Repertoires of Autophagy in the Pathogenesis of Ocular Diseases

Genome-wide association study of 14,000 cases of seven common diseases and 3,000 shared controls

The Wellcome Trust Case Control Consortium, Management Committee, Burton, P. R., Clayton, D. G., Cardon, L. R., Craddock, N., Deloukas, P., Duncanson, A., Kwiatkowski, D. P., McCarthy, M. I., et al. (2007) · Nature · doi:10.1038/nature05911 · Cited by 9,442

AMPK and mTOR regulate autophagy through direct phosphorylation of Ulk1

Kim, J., Kundu, M., Viollet, B., & Guan, K.-L. (2011) · Nature Cell Biology · doi:10.1038/ncb2152 · Cited by 7,227

Autophagy in the Pathogenesis of Disease

Levine, B., & Kroemer, G. (2008) · Cell · doi:10.1016/j.cell.2007.12.018 · Cited by 7,069

Targeting the DNA repair defect in BRCA mutant cells as a therapeutic strategy

Farmer, H., McCabe, N., Lord, C. J., Tutt, A. N. J., Johnson, D. A., Richardson, T. B., Santarosa, M., Dillon, K. J., Hickson, I., Knights, C., et al. (2005) · Nature · doi:10.1038/nature03445 · Cited by 6,683

LC3, a mammalian homologue of yeast Apg8p, is localized in autophagosome membranes after processing.

Kabeya, Y., Mizushima, N., Ueno, T., Yamamoto, A., Kirisako, T., Noda, T., Kominami, E., Ohsumi, Y., & Yoshimori, T. (2000) · The EMBO Journal · doi:10.1093/emboj/19.21.5720 · Cited by 6,605

Autophagy fights disease through cellular self-digestion

Mizushima, N., Levine, B., Cuervo, A. M., & Klionsky, D. J. (2008) · Nature · doi:10.1038/nature06639 · Cited by 6,452

Cell Death

Danial, N. N., & Korsmeyer, S. J. (2004) · Cell · doi:10.1016/s0092-8674(04)00046-7 · Cited by 4,651

p62/SQSTM1 Binds Directly to Atg8/LC3 to Facilitate Degradation of Ubiquitinated Protein Aggregates by Autophagy

Pankiv, S., Clausen, T. H., Lamark, T., Brech, A., Bruun, J.-A., Outzen, H., Øvervatn, A., Bjørkøy, G., & Johansen, T. (2007) · Journal of Biological Chemistry · doi:10.1074/jbc.m702824200 · Cited by 4,578

Release of chromatin protein HMGB1 by necrotic cells triggers inflammation

Scaffidi, P., Misteli, T., & Bianchi, M. E. (2002) · Nature · doi:10.1038/nature00858 · Cited by 4,221

Parkin is recruited selectively to impaired mitochondria and promotes their autophagy

Narendra, D., Tanaka, A., Suen, D.-F., & Youle, R. J. (2008) · The Journal of Cell Biology · doi:10.1083/jcb.200809125 · Cited by 4,026

ATG12 deficiency results in intracellular glutamine depletion, abrogation of tumor hypoxia and a favorable prognosis in cancer

Keulers, T. G., Koch, A., van Gisbergen, M. W., Barbeau, L. M. O., Zonneveld, M. I., de Jong, M. C., Savelkouls, K. G. M., Wanders, R. G., Bussink, J., Melotte, V., et al. (2022) · Autophagy · doi:10.1080/15548627.2021.2008690 · Cited by 30

Nectandrin B-mediated activation of the AMPK pathway prevents cellular senescence in human diploid fibroblasts by reducing intracellular ROS levels

Jang, H.-J., Yang, K. E., Oh, W. K., Lee, S.-I., Hwang, I.-H., Ban, K.-T., Yoo, H.-S., Choi, J.-S., Yeo, E.-J., & Jang, I.-S. (2019) · Aging · doi:10.18632/aging.102013 · Cited by 30

Pharmacological AMP kinase activators target the nucleolar organization and control cell proliferation

Kodiha, M., Salimi, A., Wang, Y. M., & Stochaj, U. (2014) · PLoS ONE · doi:10.1371/journal.pone.0088087 · Cited by 29

Targeting autophagy as a therapeutic strategy against pancreatic cancer

Yamamoto, K., Iwadate, D., Kato, H., Nakai, Y., Tateishi, K., & Fujishiro, M. (2022) · Journal of Gastroenterology · doi:10.1007/s00535-022-01889-1 · Cited by 29

Loss of Extracellular Signal-Regulated Kinase 1/2 in the Retinal Pigment Epithelium Leads to RPE65 Decrease and Retinal Degeneration

Pyakurel, A., Balmer, D., Saba-El-Leil, M. K., Kizilyaprak, C., Daraspe, J., Humbel, B. M., Voisin, L., Le, Y. Z., von Lintig, J., Meloche, S., et al. (2017) · Molecular and Cellular Biology · doi:10.1128/mcb.00295-17 · Cited by 20

Compromised phagosome maturation underlies RPE pathology in cell culture and whole animal models of Smith-Lemli-Opitz Syndrome

Ramachandra Rao, S., Pfeffer, B. A., Más Gómez, N., Skelton, L. A., Keiko, U., Sparrow, J. R., Rowsam, A. M., Mitchell, C. H., & Fliesler, S. J. (2018) · Autophagy · doi:10.1080/15548627.2018.1490851 · Cited by 28

Eucommia ulmoides Olive Male Flower Extracts Ameliorate Alzheimer’s Disease-Like Pathology in Zebrafish via Regulating Autophagy, Acetylcholinesterase, and the Dopamine Transporter

Sun, C., Zhang, S., Ba, S., Dang, J., Ren, Q., Zhu, Y., Liu, K., & Jin, M. (2022) · Frontiers in Molecular Neuroscience · doi:10.3389/fnmol.2022.901953 · Cited by 28

Autophagy Stimulus Promotes Early HuR Protein Activation and p62/SQSTM1 Protein Synthesis in ARPE‐19 Cells by Triggering Erk1/2, p38MAPK, and JNK Kinase Pathways

Marchesi, N., Thongon, N., Pascale, A., Provenzani, A., Koskela, A., Korhonen, E., Smedowski, A., Govoni, S., Kauppinen, A., Kaarniranta, K., et al. (2018) · Oxidative Medicine and Cellular Longevity · doi:10.1155/2018/4956080 · Cited by 28

Emerging roles of ATG9/ATG9A in autophagy: implications for cell and neurobiology

Choi, J., Jang, H., Xuan, Z., & Park, D. (2024) · Autophagy · doi:10.1080/15548627.2024.2384349 · Cited by 28

Interactions between Naïve and Infected Macrophages Reduce Mycobacterium tuberculosis Viability

Hartman, M. L., & Kornfeld, H. (2011) · PLoS ONE · doi:10.1371/journal.pone.0027972 · Cited by 27

The Health-Promoting Effects and the Mechanism of Intermittent Fasting

Liu, S., Zeng, M., Wan, W., Huang, M., Li, X., Xie, Z., Wang, S., & Cai, Y. (2023) · Journal of Diabetes Research · doi:10.1155/2023/4038546 · Cited by 27

High-throughput kinase inhibitor screening reveals roles for Aurora and Nuak kinases in neurite initiation and dendritic branching

Blazejewski, S. M., Bennison, S. A., Liu, X., & Toyo-oka, K. (2021) · Scientific Reports · doi:10.1038/s41598-021-87521-3 · Cited by 27

Autophagy in Xenopus laevis rod photoreceptors is independently regulated by phototransduction and misfolded RHOP23H

Wen, R. H., Stanar, P., Tam, B., & Moritz, O. L. (2019) · Autophagy · doi:10.1080/15548627.2019.1596487 · Cited by 27

BRAF V600E-dependent role of autophagy in uveal melanoma

Zhao, Y., Wang, W., Min, I., Wyrwas, B., Moore, M., Zarnegar, R., & Fahey, T. J. (2017) · Journal of Cancer Research and Clinical Oncology · doi:10.1007/s00432-016-2317-y · Cited by 26

The TMEM127 human tumor suppressor is a component of the mTORC1 lysosomal nutrient-sensing complex

Deng, Y., Qin, Y., Srikantan, S., Luo, A., Cheng, Z.-M., Flores, S. K., Vogel, K. S., Wang, E., & Dahia, P. L. M. (2018) · Human Molecular Genetics · doi:10.1093/hmg/ddy095 · Cited by 25

Elucidating the mechanisms by which disulfiram protects against obesity and metabolic syndrome

Bernier, M., Harney, D., Koay, Y. C., Diaz, A., Singh, A., Wahl, D., Pulpitel, T., Ali, A., Guiterrez, V., Mitchell, S. J., et al. (2020) · npj Aging and Mechanisms of Disease · doi:10.1038/s41514-020-0046-6 · Cited by 26

Regulation of phagolysosomal activity by miR-204 critically influences structure and function of retinal pigment epithelium/retina

Zhang, C., Miyagishima, K. J., Dong, L., Rising, A., Nimmagadda, M., Liang, G., Sharma, R., Dejene, R., Wang, Y., Abu-Asab, M., et al. (2019) · Human Molecular Genetics · doi:10.1093/hmg/ddz171 · Cited by 26

Lysosomal glucose sensing and glycophagy in metabolism

Mancini, M. C., Noland, R. C., Collier, J. J., Burke, S. J., Stadler, K., & Heden, T. D. (2023) · Trends in Endocrinology & Metabolism · doi:10.1016/j.tem.2023.07.008 · Cited by 26

Health position paper and redox perspectives – Bench to bedside transition for pharmacological regulation of NRF2 in noncommunicable diseases

Cuadrado, A., Cazalla, E., Bach, A., Bathish, B., Naidu, S. D., DeNicola, G. M., Dinkova-Kostova, A. T., Fernández-Ginés, R., Grochot-Przeczek, A., Hayes, J. D., et al. (2025) · Redox Biology · doi:10.1016/j.redox.2025.103569 · Cited by 28

Recruitment of autophagy initiator TAX1BP1 advances aggrephagy from cargo collection to sequestration

Bauer, B., Idinger, J., Schuschnig, M., Ferrari, L., & Martens, S. (2024) · The EMBO Journal · doi:10.1038/s44318-024-00280-5 · Cited by 25

Overexpression of SphK2 contributes to ATRA resistance in colon cancer through rapid degradation of cytoplasmic RXRα by K48/K63-linked polyubiquitination

Shi, W.-N., Cui, S.-X., Song, Z.-Y., Wang, S.-Q., Sun, S.-Y., Yu, X.-F., Li, Y., Zhang, Y.-H., Gao, Z.-H., & Qu, X.-J. (2017) · Oncotarget · doi:10.18632/oncotarget.17174 · Cited by 24

Programmed cell death 4 modulates lysosomal function by inhibiting TFEB translation

Chen, X., Guan, Y., Zhang, Y., Jia, Y., Li, W., Guo, C., Li, Y., Wang, X., Shi, Y., Wang, Q., et al. (2021) · Cell Death & Differentiation · doi:10.1038/s41418-020-00646-2 · Cited by 24

Effects of Arachidonic Acid Supplementation on Acute Anabolic Signaling and Chronic Functional Performance and Body Composition Adaptations

De Souza, E. O., Lowery, R. P., Wilson, J. M., Sharp, M. H., Mobley, C. B., Fox, C. D., Lopez, H. L., Shields, K. A., Rauch, J. T., Healy, J. C., et al. (2016) · PLOS ONE · doi:10.1371/journal.pone.0155153 · Cited by 23

PI3K signaling promotes formation of lipid-laden foamy macrophages at the spinal cord injury site

Ryan, C. B., Choi, J. S., Kang, B., Herr, S., Pereira, C., Moraes, C. T., Al-Ali, H., & Lee, J. K. (2024) · Neurobiology of Disease · doi:10.1016/j.nbd.2023.106370 · Cited by 23

LAP-like non-canonical autophagy and evolution of endocytic vacuoles in pancreatic acinar cells

De Faveri, F., Chvanov, M., Voronina, S., Moore, D., Pollock, L., Haynes, L., Awais, M., Beckett, A. J., Mayer, U., Sutton, R., et al. (2020) · Autophagy · doi:10.1080/15548627.2019.1679514 · Cited by 22

The CNS in inbred transgenic models of 4-repeat Tauopathy develops consistent tau seeding capacity yet focal and diverse patterns of protein deposition

Eskandari-Sedighi, G., Daude, N., Gapeshina, H., Sanders, D. W., Kamali-Jamil, R., Yang, J., Shi, B., Wille, H., Ghetti, B., Diamond, M. I., et al. (2017) · Molecular Neurodegeneration · doi:10.1186/s13024-017-0215-7 · Cited by 22

Spartin-mediated lipid transfer facilitates lipid droplet turnover

Wan, N., Hong, Z., Parson, M. A. H., Korfhage, J. L., Burke, J. E., Melia, T. J., & Reinisch, K. M. (2024) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.2314093121 · Cited by 22

A selective autophagy pathway that degrades gluconeogenic enzymes during catabolite inactivation

Brown, C. R., & Chiang, H.-L. (2009) · Communicative & Integrative Biology · doi:10.4161/cib.7711 · Cited by 22

Chronic Stress Increases Transcriptomic Indicators of Biological Aging in Mouse Bone Marrow Leukocytes

Rentscher, K. E., Carroll, J. E., Polsky, L. R., & Lamkin, D. M. (2022) · Brain, Behavior, & Immunity - Health · doi:10.1016/j.bbih.2022.100461 · Cited by 21

The Neuroprotective Role of Protein Quality Control in Halting the Development of Alpha-Synuclein Pathology

Manecka, D.-L., Vanderperre, B., Fon, E. A., & Durcan, T. M. (2017) · Frontiers in Molecular Neuroscience · doi:10.3389/fnmol.2017.00311 · Cited by 21

Targeting skeletal muscle mitochondrial health in obesity

Pileggi, C. A., Hooks, B. G., McPherson, R., Dent, R. R. M., & Harper, M.-E. (2022) · Clinical Science · doi:10.1042/cs20210506 · Cited by 21

The fine-tuning of proteolytic pathways in Alzheimer’s disease

Cecarini, V., Bonfili, L., Cuccioloni, M., Mozzicafreddo, M., Angeletti, M., Keller, J. N., & Eleuteri, A. M. (2016) · Cellular and Molecular Life Sciences · doi:10.1007/s00018-016-2238-6 · Cited by 21

From the Cover: Alterations in Optineurin Expression and Localization in Pre-clinical Parkinson’s Disease Models

Wise, J. P., & Cannon, J. (2016) · Toxicological Sciences · doi:10.1093/toxsci/kfw133 · Cited by 20

TMEM97 ablation aggravates oxidant-induced retinal degeneration

Shen, H., Li, J., Heisler-Taylor, T., Makin, R., Yang, H., Mavlyutov, T. A., Gelfand, B., Cebulla, C. M., & Guo, L.-W. (2021) · Cellular Signalling · doi:10.1016/j.cellsig.2021.110078 · Cited by 19

Rapamycin reduces neuronal mutant huntingtin aggregation and ameliorates locomotor performance in Drosophila

Roth, J. R., Moraes, R. C. M. D., Xu, B. P., Crawley, S. R., Khan, M. A., & Melkani, G. C. (2023) · Frontiers in Aging Neuroscience · doi:10.3389/fnagi.2023.1223911 · Cited by 16

Shigella effector IpaH1.4 subverts host E3 ligase RNF213 to evade antibacterial immunity

Zhou, X., Zhang, H., Wang, Y., Wang, D., Lin, Z., Zhang, Y., Tang, Y., Liu, J., Yao, Y.-F., Zhang, Y., et al. (2025) · Nature Communications · doi:10.1038/s41467-025-58432-y · Cited by 17

Expression Analysis of Autophagy Related Markers LC3B, p62 and HMGB1 Indicate an Autophagy-Independent Negative Prognostic Impact of High p62 Expression in Pulmonary Squamous Cell Carcinomas

Langer, R., Neppl, C., Keller, M. D., Schmid, R. A., Tschan, M. P., & Berezowska, S. (2018) · Cancers · doi:10.3390/cancers10090281 · Cited by 17

Otilonium Bromide Exhibits Potent Antifungal Effects by Blocking Ergosterol Plasma Membrane Localization and Triggering Cytotoxic Autophagy in Candida Albicans

Zhen, C., Wang, L., Feng, Y., Whiteway, M., Hang, S., Yu, J., Lu, H., & Jiang, Y. (2024) · Advanced Science · doi:10.1002/advs.202406473 · Cited by 16

Investigating the Association between the Autophagy Markers LC3B, SQSTM1/p62, and DRAM and Autophagy-Related Genes in Glioma

Danish, F., Qureshi, M. A., Mirza, T., Amin, W., Sufiyan, S., Naeem, S., Arshad, F., & Mughal, N. (2024) · International Journal of Molecular Sciences · doi:10.3390/ijms25010572 · Cited by 16

Unlocking longevity through the comparative biology of aging

Rechsteiner, C., Morandini, F., Kim, S. J., Seluanov, A., & Gorbunova, V. (2025) · Nature Aging · doi:10.1038/s43587-025-00945-8 · Cited by 16

NRF3 activates mTORC1 arginine-dependently for cancer cell viability

Hirose, S., Waku, T., Tani, M., Masuda, H., Endo, K., Ashitani, S., Aketa, I., Kitano, H., Nakada, S., Wada, A., et al. (2023) · iScience · doi:10.1016/j.isci.2023.106045 · Cited by 15

Linking tuberous sclerosis complex, excessive mTOR signaling, and age-related neurodegeneration: a new association between TSC1 mutation and frontotemporal dementia

Olney, N. T., Alquezar, C., Ramos, E. M., Nana, A. L., Fong, J. C., Karydas, A. M., Taylor, J. B., Stephens, M. L., Argouarch, A. R., Van Berlo, V. A., et al. (2017) · Acta Neuropathologica · doi:10.1007/s00401-017-1764-0 · Cited by 15

USP14 is a deubiquitinase for Ku70 and critical determinant of non-homologous end joining repair in autophagy and PTEN-deficient cells

Sharma, A., Alswillah, T., Kapoor, I., Debjani, P., Willard, B., Summers, M. K., Gong, Z., & Almasan, A. (2019) · Nucleic Acids Research · doi:10.1093/nar/gkz1103 · Cited by 15

Photodegradation of Lipofuscin in Suspension and in ARPE-19 Cells and the Similarity of Fluorescence of the Photodegradation Product with Oxidized Docosahexaenoate

Różanowska, M. B., & Różanowski, B. (2022) · International Journal of Molecular Sciences · doi:10.3390/ijms23020922 · Cited by 14

A Map of Transcriptomic Signatures of Different Brain Areas in Alzheimer’s Disease

Ferrari, R. R., Fantini, V., Garofalo, M., Di Gerlando, R., Dragoni, F., Rizzo, B., Spina, E., Rossi, M., Calatozzolo, C., Profka, X., et al. (2024) · International Journal of Molecular Sciences · doi:10.3390/ijms252011117 · Cited by 14

Truncated tau interferes with the autophagy and endolysosomal pathway and results in lipid accumulation

Pollack, S. J., Dakkak, D., Guo, T., Chennell, G., Gomez-Suaga, P., Noble, W., Jimenez-Sanchez, M., & Hanger, D. P. (2024) · Cellular and Molecular Life Sciences · doi:10.1007/s00018-024-05337-6 · Cited by 14

AAV-Mediated Expression of Dominant-Negative ULK1 Increases Neuronal Survival and Enhances Motor Performance in the MPTP Mouse Model of Parkinson’s Disease

Balke, D., Tatenhorst, L., Dambeck, V., Ribas, V. T., Vahsen, B. F., Michel, U., Bähr, M., & Lingor, P. (2020) · Molecular Neurobiology · doi:10.1007/s12035-019-01744-0 · Cited by 14

GPER in metabolic homeostasis and disease: molecular mechanisms, nutritional regulation, and therapeutic potential

Liu, L., Zhou, Y., Liu, J., Zhang, X., He, C., Zeng, X., Dejenie, R., Zeb, U., Zeng, Q., Liu, L., et al. (2025) · Journal of Translational Medicine · doi:10.1186/s12967-025-07005-0 · Cited by 13

Senescence-associated ultrastructural features of long-term cultures of induced pluripotent stem cells (iPSCs)

Colasuonno, F., Borghi, R., Niceforo, A., Muzzi, M., Bertini, E., Di Giulio, A., Moreno, S., & Compagnucci, C. (2017) · Aging · doi:10.18632/aging.101309 · Cited by 13

Non-parametric Survival Analysis of EPG5 Gene with Age at Onset of Alzheimer’s Disease

Wang, K.-S., Liu, X., Xie, C., Liu, Y., & Xu, C. (2016) · Journal of Molecular Neuroscience · doi:10.1007/s12031-016-0821-9 · Cited by 12

Loss of lysosomal acid lipase contributes to Alzheimer's disease pathology and cognitive decline

Barnett, A. M., McNair, E. M., Dawkins, L., Zou, J., Nikolova, V. D., Moy, S. S., Sutherland, G. T., Stevens, J., Colie, M., Katemboh, K., et al. (2025) · Alzheimer's & Dementia · doi:10.1002/alz.70486 · Cited by 12

Understanding neurodevelopmental proteasomopathies as new rare disease entities: A review of current concepts, molecular biomarkers, and perspectives

Cuinat, S., Bézieau, S., Deb, W., Mercier, S., Vignard, V., Isidor, B., Küry, S., & Ebstein, F. (2024) · Genes & Diseases · doi:10.1016/j.gendis.2023.101130 · Cited by 10

Alterations of autophagy in the peripheral neuropathy Charcot-Marie-Tooth type 2B

Colecchia, D., Stasi, M., Leonardi, M., Manganelli, F., Nolano, M., Veneziani, B. M., Santoro, L., Eskelinen, E.-L., Chiariello, M., & Bucci, C. (2018) · Autophagy · doi:10.1080/15548627.2017.1388475 · Cited by 10

Nrf2 signaling pathway: focus on oxidative stress in osteoporosis

Gu, H.-Y., Liu, N., Lin, F.-X., & Yin, J. (2025) · Osteoporosis International · doi:10.1007/s00198-025-07592-0 · Cited by 10

TRIM44 enhances autophagy via SQSTM1 oligomerization in response to oxidative stress

Wang, Y., Lyu, L., Vu, T., & McCarty, N. (2024) · Scientific Reports · doi:10.1038/s41598-024-67832-x · Cited by 8

Eternal Youth: A Comprehensive Exploration of Gene, Cellular, and Pharmacological Anti-Aging Strategies

Kitaeva, K. V., Solovyeva, V. V., Blatt, N. L., & Rizvanov, A. A. (2024) · International Journal of Molecular Sciences · doi:10.3390/ijms25010643 · Cited by 7

The mTOR pathway: a common link between Alzheimer's disease and Down Syndrome

Wohlfert, A. J., Phares, J., & Granholm, A.-C. (2024) · Journal of Clinical Medicine · doi:10.3390/jcm13206183 · Cited by 6

Using microbes as a key tool to unravel the mechanism of autophagy and the functions of the ATG proteins

Mauthe, M., & Reggiori, F. (2017) · Microbial Cell · doi:10.15698/mic2017.01.550 · Cited by 3

Itraconazole-Induced the Activation of Adenosine 5'-Monophosphate (Amp)-Activated Protein Kinase Inhibits Tumor Growth of Melanoma via Inhibiting ERK Signaling

Fan, N., Sun, Y., Yan, L., Chen, W., Wang, Y., Wang, S., & Song, Y. (2022) · Cell Biochemistry and Biophysics · doi:10.1007/s12013-021-01048-y · Cited by 2

Effect of Bitis gabonica and Dendroaspis angusticeps snake venoms on apoptosis-related genes in human thymic epithelial cells

Boda, F., Banfai, K., Garai, K., Kovacs, B., Almasi, A., Scheffer, D., Sinkler, R. L., Csonka, R., Czompoly, T., & Kvell, K. (2020) · Journal of Venomous Animals and Toxins including Tropical Diseases · doi:10.1590/1678-9199-jvatitd-2020-0057 · Cited by 2

Untitled work

(2015) · doi:10.1080/15548627.2014.1003478