Alcohol
Volume 44, Issue 2 , Pages 171-183 , March 2010

Changes in gene expression in regions of the extended amygdala of alcohol-preferring rats after binge-like alcohol drinking

  • William J. McBride

      Affiliations

    • Department of Psychiatry, Institute of Psychiatric Research, Indiana University School of Medicine, Indiana University–Purdue University at Indianapolis, Indianapolis, IN 46202-4887, USA
    • Corresponding Author InformationCorresponding author. Tel.: +1-317-274-3820; fax: +1-317-274-1365.
    • ,
  • Mark W. Kimpel

      Affiliations

    • Department of Psychiatry, Institute of Psychiatric Research, Indiana University School of Medicine, Indiana University–Purdue University at Indianapolis, Indianapolis, IN 46202-4887, USA
    • ,
  • Jonathan A. Schultz

      Affiliations

    • Department of Psychiatry, Institute of Psychiatric Research, Indiana University School of Medicine, Indiana University–Purdue University at Indianapolis, Indianapolis, IN 46202-4887, USA
    • ,
  • Jeanette N. McClintick

      Affiliations

    • Department of Biochemistry and Molecular Biology and Center for Medical Genomics, Indiana University School of Medicine, Indiana University–Purdue University at Indianapolis, Indianapolis, IN 46202-4887, USA
    • ,
  • Howard J. Edenberg

      Affiliations

    • Department of Biochemistry and Molecular Biology and Center for Medical Genomics, Indiana University School of Medicine, Indiana University–Purdue University at Indianapolis, Indianapolis, IN 46202-4887, USA
    • ,
  • Richard L. Bell

      Affiliations

    • Department of Psychiatry, Institute of Psychiatric Research, Indiana University School of Medicine, Indiana University–Purdue University at Indianapolis, Indianapolis, IN 46202-4887, USA

Received 6 August 2009 ,Revised 13 November 2009 ,Accepted 14 December 2009.

References 

  1. Al-Housseini AM, Sivanandam TM, Bradbury EL, Tannenberg RK, Dodd PR, Gu Q. Upregulation of β-catenin levels in superior frontal cortex of chronic alcoholics. Alcohol. Clin. Exp. Res. 2008;32:1080–1090
  2. Alexander-Kaufman K, Harper C, Wilce P, Matsumoto I. Cerebellar vermis proteome of chronic alcoholic individuals. Alcohol. Clin. Exp. Res. 2007;31:1286–1296
  3. Alexander-Kaufman K, James G, Sheedy D, Harper C, Matsumoto I. Differential protein expression in the prefrontal white matter of human alcoholics: a proteomics study. Mol. Psychiatry. 2006;11:56–65
  4. Ashburner M, Ball CA, Blake JA, Botstein D, Butler H, Cherry JM, et al. Gene ontology: tool for the unification of biology. The Gene Ontology Consortium. Nat. Genet. 2000;25:25–29
  5. Barrett T, Suzek TO, Troup DB, Wilhite SE, Ngau WC, Ledoux P, et al. NCBI GEO: mining millions of expression profiles—database and tools. Database issue Nucleic Acids Res. 2005;33:D562–D566
  6. Bell RL, Kimpel MW, McClintick JN, Strother WN, Carr LG, Liang T, et al. Gene expression changes in the nucleus accumbens of alcohol-preferring rats following chronic ethanol consumption. Pharmacol. Biochem. Behav. 2009;94:131–147
  7. Bell RL, Kimpel MW, Rodd ZA, Strother WN, Bai F, Peper CL, et al. Protein expression changes in the nucleus accumbens and amygdala of inbred alcohol-preferring rats given either continuous or scheduled access to ethanol. Alcohol. 2006;40:3–17
  8. Bell RL, Rodd ZA, Murphy JM, McBride WJ. Use of selectively bred alcohol-preferring rats to study alcohol abuse, relapse and craving. In:  Preedy VR,  Watson RR editor. Comprehensive Handbook of Alcohol Related Pathology. Vol. 3:New York, NY: Academic Press, Elsevier Science; 2005;p. 1515–1533
  9. Bice P, Foroud T, Bo R, Castelluccio P, Lumeng L, Li T-K, et al. Genomic screen for QTLs underlying alcohol consumption in the P and NP rat lines. Mamm. Genome. 1998;9:949–955
  10. Carr LG, Foroud T, Bice P, Gobbett T, Ivashina J, Edenberg HJ, et al. Mapping of a quantitative trait locus for alcohol consumption in selectively bred rat lines. Alcohol. Clin. Exp. Res. 1998;22:884–887
  11. Carr LG, Habegger K, Spence J, Ritchotte A, Liu L, Lumeng L, et al. Analyses of quantitative trait loci contributing to alcohol preference in HAD1/LAD1 and HAD2/LAD2 rats. Alcohol. Clin. Exp. Res. 2003;27:1710–1717
  12. Carr LG, Kimpel MW, Liang T, McClintick JN, McCall K, Morse M, et al. Identification of candidate genes for alcohol preference by expression profiling of congenic rat strains. Alcohol. Clin. Exp. Res. 2007;31:1089–1098
  13. Chen AC, Tang Y, Rangaswamy M, Wang JC, Almasy L, Foroud T, et al. Association of single nucleotide polymorphisms in a glutamate receptor gene (GRM8) with theta power of event-related oscillations and alcohol dependence. Am. J. Med. Genet. B Neuropyschiatr. Genet. 2009;150B:359–368
  14. Dick DM, Wang JC, Plunkett J, Aliev F, Hinrichs A, Bertelsen S, et al. Family-based association analyses of alcohol dependence phenotypes across DRD2 and neighboring gene ANKK1. Alcohol. Clin. Exp. Res. 2007;31:1645–1653
  15. Edenberg HJ, Strother WN, McClintick JN, Tian H, Stephans M, Jerome RE, et al. Gene expression in the hippocampus of inbred alcohol-preferring and -nonpreferring rats. Genes Brain Behav. 2005;4:20–30
  16. Edgar R, Domrachev M, Lash AE. Gene Expression Omnibus: NCBI gene expression and hybridization array data repository. Nucleic Acids Res. 2002;30:207–210
  17. Flatscher-Bader T, van der Brug M, Hwang JW, Gochee PA, Matsumoto I, Niwa S, et al. Alcohol-responsive genes in the frontal cortex and nucleus accumbens of human alcoholics. J. Neurochem. 2005;93:359–370
  18. Foroud T, Ritchotte A, Spence J, Liu L, Lumeng L, Li T-K, et al. Confirmation of alcohol preference quantitative trait loci in the replicate high alcohol drinking and low alcohol drinking rat lines. Psychiatr. Genet. 2003;13:155–161
  19. Frick M, Bright NA, Riento K, Bray A, Merrified C, Nichols BJ. Coassembly of flotillins induces formation of membrane microdomains, membrane curvature, and vesicle budding. Curr. Biol. 2007;17:1151–1156
  20. Gentleman, R.C. (2004). Using GO for statistical analysis. Proc. COMPSTAT, 171–180.
  21. Gentleman RC, Carey VJ, Bates DM, Bolstad B, Dettling M, Dudoit S, et al. Bioconductor: open software development for computational biology and bioinformatics. Genome Biol. 2004;5:R80
  22. Harris MA, Clark J, Ireland A, Lomax J, Ashburner M, Foulger R, et al. The Gene Ontology (GO) database and informatics resource. Database issue Nucleic Acids Res. 2004;32:D258–D261
  23. Ikemoto S, Glazier BS, Murphy JM, McBride WJ. Role of D1 and D2 receptors in the nucleus accumbens in mediating reward. J. Neurosci. 1997;17:8580–8587
  24. Irizarry RA, Hobbs B, Collin F, Beazer-Barclay YD, Antonellis KJ, Scherf U, et al. Exploration, normalization, and summaries of high density oligonucleotide array probe level data. Biostatistics. 2003;4:249–264
  25. Kalivas PW, Churchill L, Klitenick MA. The circuitry mediating the translation of motivational stimuli into adaptive motor responses. In:  Kalivas PW,  Barnes CD editor. Limbic Motor Circuits and Neuropsychiatry. Boca Raton, FL: CRC Press; 1993;p. 237–288
  26. Kerns RT, Ravindranathan A, Hassan S, Cage MP, York T, Sikela JM, et al. Ethanol-responsive brain region expression networks: implications for behavioral responses to acute ethanol in DBA/2J versus C57BL/6J mice. J. Neurosci. 2005;25:2255–2266
  27. Kimpel MW, Strother WN, McClintick JN, Carr LG, Edenberg HJ, McBride WJ. Functional gene expression differences between inbred alcohol-preferring (iP) and -non-preferring (iNP) rats in five brain regions. Alcohol. 2007;41:95–132
  28. Koob GF, Le Moal M. Neurobiological mechanisms for opponent motivational processes in addiction. Philos. Trans. R. Soc. Lond., B, Biol. Sci. 2008;363:3113–3123
  29. Koob GF, Roberts AJ, Schulteis G, Parsons LF, Heyser CJ, Hyytia P, et al. Neurocircuitry targets in ethanol reward and dependence. Alcohol. Clin. Exp. Res. 1998;22:3–9
  30. Kwinter DM, Lo K, Mafi P, Silverman MA. Dynactin regulates bidirectional transport of dense-core vesicles in the axon and dendrites of cultured hippocampal neurons. Neuroscience. 2009;162:1001–1010
  31. Lewohl JM, Van Dyk DD, Craft GE, Innes DJ, Mayfield RD, Cobon G, et al. The application of proteomics to the human alcoholic brain. Ann. N. Y. Acad. Sci. 2004;1025:14–26
  32. Lewohl JM, Wang L, Miles MF, Zhang L, Dodd PR, Harris RA. Gene expression in human alcoholism: microarray analysis of frontal cortex. Alcohol. Clin. Exp. Res. 2000;24:1873–1882
  33. Liu J, Lewohl JM, Dodd PR, Randall PK, Harris RA, Mayfield RD. Gene expression profiling of individual cases reveals consistent transcriptional changes in alcoholic human brain. J. Neurochem. 2004;90:1050–1058
  34. Liu J, Lewohl JM, Harris RA, Iyer VR, Dodd PR, Randall PK, et al. Patterns of gene expression in the frontal cortex discriminate alcoholic from nonalcoholic individuals. Neuropsychopharmacology. 2006;31:1574–1582
  35. Matsumoto I, Alexander-Kaufman K, Iwazaki T, Kashem MA, Matsuda-Matsumoto H. CNS proteomes in alcohol and drug abuse and dependence. Expert Rev. Proteomics. 2007;4:539–552
  36. Mayfield RD, Lewohl JM, Dodd PR, Herlihy A, Liu J, Harris RA. Patterns of gene expression are altered in the frontal and motor cortices of human alcoholics. J. Neurochem. 2002;81:802–813
  37. McBride WJ. Central nucleus of the amygdala and the effects of alcohol and alcohol-drinking behavior in rodents. Pharmacol. Biochem. Behav. 2002;71:509–515
  38. McBride WJ, Li TK. Animal models of alcoholism: neurobiology of high alcohol-drinking behavior in rodents. Crit. Rev. Neurobiol. 1998;12:339–369
  39. McBride WJ, Schultz JA, Kimpel MW, McClintick JN, Wang M, You J, et al. Differential effects of ethanol in the nucleus accumbens shell of alcohol-preferring (P), alcohol-non-preferring (NP) and Wistar rats: a proteomics study. Pharmacol. Biochem. Behav. 2009;92:304–313
  40. McClintick JN, Jerome RE, Nicholson CR, Crabb DW, Edenberg HJ. Reproducibility of oligonucleotide arrays using small samples. BMC Genomics. 2003;4:1–15
  41. Merkwirth C, Langer T. Prohibitin function within mitochondria: essential roles for cell proliferation and cristae morphogenesis. Biochim. Biophys. Acta. 2009;1793:27–32
  42. Mulligan MK, Ponomerav I, Hitzemann RJ, Belknap JK, Tabakoff B, Harris RA, et al. Toward understanding the genetics of alcohol drinking through transcriptome meta-analysis. Proc. Natl. Acad. Sci. U.S.A. 2006;103:6368–6373
  43. Murphy JM, Gatto GJ, Waller MB, McBride WJ, Lumeng L, Li TK. Effects of scheduled access on ethanol intake by the alcohol-preferring P line of rats. Alcohol. 1986;3:331–336
  44. Murphy JM, Stewart RB, Bell RL, Badia-Elder NE, Carr LG, McBride WJ, et al. Phenotypic and genotypic characterization of the Indiana University rat lines selectively bred for high and low alcohol preference. Behav. Genet. 2002;32:363–388
  45. National Research Council (1996). Guide for the Care and Use of Laboratory Animals. Institute of Laboratory Animal Resources, Commission on Life Sciences.
  46. Pan PY, Cai Q, Lin L, Lu PH, Duan S, Sheng AH. SNAP-29-mediated modulation of synaptic transmission in cultured hippocampal neurons. J. Biol. Chem. 2005;280:25769–25779
  47. Paxinos G, Watson C. The Rat Brain in Stereotaxic Coordinates. New York, NY: Academic Press; 1998;
  48. Qin B, He M, Chen X, Pei D. Sorting nexin 10 induces giant vacuoles in mammalian cells. J. Biol. Chem. 2006;281:36891–36896
  49. R Foundation for Statistical Computing (2005). R: A language and environment for statistical computing version 2.2.0.
  50. Roberts AJ, Cole M, Koob GF. Intra-amygdala muscimol decreases operant ethanol self-administration in dependent rats. Alcohol. Clin. Exp. Res. 1996;20:1289–1298
  51. Rodd ZA, Kimpel MW, Edenberg HJ, Bell RL, Strother WN, McClintick JN, et al. Differential gene expression in the nucleus accumbens with ethanol self-administration in inbred alcohol-preferring rats. Pharmacol. Biochem. Behav. 2008;89:481–498
  52. Rodd-Henricks ZA, Bell RL, Kuc KA, Murphy JM, McBride WJ, Lumeng L, et al. Effects of concurrent access to multiple ethanol concentrations and repeated deprivations on alcohol intake of alcohol-preferring rats. Alcohol. Clin. Exp. Res. 2001;25:1140–1150
  53. Saito M, Smiley J, Toth R, Vadasz C. Microarray analysis of gene expression in rat hippocampus after chronic ethanol treatment. Neurochem. Res. 2002;27:1221–1229
  54. Saito M, Szakall I, Toth R, Kovacs KM, Oros M, Prasad VV, et al. Mouse striatal transcriptome analysis: effects of oral self-administration of alcohol. Alcohol. 2004;32:223–241
  55. Smyth GK. Linear models and empirical Bayes methods for assessing differential expression in microarray experiments. Stat. Appl. Genet. Mol. Biol. 2004;3:263–273
  56. Storey JD, Taylor JE, Siegmund D. Strong control, conservative point estimation, and simultaneous conservative consistency of false discovery rates: a unified approach. J. R. Stat. Soc. Series B Stat. Methodol. 2004;66:187–205
  57. Strat YL, Ramoz N, Schumann G, Gorwood P. Molecular genetics of alcohol dependence and related endophenotypes. Curr. Genomics. 2008;9:444–451
  58. Swanwick CC, Shapiro ME, Yi Z, Chang K, Wenthold RJ. NMDA receptors interact with flotillin-1 and -2, lipid raft-associated proteins. FEBS Lett. 2009;583:1226–1230
  59. Treadwell JA, Singh SM. Microarray analysis of mouse brain gene expression following acute ethanol treatment. Neurochem. Res. 2004;29:357–369
  60. Wang JC, Grucza R, Cruchaga C, Hinrichs AL, Bertelsen S, Budde JP, et al. Genetic variation in the CHRNA5 gene affects mRNA levels and is associated with risk for alcohol dependence. Mol. Psychiatry. 2009;14:501–510

PII: S0741-8329(09)00233-X

doi: 10.1016/j.alcohol.2009.12.001

Alcohol
Volume 44, Issue 2 , Pages 171-183 , March 2010

Article Tools

* Image Usage & Resolution