Metabolic States Following Accumulation of Intracellular Aggregates: Implications for Neurodegenerative Diseases

PLoS ONE

Volumn 8, Issue 5, 2013, Pages

  Vazquez, Alexei ^a  

^a ROBERT WOOD JOHNSON MEDICAL SCHOOL   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

AMMONIA; GLUCOSE; HISTIDINE; LACTIC ACID;

ARTICLE; CELL ACTIVITY; CELL AGGREGATION; CELL DEATH; CELL ENERGY; CELL METABOLISM; CONCENTRATION (PARAMETERS); CONTROLLED STUDY; DEGENERATIVE DISEASE; ENERGY METABOLISM; ENZYME DEGRADATION; ENZYME SUBSTRATE; GLUCOSE TRANSPORT; GLUCOSE UTILIZATION; GLYCOLYSIS; HUMAN; HUMAN CELL; NERVE CELL; OXIDATIVE PHOSPHORYLATION; PROCESS OPTIMIZATION; PROTEIN AGGREGATION;

AMMONIA; CELLS; COMPUTER SIMULATION; GLUCOSE; HUMANS; INTRACELLULAR SPACE; LACTIC ACID; METABOLIC FLUX ANALYSIS; NEURODEGENERATIVE DISEASES; PROTEIN STRUCTURE, QUATERNARY;

EID: 84877153382     PISSN: None     EISSN: 19326203     Source Type: Journal    
DOI: 10.1371/journal.pone.0063822     Document Type: Article

References (50)

1. Trojanowski JQ, Goedert M, Iwatsubo T, Lee VM, (1998) Fatal attractions: abnormal protein aggregation and neuron death in Parkinson's disease and Lewy body dementia. Cell Death Differ 5: 832-837.
2. Ross CA, Poirier MA, (2004) Protein aggregation and neurodegenerative disease. Nat Med 10Suppl: S10-17.
3. Irvine GB, El-Agnaf OM, Shankar GM, Walsh DM, (2008) Protein aggregation in the brain: the molecular basis for Alzheimer's and Parkinson's diseases. Mol Med 14: 451-464.
4. Wanker EE, (2000) Protein aggregation and pathogenesis of Huntington's disease: mechanisms and correlations. Biol Chem 381: 937-942.
5. Hoffner G, Djian P, (2002) Protein aggregation in Huntington's disease. Biochimie 84: 273-278.
6. Askanas V, Engel WK, (2002) Inclusion-body myositis and myopathies: different etiologies, possibly similar pathogenic mechanisms. Curr Opin Neurol 15: 525-531.
7. Roos PM, Vesterberg O, Nordberg M, (2011) Inclusion body myositis in Alzheimer's disease. Acta Neurol Scand 124: 215-217.
8. Roth J, Yam GH, Fan J, Hirano K, Gaplovska-Kysela K, et al. (2008) Protein quality control: the who's who, the where's and therapeutic escapes. Histochem Cell Biol 129: 163-177.
9. Ceru S, Layfield R, Zavasnik-Bergant T, Repnik U, Kopitar-Jerala N, et al. (2010) Intracellular aggregation of human stefin B: confocal and electron microscopy study. Biol Cell 102: 319-334.
10. Baloyannis SJ, Costa V, Michmizos D, (2004) Mitochondrial alterations in Alzheimer's disease. Am J Alzheimers Dis Other Demen 19: 89-93.
11. Kim J, Moody JP, Edgerly CK, Bordiuk OL, Cormier K, et al. (2010) Mitochondrial loss, dysfunction and altered dynamics in Huntington's disease. Hum Mol Genet 19: 3919-3935.
12. Sheng B, Wang X, Su B, Lee HG, Casadesus G, et al. (2012) Impaired mitochondrial biogenesis contributes to mitochondrial dysfunction in Alzheimer's disease. J Neurochem 120: 419-429.
13. Trushina E, Nemutlu E, Zhang S, Christensen T, Camp J, et al. (2012) Defects in mitochondrial dynamics and metabolomic signatures of evolving energetic stress in mouse models of familial Alzheimer's disease. PLoS One 7: e32737.
14. Kopeikina KJ, Carlson GA, Pitstick R, Ludvigson AE, Peters A, et al. (2011) Tau accumulation causes mitochondrial distribution deficits in neurons in a mouse model of tauopathy and in human Alzheimer's disease brain. Am J Pathol 179: 2071-2082.
15. Zimmerman SB, Trach SO, (1991) Estimation of macromolecule concentrations and excluded volume effects for the cytoplasm of Escherichia coli. J Mol Biol 222: 599-620.
16. Alberts B (2008) Molecular biology of the cell. New York: Garland Science. 1 v. (various pagings) p.
17. Minton AP, (2001) The influence of macromolecular crowding and macromolecular confinement on biochemical reactions in physiological media. J Biol Chem 276: 10577-10580.
18. Vazquez A, (2010) Optimal cytoplasmatic density and flux balance model under macromolecular crowding effects. J Theor Biol 264: 356-359.
19. Hu Y, Wilson GS, (1997) A temporary local energy pool coupled to neuronal activity: fluctuations of extracellular lactate levels in rat brain monitored with rapid-response enzyme-based sensor. J Neurochem 69: 1484-1490.
20. Mangia S, Garreffa G, Bianciardi M, Giove F, Di Salle F, et al. (2003) The aerobic brain: lactate decrease at the onset of neural activity. Neuroscience 118: 7-10.
21. Kasischke KA, Vishwasrao HD, Fisher PJ, Zipfel WR, Webb WW, (2004) Neural activity triggers neuronal oxidative metabolism followed by astrocytic glycolysis. Science 305: 99-103.
22. Jenkins BG, Koroshetz WJ, Beal MF, Rosen BR, (1993) Evidence for impairment of energy metabolism in vivo in Huntington's disease using localized 1H NMR spectroscopy. Neurology 43: 2689-2695.
23. Harms L, Meierkord H, Timm G, Pfeiffer L, Ludolph AC, (1997) Decreased N-acetyl-aspartate/choline ratio and increased lactate in the frontal lobe of patients with Huntington's disease: a proton magnetic resonance spectroscopy study. J Neurol Neurosurg Psychiatry 62: 27-30.
24. Hoyer S, Nitsch R, Oesterreich K, (1990) Ammonia is endogenously generated in the brain in the presence of presumed and verified dementia of Alzheimer type. Neurosci Lett 117: 358-362.
25. Seiler N, (2002) Ammonia and Alzheimer's disease. Neurochem Int 41: 189-207.
26. Vazquez A, Markert EK, Oltvai ZN, (2011) Serine biosynthesis with one carbon catabolism and the glycine cleavage system represents a novel pathway for ATP generation. Plos One 6: e25881.
27. Mo ML, Jamshidi N, Palsson BO, (2007) A genome-scale, constraint-based approach to systems biology of human metabolism. Mol Biosyst 3: 598-603.
28. Shlomi T, Cabili MN, Herrgard MJ, Palsson BO, Ruppin E, (2008) Network-based prediction of human tissue-specific metabolism. Nat Biotechnol 26: 1003-1010.
29. Jerby L, Shlomi T, Ruppin E, (2010) Computational reconstruction of tissue-specific metabolic models: application to human liver metabolism. Mol Syst Biol 6: 401.
30. Lewis NE, Schramm G, Bordbar A, Schellenberger J, Andersen MP, et al. (2010) Large-scale in silico modeling of metabolic interactions between cell types in the human brain. Nature Biotechnology 28: 1279-1285.
31. Sheikh K, Forster J, Nielsen LK, (2005) Modeling hybridoma cell metabolism using a generic genome-scale metabolic model of Mus musculus. Biotechnol Prog 21: 112-121.
32. Maisonneuve E, Ezraty B, Dukan S, (2008) Protein aggregates: an aging factor involved in cell death. J Bacteriol 190: 6070-6075.
33. Hirai K, Aliev G, Nunomura A, Fujioka H, Russell RL, et al. (2001) Mitochondrial abnormalities in Alzheimer's disease. J Neurosci 21: 3017-3023.
34. Vazquez A, de Menezes MA, Barabasi AL, Oltvai ZN, (2008) Impact of limited solvent capacity on metabolic rate, enzyme activities, and metabolite concentrations of S. cerevisiae glycolysis. PLoS Comput Biol 4: e1000195.
35. Vazquez A, Liu J, Zhou Y, Oltvai ZN, (2010) Catabolic efficiency of aerobic glycolysis: The Warburg effect revisited. BMC Syst Biol 4: 58.
36. Vazquez A, Oltvai ZN, (2011) Molecular crowding defines a common origin for the warburg effect in proliferating cells and the lactate threshold in muscle physiology. Plos One 6: e19538.
37. Schomburg I, Chang A, Schomburg D, (2002) BRENDA, enzyme data and metabolic information. Nucleic Acids Res 30: 47-49.
38. Glas U, Bahr GF, (1966) Quantitative study of mitochondria in rat liver. Dry mass, wet mass, volume, and concentration of solids. J Cell Biol 29: 507-523.
39. Schwerzmann K, Hoppeler H, Kayar SR, Weibel ER, (1989) Oxidative capacity of muscle and mitochondria: correlation of physiological, biochemical, and morphometric characteristics. Proc Natl Acad Sci U S A 86: 1583-1587.
40. Wibom R, Hultman E, Johansson M, Matherei K, Constantin-Teodosiu D, et al. (1992) Adaptation of mitochondrial ATP production in human skeletal muscle to endurance training and detraining. J Appl Physiol 73: 2004-2010.
41. Short KR, Nygren J, Barazzoni R, Levine J, Nair KS, (2001) T(3) increases mitochondrial ATP production in oxidative muscle despite increased expression of UCP2 and-3. Am J Physiol Endocrinol Metab 280: E761-769.
42. Hou XY, Green S, Askew CD, Barker G, Green A, et al. (2002) Skeletal muscle mitochondrial ATP production rate and walking performance in peripheral arterial disease. Clin Physiol Funct Imaging 22: 226-232.
43. Princiotta MF, Finzi D, Qian SB, Gibbs J, Schuchmann S, et al. (2003) Quantitating protein synthesis, degradation, and endogenous antigen processing. Immunity 18: 343-354.
44. Lee B, (1983) Calculation of volume fluctuation for globular protein models. Proc Natl Acad Sci U S A 80: 622-626.
45. Alberts B (2008) Molecular biology of the cell. New York, N.Y.,: Garland Science. xxxiii,1601p.
46. Brocchieri L, Karlin S, (2005) Protein length in eukaryotic and prokaryotic proteomes. Nucleic Acids Res 33: 3390-3400.
47. Frame KK, Hu WS, (1990) Cell volume measurement as an estimation of mammalian cell biomass. Biotechnol Bioeng 36: 191-197.
48. Zhou EH, Trepat X, Park CY, Lenormand G, Oliver MN, et al. (2009) Universal behavior of the osmotically compressed cell and its analogy to the colloidal glass transition. Proc Natl Acad Sci U S A 106: 10632-10637.
49. Savinell JM, Palsson BO, (1992) Network analysis of intermediary metabolism using linear optimization. I. Development of mathematical formalism. J Theor Biol 154: 421-454.
50. Yang E, van Nimwegen E, Zavolan M, Rajewsky N, Schroeder M, et al. (2003) Decay rates of human mRNAs: correlation with functional characteristics and sequence attributes. Genome Res 13: 1863-1872.