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

paper Cited Public

Authors: McBride, William J; Kimpel, Mark W; Schultz, Jonathan A; McClintick, Jeanette N; Edenberg, Howard J; Bell, Richard L
Year: 2010
Journal: Alcohol (Fayetteville, N.Y.)
PMID: 20116196
DOI: 10.1016/j.alcohol.2009.12.001
PMCID: PMC2831121

#	Section	Preview
0	Introduction	Examining changes in gene expression resulting from chronic ethanol drinking could provide clues to…
1	Introduction	Alterations in gene expression produced by exposure to alcohol have been reported in several studies…
2	Introduction	found no statistically significant effects of chronic free-choice alcohol drinking on gene…
3	Introduction	Bell et al. (2006) examined the effects of chronic alcohol drinking by alcohol-preferring (P) rats…
4	Introduction	pathways and transcription factors were found between the continuous access and water control…
5	Introduction	Animal models have been used to study the influence of genetic factors on the effects of alcohol and…
6	Introduction	rats (Kimpel et al., 2007). Previously, it was established that P rats, given one-hour access to 10%…
7	Introduction	Evidence supports the involvement of the ACB in mediating ethanol drinking (reviewed in Koob et al.,…
8	Materials and methods	Subjects were adult (approximately 90 days old at the start of the experiment), ethanol-naïve, male…
9	Materials and methods	The animals used in these experiments were maintained in facilities fully accredited by the…
10	Materials and methods	In the 8th week, rats (in this single cohort) were killed by decapitation 1, 6 or 24 hr (n = 10/time…
11	Materials and methods	Brains were stored at −70° C until sectioned. On the day of preparation of micro-punch samples,…
12	Materials and methods	The micro-punched samples were immediately homogenized in Trizol reagent (Invitrogen, Carlsbad, CA)…
13	Materials and methods — Microarray procedures	Separate preparations of total RNA were made from individual CNS regions from each animal. Samples…
14	Materials and methods — Microarray procedures	To minimize potential systematic errors, all stages of the experiment were balanced across…
15	Materials and methods — Microarray procedures	Each GeneChip® was scanned using an Affymetrix Model 3000 scanner and underwent image analysis…
16	Materials and methods — Statistical and neuroinformatics analysis of microarray data	Raw cel files were imported into the statistical programming environment R (R: A language and…
17	Materials and methods — Statistical and neuroinformatics analysis of microarray data	out. We next filtered out probe sets that were not detectable above background in our samples,; this…
18	Materials and methods — Statistical and neuroinformatics analysis of microarray data	to Storey et al., 2004) less than 0.25 for the ACB-shell and 0.10 for the CeA. These FDR values were…
19	Materials and methods — Statistical and neuroinformatics analysis of microarray data	Testing for over-representation of GO (Harris et al., 2004; Ashburner et al., 2000) biological…

Name	Type
23 named genes local	gene
24-hr free-choice drinking study local	cohort
Acb	cohort
ACB-shell local	cohort
Accumbens (ACB) local	anatomy
Affymetrix GCOS software local	drug
Affymetrix kits local	drug
Affymetrix Model 3000 scanner local	drug
Affymetrix Rat Genome 230 2.0 GeneChips local	drug
Agilent 2100 Bioanalyzer	drug
Akt	gene
Alc17 local	phenotype
Alc4 local	phenotype
alcohol	phenotype
alcoholism	phenotype
alcohol preference	phenotype
alcohol-preferring rats	cohort
alcohol self-administration	phenotype
Alcohol Use	phenotype
AMPA1 local	gene
AMPA receptors local	gene
amygdala	anatomy
animal models	cohort
Axin2 local	gene
axonogenesis	phenotype
Bat5 local	gene
Bell et al., 2009 study local	cohort
binge alcohol drinking local	phenotype
binge-alcohol drinking local	phenotype
binge-like alcohol drinking local	phenotype
binge-like alcohol-drinking model local	phenotype
binge-like alcohol intake local	phenotype
blood alcohol concentration	phenotype
blood alcohol levels	phenotype
body weight	phenotype
brain	anatomy
C57BL/6By mice local	cohort
C57BL/6By mouse local	cohort
C57BL/6J	cohort
Calcium-binding proteins local	gene
Calm3 local	gene
cancer	phenotype
Capzb local	gene
Cd99	gene
cDNA synthesis local	drug
CeA	anatomy
cell projection morphogenesis local	phenotype
cell projection morphogenesis-neurite development local	phenotype
central amygdala	anatomy
Chronic alcohol drinking local	phenotype
chronic alcoholism	phenotype
Chronic ethanol drinking local	phenotype
chronic free-choice alcohol drinking local	phenotype
Cnd1 local	gene
CNS region samples local	cohort
Collaborative Study on the Genetics of Alcoholism (COGA)	cohort
combined BP category local	phenotype
conditioning	phenotype
congenic rat strains local	cohort
Continuous 24-hr access local	phenotype
Continuous Access Group local	cohort
control group	cohort
controls	cohort
Cox6a1	gene
cRNA	drug
Cst3	gene
CYB5R3 local	gene
Cytokine/proinflammatory factors local	gene
cytoskeletal organization and biogenesis local	phenotype
DBA/2J	cohort
DCTN1 local	gene
DCTN2 local	gene
demyelination	phenotype
dependence-induced alcohol drinking local	phenotype
dependence-induced drinking	phenotype
Dgkg	anatomy
Dopamine receptor subtypes local	gene
dorsal hippocampus	anatomy
drug dependence	phenotype
enzyme-linked receptor protein signaling pathway local	phenotype
ethanol consumption	phenotype
Ethanol Drinking Episodes local	phenotype
Ethanol drinking group local	cohort
ethanol group	cohort
Ethanol groups local	cohort
ethanol preference	phenotype
ethanol preference scores local	phenotype
excessive alcohol consumption	phenotype
Excessive alcohol drinking behavior local	phenotype
experimental group	cohort
extended amygdala	anatomy
F2r local	gene
Fabp3 local	gene
Fau local	gene
Fbxo2 local	gene
FHIT	cohort
Flot1 local	gene
FLOT1 local	gene
Ftl1 local	gene
GABAA receptor	drug
GABA receptor subtypes local	gene
Gabbr1	gene
Gabra1	gene
Gabrg1	gene
Gabrg2	gene
GAD2	gene
GeneChip® local	drug
gene expression	phenotype
Gene Expression Omnibus local	drug
glutamate	drug
Glutamate receptor subunits local	gene
Glutathione S-transferase subtypes local	gene
glycolysis	drug
GNAI1 local	gene
GNAI2 local	gene
GNAO	gene
GRIA1	gene
GRIA2	gene
GRIK2	gene
GRIK5	gene
GRIN3A	gene
GSE15407 local	cohort
HDAC4	gene
high alcohol drinkers local	phenotype
High alcohol drinking behavior local	phenotype
human	cohort
human alcoholics	phenotype
hybridization cocktail local	drug
in vitro transcription local	drug
kainate receptors local	gene
KEGG analyses local	drug
learning	phenotype
Lewis rat local	cohort
limbic regions	anatomy
long-term potentiation	phenotype
long-term-potentiation local	phenotype
low alcohol drinkers local	phenotype
MAEA local	gene
MIF local	gene
motor activity	phenotype
Mt3 local	gene
MT3 local	gene
Mtap2 local	gene
MTAP2 local	gene
Mtmr7	gene
Multiple 1-hr daily scheduled access local	phenotype
Multiple Scheduled Access Group local	cohort
Myo5a local	gene
Ncdn local	gene
neurite development local	phenotype
neurite development genes local	gene
neurogenesis	phenotype
neurological process local	phenotype
neuronal differentiation	phenotype
Neurotoxic consequences of chronic alcohol consumption local	phenotype
neurotoxic effects	phenotype
Neurotoxic effects of binge drinking local	phenotype
Nicotinic receptor subunits local	gene
NMDA1 local	gene
Nmnat1 local	gene
NP rats	cohort
Nrgn	gene
nucleus accumbens	anatomy
Nucleus Accumbens (ACB) local	anatomy
nucleus accumbens core	anatomy
nucleus accumbens shell	anatomy
Nudc local	gene
Operant ethanol self-administration study local	cohort
Panx3 local	gene
PHB local	gene
PHB2 local	gene
positive regulation of nucleic acid metabolism-DNA-dependent transcription local	phenotype
positive reinforcement	phenotype
potassium ion transport local	phenotype
P rats	cohort
Prdm2 local	gene
prefrontal cortex	anatomy
present study	cohort
Psmb6 local	gene
Ptgs1 local	gene
purine metabolism local	phenotype
Rab14 local	gene
Rab2b local	gene
rat cohort (single) local	cohort
rats	cohort
regulation of protein kinase activity-MAPKKK cascade local	phenotype
regulation of transmission of nerve impulse local	phenotype
response to external stimulus local	phenotype
RNA	drug
RNAse Zap local	drug
RNeasy columns local	drug
saccharin	drug
sample cleanup local	drug
Sanpap local	gene
Scheduled access drinking study local	cohort
second-messenger-mediated signaling local	phenotype
selectively bred P rats local	cohort
Sepw1 local	gene
Single cohort of rats local	cohort
Snap25	gene
Snap29	gene
Snta1 local	gene
Snx10 local	gene
striatum	anatomy
Stx3 local	gene
Sty10 local	gene
superior frontal cortex	anatomy
synaptic plasticity	phenotype
Syt10	gene
TCF7L2	gene
Thap7 local	gene
Thra local	gene
TIAM1 local	gene
Transcription and synaptic plasticity genes local	gene
translation	phenotype
Trizol reagent	drug
Txnl1 local	gene
Usp18 local	gene
Vapb local	gene
ventral tegmental area	anatomy
water	drug
Water control group local	cohort
Water Control Group local	cohort
Water control rats local	cohort
water group local	cohort
Water group local	cohort
water intake	phenotype
whole ACB local	anatomy
whole brain	anatomy
withdrawal effects	phenotype
Wnt/β-catenin signaling pathway local	drug
β-catenin	drug

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Stress-response pathways are altered in the hippocampus of chronic alcoholics.	2013	23981442
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The genetics of alcohol dependence: advancing towards systems-based approaches.	2012	22854292

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