As described in the first report, mixed CNS glial cell cultures were obtained from neonatal rat brain using a modification the so-called "shake-off" technique3536. The time for removal of microglia by adherence to plastic was reduced to 1 hour prior to plating on poly-lysine coated flasks following "shake-off". Cells were maintained in defined medium containing 2% fetal bovine serum for 6–8 days, then treated with the cytokines. Culture composition was determined by employing indirect immunofluorescence (IF) antibodies to phenotypic markers for different cells types: glial acidic fibrillary protein (GFAP) for astrocytes 37 (Chemicon, Temecula, CA); galactolipids (GalL) for oligodendrocytes 3738, A2B5 for oligodendrocyte precursors 39 (ATCC, Bethesda, MD); ED-1 for microglia 40 (Serotec, Raleigh, NC); Th1.1 for fibroblasts 41 and some astrocytes 42 (in glial cultures), anti-neurofilament heavy (NFh) for neurons 43 and anti-factor VIII for endothelial cells (Dako Corporation, Carpinteria, CA). To identify cells expressing major histocompatibility complex class II molecules (MHC class II) we employed mouse anti-MHC class II (Serotec).

Th1: Recombinant rat interleukin-2 (IL-2) and recombinant rat interferon-γ (IFN-γ) (R&D Systems, Inc, Minneapolis), recombinant rat tumor necrosis factor-α (TNF-α; BD PharMingen, San Diego, CA) and recombinant rat granulocyte-colony stimulating factor (G-CSF; PeproTech, Rocky Hill, NJ).

M/M: Recombinant rat IL-1α and IL-1β, recombinant rat IL-6, recombinant rat IL-12p40 (all from R&D Systems, Inc) and recombinant rat TNF-α. These cytokines are considered to be proinflammatory products of what have recently been termed M1 macrophages or microglia 44.

Th2: Recombinant rat IL-4, recombinant rat IL-5, recombinant rat IL-10 (all from R&D Systems, Inc), recombinant rat G-CSF and purified porcine transforming growth factor-β1 (TGF-β1; R&D Systems, Inc). It has been suggested that in the cognate immune system, TGF-β1 is the product of a population of T-cells called regulatory T-cells (Treg cells) and TGF-β is important in differentiation of these Treg cells. Treg cells are phenotypically characterized as CD4+/CD25high+/Fox3 4546 and also secrete IL-10 47.

Cytokine mixtures contained 10 ng/ml of each of the constituent cytokines as is typically employed in many in vitro studies of cytokine biology and as employed by our group 34. Cultures were incubated with mixtures of Th1, Th2, or M/M cytokines or additional medium (control) for 6 hours. Three separate experiments each consisting of control, Th1, M/M and Th2 stimulated cultures (a total of 12 cultures) were performed.

Since certain cytokines have been reported to induce death of oligodendrocytes and their precursors 484950, we examined the cytokine-induced effect on cell death in mixed CNS glial cell cultures by incubating cultures from 6 hours to 4 days with the cytokine mixtures. Cell death was determined by uptake of 0.4% trypan blue 51.

After 6 hours of incubation with cytokine mixtures or additional medium, cultures were washed and RNA was extracted employing TRIzol (Gibco BRL, Grand Island, NY) followed by Qiagen RNeasy kits (Qiagen, Valencia, CA). The RNA was quantitated at A_{260 nm} and the quality was assessed by at A_{260 nm}/A_{280 nm}. The 28S/18S ratio was assessed using a Bioanalyzer 2100 (Agilent Technologies, Wilmington, DE) and was >1.7 for all samples.

Biotin-labeled RNA fragments were produced from 5 μg of total RNA by first synthesizing double-stranded cDNA followed by a transcription reaction and a fragmentation reaction. A hybridization cocktail which contained fragmented cRNA, probe array controls (Affymetrix), bovine serum albumin and herring sperm DNA was hybridized to the Affymetrix rat RG-U34A microarray at 45°C for 16 hours. The probe array was then washed and bound biotin-labeled cRNA detected with streptavidin phycoerythin conjugate. Subsequent signal amplification was performed employing biotinylated anti-streptavidin antibody. The RG-U34A chip contains 7,985 genes. Control and 3 cytokine-incubated cultures from one experiment were analyzed with one gene chip for each sample and three separate experiments using different cultures were analyzed. The transcriptional profile data have been submitted to the GEO repository, with accession number GSE9659.

Gene array data were analyzed by several methods to determine which genes were upregulated and downregulated compared to control cultures for each series of cultures, as well as comparing the average of the replicates from each of the 3 separate sets of experiments. Affymetrix data were analyzed with dChip v1.2 to calculate gene expression values 52. We analyzed values from 3 separate experiments employing the ANOVA GeneSpring, Agilent Technologies, Santa Clara, CA) comparing Th1, M/M and Th2 with control. While multiple testing analyses that compare all 7,985 genes at different levels of stringency using the Bonferoni and false discovery rate (FDR) at p < 0.05 are statistically most rigorous, at these high levels of stringency, there were very few changes that reached statistical significance. In order to increase sensitivity and allow identification of potentially important biologic changes, we employed a lower level of stringency. 34 While this approach is likely to result in more false positive results, it allows identification of gene changes in gene expression and potentially protein expression that can later be verified by quantitative real time polymerase chain reaction (QRT-PCR) and Western blotting respectively. In these screening studies at a single time point, we have arbitrarily chosen to represent as probably significant those genes in which the mean expression was >2 fold (upregulation) or <-2 fold (downregulation) compared to expression in controls (p < 0.2) 34. We believe this is reasonable given that our experiments consisted of biological replicates that are prone to greater variability than experimental replicates. The recent literature suggests that a 2-fold cut-off using the Affymetrix platform produces a low false positive rate 53.

Expression of message for BDNF and NT3 was analyzed by QRT-PCR on an ABI 7500 Fast System, using ABI Taqman rat specific gene expression assays. RNA was extracted as above and reverse transcribed. Relative expression levels were calculated with GAPDH as the internal reference, using the delta-delta Ct method 54. The values from the treated cultures were compared to those from control. Those ratios were averaged for the three experiments, then expressed as fold changes in the treated cultures relative to control for comparison with the gene array results. Each PCR value represents the average from 2–5 separate experiments.

As described in our earlier report, cultures consisted of approximately 35% each oligodendrocytes and astrocytes and 10% microglia. The remaining cells were glial cell precursors including A2B5 oligodendrocyte precursors. There were no endothelial cells or neurons. Viability was >98% in both control and cytokine stimulated cultures at all time points (6 hours to 5 days), demonstrating the lack of cytotoxicity under these experimental conditions.

Our previous paper 34 described changes in genes for proteins predominantly associated with the immune system including major histocompatibility molecules, some adhesion and extracellular matrix molecules, cytokines and chemokines and their receptors, complement components and others. Because of our interests in the direct effects of cytokines on endogenous CNS cells affecting the production of factors important in oligodendrocyte health and differentiation/myelination and axonal and neuronal function, in this paper we compare the effects of the different cytokine mixtures on gene expression of genes associated with glial cells and neurons/axons. The results are shown in Table 1 with changes in various categories summarized briefly below, but presented in more detail in the Discussion.

Some of the gene classifications are arbitrary as many proteins could be listed and considered under two or more different categories. As noted, this is a series of screening experiments and therefore the table and figures were prepared using the criteria of > 2 fold (increased expression) or <-2 fold (decreased expression) with a p value of <0.2 for one or two replicates of the gene transcript 34. Values for unidentified genes (EST) showing changes by these criteria are not presented.

In view of the pleiotropic effects of the cytokine mixtures on gene expression, we would predict changes in cellular phenotype and function. Although these changes will be examined in more detail in subsequent studies, two examples illustrating effects of the Th1 cytokine mixture on microglia and oligodendrocyte precursors are shown in Figures 1 and 2. By 4 days in vitro microglial cells have changed their appearance when compared to unstimulated cells and now expresses MHC class II on their surface. Oligodendrocyte precursors still express A2B5 on their surface but have begun to show much more elaborate and extensive processes.

Th2 cytokines induced upregulation of the gene for brain derived neurotrophic factor (BDNF), but in general the cytokine mixtures had downregulatory effects on the genes for neurotrophins and their receptors. The most marked downregulation was found for an alternatively spliced form of trkC with both Th1 and M/M cytokines. (Table 1; -12 fold and -7 fold, respectively). For validation of gene array results, expression of message for BDNF and NT3 was analyzed by QRT-PCR. Results from the two methods were in general agreement, with the exception of Th2 effects on NT3 at 6 hours; subsequent QRT-PCR analysis at 24 hours showed a 3.44 fold upregulation, supporting the conclusion that Th2 increased the expression of NT3 at 6 hours (Table 2).

There are overlaps in classification of several proteins as cytokines or growth factors, often considered as one or the other depending on the effect being studied. Th1, M/M and Th2 cytokine mixtures had complex and variable effects on genes for many proteins in this category of molecules (Table 1). However there was no effect on glial derived neurotrophic factor (GDNF) or GDNF family members (neurturin, artemin or persephin) or their receptors, although sequences for many of these genes are present on the microarray chip we employed in these experiments.

The different cytokine mixtures also had effects on some genes for hormonal trophic and release factors and receptors for these and other related hormones. Th1 and particularly M/M cytokines had both up and downregulatory effects on several genes within this category whereas Th2 cytokines had more restricted effects (Table 1).

In our initial paper, we noted changes in this class of molecules known to be involved in immune related interactions. In the present paper, we present data on molecules that may be involved in neuronal/glial interactions. Th1, M/M cytokines as well as Th2 cytokines had regulatory effects on a small number of genes for cell adhesion and extracellular matrix (ECM) molecules including several proteoglycans (Table 1).

Th1 cytokines upregulated the genes for connexin 31 and connexin 37, while M/M cytokines downregulated the gene for connexin 40.

Although sequences of the genes specific for several myelin associated proteins are present on the microarray chip, we found no effects on genes for myelin-associated proteins at 6 hours in vitro when compared to control cultures.

Although there are no neurons in our cultures, we observed cytokine-induced regulation of genes for neuronal/axonal related proteins (Table 1). The genes for several other proteins associated with neurons were regulated by the different cytokine mixtures and are listed under adhesion and extra-cellular matrix molecules. In a subsequent paper, we describe changes in genes for many ion channels, peptides and transmitters and receptors associated with neurons but which are also known to be expressed by glial cells.

M/M cytokines downregulated the gene for rhodopsin, and Th2 cytokines upregulated the gene for rat retinal degradation slow/peripherin 2 (rds/peripherin 2) (Table 1).

We have noted an effect of the cytokines on expression for genes for two proteins first described in cancer biology, rat homologs for breast cancer 1 (BCR1), called BCRA1, and deleted in colorectal cancer (DCC), both of which have subsequently been reported to be present in neurons. In addition there was marked downregulation by M/M cytokines of the gene for carcinogenic embryonic antigen (CEA), and marked downregulation by the Th2 cytokines of a gene which is deleted in some gliomas. (Table 1)

Th1 and M/M cytokines markedly upregulated the gene for BEST 5, a protein involved in bone modeling, and Th2 cytokines downregulated uterine-sensitized associated gene 1 (USAG1), a gene for an inhibitor of the bone morphogenic protein family.

With the exception of a 2-fold upregulation of the gene for brain derived neurotrophic factor (BDNF) by Th2 cytokines, most of the genes for the neurotrophins and their receptors were either downregulated by the different cytokine mixtures or not affected in comparison to control cultures. In preliminary studies employing quantitative real time polymerase chain reaction (QRT-PCR), we have detected Th2 cytokine induced upregulation of the gene for BDNF at both 6 and 24 hours. Although Th2 cytokines upregulated the gene for BDNF, they induced a -2.6-fold downregulation of genes for pre-pro NT4/5, a response potentially inhibitory for neuroprotection, depending upon the timing of the downregulation and the cell involved 75. Downregulation of the genes for BDNF, neurotrophin 3 (NT 3), trkB (receptor for BDNF as well as for NT3), pre-pro NT 4/5, and an alternatively spliced gene for trkC (receptor for NT3) by Th1 cytokines, and of NT3 and trkC by M/M cytokines, if accompanied by decreased levels of their proteins, would be detrimental to neurons/axons and oligodendrocytes as well as inhibitory to regeneration 7677787980.

The gene for NGF-inducible protein 1A was interestingly upregulated 2-fold by both M/M and Th2 cytokine mixtures. While inflammatory cells, including Th2 lymphocytes, produce neurotrophins 57815859, cytokines produced by the same infiltrating cells, particularly Th1 and M/M cells, could inhibit the production of several of these neurotrophins by both the endogenous glial cells and the infiltrating cells. Perhaps of equal importance, these cytokine mixtures seem to downregulate the genes for receptors for several of these neurotrophins. BDNF and trkB have been detected in MS lesions 82, while an increase in gene expression for NT3 and NGF2 has been reported in marginal zones of two active lesions in MS 83. The presence and concentration of the different factors as well as the sequence of their appearance may be important in neuroprotection and remyelination. It is quite clear that more than one factor is important for neuroprotection and regeneration as well as for oligodendrocyte health and OPC maturation into oligodendrocytes that are able to myelinate axons 8485. Both the combinations of neurotrophins as well as concentrations and timing of appearance and suppression of the neurotrophins and their receptors are likely to be critical. In addition it is known that the effects of a particular neurotrophin on a cell is in part determined by the balance of expression of its protein tyrosine kinase receptors, such as trkB, and the low avidity p75 NGFR. 8687 Th1 cytokines downregulated the gene for NGFR p75 precursor protein, which not only binds all members of the NT family and triggers cell death pathways, but also seems to be involved in the common pathway signaling for Nogo, myelin associated glycoprotein (MAG) and oligodendrocyte myelin glycoprotein (OmGp), in the inhibition of neurite outgrowth by myelin 88.

We observed changes in expression of a large number of genes for neuropoietic cytokines 34 and for non-neurotrophin growth factors, important in different phases of oligodendrocyte as well as neuronal/axonal development. Some of these deserve comment as they may relate to pathogenesis and recovery in MS and in other neurological diseases.

Th1 cytokines induced downregulation of the gene for TGF-α which signals via the epithelial growth factor receptor (EGFR) 89, as well as down regulating the gene for EGF precursor. Interestingly Th2 cytokines also downregulated expression of the gene for EGF precursor at 6 hours in vitro (Table 1). TGF-α has been reported to be present in astrocytes 90 and has effects on astrocyte function 9192 and development and function of neurons 8993, as well as acting as a growth factor for tumors of astrocyte 94 and non-CNS origin 95. It seems to have an antiapoptotic effect 92 and in combination with IFN-γ upregulates cyclooxygenase2 (Cox 2) 96. Thus Th1 cytokines, which include IFN-γ, by downregulating production of TGF-α as well as EGF in inflammatory diseases such as MS, would inhibit protection/development of certain neuronal populations. However, this same activity in tumors would tend to inhibit tumor growth and survival.

EGF is critical in the development of the CNS, being one of the more important growth factors for neuronal development, acting on neural progenitor cells, as well as in myelination 979899100101.

Perhaps of equal importance is the down regulation of bFGF (also called FGF2) by M/M cytokines, since this growth factor appears important to some but perhaps not all stages of neuronal and oligodendrocyte development and protection 102103100104105106107. FGF2 acts as a mitogen for OPCs. Thus if M/M cytokines decreased expression of FGF2, this would tend to inhibit OPC proliferation. As noted later, some syndecans appear to bind to FGF2. Upregulation of the gene for FGF2 has been reported in some MS lesions 69 and FGFR-1 has been reported present at the margins of chronic active and chronic inactive lesions in MS 83. There was also regulation of the genes for other FGFs and receptors. EGF in combination with bFGF is important in early stages of neuronal and stem cell proliferation and later development 108109.

All three cytokine mixtures increased gene expression for platelet-derived growth factor alpha (PDGF α) by 2 to 3-fold, and M/M and Th2 cytokines similarly upregulated the gene for prepropeptide PDGF A chain. Th2 cytokines downregulated the gene for PDGF-Rα. At early stages of OPC development, upregulation of PDGF-α and its receptor would favor repair by serving as a mitogenic stimulus, but persistent upregulation could inhibit ultimate maturation and myelination, and downregulation of PGDF-Rα at the correct time would favor transition from a precursor stage to a more mature stage 110111112. In addition PDGF acts in concert with the chemokine Gro-α (CXCL1) to induce OPC proliferation although persistence of these two factors seems to prevent OPCs from undergoing further maturation 113114. In our earlier report we described Th1 cytokine upregulation of the gene for Gro-α 34.

We observed effects of the cytokine mixtures on genes for several other growth factors important for oligodendrocyte maturation and myelination as well as for neuronal survival and development including neuregulin-1, insulin-like growth factor (IGF-1) and one of its receptors/binding proteins, IGF-R5 115.

As with neurotrophins, downregulation of neuropoietic cytokines and other growth factors could inhibit certain phases of oligodendrocyte development and myelination, as well as favor neurodegeneration. However, at other stages inhibition of these same growth factors might be necessary for OPC and neuronal maturation.

Neuregulins are a group of factors which are important in CNS development, with multiple actions including precursor proliferation, cell migration, synaptogenesis and control of certain aspects of myelination. Made in neurons and perhaps in glia, neuregulins have the capacity to bind to other cells in the nervous system and thus influence a large number of functions of several CNS cell types 116117118119120121. We observed downregulation of the gene for neuregulin type I induced by the Th2 cytokine mixture. Lack of type II neuregulins (glial growth factor 2, GGF2) has been reported in MS lesions by one group of investigators 122 whereas another group found increased levels when compared to non-MS white matter 123.

Insulin like growth factors (IGFs) are important in neuronal and oligodendrocyte development 124125126127. There are conflicting studies on the effects of IGF-1 on both the clinical course and remyelination in animals with EAE 128129130131. As summarized in the Table 1, Th1 cytokines down regulated the gene for IGF-1 but upregulated the gene for IGFR-5, one of several receptors for IGF-1. Th2 cytokines downregulated the gene for IGF-2 (somatomedin), which can be found in CNS and PNS and may have a protective role in inhibiting TNF-α-induced oligodendrocycte death 132133.

Vascular endothelial growth factor (VEGF) is an important factor in vascular biology particularly in angiogenesis 134135, and may have neurotrophic effects 136137138. VEGF may contribute to inflammation within the CNS and has been detected in acute and chronic active MS plaques 139140. Th1 and Th2 cytokines both induced a 2 to 3-fold upregulation of the gene for VEGF.

Th1 and M/M cytokines induced upregulation of the growth hormone secretagogue receptor, and both Th1 and Th2 cytokines upregulated corticotrophin releasing hormone, but in general Th1 and M/M cytokines had downregulatory effects on genes in this category. If the cytokines had a similar effect on certain neuronal populations, these findings might explain the overall downregulatory effect of acute and chronic inflammation on normal endocrine function and the increase in the corticosteroid response in these same conditions. Prolactin regulates oligodendrocyte precursor proliferation 141 and if downregulation of the gene for prolactin receptor that we observed in response to Th1 and M/M cytokines results in reduced availability of receptor, there would be reduced ability of such cells to develop and supply cells to replace injured and dead oligodendrocytes as a source of remyelination. Th2 cytokines induced downregulation of two different prolactin-like proteins but not prolactin or its receptor.

The cytokine mixtures had varying effects on the genes for adhesion proteins and proteins associated with ECM, including many arbitrarily classified as immune-molecule related and reported in our earlier paper. Important among those were several integrins and selectins, CD44 and several matrix metalloproteins 34. In this study, we observed changes in regulation of genes for several other adhesion-related proteins that may be important in oligodendrocytes, oligodendrocyte precursor cells (OPCs), neurons, axons as well as in axonal-glial interactions.

The proteoglycans are a group of glycoproteins with covalently bound sulfated glycosaminoglycan (GAG) chains which have been found in virtually all tissues and are widely expressed on most cells types represented in the CNS and PNS 142143. They are important in cell-cell interactions as well as interactions of cells with the ECM. The syndecans are proteoglycans and are type I transmembrane proteins with either heparan sulfate (HS) or chondroitin sulfate (CS) chains 142. In our studies the expression of syndecan-4 was upregulated by Th1 and M/M cytokine mixtures, and downregulated by Th2 cytokines. Syndecan-4 has been found on various glial cells and has a mix of HS and CS bound side chains142144. The ligands for syndecan 4 have not been fully defined but other syndecans and possibly syndecan-4 are known to bind to several growth factor including FGF2 142144 and TGF-β, as well as to ECM molecules such as heparin-binding growth-associated molecule (HB-GAM or pleiotrophin) and midkine 142. In this study we demonstrated down regulation of the gene for FGF2 at 6 hours in response to incubation with M/M cytokines, upregulation of fibroblast growth factor receptor-1 (FGFR-1) by Th2 cytokines (see below and Table 1) and in our earlier report regulation of genes for several binding and signaling molecules associated with TGF-β by the different cytokine mixtures 34. Syndecan -1, the gene for which was not affected in our study, binds to tenascin-C, an adhesion molecule. The gene for tenascin-C was upregulated by Th2 cytokine mixtures. It has been shown that TGF-β(a component of the Th2 cytokine mixture) and FGF2 upregulate tenascin-C 145. Tenascin-C is one of a series of extracellular molecules which bind to several proteoglycans including, as noted, syndecan-1, as well as syndecan 3 (neuroglycan), a chondroitin sulfate proteoglycan. Syndecan-1 is found in several organ systems; in the CNS syndecan-1 is likely a neuronal membrane component while neuroglycan is CNS specific, and expressed on neurons and astrocytes 142. Tenascin-C, which can bind to ng-CAM/Li and NCAM on neurons 146, inhibits adhesion to collagen 147, and is found in developing and injured CNS 148149. It inhibits oligodendrocyte migration 150151 and inhibits axonal outgrowth 152. Tenascin-C knockout mouse embryos fail to develop normal cell migration 153 emphasizing that normal development requires a balance between positive and negative signals. Finally tenascin-C, which is found in normal myelinated tissue, is reduced in acute MS lesions and found in reactive astrocytes in chronic lesions 154.

Glypicans, proteoglycans that are membrane bound, essentially have only HS side chains. Glypican-3 is found in the nervous system although its exact localization is not clear. There is some evidence that it helps regulate activity of insulin-like growth factor-II (IGF-II), perhaps by binding to IGF-II. Other cell surface molecules and ECM also serve as ligands for glypican-3 142. A loss of function mutation of glypican-3 is associated with Simpson-Golabi-Behmel (SGB) syndrome, which has pre and postnatal overgrowth and risk of embryonic tumors such as Wilms tumors and neuroblastomas, the latter a tumor of neuronal origin 155. Interestingly over expression of IGF-II has been associated with Beckwith-Wiedmann syndrome, a disorder similar to SGB 156157. We observed upregulation of the gene for glypican 3 by mixtures of Th2 cytokines. As noted above, Th2 cytokines downregulated the gene for IGF-II.

There is strong evidence, predominately in vitro, that proteoglycans in their interactions with growth factors, ECM and cell surface molecules are important in the regulation of cell migration and proliferation in the CNS, as well as neurite outgrowth and guidance and synaptogenesis. Proteoglycans may be involved in inhibition of Schwann cell entry into the CNS and inhibit neurite extension at the damaged CNS/PNS interface 158, and inhibition of proteoglycans allows improved recovery in a spinal cord injury model 159. Given the potential importance of proteoglycans in the CNS, it is of interest that cytokine mixtures differentially up- and downregulated the expression of genes for several of these proteoglycans and some of their ligands.

We also observed cytokine regulation of several adhesion molecules that are members of the immunoglobulin superfamily. Neurotrimin is a neuronal adhesion molecule that seems to inhibit axonal outgrowth, which is important in development of CNS and sympathetic nervous system 160161. M/M and Th2 cytokine mixtures upregulated the gene for this protein, which at certain stages of CNS disease such as MS might result in inhibition of neuronal regeneration, but at other stages could be important in repair by helping direct appropriate connections.

The gene for contactin 4 (also called BIG-2), a member of the TAG-1 subgroup of axon-associated cell adhesion molecules (AxCAMs; members of the Ig superfamily), was downregulated by Th2 cytokines 162. Contactins, which are expressed by neurons/axons and oligodendrocytes, complex with a protein called contactin associated protein (Caspr) and are found at paranodal regions of axon and glial interaction 163. Contactins are uniformly distributed along bare axons, and TAG1 is found at paranodes with Caspr and is downregulated along myelinated axons 164. While there are no studies of the distribution of contactins in MS lesions, there is a study of the distribution of Caspr on axons. Axons in the center of demyelinated lesions do not express Caspr. Paranodal regions of remyelinated axons express Caspr, and axons in border zones of lesions express Caspr, but not in the normal paranodal pattern 165. Contactin 4 is not known to directly interact with Caspr and the exact nature of its ligand is not clear. However it seems to be important in axonal/neurite development 162166.

We also detected Th2 cytokine downregulation of claudin 7, a member of the claudin family, tetraspan proteins involved in tight junction formation. Claudin 7 is expressed on CD4 T-lymphocytes, and downregulated in tumor progression, but not previously identified in glia 167168. Other claudins are expressed by endothelial cells and choroid plexus epithelial cells 169170, as well as myelin forming cells and in myelin itself 171172.

Connexins are proteins that are part of gap junctions between cells, which allow for direct communication between these cells 173174. Some connexins are found in glial cells and some seem to be important in myelination 175. The genes for connexins 31 and 37 were upregulated by Th1 cytokines, and connexin 40 was downregulated by M/M cytokines. Connexins 31 and 40 seem to be involved in pathways subserving hearing 176177178.

At 6 hours, we did not detect any effect of the cytokine mixtures on the genes for any myelin associated proteins such as myelin basic protein (MBP), proteolipid protein (PLP), myelin associated glycoprotein (MAG), oligodendrocyte myelin glycoprotein (OmGp) or claudin 11 (oligodendrocyte specific protein; Osp) although, as noted, the genes for these proteins and other myelin associated proteins are on the gene chips. This may relate to the use of a 6 hour incubation, and follow-up studies examining additional time points are clearly needed to further investigate the effect of cytokines on the genes for these proteins. It is known that IL-2 effects oligodendrocyte maturation and expression of MBP 55179.

Although there are no neurons in our cultures, we detected regulation of expression of genes for several important proteins associated with neurons. Some have already been discussed under other categories, including adhesion molecules. Others that are known to be expressed in glial cells as well as neurons, such as some of the ion channels, transmitters and receptors, will be presented in a subsequent paper. In the following section, we comment on genes for other proteins that may be of considerable importance in the pathogenesis of several diseases of the CNS, as well as in neuroprotection and repair mechanisms.

Reduction in cerebrospinal fluid (CSF) levels of hypocretin (orexin) are associated with classical narcolepsy 180 as well as other disorders of sleep 181, and reduced hypocretin positive neurons have also been described in narcolepsy 182183. Hypocretin also seems to be involved in energy metabolism and drinking behavior 184185. Hypocretin containing neurons in the hypothalamus have widespread projections in the CNS including to the spinal cord 186187 M/M cytokines downregulated the gene for hypocretin receptor 2 (-5.9-fold), one of two receptors for hypocretin, in glial cell cultures, as did Th2 cytokines (Table 1). Levels of hypocretin itself have been reported as normal in the CSF in most if not all studies of MS, but nothing is known about expression of receptors for hypocretin in the CNS of patients with MS 181183. If downregulation of hypocretin receptors in neurons could be shown in vitro in response to cytokines and in vivo, particularly in neurons of the hypothalamus or reticular activating system, it might help in our understanding of fatigue and sleep disorders in MS patients. Changes in genes for receptors for other transmitters such as dopamine and serotonin, which we have noted in data to be reported in a subsequent study, could also contribute to changes in mood, sleep and a sense of energy. In our earlier paper we also described down regulation of the gene for the gp130 receptor for leptin 34 which is not only involved in appetite control and food intake but also in energy metabolism. In addition, the widespread projections of the hypocretin neurons into other parts of the brain and spinal cord could influence other CNS signs and symptoms in MS including motor tone as well as sensory and autonomic function.

Th1 cytokines downregulated neurofilament heavy polypeptide as did M/M cytokines. M/M cytokines downregulated the gene for MAP 1A (-2-fold), while Th2 cytokines upregulated the gene for MAP 2 (3-fold). MAP 1 and MAP 2 are associated with mature neurons 188189, although there is a report of expression of MAP 2 in oligodendrogliomas and glial precursor cells 190.

M/M cytokines down regulated the gene for synaptophysin, a synaptic vesicle glycoprotein 191 as well as for synaptotagmin 2, a calcium sensitive synaptic vesicle protein 192. Th1 cytokines induced down regulation of the gene for activin receptor-like kinase 7 (ALK7), part of a family of receptor serine-threonine kinases (RSTK), which interact with TGF-β superfamily members. To date ALK7 has been associated with neurons of the cerebellum, hippocampus and brain stem nuclei 193. Th1 cytokines upregulated the gene for activin receptor interacting protein 1, also called synaptic scaffolding molecule (S-SCAM) which resembles proteins that seem to be involved with the assembly of receptors and cell adhesion proteins at synaptic junctions 194195. M/M cytokines upregulated the gene for neuroligin 1 which interacts with beta-neurexins to help mediate synaptic development 196197. Th2 cytokines downregulated the genes for synapsin 3, a synaptic vesicular protein inhibited by Ca2+ 198, as well as semaphorin 3a; downregulation of this protein in MS or other diseases by cytokines would have major implications for pathogenesis and repair since semaphorin 3 inhibits growth cones as a chemorepellant and may be an important inhibitor of axonal regeneration and outgrowth. As a component of glial scars 199200201202, semaphorin 3 could affect migration of neurons during development 203204, as well as glial migration 205206. It may promote neuronal apoptosis 204 including that in retinal ganglion cells following optic nerve trauma 207, although interestingly it has also been reported to protect neurons from activated microglia 208. In addition, production of semaphorin 3 by vascular endothelial cells inhibits vascular morphogenesis 209. Th2 downregulated the gene for semaphorin 3a, which would favor axonal outgrowth.

Bassoon is a protein involved in synaptogenesis and in the structure of the presynaptic active zone; its deletion causes alterations in activation patterns and circuitry in the cortex 210211212. The gene for bassoon was down regulated 5-fold by Th1 cytokines (Table 1).

VGF, upregulated 2 to 4-fold by all three cytokine mixtures, is a neuronal secreted peptide stimulated by neurotrophic factors 213214 and is upregulated in neuronal development 215216. In addition to its role in neuronal development and plasticity, it also has neuroeondocrine properties and helps regulate energy metabolism 217.

It will be important to determine if these and other traditionally neuronal genes and their proteins are expressed in glial cells, as well as to determine the effect of cytokine mixtures on the genes and proteins of neurons since there are significant implications for neuronal/axonal damage as well as neuroprotection and inhibition of neuroprotective mechanisms due to changes in expression of these proteins.

While there are no retinal ganglion cells or neurons in our cultures, we found changes in two proteins important in retinal diseases. Mutations in a human gene homologous to rat rds/peripherin 2 have been reported associated in an autosomal recessive inherited retinal disorder involving pigmented epithelium 218. The normal function of rds is not known. Th2 cytokines upregulated the gene for rds/peripherin 2 which might thus slow degeneration of retinal cells in inflammatory or traumatic diseases if such Th2 cells were present in the retina. The gene for rhodopsin (mutated in retinitis pigmentosa 4, autosomal dominant) 219 is downregulated by M/M and Th2 cytokines, which raises the question of the role of cytokines in inducing retinal damage in inflammatory eye diseases.

It is not known if BRCA1 and DCC are expressed in glial cells and if so, their functions in glia are unknown. The gene for the BRCA1 was downregulated by all three cytokine mixtures. The rat homolog for the gene for the human protein DCC was downregulated by Th1 cytokines. M/M down regulated a gene for what is now still a theoretical protein, which is deleted in some gliomas. Th2 cytokines down regulated the gene for carcinoembryonic antigen. It is not known if expression of these gene and their products are affected by cytokines in tumor cells. BRCA1 is a tumor suppressor protein and is involved in DNA repair and cell growth. It is found in embryonic and adult neural stem cells and seems linked to proliferation 220. DCC is a RAF kinase inhibitory protein (RKIF), previously called phosphtidylethanolamine binding protein, which seems to have tumor suppressor activity 221 and is deleted in several types of tumors, including some colorectal cancers in humans 222. In the CNS it seems to play an important role in neuronal differentiation, migration and determination of cell fate. 222 DCC is the receptor for netrin-1 223 and thus is important for axonal guidance 188224225. As the netrin-1 receptor, it also affects oligodendroglial and OPC migration, in general inhibiting migration 226227, which is the reverse of its usual effect on neuronal/axonal growth and migration. Netrins may also be involved in angiogenesis 228.

We observed dramatic upregulation of the gene for BEST 5 by Th1 and M/M cytokines, 40-fold and 7-fold respectively. This factor has been reported to be upregulated in osteoblasts by both type I and type II interferons with a greater effect induced by type II IFN (IFN-γ). BEST 5 has been found in bone where its functions include modeling bone structure in response to physical stress 229. To our knowledge, this is the first description of either expression or regulation of the gene for BEST 5 in cells of CNS origin.

M/M cytokines downregulated the gene for uterine sensitization-associated gene protein 1. (USAG1). The protein is a down regulator of the bone morphogenetic proteins (BMP), which are members of the TGF-β superfamily and found in the nervous system as well as being widely distributed in other organ systems. BMP are important in oligodendroglial, astrocyte and neuronal development 230231.