Impairing the microRNA biogenesis pathway induces proteome modifications characterized by size bias and enrichment in antioxidant proteins

Proteomics

Volumn 12, Issue 14, 2012, Pages 2295-2302

  Peric, Delphine ^a   Labarre, Jean ^b   Chevalier, François ^a   Rousselet, Germain ^a  

^a INSTITUT DE RADIOPROTECTION ET DE SÛRETÉ NUCLÉAIRE   (France)

^b SERVICE DE CHIMIE BIOORGANIQUE ET DE MARQUAGE   (France)

Author keywords

Cell biology; Drosha; Microprocessor; Proteostasis; Stress

Indexed keywords

BILIVERDIN REDUCTASE; HEAT SHOCK PROTEIN 27; ISOCITRATE DEHYDROGENASE 1; MICRORNA; OXIDOREDUCTASE; PEROXIREDOXIN 1; PEROXIREDOXIN 3; PROTEOME; RIBONUCLEASE; UNCLASSIFIED DRUG;

ARTICLE; BIOGENESIS; CELL CYCLE ARREST; CELL STRAIN HCT116; CELL STRAIN MCF 7; LIQUID CHROMATOGRAPHY; MAMMAL CELL; MASS SPECTROMETRY; MATRIX ASSISTED LASER DESORPTION IONIZATION TIME OF FLIGHT MASS SPECTROMETRY; MOLECULAR WEIGHT; OXIDATIVE STRESS; PRIORITY JOURNAL; PROTEIN EXPRESSION; PROTEIN FOLDING; PROTEIN FUNCTION; PROTEIN MODIFICATION; PROTEIN STRUCTURE; SACCHAROMYCES CEREVISIAE; SIGNAL TRANSDUCTION;

ANTIOXIDANTS; CELL CYCLE CHECKPOINTS; ELECTROPHORESIS, GEL, TWO-DIMENSIONAL; HCT116 CELLS; HOMEOSTASIS; HUMANS; HYDROGEN PEROXIDE; MCF-7 CELLS; MICRORNAS; OXIDATIVE STRESS; PROTEINS; PROTEOME; RIBONUCLEASE III; RNA, SMALL INTERFERING; SACCHAROMYCES CEREVISIAE; SIGNAL TRANSDUCTION;

MAMMALIA; SACCHAROMYCES CEREVISIAE;

EID: 84864564550     PISSN: 16159853     EISSN: 16159861     Source Type: Journal    
DOI: 10.1002/pmic.201100461     Document Type: Article

References (32)

1. Bartel, D. P., MicroRNAs: target recognition and regulatory functions. Cell 2009, 136, 215-233.
2. Kim, V. N., Han, J., Siomi, M. C., Biogenesis of small RNAs in animals. Nat. Rev. Mol. Cell Biol. 2009, 10, 126-139.
3. Guo, H., Ingolia, N. T., Weissman, J. S., Bartel, D. P., Mammalian microRNAs predominantly act to decrease target mRNA levels. Nature 2010, 466, 835-840.
4. Ivey, K. N., Srivastava, D., MicroRNAs as regulators of differentiation and cell fate decisions. Cell Stem Cell 2010, 7, 36-41.
5. Lu, J., Getz, G., Miska, E. A., Alvarez-Saavedra, E. et al., MicroRNA expression profiles classify human cancers. Nature 2005, 435, 834-838.
6. He, L., Thomson, J. M., Hemann, M. T., Hernando-Monge, E. et al., A microRNA polycistron as a potential human oncogene. Nature 2005, 435, 828-833.
7. Mayr, C., Hemann, M. T., Bartel, D. P., Disrupting the pairing between let-7 and Hmga2 enhances oncogenic transformation. Science 2007, 315, 1576-1579.
8. Welch, C., Chen, Y., Stallings, R. L., MicroRNA-34a functions as a potential tumor suppressor by inducing apoptosis in neuroblastoma cells. Oncogene 2007, 26, 5017-5022.
9. Wang, Y., Baskerville, S., Shenoy, A., Babiarz, J. E. et al., Embryonic stem cell-specific microRNAs regulate the G1-S transition and promote rapid proliferation. Nat. Genet. 2008, 40, 1478-1483.
10. Peric, D., Chvalova, K., Rousselet, G., Identification of microprocessor-dependent cancer cells allows screening for growth-sustaining micro-RNAs. Oncogene 2011, 31, 2039-2048.
11. Kumar, M. S., Lu, J., Mercer, K. L., Golub, T. R. et al., Impaired microRNA processing enhances cellular transformation and tumorigenesis. Nat. Genet. 2007, 39, 673-677.
12. Bradford, M. M., A rapid and sensitive method for the quantitation of microgram quantities of protein utilizing the principle of protein-dye binding. Anal. Biochem. 1976, 72, 248-254.
13. Chevalier, F., Highlights on the capacities of "Gel-based" proteomics. Proteome. Sci. 2010, 8, doi: 10.1186/1477-5956-8-23.
14. Chevalier, F., Centeno, D., Rofidal, V., Tauzin, M. et al., Different impact of staining procedures using visible stains and fluorescent dyes for large-scale investigation of proteomes by MALDI-TOF mass spectrometry. J. Proteome. Res. 2006, 5, 512-520.
15. Chevalier, F., Hirtz, C., Sommerer, N., Kelly, A. L., Use of reducing/nonreducing two-dimensional electrophoresis for the study of disulfide-mediated interactions between proteins in raw and heated bovine milk. J. Agric. Food Chem. 2009, 57, 5948-5955.
16. Chevalier, F., Rofidal, V., Rossignol, M., Visible and fluorescent staining of two-dimensional gels. Methods Mol. Biol. 2007, 355, 145-156.
17. Vilaprinyo, E., Alves, R., Sorribas, A., Minimization of biosynthetic costs in adaptive gene expression responses of yeast to environmental changes. PLoS Comput. Biol. 2010, 6, e1000674.
18. Godon, C., Lagniel, G., Lee, J., Buhler, J. M. et al., The H2O2 stimulon in Saccharomyces cerevisiae. J. Biol. Chem. 1998, 273, 22480-22489.
19. Hall, A., Karplus, P. A., Poole, L. B., Typical 2-Cys peroxiredoxins - structures, mechanisms and functions. FEBS J. 2009, 276, 2469-2477.
20. Baranano, D. E., Rao, M., Ferris, C. D., Snyder, S. H., Biliverdin reductase: a major physiologic cytoprotectant. Proc. Natl. Acad. Sci. USA 2002, 99, 16093-16098.
21. Reitman, Z. J., Yan, H., Isocitrate dehydrogenase 1 and 2 mutations in cancer: alterations at a crossroads of cellular metabolism. J. Natl. Cancer Inst. 2010, 102, 932-941.
22. Arrigo, A. P., Virot, S., Chaufour, S., Firdaus, W. et al., Hsp27 consolidates intracellular redox homeostasis by upholding glutathione in its reduced form and by decreasing iron intracellular levels. Antioxid. Redox Signal. 2005, 7, 414-422.
23. 2. J. Biol. Chem. 2004, 279, 31157-31163.
24. Kondrashov, F. A., Ogurtsov, A. Y., Kondrashov, A. S., Bioinformatical assay of human gene morbidity. Nucleic Acids Res. 2004, 32, 1731-1737.
25. Eisenberg, E., Levanon, E. Y., Human housekeeping genes are compact. Trends Genet. 2003, 19, 362-365.
26. Brocchieri, L., Karlin, S., Protein length in eukaryotic and prokaryotic proteomes. Nucleic Acids Res. 2005, 33, 3390-3400.
27. Warringer, J., Blomberg, A., Evolutionary constraints on yeast protein size. BMC Evol. Biol. 2006, 6, doi:10.1186/1471-2148-6-61.
28. Russell, J. B., Cook, G. M., Energetics of bacterial growth: balance of anabolic and catabolic reactions. Microbiol. Rev. 1995, 59, 48-62.
29. Roth, D. M., Balch, W. E., Modeling general proteostasis: proteome balance in health and disease. Curr. Opin. Cell Biol. 2011, 23, 126-134.
30. Faller, M., Matsunaga, M., Yin, S., Loo, J. A. et al., Heme is involved in microRNA processing. Nat. Struct. Mol. Biol. 2007, 14, 23-29.
31. Barr, I., Smith, A. T., Senturia, R., Chen, Y. et al., DiGeorge critical region 8 (DGCR8) is a double-cysteine-ligated heme protein. J. Biol. Chem. 2011, 286, 16716-16725.
32. Richert, S., Luche, S., Chevallet, M., Van Dorsselaer, A. et al., About the mechanism of interference of silver staining with peptide mass spectrometry. Proteomics 2004, 4, 909-916.