Quantitative proteomic analysis of induced pluripotent stem cells derived from a human Huntington's disease patient

Biochemical Journal

Volumn 446, Issue 3, 2012, Pages 359-371

  Chae, Jung Il ^a   Kim, Dong Wook ^a   Lee, Nayeon ^b   Jeon, Young Joo ^a   Jeon, Iksoo ^b   Kwon, Jihye ^b   Kim, Jumi ^b   Soh, Yunjo ^a   Lee, Dong Seok ^c   Seo, Kang Seok ^d   Choi, Nag Jin ^a   Park, Byoung Chul ^e   Kang, Sung Hyun ^e   Ryu, Joohyun ^e   Oh, Seung Hun ^b   Shin, Dong Ah ^f   Lee, Dong Ryul ^b   Do, Jeong Tae ^b   Park, In Hyun ^g,h   Daley, George Q ^g   Song, Jihwan ^b   more..

^a Chonbuk National University   (South Korea)

^b CHA University   (South Korea)

^c Kyungpook National University   (South Korea)

^d Sunchon National University   (South Korea)

^e Korea Research Institute of Bioscience and Biotechnology (KRIBB)   (South Korea)

^f Yonsei University College of Medicine   (South Korea)

^g HARVARD MEDICAL SCHOOL   (United States)

^h YALE UNIVERSITY SCHOOL OF MEDICINE   (United States)

Author keywords

Apoptosis; Cytoskeleton associated proteins; Huntington's disease; Induced pluripotent stem cell (iPSC); Oxidative stress; Proteomic analysis

Indexed keywords

ATM PROTEIN; COPPER ZINC SUPEROXIDE DISMUTASE; PEROXIREDOXIN; TRANSCRIPTION FACTOR;

APOPTOSIS; ARTICLE; CELL DIFFERENTIATION; CELL LINE; COMPARATIVE STUDY; CONTROLLED STUDY; DOWN REGULATION; EMBRYONIC STEM CELL; HUMAN; HUMAN CELL; HUNTINGTON CHOREA; NERVE CELL; OXIDATIVE STRESS; PLURIPOTENT STEM CELL; PRIORITY JOURNAL; PROTEOMICS; QUANTITATIVE ANALYSIS; UPREGULATION;

CELL DIFFERENTIATION; CELL LINE; EMBRYONIC STEM CELLS; HUMANS; HUNTINGTON DISEASE; INDUCED PLURIPOTENT STEM CELLS; NERVE TISSUE PROTEINS; NEURONS; OXIDATIVE STRESS; PROTEOMICS; TRINUCLEOTIDE REPEAT EXPANSION;

ATAXIA TELANGIECTASIA;

EID: 84865592653     PISSN: 02646021     EISSN: 14708728     Source Type: Journal    
DOI: 10.1042/BJ20111495     Document Type: Article

References (51)

1. MacDonald, M. E., Ambrose, C. M., Duyao, M. P., Myers, R. H., Lin, C., Srinidhi, L., Barnes, B., Taylor, S. A., James, M., Groot, N. et al. (1993) A novel gene containing a trinucleotide repeat that is expanded and unstable on Huntington's disease chromosomes. Cell 72, 971-983 (Pubitemid 23110238)
2. Ross, C. A. and Tabrizi, S. J. (2011) Huntington's disease: from molecular pathogenesis to clinical treatment. Lancet Neurol. 10, 83-98
3. Stack, E. C., Matson, W. R. and Ferrante, R. J. (2008) Evidence of oxidant damage in Huntington's disease: translational strategies using antioxidants. Ann. N.Y. Acad. Sci. 1147, 79-92
4. Park, I. H., Arora, N., Huo, H., Maherali, N., Ahfeldt, T., Shimamura, A., Lensch, M. W., Cowan, C., Hochedlinger, K. and Daley, G. Q. (2008) Disease-specific induced pluripotent stem cells. Cell 134, 877-886
5. Park, I. H., Lerou, P. H., Zhao, R., Huo, H. and Daley, G. Q. (2008) Generation of human-induced pluripotent stem cells. Nat. Protoc. 3, 1180-1186
6. Kawasaki, H., Mizuseki, K., Nishikawa, S., Kaneko, S., Kuwana, Y., Nakanishi, S., Nishikawa, S. I. and Sasai, Y. (2000) Induction of midbrain dopaminergic neurons from ES cells by stromal cell-derived inducing activity. Neuron 28, 31-40
7. Jeon, I., Lee, N., Li, J. Y., Park, I. H., Park, K. S., Moon, J., Shim, S. H., Choi, C., Chang, D. J., Kwon, J. et al. (2012) Neuronal properties, in vivo effects and pathology of a Huntington's disease patient-derived induced pluripotent stem cells. Stem Cells, doi:10.1002/stem.1135
8. Kim, H., Lee, G., Ganat, Y., Papapetrou, E. P., Lipchina, I., Socci, N. D., Sadelain, M. and Studer, L. (2011) miR-371-3 expression predicts neural differentiation propensity in human pluripotent stem cells. Cell Stem Cell 8, 695-706
9. Johri, A. and Beal, M. F. (2011) Antioxidants in Huntington's disease. Biochim. Biophys. Acta. 1822, 644-674
10. Browne, S. E. and Beal, M. F. (2006) Oxidative damage in Huntington's disease pathogenesis. Antioxid. Redox Signaling 8, 2061-2073 (Pubitemid 46489631)
11. Hansen, J. M., Moriarty-Craige, S. and Jones, D. P. (2007) Nuclear and cytoplasmic peroxiredoxin-1 differentially regulate NF-κ B activities. Free Radical Biol. Med. 43, 282-288 (Pubitemid 46977170)
12. Cavallini, B., Huet, J., Plassat, J. L., Sentenac, A., Egly, J. M. and Chambon, P. (1988) A yeast activity can substitute for the HeLa cell TATA box factor. Nature 334, 77-80
13. Kanno, M., Chalut, C. and Egly, J. M. (1992) Genomic structure of the putative BTF3 transcription factor. Gene 117, 219-228
14. Guo, Z., Kozlov, S., Lavin, M. F., Person, M. D. and Paull, T. T. (2010) ATM activation by oxidative stress. Science 330, 517-521
15. So, S., Davis, A. J. and Chen, D. J. (2009) Autophosphorylation at serine 1981 stabilizes ATM at DNA damage sites. J. Cell Biol. 187, 977-990
16. Kastan, M. B. and Lim, D. S. (2000) The many substrates and functions of ATM. Nat. Rev. Mol. Cell. Biol. 1, 179-186
17. Peluffo, H., Acarin, L., Faiz, M., Castellano, B. and Gonzalez, B. (2005) Cu/Zn superoxide dismutase expression in the postnatal rat brain following an excitotoxic injury. J. Neuroinflammation 2, 12
18. Chae, J. I., Kim, J., Woo, S. M., Han, H. W., Cho, Y. K., Oh, K. B., Nam, K. H. and Kang, Y. K. (2009) Cytoskeleton-associated proteins are enriched in human embryonic-stem cell-derived neuroectodermal spheres. Proteomics 9, 1128-1141
19. Zhang, F. R., Tao, L. H., Shen, Z. Y., Lv, Z., Xu, L. Y. and Li, E. M. (2008) Fascin expression in human embryonic, fetal, and normal adult tissue. J. Histochem. Cytochem. 56, 193-199 (Pubitemid 351170971)
20. Browne, S. E., Ferrante, R. J. and Beal, M. F. (1999) Oxidative stress in Huntington's disease. Brain Pathol. 9, 147-163 (Pubitemid 29056525)
21. Perluigi, M., Poon, H. F., Maragos, W., Pierce, W. M., Klein, J. B., Calabrese, V., Cini, C., De Marco, C. and Butterfield, D. A. (2005) Proteomic analysis of protein expression and oxidative modification in R6/2 transgenic mice: a model of Huntington disease. Mol. Cell. Proteomics 4, 1849-1861 (Pubitemid 41830180)
22. Wyttenbach, A., Sauvageot, O., Carmichael, J., Diaz-Latoud, C., Arrigo, A. P. and Rubinsztein, D. C. (2002) Heat shock protein 27 prevents cellular polyglutamine toxicity and suppresses the increase of reactive oxygen species caused by huntingtin. Hum. Mol. Genet. 11, 1137-1151 (Pubitemid 34521094)
23. Sorolla, M. A., Reverter-Branchat, G., Tamarit, J., Ferrer, I., Ros, J. and Cabiscol, E. (2008) Proteomic and oxidative stress analysis in human brain samples of Huntington disease. Free Radical Biol. Med. 45, 667-678
24. Nguyen, H. N., Byers, B., Cord, B., Shcheglovitov, A., Byrne, J., Gujar, P., Kee, K., Schule, B., Dolmetsch, R. E., Langston, W. et al. (2011) LRRK2 mutant iPSC-derived DA neurons demonstrate increased susceptibility to oxidative stress. Cell Stem Cell 8, 267-280
25. Wood, Z. A., Schroder, E., Robin Harris, J. and Poole, L. B. (2003) Structure, mechanism and regulation of peroxiredoxins. Trends Biochem. Sci. 28, 32-40 (Pubitemid 36051004)
26. Zheng, X. M., Black, D., Chambon, P. and Egly, J. M. (1990) Sequencing and expression of complementary DNA for the general transcription factor BTF3. Nature 344, 556-559
27. Bloss, T. A., Witze, E. S. and Rothman, J. H. (2003) Suppression of CED-3-independent apoptosis by mitochondrial betaNAC in Caenorhabditis elegans. Nature 424, 1066-1071 (Pubitemid 37064308)
28. Brockstedt, E., Otto, A., Rickers, A., Bommert, K. and Wittmann-Liebold, B. (1999) Preparative high-resolution two-dimensional electrophoresis enables the identification of RNA polymerase B transcription factor 3 as an apoptosis-associated protein in the human BL60-2 Burkitt lymphoma cell line. J. Protein Chem. 18, 225-231 (Pubitemid 29217948)
29. Thiede, B., Dimmler, C., Siejak, F. and Rudel, T. (2001) Predominant identification of RNA-binding proteins in Fas-induced apoptosis by proteome analysis. J. Biol. Chem. 276, 26044-26050
30. Kusumawidjaja, G., Kayed, H., Giese, N., Bauer, A., Erkan, M., Giese, T., Hoheise, J. D., Friess, H. and Kleeff, J. (2007) Basic transcription factor 3 (BTF3) regulates transcription of tumor-associated genes in pancreatic cancer cells. Cancer Biol. Ther. 6, 367-376 (Pubitemid 47328304)
31. Miyashita, T. and Reed, J. C. (1995) Tumor suppressor p53 is a direct transcriptional activator of the human bax gene. Cell 80, 293-299
32. Powers, S. K., Kavazis, A. N. and McClung, J. M. (2007) Oxidative stress and disuse muscle atrophy. J. Appl. Physiol. 102, 2389-2397 (Pubitemid 47080773)
33. Culmsee, C. and Krieglstein, J. (2007) Ischaemic brain damage after stroke: new insights into efficient therapeutic strategies. International Symposium on Neurodegeneration and Neuroprotection. EMBO Rep. 8, 129-133 (Pubitemid 46420838)
34. Baker, S. J. and Reddy, E. P. (1998) Modulation of life and death by the TNF receptor superfamily. Oncogene 17, 3261-3270 (Pubitemid 29043978)
35. Yu, S. W., Andrabi, S. A., Wang, H., Kim, N. S., Poirier, G. G., Dawson, T. M. and Dawson, V. L. (2006) Apoptosis-inducing factor mediates poly(ADP-ribose) (PAR) polymer-induced cell death. Proc. Natl. Acad. Sci. U.S.A. 103, 18314-18319 (Pubitemid 44871655)
36. Kuhn, T. B., Meberg, P. J., Brown, M. D., Bernstein, B. W., Minamide, L. S., Jensen, J. R., Okada, K., Soda, E. A. and Bamburg, J. R. (2000) Regulating actin dynamics in neuronal growth cones by ADF/cofilin and rho family GTPases. J. Neurobiol. 44, 126-144
37. Meberg, P. J. and Bamburg, J. R. (2000) Increase in neurite outgrowth mediated by overexpression of actin depolymerizing factor. J. Neurosci. 20, 2459-2469 (Pubitemid 30220333)
38. Minamide, L. S., Striegl, A. M., Boyle, J. A., Meberg, P. J. and Bamburg, J. R. (2000) Neurodegenerative stimuli induce persistent ADF/cofilin-actin rods that disrupt distal neurite function. Nat. Cell Biol. 2, 628-636
39. Amat, J. A., Fields, K. L. and Schubart, U. K. (1991) Distribution of phosphoprotein p19 in rat brain during ontogeny: stage-specific expression in neurons and glia. Brain Res. Dev. Brain Res. 60, 205-218
40. Camoletto, P., Peretto, P., Bonfanti, L., Manceau, V., Sobel, A. and Fasolo, A. (1997) The cytosolic phosphoprotein stathmin is expressed in the olfactory system of the adult rat. NeuroReport 8, 2825-2829 (Pubitemid 27394800)
41. Curmi, P. A., Andersen, S. S., Lachkar, S., Gavet, O., Karsenti, E., Knossow, M. and Sobel, A. (1997) The stathmin/tubulin interaction in vitro. J. Biol. Chem. 272, 25029-25036 (Pubitemid 27415683)
42. Adams, J. C. (2004) Roles of fascin in cell adhesion and motility. Curr. Opin. Cell Biol. 16, 590-596
43. Hashimoto, Y., Skacel, M. and Adams, J. C. (2005) Roles of fascin in human carcinoma motility and signaling: prospects for a novel biomarker? Int. J. Biochem. Cell Biol. 37, 1787-1804 (Pubitemid 40961664)
44. De Arcangelis, A., Georges-Labouesse, E. and Adams, J. C. (2004) Expression of fascin-1, the gene encoding the actin-bundling protein fascin-1, during mouse embryogenesis. Gene Expr. Patterns 4, 637-643 (Pubitemid 39307527)
45. Kremer, B. E., Adang, L. A. and Macara, I. G. (2007) Septins regulate actin organization and cell-cycle arrest through nuclear accumulation of NCK mediated by SOCS7. Cell 130, 837-850 (Pubitemid 47332569)
46. Spiliotis, E. T., Hunt, S. J., Hu, Q., Kinoshita, M. and Nelson, W. J. (2008) Epithelial polarity requires septin coupling of vesicle transport to polyglutamylated microtubules. J. Cell Biol. 180, 295-303 (Pubitemid 351185916)
47. Low, C. and Macara, I. G. (2006) Structural analysis of septin 2, 6, and 7 complexes. J. Biol. Chem. 281, 30697-30706 (Pubitemid 44582125)
48. Sirajuddin, M., Farkasovsky, M., Hauer, F., Kuhlmann, D., Macara, I. G., Weyand, M., Stark, H. and Wittinghofer, A. (2007) Structural insight into filament formation by mammalian septins. Nature 449, 311-315 (Pubitemid 47443471)
49. Bahk, Y. Y., Kim, S. A., Kim, J. S., Euh, H. J., Bai, G. H., Cho, S. N. and Kim, Y. S. (2004) Antigens secreted from Mycobacterium tuberculosis: identification by proteomics approach and test for diagnostic marker. Proteomics 4, 3299-3307
50. Liu, T., Qian, W. J., Strittmatter, E. F., Camp, II, D. G., Anderson, G. A., Thrall, B. D. and Smith, R. D. (2004) High-throughput comparative proteome analysis using a quantitative cysteinyl-peptide enrichment technology. Anal. Chem. 76, 5345-5353 (Pubitemid 39249415)
51. Wang, H., Qian, W. J., Mottaz, H. M., Clauss, T. R., Anderson, D. J., Moore, R. J., Camp, II, D. G., Khan, A. H., Sforza, D. M., Pallavicini, M. et al. (2005) Development and evaluation of a micro- and nano-scale proteomic sample preparation method. J. Proteome Res. 4, 2397-2403 (Pubitemid 41818945)