People

  • Professor

    Noboru Mizushima

    Profile

    Education: 1985:　Faculty of Medicine, Tokyo Medical and Dental University 1991:　Graduate School of Medicine, Tokyo Medical and Dental University 　　　　(M.D., Ph.D.) Research Positions: 1997:　Post doctoral fellow and Assistant professor, Department of Cell Biology, 　　　　National Institute for Basic Biology (Yoshinori Ohsumi’s lab) 2004:　Laboratory Head, Department of Bioregulation and Metabolism, 　　　　The Tokyo Metropolitan Institute of Medical Science 2006:　Professor, Department of Physiology and Cell Biology, 　　　　Tokyo Medical and Dental University 2012-present: 　　　Professor, Department of Biochemistry and Molecular Biology, 　　　Graduate School and Faculty of Medicine,　The University of Tokyo

    Selected publications

    See the page 「Publications/Selected publications」

    Awards

    2001, Young investigator award of the Japanese Biochemical Society; 2005, Mitsubishi Chemical Award of the Molecular Biology Society of Japan; 2006, The Commendation for Science and Technology by the Minister of Education, Culture, Sports, Science and Technology, The Young Scientists’ Prize; 2007, FEBS Letters Young Scientist Award; 2008, JSPS (Japan Society for the Promotion of Science) Prize; 2008, Tsukahara Award (Brain Science Foundation); 2009, Inoue Prize for Science; 2010, Kakiuchi Samuro Memorial Award (Japanese Biochemical Society); 2011, The Takeda Prize for Medical Science; 2013, Thomson Reuters Citation Laureates; 2014, The Yomiuri Techno Forum, Gold Medal Prize; 2015, The Japanese Society of Anti-Aging Medicine Award; 2016, The Uehara Prize; 2016, Academic Award of the Mochida Memorial Foundation; 2017, Takamine Memorial Daiichi Sankyo Prize; 2020, The Fujiwara Prize; 2020, The Medical Award of the Japan Medical Association; 2020, Japan Medical Research and Development Grand Prize, Minister of MEXT Award; 2021, Medal with Purple Ribbon.

    Other Professional Activities

    The Japanese Biochemistry Society (Managing Director, former President), The Molecular Biology Society of Japan (former Director), Japan Society for Cell Biology (Director), American Society for Cell Biology, eLife (reviewing editor), Molecular Cell (editorial board)、Autophagy (associate editor)、Cell Structure and Function (associate editor)、Genes to Cells (associate editor)、Journal of Biochemistry (advisory board), The American Society for Clinical Investigation (Membership)、EMBO (Associate membership)

    Results

    Nagashima, Y., *Eguchi, T., Koyama-Honda, I., *Mizushima, N. Optogenetic tools for inducing organelle membrane rupture. bioRxiv doi: 10.1101/2024.08.13.607738
    Hama, Y., Kurikawa, Y., Matsui, T., *Mizushima, N., *Yamamoto, H. TAX1BP1 recruits ATG9 vesicles through SCAMP3 binding. bioRxiv 2023.08.18.553817; doi: https://doi.org/10.1101/2023.08.18.553817
    Yang, Z., Yoshii, S.R., Sakai, Y., Chino, H., Knorr, R.L. *Mizushima, N. Autophagy adaptors mediate Parkin-dependent mitophagy by forming sheet-like liquid condensates. EMBO J. 43:5613-5634 (2024). doi.org/10.1038/s44318-024-00272-5
    Kurikawa, Y., *Koyama-Honda, I., Igarashi, K., Tamura, N., Koike, S., *Mizushima, N. Organelle landscape analysis using a multi-parametric particle-based method. PLOS Biol 22: e3002777 (2024). doi: 10.1371/journal.pbio.3002777
    Shinoda, S., Sakai, Y., Matsui, T., Uematsu, M., Koyama-Honda, I., Sakamaki, J.I., Yamamoto, H., *Mizushima, N. Syntaxin 17 recruitment to mature autophagosomes is temporally regulated by PI4P accumulation. eLife 12:RP92189 (2024). doi: 10.7554/eLife.92189.
    Eguchi, T., Sakurai, M., Wang, Y., Saito, C., Yoshii, G., Wileman, T., Mizushima, N., *Kuwahara, T., *Iwatsubo, T. The V-ATPase-ATG16L1 axis recruits LRRK2 to facilitate the lysosomal stress response. J. Cell Biol., 223:e202302067 (2024)
    *Sakai, Y., Takahashi, S., Koyama-Honda, I., Saito, C., *Mizushima, N. Experimental determination and mathematical modeling of standard shapes of forming autophagosomes. Nat Commun 15:91 (2024) doi: 10.1038/s41467-023-44442-1
    Schuermans, N., El Chehadeh, S., Hemelsoet, D., Gautheron, J., Vantyghem, M.C., Nouioua, S., Tazir, M., Vigouroux, C., Auclair, M., Bogaert, E., Dufour, S., Okawa, F., Hilbert, P., Van Doninck, N., Taquet, M.C., Rosseel, T., De Clercq, G., Debackere, E., Van Haverbeke, C., Cherif, F.R., Urtizberea, J.A., Chanson, J.B., Funalot, B., Authier, F.J., Kaya, S., Terryn, W., Callens, S., Depypere, B., Van Dorpe, J. Program for Undiagnosed Diseases (UD-PrOZA), Poppe, B., Impens, F., Mizushima, N., Depienne, C., Jéru, I., Dermaut, B. Loss of phospholipase PLAAT3 causes a mixed lipodystrophic and neurological syndrome due to impaired PPAR𝛾 signaling. Nat. Genet. doi: 10.1038/s41588-023-01535-3. Online ahead of print.
    Shimizu, T., Tamura, N., Nishimura, T., Saito, C., Yamamoto, H., *Mizushima, N., Comprehensive analysis of autophagic functions of WIPI family proteins and their implications for the pathogenesis of β-propeller associated neurodegeneration. Hum Mol Genet. 32: 2623-2637 (2023).doi: 10.1093/hmg/ddad096.
    *Nishimura, T., Lazzeri, G., Mizushima, N., *Covino, R., Tooze, S. Unique Amphipathic α-helix Drives Membrane Insertion and Enzymatic Activity of ATG3. Sci Adv 9: eadh1281 (2023)
    Ishii, S., Chinob, H. Ode, K.L., Kurikawa, Y., Ueda, H.R., Matsuura, A., *Mizushima, N., *Itakura, E. CCPG1 recognizes ER luminal proteins for selective ER-phagy. Mol Biol Cell. 34:ar29 (2023) doi: 10.1091/mbc.E22-09-0432
    Shimasawa, M., Sakamaki, J.I., *Mizushima, N. The pH-sensing Rim101 pathway regulates cell size in budding yeast. J. Biol. Chem. 299: 102973 (2023)
    Fu, J., Zhao, L., Pang, Y., Chen, H., Yamamoto, H., Chen, Y., Li, Z., Mizushima, N., *Jia H. Apicoplast biogenesis mediated by ATG8 requires the ATG12–-ATG5-ATG16L and SNAP29 complexes in Toxoplasma gondii. Autophagy 19:1258-1276 (2023)
    Takahashi S, Saito C, *Koyama-Honda I, *Mizushima, N. Quantitative 3D correlative light and electron microscopy of organelle association during autophagy. Cell Struct Funct. 47:89-99 (2022) doi: 10.1247/csf.22071
    Yim, W.W., *Yamamoto, H., *Mizushima, N. A pulse-chasable reporter processing assay for mammalian autophagic flux with HaloTag. eLife 11:e78923 (2022) doi: 10.7554/eLife.78923
    Ohshima, T., Yamamoto, H., Sakamaki, Y., Saito, C., *Mizushima, N. NCOA4 drives ferritin phase separation to facilitate macroferritinophagy and endosomal microferritinophagy. J Cell Biol. 221:e202203102 (2022) doi: 10.1083/jcb.202203102
    Sakamaki, J.I., Ode, K.L., Kurikawa,Y., Ueda, H.R., Yamamoto, H., *Mizushima, N. Ubiquitination of phosphatidylethanolamine in organellar membranes. Mol. Cell 82:3677-3692 (2022) doi: 10.1016/j.molcel.2022.08.008
    Chino, H., Yamasaki, A., Ode, K.L., Ueda, H.R., *Noda, N.N., *Mizushima, N. Phosphorylation by casein kinase 2 ensures ER-phagy receptor TEX264 binding to ATG8 proteins. EMBO Rep. 23:e54801 (2022).
    Zhang, S., Yazaki, E., Sakamoto, H., Yamamoto, H., *Mizushima, N. Evolutionary diversification of the autophagy-related ubiquitin-like conjugation systems. Autophagy 18:2969-2984 (2022).
    Yim, W.W., Yamamoto, H., *Mizushima, N. Annexins A1 and A2 are recruited to larger lysosomal injuries independently of ESCRTs to promote repair. FEBS Lett. 596:991-1003 (2022)
    Yim, W.W., Kurikawa, Y., *Mizushima, N. An exploratory text analysis of the autophagy research field. Autophagy 18:1648-1661 (2022)
    Kusumaatmaja, H., May, A.I., Feeney, M., McKenna, J.F., Mizushima, N., Frigerio, L., *Knorr, R.L. Wetting of phase-separated droplets on plant vacuole membranes leads to a competition between tonoplast budding and nanotube formation. Proc. Natl. Acad. Sci. USA. 118: e2024109118 (2021)
    Yamamoto, Y., Chino, H., Tsukamoto, S., Ode, K. L., Ueda, H. R., Mizushima, N. NEK9 regulates primary cilia formation by acting as a selective autophagy adaptor for MYH9/myosin IIA. Nat Commun 12(1):3292 (2021).
    Mimura, K., Sakamaki, J.I., Morishita, H., Kawazu, M., Mano, H., *Mizushima, N. Genome-wide CRISPR screening reveals nucleotide synthesis negatively regulates autophagy J. Biol. Chem. 296:100780 (2021)
    *Morishita, H., Eguchi, T., Tsukamoto, S., Sakamaki, Y., Takahashi, S., Saito, C., Koyama-Honda, I., *Mizushima, N. Organelle degradation in the lens by PLAAT phospholipases. Nature, 592:634-638 (2021)
    Okawa, F., Hama, Y., Zhang, S., Morishita, H., Yamamoto, H., Levine, T.P., *Mizushima, N. Evolution and insights into the structure and function of the DedA superfamily containing TMEM41B and VMP1. J. Cell Sci. 134:jcs255877 (2021)
    Agudo-Canalejo, J., Schultz, S.W., Chino, H., Migliano, S., Saito, C., Koyama-Honda, I., Stenmark, H., Brech, A., May, A.I., Mizushima, N., *Knorr, R. L. Wetting regulates autophagy of phase separated droplets and the cytosol. Nature 591:142-146 (2021)
    Morishita, H., Kanda, Y., Kaizuka, T., Chino, H., Nakao, K., Miki, Y., Taketomi, Y., Guan J.L., Murakami, M., Aiba, A., *Mizushima, N. Autophagy is required for maturation of surfactant-containing lamellar bodies in the lung and swim bladder. Cell Rep. 33:108477 (2020)
    Maeda, S., Yamamoto, H., Kinch, L.N., Garza, C.M., Takahashi, S., Otomo, C., Grishin, N.V., Forli, S., Mizushima, N., and *Otomo, T. Structure, lipid scrambling activity and role in autophagosome formation of ATG9A. Nat. Struct. Mol. Biol. 27:1194-1201 (2020)
    *Sakai, Y., Koyama-Honda, I., Tachikawa, M., Knorr, R.L., *Mizushima, N. Modeling membrane morphological change during autophagosome formation. iScience 23, 9, 101466 (2020)
    Takahashi, S.S., Sou, Y.S., Saito, T., Kuma, A., Yabe, T., Sugiura, Y., Lee, H.C., Suematsu, M., Yokomizo, T., Koike, M., Terai, S., Mizushima, N., Waguri, S., Komatsu, M. Loss of autophagy impairs physiological steatosis by accumulation of NCoR1. Life Sci. Alliance 3. pii: e201900513 (2019)
    Morishita, H., Zhao, Y.G., Tamura, N., Nishimura, T., Kanda, Y., Sakamaki, Y., Okazaki, M., Li, D., *Mizushima, N. A critical role of VMP1 in lipoprotein secretion. Elife 8. pii: e48834 (2019)
    Chino, H., Hatta, T., Natsume, T., *Mizushima, N. Intrinsically disordered protein TEX264 mediates ER-phagy. Mol. Cell 74:909-921 (2019)
    DeVorkin, L., Pavey, N., Carleton, G., Comber, A., Ho, C., Lim, J., McNamara, E., Huang, H., Kim, P., Zacharias, L.G., Mizushima, N., Saitoh, T., Akira, S., Beckham, W., Lorzadeh, A., Moksa, M., Cao, Q., Murthy, A., Hirst, M., DeBerardinis, R.J., *Lum, J.J. Autophagy Regulation of Metabolism Is Required for CD8+ T Cell Anti-tumor Immunity. Cell Rep. 27:502-513 (2019)
    Saito, T., Kuma, A., Sugiura, Y., Ichimura, Y., Obata, M., Kitamura, H., Okuda, S., Lee, H.C., Ikeda, K., Kanegae, Y., Saito, I., Auwerx, J., Motohashi, H., Suematsu, M., Soga, T., Yokomizo, T., Waguri, S., Mizushima, N., *Komatsu, M. Autophagy regulates lipid metabolism through selective turnover of NCoR1. Nat Commun. 10:1567 (2019)
    Pang, Y., Yamamoto, H., Sakamoto, H., Oku, M., Mutungi, J.K., Sahani, M.H, Kurikawa, Y., Kita, K., Noda, N.N., Sakai, Y., *Jia, H., *Mizushima, N. Evolution from covalent conjugation to non-covalent interaction in the ubiquitin-like ATG12 system. Nat. Struct. Mol. Biol. 26:289-296 (2019)
    Morita, K., Hama, Y., Izume, T., Tamura, N., Ueno, T., Yamashita, Y., Sakamaki, Y., Mimura, K., Morishita, H., Shihoya, W., Nureki, O., Mano, H., *Mizushima, N. Genome-wide CRISPR screen identifies TMEM41B as a gene required for autophagosome formation. J Cell Biol. 217:3817-3828 (2018)
    Matsui, T., Jiang, P., Nakano, S., Sakamaki, Y., Yamamoto, H., *Mizushima, N. Autophagosomal YKT6 is required for fusion with lysosomes independently of syntaxin 17. J Cell Biol. 217:2633-2645 (2018)
    Takahashi, S., Kagami, Y., Hanaoka, K., Terai, T., Komatsu, T., Ueno, T., Uchiyama, M., Koyama-Honda, I., Mizushima, N., Taguchi, T., Arai, H., Nagano, T., Urano, Y. Development of a series of practical fluorescent chemical tools to measure pH values in living samples. J Am Chem Soc. 140:5925-5933 (2018)
    Wallot-Hieke, N., Verma, N., Schlütermann, D., Berleth, N., Deitersen, J., Böhler, P., Stuhldreier, F., Wu, W., Seggewiß, S., Peter, C., Gohlke, H., Mizushima, N., *Stork, B. Systematic analysis of ATG13 domain requirements for autophagy induction. Autophagy. 14:743-763 (2018)
    Tamura, N., Nishimura, T., Sakamaki, Y., Koyama-Honda, I., Yamamoto, H., *Mizushima, N. Differential requirement for ATG2A domains for localization to autophagic membranes and lipid droplets. FEBS Lett. 591:3819-3830 (2017)
    Fujimoto, C., Iwasaki, S., Urata, S., Morishita, H., Sakamaki, Y., Fujioka, M., Kondo, K., Mizushima, N., Yamasoba, T. Autophagy is essential for hearing in mice. Cell Death Dis. 8(5):e2780 (2017)
    Nishimura, T., Tamura, N., Kono, N., Shimanaka, Y., Arai, H., Yamamoto, H., *Mizushima, N. Autophagosome formation is initiated at phosphatidylinositol synthase-enriched ER subdomains. EMBO J. 36:1719-1735 (2017)
    Uematsu, M., Nishimura, T., Sakamaki, Y., Yamamoto, H., *Mizushima, N. Accumulation of undegraded autophagosomes by expression of dominant-negative syntaxin 17 mutants. Autophagy 9:1-13 (2017)
    Kimura, H., Eguchi, S., Sasaki, J., Kuba, K., Nakanishi, H., Takasuga, S., Yamazaki, M., Goto, A., Watanabe, H., Itoh, H., Imai, Y., Suzuki, A., Mizushima, N., *Sasaki, T. Vps34 regulates myofibril proteostasis to prevent hypertrophic cardiomyopathy. JCI Insight 2(1):e89462 (2017)
    Fujita, N., Huang, W., Lin, T.H., Groulx, J.F., Jean, S., Kuchitsu, Y., Koyama-Honda, I., Mizushima, N., Fukuda, M., *Kiger, A.A. Genetic screen in Drosophila muscle identifies autophagy-mediated T-tubule remodeling and a Rab2 role in autophagy. Elife 10.7554/eLife.23367 (2017)
    Tsuboyama, K., Koyama-Honda, I., Sakamaki, Y., Koike, M., Morishita, H., *Mizushima, N. The ATG conjugation systems are important for degradation of the inner autophagosomal membrane. Science 354:1036-1041 (2016)
    Kaizuka, T., Morishita, H., Hama, Y., Tsukamoto, S., Matsui, T., Toyota, Y., Kodama, A., Ishihara, T., Mizushima, T., *Mizushima, N. An autophagic flux probe that releases an internal control. Mol. Cell 64: 835-849 (2016)
    Yoshii, S.R., Kuma, A., Akashi, T., Hara, T., Yamamoto, A., Kurikawa, Y., Itakura, E., Tsukamoto, S., Shitara, H., Eishi, Y., *Mizushima, N. Systemic analysis of Atg5-null mice rescued from neonatal lethality by transgenic ATG5 expression in neurons. Dev. Cell 39: 116-130 (2016)
    Wang, C., Chen, S., Yeo, S., Karsli-Uzunbas, G., White, E., Mizushima, N., Virgin, H.W., Guan, J.L. Elevated p62/SQSTM1 determines the fate of autophagy-deficient neural stem cells by increasing superoxide. J. Cell Biol. 212: 545-60 (2016)
    Kaizuka, T., *Mizushima, N. Atg13 is essential for autophagy and cardiac development in mice. Mol. Cell. Biol. 36: 585-595 (2015)
    Hieke, N., Löffler, A.S., Kaizuka, T., Berleth, N., Böhler, P., Drießen, S., Stuhldreier, F., Friesen, O., Assani, K., Schmitz, K., Peter, C., Diedrich, B., Dengjel, J., Holland, P., Simonsen, A., Wesselborg, S., Mizushima, N., *Stork, B. Expression of a ULK1/2 binding-deficient ATG13 variant can partially restore autophagic activity in ATG13-deficient cells. Autophagy. 11(9):1471-83 (2015)
    Suzuki, H., Kaizuka, T., *Mizushima, N., *Noda, N. N. Structure of the Atg101–Atg13 complex reveals essential roles of Atg101 in autophagy initiation. Nat. Struct. Mol. Biol. 22: 572–580 (2015)
    Zhao, Y.G., Sun, L., Miao, G., Ji, C., Zhao, H., Sun, H., Miao, L., Yoshii, S.R., Mizushima, N., Wang, X., Zhang, H. The autophagy gene Wdr45/Wipi4 regulates learning and memory function and axonal homeostasis. Autophagy. 11:881-90 (2015)
    Schlie, K., Westerback, A., DeVorkin, L., Hughson, L.R., Brandon, J.M., MacPherson, S., Gadawski, I., Townsend, K.N., Poon, V.I., Elrick, M.A., Côté, H.C., Abraham, N., Wherry, E.J., Mizushima, N., Lum, J.J. Survival of Effector CD8+ T Cells during Influenza Infection Is Dependent on Autophagy. J Immunol. 194: 4277-4286 (2015)
    Ishihara, T., Ban-Ishihara, R., Maeda, M., Matsunaga, Y., Ichimura, A., Kyogoku, S., Aoki, H., Katada, S., Nakada, K., Nomura, M., Mizushima, N., Mihara, K., Ishihara, N. Dynamics of Mitochondrial DNA Nucleoids Regulated by Mitochondrial Fission Is Essential for Maintenance of Homogeneously Active Mitochondria during Neonatal Heart Development. Mol Cell Biol. 35:211-23 (2015)
    Lin, H.H., Lin, S.M., Chung, Y., Vonderfecht, S., Camden, J.M., Flodby, P., Borok, Z., Limesand, K.H., Mizushima, N., Ann, D.K. Dynamic involvement of ATG5 in cellular stress responses. Cell Death Dis. 5:e1478 (2014)
    Udagawa, O., Ishihara, T., Maeda, M., Matsunaga, Y., Tsukamoto, S., Kawano, N., Miyado, K., Shitara, H., Yokota, S., Nomura, M., Mihara, K., Mizushima, N., Ishihara, N. Mitochondrial Fission Factor Drp1 Maintains Oocyte Quality via Dynamic Rearrangement of Multiple Organelles. Curr. Biol. 24:2451-8 (2014)
    Kishi-Itakura, C, Koyama-Honda, I., Itakura, E., Mizushima, N. Ultrastructural analysis of autophagosome organization using mammalian autophagy-deficient cells. J. Cell Sci. 127:4089-4102 (2014)
    Ogasawara, Y., Itakura, E., Kono, N., Mizushima, N., Arai, H., Nara, A., Mizukami, T., Yamamoto, A. Stearoyl-CoA Desaturase 1 Activity Is Required for Autophagosome Formation. J. Biol. Chem. 289:23938-50 (2014)
    Yamamoto, A., Mizushima, N., Tsukamoto, S. Fertilization-Induced Autophagy in Mouse Embryos Is Independent of mTORC1. Biol. Reprod. 91:7, 1–7 (2014)
    Jiang, P., Nishimura, T., Sakamaki, Y., Itakura, E., Hatta, T., Natsume, T., Mizushima, N. The HOPS complex mediates autophagosome-lysosome fusion through interaction with syntaxin 17. Mol. Biol. Cell. 25:1327-1337 (2014)
    Watanabe-Asano, T., Kuma, A., Mizushima N. Cycloheximide inhibits starvation-induced autophagy through mTORC1 activation. Biochem. Biophys. Res. Commun. 445:334-339 (2014)
    Sahani, M.H., Itakura, E., Mizushima, N. Expression of the autophagy substrate SQSTM1/p62 is restored during prolonged starvation depending on transcriptional upregulation and autophagy-derived amino acids. Autophagy. 10:431-441 (2014)
    Karanasios, E., Stapleton, E., Manifava, M., Kaizuka, T., Mizushima, N., Walker, S.A., Ktistakis, N.T. Dynamic association of the ULK1 complex with omegasomes during autophagy induction. J. Cell Sci. 126:5224-38 (2013)
    Koyama-Honda, I., Itakura, E., Fujiwara, T.K., Mizushima, N. Temporal analysis of recruitment of mammalian ATG proteins to the autophagosome formation site. Autophagy 9:1491-1499 (2013)
    Seino, J., Wang, L., Harada, Y., Huang, C., Ishii, K., Mizushima, N., Suzuki, T. Basal autophagy is required for the efficient catabolism of sialyloligosaccharides. J. Biol. Chem. 288:26898-26907 (2013)
    Naito, T., Kuma, A., Mizushima, N. Differential contribution of insulin and amino acids to the mTORC1-autophagy pathway in the liver and muscle. J. Biol. Chem. 288:21074-21081 (2013)
    Morishita, H., Eguchi, S., Kimura, H., Sasaki, J., Sakamaki, Y., Robinson, M.L., Sasaki, T., Mizushima, N. Deletion of autophagy-related 5 (Atg5) and Pik3c3 in the lens causes cataract independent of programmed organelle degradation. J. Biol. Chem. 288:11436-11447 (2013)
    Saitsu, H., Nishimura, T., Muramatsu, K., Kodera, H., Kumada, S., Sugai, K., Kasai-Yoshida, E., Sawaura, N., Nishida, H., Hoshino, A., Ryujin, F., Yoshioka, S., Nishiyama, K., Kondo, Y., Tsurusaki, Y., Nakashima, M., Miyake, N., Arakawa, H., Kato, M., Mizushima, N., Matsumoto, N. De novo mutations in the autophagy gene encoding WDR45 (WIPI4) cause static encephalopathy of childhood with neurodegeneration in adulthood. Nat. Genet. 45: 445-449 (2013)
    Nishimura, T., Kaizuka, T., Cadwell, K., Sahani, M.H., Saitoh, T., Akira, S., Virgin, H.W. Mizushima, N. FIP200 regulates targeting of Atg16L1 to the isolation membrane. EMBO Rep. 14: 284-291 (2013)
    Quy, P.N., Kuma, A., Pierre, P., Mizushima, N. Proteasome-dependent activation of mammalian target of rapamycin complex 1 (mTORC1) is essential for autophagy suppression and muscle remodeling following denervation. J. Biol. Chem. 288: 1125-1134 (2013)
    Itakura, E., Kishi-Itakura, C., Mizushima, N. The hairpin-type tail-anchored SNARE syntaxin 17 targets to autophagosomes for fusion with endosomes/lysosomes. Cell 151: 1256-1269 (2012)
    Onoue, K., Jofuku, A., Ban-Ishihara, R., Ishihara, T., Maeda, M., Koshiba, T., Itoh, T., Fukuda, M., Otera, H., Oka, T., Takano, H., Mizushima, N., Mihara, K., Ishihara, N. Fis1 acts as mitochondrial recruitment factor for TBC1D15 that involved in regulation of mitochondrial morphology. J. Cell Sci. 126: 176-185 (2012)
    Imaizumi Y, Okada Y, Akamatsu W, Koike M, Kuzumaki N, Hayakawa H, Nihira T, Kobayashi T, Ohyama M, Sato S, Takanashi M, Funayama M, Hirayama A, Soga T, Hishiki T, Suematsu M, Yagi T, Ito D, Kosakai A, Hayashi K, Shouji M, Nakanishi A, Suzuki N, Mizuno Y, Mizushima N, Amagai M, Uchiyama Y, Mochizuki H, Hattori N, Okano H. Mitochondrial dysfunction associated with increased oxidative stress and alpha-synuclein accumulation in PARK2 iPSC-derived neurons and postmortem brain tissue. Mol. Brain. 5:35 (2012)
    Lin, T.C., Chen, Y.R., Kensicki, E., Li, A.Y., Kong, M., Li, Y., Mohney, R.P., Shen, H.M., Stiles, B., Mizushima, N., Lin, L.I., Ann, D.K. Autophagy: Resetting glutamine-dependent metabolism and oxygen consumption. Autophagy 8: 1477-1493 (2012)
    Kitamura, K., Kishi-Itakura, C., Tsuboi, T., Sato, S., Kita, K., Ohta, N., Mizushima, N. Autophagy-Related Atg8 Localizes to the Apicoplast of the Human Malaria Parasite Plasmodium falciparum. PLoS One 7:e42977 (2012)
    Liu, S., Hartleben, B., Kretz, O., Wiech, T., Igarashi, P., Mizushima, N., Walz, G., Huber, T.B. Autophagy plays a critical role in kidney tubule maintenance, aging and ischemia-reperfusion injury. Autophagy 8: 826-837 (2012)
    Itakura, E., Kishi-Itakura, C., Koyama-Honda, I., Mizushima, N. Structures containing Atg9A and the ULK1 complex independently target depolarized mitochondria at initial stages of Parkin-mediated mitophagy. J. Cell Sci. 125: 1488-1499 (2012)
    Velikkakath, A.K.G, Nishimura, T., Oita, E., Ishihara, N., Mizushima, N. Mammalian Atg2 proteins are essential for autophagosome formation and important for regulation of size and distribution of lipid droplets. Mol. Biol. Cell 23: 896-909 (2012)
    Katayama, H., Kogure, T., Mizushima, N., Yoshimori, T., Miyawaki, A. A sensitive and quantitative technique for detecting autophagic events based on lysosomal delivery. Chem. Biol. 18:1042-1052 (2011)
    Yoshii, S.R., Kishi, C., Ishihara, N., Mizushima, N. Parkin mediates proteasome-dependent protein degradation and rupture of the outer mitochondrial membrane. J. Biol. Chem. 286:19630-19640 (2011)
    Asano, T., Komatsu, M., Yamaguchi-Iwai, Y., Ishikawa, F., Mizushima, N., Iwai, K. Distinct mechanisms of ferritin delivery to lysosomes in iron depleted and iron-replete cells. Mol. Cell Biol. 31, 2040-52 (2011)
    Takamura, A., Komatsu, M., Hara, T., Sakamoto, A., Kishi, C., Waguri, S., Eishi, Y., Hino, O., Tanaka, K., Mizushima, N. Autophagy-deficient mice develop multiple liver tumors. Genes Dev. 25: 795-800 (2011)
    Itakura, E., Mizushima, N. p62 targeting to the autophagosome formation site requires self-oligomerization but not LC3 binding. J. Cell Biol. 192: 17-27 (2011)
    Riley, B.E., Kaiser, S.E., Shaler, T.A., Ng, A.C., Hara, T., Hipp, M.S., Lage, K., Xavier, R.J., Ryu, K.Y., Taguchi, K., Yamamoto, M., Tanaka, K., Mizushima, N., Komatsu, M., Kopito, R.R. Ubiquitin accumulation in autophagy-deficient mice is dependent on the Nrf2-mediated stress response pathway: a potential role for protein aggregation in autophagic substrate selection. J. Cell Biol. 191: 537-552 (2010)
    Itakura, E., Mizushima, N. Characterization of autophagosome formation site by a hierarchical analysis of mammalian Atg proteins. Autophagy 6: 764-76 (2010)
    Taneike, M., Yamaguchi, O., Nakai, A., Hikoso, S., Takeda, T., Mizote, I., Oka, T., Tamai, T., Oyabu, J., Murakawa, T., Nishida, K., Shimizu, T., Hori, M., Komuro, I., Shirasawa, T., Mizushima, N., Otsu, K. Inhibition of autophagy in the heart induces age-related cardiomyopathy. Autophagy 6: 600-606 (2010)
    Kaizuka, T., Hara, T., Oshiro, N., Kikkawa, U., Yonezawa, K., Takehana, K., Iemura, S., Natsume, T., Mizushima, N. Tti1 and Tel2 are critical factors in mammalian target of rapamycin complex assembly. J. Biol. Chem. 285: 20109-20116 (2010)
    Lee, H.K., Mattei, L.M., Steinberg, B.E., Alberts, P., Lee, Y.H., Chervonsky, A., Mizushima, N., Grinstein, S., Iwasaki, A. In vivo requirement for Atg5 in antigen presentation by dendritic cells. Immunity 32:227-239 (2010)
    Hartleben, B., Gödel, M., Meyer-Schwesinger, C., Liu, S., Ulrich, T., Köbler, S., Wiech, T., Grahammer, F., Arnold, S.J., Lindenmeyer, M.T., Cohen, C.D., Pavenstädt, H., Kerjaschki, D., Mizushima, N., Shaw, A.S., Walz, G., Huber, T.B. Autophagy influences glomerular disease susceptibility, and maintains podocyte homeostasis in aging mice. J. Clin. Invest. 120:1084-1096 (2010)
    Katsumata, K., Nishiyama, J., Inoue, T., Mizushima, N., Takeda, J., Yuzaki, M. Dynein- and activity-dependent retrograde transport of autophagosomes in neuronal axons. Autophagy 2010 Apr 20;6(3)
    Nishiyama, J., Matsuda, K., Kakegawa, W., Yamada, N., Motohashi, J., Mizushima, N., Yuzaki, M. Reevaluation of neurodegeneration in lurcher mice: Constitutive ion fluxes cause cell death with, not by, autophagy. J. Neurosci. 30:2177-87 (2010)
    Inoue, K., Kuwana, H., Shimamura, Y., Ogata, K., Taniguchi, Y., Kagawa, T., Horino, T., Takao, T., Morita, T., Sasaki, S., Mizushima, N., Terada, Y. Cisplatin-induced macroautophagy occurs prior to apoptosis in proximal tubules in vivo. Clin. Exp. Nephrol. 14:112-122 (2010)
    Hosokawa, N., Sasaki, T., Iemura, S., Natsume, T., Hara, T., Mizushima, N. Atg101, a novel mammalian autophagy protein interacting with Atg13. Autophagy. 5:973-9 (2009)
    Satoo, K., Noda, N.N., Kumeta, H., Fujioka, Y., Mizushima, N., Ohsumi, Y., Inagaki, F. The structure of Atg4B-LC3 complex reveals the mechanism of LC3 processing and delipidation during autophagy. EMBO J. 28:1341-50 (2009)
    Stephenson, L.M., Miller, B.C., Ng, A., Eisenberg, J., Zhao, Z., Cadwell, K., Graham, D.B., Mizushima, N., Xavier, R., Virgin, H.W., Swat, W. Identification of Atg5-dependent transcriptional changes and increases in mitochondrial mass in Atg5-deficient T lymphocytes. Autophagy 5:625-35 (2009)
    Hosokawa, N., Hara, T., Kaizuka, T., Kishi, C., Takamura, A., Miura, Y., Iemura, S., Natsume, T., Takehana, K., Yamada, N., Guan, J.L., Oshiro, N., Mizushima, N. Nutrient-dependent mTORC1 association with the ULK1-Atg13-FIP200 complex required for autophagy. Mol. Biol. Cell 20: 1981-1991 (2009)
    Zhao, Z., Fux, B., Goodwin, M., Dunay, I.R., Strong, D., Miller, B.C., Cadwell, K., Delgado, M.A., Ponpuak, M., Green, K.G., Schmidt, R.E., Mizushima, N., Deretic, V., Sibley, L.D., Virgin, H.W. Autophagosome-independent essential function for the autophagy protein Atg5 in cellular immunity to intracellular pathogens. Cell Host Microbe. 4: 458-469 (2008)
    Cadwell, K., Liu, J.Y., Brown, S.L., Miyoshi, H., Loh, J., Lennerz, J.K., Kishi, C., Kc, W., Carrero, J.A., Hunt, S., Stone, C.D., Brunt, E.M., Xavier, R.J., Sleckman, B.P., Li, E., Mizushima, N., Stappenbeck, T.S., Virgin, IV H.W. A key role for autophagy and the autophagy gene Atg16l1 in mouse and human intestinal Paneth cells. Nature 456: 259-263 (2008)
    Itakura, E., Kishi, C., Inoue, K., Mizushima, N. Beclin 1 Forms Two Distinct Phosphatidylinositol 3-Kinase Complexes with Mammalian Atg14 and UVRAG. Mol. Biol. Cell 19: 5360-5372 (2008)
    Ohne, Y., Takahara, T., Hatakeyama, R., Matsuzaki, T., Noda, M., Mizushima, N., Maeda, T. Isolation of hyperactive mutants of mammalian target of rapamycin. J. Biol. Chem. 283: 31861-31870 (2008)
    Gozuacik, D., Bialik, S., Raveh, T., Mitou, G., Shohat, G., Sabanay, H., Mizushima, N., Yoshimori, T., Kimchi, A. DAP-kinase is a mediator of endoplasmic reticulum stress-induced caspase activation and autophagic cell death. Cell Death Differ. 15: 1875-1886 (2008)
    Raben, N., Hill, V., Shea, L., Takikita, S., Baum, R., Mizushima, N., Ralston, E., Plotz, P. Suppression of autophagy in skeletal muscle uncovers the accumulation of ubiquitinated proteins and their potential role in muscle damage in Pompe disease. Hum. Mol.Genet. 17: 3897-3908 (2008)
    Sou, Y.S., Waguri, S., Iwata, J.I., Ueno, T., Fujimura, T., Hara, T., Sawada, N., Yamada, A., Mizushima, N., Uchiyama, Y., Kominami, E., Tanaka, K., Komatsu, M. The Atg8 Conjugation System Is Indispensable for Proper Development of Autophagic Isolation Membranes in Mice. Mol. Biol. Cell 19: 4762-4775 (2008)
    Nedjic, J., Aichinger, M., Emmerich, J., Mizushima, N., Klein, L. Autophagy in thymic epithelial cells shapes the T cell repertoire and is essential for self-tolerance. Nature 455: 396-400 (2008)
    Hashimoto, D., Ohmuraya, M., Hirota, M., Yamamoto, A., Suyama, K., Ida, S., Okumura, Y., Takahashi, E., Kido, H., Araki, K., Baba, H., Mizushima, N., Yamamura, K., Involvement of autophagy in trypsinogen activation within the pancreatic acinar cells. J. Cell Biol. 181: 1065-1072 (2008)
    Tsukamoto, S., Kuma, A., Murakami, M., Kishi, C., Yamamoto, A., Mizushima, N. Autophagy is essential for preimplantation development of mouse embryos. Science 321: 117-120 (2008)
    Hara, T., Takamura, A., Kishi, C., Iemura, S., Natsume, T., Guan, J.L., Mizushima, N. FIP200, a ULK-interacting protein, is required for autophagosome formation in mammalian cells. J. Cell Biol. 181: 497-510 (2008)
    Kaushik, S., Massey, A. C., Mizushima, N., Cuervo, A. M. Constitutive activation of chaperone-mediated autophagy in cells with impaired macroautophagy. Mol. Biol. Cell 19: 2179-2192, (2008)
    Tallóczy, Z., Martinez, J., Joset, D., Ray, Y., Gácser, A., Toussi, S., Mizushima, N., Nosanchuk, J., Goldstein, H., Loike, J., Sulzer, D., Santambrogio, L. Methamphetamine Inhibits Antigen Processing, Presentation, and Phagocytosis. PLoS Pathog. 4:e28 (2008)
    Katayama, H., Yamamoto, A., Mizushima, N., Yoshimori, T., Miyawaki, A. GFP-like Proteins Stably Accumulate in Lysosomes. Cell Struct. Funct. 33: 1-12 (2008)
    King, M.A., Hands, S., Hafiz, F., Mizushima, N., Tolkovsky, A.M., Wyttenbach, A. Rapamycin inhibits polyglutamine aggregation independently of autophagy by reducing protein synthesis. Mol. Pharmacol. 73: 1052-63 (2008)
    Miller, B.C., Zhao, Z., Stephenson, L.M., Cadwell, K., Pua, H.H., Lee, H.K., Mizushima, N., Iwasaki, A., He, Y.W., Swat, W., Virgin, H.W. The autophagy gene ATG5 plays an essential role in B lymphocyte development. Autophagy 4: 309-14 (2008)
    Kuma, A., Mizushima, N. Chromosomal mapping of the GFP-LC3 transgene in GFP-LC3 mice. Autophagy 4:61-62 (2008)
    Nishiyama, J., Miura, E., Mizushima, N., Watanabe, M., Yuzaki, M. Aberrant membranes and double-membrane structures accumulate in the axons of Atg5-null Purkinje cells before neuronal death.Autophagy 3:591-596 (2007)
    Komatsu, M., Waguri, S., Koike, M., Sou, Y.S., Ueno, T., Hara, T., Mizushima, N., Iwata, J.I., Ezaki, J., Murata, S., Hamazaki, J., Nishito, Y., Iemura, S.I., Natsume, T., Yanagawa, T., Uwayama, J., Warabi, E., Yoshida, H., Ishii, T., Kobayashi, A., Yamamoto, M., Yue, Z., Uchiyama, Y., Kominami, E., Tanaka, K. Homeostatic Levels of p62 Control Cytoplasmic Inclusion Body Formation in Autophagy-Deficient Mice. Cell 131:1149-1163 (2007)
    Alexander, D.E., Ward, S.L., Mizushima, N., Levine, B., Leib, D.A. Analysis of the role of autophagy in replication of herpes simplex virus in cell culture. J. Virol. 81:12128-12134 (2007)
    Zhao, Z., Thackray, L.B., Miller, B.C., Lynn, T.M., Becker, M.M., Ward, E., Mizushima, N., Denison, M.R., Virgin, H.W. 4th. Coronavirus Replication Does Not Require the Autophagy Gene ATG5. Autophagy 3:581-585 (2007)
    Nakai, A., Yamaguchi, O., Takeda, T., Higuchi, Y., Hikoso, S., Taniike, M., Omiya, S., Mizote, I., Matsumura, Y., Asahi, M., Nishida, K., Hori, M., Mizushima, N., Otsu, K. The role of autophagy in cardiomyocytes in the basal state and in response to hemodynamic stress. Nat. Med. 13:619-24 (2007)
    Kuma, A., Matsui, M. and Mizushima, N. LC3, an autophagosome marker, can be incorporated into protein aggregates independent of autophagy: Caution in the interpretation of LC3 localization. Autophagy 3:323-328 (2007)
    Lee, H.K., Lund, J.M., Ramanathan, B., Mizushima, N., Iwasaki, A. Autophagy-dependent viral recognition by plasmacytoid dendritic cell. Science 315: 1398-1401 (2007)
    Satoo, K., Suzuki, N.N., Fujioka, Y., Mizushima, N., Ohsumi, Y., Inagaki, F. Crystallization and preliminary crystallographic analysis of human Atg4B–LC3 complex. Acta Crystallograph. Sect. F Struct. Biol. Cryst. Commun. 63:99-102 (2007)
    Pua, H.H., Dzhagalov, I., Chuck, M., Mizushima, N., He, Y-W. A critical role for the autophagy gene Atg5 in T cell survival and proliferation. J. Exp. Med. 204:25-31 (2007)
    Adhami, F., Liao, G., Morozov, Y. M., Schloemer, A., Schmithorst, V. J., Lorenz, J. N., Dunn, R. S., Vorhees, C. V., Wills-Karp, M., Degen, J. L., Davis, R. J., Mizushima, N., Rakic, P., Dardzinski, B. J., Holland, S. K., Sharp, F. R., Kuan, C.-Y. Cerebral ischemia-hypoxia induces intravascular coagulation and autophagy. Am. J. Pathol. 169, 566-583 (2006)
    Wang, Q.J., Ding, Y., Zhong, Y., Kohtz, S., Mizushima, N., Cristea, I.M., Rout, M.P., Chait, B.T., Heintz, N. and Yue, Z. Induction of autophagy in axonal dystrophy and degeneration. J. Neurosci 26, 8057-8068 (2006)
    Szeto, J., Kaniuk, N.A., Canadien, V., Nisman, R., Mizushima, N., Yoshimori, T., Bazett-Jones, D.P., Brumell, J.H. ALIS are stress-induced protein storage compartments for substrates of the proteasome and autophagy. Autophagy 2, 189-199 (2006)
    Hosokawa, N., Hara, Y., Mizushima, N. Generation of cell lines with tetracycline-regulated autophagy and a role for autophagy in controlling cell size. FEBS Lett. 580, 2623-2629 (2006)
    Hara, T., Nakamura, K., Matsui, M., Yamamoto, A., Nakahara, Y., Suzuki-Migishima, R. Yokoyama, M., Mishima, K., Saito, I., Okano, H., Mizushima, N. Suppression of basal autophagy in neural cells causes neurodegenerative disease in mice. Nature 441, 885-889 (2006)
    Shibata. M., Lu, T., Furuya, T., Degterev, A., Mizushima, N., Yoshimori, T., Macdonald, M., Yankner, B., Yuan, J. Regulation of intracellular accumulation of mutant Huntingtin by Beclin 1. J. Biol. Chem. 281, 14474-14485 (2006)
    Zhang, H., Monken, C.E., Zhang, Y., Lenard, J., Mizushima, N., Lattime, E.C., Jin, S. Cellular autophagy machinery is not required for vaccinia virus replication and maturation. Autophagy 2, 91-95 (2006)
    Kamimoto, T., Shoji, S., Hidvegi, T., Mizushima, N., Umebayashi, K., Perlmutter, D.H., Yoshimori, T. Intracellular inclusions containing mutant alpha 1-antitrypsin Z are propagated in the absence of autophagic activity. J. Biol. Chem. 281, 4467-4476 (2006)
    Koike, M., Shibata, M., Waguri, S., Yoshimura, K., Tanida, I., Kominami, E., Gotow, T., Peters, C., von Figura, K., Mizushima, N., Saftig, P., Uchiyama, Y. Participation of autophagy in storage of lysosomes in neurons from mouse models of neuronal ceroid-lipofuscinoses (batten disease). Am. J. Pathol. 167, 1713-28 (2005)
    Matsui, M., Yamamoto, A., Kuma, A., Ohsumi, Y., Mizushima, N. Organelle degradation during the lens and erythroid differentiation is independent of autophagy. Biochem. Biophys. Res. Commun. 339, 485-489 (2006)
    Hara, T., Kamura, T., Kotoshiba, S., Takahashi, H., Fujiwara, K., Onoyama, I., Shirakawa, M., Mizushima, N., Nakayama, K.I. Role of the UBL-UBA protein KPC2 in degradation of p27 at G1 phase of the cell cycle. Mol. Cell. Biol. 25, 9292-9303 (2005)
    Sugawara, K., Suzuki, N.N., Fujioka, Y., Mizushima, N., Ohsumi, Y., Inagaki, F. Structural basis for the specificity and catalysis of human Atg4B responsible for mammalian autophagy. J Biol Chem. 280, 40058-40065 (2005)
    Pattingre, S., Tassa, A., Qu, X., Garuti, R., Huan Liang, X., Mizushima, N., Packer, M., Schneider, M.D., Levine, B. Bcl-2 Antiapoptotic Proteins Inhibit Beclin 1-Dependent Autophagy. Cell 122, 927-939 (2005)
    Ohmuraya, M., Hirota, M., Araki, M., Mizushima, N., Matsui, M., Mizumoto, T., Haruna, K., Kume, S., Takeya, M., Ogawa, M., Araki, K., Yamamura, K. Autophagic cell death of pancreatic acinar cells in serine protease inhibitor kazal type 3-deficient mice. Gastroenterology 129, 696-705 (2005)
    Degterev, A., Huang, Z., Boyce, M., Li, Y., Jagtap, P., Mizushima, N., Cuny, G.D., Mitchison, T.J., Moskowitz, M.A., Yuan, J. Chemical inhibitor of nonapoptotic cell death with therapeutic potential for ischemic brain injury. Nature. Chem. Biol. 1, 112-119 (2005)
    Komatsu, M., Waguri, S., Ueno, T., Iwata, J., Murata, S., Tanida, I., Ezaki, J., Mizushima, N., Ohsumi, Y., Uchiyama, Y., Kominami, E., Tanaka, K., Chiba, T. Impairment of starvation-induced and contitutive autophagy in Atg7-deficient mice. J. Cell Biol. 169, 425-434 (2005)
    Pyo, J.O., Jang, M.H., Kwon, Y.K., Lee, H.J., Jun, J.I., Woo, H.N., Cho, D.H., Choi, B., Lee, H., Kim, J.H., Mizushima, N., Oshumi, Y., Jung, Y.K. Essential roles of Atg5 and FADD in autophagic cell death: Dissection of autophagic cell death into vacuole formation and cell death. J Biol Chem. 280, 20722-20729 (2005)
    Bampton, E.T.W., Goemans, C.G., Niranjan, D., Mizushima, N., Tolkovsky, A.M. The dynamics of autophagy visualised in live cells: from autophagosome formation to fusion with endo/lysosomes. Autophagy. 1, 23-36 (2005)
    Ogawa, M., Yoshimori, T., Suzuki, T., Sagara, H., Mizushima, N., Sasakawa, C. Escape of intracellular Shigella from autophagy. Science 307, 727-731 (2005)
    Shimizu, S., Kanaseki, T., Mizushima, N., Mizuta, T., Arakawa-Kobayashi, S., Thompson, C.B., Korsmeyer, S.J. Tsujimoto, Y. Role of Bcl-2 family of proteins in non-apoptotic programmed cell death dependent on autophagy genes. Nature. Cell Biol. 12,1221-1228 (2004)
    Kuma, A., Hatano, M., Matsui, M., Yamamoto, A., Nakaya, H., Yoshimori, T., Ohsumi, Y., Tokuhisa, T., Mizushima, N. The role of autophagy during the early neonatal starvation period. Nature. 432, 1032-1036 (2004)
    Nakagawa, I., Amano, A., Mizushima, N., Yamamoto, A., Yamaguchi, H., Kamimoto, T., Nara, A., Funao, J., Nakata, M., Tsuda, K., Hamada, S., Yoshimori, T. Autophagy defends cells against invading group A Streptococcus. Science. 306, 1037-1040 (2004)
    Sugawara K, Suzuki NN, Fujioka Y, Mizushima N, Ohsumi Y, Inagaki F. The crystal structure of microtubule-associated protein light chain 3, a mammalian homologue of Saccharomyces cerevisiae Atg8. Genes Cells. 9, 611-618 (2004)
    Ichimura, T., Kubota, H., Goma, T., Mizushima, N., Ohsumi, Y., Iwago, M., Kakiuchi, K., Shekhar, H.U., Shinkawa, T., Taoka, M., Ito T., Isobe, T. Transcriptomic and Proteomic Analysis of a 14-3-3 Gene-Deficient Yeast. Biochemistry 43, 6149-6158 (2004)
    Simonsen, A., Birkeland, H., Gillooly, D.J., Mizushima, N., Kuma, A., Yoshimori, T., Slagsvold, T., Brech, A., Stenmark, H. Alfy, a novel FYVE domain-containing protein associated with protein granules and autophagic membranes. J. Cell Sci. 117, 4239-4251 (2004)
    Kabeya, Y., Mizushima, N., Yamamoto, A., Oshitani-Okamoto, S., Ohsumi, Y. and Yoshimori, T. LC3, GABARAP and GATE16 localize to autophagosomal membrane depending on form-II formation. J. Cell Sci. 117, 2805-2812 (2004)
    Shitara, H., Sato, A., Hayashi, J., Mizushima, N., Yonekawa, H., Taya, C., Simple method of zygosity identification in transgenic mice by real-time quantitative PCR. Transgenic Research 13, 191-194 (2004)
    Prentice,E., Jerome, WG, Yoshimori, T., Mizushima, N., Denison, MR. Coronavirus Replication Complex Formation Utilizes Components of Cellular Autophagy J. Biol. Chem. 279, 10136-10141 (2004)
    Mizushima, N., Yamamoto, A., Matsui, M., Yoshimori, T. and Ohsumi, Y. In vivo analysis of autophagy in response to nutrient starvation using transgenic mice expressing a fluorescent autophagosome marker. Mol. Biol. Cell 15, 1101-1111 (2004)
    Qu X, Yu J, Bhagat G, Furuya N, Hibshoosh H, Troxel A, Rosen J, Eskelinen EL, Mizushima N, Ohsumi Y, Cattoretti G, Levine B. Promotion of tumorigenesis by heterozygous disruption of the beclin 1 autophagy gene. J. Clin. Invest. 112, 1809-1820 (2003)
    Sugawara, K., Suzuki, NN., Fujioka, Y., Mizushima, N., Ohsumi, Y., Inagaki, F. Crystallization and preliminary X-ray analysis of LC3-I. Acta Crystallogr. D Biol. Crystallogr. 59, 1464-1465 (2003)
    Ohashi, M., Mizushima, N., Kabeya, Y. and Yoshimori, T. Localization of mammalian NAD(P)H steroid dehydrogenase-like protein on lipid droplets J. Biol. Chem. 278, 36819-36829 (2003)
    Mizushima, N., Kuma, A., Kobayashi, Y., Yamamoto, A., Matsubae, M., Takao, T., Natsume, T., Ohsumi, Y. and Yoshimori, T. Mouse Apg16L, a novel WD-repeat protein, targets to the autophagic isolation membrane with the Apg12-Apg5 conjugate J. Cell Sci. 116, 1679-1688 (2003)
    Mizushima, N., Yoshimori, T. and Ohsumi, Y. Mouse Apg10 as an Apg12 conjugating enzyme: Analysis by the conjugation-mediated yeast two-hybrid method FEBS Lett. 532, 450-454 (2002)
    Kuma, A., Mizushima, N., Ishihara, N. and Ohsumi, Y. Formation of the ~350 kDa Apg12-Apg5-Apg16 multimeric complex, mediated by Apg16 oligomerization, is essential for autophagy in yeast J. Biol. Chem. 277, 18619-18625 (2002)
    Nara, A., Mizushima, N., Yamamoto, A., Kabeya, Y., Ohsumi, Y. and Yoshimori, T. SKD1 AAA ATPase-dependent endosomal transport is involved in autolysosome formation Cell Struct. Func. 27, 29-37 (2002)
    Mizushima, N., Yamamoto, A., Hatano, M., Kobayashi, Y., Kabeya, Y., Suzuki, K., Tokuhisa, T., Ohsumi, Y. and Yoshimori, T. Dissection of Autophagosome Formation using Apg5-Deficient Mouse Embryonic Stem Cells J. Cell Biol. 152, 657-667 (2001)
    Suzuki, K., Kirisako, T., Kamada, Y., Mizushima, N., Noda, T. and Ohsumi, Y. The pre-autophagosomal structure organized by concerted functions of APG genes is essential for autophagosome formation EMBO J. 20, 5971-5981 (2001)
    Ichimura, Y., Kirisako, T., Takao, T., Satomi, Y., Shimonishi, Y., Ishihara, N., Mizushima, N., Tanida, I., Kominami, E., Ohsumi, M., Noda, T. and Ohsumi, Y. A ubiquitin-like system mediates protein lipidation Nature 408, 488-492 (2000)
    Kirisako, T., Ichimura, Y., Okada, H., Kabeya, Y., Mizushima, N., Yoshimori, T., Ohsumi, M., Takao, T., Noda, T. and Ohsumi, Y. The reversible modification regulates the membrane-binding state of Apg8/Aut7 essential for autophagy and the cytoplasm to vacuole targeting pathway J. Cell Biol. 151, 263-275 (2000)
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    Furukawa, K., Mizushima, N., Noda, T. and Ohsumi, Y. A Protein Conjugation System in Yeast with Homology to Biosynthetic Enzyme Reaction of Prokaryotes J. Biol. Chem 275, 7462-7465 (2000)
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    George, M. D., Baba, M., Scott, S. V., Mizushima, N., Garrison, B. S., Ohsumi, Y. and Klionsky, D. J. Apg5p functions in the sequestration step in the cytoplasm-to-vacuole targeting and macroautophagy pathways [In Process Citation] Mol. Biol. Cell 11, 969-82 (2000)
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    Takenaga, M., Igarashi, R., Matsumoto, K., Takeuchi, J., Mizushima, N., Nakayama, T., Morizawa, Y. and Mizushima, Y. Lipid microsphere preparation of a lipophilic ceramide derivative suppresses colony formation in a murine experimental pulmonary metastasis model J. Drug Target 7, 187-95 (1999)
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    Hayashi, H., Mizushima, N., Yoshinaga, H., Kawamitsu, H., Matsuda, S., Tanoue, M., Kurosawa, H., Fujimoto, H. and Amakawa, T. The relationship between lipoprotein(a) and low density lipoprotein receptors during the treatment of hyperthyroidism Horm. Metab.Res. 28, 384-387 (1996)
    Mizushima, N., Kohsaka, H., Tsubota, K., Saito, I. and Miyasaka, N. Diverse T cell receptor beta gene usage by infiltrating T cells in the lacrimal glands of Sjogren's syndrome Clin. Exp. Immunol. 101, 33-38 (1995)

    Introductory Article

    *Mizushima, N. Ubiquitin in autophagy and non-protein ubiquitination. Nat. Struct. Mol. Biol. 31:208-209 (2024) doi: 10.1038/s41594-024-01217
    *Sakamaki, J.-i., *Mizushima, N. Ubiquitination of non-protein substrates. Trends Cell Biol. 33: 991-1003 (2023) doi: 10.1016/j.tcb.2023.03.014
    *Sakamaki, J.-i., *Mizushima, N. Cell biology of protein–lipid conjugation. Cell Struct. Funct. 48: 99-112 (2023) doi: 10.1247/csf.23016
    Liton, P.B., Boesze-Battaglia, K., Boulton, M.E., Boya, P., Ferguson, T.A., Ganley, I.G., Kauppinnen, A., Laurie, G.W., *Mizushima, N., Morishita, H., Russok, R., Sadda, J., Shyam, R., Sinha, D., Thompson, D.A., and Zacks. D.N. Autophagy in the eye: from physiology to pathophysiology. Autophagy Rep. 1: 2178996 (2023) doi.org/10.1080/27694127.2023.2178996
    Yamamoto, H., Zhang, S., *Mizushima, N. Autophagy genes in biology and disease. Nat. Rev. Genet. 24:382-400 (2023) doi: 10.1038/s41576-022-00562-w
    *Sakamaki, J.-i., *Mizushima, N. Protocols to detect ubiquitinated phospholipids by immunoblotting. STAR Protoc. 4:101935 (2022) doi: 10.1016/j.xpro.2022.101935
    Holthuis, J.C.M., Jahn, H., Menon, A.K., Mizushima, N. An alliance between lipid transfer proteins and scramblases for membrane expansion. Fac. Rev. 11:22 (2022)
    *Mizushima, N. SnapShot: Organelle degradation. Mol. Cell 82:1604-1604.e1 (2022)
    Chino, H., *Mizushima, N. ER-phagy: quality and quantity control of the endoplasmic reticulum by autophagy. Cold Spring Harb. Perspect. Biol. 8:a041256 (2022)
    Hama, Y., Morishita, H., *Mizushima, N. Regulation of ER-derived membrane dynamics by the DedA domain-containing proteins VMP1 and TMEM41B. EMBO Rep. 23:e53894 (2022)
    Klionsky, D.J., Petroni, G., Amaravadi, R.K., Baehrecke, E.H., Ballabio, A., Boya, P., Bravo-San Pedro, J.M., Cadwell, K., Cecconi, F., Choi, A.M.K., Choi, M.E., Chu, C.T., Codogno, P., Colombo, M.I., Cuervo, A.M., Deretic, V., Dikic, I., Elazar, Z., Eskelinen, E.L., Fimia, G.M., Gewirtz, D.A., Green, D.R., Hansen, M., Jäättelä, M., Johansen, T., Juhász, G., Karantza, V., Kraft, C., Kroemer, G., Ktistakis, N.T., Kumar, S., Lopez-Otin, C., Macleod, K.F., Madeo, F., Martinez, J., Meléndez, A., Mizushima, N., Münz, C., Penninger, J.M., Perera, R.M., Piacentini, M., Reggiori, F., Rubinsztein, D.C., Ryan, K.M., Sadoshima, J., Santambrogio, L., Scorrano, L., Simon, H.U., Simon, A.K., Simonsen, A., Stolz, A., Tavernarakis, N., Tooze, S.A., Yoshimori, T., Yuan, J., Yue, Z., Zhong, Q., *Galluzzi, L., *Pietrocola, F. Autophagy in major human diseases. EMBO J. 40:e108863 (2021)
    *Mizushima, N., *White E, *Rubinsztein DC. Breakthroughs and bottlenecks in autophagy research. Trends Mol. Med. 11;S1471-4914(21)00179-9 (2021)
    Yamamoto, Y., *Mizushima, N. Autophagy and ciliogenesis. JMA J. 15:207-215 (2021)
    Klionsky et al. "Guidelines for the use and interpretation of assays for monitoring autophagy (4th edition)." Autophagy 17:1-382 (2021)
    Morishita, H., Kanda, Y., *Mizushima, N. No air without autophagy: autophagy is important for lung and swim bladder inflation. Autophagy, 17(4):1040-1041 (2021)
    Schultz, S.W., Agudo-Canalejo, J., Chino, H., Migliano, S., Saito, C., Koyama-Honda, I., Stenmark, H., Brech, A., Mizushima, N., *Knorr, R. L., *May, A.I. Should I bend or should I grow: the mechanisms of droplet-mediated autophagosome formation. Autophagy, 17:1046-1048 (2021)
    Yim, W.W., *Mizushima, N. Autophagosome maturation stymied by SARS-CoV-2. Dev. Cell 56:400-402 (2021)
    *Mizushima, N., Levine, B. Autophagy in human diseases. N. Engl. J. Med 383:1564-1576 (2020)
    *Simon, A.K., *Mizushima, N. Beth Levine 1960-2020. Nat. Cell Biol. 22:909-910 (2020)
    Mizushima et al., Autophagy assays for biological discovery and therapeutic development, Trends Biochem Sci. (2020)
    Chino, H., *Mizushima, N. ER-phagy: Quality control and turnover of endoplasmic reticulum. Trends Cell Biol. 30:384-398 (2020)
    Yim, W.W., *Mizushima, N. Lysosome biology in autophagy. Cell Discov. 6:6 (2020)
    Mizushima, N. The ubiquitin E2 enzyme UBE2QL1 mediates lysophagy. EMBO Rep. 15:e49104 (2019)
    Morishita, H., *Mizushima, N. Diverse cellular roles of autophagy. Annu. Rev. Cell Dev. Biol. 35:453-475 (2019)
    Morita, K., Hama, Y., *Mizushima, N. TMEM41B functions with VMP1 in autophagosome formation. Autophagy. 15:922-923 (2019)
    Mizushima, N., Matsui, T., Yamamoto, H. YKT6 as a second SNARE protein of mammalian autophagosomes. Autophagy. 15:176-177 (2019)
    Deretic, V. et al. Autophagy, Inflammation, and Metabolism (AIM) Center of Biomedical Research Excellence: supporting the next generation of autophagy researchers and fostering international collaborations. Autophagy. 14:925-929 (2018)
    Mizushima, N. A brief history of autophagy from cell biology to physiology and disease. Nat. Cell Biol. 20:521-527 (2018)
    Mizushima, N. A dual binding receptor for ER-phagy. Dev. Cell 44:133-135 (2018)
    Yoshii, S.R., Mizushima, N. Monitoring and measuring autophagy. Int. J. Mol. Sci. 18(9). pii: E1865 (2017)
    Kuma, A., Komatsu, M., Mizushima, N. Autophagy-monitoring and autophagy-deficient mice. Autophagy. 13:1619-1628 (2017)
    Nishimura, T., Mizushima, N. The ULK complex initiates autophagosome formation at phosphatidylinositol synthase-enriched ER subdomains. Autophagy 13:1795-1796 (2017)
    Knorr, R.L., Mizushima, N., Dimova, R. Fusion and scission of membranes: ubiquitous topological transformations in cells. Traffic 18:758-761 (2017)
    Galluzzi, L. et al. Molecular definitions of autophagy and related processes. EMBO J. 36:1811-1836 (2017)
    Koyama-Honda, I., Tsuboyama, K., *Mizushima, N. ATG conjugation-dependent degradation of the inner autophagosomal membrane is a key step for autophagosome maturation Autophagy 13:1252-1253 (2017)
    Mizushima, N. The exponential growth of autophagy-related research: from the humble yeast to the Nobel Prize. FEBS Lett. 591:681-689 (2017)
    Yoshii, S.R., Kuma, A. *Mizushima, N. Transgenic rescue of Atg5-null mice from neonatal lethality with neuron-specific expression of ATG5: Systemic analysis of adult Atg5-deficient mice. Autophagy 13:763-764 (2017)
    Morishita, H., Kaizuka, T., Hama, Y., *Mizushima, N. A new probe to measure autophagic flux in vitro and in vivo. Autophagy. 13:757-758 (2017)
    Klionsky, et al. Guidelines for the use and interpretation of assays for monitoring autophagy (3rd edition). Autophagy. 12: 1-222 (2016)
    Noda, N.N., Mizushima, N. Atg101: not just an accessory subunit in the autophagy-initiation complex. Cell Struct. Funct. 41: 13-20 (2016)
    Suzuki, H., Kaizuka, T., Mizushima, N., Noda, N.N. Open and closed HORMAs regulate autophagy initiation. Autophagy. 11:2123-2124 (2015)
    Mizushima, N. Nbr1, a Receptor for ESCRT-Dependent Endosomal Microautophagy in Fission Yeast. Mol. Cell. 59: 887-889 (2015)
    Morishita, H., Mizushima, N. Autophagy in the lens. Exp. Eye Res. 144: 22-8 (2015)
    Jiang, P., Mizushima, N. LC3- and p62-based biochemical methods for the analysis of autophagy progression in mammalian cells Methods 75: 13-18 (2015)
    Yoshii, SR, Mizushima, N. Autophagy machinery in the context of mammalian mitophagy. Biochim Biophys Acta. 1853: 2797-2801 (2015)
    Mizushima, N. Sugar modification inhibits autophagosome-lysosome fusion. Nat. Cell Biol. 16:1132-1133 (2014)
    Galluzzi, L., et al. Essential versus accessory aspects of cell death: recommendations of the NCCD 2015. Cell Death Differ. 22:58-73 (2014)
    Mizushima, N., Sahani, M.H. ATG8 localization in apicomplexan parasites: Apicoplast and more? Autophagy. 10:1487-1494 (2014)
    Shen, H.M., Mizushima, N. At the end of the autophagic road: an emerging understanding of lysosomal functions in autophagy. Trends Biochem. Sci. 39:61-71 (2014)
    Jiang, P., Mizushima, N. Autophagy and human diseases. Cell Res. 24:69-79 (2014)
    Itakura, E., Mizushima, N. Syntaxin 17: The autophagosomal SNARE. Autophagy 9:917-919 (2013)
    Klionsky, D.J., …. Mizushima, N., ….. et al. Guidelines for the use and interpretation of assays for monitoring autophagy. Autophagy 8:445-544 (2012)
    Shpilka, T., Mizushima, N., Elazar, Z. Ubiquitin-like proteins and autophagy at a glance. J. Cell Sci. 125:2343-2348 (2012)
    Mizushima, N., Komatsu, M. Autophagy: renovation of cells and tissues. Cell 147:728-41 (2011)
    Klionsky, D.J., Baehrecke, E.H., Brumell, J.H., Chu, C.T., Codogno, P., Cuervo, A.M., Debnath, J., Deretic, V., Elazar, Z., Eskelinen, E.L., Finkbeiner, S., Fueyo-Margareto, J., Gewirtz, D., Jäättelä, M., Kroemer, G., Levine, B., Melia, T.J., Mizushima, N., Rubinsztein, D.C., Simonsen, A., Thorburn, A., Thumm, M., Tooze, S.A. A comprehensive glossary of autophagy-related molecules and processes (2nd edition). Autophagy 7:1273-1294 (2011)
    Mizushima, N. Autophagy in Protein and Organelle Turnover. Cold Spring Harb. Symp. Quant Biol. 2011 Aug 3
    Mizushima, N., Yoshimori, T., Ohsumi, Y. The Role of Atg Proteins in Autophagosome Formation. Annu. Rev. Cell Dev. Biol. 27:107-32 (2011)
    Stappenbeck, T.S., Rioux, J.D., Mizoguchi, A., Saitoh, T., Huett, A., Darfeuille-Michaud, A., Wileman, T., Mizushima, N., Carding, S., Akira, S., Parkes, M., Xavier, R.J. Crohn disease: A current perspective on genetics, autophagy and immunity. Autophagy. 7: 1-20 (2011)
    Levine, B., Mizushima, N., Virgin, H.W. Autophagy in immunity and inflammation. Nature 469: 323-335 (2011)
    Mizushima, N. Noboru Mizushima: All about autophagy. Interview by Caitlin Sedwick. J. Cell Biol. 190: 946-947 (2010)
    Mizushima, N., Levine, B. Autophagy in mammalian development and differentiation. Nat. Cell Biol. 12:823-830 (2010)
    Klionsky, D.J., Codogno, P., Cuervo, A.M., Deretic, V., Elazar, Z., Fueyo-Margareto, J., Gewirtz, D.A., Kroemer, G., Levine, B., Mizushima, N., Rubinsztein, D.C., Thumm, M., Tooze, S.A. A comprehensive glossary of autophagy-related molecules and processes. Autophagy　2010 May 6;6(4)
    Kuma, A., Mizushima, N. Physiological role of autophagy as an intracellular recycling system: With an emphasis on nutrient metabolism. Semin. Cell Dev. Biol. 21: 683-90, (2010)
    Mizushima, N. Autophagy. FEBS Lett. 584:1279 (2010)
    Mizushima, N., Yoshimori, T. and Levine, B. Methods in mammalian autophagy research. Cell 140; 313-326 (2010)
    Mizushima, N. The role of the Atg1/ULK1 complex in autophagy regulation. Curr Opin Cell Biol. , 22:132–139 (2010)
    Mizushima, N. Physiological functions of autophagy. Curr Top Microbiol Immunol. 335: 71-84 (2009)
    Ishihara, N., Mizushima, N., A receptor for eating mitochondria. Dev. Cell 17: 1-2 (2009)
    Nedjic, J., Aichinger, M., Mizushima, N., Klein, L. Macroautophagy, endogenous MHC II loading and T cell selection: the benefits of breaking the rules. Curr Opin Immunol. 21: 92-97 (2009)
    Itakura, E., Mizushima, N., Atg14 and UVRAG: Mutually exclusive subunits of mammalian Beclin 1-PI3K complexes. Autophagy 5: 534-536 (2009)
    Raben, N., Baum, R., Schreiner, C., Takikita, S., Mizushima, N., Ralston, E., Plotz, P. When more is less: Excess and deficiency of autophagy coexist in skeletal muscle in Pompe disease. Autophagy 5: 111-113 (2009)
    Hara, T., Mizushima, N.. Role of ULK-FIP200 complex in mammalian autophagy: FIP200, a counterpart of yeast Atg17? Autophagy 5:85-87 (2009)
    Mizushima N. Methods for monitoring autophagy using GFP-LC3 transgenic mice. Methods Enzymol. 452:13-23 (2009)
    Tsukamoto, S., Kuma, A., Mizushima, N. The role of autophagy during the oocyte-to-embryo transition. Autophagy. 4: 1076-1078 (2008)
    Mizushima, N., Kuma, A. Autophagosomes in GFP-LC3 transgenic mice. Methods Mol. Biol. 445: 119-124 (2008)
    Mizushima, N., Levine, B., Cuervo, A.M., Klionsky, D.J. Autophagy fights disease through cellular self-digestion Nature 451:1069-1075 (2008)
    Klionsky, D.J. et al. Guidelines for the use and interpretation of assays for monitoring autophagy in higher eukaryotes. Autophagy 4: 151-75 (2008)
    Mizushima, N. Autophagy: process and function Genes Dev. 21: 2861-2873 (2007)
    Mizushima, N., Yoshimori, T. How to interpret LC3 immunoblotting Autophagy 3:542-545 (2007)
    Mizushima, N. Collaboration of proteolytic systems. Autophagy 3:179-180 (2007)
    Mizushima, N., Klionsky, D.J. Protein turnover via autophagy: Implications for metabolism. Annu. Rev. Nutr. 27:19-39 (2007)
    Mizushima, N. The role of mammalian autophagy in protein metabolism P. JPN Acad. B-Phys. 82: 39-46 (2007)
    Mizushima, N., Hara, T. Intracellular quality control by autophagy: How does autophagy prevent neurodegeneration? Autophagy 2, 302-304 (2006)
    Mizushima, N., A generation in autophagic vacuoles. J. Cell Biol. 171, 15-17 (2005)
    Mizushima, N., The pleiotropic role of autophagy: from protein metabolism to bactericide. Cell Death Differ, 12, 1535–1541 (2005)
    Ohsumi, Y., Mizushima, N. Tow ubiquitin-like conjugation systems essential for autophagy. Semin. Cell Dev. Biol. 15, 231-236 (2004)
    Mizushima, N., Methods for monitoring autophagy. Int. J. Biochem. Cell Biol. 36, 2491-2502 (2004)
    Mizushima, N., Yoshimori, T., Ohsumi, Y. Role of the Apg12 conjugation system in mammalian autophagy. Int. J. Biochem. Cell Biol. 35, 553-561 (2003)
    Mizushima, N., Ohsumi, Y., Yoshimori, T. Autohpagosome formation in mammalian cells. Cell Struct. Funct. 27, 421-429 (2002)

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