MS characterization of qualitative protein polymorphisms in the spinal cords of inbred mouse strains

Proteomics

Volumn 10, Issue 5, 2010, Pages 1050-1062

  Mikkat, Stefan ^a   Lorenz, Peter ^a   Scharf, Christian ^b   Yu, Xinhua ^a   Glocker, Michael O ^a   Ibrahim, Saleh M ^a  

^a UNIVERSITY OF ROSTOCK   (Germany)

^b UNIVERSITY OF GREIFSWALD   (Germany)

Author keywords

2 DE; Animal proteomics; Inbred mouse strains; MALDI TOF MS; Phosphopeptides; Protein polymorphism

Indexed keywords

PHOSPHOPEPTIDE; PROTEOME;

ALLERGIC ENCEPHALOMYELITIS; AMINO ACID SEQUENCE; AMINO ACID SUBSTITUTION; ANIMAL EXPERIMENT; ANIMAL MODEL; ARTICLE; COMPARATIVE STUDY; CONTROLLED STUDY; DISEASE PREDISPOSITION; DNA SEQUENCE; ELECTROPHORETIC MOBILITY; EXPERIMENTAL MODEL; EXPERIMENTAL MOUSE; FEMALE; INBRED STRAIN; MATRIX ASSISTED LASER DESORPTION IONIZATION TIME OF FLIGHT MASS SPECTROMETRY; MOUSE; MOUSE STRAIN; MULTIPLE SCLEROSIS; NEUROFILAMENT; NONHUMAN; PRIORITY JOURNAL; PROTEIN ANALYSIS; PROTEIN PHOSPHORYLATION; PROTEIN POLYMORPHISM; SPINAL CORD; TWO DIMENSIONAL GEL ELECTROPHORESIS;

AMINO ACID SEQUENCE; AMINO ACIDS; ANIMALS; ELECTROPHORESIS, GEL, TWO-DIMENSIONAL; MASS SPECTROMETRY; MICE; MICE, INBRED STRAINS; MOLECULAR SEQUENCE DATA; NEUROFILAMENT PROTEINS; PHOSPHOPEPTIDES; POLYMORPHISM, GENETIC; PROTEINS; SPINAL CORD;

ANIMALIA;

EID: 77649177728     PISSN: 16159853     EISSN: 16159861     Source Type: Journal    
DOI: 10.1002/pmic.200800932     Document Type: Article

References (43)

1. Dyment, D. A., Sadovnick, A. D., Ebers, G. C., Genetics of multiple sclerosis. Hum. Mol. Genet. 1997, 6, 1693-1698.
2. Reif, D. M., White, B. C., Moore, J. H., Integrated analysis of genetic, genomic and proteomic data. Expert Rev. Proteomics 2004, 1, 67-75.
3. Pandey, A., Mann, M., Proteomics to study genes and genomes. Nature 2000, 405, 837-846.
4. Steinman, L., Multiple approaches to multiple sclerosis. Nat. Med. 2000, 6, 15-16.
5. Baxter, A. G., The origin and application of experimental autoimmune encephalomyelitis. Nat. Rev. Immunol. 2007, 7, 904-912.
6. Encinas, J. A., Weiner, H. L., Kuchroo, V. K., Inheritance of susceptibility to experimental autoimmune encephalomyelitis. J. Neurosci. Res. 1996, 45, 655-669.
7. Ibrahim, S. M., Mix, E., Bottcher, T., Koczan, D. et al., Gene expression profiling of the nervous system in murine experimental autoimmune encephalomyelitis. Brain 2001, 124, 1927-1938.
8. Mazon Pelaez, I., Vogler, S., Strauss, U., Wernhoff, P. et al., Identification of quantitative trait loci controlling cortical motor evoked potentials in experimental autoimmune encephalomyelitis: correlation with incidence, onset and severity of disease. Hum. Mol. Genet. 2005, 14, 1977-1989.
9. Elkabes, S., Li, H., Proteomic strategies in multiple sclerosis and its animal models. Proteomics Clin. Appl. 2007, 1, 1393-1405.
10. Doyle, H. A., Mamula, M. J., Post-translational protein modifications in antigen recognition and autoimmunity. Trends Immunol. 2001, 22, 443-449.
11. Anderton, S. M., Post-translational modifications of self antigens: implications for autoimmunity. Curr. Opin. Immunol. 2004, 16, 753-758.
12. Zamvil, S. S., Mitchell, D. J., Moore, A. C., Kitamura, K. et al., T-cell epitope of the autoantigen myelin basic protein that induces encephalomyelitis. Nature 1986, 324, 258-260.
13. Cao, L., Sun, D., Whitaker, J. N., Citrullinated myelin basic protein induces experimental autoimmune encephalomyelitis in Lewis rats through a diverse T cell repertoire. J. Neuroimmunol. 1998, 88, 21-29.
14. Greer, J. M., Denis, B., Sobel, R. A., Trifilieff, E., Thiopalmitoylation of myelin proteolipid protein epitopes enhances immunogenicity and encephalitogenicity. J. Immunol. 2001, 166, 6907-6913.
15. Kim, J. K., Mastronardi, F. G., Wood, D. D., Lubman, D. M. et al., Multiple sclerosis: an important role for post-translational modifications of myelin basic protein in pathogenesis. Mol. Cell. Proteomics 2003, 2, 453-462.
16. Grant, J. E., Hu, J., Liu, T., Jain, M. R. et al., Post-translational modifications in the rat lumbar spinal cord in experimental autoimmune encephalomyelitis. J. Proteome Res. 2007, 6, 2786-2791.
17. Smerjac, S. M., Bizzozero, O. A., Cytoskeletal protein carbonylation and degradation in experimental autoimmune encephalomyelitis. J. Neurochem. 2008, 105, 763-772.
18. Klose, J., Kobalz, U., Two-dimensional electrophoresis of proteins: an updated protocol and implications for a functional analysis of the genome. Electrophoresis 1995, 16, 1034-1059.
19. Lorenz, P., Bantscheff, M., Ibrahim, S. M., Thiesen, H. J., Glocker, M. O., Proteome analysis of diseased joints from mice suffering from collagen-induced arthritis. Clin. Chem. Lab. Med. 2003, 41, 1622-1632.
20. Neuhoff, V., Arold, N., Taube, D., 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 1988, 9, 255-262.
21. Fulda, S., Mikkat, S., Huang, F., Huckauf, J. et al., Proteome analysis of salt stress response in the cyanobacterium Synechocystis sp. strain PCC 6803. Proteomics 2006, 6, 2733-2745.
22. Nordhoff, E., Schurenberg, M., Thiele, G., Lubbert, C. et al., Sample preparation protocols for MALDI-MS of peptides and oligonucleotides using prestructured sample supports. Int. J. Mass Spectrom. 2003, 226, 163-180.
23. Just, T., Gafumbegete, E., Gramberg, J., Prufer, I. et al., Differential proteome analysis of tonsils from children with chronic tonsillitis or with hyperplasia reveals disease-associated protein expression differences. Anal. Bioanal. Chem. 2006, 384, 1134-1144.
24. Larsen, M. R., Thingholm, T. E., Jensen, O. N., Roepstorff, P., Jorgensen, T. J., Highly selective enrichment of phosphorylated peptides from peptide mixtures using titanium dioxide microcolumns. Mol. Cell. Proteomics 2005, 4, 873-886.
25. Sinz, A., Bantscheff, M., Mikkat, S., Ringel, B. et al., Mass spectrometric proteome analyses of synovial fluids and plasmas from patients suffering from rheumatoid arthritis and comparison to reactive arthritis or osteoarthritis. Electrophoresis 2002, 23, 3445-3456.
26. Deierling, T., Koy, C., Montgomery, H., Resch, M., Glocker, M. O., Höchste Sequenzabdeckung gefordert - Massenspektrometrische Strukturcharakterisierung Gel-separierter Proteine. BIOspektrum 2005, 11, 762-766.
27. Zaheer, A., Zaheer, S., Sahu, S. K., Knight, S. et al., A novel role of glia maturation factor: induction of granulocyte - macrophage colony-stimulating factor and pro-inflammatory cytokines. J. Neurochem. 2007, 101, 364-376.
28. Zaheer, S., Wu, Y., Bassett, J., Yang, B., Zaheer, A., Glia maturation factor regulation of STAT expression: a novel mechanism in experimental autoimmune encephalomyelitis. Neurochem. Res. 2007, 32, 2123-2131.
29. Trapp, B. D., Peterson, J., Ransohoff, R. M., Rudick, R. et al., Axonal transection in the lesions of multiple sclerosis. N. Engl. J. Med. 1998, 338, 278-285.
30. Taylor, C. M., Marta, C. B., Claycomb, R. J., Han, D. K. et al., Proteomic mapping provides powerful insights into functional myelin biology. Proc. Natl. Acad. Sci. USA 2004, 101, 4643-4648.
31. Roth, A. D., Ivanova, A., Colman, D. R., New observations on the compact myelin proteome. Neuron Glia Biol. 2006, 2, 15-21.
32. Klose, J., Nock, C., Herrmann, M., Stuhler, K. et al., Genetic analysis of the mouse brain proteome. Nat. Genet. 2002, 30, 385-393.
33. Pollak, D. D., John, J., Hoeger, H., Lubec, G., An integrated map of the murine hippocampal proteome based upon five mouse strains. Electrophoresis 2006, 27, 2787-2798.
34. Pollak, D. D., John, J., Scharl, T., Leisch, F. et al., Strain-dependent regulation of neurotransmission and actin-remodelling proteins in the mouse hippocampus. Genes Brain Behav. 2006, 5, 200-204.
35. Pollak, D. D., John, J., Bubna-Littitz, H., Schneider, A. et al., Components of the protein quality control system are expressed in a strain-dependent manner in the mouse hippocampus. Neurochem. Int. 2006, 49, 500-507.
36. Zabel, C., Sagi, D., Kaindl, A. M., Steireif, N. et al., Comparative proteomics in neurodegenerative and non-neurodegenerative diseases suggest nodal point proteins in regulatory networking. J. Proteome Res. 2006, 5, 1948-1958.
37. Mikkat, S., Koy, C., Ulbrich, M., Ringel, B., Glocker, M. O., Mass spectrometric protein structure characterization reveals cause of migration differences of haptoglobin alpha chains in two-dimensional gel electrophoresis. Proteomics 2004, 4, 3921-3932.
38. Campostrini, N., Areces, L. B., Rappsilber, J., Pietrogrande, M. C. et al., Spot overlapping in two-dimensional maps: a serious problem ignored for much too long. Proteomics 2005, 5, 2385-2395.
39. Gorg, A., Weiss, W., Dunn, M. J., Current two-dimensional electrophoresis technology for proteomics. Proteomics 2004, 4, 3665-3685.
40. Ditzen, C., Varadarajulu, J., Czibere, L., Gonik, M. et al., Proteomic-based genotyping in a mouse model of trait anxiety exposes disease-relevant pathways. Mol. Psychiatry 2009, doi: 10.1038/mp.2008.146.
41. Roth, M. J., Forbes, A. J., Boyne, M. T., II, Kim, Y. B. et al., Precise and parallel characterization of coding polymorphisms, alternative splicing, and modifications in human proteins by mass spectrometry. Mol. Cell. Proteomics 2005, 4, 1002-1008.
42. Bunger, M. K., Cargile, B. J., Sevinsky, J. R., Deyanova, E. et al., Detection and validation of non-synonymous coding SNPs from orthogonal analysis of shotgun proteomics data. J. Proteome Res. 2007, 6, 2331-2340.
43. Edwards, N. J., Novel peptide identification from tandem mass spectra using ESTs and sequence database compression. Mol. Syst. Biol. 2007, 3, 102.