Expression profiling of attenuated mitochondrial function identifies retrograde signals in drosophila

G3: Genes, Genomes, Genetics

Volumn 2, Issue 8, 2012, Pages 843-851

  Freije, William A ^a,b   Mandal, Sudip ^a,c   Banerjee, Utpal ^a  

^a UNIVERSITY OF CALIFORNIA   (United States)

^b UNIVERSITY OF CALIFORNIA   (United States)

^c INDIAN INSTITUTE OF SCIENCE EDUCATION AND RESEARCH MOHALI   (India)

Author keywords

Cytochrome oxidase va; Electron transport; Glycolysis; Lactate; Microarray

Indexed keywords

CYTOCHROME C OXIDASE; DROSOPHILA PROTEIN; HYPOXIA INDUCIBLE FACTOR 1ALPHA; INSULIN; PROTEIN P53;

ANIMAL; ARTICLE; CELL CULTURE; DROSOPHILA MELANOGASTER; DRUG ANTAGONISM; ENERGY METABOLISM; GENE EXPRESSION PROFILING; GENE EXPRESSION REGULATION; GENETICS; GLYCOLYSIS; METABOLISM; MITOCHONDRION; PROTEIN SUBUNIT; RNA INTERFERENCE; SIGNAL TRANSDUCTION; UPREGULATION;

ANIMALS; CELLS, CULTURED; DROSOPHILA MELANOGASTER; DROSOPHILA PROTEINS; ELECTRON TRANSPORT COMPLEX IV; ENERGY METABOLISM; GENE EXPRESSION PROFILING; GENE EXPRESSION REGULATION; GLYCOLYSIS; HYPOXIA-INDUCIBLE FACTOR 1, ALPHA SUBUNIT; INSULIN; MITOCHONDRIA; PROTEIN SUBUNITS; RNA INTERFERENCE; SIGNAL TRANSDUCTION; TUMOR SUPPRESSOR PROTEIN P53; UP-REGULATION;

EID: 84883406411     PISSN: None     EISSN: 21601836     Source Type: Journal    
DOI: 10.1534/g3.112.002584     Document Type: Article

References (41)

1. Akdemir, F., A. Christich, N. Sogame, J. Chapo, and J. M. Abrams, 2007 p53 directs focused genomic responses in Drosophila. Oncogene 26: 5184-5193.
2. Altschul, S. F., W. Gish, W. Miller, E. W. Myers, and D. J. Lipman, 1990 Basic local alignment search tool. J. Mol. Biol. 215: 403-410.
3. Beckstead, R. B., G. Lam, and C. S. Thummel, 2005 The genomic response to 20-hydroxyecdysone at the onset of Drosophila metamorphosis. Genome Biol. 6: R99.
4. Biswas, G., O. A. Adebanjo, B. D. Freedman, H. K. Anandatheerthavarada, C. Vijayasarathy et al., 1999 Retrograde Ca2+ signaling in C2C12 skeletal myocytes in response to mitochondrial genetic and metabolic stress: a novel mode of inter-organelle crosstalk. EMBO J. 18: 522-533.
5. Bruick, R. K., and S. L. McKnight, 2001 A conserved family of Prolyl-4-Hydroxylases that modify HIF. Science 294: 1337-1340.
6. Butow, R. A., and N. G. Avadhani, 2004 Mitochondrial signaling: the retrograde response. Mol. Cell 14: 1-15.
7. Chandel, N. S., D. S. McClintock, C. E. Feliciano, T. M. Wood, J. A. Melendez et al., 2000 Reactive oxygen species generated at mitochondrial complex III stabilize hypoxia-inducible factor-1alpha during hypoxia: a mechanism of O2 sensing. J. Biol. Chem. 275: 25130-25138.
8. Chew, G. K., and D. W. Cooper, 1973 Phosphoglycerate kinas polymorphism in Drosophila. Biochem. Genet. 8: 267-270.
9. Chua, Y. L., E. Dufour, E. P. Dassa, P. Rustin, H. T. Jacobs et al., 2010 Stabilization of hypoxia-inducible factor-1alpha protein in hypoxia occurs independently of mitochondrial reactive oxygen species production. J. Biol. Chem. 285: 31277-31284.
10. DiMauro, S., and E. A. Schon, 2003 Mitochondrial respiratory-chain diseases. N. Engl. J. Med. 348: 2656-2668.
11. Dixon, D. P., P. G. Steel, and R. Edwards, 2011 Roles for glutathione transferases in antioxidant recycling. Plant Signal. Behav. 6: 1223-1227.
12. Dubrovsky, E. B., V. A. Dubrovskaya, A. L. Bilderback, and E. M. Berger, 2000 The isolation of two juvenile hormone-inducible genes in Drosophila melanogaster. Dev. Biol. 224: 486-495.
13. Fernandez-Ayala, D. J., S. Chen, E. Kemppainen, K. M. O'Dell, and H. T. Jacobs, 2010 Gene expression in a Drosophila model of mitochondrial disease. PLoS ONE 5: e8549.
14. Fukuda, R., H. Zhang, J. W. Kim, L. Shimoda, C. V. Dang et al., 2007 HIF-1 regulates cytochrome oxidase subunits to optimize efficiency of respiration in hypoxic cells. Cell 129: 111-122.
15. Garesse, R., and L. S. Kaguni, 2005 A Drosophila model of mitochondrial DNA replication: proteins, genes and regulation. IUBMB Life 57: 555-561.
16. Gruenewald, C., J. A. Botella, F. Bayersdorfer, J. A. Navarro, and S. Schneuwly, 2009 Hyperoxia-induced neurodegeneration as a tool to identify neuroprotective genes in Drosophila melanogaster. Free Radic. Biol. Med. 46: 1668-1676.
17. Huang da, W., B. T. Sherman, and R. A. Lempicki, 2009 Systematic and integrative analysis of large gene lists using DAVID bioinformatics resources. Nat. Protoc. 4: 44-57.
18. Iacopetta, D., C. Carrisi, G. De Filippis, V. M. Calcagnile, A. R. Cappello et al., 2010 The biochemical properties of the mitochondrial thiamine pyrophosphate carrier from Drosophila melanogaster. FEBS J. 277: 1172-1181.
19. Junger, M. A., F. Rintelen, H. Stocker, J. D. Wasserman, M. Vegh et al., 2003 The Drosophila Forkhead transcription factor FOXO mediates the reduction in cell number associated with reduced insulin signaling. J. Biol. 2: 20.
20. Kulawiec, M., H. Arnouk, M. M. Desouki, L. Kazim, I. Still et al., 2006 Proteomic analysis of mitochondria-to-nucleus retrograde response in human cancer. Cancer Biol. Ther. 5: 967-975.
21. Li, H. M., G. Buczkowski, O. Mittapalli, J. Xie, J. Wu et al., 2008 Transcriptomic profiles of Drosophila melanogaster third instar larval midgut and responses to oxidative stress. Insect Mol. Biol. 17: 325-339.
22. Liao, T. S., G. B. Call, P. Guptan, A. Cespedes, J. Marshall et al., 2006 An efficient genetic screen in Drosophila to identify nuclear-encoded genes with mitochondrial function. Genetics 174: 525-533.
23. Lindsay, M. E., K. Plafker, A. E. Smith, B. E. Clurman, and I. G. Macara, 2002 Npap60/Nup50 is a tri-stable switch that stimulates importinalpha: beta-mediated nuclear protein import. Cell 110: 349-360.
24. Liu, Z., and R. A. Butow, 2006 Mitochondrial retrograde signaling. Annu. Rev. Genet. 40: 159-185.
25. Livak, K. J., and T. D. Schmittgen, 2001 Analysis of relative gene expression data using real-time quantitative PCR and the 2(-Delta Delta C(T)). Method. Methods 25: 402-408.
26. Maellaro, E., S. Dominici, B. Del Bello, M. A. Valentini, L. Pieri et al., 2000 Membrane gamma-glutamyl transpeptidase activity of melanoma cells: effects on cellular H(2)O(2) production, cell surface protein thiol oxidation and NF-kappa B activation status. J. Cell Sci. 113: 2671-2678.
27. Mandal, S., P. Guptan, E. Owusu-Ansah, and U. Banerjee, 2005 Mitochondrial regulation of cell cycle progression during development as revealed by the tenured mutation in Drosophila. Dev. Cell 9: 843-854.
28. Mandal, S., W. A. Freije, P. Guptan, and U. Banerjee, 2010 Metabolic control of G1-S transition: cyclin E degradation by p53-induced activation of the ubiquitin-proteasome system. J. Cell Biol. 188: 473-479.
29. Mandal, S., A. G. Lindgren, A. S. Srivastava, A. T. Clark, and U. Banerjee, 2011 Mitochondrial function controls proliferation and early differentiation potential of embryonic stem cells. Stem Cells 29: 486-495.
30. Ott, M., E. Norberg, B. Zhivotovsky, and S. Orrenius, 2009 Mitochondrial targeting of tBid/Bax: a role for the TOM complex. [quest] Cell Death Differ. 16: 1075-1082.
31. Pile, L. A., P. T. Spellman, R. J. Katzenberger, and D. A. Wassarman, 2003 The SIN3 deacetylase complex represses genes encoding mitochondrial proteins: implications for the regulation of energy metabolism. J. Biol. Chem. 278: 37840-37848.
32. Palli, S. R., 2009 Recent advances in the mode of action of juvenile hormones and their analogs, pp. 111-129 in Biorational Control of Arthropod Pests, edited by I. Ishaaya and A. R. Horowitz. Springer, Dordrecht, The Netherlands.
33. Roselli-Rehfuss, L., F. Ye, J. L. Lissemore, and D. T. Sullivan, 1992 Structure and expression of the phosphoglycerate kinase (Pgk) gene of Drosophila melanogaster. Mol. Gen. Genet. 235: 213-220.
34. Ryu, J. H., S. H. Li, H. S. Park, J. W. Park, B. Lee et al., 2011 Hypoxiainducible factor alpha subunit stabilization by NEDD8 conjugation is reactive oxygen species-dependent. J. Biol. Chem. 286: 6963-6970.
35. Semenza, G. L., P. H. Roth, H. M. Fang, and G. L. Wang, 1994 Transcriptional regulation of genes encoding glycolytic enzymes by hypoxia-inducible factor 1. J. Biol. Chem. 269: 23757-23763.
36. Sheehan, D., G. Meade, V. M. Foley, and C. A. Dowd, 2001 Structure, function and evolution of glutathione transferases: implications for classification of non-mammalian members of an ancient enzyme superfamily. Biochem. J. 360: 1-16.
37. Simon, E. W., 1953 Dinitrocresol, cyanide, and the pasteur effect in yeast. J. Exp. Bot. 4: 393-402.
38. Thirunavukkarasu, C., L. F. Wang, S. A. Harvey, S. C. Watkins, J. R. Chaillet et al., 2008 Augmenter of liver regeneration: an important intracellular survival factor for hepatocytes. J. Hepatol. 48: 578-588.
39. Todd, L. R., M. N. Damin, R. Gomathinayagam, S. R. Horn, A. R. Means et al., 2010 Growth factor erv1-like modulates Drp1 to preserve mitochondrial dynamics and function in mouse embryonic stem cells. Mol. Biol. Cell 21: 1225-1236.
40. Wilkerson, D. C., and U. Sankar, 2011 Mitochondria: a sulfhydryl oxidase and fission GTPase connect mitochondrial dynamics with pluripotency in embryonic stem cells. Int. J. Biochem. Cell Biol. 43: 1252-1256.
41. Yang, J., M. Zhang, and J. Yu, 2008 Mitochondrial retrograde regulation tuning fork in nuclear genes expressions of higher plants. J. Genet. Genomics 35: 65-71.