Autophagy: Principles and significance in health and disease

Biochimica et Biophysica Acta - Molecular Basis of Disease

Volumn 1792, Issue 1, 2009, Pages 3-13

  Todde, Virginia ^a   Veenhuis, Marten ^a,b   van der Klei, Ida J ^a,b  

^a UNIVERSITY OF GRONINGEN   (Netherlands)

^b KLUYVER CENTRE FOR GENOMICS OF INDUSTRIAL FERMENTATION   (Netherlands)

Author keywords

ATG genes; Autophagosome; Autophagy; Lysosome; Vacuole; Yeast

Indexed keywords

BECLIN 1; CHAPERONE; METHANOL; NITROGEN; PHOSPHATIDYLINOSITOL 3 KINASE;

ALZHEIMER DISEASE; AUTOPHAGY; BREAST CANCER; CANDIDA BOIDINII; CELL DEATH; CELL SURVIVAL; GENE MUTATION; HANSENULA POLYMORPHA; HUMAN; HUNTINGTON CHOREA; INFECTION; LYSOSOME STORAGE DISEASE; MACROAUTOPHAGY; MACROPEXOPHAGY; MICROAUTOPHAGY; MITOPHAGY; MOLECULAR MECHANICS; NERVE DEGENERATION; NONHUMAN; ONCOGENE; OVARY CANCER; PARKINSON DISEASE; PEROXISOME; PICHIA PASTORIS; PRIORITY JOURNAL; PROSTATE CANCER; PROTEIN DEGRADATION; PROTEIN TRANSPORT; RETICULOPHAGY; REVIEW; SACCHAROMYCES CEREVISIAE;

ANIMALS; AUTOPHAGY; CELL AGING; CELL DEATH; CYTOPLASM; ENDOPLASMIC RETICULUM; HUMANS; INFECTION; LYSOSOMAL STORAGE DISEASES; MITOCHONDRIA; MODELS, BIOLOGICAL; MOLECULAR CHAPERONES; NEOPLASMS; NERVE DEGENERATION; VACUOLES;

EUKARYOTA;

EID: 57849136841     PISSN: 09254439     EISSN: None     Source Type: Journal    
DOI: 10.1016/j.bbadis.2008.10.016     Document Type: Review

References (112)

1. Tsukada M., and Oshumi Y. Isolation and characterization of autophagy-defective mutants of Saccharomyces cerevisiae. FEBS lett. 333 (1993) 169-174
2. Onodera J., and Oshumi Y. Autophagy is required for maintenance of amino acid levels and protein synthesis under nitrogen starvation. J. Biol. Chem. 280 (2005) 31582-31586
3. Yang Z., Huang J., Geng J., Nair U., and Klionsky D.J. Atg22 recycles amino acids to link the degradative and recycling functions of autophagy. Mol. Biol. Cell 17 (2006) 5094-5104
4. Bergamini E. Autophagy: a cell repair mechanism that retards ageing and age-associated diseases and can be intensified pharmacologically. Mol. Aspects Med. 27 (2006) 403-410
5. Levine B., and Klionsky D.J. Development by self-digestion: molecular mechanisms and biological functions of autophagy. Dev. Cell 6 (2004) 463-477
6. Mizushima N., Levine B., Cuervo A.M., and Klionsky D.J. Autophagy fights disease through cellular self-digestion. Nature 451 (2008) 1069-1075
7. Tatsuta T., and Langer T. Quality control of mitochondria: protection against neurodegeneration and ageing. EMBO J. 27 (2008) 306-314
8. Ciechanover A. Intracellular protein degradation: from a vague idea thru the lysosome and the ubiquitin-proteasome system and onto human diseases and drug targeting. Exp. Biol. Med. (Maywood) 231 (2006) 1197-1211
9. Mizushima N., and Hara T. Intracellular quality control by autophagy: how does autophagy prevent neurodegeneration?. Autophagy 2 (2006) 302-304
10. Kissová I., Salin B., Schaeffer J., Bhatia S., Manon S., and Camougrand N. Selective and non-selective autophagic degradation of mitochondria in yeast. Autophagy 3 (2007) 329-336
11. Monastryska I., Sjollema K., van der Klei I.J., Kiel J.A., and Veenhuis M. Microautophagy and macropexophagy may occur simultaneously in Hansenula polymorpha. FEBS Lett. 568 (2004) 135-138
12. Dice J.F. Chaperone-mediated autophagy. Autophagy 3 (2007) 295-299
13. Dice J.F. Peptide sequences that target cytosolic proteins for lysosomal proteolysis. Trends Biochem. Sci. 15 (1990) 305-309
14. Chiang H.L., and Dice J.F. Peptide sequences that target proteins for enhanced degradation during serum withdrawal. J. Biol. Chem. 263 (1988) 6797-6805
15. Klionsky D.J., Cregg J.M., Dunn Jr. W.A., Emr S.D., Sakai Y., Sandoval I.V., Sibirny A., Subramani S., Thumm M., Veenhuis M., and Ohsumi Y. A unified nomenclature for yeast autophagy-related genes. Dev. Cell 5 (2003) 539-545
16. Klionsky D.J. The molecular machinery of autophagy: unanswered questions. J. Cell Sci. 118 (2005) 7-18
17. Meijer W.H., van der Klei I.J., Veenhuis M., and Kiel J.A. ATG genes involved in non-selective autophagy are conserved from yeast to man, but the selective Cvt and pexophagy pathways also require organism-specific genes. Autophagy 3 (2007) 106-116
18. Kundu M., and Thompson C.B. Autophagy: basic principles and relevance to disease. Annu. Rev. Pathol. 3 (2008) 427-455
19. Pattingre S., Espert L., Biard-Piechaczyk M., and Codogno P. Regulation of macroautophagy by mTOR and Beclin 1 complexes. Biochimie 90 (2008) 313-323
20. Funakoshi T., Matsuura A., Noda T., and Ohsumi Y. Analyses of APG13 gene involved in autophagy in yeast, Saccharomyces cerevisiae. Gene 192 (1997) 207-213
21. Scott S.V., 3rd Nice D.C., Nau J.J., Weisman L.S., Kamada Y., Keizer-Gunnink I., Funakoshi T., Veenhuis M., Ohsumi Y., and Klionsky D.J. Apg13p and Vac8p are part of a complex of phosphoproteins that are required for cytoplasm to vacuole targeting. J. Biol. Chem. 275 (2000) 25840-25849
22. Kamada Y., Funakoshi T., Shintani T., Nagano K., Ohsumi M., and Ohsumi Y. Tor-mediated induction of autophagy via an Apg1 protein kinase complex. J. Cell Biol. 150 (2000) 1507-1513
23. Matsuura A., Tsukada M., Wada Y., and Ohsumi Y. Apg1p, a novel protein kinase required for the autophagic process in Saccharomyces cerevisiae. Gene 192 (1997) 245-250
24. Kihara A., Noda T., Ishihara N., and Ohsumi Y. Two distinct Vps34 phosphatidylinositol 3-kinase complexes function in autophagy and carboxypeptidase Y sorting in Saccharomyces cerevisiae. J. Cell Biol. 152 (2001) 519-530
25. Kametaka S., Okano T., Ohsumi M., and Ohsumi Y. Apg14p and Apg6/Vps30p form a protein complex essential for autophagy in the yeast, Saccharomyces cerevisiae. J. Biol. Chem. 273 (1998) 22284-22291
26. 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 (2001) 5971-5981
27. Kawamata T., Kamada Y., Kabeya Y., Sekito T., and Ohsumi Y. Organization of the pre-autophagosomal structure responsible for autophagosome formation. Mol. Biol. Cell (2008) 2039-2050
28. Reggiori F., and Klionsky D.J. Autophagosomes: biogenesis from scratch?. Curr. Opin. Cell Biol. 17 (2005) 415-422
29. 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 (2000) 263-276
30. Lang T., Schaeffeler E., Bernreuther D., Bredschneider M., Wolf D.H., and Thumm M. Aut2p and Aut7p, two novel microtubule-associated proteins are essential for delivery of autophagic vesicles to the vacuole. EMBO J. 17 (1998) 3597-3607
31. Mukaiyama H., Baba M., Osumi M., Aoyagi S., Kato N., Ohsumi Y., and Sakai Y. Modification of a ubiquitin-like protein Paz2 conducted micropexophagy through formation of a novel membrane structure. Mol. Biol. Cell 15 (2004) 58-70
32. Mukaiyama H., Oku M., Baba M., Samizo T., Hammond A.T., Glick B.S., Kato N., and Sakai Y. Paz2 and 13 other PAZ gene products regulate vacuolar engulfment of peroxisomes during macropexophagy. Genes Cells 7 (2002) 75-90
33. Kim J., Dalton V.M., Eggerton K.P., Scott S.V., and Klionsky D.J. Apg7p/Cvt2p is required for the cytoplasm-to-vacuole targeting, macroautophagy, and peroxisome degradation pathways. Mol. Biol. Cell 10 (1999) 1337-1351
34. Yuan W., Stromhaug P.E., and Jr Dunn W.A. Glucose-induced autophagy of peroxisomes in Pichia pastoris requires a unique E1-like protein. Mol. Biol. Cell 10 (1999) 1353-1366
35. Tanida I., Mizushima N., Kiyooka M., Ohsumi M., Ueno T., Ohsumi Y., and Kominami E. Apg7p/Cvt2p: a novel protein-activating enzyme essential for autophagy. Mol. Biol. Cell 10 (1999) 1367-1379
36. Schlumpberger M., Schaeffeler E., Straub M., Bredschneider M., Wolf D.H., and Thumm M. AUT1, a gene essential for autophagocytosis in the yeast Saccharomyces cerevisiae. J. Bacteriol. 179 (1997) 1068-1076
37. 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 (2000) 488-492
38. Mizushima N., Noda T., and Ohsumi Y. Apg16p is required for the function of the Apg12p-Apg5p conjugate in the yeast autophagy pathway. EMBO J. 18 (1999) 3888-3896
39. Reggiori F., Tucker K.A., Stromhaug P.E., and Klionsky D.J. The Atg1-Atg13 complex regulates Atg9 and Atg23 retrieval transport from the pre-autophagosomal structure. Dev. Cell 6 (2004) 79-90
40. Luzio J.P., Pryor P.R., and Bright N.A. Lysosomes: fusion and function. Nat. Rev. Mol. Cell Biol. 8 (2007) 622-632
41. Farré J.C., Vidal J., and Subramani S. A cytoplasm to vacuole targeting pathway in P. pastoris. Autophagy 3 (2007) 230-234
42. Scott S.V., Guan J., Hutchins M.U., Kim J., and Klionsky D.J. Cvt19 is a receptor for the cytoplasm-to-vacuole targeting pathway. Mol. Cell 7 (2001) 1131-1141
43. Shintani T., Huang W.P., Stromhaug P.E., and Klionsky D.J. Mechanism of cargo selection in the cytoplasm to vacuole targeting pathway. Dev. Cell 3 (2002) 825-837
44. Khalfan W.A., and Klionsky D.J. Molecular machinery required for autophagy and the cytoplasm to vacuole targeting (Cvt) pathway in S. cerevisiae. Curr. Opin. Cell Biol. 14 (2002) 468-475
45. Bormann C., and Sahm H. Degradation of microbodies in relation to activities of alcohol oxidase and catalase in Candida boidinii. Arch. Microbiol. 117 (1978) 67-72
46. Veenhuis M., van Dijken J.P., Pilon S.A., and Harder W. Development of crystalline peroxisomes in methanol-grown cells of the yeast Hansenula polymorpha and its relation to environmental conditions. Arch. Microbiol. 117 (1978) 153-163
47. Veenhuis M., Douma A., Harder W., and Osumi M. Degradation and turnover of peroxisomes in the yeast Hansenula polymorpha induced by selective inactivation of peroxisomal enzymes. Arch Microbiol. 134 (1983) 193-203
48. Tuttle D.L., and Dunn Jr. W.A. Divergent modes of autophagy in the methylotrophic yeast Pichia pastoris. J. Cell Sci. 108 (1995) 25-35
49. Tuttle D.L., Lewin A.S., and Jr Dunn W.A. Selective autophagy of peroxisomes in methylotrophic yeasts. Eur. J. Cell Biol. 60 (1993) 283-290
50. Bellu A.R., Komori M., van der Klei I.J., Kiel J.A., and Veenhuis M. Peroxisome biogenesis and selective degradation converge at Pex14p. J. Biol. Chem. 276 (2001) 44570-44574
51. Bellu A.R., Salomons F.A., Kiel J.A., Veenhuis M., and Van der Klei I.J. Removal of Pex3p is an important initial stage in selective peroxisome degradation in Hansenula polymorpha. J. Biol. Chem. 277 (2002) 42875-42880
52. de Vries B., Todde V., Stevens P., Salomons F., van der Klei I.J., and Veenhuis M. Pex14p is not required for N-starvation induced microautophagy and in catalytic amounts for macropexophagy in Hansenula polymorpha. Autophagy 23 (2006) 183-188
53. van Zutphen T., Veenhuis M., and van der Klei I.J. Pex14 is the sole component of the peroxisomal translocon that is required for pexophagy. Autophagy 4 (2008) 63-66
54. Nagotu S., Saraya R., Otzen M., Veenhuis M., and van der Klei I.J. Peroxisome proliferation in Hansenula polymorpha requires Dnm1p which mediates fission but not de novo formation. Biochim. Biophys. Acta 1783 (2008) 760-769
55. Motley A.M., and Hettema E.H. Yeast peroxisomes multiply by growth and division. J. Cell Biol. 178 (2007) 399-410
56. Leao-Helder A.N., Krikken A.M., van der Klei I.J., Kiel J.A., and Veenhuis M. Transcriptional down-regulation of peroxisome numbers affects selective peroxisome degradation in Hansenula polymorpha. J. Biol. Chem. 278 (2003) 40749-40756
57. Iwata J., Ezaki J., Komatsu M., Yokota S., Ueno T., Tanida I., Chiba T., Tanaka K., and Kominami E. Excess peroxisomes are degraded by autophagic machinery in mammals. J. Biol. Chem. 281 (2006) 4035-4041
58. Bernales S., Schuck S., and Walter P. ER-phagy: selective autophagy of the endoplasmic reticulum. Autophagy 3 (2007) 285-287
59. Mijaljica D., Prescott M., Klionsky D.J., and Devenish R.J. Autophagy and vacuole homeostasis: a case for self-degradation?. Autophagy 3 (2007) 417-421
60. Dubouloz F., Deloche O., Wanke V., Cameroni E., and De Virgilio C. The TOR and EGO protein complexes orchestrate microautophagy in yeast. Mol. Cell 19 (2005) 15-26
61. Uttenweiler A., and Mayer A. Microautophagy in the yeast Saccharomyces cerevisiae. Methods Mol. Biol. 445 (2008) 245-259
62. Uttenweiler A., Schwarz H., Neumann H., and Mayer A. The vacuolar transporter chaperone (VTC) complex is required for microautophagy. Mol. Biol. Cell 18 (2007) 166-175
63. Müller O., Sattler T., Flötenmeyer M., Schwarz H., Plattner H., and Mayer A. Autophagic tubes: vacuolar invaginations involved in lateral membrane sorting and inverse vesicle budding. J. Cell Biol. 151 (2000) 519-528
64. Sakai Y., Oku M., van der Klei I.J., and Kiel J.A. Pexophagy: autophagic degradation of peroxisomes. Biochim. Biophys. Acta 1763 (2006) 1767-1775
65. Yuan W., Tuttle D.L., Shi Y.J., Ralph G.S., and Jr Dunn W.A. Glucose-induced microautophagy in Pichia pastoris requires the alpha-subunit of phosphofructokinase. J. Cell. Sci. 110 (1997) 1935-1945
66. Ozimek P., van Dijk R., Latchev K., Gancedo C., Wang D.Y., van der Klei I.J., and Veenhuis M. Pyruvate carboxylase is an essential protein in the assembly of yeast peroxisomal oligomeric alcohol oxidase. Mol. Biol. Cell 14 (2003) 786-797
67. Oku M., Nishimura T., Hattori T., Ano Y., Yamashita S., and Sakai Y. Role of Vac8 in formation of the vacuolar sequestering membrane during macropexophagy. Autophagy 2 (2006) 272-279
68. Farré J.C., Manjithaya R., Mathewson R.D., and Subramani S. PpAtg30 tags peroxisomes for turnover by selective autophagy. Dev. Cell 14 (2008) 365-376
69. Roberts P., Moshitch-Moshkovitz S., Kvam E., O'Toole E., Winey M., and Goldfarb D.S. Piecemeal microautophagy of nucleus in Saccharomyces cerevisiae. Mol. Biol. Cell 14 (2003) 129-141
70. Kvam E., and Goldfarb D.S. Nucleus-vacuole junctions and piecemeal microautophagy of the nucleus in S. cerevisiae. Autophagy 3 (2007) 85-92
71. Kvam E., Gable K., Dunn T.M., and Goldfarb D.S. Targeting of Tsc13p to nucleus-vacuole junctions: a role for very-long-chain fatty acids in the biogenesis of microautophagic vesicles. Mol. Biol. Cell 16 (2005) 3987-3998
72. Twig G., Elorza A., Molina A.J., Mohamed H., Wikstrom J.D., Walzer G., Stiles L., Haigh S.E., Katz S., Las G., Alroy J., Wu M., Py B.F., Yuan J., Deeney J.T., Corkey B.E., and Shirihai O.S. Fission and selective fusion govern mitochondrial segregation and elimination by autophagy. EMBO J. 27 (2008) 433-446
73. Kissová I., Deffieu M., Manon S., and Camougrand N. Uth1p is involved in the autophagic degradation of mitochondria. J. Biol. Chem. 279 (2004) 39068-39074
74. Tal R., Winter G., Ecker N., Klionsky D.J., and Abeliovich H. Aup1p, a yeast mitochondrial protein phosphatase homolog, is required for efficient stationary phase mitophagy and cell survival. J. Biol. Chem. 282 (2007) 5617-5624
75. Nowikovsky K., Reipert S., Devenish R.J., and Schweyen R.J. Mdm38 protein depletion causes loss of mitochondrial K+/H+ exchange activity, osmotic swelling and mitophagy. Cell Death Differ. 14 (2007) 1647-1656
76. Komatsu M., Waguri S., Ueno T., Iwata J., Murata S., Tanida I., Ezaki J., Mizushima N., Ohsumi Y., Uchiyama Y., Kominami E., Tanaka K., and Chiba T. Impairment of starvation-induced and constitutive autophagy in Atg7-deficient mice. J. Cell Biol. 169 (2005) 425-434
77. Kirschner L.S., Carney J.A., Pack S.D., Taymans S.E., Giatzakis C., Cho Y.S., Cho-Chung Y.S., and Stratakis C.A. Mutations of the gene encoding the protein kinase A type I-alpha regulatory subunit in patients with the Carney complex. Nat. Genet. 26 (2000) 89-92
78. Cao Y., and Klionsky K.J. Physiological functions of Atg6/Beclin 1: a unique autophagy-related protein. Cell Res. 17 (2007) 839-849
79. Cecconi F., and Levine B. The role of autophagy in mammalian development: cell makeover rather than cell death. Dev. Cell 15 (2008) 344-357
80. Levine B., and Kroemer G. Autophagy in the pathogenesis of disease. Cell 32 (2008) 27-42
81. Hara T., Nakamura K., Matsui M., Yamamoto A., Nakahara Y., Suzuki-Migishima R., Yokoyama M., Mishima K., Saito I., Okano H., and Mizushima N. Suppression of basal autophagy in neural cells causes neurodegenerative disease in mice. Nature 441 (2006) 885-889
82. Komatsu M., Waguri S., Chiba T., Murata S., Iwata J., Tanida I., Ueno T., Koike M., Uchiyama Y., Kominami E., and Tanaka K. Loss of autophagy in the central nervous system causes neurodegeneration in mice. Nature 441 (2006) 880-884
83. Ross C.A., and Poirier M.A. Protein aggregation and neurodegenerative disease. Nat. Med. 10 (2004) S10-17
84. Pandey U.B., Nie Z., Batlevi Y., McCray B.A., Ritson G.P., Nedelsky N.B., Schwartz S.L., DiProspero N.A., Knight M.A., Schuldiner O., Padmanabhan R., Hild M., Berry D.L., Garza D., Hubbert C.C., Yao T.P., Baehrecke E.H., and Taylor J.P. HDAC6 rescues neurodegeneration and provides an essential link between autophagy and the UPS. Nature 447 (2007) 859-863
85. Bjørkøy G., Lamark T., Brech A., Outzen H., Perander M., Overvatn A., Stenmark H., and Johansen T. p62/SQSTM1 forms protein aggregates degraded by autophagy and has a protective effect on huntingtin-induced cell death. J. Cell Biol. 171 (2005) 603-614
86. Bjørkøy G., Lamark T., and Johansen T. p62/SQSTM1: a missing link between protein aggregates and the autophagy machinery. Autophagy 2 (2006) 138-139
87. Pankiv S., Clausen T.H., Lamark T., Brech A., Bruun J.A., Outzen H., Øvervatn A., Bjørkøy G., and Johansen T. p62/SQSTM1 binds directly to Atg8/LC3 to facilitate degradation of ubiquitinated protein aggregates by autophagy. J. Biol. Chem. 282 (2007) 24131-24145
88. Tanaka Y., Guhde G., Suter A., Eskelinen E.L., Hartmann D., Lullmann-Rauch R., Janssen P.M., Blanz J., von Figura K., and Saftig P. Accumulation of autophagic vacuoles and cardiomyopathy in LAMP-2-deficient mice. Nature 406 (2000) 902-906
89. Klionsky D.J., Cuervo A.M., Dunn Jr. W.A., Levine B., van der Klei I.J., and Seglen P.O. How shall I eat thee?. Autophagy 3 (2007) 413-416
90. Amano A., Nakagawa I., and Yoshimori T. Autophagy in innate immunity against intracellular bacteria. J. Biochem. 140 (2006) 161-166
91. Nakagawa I., Amano A., Mizushima N., Yamamoto A., Yamaguchi H., Kamimoto T., Nara A., Funao J., Nakata M., Tsuda K., Hamada S., and Yoshimori T. Autophagy defends cells against invading group A Streptococcus. Science 306 (2004) 1037-1040
92. Vergne I., Singh S., Roberts E., Kyei G., Master S., Harris J., de Haro S., Naylor J., Davis A., Delgado M., and Deretic V. Autophagy in immune defense against Mycobacterium tuberculosis. Autophagy 2 (2006) 175-178
93. Liu Y., Schiff M., Czymmek K., Talloczy Z., Levine B., and Dinesh-Kumar S.P. Autophagy regulates programmed cell death during the plant innate immune response. Cell 121 (2005) 567-577
94. Liang X.H., Kleeman L.K., Jiang H.H., Gordon G., Goldman J.E., Berry G., Herman B., and Levine B. Protection against fatal Sindbis virus encephalitis by beclin, a novel Bcl-2-interacting protein. J. Virol. 72 (1998) 8586-8596
95. Miller S., and Krijnse-Locker J. Modification of intracellular membrane structures for virus replication. Nat. Rev. Microbiol. 6 (2008) 363-374
96. Jackson W.T., Giddings Jr. T.H., Taylor M.P., Mulinyawe S., Rabinovitch M., Kopito R.R., and Kirkegaard K. Subversion of cellular autophagosomal machinery by RNA viruses. PloS Biol. 3 (2005) e156
97. Prentice E., Jerome W.G., Yoshimori T., Mizushima N., and Denison M.R. Coronavirus replication complex formation utilizes components of cellular autophagy. J. Biol. Chem. 279 (2004) 10136-10141
98. Zhao Z., Thackray L.B., Miller B.C., Lynn T.M., Becker M.M., Ward E., Mizushima N.N., Denison M.R., and Virgin H.W. Coronavirus replication does not require the autophagy gene ATG5. Autophagy 3 (2007) 581-585
99. Lee H.K., and Iwasaki A. Autophagy and antiviral immunity. Curr. Opin. Immunol. 20 (2008) 23-29
100. Hampe J., Franke A., Rosenstiel P., Till A., Teuber M., Huse K., Albrecht M., Mayr G., De La Vega F.M., Briggs J., Günther S., Prescott N.J., Onnie C.M., Häsler R., Sipos B., Fölsch U.R., Lengauer T., Platzer M., Mathew C.G., Krawczak M., and Schreiber S. A genome-wide association scan of nonsynonymous SNPs identifies a susceptibility variant for Crohn disease in ATG16L1. Nat. Genet. 39 (2007) 207-211
101. Rioux J.D., Xavier R.J., Taylor K.D., Silverberg M.S., Goyette P., Huett A., Green T., Kuballa P., Barmada M.M., Datta L.W., Shugart Y.Y., Griffiths A.M., Targan S.R., Ippoliti A.F., Bernard E.J., Mei L., Nicolae D.L., Regueiro M., Schumm L.P., Steinhart A.H., Rotter J.I., Duerr R.H., Cho J.H., Daly M.J., and Brant S.R. Genome-wide association study identifies new susceptibility loci for Crohn disease and implicates autophagy in disease pathogenesis. Nat. Genet. 39 (2007) 596-604
102. Zakeri Z., Melendez A., and Lockshin R.A. Detection of autophagy in cell death. Methods Enzymol. 442 (2008) 289-306
103. Orrenius S. Reactive oxygen species in mitochondria-mediated cell death. Drug Metab. Rev. 39 (2007) 443-455
104. Kim E.H., Sohn S., Kwon H.J., Kim S.U., Kim M.J., Lee S.J., and Choi K.S. Sodium selenite induces superoxide-mediated mitochondrial damage and subsequent autophagic cell death in malignant glioma cells. Cancer Res. 67 (2007) 6314-6324
105. Schrader M., and Fahimi H.D. Peroxisomes and oxidative stress. Biochim. Biophys. Acta 1763 (2006) 1755-1766
106. Aksam E.B., Koek A., Kiel J.A., Jourdan S., Veenhuis M., and van der Klei I.J. A peroxisomal lon protease and peroxisome degradation by autophagy play key roles in vitality of Hansenula polymorpha cells. Autophagy 3 (2007) 96-105
107. Kraft C., Deplazes A., Sohrmann M., and Peter M. Mature ribosomes are selectively degraded upon starvation by an autophagy pathway requiring the Ubp3p/Bre5p ubiquitin protease. Nat. Cell Biol. 10 (2008) 602-610
108. Ohsaki Y., Cheng J., Fujita A., Tokumoto T., and Fujimoto T. Cytoplasmic lipid droplets are sites of convergence of proteasomal and autophagic degradation of apolipoprotein. Mol. Biol. Cell 17 (2006) 2674-2683
109. Wang Z., Wilson W.A., Fujino M.A., and Roach P.J. Antagonistic controls of autophagy and glycogen accumulation by Snf1p, the yeast homolog of AMP-Activated protein kinase, and the cyclin-dependent kinase Pho85p. Mol. Cell Biol. 21 (2001) 5742-5752
110. Epple U.D., Suriapranata I., Eskelinen E.L., and Thumm M. Aut5/Cvt17p, a putative lipase essential for disintegration of autophagic bodies inside the vacuole. J. Bacteriol. 183 (2001) 5942-5955
111. Yang Z., and Klionsky D.J. Permeases recycle amino acids resulting from autophagy. Autophagy 3 (2007) 149-150
112. Vargas-Zapata R., Torres-González V., Sepúlveda-Saavedra J., Piñeyro-López A., Rechinger K.B., Keizer-Gunnink I., Kiel J.A., and Veenhuis M. Peroxisomicine A1 (plant toxin-514) affects normal peroxisome assembly in the yeast Hansenula polymorpha. Toxicon 37 (1999) 385-398