15 m sodium phosphate buffer, pH 7.4 (for electron microscopy, 0.2% glutaraldehyde was added to the fixative)] and postfixed for the desired time (see Table 1), rinsed with phosphate-buffered saline (PBS), cryoprotected overnight in 30% sucrose in PBS, frozen with powdered

dry ice and stored at –80 °C. Tissue for biochemistry and RNA analysis was immediately homogenised in buffer containing the appropriate enzyme inhibitors, frozen and stored in sealed containers at –80 °C. 1 : 1000 1 : 300 IHC;60–90 min IHC-EM; 2.5 h WB IHC; 1–3 h Mice were anesthetised as above, and perfused transcardially with 20 mL PBS followed by 50–70 mL freshly prepared fixative (4% paraformaldehyde dissolved in 0.15 m sodium phosphate buffer, pH 7.4). The brain was extracted and postfixed for 3–4 h in the same fixative. It was then rinsed in PBS, cryoprotected in 30% sucrose in PBS and stored at –80 °C. Mice were decapitated and the brain immediately extracted on ice, cut in blocks Deforolimus containing the region of interest, homogenised frozen and stored in sealed containers at –80 °C. Sections were cut from frozen blocks with a sliding microtome at a thickness of 40 μm and were collected free-floating in I-BET-762 manufacturer PBS. They

were incubated under continuous agitation in primary solution [Tris buffer (pH 7.4) containing 0.2 Triton X-100, 2% normal serum and the primary antibodies of choice (see Table 1)] for 15–48 h at 4 °C, washed in Tris buffer and incubated for 30–60 min at room temperature in secondary antibodies coupled to biotin or to a fluorochrome. They were washed again, and either processed further for immunoperoxidase staining (Vectastain Elite kit; Vector Laboratories,

Burlingham, CA, USA, following the manufacturer’s instructions) or washed, mounted, coverslipped with Dako fluorescence mounting medium and stored in the dark. All antibodies tested have been extensively characterised for specificity (see Table 1). The comparison of staining patterns in perfusion-fixed and immersion-fixed tissue confirmed the specificity of the immunohistochemical reaction in the latter tissue. After postfixation, tissue was rinsed several times in 0.1 m phosphate buffer, and cut into 100-μm-thick coronal slices with a vibrating microtome. Slices were processed for pre-embedding Branched chain aminotransferase immunogold labeling as described (Fritschy et al., 2006), using antibodies against gephyrin (Table 1) and secondary antibodies (Fab fragments) coupled to fluronanogold (1.4 nm), followed by gold intensification, using the manufacturer’s kit (Nanoprobes Inc., Yaphank, NY, USA). Slices were then intensified with osmium tetroxide, dehydrated and flat-embedded in resin. Ultra-thin sections were examined with a Jeol JEM-1010 electron microscope and photographed with a digital camera. Brain lysis and sample preparation, protein separation and immunoblotting of amyloid-precursor protein (APP) and Tau were performed as described (Krstic et al., 2012a).