Optimisation of a 2-D gel electrophoresis protocol for the human-pathogenic fungus Aspergillus fumigatus

Current Genetics

Volumn 49, Issue 3, 2006, Pages 178-189

  Kniemeyer, Olaf ^a,b   Lessing, Franziska ^a,b   Scheibner, Olaf ^b   Hertweck, Christian ^b   Brakhage, Axel A ^a,b  

^a FRIEDRICH SCHILLER UNIVERSITY JENA   (Germany)

^b HANS KNÖLL INSTITUTE   (Germany)

Author keywords

2 D gel electrophoresis; Aspergillus fumigatus; Carbon catabolite repression; Glyoxylate cycle; Proteome analysis

Indexed keywords

3 [(3 CHOLAMIDOPROPYL)DIMETHYLAMMONIO] 1 PROPANESULFONIC ACID; ALCOHOL; CARBON; DETERGENT; FUNGAL ENZYME; GLUCOSE; GLYOXYLIC ACID; PROTEOME; TRICHLOROACETIC ACID;

ACID PRECIPITATION; ASPERGILLUS FUMIGATUS; CATABOLITE REPRESSION; CONTROLLED STUDY; FUNGUS GROWTH; GLUCONEOGENESIS; METHODOLOGY; NONHUMAN; PATHOGENESIS; PRIORITY JOURNAL; PROCESS OPTIMIZATION; PROTEIN ANALYSIS; PROTEIN DEGRADATION; REVIEW; SIGNAL TRANSDUCTION; SOLUBILIZATION; TWO DIMENSIONAL GEL ELECTROPHORESIS;

ASPERGILLUS FUMIGATUS; ELECTROPHORESIS, GEL, TWO-DIMENSIONAL; ETHANOL; FUNGAL PROTEINS; GLUCOSE; HUMANS; PROTEOME; PROTEOMICS;

ASPERGILLUS FUMIGATUS; FUNGI;

EID: 33644560315     PISSN: 01728083     EISSN: None     Source Type: Journal    
DOI: 10.1007/s00294-005-0047-9     Document Type: Review

References (48)

1. Bakker BM, Overkamp KM, van Maris AJA, Kötter P, Luttik MAH, van Dijken JP, Pronk JT (2001) Stoichiometry and compartmentation of NADH metabolism in Saccharomyces cerevisiae. FEMS Microbiol Rev 25:15-37
2. Beuther H-O (1988) Ethanol. In: Bergmeyer HU (eds) Methods of enzymatic analysis, vol VI. VCH, Cambridge, pp 598-606
3. Bradford MM (1976) A rapid and sensitive method for the quantitation of microgram quantities of protein utilizing the principle of protein-dye binding. Anal Biochem 7:248-254
4. Brakhage AA (2005) Systemic fungal infections caused by Aspergillus species: Epidemiology, infection process and virulence determinants. Curr Drug Targets 6:875-886
5. Brakhage AA, Langfelder K (2002) Menacing mold: The molecular biology of Aspergillus fumigatus. Annu Rev Microbiol 56:433-455
6. Brakhage AA, Liebmann B (2005) Aspergillus fumigatus conidial pigment and cAMP signal transduction: Significance for virulence. Med Mycol 43:S75-S82
7. Braude AI (1986) The aspergilli. In: Braude AI, Davis CE, Fierer J (eds) Infectious diseases and medical microbiology. W.B. Saunders, Philadelphia, pp 592-597
8. Brock M, Buckel W (2004) On the mechanism of action of the antifungal agent propionate. Eur J Biochem 271:3227-3241
9. Bruneau J-M, Magnin T, Tagat E, Legrand R, Bernard M, Diaquin M, Fudali C, Latgé J-P (2001) Proteome analysis of Aspergillus fumigatus identifies glycosylphosphotidylinositol-anchored proteins associated to the cell wall biosynthesis. Electrophoresis 22:2812-2823
10. Carpentier SC, Witters E, Laukens K, Deckers P, Swennen R, Panis B (2005) Preparation of protein extracts from recalcitrant plant tissues: an evaluation of different methods for two-dimensional gel electrophoresis analysis. Proteomics 5:2497-2507
11. Claus R, Käppeli O, Fiechter A (1982) Influence of different physiological states on carnitine-acetyl-transferase activity in Saccharomyces cerevisiae. Experientia 38:1377
12. Claros MG, Vincens P (1996) Computational method to predict mitochondrially imported proteins and their targeting sequences.Eur J Biochem 241:779-786
13. Damerval C, Devienne D, Zivy M, Thiellement H (1986) Technical improvements in two-dimensional electrophoresis increase the level of genetic variation detected in wheat-seedling proteins. Electrophoresis 7:52-54
14. De Lucas JR, Valenciano S, Laborda F, Turner G (1994) Glucose-induced inactivation of isocitrate lyase in Aspergillus nidulans. Arch Microbiol 162:409-413
15. Ellis M (1999) Therapy of Aspergillus fumigatus -related diseases. In: Brakhage AA, Jahn B, Schmidt A (eds) Aspergillus fumigatus: Biology, clinical aspects and molecular approaches to pathogenicity. Contributions to microbiology, vol 2. Karger, Basel, pp 105-129
16. Felenbok B, Flipphi M, Nikolaev I (2001) Ethanol catabolism in Aspergillus nidulans: A model system for studying gene regulation. Prog Nucleic Acid Res Mol Biol 69:149-204
17. Flipphi M, Felenbok B (2004) The onset of carbon catabolic repression and interplay between specific induction and carbon catabolite repression in Aspergillus nidulans. In: Brambl R, Marzluf GA (eds) The mycota III - biochemistry and molecular biology, Springer, Berlin Heidelberg New York, pp 403-420
18. Gwynne DI, Buxton FP, Sibley S, Davies RW, Lockington RA, Scazzocchio C, Sealy-Lewis HM (1987) Comparison of the cis-acting control regions of two coordinately controlled genes involved in ethanol utilization in Aspergillus nidulans. Gene 51:205-216
19. Hoffmann B, LaPaglia SK, Kübler R, Andermann M, Eckert SE, Braus GH (2000) Developmental and metabolic regulation of the phosphoglucomutase-encoding gene, pgmB, of Aspergillus nidulans. Mol Gen Genet 262:1001-1011
20. Hondmann DHA, Visser J (1994) Carbon metabolism. Prog Ind Microbiol 29:61-139
21. Kelly JM (2004) The regulation of carbon metabolism in filamentous fungi. In: Brambl R, Marzluf GA (eds) The mycota III - biochemistry and molecular biology. Springer, Berlin Heidelberg New York, pp 386-401
22. Kelly JM, Hynes MJ (1981) The regulation of phosphoenolpyruvate carboxykinase and the NADP-linked malic enzyme in Aspergillus nidulans. J Gen Microbiol 123:371-375
23. Latgé J-P (1999) Aspergillus fumigatus and aspergillosis. Clin Microbiol Rev 12:310-350
24. Latgé J-P, Mouyna F, Tekaia F, Beauvais A, Debeaupuis JP, Nierman W (2005) Specific molecular features in the organization and biosynthesis of the cell wall of Aspergillus fumigatus. Med Mycol 43:S15-S22
25. Lorenz MC, Fink GR (2001) The glyoxylate cycle is required for fungal virulence. Nature 412:83-86
26. Luche S, Santoni V, Rabilloud T (2003) Evaluation of nonionic and zwitterionic detergents as membrane protein solubilizers in two-dimensional electrophoresis. Proteomics 3:249-253
27. Mc Kinney JD, Honer zu Bentrup K, Munoz-Elias EJ, Miczak A, Chen B, Chan WT, Swenson D, Sacchettini JC, Jacobs Jr WR, Russell DG (2000) Persistence of Mycobacterium tuberculosis in macrophages and mice requires the glyoxylate shunt enzyme isocitrate lyase. Nature 406:735-738
28. Molloy MP, Herbert BR, Williams KL, Gooley AA (1999) Extraction of Escherichia coli proteins with organic solvents prior to two-dimensional electrophoresis. Electrophoresis 20:701-704
29. Nandakumar MP, Marten MR (2002) Comparison of lysis methods and preparation protocols for one- and two-dimensional electrophoresis of Aspergillus oryzae intracellular proteins. Electrophoresis 23:2216-2222
30. Nandakumar MP, Shen J, Raman B, Marten MR (2003) Solubilization of TCA precipitated microbial proteins via NaOH for two-dimensional gel electrophoresis. J Proteome Res 2:89-93
31. Neuhoff V, Arold N, Taube D, Ehrhardt W (1988) Improved staining of proteins in polyacrylamide gels including isoelectric focusing gels with clear background at nanogram sensitivity using Coomassie Brilliant Blue G-250 and R-250. Electrophoresis 9:255-262
32. Niermann WC, May G, Kim HS, Anderson MJ, Chen D, Denning DW (2005) What the Aspergillus genomes have told us. Med Mycol 43:S3-S5
33. O'Farrel PH (1975) High resolution two-dimensional electrophoresis of proteins. J Biol Chem 250:4007-4021
34. Olsson I, Larsson K, Palmgren R, Bjellqvist B (2002) Organic disulfides as a means to generate streak-free two-dimensional maps with narrow range basic immobilized pH gradient strips as first dimension. Proteomics 2:1630-1632
35. Pain A, Woodward J, Quail MA et al (2004) Insight into the genome of Aspergillus fumigatus: Analysis of a 922 kb region encompassing the nitrate assimilation gene cluster. Fung Genet Biol 41:443-453
36. Prigneau O, Porta A, Poudrier JA, Colonna-Romano S, Noel T, Maresca B (2003) Genes involved in β-oxidation, energy metabolism and glyoxylate cycle are induced by Candida albicans during macrophage infection. Yeast 20:723-730
37. Prigneau O, Porta A, Maresca B (2004) Candida albicans CTN gene family is induced during macrophage infection: Homology, disruption and phenotypic analysis of CTN3 gene. Fung Genet Biol 41:783-793
38. Rabilloud T (1996) Solubilization of proteins for electrophoretic analyses. Electrophoresis 17:813-829
39. Rabilloud T (1998) Use of thiourea to increase the solubility of membrane proteins in two-dimensional electrophoresis. Electrophoresis 19:758-760
40. Rabilloud T, Adessi C, Giraudel A, Lunardi J (1997) Improvement of the solubilization of proteins in two-dimensional electrophoresis with immobilized pH gradients. Electrophoresis 18:307-316
41. +-dependent glycerol dehydrogenases from Aspergillus nidulans an d A. niger. J Gen Microbiol 136:1043-1050
42. Shevchenko A, Wilm M, Vorm O, Mann M (1996) Mass spectrometric sequencing of proteins from silver stained polyacrylamide gels. Anal Chem 68:850-858
43. Shimizu M, Wariishi H (2005) Development of a sample preparation method for fungal proteomics. FEMS Microbiol Lett 247:17-22
44. Sims AH, Robson GD, Hoyle DC, Oliver SG, Turner G, Prade RA, Russell HH, Dunn-Coleman NS, Gent ME (2004) Use of expressed sequence tag analysis and cDNA microarrays of the filamentous fungus Aspergillus nidulans. Fung Genet Biol 41:199-212
45. Steffan JS, Mc-Alister-Henn L (1992) Isolation and characterization of the yeast gene encoding the MDH3 isozyme of malate dehydrogenase. J Biol Chem 267:24708-24715
46. Stemple CJ, Davis MA, Hynes MJ (1998) The facC gene of Aspergillus nidulans encodes an acetate-inducible carnitine acetyltransferase. J Bacteriol 180:6242-6251
47. Weidner G, d'Enfert C, Koch A, Mol PC, Brakhage AA (1998) Development of a homologous transformation system for the human pathogenic fungus Aspergillus fumigatus based on the pyrG gene encoding orotidine 5′-monophosphate decarboxylase. Curr Genet 33:378-385
48. Wildgruber R, Reil G, Drews O, Parlar H, Görg A (2002) Web-based two-dimensional database of Saccharomyces cerevisiae proteins using immobilized pH gradients from pH 6 to pH 12 and matrix-assisted laser desorption/ionization-time of flight mass spectrometry. Proteomics 2:727-732