ain cells included astrocytes from early postnatal age at postnatal day 1, and later postnatal age at day 30 when astrocytes are morphologically fully differentiated. In addition, the datasets included expression profiles from neurons and oligodendrocytes. One dataset was a mixed sample of mouse forebrain. The additional datasets were loaded as original CEL files and normalized with the same protocol as the present data. The combined datasets were clustered using standard correlation coefficient.
2.7. Quantitative Real-Time PCR
Synthesis of cDNA was made by using 400 ng of total RNA, Maxima reverse transcriptase and random hexamer primers (Fermentas life sciences). Six samples were prepared for each sample group. The relative expression levels of mRNA encoding several genes were measured according to manufacturer’s protocol by quantitative RT-PCR (StepOnePlus™ Real-Time PCR System; Applied Biosystems, USA) by using specific assays-on-demand (Applied Biosystems, USA) target mixes. The mean expression levels were normalized to Beta-2 microglobulin (B2m) and the four relative values representing the four sample groups (neonatal or adult astrocytes on wt or tg APdE9 brain sections) for each gene were scaled to range 0 - 100 ± SEM.
2.8. Statistical Analysis
A statistical probability of p < 0.05 using MS Excel (two-sample t-test) and Genespring GX 11.0 (Welch unpaired t-test) was considered significant. The results of the qRT-PCR are represented as the mean ± SEM and other results are shown as basic mean values.
3.1. Verifying Microarray Data Homogeneity by Clustering and Reviewing Marker Genes
To verify that the GFAP-immunoreactive cells analyzed in microarray experiment were indeed astrocytes, we compared our data (GEO accession number: GSE29317) to published microarray data sets of highly purified astrocytes, neurons and oligodendrocytes . Our data sets clustered well with control data of in vivo purified adult astrocytes and in vitro cultured neonatal astroglia (Figure 2). Minor deviations observed possibly indicated difference in culture conditions and ages of tissues used for cell isolation.
3.2. Differentially Expressed Genes and Gene Ontology Classification
By comparing expression profiles between the astrocytes cultured on top of wt and tg APdE9 brain sections, 877 genes in adult and 132 genes in neonatal astrocytes were differentially expressed two fold or greater (Figure 3(a)). Up-regulation here means that gene expression in astrocytes cultured on tg APdE9 brain section was higher than in astrocytes cultured on wt section, down-regulation conversely. While one third of the genes showing altered expression when cultured on tg APdE9 brain sections were up-regulations both in adult and neonatal astrocytes, only 13 genes of the up-regulated and 30 genes of the down-regulated genes were the identical. To illustrate the differences in gene expression related to certain cellular functions, the genes with altered expression were classified with Gene Ontology (GO) annotations (Figures 3(b), (c); 4(a), (b)). Adult astrocytes upand down-regulated grossly equal number of genes belonging to categories of catalytic activity and hydrolase activity when cultured on top of APdE9 brain sections. However, there was a clear shift towards up-regulation of peptidase activity, scavenger receptor activity and glutathione transferase activity (Figures 3(b), 5(a)) which are cellular functions that could enhance clearance of Aβ or reduce its toxic effects. Correspondingly, several peptidase inhibitors were specifically down-regulated by adult as-
(a) (b) (c)
Figure 2. Microarray results clustered with control data. The data set from microarray was compared to data (Cahoy et al. 2008) of a study on the same platform that defines genes specific for highly purified astrocytes (a), neurons (b) and oligodendrocytes (c). The profile of the 4 groups: neonatal (nn) or adult (a) astrocytes and WT or TG ApdE9 brain section are at the leftmost columns of each cluster group (a, b, c).
Figure 3. Gene Ontology analysis of microarray data. (a) Differentially expressed genes of astrocytes cultured on top APdE9 tg brain section compared to astrocytes cultured on wt brain sections. Adult and neonatal astrocytes altered 877 and 132 genes, respectively. Altogether, there are 30 genes down-regulated (blue ellipse) and 13 genes up-regulated (yellow ellipse) by both adult and neonatal astrocytes. Four genes were upregulated by adult but down-regulated by neonatal astrocytes (the middle ellipse). (b), (c) Expression profiles of adult astrocytes represented by categorized molecular functions. For more information, see the text.
Figure 4. Gene Ontology analysis of microarray data. (a), (b) Expression profiles of neonatal astrocytes represented by categorized molecular functions. For more information, see the text.
trocytes grown on tg APdE9 brain section (Figure 5(a)). Even though gene expressions of peptidase inhibitors were down-regulated also in neonatal astrocytes, GO analysis did not generate any enriched groups of peptidases or proteases in these cells when cultured on top of APdE9 brain sections (Figures 4(b), 5(b)). GO class transferase activity was highly enriched among the genes down-regulated in neonatal astrocytes (Figure 4(b)) and most of those genes were related to cholesterol synthesis (Figure 5(b)). Based on microarray results, neonatal astrocytes down-regulated but also up-regulated several genes associated with endocytosis when cultured on top of APdE9 brain sections (Figure 5(b)). For example, the array revealed an increased expression level of macrophage scavenger receptor 1 (Msr1), which has been shown to mediate endocytosis of Aβ in microglia .
Figure 5. Gene Ontology clusters of differently expressed genes in the microarray study. (a) Enriched GO classes of the genes with altered expression in adult astrocytes; (b) GO classes of genes with altered expression in neonatal astrocytes. Up-regulated and down-regulated genes are colored yellow and blue, respectively. Positive or negative fold changes are indicated on the right. The genes selected for qRT-PCR are bolded.
3.3. Quantification of mRNA Levels by qRT-PCR
To confirm the results obtained from the microarray analysis, we selected 13 genes and analyzed their expression by qRT-PCR. Selection was made by evaluating the differences and similarities between adult and neonatal expression profiles as well as selecting genes possibly related to clearance of Aβ based on GO analysis and literature. The genes with very low expression levels in microarray data were excluded from further study, for example Cathepsin S (Ctss) had very high fold change value but expression levels were extremely low.
Adult astrocytes grown on tg APdE9 brain sections had very high, over 200 fold up-regulation of Scavenger receptor class A, member 5 (Scara5), which has been found to mediate phagocytosis of bacterial material and ferritin bound iron [29,30]. Scara5 was expressed at extremely low levels in neonatal astrocytes and adult astrocytes grown on wt brain section (Figure 6). Apolipoprotein E (apoE) has been shown to be the major susceptibility gene for AD [reviewed in 31-34]. Our microarray results demonstrated that adult up-regulated apoE over 3 fold, but only down-regulation in neonatal astrocytes was confirmed by qRT-PCR. However, expression of apoE was 10 times higher in neonatal than in adult astrocytes grown on tg APdE9 brain sections (Figure 6). Also, neonatal astrocytes seemed to down-regulate two genes encoding enzymes of cholesterol synthesis: 3-hydroxy-3- methylglutaryl-CoA synthase 1 (Hmgcs1) and 24-dehydrocholesterol reductase (Dhcr24) in same extent as apoE (Figure 6).
Phosphate regulating gene with homologies to endopeptidases on the X chromosome (Phex) has been proved to degrade synthetic Aβ40, even though only to minor extent . When grown on tg APdE9 brain sections, adult astrocytes up-regulated Phex over 10 fold whereas expression by neonatal astrocytes was very low (Figure 6). A member of high temperature requirement family of serine proteases, Htra1, has also been shown to decrease Aβ levels in vitro and cell cultures (Figure 6) . Both adult and neonatal astrocytes expressed moderate levels of HtrA serine peptidase 1 (Htra1), but only adult astrocytes up-regulated this protease on tg ApdE9 brain sections compared to astrocytes grown on wt mouse brain sections. Based on microarray results, among all matrix metallopeptidases and well-known Aβ degrading enzymes, neonatal astrocytes expressed very high level of matrix metallopeptidase 9 (Mmp9; data not shown). Quantitative RT-PCR confirmed significant up-regulation of Mmp9 in adult astrocytes cultured on tg APdE9 mouse brain section compared to astrocytes cultured on wt mouse brain section (Figure 6).
Figure 6. Quantification of mRNA levels for selected genes, comparison by real time RT-PCR. Sample groups (each n = 6): neonatal (nn) or adult (A) astrocytes on wt or tg APdE9 brain section. The mRNA levels are presented as mean relative expression levels normalized to beta-2 microglobulin (B2m) ± SEM by two sample t-test (*p < 0.05; **p < 0.01).
Astrocytes are the most abundant cell type in the mammalian brain having multiple functions both in healthy and diseased brain. Because astrocyte cultures can be easily prepared from neonatal rodent brain, astrocytes of newborn mice and rats are almost exclusively used as cellular models for research of astrocyte functions. Considering that astrocytes in rodents take their mature morphology by weeks 3 to 4 after extensive and dynamic interaction with the synapses in developing neurons , it is evident that adult astrocytes may be substantially different from the neonatal astrocytes, especially in functions related to neuronal survival and neurodegenerative diseases taking place in late adulthood and old age. Supporting this hypothesis we have previously reported that adult but not neonatal rodent astrocytes clear Aβ deposits present in mouse and human brain tissues ex vivo and similar findings have also been reported by other laboratories [12-15]. Importantly, the phenotype difference between neonatal and adult astrocyte appear to remain through passaging the cells several times, indicating that maturation of astrocytes to adult phenotype requires in vivo interaction with cells including neurons in the brain. The major finding of our study is that also genetic response of adult astrocytes to external Aβ deposits, a toxic stimulus implicated in AD, is substantially greater in adult compared to neonatal astrocytes. In addition, the gene expression analyses demonstrate differences in genes related to proteases and scavenging receptors as well as genes involved in synthesis of glutathione, the major intracellular antioxidant in astrocytes , which help understand the ability of adult astrocytes to clear Aβ and tolerate that process ex vivo and possibly in vivo.
Our microarray data implicates several changes in gene expression that may be related to uptake and degradation of Aβ. When cultured on top of APdE9 brain sections, adult astrocytes showed an up-regulation of four scavenger receptors and 18 peptidases/proteases. In addition, both adult and neonatal astrocytes showed down-regulation of several peptidase/protease inhibitors. Expressions of well known Aβ degrading proteases such as neprilysin, endothelin-converting enzyme (ECE-1, ECE-2) and insulin degrading enzyme (IDE)  were mostly unaltered in our microarray results. It is possible, but unlikely that expression levels of the main Aβ degrading enzymes would be unchanged and only activation of those enzymes would be increased in astrocytes exposed to APdE9 brain sections. Even though it is not completely clear to which extent the function of up-regulated genes may be involved in Aβ clearance and only some of these expression changes were confirmed by RT-PCR, the results suggest a distinct phenotype shift of adult astrocytes towards Aβ clearing function whereas no such alterations were detected in neonatal astrocytes.
Scara5, a member of the scavenger receptor type A family, was selectively and strongly up-regulated in adult astrocytes grown on top of APdE9 brain sections. While members of this scavenger receptor family are known to mediate endocytosis of synthetic Aβ [28,39-41] even by neonatal mouse astrocytes [39,40], class A scavenger receptors mediated uptake of Aβ in adult astrocytes has not determined ex vivo. Amounts of several metal ions, including ferritin bound ferrous iron are increased and adhered to Aβ plaques in AD [42-45]. Scara5 has been found to endocytose ferritin bound iron , implying importance of Scara5 in the clearance of free iron and possibly Aβ from the extracellular space.
The increased expression of peptidases/proteases Phex (phosphate regulating gene with homologies to endopeptidases on the X chromosome) and Htra1 (a member of high temperature requirement family of serine proteases) that are known to be able to degrade synthetic Aβ [35,36] and decrease Aβ levels in vitro and cell cultures were confirmed to be up-regulated in adult but not neonatal astrocytes grown on top of APdE9 sections. It is well possible that these two genes/peptidases and the peptidases seen to be up-regulated in microarray data but not confirmed by rt-PCR contribute to the ability of adult astrocytes to clear Aβ. However, the role of extracellular proteases in Aβ clearance by astrocytes is currently unclear. Our preliminary studies suggest a minor role for extracellular proteases in Aβ clearance by adult astrocytes (Pihlaja et al., unpublished data). Interestingly, Mmp9, a peptidase capable of degrading Aβ fibrils , was expressed at over two fold higher levels in neonatal astrocytes compared to adult astrocytes, although neonatal astrocytes do not possess Aβ degrading or clearing capacity ex vivo.
Based on our previous studies the uptake and clearance of Aβ is apoE-dependent in adult astrocytes . Interestingly, we found that adult astrocytes expressed considerably lower levels of apoE than neonatal astrocytes. Possibly adult astrocytes compensate the low expression level of apoE by recycling it, which has been shown to be apoE-isoform dependent . According to our data, it is evident that the overall expression level of apoE is not a limiting factor preventing neonatal astrocytes to clear Aβ.
Under physiological conditions, cholesterol uptake in the brain is efficiently prevented by the blood-brain barrier, and mature neurons are thought to rely on glial cells for their cholesterol supply. Accumulating data supports the concept that alterations of cholesterol metabolism might influence the development of AD. In addition, Aβ42 has been shown to exert an inhibitory effect on the expression of some cholesterol transporter in cultured neonatal astrocytes . Brain apoE mediates also transport of cholesterol from astrocytes to neurons by forming HDL particles [49-51]. Our finding that neonatal astrocytes down-regulated genes of cholesterol synthesis (Dhcr24, Hmgsc1) and apoE when cultured on top of APdE9 brain sections is in line with the results of Canepa et al. (2011)  suggesting further that cholesterol synthesis is down-regulated in these cells. Our microarray results suggest that several genes involved in cholesterol biosynthesis were down-regulated also in adult astrocytes grown on APdE9 brain section (data not shown). ApoE expression and cholesterol synthesis are both regulated by oxysterols through LXR transcription factors [reviewed in 52] and their activity might be altered in neonatal astrocytes in the presence of Aβ or other substances of tg ApdE9 brain section. 24S-hydroxycholesterol (24OHC) and 27-hydroxycholesterol, are two most studied oxysterols involved in neurogenerative diseases and their levels are altered in AD brains [53, reviewed in 54]. In addition, 24OHC decreases the expression of genes related to cholesterol synthesis through transcription factors LXR and SREBP-2 in neuroblastoma cells .
In conclusion, the genetic response of adult astrocytes to external Aβ deposits is substantially greater in adult compared to neonatal astrocytes and involves genes encoding proteases and scavenging receptors as well as proteins with antioxidant functions. Our data also indicates a distinct phenotype shift of adult astrocytes towards Aβ clearing function upon exposure to natural human Aβ depostis whereas no such alterations were detected in neonatal astrocytes. Adult rather than neonatal astrocytes should be used as a cell culture model for AD and possibly other neurodegenerative diseases and may reveal relevant targets for novel therapeutic approaches.
This work was supported by the Academy of Finland, the Finnish Funding Agency for Technology and Innovation, Sigrid Juselius Foundation, Saastamoinen Foundation and Biocenter Finland.