Initial proteome analysis of caffeine-induced proteins in Aspergillus tamarii using two-dimensional fluorescence difference gel electrophoresis

Applied Biochemistry and Biotechnology

Volumn 166, Issue 8, 2012, Pages 2064-2077

  Gutiérrez Sánchez, Gerardo ^a,b   Atwood, James ^b   Kolli, V S Kumar ^c   Roussos, Sévastianos ^a   Augur, Christopher ^a,b  

^a INSTITUT DE RECHERCHE POUR LE DÉVELOPPEMENT   (France)

^b UNIVERSITY OF GEORGIA   (United States)

^c WINDBER RESEARCH INSTITUTE   (United States)

Author keywords

Caffeine degradation; Difference gel electrophoresis; Filamentous fungi; Mass spectrometry; Proteomics; Two dimensional electrophoresis

Indexed keywords

AMMONIUM SULFATE; CULTURE MEDIA; DATABASE SEARCHES; DEGRADATION PATHWAYS; FILAMENTOUS FUNGI; GEL ELECTROPHORESIS; HEAT SHOCK PROTEIN; MALATE DEHYDROGENASE; NITROGEN SOURCES; PHOSPHOGLYCERATE KINASE; PROTEOME ANALYSIS; PROTEOMICS; STRESS PROTEIN; STRESS RESPONSE; SUPEROXIDASE DISMUTASE; TWO DIMENSIONAL ELECTROPHORESIS; TWO-DIMENSIONAL GEL ELECTROPHORESIS; XANTHINE DEHYDROGENASE;

ASPERGILLUS; DEGRADATION; ELECTROPHORESIS; FLUORESCENCE; MASS SPECTROMETRY; MOLECULAR BIOLOGY; SEARCH ENGINES; TWO DIMENSIONAL;

PROTEINS;

AMMONIUM SULFATE; CAFFEINE; COPPER ZINC SUPEROXIDE DISMUTASE; FUNGAL PROTEIN; HEAT SHOCK PROTEIN; MALATE DEHYDROGENASE; NITROGEN; PEROXIDASE; PHOSPHOGLYCERATE KINASE; XANTHINE DEHYDROGENASE;

ARTICLE; ASPERGILLUS; ASPERGILLUS TAMARII; FUNGUS GROWTH; MASS SPECTROMETRY; NONHUMAN; PROTEIN DETERMINATION; PROTEOMICS; TWO DIMENSIONAL DIFFERENCE GEL ELECTROPHORESIS; UPREGULATION;

ASPERGILLUS; CAFFEINE; DOWN-REGULATION; FUNGAL PROTEINS; GENE EXPRESSION REGULATION, FUNGAL; INTRACELLULAR SPACE; MASS SPECTROMETRY; PROTEOMICS; QUATERNARY AMMONIUM COMPOUNDS; SPECTROMETRY, FLUORESCENCE; TWO-DIMENSIONAL DIFFERENCE GEL ELECTROPHORESIS; UP-REGULATION;

ASPERGILLUS TAMARII; FUNGI;

EID: 84860835889     PISSN: 02732289     EISSN: 15590291     Source Type: Journal    
DOI: 10.1007/s12010-012-9634-7     Document Type: Article

References (40)

1. Brand, D., Pandey, A., Roussos, S., & Soccol, C. R. (2000). Biological detoxification of coffee husk by filamentous fungi using a solid state fermentation system. Enzyme and Microbial Technology, 27, 127-133. (Pubitemid 30345497)
2. Bressani, R. (1979). Antiphysiological factors in coffee pulp. In J. E. Braham & R. Bressani (Eds.), Chemical composition of coffee-berry by-products (pp. 83-95). Ottawa: INDRC.
3. Cabezas, M. T., Estrada, E., Murillo, B., Gonzalez, J. M., & Brezan, R. (1976). Coffee hulls and pulp. XII. Effect of storage of coffee pulp on its nutritive value for calves. Archivos Latinoamericanos de Nutricion, 26, 203-215. (Pubitemid 8058155)
4. Denis, S. (1996). Université de Montpellier, Montpellier, France.
5. Droge,W. (2002). Free radicals in the physiological control of cell function. Physiological Reviews, 82, 47-95. (Pubitemid 34654215)
6. Drori, N., Kramer-Haimovich, H., Rollins, J., Dinoor, A., Okon, Y., Pines, O., et al. (2003). External pH and nitrogen source affect secretion of pectate lyase by Colletotrichum gloeosporioides. Applied and Environmental Microbiology, 69, 3258-3262. (Pubitemid 36693329)
7. Freitag, D. G., Ouimet, P. M., Girvitz, T. L., & Kapoor, M. (1997). Heat shock protein 80 of Neurospora crassa, a cytosolic molecular chaperone of the eukaryotic stress 90 family, interacts directly with heat shock protein 70. Biochemistry, 36, 10221-10229. (Pubitemid 27357733)
8. Gomez-Brenes, R. A., Bendana, G., Gonzalez, J. M., Braham, J. E., & Bressani, R. (1985). Relationship between the included levels of coffee pulp and the protein content in rations for monogastric animals. Archivos Latinoamericanos de Nutricion, 35, 422-437. (Pubitemid 16182399)
9. Gonzalez-Candelas, L., & Kolattukudy, P. E. (1992). Isolation and analysis of a novel inducible pectate lyase gene from the phytopathogenic fungus Fusarium solani f. sp. pisi (Nectria haematococca, mating population VI). Journal of Bacteriology, 174, 6343-6349.
10. Gutierrez-Sanchez, G. (2004). Université de Provence, Provence, France.
11. Gutierrez-Sanchez, G., Roussos, S., & Augur, C. (2004). Effect of the nitrogen source on caffeine degradation by Aspergillus tamarii. Letters in Applied Microbiology, 38, 50-55. (Pubitemid 38174908)
12. Hakil, M. (1999). Université de Franche-Comté, Franche-Comté, France.
13. Hakil,M., Denis, S., Viniegra-González, G., & Augur, C. (1998). Degradation and product analysis of caffeine and related dimethylxanthines by filamentous fungi. Enzyme and Microbial Technology, 22, 355-359. (Pubitemid 28177061)
14. Hakil, M., Voisinet, F., Viniegra-González, G., & Augur, C. (1999). Caffeine degradation in solid state fermentation by Aspergillus tamarii: effects of additional nitrogen sources. Process Biochemistry, 35, 103-109. (Pubitemid 29513197)
15. Hernandez-Macedo, M. L., Ferraz, A., Rodriguez, J., Ottoboni, L. M. M., & De Mello, M. P. (2002). Ironregulated proteins in Phanerochaete chrysosporium and Lentinula edodes: differential analysis by sodium dodecyl sulfate polyacrylamide gel electrophoresis and two-dimensional polyacrylamide gel electrophoresis profiles. Electrophoresis, 23, 655-661. (Pubitemid 34232968)
16. Holdom, M. D., Hay, R. J., & Hamilton, A. J. (1996). The Cu, Zn superoxide dismutases of Aspergillus flavus, Aspergillus niger, Aspergillus terreus: purification and biochemical comparison with the Aspergillus fumigatus Cu, Zn superoxide dismutase. Infection and Immunity, 64, 3326-3332. (Pubitemid 26256183)
17. Hu, Y., Wang, G., Chen, G. Y. J., Fu, X., & Yao, S. Q. (2003). Proteome analysis of Saccharomyces cerevisiae under metal stress by two-dimensional differential gel electrophoresis. Electrophoresis, 24, 1458-1470. (Pubitemid 38088930)
18. Ina, K. (1971). Biochemical studies of caffeine - degradation of caffeine by mold. Agricultural and Biological Chemistry, 35, A32-A35.
19. Kernec, F., Ünlü, M., Labeikovsky, W., Minden, J. S., & Koretsky, A. P. (2001). Changes in the mitochondrial proteome from mouse hearts deficient in creatine kinase. Physiological Genomics, 6, 117-128. (Pubitemid 33676480)
20. Lawrence, J. C., Jr., & Salsgiver, W. J. (1984). Evidence that levels of malate dehydrogenase and fumarase are increased by cAMP in rat myotubes. American Journal of Physiology, 247, C33-C38. (Pubitemid 14096107)
21. Ma, B., Zhang, K., Hendrie, C., Liang, C., Li, M., Doherty-Kirby, A., et al. (2003). PEAKS: powerful software for peptide de novo sequencing by tandem mass spectrometry. Rapid Communications in Mass Spectrometry, 17, 2337-2342. (Pubitemid 37243319)
22. Mukhopadhyay, S., Mondal, A., & Poddar, M. K. (2003). Chronic administration of caffeine: effect on the activities of hepatic antioxidant enzymes of Ehrlich ascites tumor-bearing mice. Indian Journal of Experimental Biology, 41, 283-289. (Pubitemid 36405509)
23. O'Farrell, P. H. (1975). High resolution two-dimensional electrophoresis of proteins. Journal of Biological Chemistry, 250, 4007-4021.
24. Oberegger, H., Zadra, I., Schoeser, M., & Haas, H. (2000). Iron starvation leads to increased expression of Cu/Zn - superoxide dismutase in Aspergillus. FEBS Letters, 485, 113-116.
25. Park, S. G., Cha, M. K., Jeong, W., & Kim, I. H. (2000). Distinct physiological functions of thiol peroxidase isoenzymes in Saccharomyces cerevisiae. Journal of Biological Chemistry, 275, 5723-5732. (Pubitemid 30115214)
26. Piper, P. W., Curran, B., Davies, M. W., Hirst, K., Lockheart, A., & Seward, K. (1988). Catabolite control of the elevation of PGK mRNA levels by heat shock in Saccharomyces cerevisiae. Molecular Microbiology, 2, 353-361.
27. Plesofsky-Vig, N., & Brambl, R. (1990). Gene sequence and analysis of hsp30, a small heat shock protein of Neurospora crassa which associates with mitochondria. Journal of Biological Chemistry, 265, 15432-15440.
28. Roussos, S., Aquiahuatl, M. D., Trejo Hernandez, M. D., Perraud, I. G., Favela, E., Ramakrishna, M., et al. (1995). Biotechnological management of coffee pulp - isolation, screening characterization, selection of caffeine degrading fungi and natural microflora present in coffee pulp and husk. Applied Microbiology and Biotechnology, 42, 756-762.
29. Roussos, S., Hannibal, L., Aquiahuatl, M. A., Hernandez, M. R. T., & Marakis, S. (1994). Caffeine degradation by Penicillium verrucosum in solid-state fermentation of coffee pulp - critical effect of additional inorganic and organic nitrogen sources. Journal of Food Science and Technology Mys, 31, 316-319.
30. Sakai, J., Ishikawa, H., Kojima, S., Satoh, H., Yamamoto, S., & Kanaoka, M. (2003). Proteomic analysis of rat heart in ischemia and ischemia reperfusion using fluorescence two-dimensional difference gel electrophoresis. Proteomics, 3, 1318-1324. (Pubitemid 36929554)
31. Schwimmer, S., Kurtzman, J. R. H., & Heftmann, E. (1971). Caffeine metabolism by Penicillium roqueforti. Arch Biochem Biophys, 147, 109-113.
32. Skynner, H. A., Rosahl, T. W., Knowles, M. R., Salim, K., Reid, L., Cothliff, R., et al. (2002). Alterations of stress related proteins in genetically altered mice revealed by two-dimensional differential in-gel electrophoresis analysis. Proteomics, 2, 1018-1025.
33. Tagliari, C. V., Sanson, R. K., Zanette, A., Franco, T. T., & Soccol, C. R. (2003). Caffeine degradation by Rhizopus delemar in packed bed column bioreactor using coffee husk as substrate. Brazilian Journal of Microbiology, 34, 102-104. (Pubitemid 40747463)
34. Tonge, R., Shaw, J., Middleton, B., Rowlinson, R., Rayner, S., Young, J., et al. (2001). Validation and development of fluorescence two-dimensional differential gel electrophoresis proteomics technology. Proteomics, 1, 377-396. (Pubitemid 33585112)
35. Tortora, P., Burlini, N., Hanozet, G. M., & Guerritore, A. (1982). Effect of caffeine on glucose-indused inactivation of gluconeogenetic enzymes in Saccharomyces cerevisiae. A possible role of cyclic AMP. European Journal of Biochemistry, 126, 617-622. (Pubitemid 13241567)
36. Ünlü, M., Morgan, M. E., & Minden, J. S. (1997). Difference gel electrophoresis: a single gel method for detecting changes in proteinextracts. Electrophoresis, 18, 2071-2077. (Pubitemid 27501267)
37. Van den Bergh, G., Clerens, S., & Arckens, L. (2003). Reversed-phase high-performance liquid chromatography prefractionation prior to two-dimensional difference gel eletrophoresis and mass spectrometry identifies new differentially expressed proteins between striate cortex of kitten and adult cat. Electrophoresis, 24, 1471-1481. (Pubitemid 38088931)
38. Van den Bergh, G., Clerens, S., Cnops, L., Vandesande, F., & Arckens, L. (2003). Fluorescent twodimensional difference gel electrophoresis and mass spectrometry identify age- related protein expression differences for the primary visual cortex of kitten and adult cat. Journal of Neurochemistry, 85, 193-205. (Pubitemid 36389709)
39. Yan, J. X., Devenish, R., Wait, R., Stone, T., Lewis, S., & Fowler, S. (2002). Fluorescence twodimensional difference gel electrophoresis and mass spectrometry based proteomic analysis of Escherichia coli. Proteomics, 2, 1682-1698. (Pubitemid 36015504)
40. Zhou, G., Li, H. M., DeCamp, D., Chen, S., Shu, H. J., Gong, Y., et al. (2002). 2D differential in-gel electrophoresis for the identification of esophageal scans cell cancer - specific protein markers. Molecular & Cellular Proteomics, 1, 117-124.