Epilepsy-associated gene Nedd4-2 mediates neuronal activity and seizure susceptibility through AMPA receptors

Abstract

The neural precursor cell expressed developmentally down-regulated gene 4–2, Nedd4-2, is an epilepsy-associated gene with at least three missense mutations identified in epileptic patients. Nedd4-2 encodes a ubiquitin E3 ligase that has high affinity toward binding and ubiquitinating membrane proteins. It is currently unknown how Nedd4-2 mediates neuronal circuit activity and how its dysfunction leads to seizures or epilepsies. In this study, we provide evidence to show that Nedd4-2 mediates neuronal activity and seizure susceptibility through ubiquitination of GluA1 subunit of the α-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid receptor, (AMPAR). Using a mouse model, termed Nedd4-2^andi, in which one of the major forms of Nedd4-2 in the brain is selectively deficient, we found that the spontaneous neuronal activity in Nedd4-2^andi cortical neuron cultures, measured by a multiunit extracellular electrophysiology system, was basally elevated, less responsive to AMPAR activation, and much more sensitive to AMPAR blockade when compared with wild-type cultures. When performing kainic acid-induced seizures in vivo, we showed that elevated seizure susceptibility in Nedd4-2^andi mice was normalized when GluA1 is genetically reduced. Furthermore, when studying epilepsy-associated missense mutations of Nedd4-2, we found that all three mutations disrupt the ubiquitination of GluA1 and fail to reduce surface GluA1 and spontaneous neuronal activity when compared with wild-type Nedd4-2. Collectively, our data suggest that impaired GluA1 ubiquitination contributes to Nedd4-2-dependent neuronal hyperactivity and seizures. Our findings provide critical information to the future development of therapeutic strategies for patients who carry mutations of Nedd4-2.

Author summary

Many patients with neurological disorders suffer from an imbalance in neuronal and circuit excitability and present with seizure or epilepsy as the common comorbidity. Human genetic studies have identified many epilepsy-associated genes, but the pathways by which those genes are connected to brain circuit excitability are largely unknown. Our study focused on one of the epilepsy-associated genes, Nedd4-2, and aimed to dissect the molecular mechanism underlying Nedd4-2-associated epilepsy. Nedd4-2 encodes a ubiquitin E3 ligase. Several neuronal ion channels have been identified as its substrates, including the GluA1 subunit of AMPAR. Our results first demonstrate up-regulation of spontaneous neuronal activity and seizure susceptibility when Nedd4-2 is reduced in a mouse model. These deficits can be corrected when GluA1/AMPAR is pharmacologically or genetically inhibited. In addition, we found that three epilepsy-associated missense mutations of Nedd4-2 inhibit the ubiquitination of GluA1 and fail to reduce GluA1 surface expression or spontaneous neuronal activity when compared to wild-type Nedd4-2. These findings suggest the reduction of GluA1 ubiquitination as a crucial deficit underlying insufficient function of Nedd4-2 and provide critical information to the development of therapies for patients who carry mutations of Nedd4-2.

Introduction

A hyperactive brain circuit is a common abnormality observed in patients with various neurological and psychiatric disorders, including epilepsies (1). Evidence from human genetic studies implicates genes encoding ion channels or their regulators in the etiology of those pathophysiological conditions [1, 2]. Characterizing those genes and their function in regulation of brain circuit activity is likely to reveal novel therapeutic targets for these diseases. One of those genes is the neural precursor cell expressed developmentally downregulated gene 4-like (Nedd4-2) [3]. Nedd4-2, is an epilepsy-associated gene containing at least three missense mutations identified through genomic mutation screening in patients with epilepsy [3–6]. Nedd4-2 encodes a ubiquitin E3 ligase that belongs to the Nedd4 family of ubiquitin E3 ligases [7] but is the only member encoded by an epilepsy-associated gene [3]. Because of an N-terminal lipid-binding domain, Nedd4-2 has high affinity toward binding and ubiquitinating membrane proteins [8]. Several neuronal membrane substrates of Nedd4-2 have been identified, such as voltage-gated sodium channel Na_v1.6 [9], voltage-gated potassium channels K_v7/KCNQ [10–12], neurotrophin receptor TrkA [13, 14] and the GluA1 subunit of the α-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid receptor (AMPAR) [15]. Our previous work has demonstrated elevated seizure susceptibility in mice when Nedd4-2 is knocked down [16]. However, the mechanisms by which the dysfunction of Nedd4-2 contributes to epileptogenesis are unclear. Presumably wild-type (WT) Nedd4-2 mediates or represses circuit activity by ubiquitinating one or more of its substrates while the epilepsy-associated mutants fail to do so and lead to seizures and/or epilepsies. To test this possibility, we needed to identify the relevant substrate of Nedd4-2 in regulation of neuronal excitability and characterize the effect of epilepsy-associated mutations on substrate recognition.

The AMPAR is a major subtype of ionotropic glutamate receptors and is the most commonly found receptor in the mammalian nervous system [17, 18]. AMPARs are assembled as homo-or hetero-tetramers and are comprised of combinations of GluA1–GluA4 subunits [19]. Each subunit has a non-conserved C-terminal, an intracellular domain that harbors regulatory elements subject to various post-translational modifications such as ubiquitination. All four AMPAR subunits can be ubiquitinated, but only GluA1 ubiquitination has been specifically described upon different activity stimulations [20, 21]. Studies have shown that GluA1 ubiquitination contributes to its internalization [22, 23]. This internalization, part of AMPAR trafficking mechanisms [24], is critical for synaptic depression as well as homeostatic regulation of synaptic strength [25–28]. Because GluA1-GluA2 is the predominant AMPAR heteromer [29], and GluA1 is required for successful trafficking and targeting of GluA2 [30], we hypothesized that Nedd4-2 is required for limiting GluA1 surface expression and functionality of AMPAR. Because GluA1 levels affect neuronal activity [31], and dysregulation of AMPARs has been shown to be linked to epilepsy [32, 33], Nedd4-2 may play a role in affecting neuronal activity, seizures, and/or epilepsy through fine-tuning of AMPARs.

In our current study, we provide in vitro and in vivo evidence to demonstrate GluA1- and AMPAR-dependent elevation of neuronal activity and seizure susceptibility induced by functional insufficiency of Nedd4-2. To our knowledge, our findings provide the first mechanism underlying Nedd4-2-associated circuit hyperactivity and seizures and open up a new avenue for the development of therapeutic strategies to potentially treat epileptic patients who carry Nedd4-2 mutations.

Results

Nedd4-2 mediates spontaneous neuronal and synaptic activity

It is unknown how dysregulation of Nedd4-2 is involved in seizures or epilepsies. To answer this question, we employed a mouse model, Nedd4-2^andi, in which the long-form (isoform 1) of Nedd4-2 is selectively deleted due to a spontaneous mutation in exon-2 (Fig 1A). Because Nedd4-2 knockout mice are not viable [34], Nedd4-2^andi serves as an ideal, in vivo knockdown model to study Nedd4-2. To assess the question of whether Nedd4-2 mediates neuronal activity, we employed a multielectrode array (MEA) recording system (S1 Fig) to record extracellular spontaneous spikes of electrical activity in primary cortical neuron cultures prepared from WT or Nedd4-2^andi mice. As shown in Fig 1B, the frequency of spontaneous spikes was significantly elevated in Nedd4-2^andi cultures in comparison to WT cultures. The average spontaneous spike amplitude did not differ between WT and Nedd4-2^andi cultures (Fig 1C). These data indicate that spontaneous neuronal activity is basally elevated in Nedd4-2^andi cortical cultures.

Fig 1. Nedd4-2 mediates spontaneous neuronal and synaptic activity.

(A₁) A diagram showing two alternative protein products (isoforms 1 and 2) from the Nedd4-2 gene, and (A₂) western blot results of Nedd4-2 and Gapdh from brain lysates of WT or Nedd4-2^andi mice at age 4-weeks old. (B) Quantification of spontaneous spike rate (left) and representative raster plots of spontaneous spikes from 1-min recording (right) of WT or Nedd4-2^andi cortical neuron cultures at DIV 13–14. (C) Quantification of average spontaneous spike amplitude (left) and representative average traces of 1-min recording (right) of WT or Nedd4-2^andi cortical neuron cultures at DIV 13–14. The black lines represent the average of all the spikes within representative 1-min recordings. (D) Patch-clamp recording from WT or Nedd4-2^andi cortical neurons at DIV 14. Representative mEPSC traces and quantification of mEPSC amplitude and frequency are shown (n = 15 for both WT or Nedd4-2^andi neurons). Data are analyzed by Student’s t-test and represented as mean ± SEM with *p<0.05, **p<0.01.

To determine whether elevated spontaneous neuronal activity in Nedd4-2^andi cultures is accompanied by altered synaptic transmission, we performed whole-cell patch-clamp recording to obtain miniature excitatory post-synaptic current (mEPSC) from WT or Nedd4-2^andi cortical neuron cultures. As shown in Fig 1D, Nedd4-2^andi neurons exhibit elevation of both mEPSC amplitude and frequency when compared to WT neurons. These data suggest that Nedd4-2 likely mediates both pre- and post-synaptic properties, and the elevation of spontaneous neuronal activity observed in Nedd4-2^andi cortical cultures (Fig 1C) is likely contributed by multiple factors.

Nedd4-2 mediates AMPAR-dependent spontaneous neuronal activity

We previously identified the GluA1 subunit of AMPAR as a substrate of Nedd4-2 [15]. We therefore asked whether AMPAR mediates spontaneous neuronal activity and whether it is responsible for the hyperactivity observed in Nedd4-2^andi cultures. An AMPAR agonist, AMPA (1 μM), was applied to determine how spontaneous neuronal activity was affected when AMPAR was activated. MEA recordings from WT cultures before and after AMPA treatment for 15 min indicated elevated spontaneous spike frequency (Fig 2A₁ and 2A₃) suggesting that spontaneous neuronal activity can be modulated by AMPARs. The same treatment produced significant, but smaller, effects on Nedd4-2^andi cultures (Fig 2A₂ and 2A₃; Significant interaction between treatment and genotype was detected, p<0.05.). The average of spontaneous spike amplitude (Fig 2B) and electrode burst activity did not differ after AMPA treatment for either genotype (S2A Fig). These data suggest that Nedd4-2 contributes to the elevation of spontaneous neuronal activity, particularly spontaneous spike frequency, when the AMPAR is activated.

Fig 2. Acute AMPAR activation triggers stronger elevation of spontaneous neuronal activity in WT than Nedd4-2^andi cortical neuron cultures.

(A) Representative raster plots and quantification of spontaneous spikes from 1-min recording (right) of (A₁) WT or (A₂) Nedd4-2^andi cortical neuron cultures before and after vehicle (ddH₂O) or AMPA (1 μM) treatment for 15 min. (Vehicle: n = 6 and 9 for WT and Nedd4-2^andi; AMPA: n = 7 and 11 for WT and Nedd4-2^andi) (B) Representative average traces of 1-min recording and quantification of average spontaneous spike amplitude of (B₁) WT or (B₂) Nedd4-2^andi cortical neuron cultures before and after vehicle (ddH₂O) or AMPA (1 μM) treatment for 15 min (Vehicle: n = 6 and 9 for WT and Nedd4-2^andi; AMPA: n = 7 and 11 for WT and Nedd4-2^andi). The black lines represent the average of all the spikes within representative 1-min recordings. Data are analyzed by a 2-way ANOVA with post-hoc Tukey test and represented as mean ± SEM. The comparison between treatments or genotypes is described with *p<0.05, ns: non-significant. Significant interaction between treatment and genotype was detected in spontaneous spike rate (A₃; p<0.05) but not amplitude (B₃; p>0.05).

We then asked whether Nedd4-2^andi cultures respond differently when AMPARs are pharmacologically inhibited. We employed a specific AMPAR antagonist, NBQX (2 μM), and again recorded the spontaneous neuronal activity before and after a 15-min treatment. As shown in Fig 3A, NBQX slightly, but not significantly, reduced spontaneous spike frequency in WT cultures, while NBQX significantly reduced spike frequency in Nedd4-2^andi cultures (Significant interaction between treatment and genotype was detected, p<0.05.). Again, average spontaneous spike amplitude did not differ between either treatments or genotypes (Fig 3B). Interestingly, we observed elevated burst activity without changes in interburst interval (IBI) after NBQX treatment (S2B Fig), which was also observed in another study [35]. Although we suspect the lack of changes in IBI is potentially because NBQX was applied acutely, we did not pursue further experiments with prolonged treatments since our data suggest that NBQX-induced burst activity is independent of Nedd4-2 (S2B₁ and S2B₂ Fig).

Fig 3. Nedd4-2^andi cortical neuron cultures are more sensitive to acute AMPAR blockade than WT cultures in reduction of spontaneous neuronal activity.

(A) Representative raster plots and quantification of spontaneous spikes from 1-min recording (right) of (A₁) WT or (A₂) Nedd4-2^andi cortical neuron cultures before and after vehicle (DMSO) or NBQX (2 μM) treatment for 15 min. (Vehicle: n = 9 and 5 for WT and Nedd4-2^andi; NBQX: n = 8 and 5 for WT and Nedd4-2^andi) (B) Representative average traces of 1-min recording and quantification of average spontaneous spike amplitude of (B₁) WT or (B₂) Nedd4-2^andi cortical neuron cultures before and after vehicle (DMSO) or NBQX (2 μM) treatment for 15 min (Vehicle: n = 9 and 5 for WT and Nedd4-2^andi; NBQX: n = 8 and 5 for WT and Nedd4-2^andi). The black lines represent the average of all the spikes within representative 1-min recordings. Data are analyzed by a 2-way ANOVA with post-hoc Tukey test and represented as mean ± SEM. The comparison between treatments or genotypes is described with **p<0.01, ns: non-significant. Significant interaction between treatment and genotype was detected in spontaneous spike rate (A₃; p<0.05) but not amplitude (B₃; p>0.05).

We previously showed elevated synchrony of spontaneous neuronal activity in Nedd4-2^andi cultures [16]. Elevation of synchronized activity indicates potentially elevated network activity. To determine whether AMPAR is involved in this phenomenon, we analyzed the synchrony index in WT and Nedd4-2^andi cultures treated with either AMPA or NBQX. As shown, although AMPA treatment elicits some effect toward elevation of synchrony, no difference was observed between genotypes. NBQX, on the other hand, produces no effect on synchrony in either WT or Nedd4-2^andi cultures (S3 Fig). These results suggest that, although prolonged stimulation of AMPAR might further elevate the synchrony of neuronal activity, the effect is unlikely to be Nedd4-2-dependent. Furthermore, AMPAR is also unlikely to be responsible for basally elevated synchrony when Nedd4-2 is compromised [16] since NBQX exerts no effect. Therefore, whether and how Nedd4-2 mediates synchrony of spontaneous neuronal activity or other network activity, such as network spikes and bursts, through other substrates would be an important future direction.

In summary, we showed that Nedd4-2^andi cultures were less sensitive to AMPAR activation but very sensitive to AMPAR blockade with regard to spontaneous spike frequency. These results suggest that altered GluA1/AMPAR signaling in Nedd4-2^andi mice contributes to basally elevate spontaneous neuronal activity.

Nedd4-2-associated seizures can be normalized when GluA1 is genetically reduced

We have previously demonstrated that Nedd4-2^andi mice exhibit greater seizure susceptibility induced by systematic administration of kainic acid, a potent agonist for kainate-class ionotropic glutamate receptors that is widely used to induce seizures in animal models [16, 36]. Greater sensitivity to AMPAR blockade in reducing spontaneous neuronal activity, as seen in Fig 3, led to our hypothesis that elevated GluA1 level contributes to elevated seizure susceptibility in Nedd4-2^andi mice. To test this hypothesis, WT or Nedd4-2^andi mice were crossed with GluA1 knockout mice to obtain the following four genotypes: 1) Nedd4-2^wt/wt GluA1^+/+;, 2) Nedd4-2^wt/wt GluA1^+/-, 3) Nedd4-2^andi/andi GluA1^+/+, and 4) Nedd4-2^andi/andi GluA1^+/-. As shown in Fig 4A, GluA1 levels in Nedd4-2^wt/wt GluA1^+/- and Nedd4-2^andi/andi GluA1^+/- mice were reduced by 31% and 46%, respectively, when compared to their control littermates (Nedd4-2^wt/wt GluA1^+/+ and Nedd4-2^andi/andi GluA1^+/+, respectively). Most importantly, the GluA1 level in Nedd4-2^andi/andi GluA1^+/- mice was similar to Nedd4-2^wt/wt GluA1^+/+ mice (Fig 4A). We then determined seizure susceptibility in these mice by intraperitoneal injections of kainic acid. Four-week-old mice were injected with kainic acid (15, 30, or 60 mg/kg) as done in our previous study [16]. Behavioral seizures were monitored and scored during a 1-hr observation period. As shown, Nedd4-2^andi mice (Nedd4-2^andi/andi GluA1^+/+; Fig 4C, left panel) had enhanced seizure response in comparison to WT mice (Nedd4-2^wt/wt GluA1^+/+; Fig 4B, left panel). Reducing GluA1 levels in Nedd4-2^andi mice (Nedd4-2^andi/andi GluA1^+/-; Fig 4C, right panel) significantly reduced seizure response in comparison to control Nedd4-2^andi mice (Nedd4-2^andi/andi GluA1^+/+; Fig 4C, left panel). Furthermore, reducing GluA1 level in Nedd4-2^andi mice produced a seizure response similar to WT mice (Nedd4-2^wt/wt GluA1^+/+; Fig 4B, left panel). A slight, but not significant, reduction of seizure response was also observed when GluA1 level was reduced in WT mice (Nedd4-2^wt/wt GluA1^+/-; Fig 4B, right panel). In conclusion, our results indicate that genetically reducing GluA1 level is able to correct elevated seizure susceptibility caused by insufficient function of Nedd4-2 in Nedd4-2^andi mice.

Fig 4. Genetically reducing GluA1 normalizes elevated seizure susceptibility in Nedd4-2^andi mice.

(A) Western blots of GluA1, Nedd4-2, and Gapdh from 3 representative mice of each of the 4 genotypes: Nedd4-2^wt/wt GluA1^+/+, Nedd4-2^wt/wt GluA1^+/-, Nedd4-2^andi/andi GluA1^+/+, and Nedd4-2^andi/andi GluA1^+/-. Quantification of GluA1 is shown on the right (Six mice of each genotype were obtained for quantification. ANOVA with post-hoc Tukey test, **p < 0.01). (B) Four-week old mice with each of the 4 genotypes mentioned in (A) were intraperitoneally injected with kainic acid (15, 30, or 60 mg/kg). The number of mice used in each condition is shown on the top of each bar. Mice showing stage 4 and/or 5 seizure activity are counted as 1 while mice showing stage 3 seizure or under are counted as 0. The statistical results after a 2-way ANOVA with post-hoc Tukey test are as below: Nedd4-2^wt/wt GluA1^+/+ vs Nedd4-2^andi/andi GluA1^+/+, *p < 0.05; Nedd4-2^andi/andi GluA1^+/+ vs Nedd4-2^andi/andi GluA1^+/-, *p < 0.05; Nedd4-2^wt/wt GluA1^+/+ vs Nedd4-2^wt/wt GluA1^+/-, p > 0.05; Nedd4-2^wt/wt GluA1^+/+ vs Nedd4-2^andi/andi GluA1^+/-, *p > 0.05.

Nedd4-2 ubiquitinates GluA1 at lysine-868 and mediates its surface expression

Our data suggest that impaired GluA1 ubiquitination may be responsible for Nedd4-2-mediated seizure and/or epilepsies. To test this hypothesis, we sought to characterize the functional consequence of GluA1 ubiquitination by Nedd4-2. We first attempted to map the Nedd4-2-ubiquitinated residues of GluA1 as ubiquitination at different residues may affect the function of GluA1 differently [20, 21]. We employed human embryonic kidney (HEK) cells because they do not express a detectable level of GluA1 or Nedd4-2 endogenously (S4 Fig). There are four lysine residues (K813, K819, K822, and K868) located on the carboxyl-terminal, intracellular domain of GluA1 (Fig 5A) [21–23]. As reported previously, mutating all four residues completely abolishes GluA1 ubiquitination; this rules out other lysine residues as targets [21]. Accordingly, WT Nedd4-2 was then co-transfected with WT GluA1 or mutant GluA1s in which each lysine was replaced by arginine (R) at each individual site (K813R, K819R, K822R and K868R) or all four lysine residues together were mutated to R (4KR). As shown in Fig 5B, the GluA1 with either K868R or all four lysine residues mutated to arginine (4KR) showed significantly reduced ubiquitination when co-expressed with Nedd4-2. A trend toward reduced ubiquitination is also observed when GluA1 carries K822R, suggesting a potential alternative residue for Nedd4-2-mediated ubiquitination. In summary, these results suggest that K868 is the most critical residue ubiquitinated by Nedd4-2.

Fig 5. Nedd4-2 mediates surface expression of GluA1.

(A) Illustration of GluA1 on the cell membrane and the 4 lysine residues potentially ubiquitinated by Nedd4-2 at the C-terminus of GluA1. (B₁) Western blots of Ubiquitin (Ub) or GluA1 after immunoprecipitation using anti-GluA1 antibody from HEK cells transfected with WT HA-Nedd4-2 along with WT GluA1 or mutant GluA1s (K813R, K819R, K822R, K868R and 4KR) for 48 hours. Quantification of ubiquitinated GluA1 by the area of smear from 100–250 kDa is shown on the right (B₂) (n = 4, one-way ANOVA with post-hoc Tukey test). (C) Western blots of GluA1, N-cadherin, and Actin from WT or Nedd4-2^andi cortical neuron cultures. Proteins from total lysate or after surface biotinylation were as indicated (n = 3, one-sample t-test was performed after normalization to WT groups). For all experiments, data are represented as mean ± SEM with *p<0.05, **p<0.01.

GluA1 ubiquitination at K868 has been shown to affect its surface expression [22, 23]. To determine whether Nedd4-2 mediates surface expression of GluA1, we labeled surface proteins with biotin in WT or Nedd4-2^andi cortical neuron cultures followed by purification of biotinylated proteins with streptavidin beads. As shown in Fig 5C, Nedd4-2^andi cultures indeed exhibited elevated surface GluA1 when compared with WT cultures. N-cadherin serves as a control and did not differ between WT or Nedd4-2^andi cultures. These results confirm the role of Nedd4-2 in limiting GluA1 surface expression. Because elevated surface GluA1 level has been linked to enhanced seizure susceptibility [37, 38], our findings further support our hypothesis that altered GluA1 ubiquitination contributes to Nedd4-2-associated seizures and/or epilepsies.

Three epilepsy-associated missense mutations reduce Nedd4-2-mediated GluA1 ubiquitination

There are three epilepsy-associated missense mutations of Nedd4-2 (S233L, E271A, and H515P) identified in patients with epilepsies [4, 5]. Based on our findings, we aimed to test the hypothesis that one or more of these mutations could disrupt GluA1 ubiquitination. To avoid potential inference from other neuronal E3 ligases for GluA1 [39, 40], we applied reconstitutive systems to determine GluA1 ubiquitination using either HEK cells or in vitro ubiquitination. When using HEK cells co-transfected with GluA1 and Nedd4-2, we found that GluA1 is less ubiquitinated when co-expressed with any of the Nedd4-2 mutants in comparison to WT Nedd4-2 (Fig 6A and S5 Fig). When in vitro ubiquitination was performed using recombinant full-length GluA1 with WT or any of the expressed Nedd4-2 mutants (partially purified from HEK cells), we also found that in comparison to WT Nedd4-2, all three mutant Nedd4-2s exhibited reduced ability to ubiquitinate GluA1 in vitro (Fig 6B).

Fig 6. Three epilepsy-associated missense mutations of Nedd4-2 reduce GluA1 ubiquitination.

(A₁) Western blots of Ubiquitin (Ub) or GluA1 after immunoprecipitation using anti-GluA1 antibody from HEK cells transfected with GluA1 along with HA-tagged WT or mutant Nedd4-2 for 48 hours. Quantification of ubiquitinated GluA1 by the entire area of smear from 100–250 kDa is shown on the right (A₂) (n = 4, one-way ANOVA with post-hoc Tukey test). (B₁) Western blots of Ub or GluA1 after immunoprecipitation with anti-GluA1 antibody following in vitro ubiquitination with recombinant GluA1. HA-tagged WT or mutant Nedd4-2s used for in vitro ubiquitination were obtained from HEK cells transfected with one of the Nedd4-2s followed by immunoprecipitation with anti-Nedd4-2 antibody. Quantification of ubiquitinated GluA1 by the entire area of smear (B₂) and Coomassie blue staining showing the purity of recombinant GluA1 (B₃) are shown (n = 4, one-way ANOVA with post-hoc Tukey test). (C₁) Western blots of GluA1 and Nedd4-2 after cycloheximide treatment over an 8-hr time course. HEK cells were transfected with GluA1 and HA-tagged WT or mutant Nedd4-2s for 48 hours. Cells were then treated with cycloheximide (100 μg/ml) to inhibit protein translation and follow protein degradation. Representative western blots after 0- and 8-hr cycloheximide treatment (C₁) and time courses of GluA1 (C₂) and Nedd4-2 (C₃) levels after cycloheximide treatment are shown. Analyses were performed by comparing GluA1 or Nedd4-2 level at each time point between cultures receiving different Nedd4-2s (n = 4, one-way ANOVA with post-hoc Tukey test). For all experiments, data are represented as mean ± SEM with *p<0.05, **p<0.01.

Previously we showed that Nedd4-2-mediated-GluA1 ubiquitination leads to degradation of GluA1 [15]. To determine whether mutant Nedd4-2s fail to degrade GluA1, HEK cells were co-transfected with GluA1 and WT or mutant Nedd4-2. Using cycloheximide (100 μg/ml) to inhibit protein translation and follow protein degradation, significant GluA1 down-regulation is only observed when co-expressed with WT Nedd4-2 but not with any of the mutant Nedd4-2s (Fig 6C). Slightly enhanced levels of GluA1 or Nedd4-2 after cycloheximide treatment were observed in some groups after normalization with the internal control Tubulin. This is due to a lower turnover rate of GluA1 or Nedd4-2 than that of Tubulin when cells were transfected with mutant Nedd4-2s. To strengthen the idea that GluA1 degradation is altered when co-expressed with mutant Nedd4-2s, HEK cells co-transfected with GluA1 and WT or mutant Nedd4-2 were treated with proteasome inhibitor MG132 (10 μM) (S6 Fig). GluA1 significantly accumulates when co-expressed with WT Nedd4-2, but not with any of the mutant Nedd4-2s, after MG132 treatment. Altogether, our data suggest that all three missense mutations disrupt Nedd4-2-mediated GluA1 ubiquitination and degradation.

Three epilepsy-associated missense mutations of Nedd4-2 disrupt 14-3-3-facilitated GluA1 ubiquitination

When expressing WT or mutant Nedd4-2s in HEK cells, it was observed that the mutant Nedd4-2s exhibited increased basal levels and reduced degradation when compared with WT Nedd4-2 (Fig 6C₃ and S6 Fig), suggesting enhanced stability. Because Nedd4-2 can self-ubiquitinate, the reduced down-regulation of both GluA1 and Nedd4-2 suggests that these missense mutations most likely affect the general ubiquitination process mediated by Nedd4-2 [41, 42]. Furthermore, all three mutations are located on or near one of the three protein-protein interaction domains (WW domain) in Nedd4-2 (S7 Fig), suggesting potentially altered interaction with its interacting proteins. To test this possibility, we studied the adaptor protein 14-3-3, which directly interacts with Nedd4-2 and has been shown to mediate Nedd4-2’s substrate recognition [43–45]. We first aimed to determine whether 14-3-3 mediates Nedd4-2-mediated GluA1 ubiquitination. In vitro ubiquitination using recombinant GluA1 and Nedd4-2 yielded some GluA1 ubiquitination (Fig 7A₁, lane 1). Remarkably, in the presence of recombinant 14-3-3ε, one of the 14-3-3 isoforms known to interact with Nedd4-2 [46], GluA1 ubiquitination was significantly enhanced (Fig 7A₁, lane 2). To validate the role of 14-3-3, a peptide-based general 14-3-3 inhibitor, R18 trifluoroacetate (R18; 0.025 mg/ml), which is known to disrupt the interaction between 14-3-3 and its binding partners, was used [47–49]. As predicted, R18 reduced GluA1 ubiquitination to a level similar to Nedd4-2 alone (Fig 7A₁, lane 4). For controls, the same reactions in the absence of either Nedd4-2 or ubiquitin showed nearly undetectable GluA1 ubiquitination (Fig 7A₁, lanes 5–8). These data suggest that, while Nedd4-2 is capable of ubiquitinating GluA1 in the absence of 14-3-3, 14-3-3 significantly facilitates this ubiquitination.

Fig 7. Three epilepsy-associated missense mutations of Nedd4-2 disrupt 14-3-3-facilitated GluA1 ubiquitination.

(A₁) Western blots of Ub or GluA1 after immunoprecipitation with anti-GluA1 antibody following in vitro ubiquitination with recombinant GluA1 and Nedd4-2, and in the presence or absence of recombinant 14-3-3ε, 14-3-3 inhibitor R18, or Ubiquitin as labeled. Quantification of lanes 1–4 by the entire area of smear from 100–250 kDa (A₂) and Coomassie blue staining showing the purity of recombinant Nedd4-2 and 14-3-3ε (A₃) (n = 4, 2-way ANOVA with post-hoc Tukey test). (B₁) Western blots of Nedd4-2 or 14-3-3 after a co-immunoprecipitation using anti-14-3-3 antibody with the lysate of HEK cells transfected with HA-tagged WT or mutant Nedd4-2s for 48 hours. Input of transfected Nedd4-2s, endogenous 14-3-3, and Tubulin are shown on the bottom. Quantification of immunoprecipitated Nedd4-2 (B₂) is shown on the right (n = 4, one-way ANOVA with post-hoc Tukey test). (C₁) Western blots of Ub or GluA1 after immunoprecipitation with anti-GluA1 antibody following in vitro ubiquitination with recombinant GluA1 in the presence or absence of recombinant 14-3-3ε. HA-tagged WT or mutant Nedd4-2s used for in vitro ubiquitination were obtained from HEK cells transfected with one of the Nedd4-2s followed by immunoprecipitation with anti-Nedd4-2 antibody. Right before the washing, 1/10 of reaction mixture was obtained and used as input control shown on the bottom. (C₂) The intensity of ubiquitinated GluA1 by the entire area of smear from 100–250 kDa is normalized to the WT group in the absence of 14-3-3ε (lane 3 on the representative blot C₁). The difference in each group with or without the addition of 14-3-3ε was analyzed by Student’s t-test. For all experiments, data are represented as mean ± SEM with *p<0.05, **p<0.01.

We then asked whether reduced GluA1 ubiquitination by epilepsy-associated missense mutations of Nedd4-2 occurred through altered interactions with 14-3-3. WT or mutant Nedd4-2 was transfected into HEK cells. Co-immunoprecipitation showed that all three mutants have reduced interactions with endogenous 14-3-3 in HEK cells (Fig 7B). Similar results were obtained when using recombinant 14-3-3ε to immunoprecipitate WT or mutant Nedd4-2 expressed in HEK cells (S8 Fig). To determine whether the Nedd4-2 mutants fail to respond to 14-3-3 when ubiquitinating GluA1, in vitro ubiquitination using recombinant GluA1 and WT or mutant Nedd4-2 partially purified from HEK cells was performed. While WT Nedd4-2 strongly ubiquitinated GluA1 and responded to additional 14-3-3ε with further GluA1 ubiquitination, all of the mutant Nedd4-2s failed to do so (Fig 7C). Because the level of 14-3-3 does not seem to be regulated by Nedd4-2 (S9 Fig), our results suggest that the epilepsy-associated missense mutations of Nedd4-2 disrupt GluA1 ubiquitination, at least partially through reduced interaction with 14-3-3.

Three epilepsy-associated missense mutations of Nedd4-2 fail to regulate surface GluA1 and spontaneous neuronal activity

Because the epilepsy-associated missense mutations of Nedd4-2 disrupt GluA1 ubiquitination and degradation, we hypothesize that these mutations fail to mediate surface GluA1 and spontaneous neuronal activity. To this end, we performed surface protein biotinylation to obtain and measure surface GluA1 from WT cortical neuron cultures lentivirally transduced with WT or mutant Nedd4-2 for 5 days. Surprisingly, no significant effect was observed (S10 Fig). We suspect that the level of Nedd4-2 during early development might reach a threshold in WT cultures, and therefore expression of additional Nedd4-2 fails to elicit significant effects. Furthermore, because mutant Nedd4-2s exhibit significantly reduced affinity toward interacting with 14-3-3 and therefore GluA1 (Figs 6 and 7), they might not be dominant-negative, at least in the context of GluA1 ubiquitination. The endogenous Nedd4-2 in WT cultures potentially dominates even in the presence of mutant Nedd4-2s. Therefore, to determine the effects of mutant Nedd4-2s without the interference from endogenous Nedd4-2, we repeated this experiment in Nedd4-2^andi cortical neuron cultures. Using Nedd4-2^andi cultures possesses the advantage of studying the behavior of mutant Nedd4-2s while minimizing the concern of overexpression. As shown in Fig 8A, WT Nedd4-2 significantly reduced total and surface GluA1 in Nedd4-2^andi cultures while all three mutant Nedd4-2s showed no effect. When expressing WT Nedd4-2 or any of the mutant Nedd4-2s in Nedd4-2^andi cortical neuron cultures for 5 days, we found that the cultures transduced with WT Nedd4-2 showed significantly lower spontaneous spike frequency when compared with untransduced cultures or cultures transduced with any of the mutant Nedd4-2s (Fig 8B₁ and 8B₂). The average spontaneous spike amplitude did not differ between transduced and untransduced cultures. Altogether, our data showed that the three epilepsy-associated missense mutations of Nedd4-2 disrupt the ability to regulate surface GluA1 and spontaneous neuronal activity.

Fig 8. Three epilepsy-associated missense mutations of Nedd4-2 fail to mediate surface GluA1 level and spontaneous neuronal activity.

(A₁) Western blots of GluA1, N-cadherin, HA-Nedd4-2, and Actin from Nedd4-2^andi cultures lentivirally transduced with or without WT or mutant Nedd4-2s for 5 days starting at DIV 9. Proteins from total lysate or after surface biotinylation were as indicated. Quantification of (A₂) total and (A₃) surface GluA1 are on the right (n = 4, one-way ANOVA with post-hoc Tukey test). (B₁) Representative raster plots, (B₂) quantification of spontaneous spike rate from 1-min recording and (B₃) quantification of average spontaneous spike amplitude of Nedd4-2^andi cortical neuron cultures lentivirally transduced with or without WT or mutant Nedd4-2s for 5 days starting at DIV 9 (n = 5–7, one-way ANOVA with post-hoc Tukey test). Data are represented as mean ± SEM with *p<0.05, ns: non-significant.

Discussion

In this study, we present evidence to show that neuronal hyperactivity in vitro and increased seizure susceptibility in vivo associated with Nedd4-2 dysfunction are modulated by altered GluA1 and AMPAR signaling. These findings are further supported by the data showing that three epilepsy-associated missense mutations of Nedd4-2 partially, but significantly, disrupted GluA1 ubiquitination through reduced interaction with the adaptor protein 14-3-3. All mutant Nedd4-2s retain partial function toward ubiquitinating GluA1, reflecting the fact that the mutations were located on or near protein-protein interaction domains but not the lipid-binding or catalytic HECT (Homologous to the E6-AP Carboxyl Terminus) domain. Nevertheless, this is the first report that demonstrates a mechanism to explain Nedd4-2-dependent epilepsy in patients. Although the mutations of Nedd4-2 increase its stability, which is different from the in vivo knockdown mouse model we used (Nedd4-2^andi mice), we showed that the reduction of Nedd4-2 and the mutations each reduce the ability of Nedd4-2 to ubiquitinate GluA1. Furthermore, because our data showed that genetic reduction of GluA1 normalized the seizure response in Nedd4-2^andi mice, it suggests that inhibition of AMPARs might be a suitable treatment plan for Nedd4-2-associated epilepsy. One of the antagonists of AMPAR, Perampanel, has been approved to clinically reduce partial-onset seizures with or without secondary generalized seizures in epileptic patients [50–52]. Such medication might therefore be specifically useful for epilepsy patients who carry mutations in Nedd4-2. A future study on Perampanel will be very important to determine whether and to what the extent Nedd4-2-associated seizures and/or epilepsy can be ameliorated.

We used Nedd4-2^andi mice, in which the long form of Nedd4-2 is disrupted, to study Nedd4-2. Because Nedd4-2 knockout mice exhibit perinatal lethality [34], Nedd4-2^andi mice serve as an ideal model to study Nedd4-2 in vivo. However, another question is thus raised regarding the differential contribution of long versus short form of Nedd4-2 to the regulation of spontaneous neuronal activity and brain circuit excitability. The short form of Nedd4-2, which lacks an N-terminal C2 domain (S7 Fig), has also been identified in humans [53, 54]. Indirect evidence has suggested that the C2 domain mediates membrane-targeting of Nedd4-2 [8]. The C2-containing (long) and C2-lacking (short) isoforms therefore target different intracellular locations and substrate pools [8]. Currently, it is unclear whether the short form of Nedd4-2 exhibits similar affinity toward binding to and ubiquitinating GluA1. If it does, the question arises as to whether epilepsy-associated mutations affect the function of short form Nedd4-2 in a similar manner as to the long form of Nedd4-2. If it does not, the second question is whether the short form serves as a dominant-negative Nedd4-2 to sequester interacting or signaling molecules to affect the functions of the long form of Nedd4-2. Because single-nucleotide polymorphisms (SNPs) in human Nedd4-2 lead to differential expression of these isoforms, examining the functional differences of these isoforms may increase our understanding of neuronal plasticity and associated seizure susceptibility in different populations [53, 54].

In the adult brain, the AMPAR has been shown to mediate the majority of excitatory synaptic transmission with GluA1 being one of the major subunits [55]. Activity-mediated changes in the numbers and properties of GluA1/AMPAR are essential for excitatory synapse development and synaptic plasticity. Ubiquitination of GluA1 has been linked to AMPAR surface expression and trafficking, which subsequently may affect many synaptic plasticity mechanisms, such as homeostatic synaptic scaling and synaptic depression [21–23, 56, 57]. We previously demonstrated that Nedd4-2 mediates GluA1 ubiquitination upon chronic neuronal activity stimulation, suggesting a potential role of Nedd4-2 in homeostatic synaptic downscaling [15]. Whether Nedd4-2 participates in other synaptic plasticity mechanisms is unknown. One speculation would be that because Nedd4-2 functions to limit the amount of surface GluA1 as seen in Fig 5C, neuronal activity that mediates depression or elimination of excitatory synapses might induce Nedd4-2-mediated GluA1 ubiquitination. We recently found that the expression of Nedd4-2 is modulated by another ubiquitin E3 ligase murine double minute-2 (Mdm2) and its downstream effector tumor suppressor p53 [15]. Mdm2 is known to be crucial for activity-dependent synapse elimination [58], which is crucial for brain circuit development and maturation. Activation of Mdm2-p53 signaling and Nedd4-2 expression might therefore contribute to elimination of excitatory synapses. Activation of Mdm2-p53 signaling and Nedd4-2 expression might therefore contribute to elimination of excitatory synapses. Further studies are required to delineate the broader effects of Nedd4-2.

In addition to GluA1, other neuronal substrates of Nedd4-2 potentially involved in neuronal activity regulation are voltage-gated sodium channels Na_v1.6 and voltage-gated potassium channels K_v7.3/KCNQ3 [9–12]. These two substrates are both crucial to modulating action potential firing and intrinsic excitability. Although our data showed that GluA1 mediates Nedd4-2-associated neuronal hyperactivity and seizures in mice, it does not rule out the potential contributions of Na_v1.6 and K_v7.3/KCNQ3 in Nedd4-2-associated brain circuit excitability. Our data also suggest that presynaptic defects are potentially involved in the neuronal deficits associated with Nedd4-2 (Fig 1D). Multiple substrates of Nedd4 family members are known to mediate presynaptic vesicle release and activity, including α-synuclein [59–61] and tyrosine kinase A receptors [13, 14, 62]. Altered ubiquitination of these substrates when Nedd4-2’s function is compromised could contribute to aberrant synaptic transmission. The ubiquitination status, expression level, and subcellular distribution of Nedd4-2’s other substrates are pending further investigation to obtain the full picture of synaptic abnormality and excitability caused by pathogenic functions of mutant Nedd4-2s. As we described previously, future studies are expected to elucidate broader effects of Nedd4-2 and provide better understanding of this important, yet underdeveloped, molecule in the central nervous system.

Materials and methods

Ethics statement

All experiments using animal data followed the guidelines of Animal Care and Use provided by the Illinois Institutional Animal Care and Use Committee (IACUC) and the guidelines of the Euthanasia of Animals provided by the American Veterinary Medical Association (AVMA) to minimize animal suffering and the number of animals used. This study was performed under an approved IACUC animal protocol of University of Illinois at Urbana-Champaign (#14139 to N.-P. Tsai.)

Animals and primary cortical neuron cultures

The Nedd4-2^andi mice, GluA1 knockout mice and WT control mice were obtained from The Jackson Laboratory. Primary cortical neuron cultures were made from p0-p1 mice as described previously [58] and maintained in NeuralQ basal medium (Sigma) supplemented with 1X B27 supplement (Invitrogen), 1X GlutaMax (final concentration at 2 mM; Invitrogen), and Cytosine β-D-arabinofuranoside (AraC, final concentration at 2 μM; Sigma). The medium was changed 50% on DIV 2 and every 3 days thereafter.

Reagents and constructs

Dimethyl sulfoxide (DMSO) was from Fisher Scientific. AMPA was from Cayman Chemical and NBQX was from Alomone Labs. Recombinant GluA1 and 14-3-3ε were from Origene. Recombinant Nedd4-2 was from Abnova. R18 was from Sigma-Aldrich. Cycloheximide, poly-D-lysine and Protein A/G beads were from Santa Cruz Biotechnology. The antibodies used in this study were purchased from Santa Cruz Biotechnology (anti-α-Tubulin), Cell Signaling (anti-Nedd4-2, anti-pan-14-3-3, anti-N-cadherin and anti-Ubiquitin), Millipore (anti-GluA1), Abcam (anti-MAP2), Thermo Scientific (anti-HA) and GenScript Corporation (anti-Gapdh). The epilepsy-associated mutations were generated using site-directed mutagenesis reagent (Agilent) to introduce mutations into pCI-HA-Nedd4-2 [15]. The primers used are as below.

S233L: 5’-GGACGTGTCCTCGGAGTTGGACAATAACATCAGAC-3’,

5’-GTCTGATGTTATTGTCCAACTCCGAGGACACGTCC-3’;

E271A: 5’- GGGCGGGGATGTCCCCGCGCCTTGGGAGACCATTTC-3’,

5’- GAAATGGTCTCCCAAGGCGCGGGGACATCCCCGCCC-3’;

H515P: 5’- CGTTTGAAATTTCCAGTACCTATGCGGTCAAAGACATC-3’,

5’- GATGTCTTTGACCGCATAGGTACTGGAAATTTCAAACG-3’.

Surface protein biotinylation

After washing cultured cells with PBS three times, 0.1 mg LLC NHS-LC-BIOTIN (from Apexbio Technology) was added to cultures for 30 min. at room temperature. At the end of the reaction, cultures were washed with PBS three times. The cell were harvested and lysed in an IP buffer (50 mM Tris, pH 7.4, 120 mM NaCl, 0.5% Nonidet P-40) followed by purification using Magnetic Streptavidin Beads (from Cell Signaling).

Transfection, immunoprecipitation and western blotting

HEK cells were transfected using Lipofectamine 3000 (Invitrogen). Primary neuron cultures were transduced using lentivirus. WT and mutant Nedd4-2s were sub-cloned into Lenti-CMV-GFP-2A-Puro Vector (from Applied Biological Materials). Lentivirus was produced in HEK cells as described previously [58].

For immunoprecipitation (IP), cell lysates were obtained by sonicating pelleted cells in IP buffer. Eighty μg of total protein or protein mixtures after in vitro ubiquitination was incubated 2 hours at 4°C with 0.5 μg primary antibodies. Protein A/G agarose beads were added for another hour followed by washing with IP buffer three times. For western blotting, after SDS-PAGE, the gel was transferred onto a polyvinylidene fluoride membrane. After blocking with 1% Bovine Serum Albumin in TBST buffer (20 mM Tris pH 7.5, 150 mM NaCl, 0.1% Tween-20), the membrane was incubated with primary antibody overnight at 4°C, followed by three 10-min washings with TBST buffer. The membrane was then incubated with an HRP-conjugated secondary antibody (from Santa Cruz Biotechnology) for 1 hour at room temperature, followed by another three 10-min washings. Finally, the membrane was developed with an ECL Chemiluminescent Reagent [15]. All the western blot results were semi-quantitatively normalized to the control groups before statistical analysis.

In vitro ubiquitination

HA-Ub (Boston Biochem), Ubiquitin Activating Enzyme (UBE1) (Boston Biochem) and UbcH5b/UBE2D2 (Boston Biochem) were obtained. Recombinant WT Nedd4-2 was obtained from Abcam. When HA-tagged WT or mutant Nedd4-2s were produced in HEK cells, 250 μg of total protein lysates were subjected to immunoprecipitation with anti-HA antibody to partially purify HA-tagged Nedd4-2s. Recombinant GluA1 (Origene) was used as substrate for in vitro ubiquitination with recombinant Nedd4-2 (Fig 7A) or Nedd4-2s obtained from transfected HEK cells (Figs 6B and 7C) following a protocol previously described [63]. Recombinant 14-3-3ε was obtained from Origene.

MEA recording

Each MEA plate was coated with poly-D-lysine for 30 minutes and plated with 2x10⁵ cells counted using a hemocytometer. Recordings were done at DIV 13–14 (Figs 1, 2 and 3) or DIV 9 and DIV 14 (Fig 8) in the same culture medium using an Axion Muse 64-channel system in single well MEAs (M64-GL1-30Pt200, Axion Biosystems) inside a 5% CO₂, 37°C incubator. Field potentials (voltage) at each electrode relative to the ground electrode were recorded with a sampling rate of 25 kHz. Right before a recording, if an electrode channel displays excessive “noise” (>10 μV) that channel is grounded for the entirety of the recording to avoid interference with other channels [64]. After 30 min of baseline recording, the MEA was treated with the drugs specified and recorded for another 30 min. Due to changes in network activity caused by physical movement of the MEA, only the last 15 min of each recording were used in data analyses. AxIS software (Axion Biosystems) was used for the extraction of spikes (i.e. action potentials) from the raw electrical signal obtained from the Axion Muse system. After filtering, a threshold of ±7 standard deviations was independently set for each channel; activity exceeding this threshold was counted as a spike. Only MEAs with more than 2,000 spikes during the last 15 minutes of recording were included for data analysis [16, 65]. The total spikes obtained from each MEA culture was normalized to the number of electrodes, as described in a previous study [66].

The settings for burst detection in each electrode were a minimum of 5 spikes with a maximum inter-spike interval of 0.1 sec as described previously [16]. The burst duration, number of spikes per burst, and interburst interval were analyzed by AxIS software. Synchrony index was also computed through AxIS software, based on a published algorithm [67] as we conducted previously [16], by taking the cross-correlation between any two spike trains, removing the portions of the cross-correlogram that are contributed by the auto-correlations of each spike train, and reducing the distribution to a single metric.

To ensure consistency when acquiring MEA data, all the experiment procedures, including the animal dissection, cell counting and plating, medium changing, and recordings are conducted by the same individual in each experiment. Throughout culture maturation and before recording, each MEA is visually inspected under the microscope and any MEA with poor growth or a patchy network is excluded. Recordings of each experiment were alternate between genotypes. For all before and after drug treatment comparisons, to minimize the variability between cultures, the recording from each MEA culture after treatment was compared to the baseline recording from that same culture.

Immunocytochemistry

Immunocytochemistry was done as previously described [68]. In brief, primary neurons grown on poly-D-lysine coated coverslips were fixed at DIV 14 with ice-cold buffer (4% paraformaldehyde and 5% sucrose in PBS). After washing and permeabilization with an additional incubation with 0.5% Triton X-100 in PBS for 5 min, an incubation with anti-MAP2 antibody was performed for 4 hours. After washing three times with PBS, fluorescence-conjugated secondary antibodies were applied to the cells at room temperature for 1 hour. After additionally washing the cells three times with PBS, the coverslips were mounted and observed on Zeiss LSM 700 Confocal Microscope.

Seizure susceptibility

Male mice at age 4-weeks old were intraperitoneally injected with kainic acid, prepared in saline solution (Hannas Pharmaceutical), at doses of 15, 30, or 60 mg/kg. The total injection volume was kept close to 0.15 ml. After injection, mice were closely observed in real time for 1 hour. The intensity of seizure was assessed by Racine’s scoring system [69]. To clearly determine seizure susceptibility, only stage 4 (rearing) and stage 5 (rearing and falling) were considered positive for seizures, as previously performed [16, 70]. Mice showing stage 4 seizure and above are counted as 1 while mice showing stage 3 seizure or under are counted as 0 for analysis.

Statistical analysis

ANOVA with post-hoc Tukey HSD (Honest Significant Differences) test was used for multiple comparisons between treatments or genotypes. Student’s t-test was used for analyzing spontaneous neuronal activity in Fig 1B and 1C, and mEPSC data in Fig 1D. One-sample t-test was used when experimental groups were normalized to control groups, such as western blotting in Fig 5C. Each “n” indicates an independent culture. Differences are considered significant at the level of p < 0.05.

Supporting information

S1 Fig. An example MEA culture.

(A) A picture of a multi-electrode array (MEA) dish and (B) a representative image of cultured cortical neurons growing in a MEA dish at DIV 14. A selected area in (B₁) is enlarged and shown in (B₂). Images were acquired by an EPI-Fluorescence Trinocular Microscope (Omax). (C) Representative immunocytochemistry images from WT cortical neurons plated on a separate control plate with the same density used in MEA cultures. The dendritic marker MAP2 was stained to show the neuronal processes. Images were acquired on DIV 14 with Zeiss LSM 700 Confocal Microscope.

(TIF)

S2 Fig. Neuronal burst activity after AMPA or NBQX treatment.

The bursting activity after the treatment of (A) AMPA (1 μM, 15 min), (B) NBQX (2 μM, 15 min) or vehicle control (ddH₂O for AMPA and DMSO for NBQX) in WT or Nedd4-2^andi cortical neuron cultures were measured. Three criteria were used to analyze electrode burst activity: burst duration (left), number of spikes per burst (middle) and the interburst interval (right). The data were plotted as “after treatment” normalized to “before treatment”. For the quantification, a two-way ANOVA with post-hoc Tukey test was used. Data are represented as mean ± SEM. The comparison between treatments or genotypes is described with *p<0.05, **p<0.01, ns: non-significant. No significant interaction between treatment and genotype was detected in these data; p>0.05.

(TIF)

S3 Fig. Synchrony index after AMPA or NBQX treatment.

The bursting activity after the treatment of (A) AMPA (1 μM, 15 min), (B) NBQX (2 μM, 15 min) or vehicle control (ddH₂O for AMPA and DMSO for NBQX) in WT or Nedd4-2^andi cortical neuron cultures were measured. The data were plotted as “after treatment” normalized to “before treatment”. For the quantification, a two-way ANOVA with post-hoc Tukey test was used. Data are represented as mean ± SEM. No significance was detected between treatments or genotypes (ns: non-significant). No significant interaction between treatment and genotype was detected in these data either; p>0.05.

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S4 Fig. HEK cells do not express detectable level of Nedd4-2 or GluA1.

Western blots of Nedd4-2, GluA1, and Actin from WT cortical neuron culture lysate or HEK cell lysate. The experiment was repeated 3 times.

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S5 Fig. K868 of GluA1 is the major residue ubiquitinated by Nedd4-2.

Western blots of Ubiquitin (Ub) or GluA1 after GluA1 immunoprecipitation from HEK cells transfected with WT or mutant Nedd4-2s along with WT- or K868R-GluA1 for 48 hours. Quantification of ubiquitinated GluA1 by the entire area of smear from 100–250 kDa is shown on the right (n = 4). Student t-test was used for comparison between WT- and K868R-GluA1 in each group. One-way ANOVA with post-hoc Tukey test was used for comparison between different Nedd4-2s.

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S6 Fig. Three epilepsy-associated missense mutations of Nedd4-2 reduce GluA1 degradation.

Representative western blots of GluA1, Nedd4-2, and Actin from HEK cells transfected with GluA1 along with WT or mutant Nedd4-2s after 0- and 8-hr MG132 (10 μM) treatment are shown. The data were plotted as “after treatment” normalized to “before treatment”. The quantification of GluA1 and Nedd4-2 levels after MG132 treatment are on the right (n = 4, one-way ANOVA with post-hoc Tukey test). Data are represented as mean ± SEM with *p<0.05, **p<0.01.

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S7 Fig. A schematic structure of Nedd4-2 and the location of the three residues of epilepsy-associated missense mutations.

All three residues of epilepsy-associated mutations are located on or near one of the protein-protein interaction domains (WW domains).

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S8 Fig. Three epilepsy-associated missense mutations of Nedd4-2 exhibit reduced interaction with 14-3-3.

Western blots of Nedd4-2 and 14-3-3 (pan) after using recombinant 14-3-3ε to immunoprecipitate Nedd4-2 from the lysates of HEK cells transfected with WT or mutant Nedd4-2s for 48 hours. Right before the washing, 5% of total protein mixture was obtained and used as input control shown on the bottom. Quantification is on the right (n = 3, one-way ANOVA with post-hoc Tukey test). Data are represented as mean ± SEM with *p<0.05.

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S9 Fig. Nedd4-2 does not regulate the level of 14-3-3.

Western blots of Nedd4-2, 14-3-3, and Actin from WT or Nedd4-2^andi brain lysates. Quantification is performed using Student t-test (n = 4). Data are represented as mean ± SEM with ns: non-significant.

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S10 Fig. Overexpression of WT or mutant Nedd4-2 in WT cortical neuron cultures does not affect endogenous AMPAR level.

(A) Western blots of GluA1, N-cadherin, HA-Nedd4-2, and Actin from WT cultures lentivirally transduced with or without WT or mutant Nedd4-2s for 5 days starting at DIV 9. Proteins from total lysate or after surface biotinylation were as indicated. Quantification of (B) total and (C) surface GluA1 are on the right (n = 3, one-way ANOVA with post-hoc Tukey test). Data are represented as mean ± SEM. No significance was detected between any two transductions.

(TIF)

Data Availability

All relevant data are within the paper and its Supporting Information files.

Funding Statement

This work is supported by the startup fund provided by the School of Molecular and Cellular Biology, University of Illinois at Urbana-Champaign, and by Brain and Behavior Research Foundation NARSAD Young Investigator Grant (to NPT). The funders had no role in study design, data collection and analysis, decision to publish, or preparation of the manuscript.