Proteomic analysis of proteins expressing in regions of rat brain by a combination of SDS-PAGE with nano-liquid chromatography-quadrupole-time of flight tandem mass spectrometry

Proteome Science

Volumn 8, Issue , 2010, Pages

  Katagiri, Tomoki ^a,c   Hatano, Naoya ^b   Aihara, Masamune ^a   Kawano, Hiroo ^c   Okamoto, Mariko ^a   Liu, Ying ^c   Izumi, Tomonori ^c   Maekawa, Tsuyoshi ^c   Nakamura, Shoji ^c   Ishihara, Tokuhiro ^c   Shirai, Mutsunori ^c   Mizukami, Yoichi ^a  

^a YAMAGUCHI UNIVERSITY   (Japan)

^b KAGAWA UNIVERSITY   (Japan)

^c YAMAGUCHI UNIVERSITY GRADUATE SCHOOL OF MEDICINE   (Japan)

Author keywords

[No Author keywords available]

Indexed keywords

4 AMINOBUTYRIC ACID TRANSPORTER 3; BRAIN PEPTIDE; BRAIN PROTEIN; CYTOPLASM PROTEIN; CYTOSKELETON PROTEIN; EXOPROTEIN; GLIAL FIBRILLARY ACIDIC PROTEIN; HEAT SHOCK PROTEIN 70; HEAT SHOCK PROTEIN 90; MEMBRANE PROTEIN; MITOCHONDRION PROTEIN; NUCLEAR PROTEIN; PYRUVATE KINASE; SEPTIN 5; SYNAPTOTAGMIN; UNCLASSIFIED DRUG;

AMYGDALOID NUCLEUS; ANIMAL TISSUE; ARTICLE; BRAIN REGION; COMPARATIVE STUDY; FRONTAL CORTEX; HIPPOCAMPUS; IMMUNOBLOTTING; IMMUNOHISTOCHEMISTRY; LIQUID CHROMATOGRAPHY; NONHUMAN; OCCIPITAL CORTEX; PARIETAL LOBE; POLYACRYLAMIDE GEL ELECTROPHORESIS; PROTEIN ANALYSIS; PROTEIN EXPRESSION; PROTEIN LOCALIZATION; PROTEOMICS; QUADRUPOLE MASS SPECTROMETRY; QUANTITATIVE ANALYSIS; RAT; SIGNAL TRANSDUCTION; TANDEM MASS SPECTROMETRY; THALAMUS;

RATTUS;

EID: 77954868647     PISSN: None     EISSN: 14775956     Source Type: Journal    
DOI: 10.1186/1477-5956-8-41     Document Type: Article

References (47)

1. Ethofer T, Pourtois G, Wildgruber D. Investigating audiovisual integration of emotional signals in the human brain. Prog Brain Res 2006, 156:345-361. full_text, 17015090.
2. Taylor SF, Welsh RC, Wager TD, Phan KL, Fitzgerald KD, Gehring WJ. A functional neuroimaging study of motivation and executive function. Neuroimage 2004, 21:1045-1054. 10.1016/j.neuroimage.2003.10.032, 15006672.
3. Allman JM, Hakeem A, Erwin JM, Nimchinsky E, Hof P. The anterior cingulate cortex. The evolution of an interface between emotion and cognition. Ann N Y Acad Sci 2001, 935:107-117. 10.1111/j.1749-6632.2001.tb03476.x, 11411161.
4. Ross-Macdonald P, Coelho PS, Roemer T, Agarwal S, Kumar A, Jansen R, Cheung KH, Sheehan A, Symoniatis D, Umansky L, et al. Large-scale analysis of the yeast genome by transposon tagging and gene disruption. Nature 1999, 402:413-418. 10.1038/46558, 10586881.
5. Young RA. Biomedical discovery with DNA arrays. Cell 2000, 102:9-15. 10.1016/S0092-8674(00)00005-2, 10929708.
6. Caron H, van Schaik B, van der Mee M, Baas F, Riggins G, van Sluis P, Hermus MC, van Asperen R, Boon K, Voute PA, et al. The human transcriptome map: clustering of highly expressed genes in chromosomal domains. Science 2001, 291:1289-1292. 10.1126/science.1056794, 11181992.
7. Sun T, Patoine C, Abu-Khalil A, Visvader J, Sum E, Cherry TJ, Orkin SH, Geschwind DH, Walsh CA. Early asymmetry of gene transcription in embryonic human left and right cerebral cortex. Science 2005, 308:1794-1798. 10.1126/science.1110324, 2756725, 15894532.
8. Lein ES, Hawrylycz MJ, Ao N, Ayres M, Bensinger A, Bernard A, Boe AF, Boguski MS, Brockway KS, Byrnes EJ, et al. Genome-wide atlas of gene expression in the adult mouse brain. Nature 2007, 445:168-176. 10.1038/nature05453, 17151600.
9. Enard W, Khaitovich P, Klose J, Zollner S, Heissig F, Giavalisco P, Nieselt-Struwe K, Muchmore E, Varki A, Ravid R, et al. Intra- and interspecific variation in primate gene expression patterns. Science 2002, 296:340-343. 10.1126/science.1068996, 11951044.
10. Pomeroy SL, Tamayo P, Gaasenbeek M, Sturla LM, Angelo M, McLaughlin ME, Kim JY, Goumnerova LC, Black PM, Lau C, et al. Prediction of central nervous system embryonal tumour outcome based on gene expression. Nature 2002, 415:436-442. 10.1038/415436a, 11807556.
11. Ibrahim SM, Mix E, Bottcher T, Koczan D, Gold R, Rolfs A, Thiesen HJ. Gene expression profiling of the nervous system in murine experimental autoimmune encephalomyelitis. Brain 2001, 124:1927-1938. 10.1093/brain/124.10.1927, 11571211.
12. Mycko MP, Papoian R, Boschert U, Raine CS, Selmaj KW. cDNA microarray analysis in multiple sclerosis lesions: detection of genes associated with disease activity. Brain 2003, 126:1048-1057. 10.1093/brain/awg107, 12690045.
13. Sturzebecher S, Wandinger KP, Rosenwald A, Sathyamoorthy M, Tzou A, Mattar P, Frank JA, Staudt L, Martin R, McFarland HF. Expression profiling identifies responder and non-responder phenotypes to interferon-beta in multiple sclerosis. Brain 2003, 126:1419-1429. 10.1093/brain/awg147, 12764062.
14. Schuchhardt J, Glintschert A, Hartl D, Irmler M, Beckers J, Stephan C, Marcus K, Klose J, Meyer HE, Malik A. BrainProfileDB - a platform for integration of functional genomics data. Proteomics 2008, 8:1162-1164. 10.1002/pmic.200700743, 18283666.
15. Schindler J, Lewandrowski U, Sickmann A, Friauf E, Nothwang HG. Proteomic analysis of brain plasma membranes isolated by affinity two-phase partitioning. Mol Cell Proteomics 2006, 5:390-400.
16. Kim SY, Chudapongse N, Lee SM, Levin MC, Oh JT, Park HJ, Ho IK. Proteomic analysis of phosphotyrosyl proteins in morphine-dependent rat brains. Brain Res Mol Brain Res 2005, 133:58-70. 10.1016/j.molbrainres.2004.09.018, 15661365.
17. Fountoulakis M, Tsangaris GT, Maris A, Lubec G. The rat brain hippocampus proteome. J Chromatogr B Analyt Technol Biomed Life Sci 2005, 819:115-129. 10.1016/j.jchromb.2005.01.037, 15797529.
18. Pan S, Shi M, Jin J, Albin RL, Lieberman A, Gearing M, Lin B, Pan C, Yan X, Kashima DT, Zhang J. Proteomics identification of proteins in human cortex using multidimensional separations and MALDI tandem mass spectrometer. Mol Cell Proteomics 2007, 6:1818-1823. 10.1074/mcp.M700158-MCP200, 17644759.
19. Paulson L, Martin P, Nilsson CL, Ljung E, Westman-Brinkmalm A, Blennow K, Davidsson P. Comparative proteome analysis of thalamus in MK-801-treated rats. Proteomics 2004, 4:819-825. 10.1002/pmic.200300622, 14997502.
20. Yeom M, Shim I, Lee HJ, Hahm DH. Proteomic analysis of nicotine-associated protein expression in the striatum of repeated nicotine-treated rats. Biochem Biophys Res Commun 2005, 326:321-328. 10.1016/j.bbrc.2004.11.034, 15582580.
21. Mizukami Y, Iwamatsu A, Aki T, Kimura M, Nakamura K, Nao T, Okusa T, Matsuzaki M, Yoshida K, Kobayashi S. ERK1/2 regulates intracellular ATP levels through alpha-enolase expression in cardiomyocytes exposed to ischemic hypoxia and reoxygenation. J Biol Chem 2004, 279:50120-50131. 10.1074/jbc.M402299200, 15459207.
22. Kikuchi M, Hatano N, Yokota S, Shimozawa N, Imanaka T, Taniguchi H. Proteomic analysis of rat liver peroxisome: presence of peroxisome-specific isozyme of Lon protease. J Biol Chem 2004, 279:421-428. 10.1074/jbc.M305623200, 14561759.
23. Kawakami T, Hoshida Y, Kanai F, Tanaka Y, Tateishi K, Ikenoue T, Obi S, Sato S, Teratani T, Shiina S, et al. Proteomic analysis of sera from hepatocellular carcinoma patients after radiofrequency ablation treatment. Proteomics 2005, 5:4287-4295. 10.1002/pmic.200401287, 16254924.
24. Tokumitsu H, Hatano N, Inuzuka H, Yokokura S, Nozaki N, Kobayashi R. Mechanism of the generation of autonomous activity of Ca2+/calmodulin-dependent protein kinase IV. J Biol Chem 2004, 279:40296-40302. 10.1074/jbc.M406534200, 15262966.
25. Tokumitsu H, Hatano N, Inuzuka H, Sueyoshi Y, Yokokura S, Ichimura T, Nozaki N, Kobayashi R. Phosphorylation of Numb family proteins. Possible involvement of Ca2+/calmodulin-dependent protein kinases. J Biol Chem 2005, 280:35108-35118. 10.1074/jbc.M503912200, 16105844.
26. Nunomura K, Nagano K, Itagaki C, Taoka M, Okamura N, Yamauchi Y, Sugano S, Takahashi N, Izumi T, Isobe T. Cell surface labeling and mass spectrometry reveal diversity of cell surface markers and signaling molecules expressed in undifferentiated mouse embryonic stem cells. Mol Cell Proteomics 2005, 4:1968-1976. 10.1074/mcp.M500216-MCP200, 16176923.
27. Nagano K, Taoka M, Yamauchi Y, Itagaki C, Shinkawa T, Nunomura K, Okamura N, Takahashi N, Izumi T, Isobe T. Large-scale identification of proteins expressed in mouse embryonic stem cells. Proteomics 2005, 5:1346-1361. 10.1002/pmic.200400990, 15742316.
28. Crunelli V, Leresche N. A role for GABAB receptors in excitation and inhibition of thalamocortical cells. Trends Neurosci 1991, 14:16-21. 10.1016/0166-2236(91)90178-W, 1709527.
29. Ulrich D, Huguenard JR. GABAB receptor-mediated responses in GABAergic projection neurones of rat nucleus reticularis thalami in vitro. J Physiol 1996, 493(Pt 3):845-854. 1159030, 8799904.
30. De Biasi S, Vitellaro-Zuccarello L, Brecha NC. Immunoreactivity for the GABA transporter-1 and GABA transporter-3 is restricted to astrocytes in the rat thalamus. A light and electron-microscopic immunolocalization. Neuroscience 1998, 83:815-828. 10.1016/S0306-4522(97)00414-4, 9483565.
31. Kawamoto M, Ohno K, Kuriyama K, Kubo T, Sato K. Developmental changes in GABA transporter (GAT1 and GAT3) mRNA expressions in the rat olfactory bulb. Brain Res Dev Brain Res 2001, 126:137-145. 10.1016/S0165-3806(00)00137-1, 11248347.
32. Wensley CH, Stone DM, Baker H, Kauer JS, Margolis FL, Chikaraishi DM. Olfactory marker protein mRNA is found in axons of olfactory receptor neurons. J Neurosci 1995, 15:4827-4837.
33. Otaki JM, Yamamoto H, Firestein S. Odorant receptor expression in the mouse cerebral cortex. J Neurobiol 2004, 58:315-327. 10.1002/neu.10272, 14750145.
34. Qureshy A, Kawashima R, Imran MB, Sugiura M, Goto R, Okada K, Inoue K, Itoh M, Schormann T, Zilles K, Fukuda H. Functional mapping of human brain in olfactory processing: a PET study. J Neurophysiol 2000, 84:1656-1666.
35. Vaidya JG, Paradiso S, Andreasen NC, Johnson DL, Boles Ponto LL, Hichwa RD. Correlation between extraversion and regional cerebral blood flow in response to olfactory stimuli. Am J Psychiatry 2007, 164:339-341. 10.1176/appi.ajp.164.2.339, 17267799.
36. Amin ND, Zheng YL, Kesavapany S, Kanungo J, Guszczynski T, Sihag RK, Rudrabhatla P, Albers W, Grant P, Pant HC. Cyclin-dependent kinase 5 phosphorylation of human septin SEPT5 (hCDCrel-1) modulates exocytosis. J Neurosci 2008, 28:3631-3643. 10.1523/JNEUROSCI.0453-08.2008, 18385322.
37. Peng XR, Jia Z, Zhang Y, Ware J, Trimble WS. The septin CDCrel-1 is dispensable for normal development and neurotransmitter release. Mol Cell Biol 2002, 22:378-387. 10.1128/MCB.22.1.378-387.2002, 134223, 11739749.
38. Chen F, Wollmer MA, Hoerndli F, Munch G, Kuhla B, Rogaev EI, Tsolaki M, Papassotiropoulos A, Gotz J. Role for glyoxalase I in Alzheimer's disease. Proc Natl Acad Sci USA 2004, 101:7687-7692. 10.1073/pnas.0402338101, 419667, 15128939.
39. Antion MD, Hou L, Wong H, Hoeffer CA, Klann E. mGluR-dependent long-term depression is associated with increased phosphorylation of S6 and synthesis of elongation factor 1A but remains expressed in S6K-deficient mice. Mol Cell Biol 2008, 28:2996-3007. 10.1128/MCB.00201-08, 2293080, 18316404.
40. Tai DJ, Su CC, Ma YL, Lee EH. SGK1 phosphorylation of IkappaB Kinase alpha and p300 Up-regulates NF-kappaB activity and increases N-Methyl-D-aspartate receptor NR2A and NR2B expression. J Biol Chem 2009, 284:4073-4089. 10.1074/jbc.M805055200, 19088076.
41. Tian F, Hu XZ, Wu X, Jiang H, Pan H, Marini AM, Lipsky RH. Dynamic chromatin remodeling events in hippocampal neurons are associated with NMDA receptor-mediated activation of Bdnf gene promoter 1. J Neurochem 2009, 109:1375-1388. 10.1111/j.1471-4159.2009.06058.x, 19476549.
42. Shevchenko A, Jensen ON, Podtelejnikov AV, Sagliocco F, Wilm M, Vorm O, Mortensen P, Shevchenko A, Boucherie H, Mann M. Linking genome and proteome by mass spectrometry: large-scale identification of yeast proteins from two dimensional gels. Proc Natl Acad Sci USA 1996, 93:14440-14445. 10.1073/pnas.93.25.14440, 26151, 8962070.
43. Shinkawa T, Taoka M, Yamauchi Y, Ichimura T, Kaji H, Takahashi N, Isobe T. STEM: a software tool for large-scale proteomic data analyses. J Proteome Res 2005, 4:1826-1831. 10.1021/pr050167x, 16212438.
44. Mizukami Y, Kobayashi S, Uberall F, Hellbert K, Kobayashi N, Yoshida K. Nuclear mitogen-activated protein kinase activation by protein kinase czeta during reoxygenation after ischemic hypoxia. J Biol Chem 2000, 275:19921-19927. 10.1074/jbc.M907901199, 10777509.
45. Mizukami Y, Yoshioka K, Morimoto S, Yoshida K. A novel mechanism of JNK1 activation. Nuclear translocation and activation of JNK1 during ischemia and reperfusion. J Biol Chem 1997, 272:16657-16662. 10.1074/jbc.272.26.16657, 9195981.
46. Kiyama M, Hoshii Y, Cui D, Kawano H, Kanda T, Ishihara T. Immunohistochemical and immunochemical study of amyloid in liver affected by systemic Alambda amyloidosis with antibodies against three different regions of immunoglobulin lambda light chain. Pathol Int 2007, 57:343-350. 10.1111/j.1440-1827.2007.02106.x, 17539965.
47. Hoshii Y, Kiyama M, Cui D, Kawano H, Ishihara T. Immunohistochemical study of immunoglobulin light chain amyloidosis with antibodies to the immunoglobulin light chain variable region. Pathol Int 2006, 56:324-330. 10.1111/j.1440-1827.2006.01953.x, 16704496.