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Logo of nihpaAbout Author manuscriptsSubmit a manuscriptHHS Public Access; Author Manuscript; Accepted for publication in peer reviewed journal;
 
Nat Med. Author manuscript; available in PMC 2014 February 3.
Published in final edited form as:
Published online 2013 March 24. doi:  10.1038/nm.3117
PMCID: PMC3911880
NIHMSID: NIHMS441732

Loss of sorting nexin 27 contributes to excitatory synaptic dysfunction via modulation of glutamate receptor recycling in Down syndrome

Abstract

Sorting nexin 27 (SNX27), a brain-enriched PDZ domain protein, regulates endocytic sorting and trafficking. Here, we show that Snx27−/− mice exhibit severe neuronal deficits in the hippocampus and cortex. While Snx27+/− mice exhibit grossly normal neuroanatomy, we find defects in synaptic function, learning and memory, and a reduction in ionotropic glutamate receptors (NMDARs and AMPARs). SNX27 interacts with these receptors through its PDZ domain, regulating their recycling to the plasma membrane. We demonstrate a concomitant reduction of SNX27 and C/EBPβ in Down syndrome brains and identify C/EBPβ as a transcription factor for SNX27. Down syndrome causes over-expression of miR-155, a chromosome 21-encoded microRNA that negatively regulates C/EBPβ, thereby reducing SNX27 and resulting in synaptic dysfunction. Up-regulating SNX27 in the hippocampus of Down syndrome mice rescues synaptic and cognitive deficits. Our identification of the role of SNX27 in synaptic function establishes a novel molecular mechanism of Down syndrome pathogenesis.

INTRODUCTION

Sorting nexins (SNXs) are a large group of proteins that contain a conserved PX (or phagocyte oxidase homology) domain targeting SNX proteins to endosomes1. SNX27 was originally identified in rats as an alternative splicing product of the Mrt1 (methamphetamine responsive transcript 1) gene2. SNX27 contains a PDZ (PSD-95/Disc-large/ZO-1) domain, making it unique among the PX domain proteins. PDZ domains are protein-protein interaction domains often found in the postsynaptic density (PSD) of neuronal excitatory synapses.

SNX27 reportedly participates in the dynamic trafficking of receptors and ion channels such as β2-adrenergic receptors (β2-AR)3,4, G-protein-activated inward rectifying potassium type 2 (GIRK2)5, serotonin receptor subunit 4a (5-HT4a)6 and N-Methyl-D-aspartate (NMDA)–type glutamate receptor subunit 2C (NR2C)7. However, the physiological role of SNX27 at synapses and whether SNX27 regulates the trafficking of other major types of glutamate receptors remains unknown.

In the PSDs of excitatory synapses, different classes of glutamate receptors are responsible for transducing the presynaptic signal into both biochemical and electrical events in the postsynaptic neuron. The two major types of glutamate receptors are α-Amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid (AMPA)–type glutamate receptors (AMPARs) and NMDA receptors (NMDARs). Dysregulation of AMPARs and NMDARs are involved in several neurodegenerative diseases8,9.

Down syndrome, or trisomy 21, is a congenital disorder that manifests as defects in multiple organs and causes developmental delays and learning disabilities. People with Down syndrome have an extra copy of chromosome 21, leading to an over-dosage of the gene products and non-coding RNAs encoded by this chromosome. Down syndrome pathology includes neuropathology of the cortex and hippocampus in both developmental and aging processes. Dramatic dendritic and synaptic abnormalities, including decreased dendritic arborization10 and a reduction in synaptic number, have been observed in both prenatal11,12 and postnatal Down syndrome brains13. The balance between excitatory and inhibitory synapses is reportedly impaired in the brains of both humans with Down syndrome and mouse models14,15. Impaired LTP has also been detected in the hippocampal CA1 region of Ts65Dn mice16,17. Although several chromosome 21-encoded products, such as β-amyloid precursor protein (APP), are thought to contribute to the pathology of Down syndrome, the detailed molecular mechanisms remain largely unclear.

Here, we demonstrate a novel role for SNX27 in the dysregulation of synaptic function in Down syndrome. Our study shows that the chromosome 21-encoded miR-155 targets and down-regulates C/EBPβ, which is a transcription factor for SNX27. Thus, the lower levels of C/EBPβ in Down syndrome lead to reduced SNX27 expression. We show that SNX27 promotes recycling of AMPARs and NMDARs from early endosomes to the plasma membrane through direct PDZ binding and thus prevents their degradation. Deletion of SNX27 in mice results in synaptic dysfunctions and cognitive deficits. Further, over-expressing SNX27 in the hippocampus of Ts65Dn mice reverses the impairments in the receptor levels and synaptic functions. Therefore, SNX27 is crucial for maintaining glutamate receptors via posttranslational mechanisms and is required for normal synaptic activity and long-term memory formation.

RESULTS

Neuropathology in the cortex and hippocampus of Snx27−/− mice

We first examined the developmental expression pattern of Snx27 in postnatal mouse brains and found that Snx27 can be detected at P0 and reaches a plateau at P7. The developmental expression pattern of Snx27 is similar to that of GluR1 and NR1 (Fig. 1a). In situ hybridization results, as reported by the Allen Brain Atlas, revealed that Snx27 mRNA is highly expressed in the cortex, hippocampus and cerebellum (Supplementary Fig. 1). To investigate the physiological function of SNX27, we analyzed Snx27 knockout mice and found that most Snx27−/− mice are viable from birth until postnatal day 14 (P14). Their growth rate then slowed significantly and mice die by week 4. Microscopic histological examination of Snx27−/− brains revealed degenerating neurons in the cortex at P14, with reduced somal size and hyperchromicity apparent (Fig. 1b).

Figure 1
Neuropathology in the cortex and hippocampus of Snx27−/− mice

Brain development during the early postnatal period involves increases in dendritic branching and synapse formation, both of which were found to be greatly compromised in Snx27−/− mice at P14 (Fig. 1c,d). Although the orientation of apical dendrites is unaffected, the total dendritic length of both cortical layer 5 and hippocampal CA1 neurons is dramatically reduced. There is also a marked decrease in dendritic branching in cortical neurons.

Impaired learning and memory in Snx27+/− mice

Complete loss of Snx27 results in severe neuronal death and eventual lethality in mice, making it impossible to determine how Snx27 influences memory deficits and synaptic function. However, Snx27+/− mice are viable and exhibit grossly normal neuroanatomy (Supplementary Fig. 2) and lifespan7 compared to Snx27+/+ littermates; thus, we examined the role of Snx27 in memory and synaptic function using Snx27+/− mice.

Since intellectual disability is a primary aspect of Down syndrome, we assessed potential cognitive deficits in Snx27+/− mice using behavioral tests. We first used the Barnes maze18,19 to assess learning and memory and found that Snx27+/− mice made more errors at day 6–8 after training (Fig. 2a) and used less spatial strategies than Snx27+/+ mice (Supplementary Fig. 3a). Snx27+/− mice did not spend significantly more time in the target quadrant than other quadrants in the probe test (Fig. 2b). Furthermore, Snx27+/− mice spent much less time exploring novel objects than familiar objects in the novel object recognition task compared to Snx27+/+ mice (Fig. 2c). We performed additional behavioral tasks to test for locomotor activity (Supplementary Fig. 3b–d) or visual disabilities (Supplementary Fig. 4a) and found no differences between Snx27+/+ and Snx27+/− mice.

Figure 2
Cognitive and synaptic deficits in Snx27+/− mice

Impaired synaptic transmission and synaptic plasticity in Snx27+/− mice

We performed extracellular recordings on hippocampal slices to examine LTP in the hippocampal CA1 region. Input–output response results showed that Snx27+/− mice have decreased excitatory synaptic transmission compared to Snx27+/+ mice (Fig. 2e). The attenuation of basal synaptic transmission in Snx27+/− mice may arise from a reduced number of synapses or defects in either presynaptic or postsynaptic function. To distinguish between these possibilities, we used a paired-pulse facilitation (PPF) paradigm to examine the regulation of synaptic activity through Ca2+-mediated presynaptic neurotransmitter release. We found that the PPF ratio was unchanged in Snx27+/− brain slices compared to Snx27+/+ controls (Fig. 2f). In contrast, when we recorded miniature excitatory postsynaptic currents (mEPSCs) from CA1 hippocampal neurons, the amplitude was significantly decreased in Snx27+/− neurons compared to Snx27+/+ neurons, while the frequency remained unaltered (Fig. 2g–i).

Given the defect is postsynaptic, we reasoned that synaptic plasticity should also be disrupted. In fact, when we examined NMDAR-dependent synaptic plasticity in Snx27+/− mice, we found that long-term potentiation (LTP) induced by high frequency trains (100 Hz for 1 s) was decreased compared to Snx27+/+ controls (Fig. 2i). Since, in addition to input-output curves, the mEPSCs data represent AMPAR-mediated responses, and the induction of LTP is dependent upon intact NMDAR activity, our electrophysiological data suggest that Snx27+/− mice possess defects in both AMPAR and NMDAR-dependent synaptic events.

Reduced levels of hippocampal glutamate receptors in Snx27+/− mice

We determined through Western blot analysis that Snx27+/− mice had lower levels of GluR1, GluR2, NR1, NR2A and NR2B in both synaptosomal membranes and PSD fractions compared to Snx27+/+ littermates (Fig. 3a). We examined the total levels of glutamate receptor subunits in the hippocampus and observed at P1 that the levels of GluR1, GluR2 and NR1, but not NR2A and NR2B, were decreased in Snx27−/− mice compared to Snx27+/+ mice. However, by P14, the levels of NR2A and NR2B were also decreased (Supplementary Fig. 5). PSD-95 levels were unaffected at both time points.

Figure 3
Down-regulation of SNX27 affects stability of NMDARs and AMPARs

Loss of SNX27 results in increased degradation of AMPARs and NMDARs

We performed quantitative RT-PCR to measure receptor mRNA levels and found them unaffected in the hippocampi of Snx27−/− mice compared to littermate controls (Supplementary Fig. 6). To determine whether SNX27 influences turnover of the receptors, we performed cycloheximide chase assays in HEK293 cells over-expressing GluR1 (GluR1-HEK293) or NR1(NR1-HEK293). The turnover of both GluR1 and NR1 were significantly accelerated by the siRNA down-regulation of SNX27 (Fig. 3b,c). Treatment of GluR1-HEK293 or NR1-HEK293 cells with the proteasomal inhibitor lactacystin or MG132 in the presence of cycloheximide largely rescued the degradation of GluR1 and NR1 caused by SNX27 knockdown. Treatment with the lysosomal inhibitor leupeptin or NH4Cl also rescued, although to a lesser extent, receptor degradation (Fig. 3d,e).

SNX27 interacts with glutamate receptors and regulates their recycling to the cell surface

We found that both a recombinant SNX27 PDZ domain and full length SNX27 protein linked with GST can pull down glutamate receptors (GluR1, GluR2, NR1 and NR2A) but not the presynaptic vesicle protein synaptophysin from mouse brain lysates (Fig. 4a). Myc-tagged SNX27 and constructs expressing various glutamate receptors were co-transfected into HEK293T cells and their interaction was verified by co-immunoprecipitation (Fig. 4b). Moreover, endogenous Snx27 co-immunoprecipitated with endogenous glutamate receptors from mouse brain lysates (Fig. 4c).

Figure 4
SNX27 interacts with glutamate receptors and regulates recycling to the cell surface

Cell surface biotinylation experiments showed that over-expression of SNX27 resulted in increased cell surface levels of GluR1 and NR1 (Fig. 4d). Conversely, knockdown of SNX27 resulted in reduced cell surface levels of GluR1 and NR1 (Fig. 4e). This effect was also evident in primary neurons; we observed a decrease in cell surface levels of GluR1 and NR1 in primary neurons derived from Snx27+/− mice (Fig. 4f).

The steady state level of cell surface receptors is the net result of both endocytosis and recycling of the receptors. Since SNX27 did not influence the endocytosis of GluR1 (Supplementary Fig. 7), we postulated that SNX27 affects the recycling of the receptors. To test this hypothesis, we carried out receptor recycling assays and found that over-expression of SNX27 decreased levels of internalized biotinylated GluR1, indicating an accelerated recycling rate (Fig. 4g). Consistent with these over-expression experiments, we found slower recycling of biotin-labeled GluR1 upon treatment with SNX27 siRNA, as compared to controls (Fig. 4h).

Reduction of SNX27 expression in Down syndrome brains

We examined the levels of SNX27 in brain samples from humans with Down syndrome and age/gender matched controls and found both protein and mRNA levels of SNX27 were markedly decreased in the cortex of Down syndrome individuals (Fig. 5a,c). Consistent with changes in SNX27, the levels of GluR1 were also decreased in Down syndrome brains while APP levels were significantly increased, as expected. However, the levels of SNX27 were not altered in the cortexes of humans with sporadic Alzheimer’s disease compared to controls (Fig. 5b). We also found, as expected, that both Snx27 and C/EBPβ protein levels were lower in the hippocampus of Ts65Dn mice than in wild-type (WT) controls (Supplementary Fig. 8a). However, only Snx27, and not C/EBPβ, mRNA levels were reduced in the hippocampus of Ts65Dn mice (Supplementary Fig. 8b).

Figure 5
Down-regulation of C/EBPβ via over-expression of miR-155 results in decreased SNX27 levels in Down syndrome brains

Regulation of SNX27 by the miR-155—C/EBPβ pathway

We next examined the expression levels of chromosome 21-derived microRNAs in Down syndrome cortexes. Our findings were consistent with previous studies demonstrating increased levels of chromosome 21-encoded microRNAs in the brains of both humans with Down syndrome and Ts65Dn mice20,21 (Supplementary Fig. 9a and Supplementary Fig. 8c). Among these microRNAs, only miR-155 expression is negatively correlated with SNX27 mRNA levels (Supplementary Fig. 9b). We transfected a miR-155 mimic into human neuroblastoma MC-IXC cells and found decreased levels of both SNX27 protein and mRNA (Fig. 5d,e). However, no consensus miR-155 binding sites were found on the SNX27 3′-UTR, suggesting that SNX27 is not the direct target. In silico analysis predicted several C/EBPβ binding sites in the SNX27 promoter region (Supplementary Fig. 10), and the binding of miR-155 to the C/EBPβ 3′-UTR was recently reported22. Additionally, we observed a positive correlation between C/EBPβ and SNX27 protein levels in the cerebrocortex of humans with Down syndrome (Supplementary Fig. 9c).

We over-expressed an active isoform of C/EBPβ, LAP2 (Liver-enriched activator protein), in MC-IXC human neuroblastoma cells and found that SNX27 protein levels were significantly up-regulated (Fig. 5f). Moreover, we determined that Snx27 protein levels were decreased in the cortex and hippocampi of Cebpb−/− mice compared to Cebpb+/− controls (Fig. 5g). A Luciferase reporter assay using Hela cells showed that over-expression of LAP2 enhanced the promoter activity of human SNX27, whereas over-expression of another C/EBPβ isoform, LIP (Liver inhibitory protein), did not affect SNX27 promoter activity (Fig. 5h). We carried out a chromatin immunoprecipitation (ChIP) assay and found that C/EBPβ binds to the endogenous SNX27 promoter in HEK293T cells (Fig. 5i).

Over-expression of SNX27 rescues impaired synaptic functions in Ts65Dn mice

To test whether SNX27 expression could rescue the synaptic deficits and impaired learning and memory of Down syndrome, we generated Adeno-associated viruses (AAV1) containing human SNX27 cDNA (Fig. 6a). As expected, over-expression of human SNX27 increased levels of GluR1, GluR2, NR1, NR2A and NR2B in rat primary neurons (Supplementary Fig. 11). We next injected the AAV-SNX27 or AAV-GFP control bilaterally into the hippocampal CA1 area of 7~8 month old Ts65Dn or WT mice and analyzed subsequent behavioral changes (Fig. 6c). Four weeks after injection of AAV-SNX27, SNX27 levels in Ts65Dn mice were significantly higher than in controls (Fig. 6f). Since CA1-specific deletion of NMDAR1 can result in impaired performance on novel object recognition tests23, and Ts65Dn mice exhibit impaired LTP and novel object recognition memory24, this test may allow us to evaluate hippocampus-dependent memory. Notably, the cognitive and LTP deficits in Ts65Dn mice16,24 were rescued by increased SNX27 expression (Fig. 6b–e). All mice behaved normally on the optomotor test (Supplementary Fig. 4b), excluding the possible confounding effects of visual problems (a small portion of Ts65Dn mice may become blind25). In synaptosomal preparations from Ts65Dn mice, the levels of glutamate receptor subunits GluR1, NR1 and NR2B were lower than in control mice (Supplementary Fig. 9d). Reduced levels of synaptosomal glutamate receptors were rescued by exogenous expression of SNX27 in the hippocampi of the Ts65Dn mice (Fig. 6f).

Figure 6
SNX27 rescues cognitive and synaptic deficits in Ts65Dn mice

DISCUSSION

DS-like neuronal deficits in Snx27−/− mice

Dramatic dendritic and synaptic abnormalities such as decreased dendritic arborization and reduced synapse numbers in both prenatal and postnatal Down syndrome brains have been reported13. Similarly, dendritic growth and branching is greatly compromised in Snx27−/− mice analyzed at early postnatal stages. The decreased dendritic branching and synapse number suggest that Snx27 is essential for postnatal brain development.

Abnormalities in excitatory neurotransmission and cognitive function have been reported in humans with Down syndrome as well as in mouse models14,15,26. Decreased LTP has been observed in both Ts65Dn and Tc1 Down syndrome mouse models16,17,26. To investigate whether Snx27 deficiency results in synaptic and cognitive deficits, we used Snx27+/− mice for electrophysiological and behavioral studies, as Snx27−/− mice show severe neuropathology and early lethality. Additionally, the Snx27+/− mouse model might better mimic the pathology of human Down syndrome, which is due to only a partial loss of SNX27 expression.

mEPSC recordings reveal that AMPAR-mediated postsynaptic currents are reduced in the hippocampi of Snx27+/− mice compared to controls. Furthermore, NMDAR-dependent Schaffer-collateral CA1 LTP induction is significantly attenuated in Snx27+/− mice, indicating a possible role for Snx27 in the LTP mechanism.

SNX27 mediates glutamate receptor recycling

The balance between insertion and internalization of AMPARs at the postsynaptic membrane is an important mechanism for regulating synaptic strength. Our biochemical and cell biological data show that SNX27 promotes NMDAR and AMPAR recycling back to the plasma membrane and is not involved in the internalization of these receptors.

In the future, it will be interesting to study whether SNX27 regulates the recycling of NMDARs and AMPARs in cooperation with other components of the trafficking machinery. For example, SNX27, like SNX17, contains a C-terminal PX-FERM domain and reportedly the FERM domain can associate with the activated Ras small GTPase27. It is still unclear, however, if SNX27 interacts with the small GTPase to regulate the sorting and recycling of NMDARs and AMPARs. Additionally, the retromer has also been shown to regulate the transport of various cargo from the endosome to the Trans-Golgi Network (TGN) and plasma membrane directly. Previous studies showed cooperation between SNX27 and the retromer complex in regulation of β2-AR recycling4. Mutation and dysfunction of the retromer complex have been linked with neurodegenerative diseases, including Alzheimer’s disease2831 and Parkinson’s disease (PD)32,33, further investigation on whether SNX27 regulates recycling of AMPARs and NMDARs in a retromer-dependent manner will be interesting.

A miR-155—C/EBPβ—SNX27 pathway in Down syndrome pathogenesis

miR-155, encoded on chromosome 21 and thus over-expressed in Down syndrome, is a negative regulator of C/EBPβ22. Previous studies have suggested that C/EBP is crucial for consolidation of long-term memory in both invertebrates and mice3437. C/EBPβ is an evolutionarily conserved gene with a selective role in the consolidation of new memories in the hippocampus. Our results indicate that SNX27, a downstream target of C/EBPβ, is down-regulated in Down syndrome brains. Notably, restoration of SNX27 by AAV site-specific delivery reverses the LTP and cognitive deficits of Ts65Dn mice. Loss of SNX27 may partially explain the mechanism whereby Trisomy 21 leads to synaptic dysfunction, memory difficulties and neurodegeneration.

We found nearly normal protein expression levels of GABAA receptor subunits (α1, β2) in the hippocampus of Snx27+/− mice. We also determined, using co-immunoprecipitation, that SNX27 does not interact with GABAA receptor subunits (α1, β2) (Supplementary Fig. 12). These results suggest that SNX27 does not affect GABAA receptors. However, previous studies have reported that SNX27 negatively regulates GIRK25, which is encoded by chromosome 21 and highly expressed in Down syndrome brains. Since GIRK2 controls the excitability of neurons through GIRK-mediated self-inhibition, its over-expression is involved in the excessive inhibition in Down syndrome brains38,39. Therefore, SNX27 expression could contribute to the restoration of balance between excitation and inhibition through both up-regulation of excitatory transmission and suppression of GIRK2-mediated inhibition.

In summary, we have identified a signaling pathway in which the decreased C/EBPβ level resulting from excessive miR-155 in Down syndrome, represses SNX27 expression (Supplementary Fig. 13). This leads to synaptic dysfunction and neuropathological changes. Thus, the miR-155—C/EBPβ—SNX27 pathway is a novel contributory mechanism to the neuropathogenesis of Down syndrome.

ONLINE METHODS

Antibodies

The SNX27 antibodies used in these experiments include the previously described SNX27 polyclonal antibodies and SNX27 monoclonal antibodies7,40. Other antibodies acquired from commercial sources were: GluR1 (Chemicon), GluR2 (Millipore), PSD-95 (Millipore), synaptophysin (Sigma), NR1 (BD Biosciences), NR2A (Millipore), NR2B (BD Biosciences), VGAT (Millopore), GABAARα1 (Millipore), GABAARβ2 (Millipore), C/EBPβ (Santa Cruz), Transferrin receptor (Invitrogen), c-Myc (Invitrogen), α-tubulin (Sigma) and β-actin (Sigma).

Constructs

The following vectors were used in this study: pCI-neo (Promega), pDMyc-SNX27, GluR1 and GluR2, NR1 and NR2A, and pDMyc-Neo and pDHA-Neo (Modified from pCI-neo). Both Full-length and PDZ domain sequences of SNX27 were amplified by PCR and then inserted into pGEX-4T2 (GE Healthcare) for GST pull down assays. GluR1 and GluR2 constructs were from Paul Greengard’s lab. Constructs expressing LAP2 and LIP (Addgene plasmid 15738 and 12561) were ordered from Addgene and described in the previous study41.

Mouse strains

Snx27+/+, Snx27+/− and Snx27−/− mice7 were generated by crossing heterozygotes on C57Bl/6 and 129SV mixed backgrounds to produce F1 hybrid background animals.

Cebpb+/− and Cebpb−/− mice42 were generated by crossing heterozygotes on C57Bl/6 and 129SV backgrounds to produce F1 hybrid background animals.

Segmental trisomy 16 (Ts65Dn) mice were obtained by mating female carriers of the 1716 chromosome (B6EiC3H-a/A-Ts65Dn) with (C57BL/6JEi X C3H/HeJ) F1 (JAX #JR1875) males25. Ts65Dn mice were maintained on the B6/C3H background. Diploid (2N) littermate mice served as WT controls. All mice were also screened for retinal degeneration due to Pde6brd1 homozygosity and only animals free of retinal degeneration were used for behavioral tests.

All procedures involving animals were performed under the guidelines of Sanford-Burnham Medical Research Institute (SBMRI) Institutional Animal Care and Use Committee.

Preparation of synaptosomal and PSD fractions from mouse hippocampus

Mouse hippocampi were dissected and homogenized on ice in 10 volumes of cold sucrose buffer (0.32M Sucrose, 25mM HEPES pH=7.4). The homogenates were centrifuged at 300g for 5 min to separate supernatant (S1) from the nuclei and large debris fraction. The S1 fraction was centrifuged at 10,000g for 12 min to separate the supernatant (S2: light membrane and cytosolic fraction) and the pellet (P2: crude synaptosomal fraction). The P2 fraction was washed twice by sucrose buffer and resuspended in cold HBS buffer (25mM HEPES pH=7.4, 150mM NaCl) to get the synaptosomal fraction. The PSD fraction was prepared by solubilizing the synaptosomal fraction in 1% Triton HBS buffer at 4 °C for 30 min, then centrifuging at 10,000g for 20 min.

siRNA, miRNA mimic and quantitative Real-Time PCR

The human SNX27 siRNA used was: 5′-CCAGAUGGAACAACGGUUATT-3′. The control siRNA was from QIAGEN. The miRIDIAN miR-155 mimic was from Dharmacon. siRNA or miRNA was transfected into HEK293T or MC-IXC cells using Lipofectamine RNAiMAX. The real-time PCR primer sequence is in Supplementary Table 3. β-actin served as the control. Relative microRNA expression was determined using real-time quantitative PCR and normalized to U6 expression as an internal control. Total RNA was isolated using Trizol Reagent (Invitrogen) and 500ng of total RNA was reverse transcribed using microRNA First-Strand Synthesis and Quantitation Kits (Clontech).

GST pull-down assays

Full-length (FL) SNX27 and SNX27 PDZ domain cDNAs were cloned into the pGEX4T1 vector. Glutathione S-transferase (GST)-fused recombinant proteins were purified as described previously7. We performed GST pull-down assays in the binding buffer (20 mM Tris-HCl, pH 8.0, 100 mM NaCl, 1 mM EDTA, 1% NP-40, supplemented with protease inhibitors). After washing, retained proteins were eluted by boiling in SDS protein loading buffer and analyzed by Western blot using the indicated antibodies.

Immunoprecipitation

293T cells transfected with different expression constructs were lysed in NP-40 buffer (20 mM Tris-HCl, pH 8.0, 100 mM NaCl, 1 mM EDTA, 1% NP-40, supplemented with protease inhibitors). Lysates were immunoprecipitated using mouse IgG, rabbit IgG, and antibodies against Myc or HA and Trueblot IP beads (eBioscience), followed by Western blot.

Promoter luciferase assay

Briefly, the human SNX27 promoter was amplified using genomic DNA from 293T cells as templates. After amplification, PCR products were inserted into the pGL3-Basic vector containing the firefly luciferase gene (Promega). Firefly luciferase vectors were cotransfected with phRL-SV40 containing the Renilla luciferase gene (Promega) into Hela cells with altered C/EBPβ (over-expressed or down-regulated) for 48 h. Firefly luciferase activities were assayed and normalized to those of Renilla luciferase.

Chromatin immunoprecipitation

ChIP assays were performed with a commercial kit (Upstate) following the manufacturer’s instructions with minor modifications. SNX27 promoter primers are shown in Supplementary Table 3. PCR products were resolved on 2% agarose gels and visualized after ethidium bromide staining.

Pharmacological treatment of cycloheximide, proteasomal and lysosomal inhibitors

Cells were incubated for 8 hours with cycloheximide (CHX, 500 μM), in the presence or absence of lysosomal inhibitor (100 μg ml−1 leupeptin, 50mM NH4Cl, Sigma) or proteasomal inhibitor (10 μM MG132 and 10 μM lactacystin from Calbiochem). After treatment, cells were lysed and subjected to western blot analysis.

Immunohistochemistry and data analyses

Snx27−/− or Snx27+/− mice and Snx27+/+ littermate controls were anesthetized and fixed by cardiac perfusion with 4% PFA. Whole brains were excised and post-fixed in 4% PFA overnight. Tissue blocks were embedded in paraffin and 5μm sections were cut and stained with Nissl (cresyl violet). Immunostained sections were examined and fluorescence images collected using a Zeiss fluorescence microscope with AxioVision software.

Golgi staining

Golgi staining was performed by using the FD Rapid GolgiStain Kit (FD NeuroTechonologies). Images were acquired using a Zeiss fluorescence microscope with a 10× or 20× objective under DIC. Dendritic branching and length were measured using NIH Image J-software with a previously described sholl analysis plug-in43. Student’s t test was used to determine the significance between Snx27+/+ and Snx27−/− neurons.

Cell surface biotinylation assay

Biotinylation was carried out following a previously described protocol44.

Receptor recycling experiments

Receptor recycling experiments were performed as described45. Briefly, cells were specifically labeled with Sulfo-NHS-SS-biotin at 4 °C. After washing, cells were incubated at 37 °C for 30 min to allow endocytosis to occur. Cells were then cooled to 4 °C to stop membrane trafficking and biotin was cleaved from biotinylated proteins remaining at the cell surface with glutathione. Cells were then incubated with serum-free growth media containing 50 mM glutathione at 37 °C for various times to allow internalized receptors to recycle before the cells were cooled to 4 °C again. Cells were then incubated with glutathione cleavage buffer (twice, 15 min each at 4 °C) to ensure complete cleavage of any newly appearing surface biotin. Residual biotinylated (internalized) receptors were pulled down from cell lysates by streptavidin precipitation, detected by Western blot analysis with GluR1-specific and β-actin-specific antibodies and then quantified by densitometry. The rate of reduction of biotinylated AMPARs provides a measure of the receptor recycling rate.

Stereotactic injection of adeno-associated virus

Recombinant human SNX27 and GFP adeno-associated virus (2 μl, titer 3×1012) were stereotactically injected into the hippocampus of Ts65Dn or WT mice (7~8 months old) at the following coordinates: anterior posterior, 1.8; medial lateral, ±1.8; dorsal ventral, 1.8. To confirm region-specific over-expression of SNX27 in mouse brains, 4 weeks after injection mice were anesthetized and sacrificed, whereupon brain tissues were rapidly removed. Hippocampal lysates were prepared by homogenizing tissue in RIPA buffer, in the absence of protease inhibitors, for Western blotting analysis.

Miniature EPSC recordings

For hippocampal slice recordings, horizontal slices were prepared from Snx27+/− and Snx27+/+ mice at 4 to 5 weeks of age. We performed electrophysiological recordings on transverse hippocampal slices (350 μm-thickness); 200 consecutive events were analyzed from cells of either Snx27+/− or Snx27+/+ mice. See details in Supplementary Methods online.

Extracellular electrophysiology

The acute hippocampal slices were obtained and maintained as described above. The Schaffer collateral inputs to the CA1 region were stimulated with a bipolar tungsten electrical stimulating electrode at three different intensities (min, half-max. and max.). Using a low resistance recording electrode, the field Excitatory Postsynaptic potential (fEPSP) responses from the stratum radiatum region of CA1 were recorded using a MultiClamp (Axon Instrument). The initial slope of the fEPSP response was measured using Clampex software. Synaptic transmission of CA1 neurons was determined as input-ouput curves for fEPSP slope response to Schaffer collateral stimulation.

Neurobehavioral tests

See Supplementary Methods online.

Human brain specimens

Human Down syndrome brain cortex samples were obtained from the Brain and Tissue Bank for Developmental Disorders, University of Maryland at Baltimore, in contract with the National Institutes of Health, NICHD. Additional human Alzheimer’s disease brain samples used in this project were provided by UCSD, San Diego, CA and were analyzed with institutional permission under California and National Institutes of Health guidelines. For specimen information see Supplementary Table 1, 2.

Statistical analyses

Statistical analyses were performed with GraphPad Prism. Data distribution was assessed by a Kolmogorov-Smirnoff nonparametric test of equality. Differences between two means were assessed by paired or unpaired t test. Differences among multiple means were assessed, as indicated, by one-way, two-way or repeated-measures ANOVA, followed by Bonferroni’s, Dunnett’s, Kruskal-Wallis’s or Tukey’s post-hoc test. Error bars represent s.e.m. Null hypotheses were rejected at the 0.05 level.

Additional methods

Detailed methodology is described in the Supplementary Methods.

Supplementary Material

Supplementary Material

Acknowledgments

We thank P. Slesinger for providing the rabbit SNX27 antibody and helpful discussion, A. Roberts and Scripps behavioral core for mouse behavioral analysis, T. Golde and C. Ceballos for generating AAV, E. Masliah for providing human brain specimens, K. Wright for helping in the transfer of Ts65Dn mice, S. Huang for helping with statistical analysis, K. Saylor for C/EBPβ KO mouse breeding and tissue collection, A. Brzozowska-Prechtl and L. Lacarra for technical help. This work was supported in part by US National Institutes of Health grants (R01 AG038710, R01 AG021173, R01 NS046673, R01 AG030197 and R01 AG044420 to H.X.; P01 HD29587, P01 ES016738, P30 NS076411 to S.A.L.) and grants from the Alzheimer’s Association (to H.X. and Y.-w.Z.), the American Health Assistance Foundation (to H.X.), National Natural Science Foundation of China (30973150 and 81161120496 to Y.-w.Z.), the 973 Prophase Project (2010CB535004 to Y.-w.Z.), and Natural Science Funds for Distinguished Young Scholar of Fujian Province (2009J06022 to Y.-w.Z.). Y.-w.Z. is supported by the Program for New Century Excellent Talents in Universities (NCET), the Fundamental Research Funds for the Central Universities and Fok Ying Tung Education Foundation. This research was supported in part by the Intramural Research Program of the US National Institutes of Health, US National Cancer Institute and Center for Cancer Research.

Footnotes

COMPETING FINANCIAL INTERESTS

The authors declare no competing financial interests.

AUTHOR CONTRIBUTIONS

X.W. and H.X. conceptualized the study. X.W. designed and performed morphological analysis and biochemical assays and Y.Z. performed receptor endocytosis and recycling experiments. X.Z. performed miniature EPSC recordings and LTP recordings in the SNX27 rescue experiments, S.A.L. designed and helped analyze these experiments while supervising X.Z. H.B. and Y.M. performed extracellular electrophysiological recordings and B.R. and F.H.G. supervised H.B. and Y.M., respectively. Y.Z. analyzed microRNA expression in humans with Down syndrome and the mouse model. L.S.L. performed endogenous co-immunoprecipitation assays. W.H. provided Snx27 KO mice and SNX27 antibody, as well as supervised L.S.L. and L.C. C.W. and W.C.M. provided Ts65Dn mice and helpful discussion. R.T. performed mouse genotyping, Y.C. helped with collecting Alzheimer’s disease samples, B.Y. and D.Z. performed whole-cell recordings and P.F.J. provided C/EBPβ KO mouse brain samples. Y.w.Z., B.G. and S.A.L. edited the manuscript. X.W. and H.X. wrote the manuscript. H.X. supervised the project.

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