Protein extraction from Mycobacterium avium subsp. paratuberculosis: Comparison of methods for analysis by sodium dodecyl sulphate polyacrylamide gel electrophoresis, native PAGE and surface enhanced laser desorption/ionization time of flight mass spectrometry

Journal of Microbiological Methods

Volumn 68, Issue 1, 2007, Pages 115-127

  Gumber, Sanjeev ^a   Taylor, Deborah L ^a   Whittington, Richard J ^a  

^a UNIVERSITY OF SYDNEY   (Australia)

Author keywords

Lysis buffers; Native PAGE; Paratuberculosis; SDS PAGE; SELDI TOF MS

Indexed keywords

BACTERIAL PROTEIN; DETERGENT; POLYSORBATE 20; PROTEOME; SINAPIC ACID; THIOCYANATE POTASSIUM; TRITON X 100; UREA;

ANIMAL DISEASE; ARTICLE; BOVIDS; IMMOBILIZED METAL AFFINITY CHROMATOGRAPHY; INTERMETHOD COMPARISON; MOLECULAR WEIGHT; MYCOBACTERIUM PARATUBERCULOSIS; NONHUMAN; PARATUBERCULOSIS; POLYACRYLAMIDE GEL ELECTROPHORESIS; PRIORITY JOURNAL; PROTEIN ISOLATION; PROTEOMICS; REPRODUCIBILITY; SURFACE ENHANCED LASER DESORPTION IONIZATION TIME OF FLIGHT MASS SPECTROMETRY; TWO DIMENSIONAL GEL ELECTROPHORESIS;

BACTERIAL PROTEINS; BUFFERS; CHOLIC ACIDS; COUMARIC ACIDS; ELECTROPHORESIS, POLYACRYLAMIDE GEL; MYCOBACTERIUM PARATUBERCULOSIS; OCTOXYNOL; POLYSORBATES; PROTEIN ARRAY ANALYSIS; PROTEOMICS; REPRODUCIBILITY OF RESULTS; SPECTROMETRY, MASS, MATRIX-ASSISTED LASER DESORPTION-IONIZATION; THIOCYANATES;

MYCOBACTERIUM AVIUM SUBSP. PARATUBERCULOSIS;

EID: 33845989503     PISSN: 01677012     EISSN: None     Source Type: Journal    
DOI: 10.1016/j.mimet.2006.07.003     Document Type: Article

References (37)

1. Aldred S., Grant M.M., and Griffiths H.R. The use of proteomics for the assessment of clinical samples in research. Clin. Biochem. 37 (2004) 943-952
2. Bannantine J.P., Barletta R.G., Stabel J.R., Paustian M.L., and Kapur V. Application of the genome sequence to address concerns that Mycobacterium avium subspecies paratuberculosis might be a foodborne pathogen. Foodborne Pathog. Dis. 1 (2004) 3-15
3. Bollag D.M., Edelstein S.J., and Rozycki M.D. Gel electrophoresis under denaturating conditions. Protein Methods (1996), Wiley-Liss, New York 107-154
4. Bollag D.M., Edelstein S.J., and Rozycki M.D. Gel electrophoresis under non-denaturating conditions. Protein Methods (1996), Wiley-Liss, New York 155-172
5. Bollag D.M., Edelstein S.J., and Rozycki M.D. Preparation for protein isolation. Protein Methods (1996), Wiley-Liss, New York 1-27
6. 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. 72 (1976) 248-254
7. Brennan P.J. The envelope of mycobacteria. Ann. Rev. Biochem. 64 (1995) 29-63
8. Cordingley, H. C., Roberts, S. L., Tooke, P., Armitage, J. R., Lane, P. W., Wu, W., Wildsmith, S. E., 2003. Multifactorial screening design and analysis of SELDI-TOF ProteinChip array optimization experiments. Biotechniques. 34, 364-365, 368-373.
9. Cruickshank R., Duguid J.P., Marmion B.P., and Swain R.H.A. Medical Microbiology; a Guide to the Laboratory Diagnosis and Control of Infection. 12th Edition (1973), Churchill Livingstone, Edinburgh
10. Edward H. Immunoprecipitation. Using Antibodies: A Laboratory Manual (1999), Cold Spring Harbor Laboratory Press 230-231
11. Hames B.D. Non denaturating polyacrylamide gel electrophoresis. Gel Electrophoresis of Proteins: A Practical Approach (1998), Oxford University Press, New York 35-40
12. Hatefi Y., and Hanstein W.G. Solubilization of particulate proteins and nonelectrolytes by chaotropic agents. Proc. Natl. Acad. Sci. U. S. A. 62 (1969) 1129-1136
13. Hutchens T.W., and Yip T.T. New desorption strategies for the mass spectrometric analysis of macromolecules. Rapid Commun. Mass Spectrom. 7 (1993) 576-580
14. Issaq H.J., Veenstra T.D., Conrads T.P., and Felschow D. The SELDI-TOF MS approach to proteomics: protein profiling and biomarker identification. Biochem. Biophys. Res. Commun. 292 (2002) 587-592
15. Karas M., and Hillenkamp F. Laser desorption ionization of proteins with molecular masses exceeding 10,000 Da. Anal. Chem. 60 (1988) 2299-2301
16. Koopmann J., Zhang Z., White N., Rosenzweig J., Fedarko N., Jagannath S., Canto M.I., Yeo C.J., Chan D.W., and Goggins M. Serum diagnosis of pancreatic adenocarcinoma using surface-enhanced laser desorption and ionization mass spectrometry. Clin. Cancer Res. 10 (2004) 860-868
17. Laemmli U.K. Cleavage of structural proteins during the assembly of the head of bacteriophage T4. Nature 227 (1970) 680-685
18. Lanigan M.D., Vaughan J.A., Shiell B.J., Beddome G.J., and Michalski W.P. Mycobacterial proteome extraction: comparison of disruption methods. Proteomics 4 (2004) 1094-1100
19. Laurent J.P., Hauge K., Burnside K., and Cangelosi G. Mutational analysis of cell wall biosynthesis in Mycobacterium avium. J. Bacteriol. 185 (2003) 5003-5006
20. Li L., Bannantine J.P., Zhang Q., Amonsin A., May B.J., Alt D., Banerji N., Kanjilal S., and Kapur V. The complete genome sequence of Mycobacterium avium subspecies paratuberculosis. Proc. Natl. Acad Sci. U. S. A. 102 (2005) 12344-12349
21. Marsh I.B., Bannantine J.P., Paustian M.L., Tizard M., Kapur V., and Whittington R.J. Genomic comparison of Mycobacterium avium subsp. paratuberculosis sheep and cattle strains by microarray hybridization. J. Bacteriol. 188 (2006) 2290-2293
22. Merchant M., and Weinberger S.R. Recent advancements in surface-enhanced laser desorption/ionization-time of flight-mass spectrometry. Electrophoresis 21 (2000) 1164-1177
23. Neuhoff V., Arold N., Taube D., and Ehrhardt W. 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 (1988) 255-262
24. Rastogi N., Legrand E., and Sola C. The mycobacteria: an introduction to nomenclature and pathogenesis. Rev. Sci. Tech. 20 (2001) 21-54
25. Salvi G., De Los Rios P., and Vendruscolo M. Effective interactions between chaotropic agents and proteins. Proteins 61 (2005) 492-499
26. Schaub S., Wilkins J., Weiler T., Sangster K., Rush D., and Nickerson P. Urine protein profiling with surface-enhanced laser-desorption/ionization time-of-flight mass spectrometry. Kidney Int. 65 (2004) 323-332
27. Seibert V., Wiesner A., Buschmann T., and Meuer J. Surface-enhanced laser desorption ionization time-of-flight mass spectrometry (SELDI TOF-MS) and ProteinChip technology in proteomics research. Pathol. Res. Pract. 200 (2004) 83-94
28. Semmes O.J., Feng Z., Adam B.L., Banez L.L., Bigbee W.L., Campos D., Cazares L.H., Chan D.W., Grizzle W.E., Izbicka E., Kagan J., Malik G., McLerran D., Moul J.W., Partin A., Prasanna P., Rosenzweig J., Sokoll L.J., Srivastava S., Thompson I., Welsh M.J., White N., Winget M., Yasui Y., Zhang Z., and Zhu L. Evaluation of serum protein profiling by surface-enhanced laser desorption/ionization time-of-flight mass spectrometry for the detection of prostate cancer: I. assessment of platform reproducibility. Clin. Chem. 51 (2005) 102-112
29. Simpson R.J. Nondenaturating PAGE of proteins. Proteins and Proteomics (2003), Cold Spring Harbor Laboratory Press, New York 85-86
30. Sung N., Takayama K., and Collins M.T. Possible association of GroES and antigen 85 proteins with heat resistance of Mycobacterium paratuberculosis. Appl. Environ. Microbiol. 70 (2004) 1688-1697
31. Talapatra A., Rouse R., and Hardiman G. Protein microarrays: challenges and promises. Pharmacogenomics 3 (2002) 527-536
32. White W.B., Whipple D.L., Stabel J.R., and Bolin C.A. Comparison of cellular and extracellular proteins expressed by various isolates of Mycobacterium paratuberculosis and other mycobacterial species. Am. J. Vet. Res. 55 (1994) 1399-1405
33. White C.N., Chan D.W., and Zhang Z. Bioinformatics strategies for proteomic profiling. Clin. Biochem. 37 (2004) 636-641
34. Whittington R.J., Marsh I., Turner M.J., McAllister S., Choy E., Eamens G.J., Marshall D.J., and Ottaway S. Rapid detection of Mycobacterium paratuberculosis in clinical samples from ruminants and in spiked environmental samples by modified BACTEC 12B radiometric culture and direct confirmation by IS900 PCR. J. Clin. Microbiol. 36 (1998) 701-707
35. Whittington R.J., Marsh I., McAllister S., Turner M.J., Marshall D.J., and Fraser C.A. Evaluation of modified BACTEC 12B radiometric medium and solid media for culture of Mycobacterium avium subsp. paratuberculosis from sheep. J. Clin. Microbiol. 37 (1999) 1077-1083
36. Whittington R.J., Reddacliff L.A., Marsh I., McAllister S., and Saunders V. Temporal patterns and quantification of excretion of Mycobacterium avium subsp. paratuberculosis in sheep with Johne's disease. Aust. Vet. J. 78 (2000) 34-37
37. Whittington R.J., Marshall D.J., Nicholls P., Marsh I.B., and Reddacliff L.A. Survival and dormancy of Mycobacterium avium subsp. paratuberculosis in the environment. Appl. Environ. Microbiol. 70 (2004) 2989-3004