Brain pH has a significant impact on human postmortem hippocampal gene expression profiles

Brain Research

Volumn 1106, Issue 1, 2006, Pages 1-11

  Mexal, S ^b   Berger, R ^b   Adams, C E ^b   Ross, R G ^b   Freedman, R ^a,b   Leonard, S ^a,b  

^a VETERANS AFFAIRS MEDICAL CENTER   (United States)

^b UNIVERSITY OF COLORADO   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

ADULT; AGED; ARTICLE; AUTOPSY; BRAIN REGION; BRAIN STEM; CAUDATE NUCLEUS; CEREBELLUM; CINGULATE GYRUS; CONTROLLED STUDY; FEMALE; GENE EXPRESSION; GENE EXPRESSION PROFILING; GENETIC VARIABILITY; HIPPOCAMPUS; HUMAN; HUMAN TISSUE; MALE; PH MEASUREMENT; PREDICTION; PRIORITY JOURNAL; SCHIZOPHRENIA; SEX ROLE; TEMPORAL CORTEX; THALAMUS;

ADULT; AGE FACTORS; AGED; FEMALE; GENE EXPRESSION; GENE EXPRESSION PROFILING; HIPPOCAMPUS; HUMANS; HYDROGEN-ION CONCENTRATION; HYPOXIA-ISCHEMIA, BRAIN; MALE; MIDDLE AGED; NERVE TISSUE PROTEINS; POSTMORTEM CHANGES; PREDICTIVE VALUE OF TESTS; RNA, MESSENGER; SCHIZOPHRENIA; SEX FACTORS; SMOKING;

EID: 33746720828     PISSN: 00068993     EISSN: None     Source Type: Journal    
DOI: 10.1016/j.brainres.2006.05.043     Document Type: Article

References (31)

1. Aston C., Jiang L., and Sokolov B.P. Transcriptional profiling reveals evidence for signaling and oligodendroglial abnormalities in the temporal cortex from patients with major depressive disorder. Mol. Psychiatry 10 (2004) 309-322
2. Barton A.J.L., Pearson R.C.A., Najlerahim A., and Harrison P.J. Pre- and postmortem influences on brain RNA. J. Neurochem. 61 (1993) 1-11
3. Benjamini Y., Drai D., Elmer G., Kafkafi N., and Golani I. Controlling the false discovery rate in behavior genetics research. Behav. Brain Res. 125 (2001) 279-284
4. Cervos-Navarro J., and Diemer N.H. Selective vulnerability in brain hypoxia. Crit. Rev. Neurobiol. 6 (1991) 149-182
5. Hakak Y., Walker J.R., Li C., Wong W.H., Davis K.L., Buxbaum J.D., Haroutunian V., and Fienberg A.A. Genome-wide expression analysis reveals dysregulation of myelination-related genes in chronic schizophrenia. Proc. Natl. Acad. Sci. 98 (2001) 4746-4751
6. Hardy J.A., Wester B., Winblad C., Gezelius G., Bring A., and Eriksson A. The patients dying after long terminal phase have acidotic brains; implications for biochemical measurements on autopsy tissue. J. Neural Transm. 61 (1985) 253-264
7. Harrison P.J. The neuropathology of schizophrenia. Brain 122 (1999) 593-624
8. Harrison P.J. The hippocampus in schizophrenia: a review of the neuropathological evidence and its pathophysiological implications. Psychopharmacology (Berlin) 174 (2004) 151-162
9. Harrison P.J., Heath P.R., Eastwood S.L., Burnet P.W.J., McDonald B., and Pearson R.C.A. The relative importance of premortem acidosis and postmortem interval for human brain gene expression studies: selective mRNA vulnerability and comparison with their encoded proteins. Neurosci. Lett. 200 (1995) 151-154
10. Hemby S., Ginsberg S., Brunk B., Arnold S., Trojanowski J., and Eberwine J.H. Gene expression profile for schizophrenia. Arch. Gen. Psychiatry 59 (2002) 631-640
11. Hollingshead D., Lewis D.A., and Mirnics K. Platform influence on DNA microarray data in postmortem brain research. Neurobiol. Dis. 18 (2005) 649-655
12. Hosack D.A., Dennis Jr. G., Sherman B.T., Lane H.C., and Lempicki R.A. Identifying biological themes within lists of genes with EASE. Genome Biol. 4 (2003) R70
13. Iwamoto K., Bundo M., and Kato T. Altered expression of mitochondria-related genes in postmortem brains of patients with bipolar disorder or schizophrenia, as revealed by large-scale DNA microarray analysis. Hum. Mol. Genet. 14 (2004) 241-253
14. Johnston N.L., Cervenak J., Shore A.D., Torrey E.F., and Yolken R.H. Multivariate analysis of RNA levels from postmortem human brains as measured by three different methods of RT-PCR. Stanley Neuropathology Consortium. J. Neurosci. Methods 77 (1997) 83-92
15. Kingsbury A.E., Foster O.J., Nisbet A.P., Cairns N., Bray L., Eve D.J., Lees A.J., and Marsden C.D. Tissue pH as an indicator of mRNA preservation in human post-mortem brain. Brain Res. Mol. Brain Res. 28 (1995) 311-318
16. Leonard S., Logel J., Luthman D., Casanova M., Kirch D., and Freedman R. Biological stability of mRNA isolated from human postmortem brain collections. Biol. Psychiatry 33 (1993) 456-466
17. Li J.Z., Vawter M.P., Walsh D.M., Tomita H., Evans S.J., Choudary P.V., Lopez J.F., Avelar A., Shokoohi V., Chung T., Mesarwi O., Jones E.G., Watson S.J., Akil H., Bunney Jr. W.E., and Myers R.M. Systematic changes in gene expression in postmortem human brains associated with tissue pH and terminal medical conditions. Hum. Mol. Genet. 13 (2004) 609-616
18. Mexal S., Frank M.G., Berger R., Adams C.E., Ross R.G., Freedman R., and Leonard S. Differential modulation of gene expression in the NMDA postsynaptic density of schizophrenic and control smokers. Brain Res. Mol. Brain Res. 139 (2005) 317-332
19. Middleton F.A., Mirnics K., Pierri J.N., Lewis D.A., and Levitt P. Gene expression profiling reveals alterations of specific metabolic pathways in schizophrenia. J. Neurosci. 22 (2002) 2718-2729
20. Mirnics K., and Lewis D.A. Genes and subtypes of schizophrenia. Trends Mol. Med. 7 (2001) 281-283
21. Mirnics K., Middleton F.A., Marquez A., Lewis D.A., and Levitt P. Molecular characterization of schizophrenia viewed by microarray analysis of gene expression in prefrontal cortex. Neuron 28 (2000) 53-67
22. Perry E.K., Perry R.H., and Tomlinson B.E. The influence of agonal status on some neurochemical activities of postmortem human brain tissue. Neurosci. Lett. 29 (1982) 303-307
23. Prabakaran S., Swatton J.E., Ryan M.M., Huffaker S.J., Huang J.T., Griffin J.L., Wayland M., Freeman T., Dudbridge F., Lilley K.S., Karp N.A., Hester S., Tkachev D., Mimmack M.L., Yolken R.H., Webster M.J., Torrey E.F., and Bahn S. Mitochondrial dysfunction in schizophrenia: evidence for compromised brain metabolism and oxidative stress. Mol. Psychiatry 9 (2004) 684-697 (643)
24. Preece P., and Cairns N.J. Quantifying mRNA in postmortem human brain: influence of gender, age at death, postmortem interval, brain pH, agonal state and inter-lobe mRNA variance. Brain Res. Mol. Brain Res. 118 (2003) 60-71
25. Reiner A., Yekutieli D., and Benjamini Y. Identifying differentially expressed genes using false discovery rate controlling procedures. Bioinformatics 19 (2003) 368-375
26. Taylor G.R., Carter G.I., Crow T.J., Johnson J.A., Fairbairn A.F., Perry E.K., and Perry R.H. Recovery and measurement of specific RNA species from postmortem brain tissue: a general reduction in Alzheimer's disease detected by molecular hybridization. Exp. Mol. Pathol. 44 (1986) 111-116
27. Tkachev D., Mimmack M.L., Ryan M.M., Wayland M., Freeman T., Jones P.B., Starkey M., Webster M.J., Yolken R.H., and Bahn S. Oligodendrocyte dysfunction in schizophrenia and bipolar disorder. Lancet 362 (2003) 798-805
28. Tomita H., Vawter M.P., Walsh D.M., Evans S.J., Choudary P.V., Li J., Overman K.M., Atz M.E., Myers R.M., Jones E.G., Watson S.J., Akil H., and Bunney W.E. Effect of agonal and postmortem factors on gene expression profile: quality control in microarray analyses of postmortem human brain. Biol. Psychiatry 55 (2004) 346-352
29. Vawter M.P., Crook J., Hyde T., Kleinman J., Weinberger D., Becker K., and Freed W. Microarray analysis of gene expression in the prefrontal cortex in schizophrenia: a preliminary study. Schiz. Res. 58 (2002) 11-20
30. Vawter M.P., Shannon W.C., Ferran E., Matsumoto M., Overman K., Hyde T.M., Weinberger D.R., Bunney W.E., and Kleinman J.E. Gene expression of metabolic enzymes and a protease inhibitor in the prefrontal cortex are decreased in schizophrenia. Neurochem. Res. 29 (2004) 1245-1255
31. Yates C.M., Butterworth J., Tennant M.C., and Gordon A. Enzyme activities in relation to pH and lactate in postmortem brain in Alzheimer-type and other dementias. J. Neurochem. 55 (1990) 1624-1630