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. 2000 Sep 26;97(20):11038-43.
doi: 10.1073/pnas.97.20.11038.

Regional and strain-specific gene expression mapping in the adult mouse brain

R Sandberg  1 , R Yasuda, D G Pankratz, T A Carter, J A Del Rio, L Wodicka, M Mayford, D J Lockhart, C Barlow
Affiliations

Regional and strain-specific gene expression mapping in the adult mouse brain

R Sandberg et al. Proc Natl Acad Sci U S A. .

Abstract

To determine the genetic causes and molecular mechanisms responsible for neurobehavioral differences in mice, we used highly parallel gene expression profiling to detect genes that are differentially expressed between the 129SvEv and C57BL/6 mouse strains at baseline and in response to seizure. In addition, we identified genes that are differentially expressed in specific brain regions. We found that approximately 1% of expressed genes are differentially expressed between strains in at least one region of the brain and that the gene expression response to seizure is significantly different between the two inbred strains. The results lead to the identification of differences in gene expression that may account for distinct phenotypes in inbred strains and the unique functions of specific brain regions.

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Figures

Figure 1
Figure 1
Gene expression differences between C57BL/6 and 129SvEv mouse strains. Shown are the hybridization signals of the 24 genes differentially expressed in all brain regions between C57BL/6 and 129SvEv mouse strains. Each gene is represented by a mean value based on the hybridization intensity from the 12 individual samples for each strain (six brain regions in duplicate) (blue circles represent C57BL/6 and red circles 129SvEv). The y axis is labeled with the hybridization intensities ranging from −200 to 800 (Left) and −1,000 to 7,000 (Right) separated by a hatched vertical line. The horizontal line indicates the noise level. Error bars represent the 95% confidence interval derived from the 12 values for the six different brain regions for each strain.
Figure 2
Figure 2
Northern blot analysis. Northern blot for spi2/eb4. 129 indicates 129SvEv, B6 indicates C57BL/6, F1 indicates a first-generation offspring from a 129SvEV and C57BL/6 cross and Ba indicates BALB/c.
Figure 3
Figure 3
Gene expression changes in response to pentylenetetrazol-induced seizure. (a) The total number of genes that were increased and decreased in response to seizure in C57BL/6 (blue) and 129SvEv (red) hippocampus and cerebellum. (b) Average fold change values for immediate-early genes in C57BL/6 (blue) and 129SvEv (red) hippocampus. The y axis is a log scale. Hatch indicates decreased expression. (c) Baseline (filled boxes) and seizure-induced hybridization signal (hatched boxes) for C57BL/6 (blue) and 129SvEv (red) hippocampus. Error bars indicate standard error. *, P < 0.001; ***, P < 0.04 using a χ2 test.
Figure 4
Figure 4
Overlapping and nonoverlapping gene expression in a subset of adult mouse brain regions in both strains of mice. (a) Region-dependent expression patterns for cerebellum (blue-Cb), cortex (green-Cx), midbrain (red-Mb), and hippocampus (black-Hp) are represented as color-coded circles. The diagram shows the number of genes with the indicated expression patterns. For clarity, extra circles for areas not captured in the main diagram are shown on the right. (b) A separate Venn diagram from an analysis of hippocampus (Hp), amygdala (Ag), and entorhinal cortex (Ec). The values in parentheses represent the subset of genes identified that also were expressed in midbrain and/or cerebellum.
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