Abstract
We have recently described an A350V mutation in IQSEC2 associated with intellectual disability, autism and epilepsy. We sought to understand the molecular pathophysiology of this mutation with the goal of developing targets for drug intervention. We demonstrate here that the A350V mutation results in interference with the binding of apocalmodulin to the IQ domain of IQSEC2. We further demonstrate that this mutation results in constitutive activation of the guanine nucleotide exchange factor (GEF) activity of IQSEC2 resulting in increased production of the active form of Arf6. In a CRISPR generated mouse model of the A350V IQSEC2 mutation, we demonstrate that the surface expression of GluA2 AMPA receptors in mouse hippocampal tissue was significantly reduced in A350V IQSEC2 mutant mice compared to wild type IQSEC2 mice and that there is a significant reduction in basal synaptic transmission in the hippocampus of A350V IQSEC2 mice compared to wild type IQSEC2 mice. Finally, the A350V IQSEC2 mice demonstrated increased activity, abnormal social behavior and learning as compared to wild type IQSEC2 mice. These findings suggest a model of how the A350V mutation in IQSEC2 may mediate disease with implications for targets for drug therapy. These studies provide a paradigm for a personalized approach to precision therapy for a disease that heretofore has no therapy.
Introduction
IQSEC2 is an X-linked gene which has been previously associated with intellectual disability (ID), autism and epilepsy (, ; ; ; ; ; ) with mutations in IQSEC2 accounting for approximately 2% of patients with ID and epilepsy referred for exome sequencing (). Understanding the molecular pathophysiology of IQSEC2 mutations may allow for a personalized treatment program to provide much-needed hope and help to affected children and their families.
The IQSEC2 protein is localized in excitatory synapses as part of the NMDA receptor complex via interaction with post-synaptic density proteins DLG1, DLG2, and DLG4 and has been proposed to play a role in synaptic plasticity and dendritic spine formation (; ; ). Biochemically IQSEC2 is a member of the GEF (guanine nucleotide exchange factor) family of proteins whose role is to promote exchange of GDP for GTP on specific Arfs (ADP ribosylation factors) and thereby activate the Arf. The target Arf for IQSEC2 is not known but binding of IQSEC2 to Arf6 has been demonstrated in vitro (). Arf6, similar to other Arfs, regulates actin dynamics in dendritic spines and membrane trafficking, and is the only Arf which regulates trafficking between the cell surface membrane and endocytotic membranes (; ; ). The GEF activity of IQSEC2, mediated through ARF6, has recently been demonstrated to be required for the activity dependent removal of α-amino-3-hydroxyl-5-methyl-4-isoxazolepropionic acid (AMPA) receptors (; ) from the surface of hippocampal neurons. The regulation of surface synaptic AMPA receptors has been shown to be critically involved in learning and memory processes with alterations in AMPA trafficking being associated with cognitive impairment and social behavioral abnormalities (; ; ). Demonstration that IQSEC2 can regulate AMPA trafficking () may therefore provide a mechanistic link for the severe intellectual disability and abnormalities in social behavior associated with mutations in IQSEC2.
The IQSEC2 gene contains 15 exons and codes for a protein of 1488 amino acids (long isoform) with 98.5% homology between murine IQSEC2 and human IQSEC2. The coding sequence contains several canonical domains notably a catalytic domain (SEC7) [aa 746–939] characteristic of all GEFs promoting GTP exchange and an IQ like domain [aa 347–376] which has been suggested to bind calmodulin and thereby modulate the GEF activity of IQSEC2 ().
At least 70 different mutations have been described in the IQSEC2 gene all associated with moderate to severe intellectual disability, with variable seizures and autistic traits (). The genotype-phenotype relationship for these mutations is not understood. Many of these mutations cluster in recognized functional domains of IQSEC2 such as the Sec7 and IQ domains thereby providing a possible mechanism by which they produce disease (; ). There have been no reports in animal models on how altered IQSEC2 function for any of these mutations may influence cognition or social behavior.
We have recently reported on the ID and associated disorders in a child resulting from a de novo mutation identified by exome sequencing in the IQSEC2 gene (A350V, i.e., valine for alanine substitution in amino acid residue 350) (). In this study we set out to characterize the molecular mechanisms underlying the pathophysiology of the A350V IQSEC2 mutation in vitro and in a CRISPR murine model with the goal of developing precise therapies to alleviate at least in part the severe clinical syndrome associated with the mutation. First, as the A350V mutation is in the IQ calmodulin binding domain of IQSEC2 we set out to define how this mutation may affect the interaction of IQSEC2 with calmodulin. Second, as other mutations in the IQ domain have been associated with changes in the ability of IQSEC2 to promote GTP exchange on Arf6 in response to calcium (; ) we investigated whether the A350V mutation may also alter Arf6 activity and whether this regulation was sensitive to calcium. Third, as IQSEC2 induced activation of Arf6 has been shown to modulate AMPA receptor trafficking () we sought to determine how the A350V mutation may affect this trafficking in our CRISPR model and specifically surface AMPA receptors which have been linked to learning and memory (). Fourth, we set out to determine whether the A350V mutation may affect basal hippocampal synaptic transmission. Finally, in an attempt to recapitulate the clinical phenotype in the CRISPR model we have assessed the effects of the A350V IQSEC2 mutation on behavioral phenotypes focusing on tests assessing locomotion, social interactions and learning.
Materials and Methods
DNA Constructs Used in This Study
The IQSEC2 wild type gene was cloned 3′ to renilla luciferase and three copies of the HA tag in pcDNA3.1 Zeo (Genscript) or 3′ to a FLAG tag in pCAGGS. The pcDNA3.1 construct expresses full length (1488aa) human IQSEC2 with an N-terminal renilla luciferase and HAx3 tag under the control of a CMV promoter, and also contains a zeocin (Zeo) gene allowing for selection of stable transformants expressing the IQSEC2 gene. Specific mutations were introduced into the renilla luciferase-wild type (WT) IQSEC2 vector or the FLAG wild type IQSEC2 vector for the studies described herein (GenScript) (Figure 1A). For production of the A350V mutation we changed the corresponding codon for IQSEC2 amino acid residue 350 from GCT (Alanine) to GTT (Valine). We also generated two additional mutant constructs in the IQ domain of IQSEC2: (1) a previously described IQSEC2 R359C mutation associated with ID () and (2) a previously described engineered mutation containing three alanine substitutions in the IQ region at amino acid residues 354, 355 and 359 (herein called 3A) (). All IQSEC2 constructs were verified by DNA sequencing. The genes for calmodulin (human Calm1 (NM_006888), Calm2 (NM_001743) and Calm3 (NM_ 005184) were obtained from a human ORFeome library () and subcloned into pcDNA3 to have a C-terminal triple FLAG tag.
Figure 1
Cell Culture and Stable Cell Lines Expressing IQSEC2
HEK293T cells were propagated in DMEM with low glucose and 10% fetal calf serum (FCS). Stable cell lines (expressing either wild type or mutant A350V IQSEC2) were produced in 293T cells using selection with Zeo (200 μg/ml) after transfection with calcium phosphate.
Arf6 Activation Assay
For the assessment of Arf6-GTP by ELISA, cell extracts were prepared from HEK293T cells stably expressing either wild type or A350V IQSEC2. ELISA was performed exactly according to manufacturer’s protocol (G-LISA Arf6 activation assay, Cytoskeleton Inc). The amount of Arf6-GTP was assessed using immobilized GGA peptide. Normalization was by total protein and/or luciferase as described in results.
For the assessment of Arf6-GTP using a GGA-3 pulldown assay and western blot, HEK293T cells were transfected with FLAG-tagged WT, A350V, or R359C IQSEC2 in pCAGGS vector by calcium phosphate. Twenty-four hours after transfection, the cultures were treated with 5 μM ionomycin or ethanol vehicle for 5 min, then lysed in 50 mM Tris-HCl, pH 7.5, 100 mM NaCl, 2 mM MgCl2, 0.2% SDS, 0.5% sodium deoxycholate, 1% Triton X-100, 10% glycerol, and 1x Halt protease inhibitor cocktail. An Arf6-GTP pull-down assay was carried out as described (
Assessment of Binding of IQSEC2 to Calmodulin in vitro
The binding of wild type and mutant IQSEC2 to calmodulin was assessed in vitro using calmodulin-sepharose (BioVision, Milpitas, CA, United States). Extracts from stably transfected cells were prepared in either buffer A [50 mM Tris pH 7.5; 150 mM NaCl, 10 mg/ml BSA; 5 mM EGTA and 0.1% Triton X-100] or buffer B [10 mM Tris pH 7.5; 150 mM NaCl, 5 mM EGTA, 5% glycerol, 0.5% Triton X-100]. Extracts were clarified by centrifugation at 14000 rpm at 4°C to remove insoluble debris and the amount of luciferase activity in the extract assessed using the Promega luciferase assay system and a Turner TD 20/20 luminometer. Extracts (10,000–100,000 luciferase units) were then incubated in buffer A or buffer B with or without CaCl2 in a total volume of 1 cc. The concentration of free calcium in the incubation conditions was calculated using the maxchelator algorithm1 which is based on the ionic strength, pH, temperature and dissociation constant of EGTA for calcium. The concentration of free calcium used in these studies ranged from 0.73 nM to 2 mM. 10 μl of calmodulin-sepharose was added to the incubation and mixed on a rotary apparatus for 3–4 h. The calmodulin-sepharose was washed twice with binding buffer, resuspended in 100 μl of luciferase reagent lysis buffer and 20 μl was assessed for luciferase activity.
Assessment of Binding of IQSEC2 to Calmodulin in Cells
Assessment of an interaction between wild type and mutant renilla luciferase IQSEC2 constructs (wild type or mutants) and 3xFLAG tagged candidate interactors (calmodulin proteins Calm1 (NM_006888), Calm2 (NM_001743), and Calm3 (NM_005184) in HEK293T cells was performed using the Lumier assay (
Generation of A350V IQSEC2 Mice by CRISPR
Mice were generated by CRISPR at Applied Stem Cells (Milpitas, CA, United States). We targeted murine IQSEC2 (NM_001005475.2) with the goal of generating an A350V mutation identical to that found in the human index case in which the codon GCT (Ala) at amino acid 350 is mutated to GTT (Val) with an additional AGG to CGT silent mutation (R349) in order to prevent the guide RNA g20 GGCAGCCCTGCGGCTCAGGA from targeting the same allele after repair. A single stranded oligonucleotide donor (ssODN) was synthesized with two homology arms flanking the GCT to GTT mutation site (5′CTGAGCT GCGCAGCCGCTCAAAGTTCTTATTCATACGGTACTGTCG AAAGGCTGTCTGGATGGTCCTGGCAACACGGCGGCTCA GGAAGGAGCCCCCATACTTCCTCTCCAGCATTTCCACCT GTCAGAGGAACAAGTTCAGAAAG3′) serving as the repair template during the process of homology directed repair (HDR). Synthesized ssODN donor, g20 gRNA transcripts and Cas9 mRNA were microinjected into the cytoplasm of C57BL/6J embryos. Identification of F0 successfully targeted mice were identified by Sanger sequencing. Germline transmitted F1s containing the mutation were used to generate the A350V colony used for all additional studies and continued breeding of the mice was done in a C57Bl/6J background. Approximately 1 kb of DNA was sequenced on both sides of the mutation with no other changes detected. Wild type (WT) and A350V IQSEC2 protein were also assessed by western blot from mouse brains and they were found to be of the same size as predicted. MRI structural analysis of both wild type and A350V mice revealed no gross differences in brain volume or gross structural differences in A350V mice. Hemizygous males, heterozygous and homozygous females were fertile and were housed in a germ-free animal facility and used for breeding and the studies described.
All studies for which the mice were used were approved by the Institutional Animal Care and Use Committees of the institutions in which they were performed (Technion Faculty of Medicine (IL0360212; IL1691117) and Medical College of Wisconsin (AUA1650).
Flow Cytometry Analysis for Surface AMPA Receptors of Hippocampal Neurons From Wild Type and A350V IQSEC2 Mutant Mice
A single cell suspension from the mouse hippocampus was prepared by mechanical dissociation using the gentleMACS dissociator (Miltenyi Biotec, Gladbach, Germany) coupled with tissue enzymatic degradation using the Adult Brain Dissociation Kit (Miltenyi Biotec). The cell suspension was mesh-filtered (70 micron) to remove clumps and debris and red blood cells were removed by a Red Blood Cell Removal Solution (Miltenyi Biotec). A highly enriched population of neurons were obtained from this cell suspension by depleting non-neuronal cells using the Neuron Isolation Kit (Miltenyi Biotec). Non-neuronal cells are removed in this method using biotin-conjugated monoclonal antibodies specific for non-neuronal cells followed by anti-biotin monoclonal antibodies coupled to magnetic microbeads.
For flow cytometric analysis of membrane bound GluA1/2 we used the Alex Fluor 647 fluorochrome –conjugated to Anti-GluA1/2 antibody (Santa Cruz, sc-517265). This antibody recognizes an epitope present in both GluA1 and GluA2. Neurons were incubated with the antibody for 30 min at 4°C and were then washed with a phosphate-buffered staining solution (Dulbecco’s phosphate buffered saline with calcium, magnesium, glucose, pyruvate and 0.5% bovine serum albumin). Samples were analyzed on a LSRFortessa cell analyzer using FlowJo software.
Surface Protein Cross-Linking Assay to Detect Surface AMPA Receptors in Hippocampal Tissue From Wild Type and A350V IQSEC2 Mice
To determine the relative distribution of surface AMPA receptors in the hippocampus of IQSEC2 A350V as compared to wild type IQSEC2 a surface protein-crosslinking assay was performed using membrane-impermeant crosslinking agent, Bis(sulphosuccinimidyl)suberate (BS3, Sigma) as previously described (
Immunocytochemistry of Hippocampus for Surface AMPA Receptor GluA2 From Wild Type and A350V Mice
Mice were anesthetized and transcardially perfused with 4% paraformaldehyde (PFA) in PBS after a brief vascular system washing with PBS as previously described (
Electrophysiological Studies
Animals and Housing Conditions
Electrophysiological testing was performed at the Medical College of Wisconsin on A350V IQSEC2 and wild type IQSEC2 males at 18–20 weeks of age. Animals were housed 1–5 per cage in a 12 h light-dark cycle with food and water ad libitum. Experiments were conducted during the light phase.
Slice Preparation
Animals were anesthetized by isoflurane inhalation and decapitated. Coronal brain slices (360–400 μm thick) were cut using a vibrating slicer (Leica VT1200, Nussloch, Germany). Slices were prepared in a choline-based solution containing 110 mM choline chloride, 2.5 mM KCl, 1.25 mM NaH2PO4, 0.5 mM CaCl2, 7 mM MgSO4, 26 mM NaHCO3, 11 mM glucose, 11.6 mM sodium ascorbate, and 3.1 mM sodium pyruvate. Slices were cut in the midline to produce two individual slices from each section. The slices were incubated for 30 min in a sucrose-based solution containing 78 mM NaCl, 68 mM sucrose, 26 mM NaHCO3, 2.5 mM KCl, 1.25 mM NaH2PO4, 2 mM CaCl2, 2 mM MgCl2, and 25 mM glucose. Slices were then allowed to recover for at least 60 min in artificial cerebrospinal fluid (ACSF) containing 119 mM NaCl, 2.5 mM KCl, 4 mM CaCl2, 4 mM MgCl2, 1 mM NaH2PO4, 26 mM NaHCO3, and 11 mM glucose, at pH 7.4 and 290 mOsm. All solutions were saturated with carbogen (95% O2 and 5% CO2) at room temperature.
Input/Output Curve
Field potential evoked responses were recorded from the dendritic region of CA1 pyramidal neurons, with bipolar stimulation at the Schaffer collateral fibers, using Multiclamp 700A amplifier (Axon instruments). All recordings were made in circulating ACSF saturated with carbogen at 30°C. Fiber volleys and fEPSP (field excitatory post-synaptic potentials) slopes were calculated using Clampfit 10.7. Input/output (I/O) curves were generated from A350V IQSEC2 (n = 4) and wild type IQSEC2 (n = 5) male mice. One-tailed Student’s t-test was used to determine significance (p ≤ 0.05).
Behavioral Tests
Animals and Housing Conditions
Behavioral testing was performed on A350V IQSEC2 and wild type (WT) IQSEC2 male and female mice on the same genetic background (C57BL/6J) at 5–7 weeks of age. Animals were housed in groups of 2–5 per cage in a reversed 12 h light-dark cycle (dim light at 9:30 am, lights off at 10:00 am) with food and water available ad libitum. The housing room was maintained at 23 ± 2°C. Experiments were conducted during the dark phase, under red lighting conditions (< 5 lux), between 10 am and 7 pm. All behavioral testing experiments were performed by the same two individuals who were blinded to the genotype of the animals. Any single animal was only handled by a single individual throughout these studies. Animals were handled for two consecutive days prior to the testing day except for the three-chamber sociability and social novelty tests (see below for details). On the testing day, mice were transferred to the testing room and were acclimated for an hour before the experiment commenced. All animal experiments were conducted in accordance with the United States Public Health Service’s Policy on Humane Care and Use of Laboratory Animals and approved by the Institutional Animal Care and Use Committee of Technion – Israel Institute of Technology (IL1691117).
Behavioral Analysis
For all the experiments, the arena or apparatus was cleaned after each trial with 70% ethanol and then with double-distilled water. All experiments were video-recorded by a camera (GUPPY PRO F-125B CCD) located above the arena and analyzed using Ethovision XT software version 10.1 (Noldus, Wageningen, The Netherlands), except for the Rotarod test which was recorded and analyzed using MATLAB R2017a (The Mathworks, Natick, MA, United States).
Open Field Test
5–6 week old mice were placed in the center of a squared box arena (40 × 40 × 35 cm) made of white Derlin plastic and explored the novel environment for 5 min (
Rotarod
Assessment of motor coordination was done using the Rotarod test (Med Associates Inc., Georgia, VT, United States) (
Three-Chamber Sociability and Social Novelty Tests
Social interaction was measured in order to assess autistic-like behavior using a three-chamber test (
Morris Water Maze
The Morris water maze test was used to assess spatial learning and memory (
Statistical Analysis of Behavioral Tests
All data were analyzed using MATLAB R2017a (The Mathworks, Natick, MA, United States). Summary statistics are presented as means ± SEM. Lilliefors test was used to determine normality. Two-tailed Student’s t-tests were used on normally distributed data. Mann–Whitney U-test was used to analyze data when sample size was not sufficient to establish normality.
Results
In a Cell-Free System in vitro Wild Type IQSEC2 Binds Significantly Better to Apocalmodulin as Compared to A350V and Calcium Increases Binding of Both Wild Type and Mutant IQSEC2 to Calmodulin
As the A350V IQSEC2 mutation is in the IQ domain of IQSEC2 (Figure 1A) and the IQ domains of many proteins have been demonstrated to bind to calmodulin (
In Cells Wild Type IQSEC2 Binds More Effectively to Apocalmodulin Than A350V IQSEC2
We next sought to determine if we could demonstrate differences in the binding of apocalmodulin to wild type and A350V IQSEC2 in cells similar to what we found in a cell free system. In order to achieve this goal we assessed the binding of wild type and three mutant IQSEC2 renilla luciferase constructs (A350V, R359C, 3A) to three isoforms of human calmodulin in HEK293T cells using the Lumier assay as described in methods. In HEK cells, the intracellular calcium concentration is 50–100 nM so that all calmodulin is present as apocalmodulin (
Figure 2

Binding of wild type and mutant IQSEC2 to calmodulins in cells using the Lumier assay. (A) Interaction strength of wild type and mutant IQSEC2 proteins and calmodulins, measured as renilla luciferase-IQSEC2 activity after pulldown of calmodulin-FLAG proteins. Shown are mean and SD of 4 biological replicate wells for each pair of IQSEC2 calmodulin interactions. (B) Interaction score of wild type and mutant IQSEC2 proteins and calmodulins, measured as log2 of renilla luciferase-IQSEC2 activity after FLAG pulldown divided by pulldown FLAG ELISA, to normalize for the interactor levels. Shown are the mean and SD of 4 biological replicate wells for each pair of IQSEC2 calmodulin interactions. Data comparing A350V IQSEC2 and wild type IQSEC2 are representative of four independent experiments done on independent days and the data for the R359C and 3a mutants are representative of two independent experiments done on independent days.
Arf6 Activation Is Increased in A350V IQSEC2 Stable or Transiently Transfected Cells as Compared to Wild Type IQSEC2
The binding of calmodulin to IQSEC2 has been proposed to regulate IQSEC2 GEF activity for Arf6 promoting Arf6-GTP formation and thereby activating Arf6 (
Figure 3

Correlation between Arf6-GTP and luciferase in cell lines producing A350V (A) or wild type (B) IQSEC2 luciferase. Arf6-GTP was measured by ELISA (spectrophotometric units). The correlation between the relative amount of IQSEC2 and Arf6-GTP was significant for A350V (r = 0.77, n = 10, p = 0.009) but not for WT IQSEC2 (r = 0.52, n = 6, p = 0.28).
We also assessed activation of Arf6 (Arf6-GTP) by wild type, A350V, or R359C IQSEC2 in a GGA3 pulldown assay. HEK 293T cells were transiently transfected with constructs to express either wild type, A350V or R359C IQSEC2, and endogenous Arf6 activation was tested with or without treatment with the calcium ionophore ionomycin. Ionomycin has been previously demonstrated to increase IQSEC2 GEF activity and Arf6-GTP formation by stimulating calcium influx and thereby affecting the interaction of calmodulin with IQSEC2 (
Figure 4

The A350V mutation activates ARF-GEF activity of IQSEC2. (A) WT, R359C, or A350V IQSEC2 was expressed in HEK293 cells, and treated with either ionomycin or carrier control. Activation of endogenous Arf6 under each condition was assayed in cell lysates by pull-down with GGA3. Precipitates were probed with antibodies against ARF6 (top row). Lysates were probed for total Arf6 expression and with antibodies against the FLAG tag on IQSEC2. (B) Arf6-GTP levels are calculated as fold increase over sham-transfected controls and are shown as mean ± SD from six independent experiments. The GGA pulldown assay was assessed by one-way ANOVA followed by Tukey’s Multiple Comparison Test for post hoc analysis. ∗p ≤ 0.01; ∗∗∗p ≤ 0.001; NS, Not significant.
Surface AMPA Receptors Are Reduced in A350V Hippocampus
The GEF activity of IQSEC2, mediated through Arf6, has recently been demonstrated to be required for the activity dependent removal of AMPA receptors from the surface of hippocampal neurons (
Figure 5

Flow cytometry analysis of hippocampal derived cells for GluA1/2. (A) Representative dot plot of one of 10 experiments. US panel-unstained hippocampal cells. Mut and WT panels demonstrating staining with Alexa Flour 647 for extracellular GluA1/2 in single cell suspension of hippocampal cells from A350V and wild type mice, respectively, and window selected for identifying GluA1/2+ cells. (B) Summary of all experiments demonstrating significantly higher percentage of cells staining with GluA1/2 in wild type as compared to A350V mutant hippocampal neuronal preparations (4.1 ± 0.5 vs. 3.1 ± 0.5, paired t-test, n = 10 independent experiments, ∗p < 0.00001).
Figure 6

Assessment of AMPA receptor subunits by surface cross-linking. (A) Representative images of immunoblots after BS3-crosslinking of samples to assess surface (crosslinking “+”) and total protein expression of AMPA receptors (crosslinking “-”). Actin was used for normalization. (B) Quantification of relative total protein levels of AMPA receptor subunits in samples not crosslinked. Signal intensities normalized to actin signal and wild type as 100%. (C) Quantification of total sum of all AMPA receptor subunits in samples not crosslinked. (D) Quantification of AMPA receptor subunit percentage composition in samples not crosslinked. (E) Quantification of relative surface protein levels of AMPA receptor subunits in samples treated with BS3 (crosslinking “+”). Surface protein indicated by “s”on the blots in (A) Signal intensities of the bands at 250 kDa and above were normalized to actin signal and wild type as 100%. (F) Quantification of total sum of all AMPA receptor subunits at the membrane surface. (G) Quantification of surface AMPA receptor subunit percentage composition (significant differences in GluA2 composition). Optical densitometry quantification values represent the mean ± SEM (n = 4–5, ∗p < 0.05, n.s. p > 0.05, t-test, two-tailed).
Figure 7

Assessment of surface expression of AMPA receptor GluA2 in hippocampus by immunocytochemistry. (A) Representative images of immunohistochemistry of total (tGluA2) and surface (sGluA2) AMPA receptor GluA2 in wildtype and A350V IQSEC2 mutant hippocampi. Higher power representative images of the CA1 and CA3 regions are shown (right panel). Labeled scale bar for high-resolution images = 20 μm. (B) Quantification of the normalized total GluA2 levels. Data represent mean ± SEM, n = 5 male mice in each group. No significant difference (n.s) P > 0.05, t-test, two-tailed. (C) Quantification of the normalized levels of surface GluA2 expression. Data represent mean ± SEM, n = 5 male mice in each group, ∗p < 0.05, n.s. p > 0.05, t-test, two-tailed.
Basal Synaptic Transmission Is Decreased in the Hippocampus of A350V IQSEC2 Mice
In order to determine if the decrease in hippocampal surface AMPA expression was associated with a change in hippocampal synaptic transmission we performed electrophysiological testing using coronal brain slices from A350V and WT IQSEC2 mice as described in methods. Evoked responses were recorded from the dendritic region of hippocampal CA1 pyramidal neurons. An input/output curve representing synaptic responses (fEPSP slope/fiber volley) resulting from different stimulus intensities (Figure 8). Synaptic responses were significantly lower in A350V IQSEC2 mice as compared to WT IQSEC2 mice. These data demonstrate that basal hippocampal synaptic transmission is decreased in A350V IQSEC2 mice.
Figure 8

Assessment of basal synaptic transmission in CA1 region of hippocampus. Input/output curves representing synaptic responses (fEPSP slope/fiber volley) resulting from different stimulus intensities. Stimulus intensity numbers are arbitrary units; where 1 is intensity that gives minimum response and 8 is intensity that produces maximum response. Synaptic responses were significantly lower in A350V IQSEC2 mice (orange) compared to WT IQSEC2 mice (blue). Data represent mean ± SEM, n = 5 wild type IQSEC2 mice and n = 4 A350V IQSEC2 mice, ∗p ≤ 0.05, t-test, one-tailed.
Behavioral Phenotyping of A350V IQSEC2 Mice
In order to characterize the behavioral phenotype of the A350V IQSEC2 animal model, we examined anxiety-like behavior, locomotion, motor coordination, social behavior and learning abilities. Anxiety-like behavior was assessed in the open field test and we found no significant difference between A350V male mice (n = 13) and WT littermates (n = 13) in the time spent in the center of the arena relative to the perimeter [A350V: mean = 0.215+/-0.02; WT: mean = 0.17+/-0.01, unpaired t-test; t(24) = 1.588, p = 0.130], suggesting that A350V show normal levels of anxiety-like behavior (Figure 9Ai). Locomotion (total distance traveled) was also assessed using the open field test (Figure 9Aii). There was a significant difference between A350V (n = 13) and WT littermates (n = 13) male mice when measuring the total distance traveled and velocity in the open field arena [unpaired t-test; distance: t(24) = -3.2805, p < 0.01; velocity: t(24) = -3.2851, p < 0.01]. This result was consistent with the increased locomotion found in A350V mice in the habituation phase of the three-chamber social preference test [unpaired t-test; t(24) = 2.3125, p < 0.05]. Motor coordination was assessed in the Rotarod test (Figure 9B). Both A350V and WT mice performed at similar levels with no significant difference between the two groups in the time spent on the accelerating rotating rod. Social preference of A350V mice toward an unfamiliar conspecific mouse over an inanimate novel object was assessed using a three-chamber social arena (Figure 9C). Both A350V male mice (n = 13) and WT (n = 13) littermates preferred to spend more time in close interaction with a social stimulus (Stranger 1) over a novel object [paired t-test; A350V: t(12) = 2.535, p < 0.05; WT: t(12) = 4.671, p < 0.001]. However, A350V mice showed a trend toward social impairment as measured by a decreased time spent in close interaction with Stranger 1 compared to WT mice [unpaired t-test; t(24) = 1.743, p = 0.094]. Preference for social novelty (Figure 9D) was assessed by comparing the time spent in close interaction with a novel mouse to an already familiar mouse (Stranger 1). Both A350V (n = 9) and WT (n = 12) mice preferred an unfamiliar mouse (Stranger 2) relative to a previously encountered mouse (paired t-test; A350V: t(8) = 4.367, p < 0.01; WT: t(11) = 3.134, p < 0.01). However, A350V mice spent significantly more time in close interaction with a novel social stimulus (Stranger 2) over the familiar mouse compared to WT mice [unpaired t-test; t(19) = 2.294, p < 0.05]. Hippocampal-dependent memory was assessed using the Morris water maze test. Significant differences between female A350V (n = 5) and WT (n = 5) mice were found in the latency to reach the platform on the 1st and 4th days of training (Mann–Whitney U-test; Day 1: U = 16, p < 0.05; Day 4: U = 16, p < 0.05), as shown in the learning curve of each group (Figure 9Ei). In addition, time in the target quadrant during a probe trial was compared between female A350V (n = 5) and WT (n = 5) mice revealing a significant difference between the groups (Mann–Whitney U-test; U = 39.5, p < 0.05) (Figure 9Eii). Collectively, these data demonstrate that the A350V IQSEC2 mice model manifests some of the abnormalities found in the human index case with the A350V IQSEC2 mutation, specifically hyperactivity, abnormal social interactions and impaired cognitive function.
Figure 9

Behavioral phenotype of A350V IQSEC2 mouse model. (A) A350V display normal levels of anxiety-like behavior (i) and increased locomotion activity in an open field test (ii) (n = 13 wild type and A350V IQSEC2 mice). (B) Intact motor coordination in A350V relative to WT tested by the Rotarod test expressed as an equivalent learning curve and retention across two days in the two groups (n = 13 wild type and A350V IQSEC2 mice). (C) Duration of time spent in close interaction with Stranger 1 (S1) and an object (O) in the three-chamber social preference test demonstrating both A350V and WT preferred interacting with S1 although this preference was less pronounced in A350V (n = 13 wild type and A350V IQSEC2 mice). (D) Preference for social novelty expressed as the duration of time spent in close interaction with a previously encountered stranger animal (S1) relative to a novel stranger animal (S2) revealed a tendency to spend more time with S2 in WT and A350V, with significant enhancement of this preference for social novelty in A350V mice (n = 12 wild type and 9 A350V IQSEC2 mice). (E) Learning and memory deficits in A350V mice shown by the latency to reach the hidden platform during training (i), shown for individual animals (thin lines) and averaged across the group (thick line) separately for WT and A350V mice and the percentage time spent in the target quadrant in a Morris water maze test (ii) (n = 5 wild type and A350V IQSEC2 mice). Data indicate means ± SEM. ∗p < 0.05, ∗∗p < 0.01, ∗∗∗p < 0.001.
Discussion
This study provides new findings for understanding the regulation of IQSEC2 activity and the pathophysiology of a new IQSEC2 mutant (A350V) with implications for drug therapy. First, we have demonstrated that calcium increases the binding of IQSEC2 to calmodulin and we reconcile our data with previously reported conflicting results. Second, we report on the first mutation identified in humans associated with a constitutive activation of Arf6 due to a constitutive increase in IQSEC2 GEF activity. Third, we have demonstrated that surface GluA2 AMPA receptors are decreased in the brains of A350V IQSEC2 mice. Finally, we demonstrate that A350V IQSEC2 mice have abnormal behavioral phenotypes with increased locomotion, abnormal social interactions and decreased learning.
We have demonstrated in two different systems, in vitro with cell extracts and in cells, that apocalmodulin can bind to IQSEC2 and that this binding is impaired with the A350V mutant. In a resting cell (i.e., HEK 293T cells, neurons) the cytoplasmic concentration of free calcium is 50–100 nM (
However, while A350V binds less efficiently to apocalmodulin as compared to wild type IQSEC2, the A350V mutant is capable of binding calcium-calmodulin equivalent to or even superior to wild type IQSEC2. Similar to myosin (
This is the first demonstration of a human disease resulting from a constitutive activation of Arf6 due to a constitutive increase in IQSEC2 GEF activity. We have shown that the IQSEC2 GEF activity for Arf6 is increased in cells expressing mutant A350V IQSEC2 as compared to wild type IQSEC2. Ionomycin treatment of cells expressing WT IQSEC2 induced a significant increase in Arf6 activation, indicating a calcium-dependent regulation of Arf-GEF activity. The A350V mutant, however, already had a high level of basal activity that was comparable to WT IQSEC2 after treatment with ionomycin. All previously reported mutants of IQSEC2, including R359C, which is also located in the IQ region, have been noted to have decreased Arf6 GEF activity (
A key factor underlying the strength of individual excitatory synapses is the number of AMPA receptors at synapses. Trafficking of AMPA receptors to and from synapses plays a key role in synaptic transmission and in experience-dependent synaptic plasticity and associative learning (
Based on the data presented here and previous work presented by others (
Figure 10

Schematic model of regulatory cascade mediated by wild type and A350V IQSEC2 mutant and consequences for AMPA trafficking. Wild type IQSEC2. (1) Activation of NMDA receptor with calcium influx. (2) Calcium can bind to apocalmodulin which is already bound to IQSEC2. (3) Ca-calmodulin bound to IQSEC2 induces a conformational change in IQSEC2 that leads to activation of IQSEC2 GEF activity (4) resulting in formation of active Arf6-GTP. Arf6-GTP promotes endocytosis of surface AMPA receptors (5) by pathways that are poorly understood, but which may include JNK (
Behavioral phenotyping of the A350V IQSEC2 mice demonstrates increased locomotion, abnormal social interactions and learning impairments in the absence of motor coordination deficits. The increased preference for social novelty in the A350V mice described here, while different from what has been described in autism, has been described in other genetic encephalopathies with intellectual disability and abnormal social functioning such as Williams’s syndrome (
Statements
Ethics statement
This study was carried out in accordance with the recommendations of the Technion Faculty of Medicine and the Medical College of Wisconsin Institutional Animal Care and Use Committees (IACUC) and approved by the IACUC committees.
Author contributions
ER, RJ, KS-R, MS, MF, NL, RM, RW, RS, RP, DL, AK, IK, MC, NG, GU, and AL designed and performed the experiments, and analyzed the data. RS, RW, DL, NG, IK, GU, and AL wrote the manuscript. All authors were involved in revising the manuscript for important intellectual content and gave final approval of the version to be published.
Funding
This work was funded in part by the Rappaport Research Institute to APL and NIH/NINDS NS099362 to GU.
Acknowledgments
This work is dedicated to Eviatar Haim Harir and his courageous parents Esther Zehava Harir and Avichai Shalom Harir.
Conflict of interest
The authors declare that the research was conducted in the absence of any commercial or financial relationships that could be construed as a potential conflict of interest.
References
1
Ahrens-NicklausR. C.UmanahG. K. E.SondheimN.DeardorffM. A.WilkensA. B.ConlinL. K.et al (2017). Precision therapy for a new disorder of AMPA receptor recycling due to mutations in ATAD1.Neurol. Genet.3:e130. 10.1212/NXG.0000000000000130
2
Alexander-BlochA.McDougleC.UllmanZ.SweetserD. (2016). IQSEC2 and X-linked syndromal intellectual disability.Psychiatr. Genet.26101–108. 10.1087/YPG.0000000000000128
3
AwasthiA.RamachandranB.AhmedS.BenitoE.ShinodaY.NitzanN.et al (2018). Synaptotagmin-3 drives AMPA receptor endocytosis, depression of synapse strength, and forgetting.Science363 eaav1483. 10.1126/science.aav1483
4
BahlerM.RhoadsA. (2002). Calmodulin signaling via the IQ motif.FEBS Lett.513107–113. 10.1016/S0014-5793(01)03239-2
5
BrownJ. C.PetersenA.ZhongL.HimelrightM. L.MurphyJ. A.WalikonisR. S.et al (2016). Bidirectional regulation of synaptic transmission by BRAG1/IQSEC2 and its requirement in long-term depression.Nat. Commun.7:11080. 10.1038/ncomms11080
6
ChoiS.KoJ.LeeJ. R.LeeH. W.KimK.ChungH. S.et al (2006). ARF6 and EFA6A regulate the development and maintainence of dendrites.J. Neurosci.264811–4819. 10.1523/JNEUROSCI.4182-05.2006
7
DonaldsonJ. G. (2003). Multiple roles for Arf6: sorting, structuring and signaling in the plasma membrane.J. Biol. Chem.27841573–41576. 10.1074/jbc.R300026200
8
FieremansN.Van EschH.de RavelT.Van DriesscheJ.BeletS.BautersM.et al (2015). Microdeletion of the escape genes KDM5C and IQSEC2 in a girl with severe intellectual disability and autistic features.Eur. J. Med. Genet.58324–327. 10.1016/j.ejmg.2015.03.003
9
GuntupalliS.WidagdoJ.AnggonoV. (2016). Amyloid B induced dysregulation of AMPA receptor trafficking.Neural Plast.20161–12. 10.1155/2016/3204519
10
HeyneH. O.SinghT.StambergerH.JamraR. A.CaglayanH.CraiuD.et al (2018). De novo variants in neurodevelopmental disorders with epilepsy.Nat. Genet.501048–1053. 10.1038/s41588-018-0143-7
11
HinzeS. J.JacksonM. R.LieS.JollyL.FieldM.BarryS. C.et al (2017). Incorrect dosage of IQSEC2, a known intellectual disability and epilepsy gene, disrupts dendritic spine morphogenesis.Transl. Psychol.7:e1110. 10.1038/tp.2017.81
12
HuH.RealE.TakamiyaK.KangM. G.LedouxJ.HuganirR. L.et al (2007). Emotion enhances learning via norepinephrine regulation of AMPA receptor trafficking.Cell131160–173. 10.1016/j.cell.2007.09.017
13
JaworskiJ. (2007). ARF6 in the nervous system.Eur. J. Cell Biol.86513–524. 10.1016/j.ejcb.2007.04.007
14
KalscheuerV. M.JamesV. M.HimelrightM. L.LongP.OegemaR.JensenC.et al (2016). Novel missense mutation A789V in IQSEC2 underlies X-linked intellectual disability in the MRX78 family.Front. Mol. Neurosci.8:85. 10.3389/fnmol.2015.00085
15
KarlT.PabstR.Von HorstenS. (2003). Behavioral phenotyping of mice in pharmacological and toxicological research.Exp. Toxicol. Pathol.5569–83. 10.1078/0940-2993-00301
16
KiellandA.BochorishvilliG.CorsonJ.ZhangL.RosinD. L.HeggelundP.et al (2009). Activity patterns govern synapse specific AMPA-R trafficking between deliverable and synaptic pools.Neuron6284–101. 10.1016/j.neuron.2009.03.001
17
KimJ. W.ParkK.KangR. J.GonzalesE. L. T.KimD. G.OhH. A.et al (2018). Pharmacological modulation of AMPA receptor rescues social impairments in animal models of autism.Neuropsychopharmacology44314–323. 10.1038/s41386-018-0098-5
18
LauterbornJ. C.PalmerL. C.JiaY.PhamD. T.HouB.WangW.et al (2016). Chronic Ampakine Treatments Stimulate Dendritic Growth and Promote Learning in Middle-Aged Rats.J. Neurosci.361636–1646. 10.1523/JNEUROSCI.3157-15.2016
19
MartinL. A.IcebergE.AllafG. (2018). Consistent hypersocial behavior in mice carrying a deletion of Gtf2i but no evidence of hyposocial behavior with Gtf2i duplication: implications for Williams-beuren syndrome and autism spectrum disorder.Brain Behav.8:e00895. 10.1002/brb3.895
20
MatsuN.ReijmersL.MayfordM. (2008). Spine type specific recruitment of newly synthesized AMPA receptors with learning.Science3191104–1107. 10.1126/science.1149967
21
McCormackS. G.StronettaR. L.ZhuJ. J. (2006). Synaptic AMPA receptor exchange maintains bidirectional plasticity.Neuron5075–88. 10.1016/jneuron.2006.02.027
22
MedinT.JensenV.SkareO.Storm-MathisenJ.HvalbyO.BergersenL. H. (2018). Altered a-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid (AMPA) receptor function and expression in hippocampus in a rat model of attention-deficit/hyperactivity disorder (ADHD).Behav. Brain Res.360209–215. 10.1016/j.bbr.2018.12.028
23
MignotC.DepienneC. (2018). IQSEC2 related encephalopathy in males and females: a comparative study including 37 novel patients.Genet. Med.10.1038/s41436-018-0268-1[Epub ahead of print].
24
MoyS. S.NadlerJ. J.PerezA.BarbaroR. P.JohnsJ. M.MagnusonT. R.et al (2004). Sociability and preference for social novelty in five inbred strains: an approach to assess autistic-like behavior in mice.Genes Brain Behav.3287–302. 10.1111/j.1601-1848.2004.00076.x
25
MurphyJ. A.JenseO. N.WalikonisR. S. (2006). BRAG1 a Sec7 domain containing protein is a component of the postsynaptic density of excitatory synapses.Brain Res.112035–45. 10.1016/j.brainres.2006.08.096
26
MyersK. R.WangG.ShengY.CongerK. K.CasanovaJ. E.ZhuJ. J. (2012). Arf6-GEF BRAG1 regulates JNK-mediated synaptic removal of GluA1-containing AMPA receptors: a new mechanism for nonsyndromic X-linked mental disorder.J. Neurosci.3211716–11726. 10.1523/JNEUROSCI.1942-12.2012
27
NgP. R.BellugiE. U.TraunerM. D. (2018). Associations between social functioning, ADHD symptomatology, and emotion functioning in children with autism spectrum disorder and Williams syndrome.Pediatr. Neurol.7969–71. 10.1016/j.pediatrneurol.2017.10.022
28
ParkinsonG. T.HanleyJ. G. (2018). Mechanisms of AMPA receptor endosomal sorting.Front. Mol. Neurosci.11:440. 10.3389/fnmol.2018.00440
29
PersechiniA.CronkB. (1999). The relationship between the free concentrations of Ca2+ and Ca2+-calmodulin in intact cells.J. Biol. Chem.2746827–6830. 10.1074/jbc.274.11.6827
30
PetersenA.BrownJ. C.GergesN. Z. (2018). BRAG1/IQSEC2 as a regulator of small GTPase-dependent trafficking.Small GTPases10.1080/21541248.2017.1361898[Epub ahead of print].
31
PiardJ.UmanahG. K. E.HarmsF. L.Abaide-AtristainL.AmramD.ChangM.et al (2018). A homozygous ATAD1 mutation impairs postsynaptic AMPA receptor trafficking and causes a lethal encephalopathy.Brain141651–661. 10.1093/brain/awx377
32
PrutL.BelzungC. (2003). The open field as a paradigm to measure the effects of drugs on anxiety like behaviors: a review.Eur. J. Pharm.4633–33. 10.1016/S0014-2999(03)01272-X
33
QinY.ZhuY.BaumgartJ. P.StornettaR. L.SeidenmanK.MackV.et al (2005). State dependent Ras signaling and AMPA receptor trafficking.Genes Dev.192000–2015. 10.1101/gad.342205
34
RumpelS.LeDouxJ.ZadorA.MalinowR. (2005). Post synaptic receptor trafficking underlying a form of associative learning.Science30883–88. 10.1126/science.1103944
35
SakagamiH.SandaM.FukayaM.MiyazakiT.SukegawaJ.YanagisawaT.et al (2008). IQ-ArfGEF/BRAG1 is a guanine nucleotide exchange factor for ARF6 that interacts with PSD-95 at post-synaptic density of excitatory synapses.Neurosci. Res.60199–212. 10.1016/j.neures.2007.10.013
36
ScholzR.BerberichS.RathgeberL.KollekerA.KohrG.KornauH. C. (2010). AMPA receptor signaling through BRAG2 and Arf6 critical for long term synaptic depression.Neuron66768–780. 10.1016/j.neuron.2010.05.003
37
ShoubridgeC.HarveyR. J.Dudding-BythT. (2019). IQSEC2 mutation update and review of the female-specific phenotype spectrum including intellectual disability and epilepsy.Hum. Mutat.20195–24. 10.1002/humu.23670
38
ShoubridgeC.TarpeyP. S.AbidiF.RamsdenS. L.RujirabenjerdS.MurphyJ. A.et al (2010). Mutations in the guanine nucleotide exchange factor gene IQSEC2 cause nonsyndromic intellectual disability.Nat. Genet.42486–488. 10.1038/ng.588
39
SinghS. K.KishoreN. (2006). Thermodynamic insights into the binding of Triton X-100 to globular proteins: a colorimetric and spectroscopic investigation.J. Phys. Chem.1109728–9737. 10.1021/jp0608426
40
TaipaleM.KrykbaevaI.KoevaM.KayatekinC.WestoverK. D.KarrasG. I.et al (2012). Quantitative analysis of hsp90-client interactions reveals principles of substrate recognition.Cell150987–1001. 10.1016/j.cell.2012.06.047
41
TianC.KayY.SadybekovA.RaoS.KatritchV.HerringB. E. (2018). An intellectual disability-related missense mutation in Rac1 prevents LTP induction.Front. Mol. Neurosci.11:223. 10.3389/fnmol.2018.00223
42
TrybusK. M.GushchinM. I.LuiH.HazelwoodL.KrementsovaE. B.VolkmanN.et al (2007). Effect of calcium on calmodulin bound to the IQ motifs of Myosin V.J. Biol. Chem.28223316–23325. 10.1074/jbc.M701636200
43
UmanahG. K. E.PignatelliM.YinX.ChenR.CrawfordJ.NeifertS.et al (2017). Thorase variants are associated with defects in glutamatergic neurotransmission that can be rescued by perampanel.Sci Transl Med9:eaah4985. 10.1126/scitranslmed.aah4985
44
VorheesC. V.WilliamsM. T. (2006). Morris water maze procedures for assessing spatial and related forms of learning and memory.Nature protocols1848–858. 10.1038/nprot.2006.116
45
WangX.PutkeyJ. A. (2016). PEP-19 modulates calcium binding to calmodulin by electrostatic steering.Nature communications7:13583. 10.1038/ncomms13583
46
YangX.BoehmJ. S.YangX.Salehi-AshtianiK.HaoT.ShenY.et al (2011). A public genome-scale lentiviral expression library of human ORFs.Nat. Methods8659–661. 10.1038/nmeth.1638
47
ZeremA.HaginoyaK.LevD.BlumkinL.KivityS.LinderI.et al (2016). The molecular and phenotypic spectrum of IQSEC2-related epilepsy.Epilepsia571858–1869. 10.1111/epi.13560
48
ZhuJ. J. (2009). Activity dependent synapse specific AMPA receptor trafficking regulates transmission kinetics.J. Neurosci.296320–6335. 10.1523/JNEUROSCI.4630-08.2009
49
ZipperR.BaineS. D.GeniziJ.MaozH.LevyN. S.LevyA. P. (2017). Developmental progression of intellectual disability, autism and epilepsy in a child with an IQSEC2 gene mutation.Clin. Case Rep.51639–1643. 10.1002/ccr3.1139
Summary
Keywords
IQSEC2, Arf6, GEF, AMPA, calmodulin, IQ domain, intellectual disability, autism
Citation
Rogers EJ, Jada R, Schragenheim-Rozales K, Sah M, Cortes M, Florence M, Levy NS, Moss R, Walikonis RS, Palty R, Shalgi R, Lichtman D, Kavushansky A, Gerges NZ, Kahn I, Umanah GKE and Levy AP (2019) An IQSEC2 Mutation Associated With Intellectual Disability and Autism Results in Decreased Surface AMPA Receptors. Front. Mol. Neurosci. 12:43. doi: 10.3389/fnmol.2019.00043
Received
29 October 2018
Accepted
01 February 2019
Published
20 February 2019
Volume
12 - 2019
Edited by
Deepak Prakash Srivastava, King’s College London, United Kingdom
Reviewed by
Jeongyeon Kim, Korea Brain Research Institute, South Korea; Michael E. Cahill, University of Wisconsin-Madison, United States
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Copyright
© 2019 Rogers, Jada, Schragenheim-Rozales, Sah, Cortes, Florence, Levy, Moss, Walikonis, Palty, Shalgi, Lichtman, Kavushansky, Gerges, Kahn, Umanah and Levy.
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*Correspondence: Andrew P. Levy, alevy@technion.ac.il
†These authors have contributed equally to this work
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