The DOI matches its Crossref record; 54 of the 54 references it cites were found in a registry or an index.
Nutrient-dependent mTORC1 Association with the ULK1–Atg13–FIP200 Complex Required for Autophagy
Open accessAbstract
Autophagy is an intracellular degradation system, by which cytoplasmic contents are degraded in lysosomes. Autophagy is dynamically induced by nutrient depletion to provide necessary amino acids within cells, thus helping them adapt to starvation. Although it has been suggested that mTOR is a major negative regulator of autophagy, how it controls autophagy has not yet been determined. Here, we report a novel mammalian autophagy factor, Atg13, which forms a stable ∼3-MDa protein complex with ULK1 and FIP200. Atg13 localizes on the autophagic isolation membrane and is essential for autophagosome formation. In contrast to yeast counterparts, formation of the ULK1–Atg13–FIP200 complex is not altered by nutrient conditions. Importantly, mTORC1 is incorporated into the ULK1–Atg13–FIP200 complex through ULK1 in a nutrient-dependent manner and mTOR phosphorylates ULK1 and Atg13. ULK1 is dephosphorylated by rapamycin treatment or starvation. These data suggest that mTORC1 suppresses autophagy through direct regulation of the ∼3-MDa ULK1–Atg13–FIP200 complex.
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“The initiation step begins with the dissociation of MTOR (mechanistic target of rapamycin kinase) from the PAS, cued by nutrient starvation or treatment with rapamycin or its various derivatives [36,37].”
From Autophagy and ALS: mechanistic insights and therapeutic implications (2022) · cites this paper as [37]
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“Under starvation, mTORC1 is suppressed and dissociates from the ULK1–ULK2 complex, allowing ULK1 to be activated by AMPK to induce autophagy”
From Autophagy in kidney homeostasis and disease (2020) · cites this paper as [17]
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Autophagy in the Pathogenesis of Disease
Levine, B., & Kroemer, G. (2008) · Cell · doi:10.1016/j.cell.2007.12.018 · Cited by 7,069
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
Self-citationTOR signaling in growth and metabolism
Wullschleger, S., Loewith, R., & Hall, M. N. (2006) · Cell · doi:10.1016/j.cell.2006.01.016 · Cited by 5,787
Autophagy: process and functionPreprint
Mizushima, N. (2007) · Genes & Development · doi:10.1101/gad.1599207 · Cited by 4,104
Self-citationBjørkøy, G., Lamark, T., Brech, A., Outzen, H., Perander, M., Øvervatn, A., Stenmark, H., & Johansen, T. (2005) · The Journal of Cell Biology · doi:10.1083/jcb.200507002 · Cited by 3,276
Defining the role of mTOR in cancer
Guertin, D. A., & Sabatini, D. M. (2007) · Cancer Cell · doi:10.1016/j.ccr.2007.05.008 · Cited by 2,833
Genomic Libraries and a Host Strain Designed for Highly Efficient Two-Hybrid Selection in Yeast
James, P. M., Halladay, J. T., & Craig, E. A. (1996) · Genetics · doi:10.1093/genetics/144.4.1425 · Cited by 2,638
How to Interpret LC3 Immunoblotting
Mizushima, N., & Yoshimori, T. (2007) · Autophagy · doi:10.4161/auto.4600 · Cited by 2,595 · cited 2×
“Because LC3-II inside autophagosomes is degraded in autolysosomes, we could see accumulation of LC3-II more clearly if cells were treated with lysosome protease inhibitors (E64d and pepstatin A; Figure Vol. 20, April 1, 2009 1983 3A, lane 3; Tanida et al., 2005; Mizushima and Yoshimori, 2007).”
BackgroundMethodSelf-citationRavikumar, B., Vacher, C., Berger, Z., Davies, J. E., Luo, S., Oroz, L. G., Scaravilli, F., Easton, D. F., Duden, R., O'Kane, C. J., et al. (2004) · Nature Genetics · doi:10.1038/ng1362 · Cited by 2,347
ULK-Atg13-FIP200 Complexes Mediate mTOR Signaling to the Autophagy Machinery
Jung, C. H., Jun, C. B., Ro, S.-H., Kim, Y.-M., Otto, N. M., Cao, J., Kundu, M., & Kim, D.-H. (2009) · Molecular Biology of the Cell · doi:10.1091/mbc.e08-12-1249 · Cited by 2,025
Autophagy: from phenomenology to molecular understanding in less than a decade
Klionsky, D. J. (2007) · Nature Reviews Molecular Cell Biology · doi:10.1038/nrm2245 · Cited by 1,977
Raptor, a Binding Partner of Target of Rapamycin (TOR), Mediates TOR Action
Hara, K., Maruki, Y., Long, X., Yoshino, K.-I., Oshiro, N., Sujuti, H., Tokunaga, C., Avruch, J., & Yonezawa, K. (2002) · Cell · doi:10.1016/s0092-8674(02)00833-4 · Cited by 1,810
Self-citationTor, a Phosphatidylinositol Kinase Homologue, Controls Autophagy in Yeast
Noda, T., & Ohsumi, Y. (1998) · Journal of Biological Chemistry · doi:10.1074/jbc.273.7.3963 · Cited by 1,303
PRAS40 is an insulin-regulated inhibitor of the mTORC1 protein kinase
Sancak, Y., Thoreen, C. C., Peterson, T. R., Lindquist, R. A., Kang, S. A., Spooner, E., Carr, S. A., & Sabatini, D. M. (2007) · Molecular Cell · doi:10.1016/j.molcel.2007.03.003 · Cited by 1,236
Beclin 1 Forms Two Distinct Phosphatidylinositol 3-Kinase Complexes with Mammalian Atg14 and UVRAG
Itakura, E., Kishi, C., Inoue, K., & Mizushima, N. (2008) · Molecular Biology of the Cell · doi:10.1091/mbc.e08-01-0080 · Cited by 1,176
Self-citationTor-Mediated Induction of Autophagy via an Apg1 Protein Kinase Complex
Kamada, Y., Funakoshi, T., Shintani, T., Nagano, K., Ohsumi, M., & Ohsumi, Y. (2000) · The Journal of Cell Biology · doi:10.1083/jcb.150.6.1507 · Cited by 1,145
Lysosomal turnover, but not a cellular level, of endogenous LC3 is a marker for autophagy
Tanida, I., Minematsu-Ikeguchi, N., Ueno, T., & Kominami, E. (2005) · Autophagy · doi:10.4161/auto.1.2.1697 · Cited by 1,108 · cited 2×
“Because LC3-II inside autophagosomes is degraded in autolysosomes, we could see accumulation of LC3-II more clearly if cells were treated with lysosome protease inhibitors (E64d and pepstatin A; Figure Vol. 20, April 1, 2009 1983 3A, lane 3; Tanida et al., 2005; Mizushima and Yoshimori, 2007).”
BackgroundAutophagy and signaling: their role in cell survival and cell death
Codogno, P., & Meijer, A. J. (2005) · Cell Death and Differentiation · doi:10.1038/sj.cdd.4401751 · Cited by 1,106
Suzuki, K., Kirisako, T., Kamada, Y., Mizushima, N., Noda, T., & Ohsumi, Y. (2001) · The EMBO Journal · doi:10.1093/emboj/20.21.5971 · Cited by 1,060
Self-citationLithium induces autophagy by inhibiting inositol monophosphatase
Sarkar, S., Floto, R. A., Berger, Z., Imarisio, S., Cordenier, A., Pasco, M., Cook, L. J., & Rubinsztein, D. C. (2005) · The Journal of Cell Biology · doi:10.1083/jcb.200504035 · Cited by 985
Role and Regulation of Starvation-Induced Autophagy in the Drosophila Fat Body
Scott, R. C., Schuldiner, O., & Neufeld, T. P. (2004) · Developmental Cell · doi:10.1016/j.devcel.2004.07.009 · Cited by 979
Unveiling the roles of autophagy in innate and adaptive immunity
Levine, B., & Deretic, V. P. (2007) · Nature reviews. Immunology · doi:10.1038/nri2161 · Cited by 934
FIP200, a ULK-interacting protein, is required for autophagosome formation in mammalian cells
Hara, T., Takamura, A., Kishi, C., Iemura, S.-I., Natsume, T., Guan, J.-L., & Mizushima, N. (2008) · The Journal of Cell Biology · doi:10.1083/jcb.200712064 · Cited by 904
Self-citationStarvation and ULK1-dependent cycling of mammalian Atg9 between the TGN and endosomes
Young, A. R. J., Chan, E. Y. W., Hu, X. W., Köchl, R., Crawshaw, S. G., High, S., Hailey, D. W., Lippincott-Schwartz, J., & Tooze, S. A. (2006) · Journal of Cell Science · doi:10.1242/jcs.03172 · Cited by 815
Mizushima, N., Kuma, A., Kobayashi, Y., Yamamoto, A., Matsubae, M., Takao, T., Natsume, T., Ohsumi, Y., & Yoshimori, T. (2003) · Journal of Cell Science · doi:10.1242/jcs.00381 · Cited by 791
Self-citationHierarchy of Atg proteins in pre‐autophagosomal structure organization
Suzuki, K., Kubota, Y., Sekito, T., & Ohsumi, Y. (2007) · Genes to Cells · doi:10.1111/j.1365-2443.2007.01050.x · Cited by 691
Autophagy Is Essential for Preimplantation Development of Mouse Embryos
Tsukamoto, S., Kuma, A., Murakami, M., Kishi, C., Yamamoto, A., & Mizushima, N. (2008) · Science · doi:10.1126/science.1154822 · Cited by 643
Self-citationKundu, M., Lindsten, T., Yang, C.-Y., Wu, J., Zhao, F., Zhang, J., Selak, M. A., Ney, P. A., & Thompson, C. B. (2008) · Blood · doi:10.1182/blood-2008-02-137398 · Cited by 594
Kuma, A., Matsui, M., & Mizushima, N. (2007) · Autophagy · doi:10.4161/auto.4012 · Cited by 555 · cited 1×
“GFP-LC3 was detected diffusely and enriched in the nucleus under normal conditions, although its physiological significance remains unknown (Kuma et al., 2007).”
BackgroundSelf-citationYang, Q., & Guan, K. (2007) · Cell Research · doi:10.1038/cr.2007.64 · Cited by 546
An Atg1/Atg13 Complex with Multiple Roles in TOR-mediated Autophagy Regulation
Chang, Y.-Y., & Neufeld, T. P. (2009) · Molecular Biology of the Cell · doi:10.1091/mbc.e08-12-1250 · Cited by 430
siRNA Screening of the Kinome Identifies ULK1 as a Multidomain Modulator of Autophagy
Chan, E. Y. W., Kir, S., & Tooze, S. A. (2007) · Journal of Biological Chemistry · doi:10.1074/jbc.m703663200 · Cited by 422
Chan, E. Y. W., Longatti, A., McKnight, N. C., & Tooze, S. A. (2009) · Molecular and Cellular Biology · doi:10.1128/mcb.01082-08 · Cited by 411
Zeng, X., Overmeyer, J. H., & Maltese, W. A. (2006) · Journal of Cell Science · doi:10.1242/jcs.02735 · Cited by 339
Oshiro, N., Takahashi, R., Yoshino, K., Tanimura, K., Nakashima, A., Eguchi, S., Miyamoto, T., Hara, K., Takehana, K., Avruch, J., et al. (2007) · Journal of Biological Chemistry · doi:10.1074/jbc.m702636200 · Cited by 318
Self-citationAtg17 Functions in Cooperation with Atg1 and Atg13 in Yeast Autophagy
Kabeya, Y., Kamada, Y., Baba, M., Takikawa, H., Sasaki, M., & Ohsumi, Y. (2005) · Molecular Biology of the Cell · doi:10.1091/mbc.e04-08-0669 · Cited by 304
Meijer, W. H., van der Klei, I. J., Marten Veenhuis, A., & Kiel, J. A. K. W. (2007) · Autophagy · doi:10.4161/auto.3595 · Cited by 267
Signalling and autophagy regulation in health, aging and disease
Meijer, A. J., & Codogno, P. (2006) · Molecular Aspects of Medicine · doi:10.1016/j.mam.2006.08.002 · Cited by 252
Cheong, H., Nair, U., Geng, J., & Klionsky, D. J. (2008) · Molecular Biology of the Cell · doi:10.1091/mbc.e07-08-0826 · Cited by 245
Gan, B., Xu, P., Nagy, T., Alcaraz, A., Gu, H., & Guan, J. (2006) · The Journal of Cell Biology · doi:10.1083/jcb.200604129 · Cited by 239
Self-citationHosokawa, N., Hara, Y., & Mizushima, N. (2006) · FEBS Letters · doi:10.1016/j.febslet.2006.04.008 · Cited by 194
Self-citationA Direct Nanoflow Liquid Chromatography−Tandem Mass Spectrometry System for Interaction Proteomics
Natsume, T., Yamauchi, Y., Nakayama, H., Shinkawa, T., Yanagida, M., Takahashi, N., & Isobe, T. (2002) · Analytical Chemistry · doi:10.1021/ac020018n · Cited by 193
Self-citationAtg17 Regulates the Magnitude of the Autophagic Response
Cheong, H., Yorimitsu, T., Reggiori, F., Legakis, J. E., Wang, C.-W., & Klionsky, D. J. (2005) · Molecular Biology of the Cell · doi:10.1091/mbc.e04-10-0894 · Cited by 187
Analyses of APG13 gene involved in autophagy in yeast, Saccharomyces cerevisiae
Funakoshi, T., Matsuura, A., Noda, T., & Ohsumi, Y. (1997) · Gene · doi:10.1016/s0378-1119(97)00031-0 · Cited by 168
Obara, K., Noda, T., Niimi, K., & Ohsumi, Y. (2008) · Genes to Cells · doi:10.1111/j.1365-2443.2008.01188.x · Cited by 150
Tomoda, T., Bhatt, R. S., Kuroyanagi, H., Shirasawa, T., & Hatten, M. E. (1999) · Neuron · doi:10.1016/s0896-6273(00)81031-4 · Cited by 126
Identification of Mouse ULK1, a Novel Protein Kinase Structurally Related toC. elegansUNC-51
Yan, J. C., Kuroyanagi, H., Kuroiwa, A., Matsuda, Y., Tokumitsu, H., Tomoda, T., Shirasawa, T., & Muramatsu, M.-A. (1998) · Biochemical and Biophysical Research Communications · doi:10.1006/bbrc.1998.8546 · Cited by 126
Klionsky, D. J., Meijer, A. J., Codogno, P., Neufeld, T. P., & Scott, R. C. (2005) · Autophagy · doi:10.4161/auto.1.1.1536 · Cited by 118
Cis1/Atg31 is required for autophagosome formation in Saccharomyces cerevisiae
Kabeya, Y., Kawamata, T., Suzuki, K., & Ohsumi, Y. (2007) · Biochemical and Biophysical Research Communications · doi:10.1016/j.bbrc.2007.02.150 · Cited by 105
Characterization of a novel autophagy-specific gene, ATG29
Kawamata, T., Kamada, Y., Suzuki, K., Kuboshima, N., Akimatsu, H., Ota, S., Ohsumi, M., & Ohsumi, Y. (2005) · Biochemical and Biophysical Research Communications · doi:10.1016/j.bbrc.2005.10.163 · Cited by 97
Mouse ULK2, a novel member of the UNC-51-like protein kinases: unique features of functional domains
Yan, J. C., Kuroyanagi, H., Tomemori, T., Okazaki, N., Kuroiwa, A., Matsuda, Y., Suzuki, Y., Ohshima, Y., Mitani, S., Masuho, Y., et al. (1999) · Oncogene · doi:10.1038/sj.onc.1202988 · Cited by 90
Role of the UBL-UBA Protein KPC2 in Degradation of p27 at G 1 Phase of the Cell Cycle
Hara, T., Kamura, T., Kotoshiba, S., Takahashi, H., Fujiwara, K., Onoyama, I., Shirakawa, M., Mizushima, N., & Nakayama, K. I. (2005) · Molecular and Cellular Biology · doi:10.1128/mcb.25.21.9292-9303.2005 · Cited by 68
Self-citationFIP200, a key signaling node to coordinately regulate various cellular processes
Gan, B., & Guan, J.-L. (2008) · Cellular Signalling · doi:10.1016/j.cellsig.2007.10.021 · Cited by 67
Self-citationCharacterization of the Phosphoproteins and Protein Kinase Activity in mTOR Immunoprecipitates
Nishiuma, T., Hara, K., Tsujishita, Y., Kaneko, K., Shii, K., & Yonezawa, K. (1998) · Biochemical and Biophysical Research Communications · doi:10.1006/bbrc.1998.9671 · Cited by 27
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Kim, J., Kundu, M., Viollet, B., & Guan, K.-L. (2011) · Nature Cell Biology · doi:10.1038/ncb2152 · Cited by 7,227
Guidelines for the use and interpretation of assays for monitoring autophagy (3rd edition).
Klionsky, D. J., Abdelmohsen, K., Abe, A., Abedin, M. J., Abeliovich, H., Acevedo Arozena, A., Adachi, H., Adams, C. M., Adams, P. D., Adeli, K., et al. (2016) · Autophagy · doi:10.1080/15548627.2015.1100356 · Cited by 5,894
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Mizushima, N., Yoshimori, T., & Levine, B. (2010) · Cell · doi:10.1016/j.cell.2010.01.028 · Cited by 4,497
Self-citationGuidelines for the use and interpretation of assays for monitoring autophagy
Klionsky, D. J., Abdalla, F. C., Abeliovich, H., Abraham, R. T., Acevedo-Arozena, A., Adeli, K., Agholme, L., Agnello, M., Agostinis, P., Aguirre-Ghiso, J. A., et al. (2012) · Autophagy · doi:10.4161/auto.19496 · Cited by 3,996
Metadata
- Authors
- Hosokawa, N., Hara, T., Kaizuka, T., Kishi, C., Takamura, A., Miura, Y., Iemura, S.-I., Natsume, T., Takehana, K., Yamada, N., Guan, J.-L., Oshiro, N., & Mizushima, N.
- Affiliations
- Tokyo Medical and Dental University (JP)
- National Institute of Advanced Industrial Science and Technology (JP)
- Exploratory Research, Pharmaceutical Research Laboratory, and
- Ajinomoto (Japan) (JP)
- University of Michigan (US)
- Biosignal Research Center, Kobe University (JP)
- Venue
- Molecular Biology of the Cell
- Published
- 2009-04
- Volume
- 20
- Issue
- 7
- Pages
- 1981-1991
- ISSN
- 1059-1524 (ISSN-L)
- 1939-4586
- PMC
- PMC2663915
- OpenAlex
- W2156144699
- Cited by
- 2,076
- References
- 54
- Citations by year
- 2026: 68 · 2025: 81 · 2024: 133 · 2023: 128 · 2022: 139 · 2021: 171 · 2020: 154 · 2019: 132 · 2018: 114 · 2017: 128 · 2016: 132 · 2015: 142 · 2014: 115 · 2013: 112 · 2012: 110
- FWCI
- 73.07
- Type
- journal article
- Language
- en
- Open access
- green
- europepmc.org
- Locations
- Molecular Biology of the Cell (publishedVersion)
- Europe PMC (PubMed Central) (publishedVersion)
- PubMed Central (publishedVersion)
- PubMed (publishedVersion)
- Funders
- University of Tokyo
- Tokyo Medical and Dental University
- Toray Science Foundation
- Japan Society for the Promotion of Science
- Topics
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Cell Biology › Autophagy in Disease and Therapy
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › PI3K/AKT/mTOR signaling in cancer
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Physiology › Calcium signaling and nucleotide metabolism
- Keywords
- autophagy, mTORC1, ULK1, ATG13, FIP200, autophagosome formation, nutrient signaling, mTOR phosphorylation, rapamycin, starvation, lysosomal degradation
- MeSH terms
- Autophagy-Related Proteins, Autophagy-Related Protein-1 Homolog, Mechanistic Target of Rapamycin Complex 1, Amino Acids, Animals, Autophagy, Cell Line, Cell Membrane, Humans, Molecular Weight, Phosphorylation, Protein Binding, Protein Kinases, Proteins, Transcription Factors, Protein Serine-Threonine Kinases, Protein Transport, Multiprotein Complexes, Intracellular Signaling Peptides and Proteins, Adaptor Proteins, Signal Transducing, Mice, TOR Serine-Threonine Kinases
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