A Deubiquitylating complex required for neosynthesis of a yeast mitochondrial ATP synthase subunit

PLoS ONE

Volumn 7, Issue 6, 2012, Pages

  Kanga, Sophie ^a   Bernard, Delphine ^a,d   Mager Heckel, Anne Marie ^c   Erpapazoglou, Zoi ^a,e   Mattiroli, Francesca ^b   Sixma, Titia K ^b   Léon, Sébastien ^a   Urban Grimal, Danièle ^a   Tarassov, Ivan ^c   Haguenauer Tsapis, Rosine ^a  

^a INSTITUT JACQUES MONOD   (France)

^b NETHERLANDS CANCER INSTITUTE   (Netherlands)

^c UNIVERSITÉ DE STRASBOURG   (France)

^d UNIVERSITY OF CAMBRIDGE   (United Kingdom)

^e SORBONNE UNIVERSITÉ   (France)

Author keywords

[No Author keywords available]

Indexed keywords

ADENOSINE TRIPHOSPHATE; BINDING PROTEIN; CYSTEINE PROTEINASE; DUF1 PROTEIN; MESSENGER RNA; MITOCHONDRIAL DNA; PROTON TRANSPORTING ADENOSINE TRIPHOSPHATE SYNTHASE; UBIQUITIN; UBIQUITIN SPECIFIC PROTEASE 13; UBIQUITIN SPECIFIC PROTEASE 9; UNCLASSIFIED DRUG;

ARTICLE; BIOGENESIS; CELL GROWTH; CONTROLLED STUDY; DEUBIQUITINATION; DISORDERS OF MITOCHONDRIAL FUNCTIONS; ENZYME ACTIVITY; ENZYME SUBUNIT; ENZYME SYNTHESIS; GENE DELETION; IN VITRO STUDY; MITOCHONDRION; NONHUMAN; PHENOTYPE; PROTEIN INTERACTION; PROTEIN MODIFICATION; PROTEIN MOTIF; PROTEIN SYNTHESIS; RNA TRANSLATION; TEMPERATURE; YEAST CELL;

ENZYME ACTIVATION; GENE DELETION; GENOTYPE; MITOCHONDRIA; MITOCHONDRIAL PROTON-TRANSLOCATING ATPASES; OXYGEN CONSUMPTION; PROTEIN BINDING; PROTEIN BIOSYNTHESIS; SACCHAROMYCES CEREVISIAE; SACCHAROMYCES CEREVISIAE PROTEINS; UBIQUITINATED PROTEINS; UBIQUITINATION;

EID: 84862570803     PISSN: None     EISSN: 19326203     Source Type: Journal    
DOI: 10.1371/journal.pone.0038071     Document Type: Article

References (53)

1. Kerscher O, Felberbaum R, Hochstrasser M, (2006) Modification of proteins by ubiquitin and ubiquitin-like proteins. Annu Rev Cell Dev Biol 22: 159-180.
2. Amerik AY, Li SJ, Hochstrasser M, (2000) Analysis of the deubiquitinating enzymes of the yeast Saccharomyces cerevisiae. Biol Chem 381: 981-992.
3. Verma R, Aravind L, Oania R, McDonald WH, Yates JR, 3rd, et al (2002) Role of Rpn11 metalloprotease in deubiquitination and degradation by the 26S proteasome. Science 298: 611-615.
4. Ventii KH, Wilkinson KD, et al. (2008) Protein partners of deubiquitinating enzymes. Biochem J 414: 161-175.
5. Livnat-Levanon N, Glickman MH, (2011) Ubiquitin-Proteasome System and mitochondria- Reciprocity. Biochim Biophys Acta 1809: 80-87.
6. Marchenko ND, Wolff S, Erster S, Becker K, Moll UM, (2007) Monoubiquitylation promotes mitochondrial p53 translocation. Embo J 26: 923-934.
7. Zoladek T, Tobiasz A, Vaduva G, Boguta M, Martin NC, et al. (1997) MDP1, a Saccharomyces cerevisiae gene involved in mitochondrial/cytoplasmic protein distribution, is identical to the ubiquitin-protein ligase gene RSP5. Genetics 145: 595-603.
8. Brandina I, Smirnov A, Kolesnikova O, Entelis N, Krasheninnikov IA, et al. (2007) tRNA import into yeast mitochondria is regulated by the ubiquitin-proteasome system. FEBS Lett 581: 4248-4254.
9. Voelker DR, (2003) New perspectives on the regulation of intermembrane glycerophospholipid traffic. J Lipid Res 44: 441-449.
10. Malc E, Dzierzbicki P, Kaniak A, Skoneczna A, Ciesla Z, (2009) Inactivation of the 20S proteasome maturase, Ump1p, leads to the instability of mtDNA in Saccharomyces cerevisiae. Mutat Res 669: 95-103.
11. Fisk HA, Yaffe MP, (1999) A role for ubiquitination in mitochondrial inheritance in Saccharomyces cerevisiae. J Cell Biol 145: 1199-1208.
12. Heo JM, Livnat-Levanon N, Taylor EB, Jones KT, Dephoure N, et al. (2010) A stress-responsive system for mitochondrial protein degradation. Mol Cell 40: 465-480.
13. Azzu V, Brand MD, (2010) Degradation of an intramitochondrial protein by the cytosolic proteasome. J Cell Sci 123: 578-585.
14. Azzu V, Jastroch M, Divakaruni AS, Brand MD, (2010) The regulation and turnover of mitochondrial uncoupling proteins. Biochim Biophys Acta 1797: 785-791.
15. Margineantu DH, Emerson CB, Diaz D, Hockenbery DM, (2007) Hsp90 inhibition decreases mitochondrial protein turnover. PLoS ONE 2: e1066.
16. Escobar-Henriques M, Westermann B, Langer T, (2006) Regulation of mitochondrial fusion by the F-box protein Mdm30 involves proteasome-independent turnover of Fzo1. J Cell Biol 173: 645-650.
17. Cohen MM, Leboucher GP, Livnat-Levanon N, Glickman MH, Weissman AM, (2008) Ubiquitin-Proteasome-dependent Degradation of a Mitofusin, a Critical Regulator of Mitochondrial Fusion. Mol Biol Cell 19: 2457-2464.
18. Li W, Bengtson MH, Ulbrich A, Matsuda A, Reddy VA, et al. (2008) Genome-wide and functional annotation of human E3 ubiquitin ligases identifies MULAN, a mitochondrial E3 that regulates the organelle's dynamics and signaling. PLoS ONE 3: e1487.
19. Yonashiro R, Ishido S, Kyo S, Fukuda T, Goto E, et al. (2006) A novel mitochondrial ubiquitin ligase plays a critical role in mitochondrial dynamics. Embo J 25: 3618-3626.
20. Kinner A, Kolling R, (2003) The yeast deubiquitinating enzyme Ubp16 is anchored to the outer mitochondrial membrane. FEBS Lett 549: 135-140.
21. Nakamura N, Hirose S, (2008) Regulation of Mitochondrial Morphology by USP30, a Deubiquitinating Enzyme Present in the Mitochondrial Outer Membrane. Mol Biol Cell 19: 1903-1911.
22. Velours J, Arselin G, (2000) The Saccharomyces cerevisiae ATP synthase. J Bioenerg Biomembr 32: 383-390.
23. Contamine V, Picard M, (2000) Maintenance and integrity of the mitochondrial genome: a plethora of nuclear genes in the budding yeast. Microbiol Mol Biol Rev 64: 281-315.
24. Swaminathan S, Amerik AY, Hochstrasser M, (1999) The Doa4 deubiquitinating enzyme is required for ubiquitin homeostasis in yeast. Mol Biol Cell 10: 2583-2594.
25. Galan JM, Haguenauer-Tsapis R, (1997) Ubiquitin lys63 is involved in ubiquitination of a yeast plasma membrane protein. Embo J 16: 5847-5854.
26. Papa FR, Hochstrasser M, (1993) The yeast DOA4 gene encodes a deubiquitinating enzyme related to a product of the human tre-2 oncogene. Nature 366: 313-319.
27. Hanna J, Leggett DS, Finley D, (2003) Ubiquitin depletion as a key mediator of toxicity by translational inhibitors. Mol Cell Biol 23: 9251-9261.
28. Henry KW, Wyce A, Lo WS, Duggan LJ, Emre NC, et al. (2003) Transcriptional activation via sequential histone H2B ubiquitylation and deubiquitylation, mediated by SAGA-associated Ubp8. Genes Dev 17: 2648-2663.
29. Kamenski P, Kolesnikova O, Jubenot V, Entelis N, Krasheninnikov IA, et al. (2007) Evidence for an adaptation mechanism of mitochondrial translation via tRNA import from the cytosol. Mol Cell 26: 625-637.
30. Rinaldi T, Ricordy R, Bolotin-Fukuhara M, Frontali L, (2002) Mitochondrial effects of the pleiotropic proteasomal mutation mpr1/rpn11: uncoupling from cell cycle defects in extragenic revertants. Gene 286: 43-51.
31. Collins SR, Kemmeren P, Zhao XC, Greenblatt JF, Spencer F, et al. (2007) Toward a comprehensive atlas of the physical interactome of Saccharomyces cerevisiae. Mol Cell Proteomics 6: 439-450.
32. Krogan NJ, Cagney G, Yu H, Zhong G, Guo X, et al. (2006) Global landscape of protein complexes in the yeast Saccharomyces cerevisiae. Nature 440: 637-643.
33. Cohn MA, Kee Y, Haas W, Gygi SP, D'Andrea AD, (2009) UAF1 is a subunit of multiple deubiquitinating enzyme complexes. J Biol Chem 284: 5343-5351.
34. Cohn MA, Kowal P, Yang K, Haas W, Huang TT, et al. (2007) A UAF1-containing multisubunit protein complex regulates the Fanconi anemia pathway. Mol Cell 28: 786-797.
35. Kouranti I, McLean JR, Feoktistova A, Liang P, Johnson AE, et al. (2010) A global census of fission yeast deubiquitinating enzyme localization and interaction networks reveals distinct compartmentalization profiles and overlapping functions in endocytosis and polarity. PLoS Biol 8: pii.
36. Huh WK, Falvo JV, Gerke LC, Carroll AS, Howson RW, et al. (2003) Global analysis of protein localization in budding yeast. Nature 425: 686-691.
37. De Deken RH, (1966) The Crabtree effect: a regulatory system in yeast. J Gen Microbiol 44: 149-156.
38. Hadikusumo RG, Meltzer S, Choo WM, Jean-Francois MJ, Linnane AW, et al. (1988) The definition of mitochondrial H+ ATPase assembly defects in mit- mutants of Saccharomyces cerevisiae with a monoclonal antibody to the enzyme complex as an assembly probe. Biochim Biophys Acta 933: 212-222.
39. Rak M, Zeng X, Briere JJ, Tzagoloff A, (2009) Assembly of F0 in Saccharomyces cerevisiae. Biochim Biophys Acta 1793: 108-116.
40. Sowa ME, Bennett EJ, Gygi SP, Harper JW, (2009) Defining the human deubiquitinating enzyme interaction landscape. Cell 138: 389-403.
41. Lockington RA, Kelly JM, (2001) Carbon catabolite repression in Aspergillus nidulans involves deubiquitination. Mol Microbiol 40: 1311-1321.
42. Lockington RA, Kelly JM, (2002) The WD40-repeat protein CreC interacts with and stabilizes the deubiquitinating enzyme CreB in vivo in Aspergillus nidulans. Mol Microbiol 43: 1173-1182.
43. Kee Y, Yang K, Cohn MA, Haas W, Gygi SP, et al. (2010) WDR20 regulates activity of the USP12/UAF1 deubiquitinating enzyme complex. J Biol Chem 285: 11252-11257.
44. Pashkova N, Gakhar L, Winistorfer SC, Yu L, Ramaswamy S, et al. (2011) WD40 repeat propellers define a ubiquitin-binding domain that regulates turnover of F box proteins. Mol Cell 40: 433-443.
45. Richter-Ruoff B, Wolf DH, Hochstrasser M, (1994) Degradation of the yeast MAT alpha 2 transcriptional regulator is mediated by the proteasome. FEBS Lett 354: 50-52.
46. Janke C, Magiera MM, Rathfelder N, Taxis C, Reber S, et al. (2004) A versatile toolbox for PCR-based tagging of yeast genes: new fluorescent proteins, more markers and promoter substitution cassettes. Yeast 21: 947-962.
47. Longtine MS, McKenzie A, 3rd, Demarini DJ, Shah NG, Wach A, et al (1998) Additional modules for versatile and economical PCR-based gene deletion and modification in Saccharomyces cerevisiae. Yeast 14: 953-961.
48. Gietz D, St Jean A, Woods RA, Schiestl RH, et al. (1992) Improved method for high efficiency transformation of intact yeast cells. Nucleic Acids Res 20: 1425.
49. Voth WP, Jiang YW, Stillman DJ, (2003) New 'marker swap' plasmids for converting selectable markers on budding yeast gene disruptions and plasmids. Yeast 20: 985-993.
50. Hochstrasser M, (1996) Ubiquitin-dependent protein degradation. Annu Rev Genet 30: 405-439.
51. Blaiseau PL, Lesuisse E, Camadro JM, (2001) Aft2p, a novel iron-regulated transcription activator that modulates, with Aft1p, intracellular iron use and resistance to oxidative stress in yeast. J Biol Chem 276: 34221-34226.
52. Volland C, Urban-Grimal D, Geraud G, Haguenauer-Tsapis R, (1994) Endocytosis and degradation of the yeast uracil permease under adverse conditions. J Biol Chem 269: 9833-9841.
53. Barrientos A, Korr D, Tzagoloff A, (2002) Shy1p is necessary for full expression of mitochondrial COX1 in the yeast model of Leigh's syndrome. Embo J 21: 43-52.