Y Ohsumi

Summary

Affiliation: National Institute for Basic Biology
Country: Japan

Publications

  1. ncbi request reprint Protein turnover
    Yoshinori Ohsumi
    Division of Molecular Cell Biology, National Institute for Basic Biology, Okazaki, Japan
    IUBMB Life 58:363-9. 2006
  2. ncbi request reprint Two ubiquitin-like conjugation systems essential for autophagy
    Yoshinori Ohsumi
    Department of Cell Biology, National Institute for Basic Biology, Myodaiji cho, Okazaki 444 8585, Japan
    Semin Cell Dev Biol 15:231-6. 2004
  3. ncbi request reprint [Autophagy related genes in yeast, S. cerevisiae]
    Yoshinori Ohsumi
    Tanpakushitsu Kakusan Koso 51:1453-6. 2006
  4. ncbi request reprint [Historical overview of autophagy]
    Yoshinori Ohsumi
    Tanpakushitsu Kakusan Koso 51:1444-7. 2006
  5. ncbi request reprint Molecular dissection of autophagy: two ubiquitin-like systems
    Y Ohsumi
    Department of Cell Biology, National Institute for Basic Biology, Myodaiji, Okazaki, 444 8585, Japan
    Nat Rev Mol Cell Biol 2:211-6. 2001
  6. pmc The pre-autophagosomal structure organized by concerted functions of APG genes is essential for autophagosome formation
    K Suzuki
    Department of Cell Biology, National Institute for Basic Biology, Nishigonaka 38, Myodaiji cho, Okazaki 444 8585, Japan
    EMBO J 20:5971-81. 2001
  7. pmc The reversible modification regulates the membrane-binding state of Apg8/Aut7 essential for autophagy and the cytoplasm to vacuole targeting pathway
    T Kirisako
    Department of Cell Biology, National Institute for Basic Biology, Okazaki 444 8585, Japan
    J Cell Biol 151:263-76. 2000
  8. pmc Autophagosome requires specific early Sec proteins for its formation and NSF/SNARE for vacuolar fusion
    N Ishihara
    Department of Cell Biology, National Institute for Basic Biology, The Graduate University for Advanced Studies, Okazaki, 444 8585, Japan
    Mol Biol Cell 12:3690-702. 2001
  9. pmc Tor-mediated induction of autophagy via an Apg1 protein kinase complex
    Y Kamada
    Department of Cell Biology, National Institute for Basic Biology, Okazaki 444 8585, Japan
    J Cell Biol 150:1507-13. 2000
  10. ncbi request reprint Apg2p functions in autophagosome formation on the perivacuolar structure
    T Shintani
    Department of Cell Biology, National Institute for Basic Biology, Okazaki 444 8585, Japan
    J Biol Chem 276:30452-60. 2001

Collaborators

Detail Information

Publications86

  1. ncbi request reprint Protein turnover
    Yoshinori Ohsumi
    Division of Molecular Cell Biology, National Institute for Basic Biology, Okazaki, Japan
    IUBMB Life 58:363-9. 2006
    ..However, for a long time, protein degradation was neglected by most biologists, and was thought of as a rather passive cellular process...
  2. ncbi request reprint Two ubiquitin-like conjugation systems essential for autophagy
    Yoshinori Ohsumi
    Department of Cell Biology, National Institute for Basic Biology, Myodaiji cho, Okazaki 444 8585, Japan
    Semin Cell Dev Biol 15:231-6. 2004
  3. ncbi request reprint [Autophagy related genes in yeast, S. cerevisiae]
    Yoshinori Ohsumi
    Tanpakushitsu Kakusan Koso 51:1453-6. 2006
  4. ncbi request reprint [Historical overview of autophagy]
    Yoshinori Ohsumi
    Tanpakushitsu Kakusan Koso 51:1444-7. 2006
  5. ncbi request reprint Molecular dissection of autophagy: two ubiquitin-like systems
    Y Ohsumi
    Department of Cell Biology, National Institute for Basic Biology, Myodaiji, Okazaki, 444 8585, Japan
    Nat Rev Mol Cell Biol 2:211-6. 2001
    ..Molecular dissection of these systems is now revealing some surprises...
  6. pmc The pre-autophagosomal structure organized by concerted functions of APG genes is essential for autophagosome formation
    K Suzuki
    Department of Cell Biology, National Institute for Basic Biology, Nishigonaka 38, Myodaiji cho, Okazaki 444 8585, Japan
    EMBO J 20:5971-81. 2001
    ..The Apg1p protein kinase complex functions in the late stage of autophagosome formation. Here, we present the classification of Apg proteins into three groups that reflect each step of autophagosome formation...
  7. pmc The reversible modification regulates the membrane-binding state of Apg8/Aut7 essential for autophagy and the cytoplasm to vacuole targeting pathway
    T Kirisako
    Department of Cell Biology, National Institute for Basic Biology, Okazaki 444 8585, Japan
    J Cell Biol 151:263-76. 2000
    ..A reaction similar to ubiquitination is probably involved in the second modification. The reversible modification of Apg8 appears to be coupled to the membrane dynamics of autophagy and the Cvt pathway...
  8. pmc Autophagosome requires specific early Sec proteins for its formation and NSF/SNARE for vacuolar fusion
    N Ishihara
    Department of Cell Biology, National Institute for Basic Biology, The Graduate University for Advanced Studies, Okazaki, 444 8585, Japan
    Mol Biol Cell 12:3690-702. 2001
    ..This evidence demonstrating the involvement of Sec proteins in the mechanism of autophagosome formation is crucial for understanding membrane flow during the process...
  9. pmc Tor-mediated induction of autophagy via an Apg1 protein kinase complex
    Y Kamada
    Department of Cell Biology, National Institute for Basic Biology, Okazaki 444 8585, Japan
    J Cell Biol 150:1507-13. 2000
    ....
  10. ncbi request reprint Apg2p functions in autophagosome formation on the perivacuolar structure
    T Shintani
    Department of Cell Biology, National Institute for Basic Biology, Okazaki 444 8585, Japan
    J Biol Chem 276:30452-60. 2001
    ..These results suggest that the dot structure is physiologically important. Apg2p and Apg8p are independently recruited to the structure but coordinately function there to form the autophagosome...
  11. ncbi request reprint A ubiquitin-like system mediates protein lipidation
    Y Ichimura
    Department of Cell Biology, National Institute for Basic Biology, Okazaki, Japan
    Nature 408:488-92. 2000
    ..11) and Apg3, respectively. These reactions are necessary for the formation of Apg8-phosphatidylethanolamine. This lipidation has an essential role in membrane dynamics during autophagy...
  12. pmc LC3, a mammalian homologue of yeast Apg8p, is localized in autophagosome membranes after processing
    Y Kabeya
    Department of Cell Biology, National Institute for Basic Biology, Okazaki 444 8585, PRESTO, Japan
    EMBO J 19:5720-8. 2000
    ..The amount of LC3-II is correlated with the extent of autophagosome formation. LC3-II is the first mammalian protein identified that specifically associates with autophagosome membranes...
  13. pmc Apg16p is required for the function of the Apg12p-Apg5p conjugate in the yeast autophagy pathway
    N Mizushima
    Department of Cell Biology, National Institute for Basic Biology, Okazaki 444 8585, Japan
    EMBO J 18:3888-96. 1999
    ..These results suggest that the Apg12p-Apg5p conjugate requires Apg16p to accomplish its role in the autophagy pathway, and Apg16p is a key molecule as a linker to form the Apg12p-Apg5p-Apg16p multimer...
  14. pmc Beclin-phosphatidylinositol 3-kinase complex functions at the trans-Golgi network
    A Kihara
    Department of Cell Biology, National Institute for Basic Biology, Nishigonaka 38, Myodaiji cho, Okazaki 444 8585, Japan
    EMBO Rep 2:330-5. 2001
    ..Some PtdIns 3-kinase is also distributed in the late endosome. These results suggest that Beclin and PtdIns 3-kinase control autophagy as a complex at the TGN...
  15. pmc Two distinct Vps34 phosphatidylinositol 3-kinase complexes function in autophagy and carboxypeptidase Y sorting in Saccharomyces cerevisiae
    A Kihara
    Department of Cell Biology, National Institute for Basic Biology, Okazaki, 444 8585, Japan
    J Cell Biol 152:519-30. 2001
    ..We propose that multiple Vps34p-Vps15p complexes associated with specific regulatory proteins might fulfill their membrane trafficking events at different sites...
  16. pmc Apg10p, a novel protein-conjugating enzyme essential for autophagy in yeast
    T Shintani
    Department of Cell Biology, National Institute for Basic Biology, Okazaki 444 8585, Japan
    EMBO J 18:5234-41. 1999
    ..These findings indicate that Apg10p is a new type of protein-conjugating enzyme that functions in the Apg12p-Apg5p conjugation pathway...
  17. pmc The mouse SKD1, a homologue of yeast Vps4p, is required for normal endosomal trafficking and morphology in mammalian cells
    T Yoshimori
    Department of Cell Biology, National Institute for Basic Biology, Okazaki 444 8585, Japan
    Mol Biol Cell 11:747-63. 2000
    ..The early endosome antigen EEA1 was also redistributed to these aberrant membranes. Taken together, our findings suggest that SKD1 regulates morphology of endosomes and membrane traffic through them...
  18. pmc Formation process of autophagosome is traced with Apg8/Aut7p in yeast
    T Kirisako
    Department of Cell Biology, National Institute for Basic Biology, Okazaki 444 8585, Japan
    J Cell Biol 147:435-46. 1999
    ..Moreover, it is revealed that autophagosome formation is severely impaired in the apg8 null mutant. Apg8p would play an important role in the autophagosome formation...
  19. ncbi request reprint A protein conjugation system essential for autophagy
    N Mizushima
    Department of Cell Biology, National Institute for Basic Biology, Okazaki, Japan
    Nature 395:395-8. 1998
    ..Furthermore, Apg5 and Apg12 have mammalian homologues, suggesting that this new modification system is conserved from yeast to mammalian cells...
  20. ncbi request reprint A new protein conjugation system in human. The counterpart of the yeast Apg12p conjugation system essential for autophagy
    N Mizushima
    Department of Cell Biology, National Institute for Basic Biology, Okazaki 444 8585, Japan
    J Biol Chem 273:33889-92. 1998
    ..These findings indicate that the Apg12 system is well conserved and may function in autophagy also in human cells...
  21. pmc Apg9p/Cvt7p is an integral membrane protein required for transport vesicle formation in the Cvt and autophagy pathways
    T Noda
    Department of Cell Biology, National Institute for Basic Biology, Okazaki 444 8585, Japan
    J Cell Biol 148:465-80. 2000
    ..From these results, we propose that Apg9p/Cvt7p may serve as a marker for a specialized compartment essential for these vesicle-mediated alternative targeting pathways...
  22. ncbi request reprint Autophagy in yeast: a TOR-mediated response to nutrient starvation
    Y Kamada
    Department of Cell Biology, National Institute for Basic Biology, 444 8585, Okazaki, Japan
    Curr Top Microbiol Immunol 279:73-84. 2004
    ..This review describes recent research in this field and the mechanism by which TOR mediates induction of autophagy...
  23. ncbi request reprint A protein conjugation system in yeast with homology to biosynthetic enzyme reaction of prokaryotes
    K Furukawa
    Department of Cell Biology, National Institute for Basic Biology, Okazaki 444 8585, Japan
    J Biol Chem 275:7462-5. 2000
    ..This fact may provide an important clue regarding evolution of protein conjugation systems in eukaryotic cells...
  24. ncbi request reprint Apg14p and Apg6/Vps30p form a protein complex essential for autophagy in the yeast, Saccharomyces cerevisiae
    S Kametaka
    Department of Cell Biology, National Institute for Basic Biology, Okazaki 444 8585, Japan
    J Biol Chem 273:22284-91. 1998
    ..Apg14p may be a component specifically required for the function of Apg6/Vps30p through the autophagic pathway...
  25. pmc Molecular mechanism of autophagy in yeast, Saccharomyces cerevisiae
    Y Ohsumi
    Department of Cell Biology, National Institute for Basic Biology, Okazaki, Japan
    Philos Trans R Soc Lond B Biol Sci 354:1577-80; discussion 1580-1. 1999
    ..Further molecular and cell biological analyses of APG gene products will give us crucial clues to uncover the mechanism and regulation of autophagy...
  26. ncbi request reprint Tor, a phosphatidylinositol kinase homologue, controls autophagy in yeast
    T Noda
    National Institute for Basic Biology, Department of Cell Biology, Nishigonaka 38, Myodaijicho, Okazaki 444, Japan
    J Biol Chem 273:3963-6. 1998
    ..In nutrient-rich medium, Apg proteins are involved also in the transport of aminopeptidase I from the cytosol to the vacuole. Tor may act to switch Apg function between autophagy and transport of aminopeptidase I...
  27. pmc Dissection of autophagosome formation using Apg5-deficient mouse embryonic stem cells
    N Mizushima
    Unit Process and Combined Circuit, PRESTO, Japan Science and Technology Corporation, Kawaguchi 332 0012, Japan
    J Cell Biol 152:657-68. 2001
    ..We also show that Apg12-Apg5 is required for targeting of a mammalian Aut7/Apg8 homologue, LC3, to the isolation membranes. These results suggest that the Apg12-Apg5 conjugate plays essential roles in isolation membrane development...
  28. ncbi request reprint Analyses of APG13 gene involved in autophagy in yeast, Saccharomyces cerevisiae
    T Funakoshi
    National Institute for Basic Biology, Myodaijicho, Okazaki, Japan
    Gene 192:207-13. 1997
    ..Morphological and biochemical investigation showed that a defect in autophagy of delta apg13 was also suppressed by APG1 overexpression. These results imply genetic interaction between APG1 and APG13...
  29. ncbi request reprint Dynamics and function of PtdIns(3)P in autophagy
    Keisuke Obara
    Faculty of Pharmaceutical Sciences, Hokkaido University, Kitaku, Sapporo, Japan
    Autophagy 4:952-4. 2008
    ..Based on these results we discuss the function of PtdIns(3)P in autophagy...
  30. ncbi request reprint [Involvement of the secretory pathway in the autophagosome formation]
    Maho Hamasaki
    Tanpakushitsu Kakusan Koso 51:1469-73. 2006
  31. ncbi request reprint Structure-function relationship of Atg12, a ubiquitin-like modifier essential for autophagy
    Takao Hanada
    Division of Molecular Cell Biology, National Institute for Basic Biology, Okazaki, Japan
    Autophagy 1:110-8. 2005
    ..Gel filtration analysis suggests that F154 plays a critical role in the assembly of a functional Atg12-Atg5.Atg16 complex that is requisite for autophagosome formation...
  32. pmc Expression, purification and crystallization of the Atg5-Atg16 complex essential for autophagy
    Minako Matsushita
    Department of Structural Biology, Graduate School of Pharmaceutical Sciences, Hokkaido University, N 12, W 6, Kita ku, Sapporo 060 0812, Japan
    Acta Crystallogr Sect F Struct Biol Cryst Commun 62:1021-3. 2006
    ..Form IV belongs to space group P4(2)2(1)2, with unit-cell parameters a = 73.3, c = 148.1 A. Diffraction data were collected from all crystal forms and high-resolution data to beyond 2.0 A resolution were obtained from a form IV crystal...
  33. pmc Two newly identified sites in the ubiquitin-like protein Atg8 are essential for autophagy
    Nira Amar
    Department of Biological Chemistry, The Weizmann Institute of Science, Rehovot 76100, Israel
    EMBO Rep 7:635-42. 2006
    ..These two newly identified distinct sites that are essential for Atg8 activity provide an explanation for the many protein-protein interactions of this low-molecular-weight protein...
  34. pmc Assortment of phosphatidylinositol 3-kinase complexes--Atg14p directs association of complex I to the pre-autophagosomal structure in Saccharomyces cerevisiae
    Keisuke Obara
    Division of Molecular Cell Biology, National Institute for Basic Biology, Myodaiji, Okazaki 444 8585, Japan
    Mol Biol Cell 17:1527-39. 2006
    ..Together, these results indicate that complexes I and II function in distinct biological processes by localizing to specific compartments in a manner mediated by specific components of each complex, Atg14p and Vps38p, respectively...
  35. pmc Tor2 directly phosphorylates the AGC kinase Ypk2 to regulate actin polarization
    Yoshiaki Kamada
    Department of Cell Biology, National Institute for Basic Biology, Maiodaiji Cho, Okazaki, Japan
    Mol Cell Biol 25:7239-48. 2005
    ..In contrast, Ypk2(D239A) has increased and TOR2-independent activity in vivo. Thus, we propose that Ypk protein kinases are direct and essential targets of TORC2, coupling TORC2 to the cell integrity cascade...
  36. ncbi request reprint Autophagy is required for maintenance of amino acid levels and protein synthesis under nitrogen starvation
    Jun Onodera
    Division of Molecular Cell Biology, National Institute for Basic Biology, and Department of Basic Biology, School of Life Science, The Graduate University for Advanced Studies, Nishigonaka 38, Myodaiji cho, Okazaki 444 8585, Japan
    J Biol Chem 280:31582-6. 2005
    ..Autophagy-defective cells fail to maintain physiologic amino acid levels, and their inability to synthesize new proteins may explain most phenotypes associated with autophagy mutants at least partly...
  37. pmc Atg17 functions in cooperation with Atg1 and Atg13 in yeast autophagy
    Yukiko Kabeya
    Division of Molecular Cell Biology, National Institute for Basic Biology, Okazaki 444 8585, Japan
    Mol Biol Cell 16:2544-53. 2005
    ..Taken together, these results indicate that Atg17-Atg13 complex formation plays an important role in normal autophagosome formation via binding to and activating the Atg1 kinase...
  38. ncbi request reprint Characterization of a novel autophagy-specific gene, ATG29
    Tomoko Kawamata
    Department of Biology, Graduate School of Science and Technology, Kobe University, Kobe 657 8501, Japan
    Biochem Biophys Res Commun 338:1884-9. 2005
    ..Additionally, an Atg29-GFP fusion protein was observed to localize to the PAS. From these results, we propose that Atg29 functions in autophagosome formation at the PAS in collaboration with other Atg proteins...
  39. ncbi request reprint The crystal structure of Atg3, an autophagy-related ubiquitin carrier protein (E2) enzyme that mediates Atg8 lipidation
    Yuya Yamada
    Department of Structural Biology, Graduate School of Pharmaceutical Sciences, Hokkaido University, N 12, W 6, Kita ku, Sapporo 060 0812, Japan
    J Biol Chem 282:8036-43. 2007
    ..The structure of Atg3 provides a molecular basis for understanding the unique lipidation reaction that Atg3 carries out...
  40. doi request reprint Transport of phosphatidylinositol 3-phosphate into the vacuole via autophagic membranes in Saccharomyces cerevisiae
    Keisuke Obara
    Department of Cell Biology, National Institute for Basic Biology, Okazaki 444 8585, Japan
    Genes Cells 13:537-47. 2008
    ..We also found a possible enrichment of PtdIns(3)P on the inner autophagosomal membrane compared to the outer membrane. Based on these results we discuss the function of PtdIns(3)P in autophagy...
  41. pmc The yeast Tor signaling pathway is involved in G2/M transition via polo-kinase
    Akio Nakashima
    Biosignal Research Center, Kobe University, Kobe, Japan
    PLoS ONE 3:e2223. 2008
    ..The C-terminal polo-box domain of Cdc5 has an inhibitory role in nuclear translocation. Taken together, our results indicate a novel function of Tor in the regulation of cell cycle and proliferation...
  42. doi request reprint Novel families of vacuolar amino acid transporters
    Takayuki Sekito
    Department of Applied Bioscience, Faculty of Agriculture, Tarumi 3 5 7, Ehime University, Matsuyama, Ehime, Japan
    IUBMB Life 60:519-25. 2008
    ..cerevisiae. Homologous genes for these transporters are also found in plant and mammalian genomes. The physiological significance in response to nitrogen starvation can now be discussed...
  43. ncbi request reprint [Key questions about membrane dynamics during autophagy]
    Keisuke Obara
    Division of Molecular Cell Biology, National Institute for Basic Biology, Nishigonaka 38, Myodaiji cho, Okazaki 444 8585, Japan
    Seikagaku 80:215-23. 2008
  44. pmc Organization of the pre-autophagosomal structure responsible for autophagosome formation
    Tomoko Kawamata
    Department of Cell Biology, National Institute for Basic Biology, and School of Life Science, The Graduate University for Advanced Studies, Okazaki 444 8585, Japan
    Mol Biol Cell 19:2039-50. 2008
    ..Our results suggest that Atg1 complex and the autophagy-unique Atg proteins cooperatively organize the PAS in response to starvation signals...
  45. ncbi request reprint The Atg12-Atg5 conjugate has a novel E3-like activity for protein lipidation in autophagy
    Takao Hanada
    Division of Molecular Cell Biology, National Institute for Basic Biology, Myodaiji, Okazaki, Japan
    J Biol Chem 282:37298-302. 2007
    ..These results indicate that the Atg12-Atg5 conjugate is a ubiquitin-protein ligase (E3)-like enzyme for Atg8-PE conjugation reaction, distinctively promoting protein-lipid conjugation...
  46. ncbi request reprint Atg8, a ubiquitin-like protein required for autophagosome formation, mediates membrane tethering and hemifusion
    Hitoshi Nakatogawa
    Department of Cell Biology, National Institute for Basic Biology, Okazaki 444 8585, Japan
    Cell 130:165-78. 2007
    ..Our results provide further insights into the mechanisms underlying the unique membrane dynamics of autophagy and also indicate the functional versatility of ubiquitin-like proteins...
  47. ncbi request reprint Molecular machinery of autophagosome formation in yeast, Saccharomyces cerevisiae
    Kuninori Suzuki
    Department of Cell Biology, Division of Molecular Cell Biology, National Institute for Basic Biology, Nishigonaka 38, Okazaki, Aichi 444 8585 Japan
    FEBS Lett 581:2156-61. 2007
    ..In this review, we will give an overview of recent studies on the mechanisms of autophagosome formation and discuss these unresolved questions...
  48. ncbi request reprint Cis1/Atg31 is required for autophagosome formation in Saccharomyces cerevisiae
    Yukiko Kabeya
    Division of Molecular Cell Biology, National Institute for Basic Biology, Myodaiji 38, Okazaki 444 8585, Japan
    Biochem Biophys Res Commun 356:405-10. 2007
    ..Coimmunoprecipitation experiments indicated that Atg31 interacts with Atg17. Together, Atg31 is a novel protein that, in concert with Atg17, is required for proper autophagosome formation...
  49. pmc Crystallization of Saccharomyces cerevisiae aminopeptidase 1, the major cargo protein of the Cvt pathway
    Wakana Adachi
    Department of Structural Biology, Graduate School of Pharmaceutical Sciences, Hokkaido University, N 12, W 6, Kita ku, Sapporo 060 0812, Japan
    Acta Crystallogr Sect F Struct Biol Cryst Commun 63:200-3. 2007
    ..Self-rotation functions and the volume-to-weight ratio values suggest that forms I and II contain 12 and four mApe1 molecules per asymmetric unit, respectively, and that mApe1 exists as a tetrahedral dodecamer in both crystal forms...
  50. pmc An Arabidopsis homolog of yeast ATG6/VPS30 is essential for pollen germination
    Yuki Fujiki
    Department of Cell Biology, National Institute for Basic Biology, Okazaki 444 8585, Japan
    Plant Physiol 143:1132-9. 2007
    ..We propose that Arabidopsis Atg6/Vps30 functions not only in autophagy, but also plays a pivotal role in pollen germination...
  51. pmc The Atg18-Atg2 complex is recruited to autophagic membranes via phosphatidylinositol 3-phosphate and exerts an essential function
    Keisuke Obara
    Department of Cell Biology, National Institute for Basic Biology, Nishigonaka 38, Myodaiji cho, Okazaki 444 8585, Japan
    J Biol Chem 283:23972-80. 2008
    ..Taken together, Atg18 forms a complex with Atg2 irrespective of PtdIns(3)P binding, associates tightly to autophagic membranes by interacting with PtdIns(3)P, and plays an essential role...
  52. ncbi request reprint A family of basic amino acid transporters of the vacuolar membrane from Saccharomyces cerevisiae
    Masamitsu Shimazu
    Department of Applied Chemistry, Muroran Institute of Technology, Muroran 050 8585, Japan
    J Biol Chem 280:4851-7. 2005
    ..These three VBA genes are closely related phylogenetically and constitute a new family of basic amino acid transporters in the yeast vacuole...
  53. ncbi request reprint Crystallization and preliminary X-ray analysis of LC3-I
    Kenji Sugawara
    Graduate School of Pharmaceutical Sciences, Hokkaido University, N 12, W 6, Kita ku, Sapporo 060 0812, Japan
    Acta Crystallogr D Biol Crystallogr 59:1464-5. 2003
    ..39, c = 36.89 A. The other form belongs to space group P4(1) or P4(3), with unit-cell parameters a = 60.48, c = 35.28 A. From the latter form, a complete diffraction data set was collected to 2.1 A resolution...
  54. pmc In vivo analysis of autophagy in response to nutrient starvation using transgenic mice expressing a fluorescent autophagosome marker
    Noboru Mizushima
    Department of Cell Biology, National Institute for Basic Biology, Okazaki 444 8585, Japan
    Mol Biol Cell 15:1101-11. 2004
    ..Our results suggest that the regulation of autophagy is organ dependent and the role of autophagy is not restricted to the starvation response. This transgenic mouse model is a useful tool to study mammalian autophagy...
  55. pmc Promotion of tumorigenesis by heterozygous disruption of the beclin 1 autophagy gene
    Xueping Qu
    Department of Medicine, Columbia University College of Physicians and Surgeons, New York, New York 10032, USA
    J Clin Invest 112:1809-20. 2003
    ..Thus, mutation of beclin 1 or other autophagy genes may contribute to the pathogenesis of human cancers...
  56. pmc Modification of a ubiquitin-like protein Paz2 conducted micropexophagy through formation of a novel membrane structure
    Hiroyuki Mukaiyama
    Division of Applied Life Sciences, Graduate School of Agriculture, Kyoto University, Kitashirakawa Oiwake, Sakyo ku, Kyoto 606 8502, Japan
    Mol Biol Cell 15:58-70. 2004
    ..We herein show that Paz2 and its modification system conduct micropexophagy through formation of the membrane structure, which explains the convergence between micropexophagy and macroautophagy with regard to de novo membrane formation...
  57. pmc Leaf senescence and starvation-induced chlorosis are accelerated by the disruption of an Arabidopsis autophagy gene
    Hideki Hanaoka
    Department of Cell Biology, National Institute for Basic Biology, Nishigonaka 38, Myodaiji cho, Okazaki 444 8585, Japan
    Plant Physiol 129:1181-93. 2002
    ..These results imply that autophagy is required for maintenance of the cellular viability under nutrient-limited conditions and for efficient nutrient use as a whole plant...
  58. ncbi request reprint [The pre-autophagosomal structure (PAS), required for the formation of autophagosome membrane]
    Kuninori Suzuki
    Department of Cell Biology, National Institute for Basic Biology, Nishigonaka 38, Myodaiji cho, Okazaki, Aichi 444 8585, Japan
    Seikagaku 75:492-9. 2003
  59. ncbi request reprint Mouse Apg16L, a novel WD-repeat protein, targets to the autophagic isolation membrane with the Apg12-Apg5 conjugate
    Noboru Mizushima
    PRESTO, Japan Science and Technology Corporation, Kawaguchi 332 0012, Japan
    J Cell Sci 116:1679-88. 2003
    ..Because WD-repeat proteins provide a platform for protein-protein interactions, the approximately 800 kDa complex is expected to function in autophagosome formation, further interacting with other proteins in mammalian cells...
  60. ncbi request reprint The early secretory pathway contributes to autophagy in yeast
    Maho Hamasaki
    Department of Cell Biology, National Institute for Basic Biology, 38 Nishigonaka, Myodaiji cho, Okazaki 444 8585, Japan
    Cell Struct Funct 28:49-54. 2003
    ....
  61. ncbi request reprint Autophagosome formation in mammalian cells
    Noboru Mizushima
    Department of Cell Biology, National Institute for Basic Biology, 38 Nishigonaka, Myodaiji, Okazaki 444 8585, Japan
    Cell Struct Funct 27:421-9. 2002
    ..These findings are now being applied to studies on the physiological roles of autophagy in mammals...
  62. ncbi request reprint Mouse Apg10 as an Apg12-conjugating enzyme: analysis by the conjugation-mediated yeast two-hybrid method
    Noboru Mizushima
    PRESTO, Japan Science and Technology Corporation, 332 0012, Kawaguchi, Japan
    FEBS Lett 532:450-4. 2002
    ..This novel two-hybrid method, which we have named 'conjugation-mediated yeast two-hybrid', proves to be a simple and useful technique with which to analyze protein-protein conjugation...
  63. ncbi request reprint Studies of cargo delivery to the vacuole mediated by autophagosomes in Saccharomyces cerevisiae
    Kuninori Suzuki
    Department of Cell Biology, National Institute for Basic Biology, Nishigonaka 38, Myodaiji cho, Okazaki 444 8585, Japan
    Dev Cell 3:815-24. 2002
    ..This indicates that Cvt19p mediates association between the Cvt complex and the PAS...
  64. ncbi request reprint SKD1 AAA ATPase-dependent endosomal transport is involved in autolysosome formation
    Atsuki Nara
    Department of Cell Biology, National Institute for Basic Biology, Myodaiji, Okazaki, Japan
    Cell Struct Funct 27:29-37. 2002
    ..These results indicate that SKD1-dependent endosomal membrane trafficking is required for formation of autolysosomes...
  65. ncbi request reprint Transcriptomic and proteomic analysis of a 14-3-3 gene-deficient yeast
    Tohru Ichimura
    Department of Chemistry, Graduate School of Science, Tokyo Metropolitan University, Hachioji shi, Tokyo 192 0397, Japan
    Biochemistry 43:6149-58. 2004
    ..This study presents the first comprehensive overview of the genes and proteins that are affected by the depletion of Bmh1/2p and extends the scope of knowledge of the regulatory roles of Bmh1/2p in S. cerevisiae...
  66. ncbi request reprint Formation of the approximately 350-kDa Apg12-Apg5.Apg16 multimeric complex, mediated by Apg16 oligomerization, is essential for autophagy in yeast
    Akiko Kuma
    Department of Cell Biology, National Institute for Basic Biology, 38 Nishigonaka, Myodaiji, Okazaki 444 8585, Japan
    J Biol Chem 277:18619-25. 2002
    ..These results suggest that the Apg12-Apg5 conjugate and Apg16 form a multimeric complex mediated by the Apg16 homo-oligomer, and formation of the approximately 350-kDa complex is required for autophagy in yeast...
  67. pmc A sorting nexin PpAtg24 regulates vacuolar membrane dynamics during pexophagy via binding to phosphatidylinositol-3-phosphate
    Yoshitaka Ano
    Division of Applied Life Sciences, Graduate School of Agriculture, Kyoto University, Kyoto 606 8502, Japan
    Mol Biol Cell 16:446-57. 2005
    ....
  68. ncbi request reprint Interrelationships among Atg proteins during autophagy in Saccharomyces cerevisiae
    Kuninori Suzuki
    Department of Cell Biology, National Institute for Basic Biology, Nishigonaka 38, Myodaiji cho, Okazaki 444 8585, Japan
    Yeast 21:1057-65. 2004
    ..Subsequent analyses revealed epistatic interrelationships among Atg proteins during the process of autophagosome formation...
  69. ncbi request reprint apg15-1, a UGA mutant allele in the Saccharomyces cerevisiae APG16 gene, and its suppression by a cytoplasmic factor
    Hiroshi Okazaki
    Department of Bioscience, Teikyo University of Science and Technology, Uenohara, Kitatsuru gun, Yamanashi 409 0193, Japan
    Biosci Biotechnol Biochem 68:1541-8. 2004
    ..Since apg15-1 is a mutation highly sensitive to termination suppression, it can be used as a tool to detect weak termination suppressors...
  70. ncbi request reprint In vivo and in vitro reconstitution of Atg8 conjugation essential for autophagy
    Yoshinobu Ichimura
    Department of Cell Biology, National Institute for Basic Biology, 38 Nishigonaka, Myodaiji, Okazaki, 444 8585, Japan
    J Biol Chem 279:40584-92. 2004
    ..In vitro system developed here will provide a powerful system for further understanding the precise role of lipidation and interaction of two ubiquitin-like systems essential for autophagy...
  71. ncbi request reprint The crystal structure of microtubule-associated protein light chain 3, a mammalian homologue of Saccharomyces cerevisiae Atg8
    Kenji Sugawara
    Department of Structural Biology, Graduate School of Pharmaceutical Sciences, Hokkaido University, Kita 12, Nishi 6, Kita ku, Sapporo 060 0812, Japan
    Genes Cells 9:611-8. 2004
    ..We also propose the functional implications of the ubiquitin fold as a recognition module of target proteins...
  72. ncbi request reprint Role of the Apg12 conjugation system in mammalian autophagy
    Noboru Mizushima
    PRESTO, Japan Science and Technology Corporation, 332 0012, Kawaguchi, Japan
    Int J Biochem Cell Biol 35:553-61. 2003
    ..Discovery of the Apg12 system has facilitated our understanding of the molecular mechanism of autophagosome formation...
  73. ncbi request reprint LC3, GABARAP and GATE16 localize to autophagosomal membrane depending on form-II formation
    Yukiko Kabeya
    Department of Cell Biology, National Institute for Basic Biology, Myodaiji 38, Okazaki 444 8585, Japan
    J Cell Sci 117:2805-12. 2004
    ..Generation of the form II correlates with autophagosome association of GABARAP and GATE16. These results suggest that all mammalian Atg8 homologues receive a common modification to associate with autophagosomal membrane as the form II...
  74. doi request reprint Starved cells eat ribosomes
    Hitoshi Nakatogawa
    Nat Cell Biol 10:505-7. 2008
  75. ncbi request reprint Yeast autophagosomes: de novo formation of a membrane structure
    Takeshi Noda
    Dept of Cell Biology, National Institute for Basic Biology, 38 Nishigonaka, Myodaijicho, Okazaki, 444 8585, Japan
    Trends Cell Biol 12:231-5. 2002
    ..The concerted action of several Apg/Aut/Cvt proteins around a characteristic subcellular structure (the preautophagosomal structure) is the key to understanding this novel type of membrane-formation process...
  76. doi request reprint Physiological pH and acidic phospholipids contribute to substrate specificity in lipidation of Atg8
    Kyoko Oh-oka
    Department of Cell Biology, National Institute for Basic Biology, Graduate University for Advanced Studies, Okazaki 444 8585, Japan
    J Biol Chem 283:21847-52. 2008
    ..We propose that these factors contribute to the selective formation of Atg8-PE in the cell...
  77. ncbi request reprint The first molecular evidence that autophagy relates rimmed vacuole formation in chloroquine myopathy
    Takashi Suzuki
    Department of Life Science, Graduate School of Arts and Sciences, The University of Tokyo, Komaba, Meguro ku, Tokyo 153 8902
    J Biochem 131:647-51. 2002
    ..Therefore, we concluded that autophagy plays an important role in rimmed vacuole formation in certain muscular atrophies...
  78. ncbi request reprint In vitro reconstitution of plant Atg8 and Atg12 conjugation systems essential for autophagy
    Yuko Fujioka
    Department of Structural Biology, Graduate School of Pharmaceutical Sciences, Hokkaido University, N 21, W 11, Kita ku, Sapporo 001 0021, Japan
    J Biol Chem 283:1921-8. 2008
    ..The in vitro conjugation systems reported here will afford a tool with which to investigate the cross-talk mechanism between two conjugation systems...
  79. ncbi request reprint Hierarchy of Atg proteins in pre-autophagosomal structure organization
    Kuninori Suzuki
    Department of Cell Biology, Division of Molecular Cell Biology, National Institute for Basic Biology, Nishigonaka 38, Okazaki, 444 8585 Japan
    Genes Cells 12:209-18. 2007
    ....
  80. ncbi request reprint Starvation triggers the delivery of the endoplasmic reticulum to the vacuole via autophagy in yeast
    Maho Hamasaki
    National Institute for Basic Biology, Department of Cell Biology, 38 Nishigonaka, Myodaiji cho, Okazaki, 444 8585, Japan
    Traffic 6:56-65. 2005
    ..This phenomenon was explained by the appearance of fragmented ER membrane structures in almost all autophagosomes. Furthermore, ER dynamism is required for this process: ER uptake by autophagosomes occurs in an actin-dependent manner...
  81. ncbi request reprint Structure of Atg5.Atg16, a complex essential for autophagy
    Minako Matsushita
    Department of Structural Biology, Graduate School of Pharmaceutical Sciences, Hokkaido University, N 21, W 11, Kita ku, Sapporo 001 0021, Japan
    J Biol Chem 282:6763-72. 2007
    ..These results taken together suggest that the direct interaction between Atg5 and Atg16 is crucial to the performance of their roles in autophagy...
  82. ncbi request reprint [Physiological role of autophagy for starvation-adaptation in yeast]
    Jun Onodera
    Tanpakushitsu Kakusan Koso 51:1499-502. 2006
  83. ncbi request reprint Ald6p is a preferred target for autophagy in yeast, Saccharomyces cerevisiae
    Jun Onodera
    Department of Cell Biology, National Institute for Basic Biology, The Graduate University for Advanced Studies, Nishigonaka, Okazaki, Japan
    J Biol Chem 279:16071-6. 2004
    ..Ald6p enzymatic activity may be disadvantageous for survival under nitrogen starvation; therefore, yeast cells may preferentially eliminate Ald6p via autophagy...
  84. pmc Processing of ATG8s, ubiquitin-like proteins, and their deconjugation by ATG4s are essential for plant autophagy
    Kohki Yoshimoto
    Department of Cell Biology, National Institute for Basic Biology, Myodaiji cho, Okazaki 444 8585, Japan
    Plant Cell 16:2967-83. 2004
    ..The phenotypic analysis of atg4a4b-1 indicated that plant autophagy contributes to the development of a root system under conditions of nutrient limitation...
  85. pmc Impairment of starvation-induced and constitutive autophagy in Atg7-deficient mice
    Masaaki Komatsu
    Department of Molecular Oncology, Tokyo Metropolitan Institute of Medical Science, Bunkyo ku, Tokyo 113 8613, Japan
    J Cell Biol 169:425-34. 2005
    ..Our results indicate the important role of autophagy in starvation response and the quality control of proteins and organelles in quiescent cells...
  86. pmc Crystallization and preliminary X-ray analysis of Atg3
    Yuya Yamada
    Department of Structural Biology, Graduate School of Pharmaceutical Sciences, Hokkaido University, N 12, W 6, Kita ku, Sapporo 060 0812, Japan
    Acta Crystallogr Sect F Struct Biol Cryst Commun 62:1016-7. 2006
    ..5 A resolution. The crystals belong to space group P4(1) or P4(3), with unit-cell parameters a = 59.33, c = 115.22 A, and are expected to contain one protein molecule per asymmetric unit...