Distinct requirements of Autophagy-related genes in programmed cell death

Repertoires of Autophagy in the Pathogenesis of Ocular Diseases

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Autophagy fights disease through cellular self-digestion

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mTOR interacts with raptor to form a nutrient-sensitive complex that signals to the cell growth machinery.

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Autophagosome formation: core machinery and adaptations

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Eaten alive: a history of macroautophagy

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Mammalian autophagy: core molecular machinery and signaling regulation

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FoxO3 Controls Autophagy in Skeletal Muscle In Vivo

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Programmed Cell Death in Animal Development and Disease

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mTOR Complex 1 Regulates Lipin 1 Localization to Control the SREBP Pathway

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Phosphatidic Acid-Mediated Mitogenic Activation of mTOR Signaling

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Two Distinct Vps34 Phosphatidylinositol 3–Kinase Complexes Function in Autophagy and Carboxypeptidase Y Sorting in <i>Saccharomyces cerevisiae</i>

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

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Role and Regulation of Starvation-Induced Autophagy in the Drosophila Fat Body

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Direct Induction of Autophagy by Atg1 Inhibits Cell Growth and Induces Apoptotic Cell Death

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mSin1 Is Necessary for Akt/PKB Phosphorylation, and Its Isoforms Define Three Distinct mTORC2s

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Growth Arrest and Autophagy Are Required for Salivary Gland Cell Degradation in Drosophila

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The Adaptor Protein p62/SQSTM1 Targets Invading Bacteria to the Autophagy Pathway

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The Role of Autophagy in Mammalian Development: Cell Makeover Rather than Cell Death

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Heritable gene silencing in Drosophila using double-stranded RNA

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

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Regulation of membrane traffic by phosphoinositide 3-kinases

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How death shapes life during development

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Atg7-dependent autophagy promotes neuronal health, stress tolerance, and longevity but is dispensable for metamorphosis in <i>Drosophila</i>

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The role of TOR in autophagy regulation from yeast to plants and mammals

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Autophagy, Not Apoptosis, Is Essential for Midgut Cell Death in Drosophila

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Cell death by autophagy: facts and apparent artefacts

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Ref(2)P, the <i>Drosophila melanogaster</i> homologue of mammalian p62, is required for the formation of protein aggregates in adult brain

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The Atg18-Atg2 Complex Is Recruited to Autophagic Membranes via Phosphatidylinositol 3-Phosphate and Exerts an Essential Function

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Atg17 Functions in Cooperation with Atg1 and Atg13 in Yeast Autophagy

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

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The class III PI(3)K Vps34 promotes autophagy and endocytosis but not TOR signaling in Drosophila

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Autophagosomes: biogenesis from scratch?

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Coordinated regulation of autophagy by p38α MAPK through mAtg9 and p38IP

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Assortment of Phosphatidylinositol 3-Kinase Complexes—Atg14p Directs Association of Complex I to the Pre-autophagosomal Structure inSaccharomyces cerevisiae

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Metabolic Stress Controls mTORC1 Lysosomal Localization and Dimerization by Regulating the TTT-RUVBL1/2 Complex

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Uba1 functions in Atg7- and Atg3-independent autophagy

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Autophagy as a pro‐death pathway

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The cell biology of autophagy in metazoans: a developing story

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Cell death during<i>Drosophila melanogaster</i>early oogenesis is mediated through autophagy

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Autophagy takes flight in Drosophila

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Atg6 is required for multiple vesicle trafficking pathways and hematopoiesis in Drosophila

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Role of Membrane Association and Atg14-Dependent Phosphorylation in Beclin-1-Mediated Autophagy

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Atg17/FIP200 localizes to perilysosomal Ref(2)P aggregates and promotes autophagy by activation of Atg1 inDrosophila

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Relationship between growth arrest and autophagy in midgut programmed cell death in Drosophila

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Developmentally programmed cell death in Drosophila

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Hox Proteins Mediate Developmental and Environmental Control of Autophagy

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Loss of the starvation-induced gene Rack1 leads to glycogen deficiency and impaired autophagic responses in Drosophila

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UTX coordinates steroid hormone-mediated autophagy and cell death

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Larval midgut destruction in Drosophila: Not dependent on caspases but suppressed by the loss of autophagy

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The Putative HORMA Domain Protein Atg101 Dimerizes and Is Required for Starvation-Induced and Selective Autophagy inDrosophila

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Vps15 is required for stress induced and developmentally triggered autophagy and salivary gland protein secretion in Drosophila

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Double duty of Atg9 self-association in autophagosome biogenesis

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Molecular mechanisms of cell death: recommendations of the nomenclature committee on cell death 2018.

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Guidelines for the use and interpretation of assays for monitoring autophagy (4th edition) ¹

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Molecular definitions of autophagy and related processes

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Autophagy-dependent cell death

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Life, death and autophagy

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Selective Autophagy Receptor p62/SQSTM1, a Pivotal Player in Stress and Aging

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Autophagy-dependent cell death—where.; how and why a cell eats itself to death

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Guidelines and recommendations on yeast cell death nomenclature

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Cell death during complete metamorphosis

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Intersections between Regulated Cell Death and Autophagy

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Genome-Wide Homozygosity Patterns and Evidence for Selection in a Set of European and Near Eastern Horse Breeds

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Insulin and TOR signal in parallel through FOXO and S6K to promote epithelial wound healing

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Autophagy and its implication in human oral diseases

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On the Fly: Recent Progress on Autophagy and Aging in Drosophila

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Ecdysone controlled cell and tissue deletion

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Dpp regulates autophagy-dependent midgut removal and signals to block ecdysone production

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Roles of ubiquitin in autophagy and cell death

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Ecdysone-mediated programmed cell death in Drosophila

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Role of mitochondrial dysfunction on rheumatic diseases

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Life and Death Decisions—The Many Faces of Autophagy in Cell Survival and Cell Death

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Analysis of Drosophila Atg8 proteins reveals multiple lipidation-independent roles

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Autophagy-related proteins: Potential diagnostic and prognostic biomarkers of aging-related diseases

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Autophagy regulates the survival of cells with chromosomal instability

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Do Fungi Undergo Apoptosis-Like Programmed Cell Death?

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BAKing up to Survive a Battle: Functional Dynamics of BAK1 in Plant Programmed Cell Death

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LC3-associated phagocytosis promotes glial degradation of axon debris after injury in Drosophila models

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Autophagy Activation by Resveratrol Reduces Severity of Experimental Rheumatoid Arthritis

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Drosophila as a model to explore secondary injury cascades after traumatic brain injury

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The evolutionary and functional divergence of the Atg8 autophagy protein superfamily

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UsingDrosophilaModels of Amyloid Toxicity to Study Autophagy in the Pathogenesis of Alzheimer’s Disease

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Death by over-eating: The Gaucher disease associated gene GBA1 , identified in a screen for mediators of autophagic cell death, is necessary for developmental cell death in Drosophila midgut

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Autophagy–mediated plasma membrane removal promotes the formation of epithelial syncytia

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Lipophagy: Molecular Mechanisms and Implications in Hepatic Lipid Metabolism

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Cp1/cathepsin L is required for autolysosomal clearance in Drosophila

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Triggering of Autophagy by Baicalein in Response to Apoptosis after Spinal Cord Injury: Possible Involvement of the PI3K Activation

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I Spy in the Developing Fly a Multitude of Ways to Die

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Mitochondrial fusion and altered beta-oxidation drive muscle wasting in a Drosophila cachexia model

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Development on Citrus medica infected with ‘Candidatus Liberibacter asiaticus’ has sex-specific and -nonspecific impacts on adult Diaphorina citri and its endosymbionts

Coates, L. C., Mahoney, J. E., Ramsey, J. S., Warwick, E., Johnson, R. S., MacCoss, M. J., Krasnoff, S. B., Howe, K. J., Moulton, K., Saha, S., et al. (2020) · PLoS ONE · doi:10.1371/journal.pone.0239771 · Cited by 14 · see citing works

Characterization of Autophagic Responses in Drosophila melanogaster

Xu, T., Kumar, S., & Denton, D. (2017) · Methods in Enzymology · doi:10.1016/bs.mie.2016.09.089 · Cited by 12 · see citing works

Transcriptome profiling identifies multistep regulation through E93, Forkhead and Ecdysone Oxidase in survival of Malpighian tubules during metamorphosis in Drosophila

Ojha, S., & Tapadia, M. G. (2020) · The International Journal of Developmental Biology · doi:10.1387/ijdb.190190mt · Cited by 12 · see citing works

Understanding Developmental Cell Death Using Drosophila as a Model System

Umargamwala, R., Manning, J. A., Dorstyn, L., Denton, D., & Kumar, S. (2024) · Cells · doi:10.3390/cells13040347 · Cited by 10 · see citing works

Atg2 Regulates Cellular and Humoral Immunity in Drosophila

Qin, B., Yu, S., Chen, Q., & Jin, L. H. (2023) · Insects · doi:10.3390/insects14080706 · Cited by 9 · see citing works

The two autophagy-related proteins 8a and 8b play distinct physiological roles in Drosophila

Xu, Y., Liu, W., Sun, Z., Yu, Y., Yang, T., Lu, X., Zhang, G., Jiao, J., & Duan, X. (2024) · Genomics · doi:10.1016/j.ygeno.2024.110853 · Cited by 8 · see citing works

To eat or not to eat: a critical review on the role of autophagy in prostate carcinogenesis and prostate cancer therapeutics

Kurganovs, N. J., & Engedal, N. (2024) · Frontiers in Pharmacology · doi:10.3389/fphar.2024.1419806 · Cited by 8 · see citing works

A Genetic Screen inDrosophilaTo Identify Novel Regulation of Cell Growth by Phosphoinositide Signaling

Janardan, V., Sharma, S., Basu, U., & Raghu, P. (2019) · G3 Genes Genomes Genetics · doi:10.1534/g3.119.400851 · Cited by 8 · see citing works

Hedgehog and Wingless signaling are not essential for autophagy-dependent cell death

Xu, T., Denton, D., & Kumar, S. (2018) · Biochemical Pharmacology · doi:10.1016/j.bcp.2018.10.027 · Cited by 7 · see citing works

Crosstalk between Dpp and Tor signaling coordinates autophagy-dependent midgut degradation

Denton, D., Xu, T., Dayan, S., Nicolson, S., & Kumar, S. (2019) · Cell Death and Disease · doi:10.1038/s41419-019-1368-9 · Cited by 7 · see citing works

Drosophila as a model to understand autophagy deregulation in human disorders

Denton, D., O’Keefe, L. V., & Kumar, S. (2020) · Progress in molecular biology and translational science · doi:10.1016/bs.pmbts.2020.01.005 · Cited by 7 · see citing works

Identification of new candidates regulating autophagy-dependent midgut degradation in Drosophila melanogaster

Umargamwala, R., Nicolson, S., Manning, J. A., Carosi, J. M., Kumar, S., & Denton, D. (2025) · Cell Death Discovery · doi:10.1038/s41420-025-02474-0 · Cited by 6 · see citing works

The Drosophila ZNRF1/2 homologue, detour, interacts with HOPS complex and regulates autophagy

Nicolson, S., Manning, J. A., Lim, Y. P., Jiang, X., Kolze, E., Dayan, S., Umargamwala, R., Xu, T., Sandow, J. J., Webb, A. I., et al. (2024) · Communications Biology · doi:10.1038/s42003-024-05834-1 · Cited by 6 · see citing works

Steroid Signaling in Autophagy

Bradic, I., & Rewitz, K. (2025) · Journal of Molecular Biology · doi:10.1016/j.jmb.2025.169134 · Cited by 6 · see citing works

Improved detection of lipidated Atg8a by immunoblotting in Drosophila melanogaster cells and tissues enables precise investigation of Atg8a flux and its termination

Andresen, S., Outa, A. A., Formica, M., Enserink, J. M., & Knævelsrud, H. (2025) · Autophagy · doi:10.1080/15548627.2025.2508551 · Cited by 6 · see citing works

OSP-1 protects neurons from autophagic cell death induced by acute oxidative stress

Donato, A., Ritchie, F. K., Lu, L., Wadia, M., Martínez‐Mármol, R., Kaulich, E., Sankorrakul, K., Lu, H., Coakley, S., Coulson, E. J., et al. (2025) · Nature Communications · doi:10.1038/s41467-024-55105-0 · Cited by 5 · see citing works

Cloning and functional analysis of autophagy‐related gene 7 in Bombyx mori, silkworm

Ye, W., Bian, D., Mao, T., Dai, M., Feng, P., Zhu, Q., Ren, Y., Li, F., Gu, Z., & Li, B. (2021) · Archives of Insect Biochemistry and Physiology · doi:10.1002/arch.21827 · Cited by 5 · see citing works

Selenium ameliorates inflammation by decreasing autophagic flux and mitogen‐activated protein kinase signalling on experimentally induced rat periapical lesions

Bolat, N., Erzurumlu, Y., Aşçı, H., Özmen, Ö., & Kaya, B. Ü. (2022) · International Endodontic Journal · doi:10.1111/iej.13861 · Cited by 5 · see citing works

FOXO3/Rab7-Mediated Lipophagy and Its Role in Zn-Induced Lipid Metabolism in Yellow Catfish (Pelteobagrus fulvidraco)

Xiao, F., Chen, C., Zhang, W., Wang, J., & Wu, K. (2024) · Genes · doi:10.3390/genes15030334 · Cited by 5 · see citing works

Autophagy controls differentiation of Drosophila blood cells by regulating Notch levels in response to nutrient availability

Katz, M. J., Rodríguez, F., Evangelisti, F., Borrat, A., Pérez-Pandolfo, S., Peters, T., Sommario, N., Boccaccio, G. L., Melani, M., & Wappner, P. (2025) · Nature Communications · doi:10.1038/s41467-025-58389-y · Cited by 6 · see citing works

A single-cell 3D spatiotemporal multi-omics atlas from Drosophila embryogenesis to metamorphosisPreprint

Wang, M., Hu, Q., Tu, Z., Kong, L., Yao, J., Xiang, R., Chen, Z., Zhao, Y., Zhou, Y., Yu, T., et al. (2024) · bioRxiv (Cold Spring Harbor Laboratory) · doi:10.1101/2024.02.06.577903 · Cited by 4 · see citing works

Autophagy in Drosophila and Zebrafish

Duan, X., & Tong, C. (2021) · Advances in experimental medicine and biology · doi:10.1007/978-981-16-2830-6_15 · Cited by 3 · see citing works

Regulation of Developmental Cell Death in the Animal Kingdom: A Critical Analysis of Epigenetic versus Genetic Factors

Montero, J. A., Lorda-Diez, C. I., & Hurlé, J. M. (2022) · International Journal of Molecular Sciences · doi:10.3390/ijms23031154 · Cited by 3 · see citing works

Drosophila medulla neuroblast termination via apoptosis, differentiation, and gliogenic switch is scheduled by the depletion of the neuroepithelial stem cell pool

Nguyen, P., & Cheng, L. Y. (2024) · eLife · doi:10.7554/elife.96876 · Cited by 2 · see citing works

Mitochondrial fusion and altered beta-oxidation drive muscle wasting in a Drosophila cachexia modelPreprint

Dark, C., Ali, N., Golenkina, S., Blazev, R., Parker, B. L., Murphy, K., Lynch, G. S., Senapati, T., Millard, S. S., Judge, S. M., et al. (2023) · bioRxiv (Cold Spring Harbor Laboratory) · doi:10.1101/2023.06.23.546217 · Cited by 2 · see citing works

A Balance Between Autophagy and Other Cell Death Modalities in Cancer

Gorbunova, A. S., Kopeina, G. S., & Zhivotovsky, B. (2022) · Methods in molecular biology · doi:10.1007/978-1-0716-2071-7_1 · Cited by 1 · see citing works

The steroid hormone 20-hydroxyecdysone inhibits RAPTOR expression by repressing Hox gene transcription to induce autophagy

Liu, T.-W., Tian, C., Li, Y.-X., Wang, J., & Zhao, X. (2024) · Journal of Biological Chemistry · doi:10.1016/j.jbc.2024.108093 · Cited by 1 · see citing works

Drosophila as a model to study autophagy during oogenesis

Kulkarni, M., Murmu, N., Ayachit, M. S., Selarka, K., Nilangekar, K. S., & Shravage, B. V. (2025) · Developmental Biology · doi:10.1016/j.ydbio.2025.12.013 · Cited by 1 · see citing works

Independent roles of autophagy and apoptosis in post-apocrine-secretion cell death of salivary glands during Drosophila metamorphosis

Mentelová, L., Beňová‐Liszeková, D., Beňo, M., Chase, B. A., & Farkas, R. (2026) · Scientific Reports · doi:10.1038/s41598-026-46472-3 · Cited by 1 · see citing works

Identifying Genes Related to Retinitis Pigmentosa in Drosophila melanogaster Using Eye Size and Gene Expression Data

Nguyen, T., Khalifa, A. S., & Palu, R. A. S. (2022) · BioMedInformatics · doi:10.3390/biomedinformatics2040040 · Cited by 1 · see citing works

Beclin1 controls caspase-4 inflammsome activation and pyroptosis in myocardial reperfusion-induced microvascular injuryPreprint

Sun, W., Lu, H., Dong, S., Wang, N., Zhao, Y. X., Wang, L., Sun, L., & Lü, D. (2021) · Research Square · doi:10.21203/rs.3.rs-384461/v1 · Cited by 1 · see citing works

Bacterial infection, immune responses, and autophagy in lutzomyia longipalpis sand flies

Heerman, M. C. (2016) · K-State Research Exchange (Kansas State University)

CELL DEATH: A MODERN VIEW OF APOPTOSIS AND AUTOPHAGY

Sribna, V. O. (2023) · Clinical & experimental pathology · doi:10.24061/1727-4338.xxii.2.84.2023.11

Glycogen homeostasis and mtDNA expression require motor neuron to muscle TGFβ/Activin Signaling in DrosophilaPreprint

Bretscher, H. S., & O’Connor, M. B. (2024) · bioRxiv (Cold Spring Harbor Laboratory) · doi:10.1101/2024.06.25.600699

Glycogen homeostasis and mitochondrial DNA expression require motor neuron to muscle TGF-β/Activin signaling in Drosophila

Bretscher, H., & O’Connor, M. B. (2024) · iScience · doi:10.1016/j.isci.2024.111611

Folic acid protects against Toxoplasma gondii antigen-induced vascular injury via the CD36-autophagy-lysosomal axis

Qiu, J., Jiang, J., Quan, Y., Zhang, C.-X., Gao, N., Wang, K.-H., Guo, J., Shi, W., Wang, G., Jiang, L.-F., et al. (2026) · Autophagy · doi:10.1080/15548627.2026.2676795

Black ginger (Kaempferia parviflora) extract ameliorates high-fat diet-induced muscle atrophy through regulation of protein homeostasis and mitochondrial biogenesis

Kim, M., Kim, C., Kang, J., Han, S., Kim, Y., Kang, H., & Hwang, J.-K. (2026) · Nutrition Research · doi:10.1016/j.nutres.2026.06.007

Targeting autophagy-dependent cell death in cancer therapy: An update on small-molecule compounds

Yang, Y., Chen, M., Xie, Q., Cheng, L., & Liu, B. (2026) · Bioorganic Chemistry · doi:10.1016/j.bioorg.2026.110434

Relationship between growth arrest and autophagy in midgut programmed cell death in Drosophila

Denton, D., Chang, T.-K., Nicolson, S., Shravage, B., Simin, R., Baehrecke, E. H., & Kumar, S. (2012) · Cell Death &amp; Differentiation · doi:10.1038/cdd.2012.43 · Cited by 81 · see citing works

Larval midgut destruction in Drosophila: Not dependent on caspases but suppressed by the loss of autophagy

Denton, D., Shravage, B. V., Simin, R., Baehrecke, E. H., & Kumar, S. (2010) · Autophagy · doi:10.4161/auto.6.1.10601 · Cited by 54 · see citing works

Autophagy-dependent cell death

Denton, D., & Kumar, S. (2019) · Cell Death &amp; Differentiation · doi:10.1038/s41418-018-0252-y · Cited by 777 · see citing works

Autophagy, Not Apoptosis, Is Essential for Midgut Cell Death in Drosophila

Denton, D., Shravage, B., Simin, R., Mills, K., Berry, D. L., Baehrecke, E. H., & Kumar, S. (2009) · Current Biology · doi:10.1016/j.cub.2009.08.042 · Cited by 385 · see citing works

A Novel Autophagy Regulatory Mechanism that Functions During Programmed Cell Death: A Dissertation

Chang, T.-K. (2013) · The Journal of the American Medical Association (JAMA) Network (American Medical Association) · doi:10.13028/m20s36