of autophagy proteins relies on a membrane-curvature-sensing domain in Atg3. Nature Cell Biology 2014, 16: 821-821. DOI: 10.1038/ncb3017.Peer-Reviewed Original ResearchErratum: Lipidation of the LC3/GABARAP family of autophagy proteins relies on a membrane-curvature-sensing domain in Atg3
Nath S, Dancourt J, Shteyn V, Puente G, Fong W, Nag S, Bewersdorf J, Yamamoto A, Antonny B, Melia T. Erratum: Lipidation of the LC3/GABARAP family of autophagy proteins relies on a membrane-curvature-sensing domain in Atg3. Nature Cell Biology 2014, 16: 716-716. DOI: 10.1038/ncb3002.Peer-Reviewed Original ResearchLipidation of the LC3/GABARAP family of autophagy proteins relies on a membrane-curvature-sensing domain in Atg3
Nath S, Dancourt J, Shteyn V, Puente G, Fong WM, Nag S, Bewersdorf J, Yamamoto A, Antonny B, Melia TJ. Lipidation of the LC3/GABARAP family of autophagy proteins relies on a membrane-curvature-sensing domain in Atg3. Nature Cell Biology 2014, 16: 415-424. PMID: 24747438, PMCID: PMC4111135, DOI: 10.1038/ncb2940.Peer-Reviewed Original ResearchMeSH KeywordsAdaptor Proteins, Signal TransducingAmino Acid MotifsAnimalsApoptosis Regulatory ProteinsAutophagy-Related Protein 7Autophagy-Related Protein 8 FamilyAutophagy-Related ProteinsCell MembraneCytoskeletal ProteinsHeLa CellsHumansHydrophobic and Hydrophilic InteractionsLiposomesMembrane ProteinsMiceMice, KnockoutMicrofilament ProteinsMicrotubule-Associated ProteinsMutationPhosphatidylethanolaminesRatsSignal TransductionStress, PhysiologicalTransfectionUbiquitin-Activating EnzymesUbiquitin-Conjugating EnzymesConceptsLipid-packing defectsLC3/GABARAP familyLC3/GABARAP lipidationAmino-terminal amphipathic helixE2-like enzymeGABARAP familyAutophagic machineryIsolation membraneAmphipathic helixIntracellular membranesAutophagy proteinsRescue experimentsATG3LipidationCurved rimProteinMotifPhysiologic roleMembranePhagophoreAutophagosomesMachineryHelixEnzyme
2012
The Legionella Effector RavZ Inhibits Host Autophagy Through Irreversible Atg8 Deconjugation
Choy A, Dancourt J, Mugo B, O’Connor T, Isberg RR, Melia TJ, Roy CR. The Legionella Effector RavZ Inhibits Host Autophagy Through Irreversible Atg8 Deconjugation. Science 2012, 338: 1072-1076. PMID: 23112293, PMCID: PMC3682818, DOI: 10.1126/science.1227026.Peer-Reviewed Original ResearchMeSH KeywordsAdaptor Proteins, Signal TransducingAutophagyAutophagy-Related Protein 7Autophagy-Related Protein 8 FamilyAutophagy-Related ProteinsBacterial ProteinsCell Culture TechniquesCysteine ProteasesGene DeletionGlycineHEK293 CellsHost-Pathogen InteractionsHumansHydrolysisLegionella pneumophilaLegionnaires' DiseaseMicrofilament ProteinsPhagosomesUbiquitin-Activating EnzymesUbiquitin-Conjugating EnzymesConceptsATG8 proteinsIntracellular pathogen Legionella pneumophilaPathogen Legionella pneumophilaAdjacent aromatic residuesCarboxyl-terminal glycine residueAutophagosome membraneEukaryotic cellsAutophagy pathwayGlycine residueAromatic residuesIntracellular pathogensRavZAutophagyProteinLegionella pneumophilaSpecific mechanismsResiduesPathogensATG3MicrobesAtg7CytosolVacuolesPathwayPneumophila
2011
SNARE Proteins Are Required for Macroautophagy
Nair U, Jotwani A, Geng J, Gammoh N, Richerson D, Yen WL, Griffith J, Nag S, Wang K, Moss T, Baba M, McNew JA, Jiang X, Reggiori F, Melia TJ, Klionsky DJ. SNARE Proteins Are Required for Macroautophagy. Cell 2011, 146: 290-302. PMID: 21784249, PMCID: PMC3143362, DOI: 10.1016/j.cell.2011.06.022.Peer-Reviewed Original ResearchConceptsAutophagosome biogenesisAutophagosome membrane expansionV-SNAREs Sec22Vacuole/lysosomeDouble-membrane autophagosomesT-SNAREsAtg9 transportSNARE proteinsDe novo formationAutophagy componentsFusion eventsMembrane expansionTubulovesicular clustersNovo formationAtg8BiogenesisMacroautophagyProteinPhysiological concentrationsSec22Atg9Ykt6Tlg2OrganellesAutophagosomes