An Antibody Feeding Approach to Study Glutamate Receptor Trafficking in Dissociated Primary Hippocampal Cultures

Summary

This article presents a method to study glutamate receptor (GluR) trafficking in dissociated primary hippocampal cultures. Using an antibody-feeding approach to label endogenous or overexpressed receptors in combination with pharmacological approaches, this method allows for the identification of molecular mechanisms regulating GluR surface expression by modulating internalization or recycling processes.

Abstract

Cellular responses to external stimuli heavily rely on the set of receptors expressed at the cell surface at a given moment. Accordingly, the population of surface-expressed receptors is constantly adapting and subject to strict mechanisms of regulation. The paradigmatic example and one of the most studied trafficking events in biology is the regulated control of the synaptic expression of glutamate receptors (GluRs). GluRs mediate the vast majority of excitatory neurotransmission in the central nervous system and control physiological activity-dependent functional and structural changes at the synaptic and neuronal levels (e.g., synaptic plasticity). Modifications in the number, location, and subunit composition of surface expressed GluRs deeply affect neuronal function and, in fact, alterations in these factors are associated with different neuropathies. Presented here is a method to study GluR trafficking in dissociated hippocampal primary neurons. An "antibody-feeding" approach is used to differentially visualize GluR populations expressed at the surface and internal membranes. By labeling surface receptors on live cells and fixing them at different times to allow for receptors endocytosis and/or recycling, these trafficking processes can be evaluated and selectively studied. This is a versatile protocol that can be used in combination with pharmacological approaches or overexpression of altered receptors to gain valuable information about stimuli and molecular mechanisms affecting GluR trafficking. Similarly, it can be easily adapted to study other receptors or surface expressed proteins.

Introduction

Cells utilize the active process of trafficking to mobilize proteins to specific subcellular localizations and exert strict spatiotemporal regulation over their function¹. This process is especially important for transmembrane receptors, as cellular responses to different environmental stimuli rely on intracellular cascades triggered by receptor activation. Cells are able to modify these responses by altering the density, localization, and subunit composition of receptors expressed at the cell surface via receptor subcellular trafficking regulation². Insertion of newly synthetized receptors into the plasma membrane, along with endocytosis and recycling of existing receptors are examples of trafficking processes that determine the net pool of surface-expressed receptors². Many molecular mechanisms cooperate to regulate protein trafficking, including protein-protein interactions and posttranslational modifications such as phosphorylation, ubiquitination, or palmitoylation².

Regulation of receptor trafficking is particularly required in strongly polarized cells with highly specialized structures. The paradigmatic example is the control of neuronal function by regulated trafficking of glutamate receptors (GluRs)^3,4. Glutamate, the main excitatory neurotransmitter, binds and activates surface-expressed GluRs to control fundamental physiological neuronal functions such as synaptic neurotransmission and synaptic plasticity. The fact that altered GluR trafficking has been observed in a broad spectrum of neuropathies, ranging from neurodevelopmental disorders to neurodegenerative diseases, highlights the importance of this process⁵. Thus, understanding the molecular events that control GluR trafficking is of interest in many areas of research.

In this protocol, an antibody-feeding based method is used to quantify the level of surface-expressed GluRs in primary hippocampal neurons as well as evaluate how changes in internalization and recycling result in the observed net surface expression. The use of pharmacology and/or overexpression of exogenous receptors harboring specific mutations makes this protocol a particularly powerful approach for studying molecular mechanisms underlying neuronal adaptation to different environmental stimuli. A final example of the utility of this protocol is studying how multifactorial changes in the environment (such as in a disease models) affects GluR trafficking through the examination of surface expression in such models.

Using specific examples, it is initially demonstrated how a pharmacologic manipulation mimicking physiological synaptic stimulation [chemical LTP (cLTP)] increases the surface expression of the endogenous GluA1 subunit of the AMPA-type of GluRs (AMPARs)⁶. The trafficking of an overexpressed phospho-mimetic form of the GluN2B subunit of NMDA-type of GluRs (NMDARs) is also analyzed to exemplify how this protocol can be used to study the regulation of GluR trafficking by specific posttranslational modifications. Though these specific examples are used, this protocol can easily be applied to other GluRs and other receptors and proteins that possess antigenic extracellular domains. In the case that there are no antibodies available for extracellular domains, overexpression of extracellular epitope-tagged (e.g., Flag-, Myc-, GFP-tagged, etc.) proteins can assist in protein labeling.

The current protocol provides instructions for quantifying specific GluR subtype density and trafficking using specific antibodies. This protocol can be utilized to study 1) total GluR surface expression, 2) GluR internalization, and 3) GluR recycling. To study each process individually, it is advised to begin with sections 1 and 2 and continue with either section 3, 4, or 5. In all cases, finish with sections 6 and 8 (Figure 1).

Protocol

Work pertaining to hippocampal primary culture preparation was reviewed and approved by the Northwestern University Animal Care and Use Committee (protocol #IS00001151).

1. Preparation Before Labeling

1. Preparation and maintenance of primary hippocampal cultures
   1. Prepare primary hippocampal cultures at a density of 150,000 cells plated on poly-D-lysine-coated (0.1 mg/mL) 18 mm cover glasses. Excellent guides for dissociated neuronal culture preparation are available^7,8.
      NOTE: If required, the cultures may be treated with cytosine arabinoside (Ara-C, 10 μM from DIV1) to avoid glial proliferation in the preparation.
      NOTE: Alternative coating reagents such as fibronectin (1 mg/mL) or laminin (5 μg/mL) may be used instead of poly-D-lysine.
   2. Maintain cultures in a cell incubator at 37 °C and 5% CO₂ in 2 mL/well of neurobasal media supplemented with B27 and 2 mM L-glutamine.
      NOTE: Substitutes for L-glutamine (e.g., Glutamax) can be used, if desired.
   3. On weekly-basis, remove half the volume of media and replace with the same volume of supplemented neurobasal media.
2. OPTIONAL: Transfection of mutated and/or epitope-tagged receptors
   NOTE: Neurons should be transfected at least 3–4 days prior to the analysis time point to allow for receptor expression. The use of young neurons [Days in vitro 6–9 (DIV6–9)] results in better transfection efficiency than older (DIV15–20) neurons, but a sufficient number of transfected cells (>20) can be achieved regardless of the DIV employed.
   1. For each well of a 12-well plate, dilute 1.5 μg of plasmid containing the construct of interest in 100 μL of fresh neurobasal media without B27 or glutamine supplementation in a microcentrifuge tube and mix by vortexing quickly.
      NOTE: For successful transfection, it is critical that the neurobasal media used is as fresh as possible, ideally less than 1 week after bottle opening.
   2. In a second microcentrifuge tube, mix 1 μL of an appropriate lipofection reagent in 100 μL of fresh neurobasal media and mix gently.
      NOTE: Do not vortex the lipofection reagent mixture. Use of fresh lipofection reagents can improve transfection efficiency.
   3. Incubate the tubes for 5 min at room temperature (RT).
   4. Add the lipofection reagent mixture dropwise to the DNA mixture, mix gently, and incubate for 20 min at RT.
   5. Adjust the volume of media in each well to 1 mL of conditioned media.
   6. Add the lipofection reagent -DNA mixture dropwise to the well.
   7. Return cells to the incubator and allow at least 3–4 days for protein expression.
      NOTE: For the purposes of the internalization and recycling protocols outlined below, hippocampal neurons were transfected at DIV11–12 with constructs expressing GluN2B tagged with GFP in the extracellular domain (GFP-GluN2B) and imaged at DIV15–16.
3. OPTIONAL: Incubation of cells with drugs (chronically or acutely) in the conditioned media until fixation.
   NOTE: For acute treatment, begin treating cells before labeling. Depending on the drug treatment protocol used, cells can be maintained in drug-containing media during section 2. In our example, DIV21 cells were subject to a cLTP protocol to increase surface-expressed AMPAR⁹.
   1. Exchange conditioned media for extracellular solution (ECS).
   2. Treat cells with 300 μM glycine in ECS for 3 min at RT. As a control, treat a sister coverslip with ECS (without glycine).
   3. Wash cells 3x with 37 °C ECS and return the cells in ECS (without glycine) to the cell incubator for 20 min prior to continuing with section 2.
      NOTE: ECS (in mM): 150 NaCl, 2 CaCl₂, 5 KCl, 10 HEPES, 30 Glucose, 0.001 TTX, 0.01 strychnine, and 0.03 picrotoxin at pH 7.4.

2. Live Labeling of Surface-expressed Receptors

1. Prepare coverslips for labeling
   1. To save reagents and facilitate manipulation, transfer coverslips cell side up to a paraffin film-covered tray.
      NOTE: It is critical to never let the samples dry out.
   2. Save and maintain conditioned media at 37 °C for incubation and washing steps.
      NOTE: For an 18 mm coverslip, incubation with 75–100 μL of media for antibody labeling and 120–150 μL for internalization/recycling are recommended.
2. Labeling of surface receptors with primary antibody
   1. Incubate cells with primary antibody diluted in conditioned media for 15 min at RT.
      NOTE: For GFP-tagged receptors, rabbit anti-GFP antibody at a dilution of 1:1000 was used. For endogenous GluA1, mouse anti-GluA1 at a 1:200 dilution was used.
   2. Carefully aspirate off the antibody-containing media using a vacuum pipette and wash cells three times with conditioned media.
      NOTE: If conditioned media is unavailable, all washing steps may be performed using PBS+ [phosphate buffered saline (PBS) containing 1 mM MgCl₂ and 0.1 mM CaCl₂]. Manual aspiration using a micropipette may be performed if gentle vacuum aspiration is not available.

3. Surface Expression (Figure 2)

1. Secondary antibody labeling of surface-expressed receptors
   1. Wash once with PBS+.
   2. Fix cells by incubating with 4% paraformaldehyde (PFA) and 4% sucrose in PBS for 7–8 min.
      NOTE: Unlike other fixation methods such as methanol incubation, PFA does not permeabilize the plasma membrane and is therefore suitable for surface-expression analysis. For optimal results, use freshly prepared PFA. Short-term storage of PFA at 4 °C or long-term (up 30 days) storage at -20 °C is permissive for adequate fixation.
      CAUTION: PFA is a known carcinogen. Use proper personal protective equipment and a safety hood when handling.
   3. Wash cells three times with regular PBS.
      NOTE: Alternatively, 0.1 M glycine can be used for washing PFA instead of PBS, as glycine will quench any remaining fixative that may increase the background in the preparation.
   4. Block nonspecific binding sites by incubating with 10% normal goat serum (NGS) in PBS for 30 min at RT.
      NOTE: Blocking time can be extended without adverse effects on labeling.
   5. Incubate with fluorescently-tagged secondary antibody diluted in 3% NGS in PBS for 1 h at RT to label primary antibody-labeled receptors (i.e., surface-expressed).
      NOTE: In these examples, a 1:500 dilution of Alexa 555-conjugated secondary antibodies:goat anti-rabbit for GFP-labeled receptors and goat anti-mouse for GluA1 was used.
   6. Wash cells with PBS 3x.
2. Labeling of intracellular receptors
   1. Permeabilize cells with 0.25% Triton X-100 in PBS for 5–10 min at RT.
      NOTE: To check that the initial round of antibody labeling occupies all surface epitopes, this permeabilization step can be skipped in a sister culture. In this case, no signal for intracellular receptors should be obtained. Additionally, to check that no internal receptors have been labeled in the previous section 2 (i.e., showing the integrity of the plasma membranes in culture), the permeabilization step can be skipped in a sister culture, and a primary antibody against an intracellular protein (e.g., PSD-95 or MAP2) can be utilized in step 2.2.1. No signal should be obtained from this primary under these conditions. In this case, a rabbit anti-PSD-95 antibody (1:500) was used.
   2. Block with 10% NGS in PBS for 30 min at RT.
   3. Label intracellular receptors by incubating permeabilized cells with the same primary antibody used in section 2.2 diluted in 3% NGS in PBS for 1 h at RT.
      NOTE: The antibody dilution for labeling intracellular receptors may be different than that required for labeling surface-expressed receptors. In the example of GluA1, the same antibody dilution (1:200) was used.
   4. Wash cells 3x with PBS.
   5. Label with second fluorescently-tagged secondary antibody diluted in 3% NGS in PBS for 1 h at RT.
      NOTE: In these examples, a 1:500 dilution of goat anti-mouse Alexa 647-conjugated secondary antibody (for GluA1) was used.
   6. Wash cells 3x with PBS.

4. Internalization (Figure 3)

1. Internalization of antibody-labeled surface receptors
   1. After labeling of surface-expressed receptors and antibody washing (section 2.2), maintain cells in conditioned media without antibody and return them to the incubator (37 °C) to allow for internalization.
      NOTE: For NMDA receptors, 30 min for internalization is recommended. As a control, a sister culture may be maintained with conditioned media at 4 °C during the internalization process. Minimal receptor internalization should occur under these conditions.
2. Labeling of surface receptors
   1. Wash cells once with PBS+.
   2. Fix cells with 4% PFA and 4% sucrose in PBS for 7–8 min.
      CAUTION: Use proper personal protective equipment and a safety hood when handling PFA.
   3. Wash cells 3x with regular PBS.
   4. Block with 10% NGS in PBS for 30 min at RT to prevent nonspecific binding.
   5. Incubate samples with fluorescently-tagged secondary antibody diluted in 3% NGS in PBS for 1 h at RT to label primary antibody-labeled receptors (i.e., surface-expressed receptors which were not internalized).
      NOTE: For this example, Alexa 555-conjugated goat anti-rabbit secondary antibody (1:500) was used for labeling.
   6. Wash cells 3x with PBS.
3. Labeling of internalized receptors
   1. Permeabilize cells with 0.25% Triton X-100 in PBS for 5–10 min.
   2. Block nonspecific binding by incubation with 10% NGS in PBS for 30 min at RT.
   3. Incubate samples with fluorescently tagged secondary antibody diluted in 3% NGS in PBS for 1 h at RT to label internalized antibody-labeled receptors.
      NOTE: For this example, Alexa 647-conjugated goat anti-rabbit secondary antibody (1:500) is used for labeling.
   4. Wash cells 3x with PBS.

5. Recycling (Figure 4)

1. Internalization of antibody-labeled surface receptors
   1. After labeling of surface-expressed receptors and antibody washing (section 2.2), maintain cells in conditioned media without antibody and return them to the incubator (37 °C) to allow for internalization.
      NOTE: For NMDA receptors, 30 min for internalization is recommended.
2. Blocking of stable surface expressed receptors
   1. To block the epitopes on the primary antibody attached to surface-expressed receptors that have not been internalized, incubate cells with unconjugated Fab anti-IgG (H+L) antibody fragments (against the primary used in section 2.2) diluted in conditioned media (20 μg/mL) for 20 min at RT. This treatment prevents future interaction with secondary antibodies.
      NOTE: For this example, Goat anti-rabbit Fab fragments were used.
      NOTE: Control experiment: to ensure that complete blocking of surface-expressed receptors has occurred, sister coverslips can be incubated with and without Fab. Cultures should be fixed immediately after Fab treatment, and both cultures are incubated with Alexa 555-conjugated secondary antibody. No Alexa 555 signal in the Fab-incubated cells indicates proper antibody blocking.
   2. Wash cells 3x with conditioned media.
   3. Incubate cells with conditioned media containing 80 μM dynasore to prevent further internalization and return cells to the incubator (37 °C) to allow for recycling of internalized receptors. Dynasore is a GTPase inhibitor that inhibits dynamin and therefore prevents internalization.
      NOTE: 45 min for NMDAR recycling is recommended. Note that Dynasore exclusively blocks the dynamin-dependent internalization process (e.g., NMDARs internalization). However, internalization of other synaptic protein (dynamin-independent) can still occur in the presence of Dynasore.
3. Labeling of recycled receptors
   1. Wash cells once with PBS+.
   2. Fix cells with 4% PFA and 4% sucrose in PBS for 7–8 min.
      CAUTION: Use proper personal protective equipment and a safety hood when handling PFA.
   3. Wash cells 3x with PBS.
   4. Block with 10% NGS in PBS for 30 min at RT to prevent nonspecific binding.
   5. Label cells with first fluorescently-tagged secondary antibody diluted in 3% NGS in PBS for 1 h at RT.
      NOTE: For this example, Alexa 555-conjugated goat anti-rabbit antibody (1:500) was used for labeling.
   6. Wash cells 3x with PBS.
      NOTE: Longer washes with PBS (5–10 min) may help to reduce background in the preparation.
4. Labeling of internalized receptors
   1. Permeabilize cells with 0.25% Triton X-100 in PBS for 5–10 min.
   2. Block with 10% NGS in PBS for 30 min at RT.
   3. Label with second fluorescently-tagged secondary antibody diluted in 3% NGS in PBS for 1 h at RT.
      NOTE: For this example, Alexa 647-conjugated goat anti-rabbit antibody (1:500) was used for labeling.
   4. Wash cells 3x with PBS.

6. Mounting and Imaging of Samples

1. Mount cells by gently placing the coverslips cell side down on 12–15 μL of the appropriate mounting media.
   NOTE: Aspiration of excess mounting media will improve the quality of images.
2. Image cells on an appropriate confocal microscope.
   NOTE: It is recommended to image a z-stack at 60x magnification with 0.35 μm steps, encompassing the entire thickness of the neuron.

7. Time Considerations

1. This is a long protocol that can be stopped at several points. If desired, perform blocking and primary antibody incubation steps overnight at 4 °C in a humid chamber.
2. Alternatively, if desired, use a microwave tissue processor to vastly speed up post-fixation incubation times. For all steps, use 150 W at 30 °C for “On” settings.
   1. To block, run the processor at 2 min “On,” 1 min “Off,” and 2 min “On.”
   2. For primary and secondary antibody incubation steps, run the processor at 3 min “On,” 2 min “Off,” and 3 min “On.”
      NOTE: We observe no difference in quality by making the above alterations to the protocol.

8. Image Analysis

1. It is recommended to use FIJI <https://fiji.sc/> to conduct image analysis, as it is compatible with multiple file formats. For our data, images in the Nikon ND2 file format were acquired.
2. A macro script is provided for easy batch quantification of different parameters pre-selected by FIJI. The following steps are included in the macro:
   NOTE: For these examples, “integrated intensity” was measured.
3. Open the image files in FIJI and separate channels.
4. Z-project each channel stack as a maximum intensity projection.
5. Set a lower threshold for each channel.
   NOTE: Thresholds should be empirically determined for each experimental data set. While each channel can have a separate lower threshold value, it crucial that channel threshold values are consistently maintained for all images of the same data set.
6. Select three to five secondary or tertiary dendrites and save them as regions of interest (ROIs).
7. Measure the integrated density of each ROI in surface and intracellular channels.
8. Normalize the signal for each ROI by dividing the integrated density value of the surface channel by the intracellular channel.
9. Repeat the measurements for all control and experimental images and normalize experimental values to control values (e.g., GluN2B WT or no-glycine conditions).

Results

This protocol to study glutamate receptor trafficking is based on differential labeling of receptors expressed at the cell surface and those expressed in internal membranes. Segregation is achieved by the labeling the receptors before and after membrane permeabilization, using the same primary antibody but a secondary antibody conjugated to a different fluorophore. As outlined by the optional steps included the protocol, this is a very versatile method for interrogating different receptor...

Discussion

The interaction between a cell and its environment (e.g., communication with other cells, response to different stimuli, etc.), heavily relies on the correct expression of receptors at the cell surface. The rapid and fine-tuned regulation in surface-expressed receptor content enables proper cellular response to a constantly changing environment. In the particular case of neurons, alterations in the number, localization, and subunit composition of synaptically expressed receptors heavily influences synaptic communication,...

Materials

List of materials used in this article

Name	Company	Catalog Number	Comments
18 mm dia. #1.5 thick coverglasses	Neuvitro	GG181.5
Alexa 555-conjugated goat anti-mouse secondary	Life Technologies	A21424
Alexa 555-conjugated goat anti-rabbit secondary	Life Technologies	A21429
Alexa 647-conjugated goat anti-mouse secondary	Life Technologies	A21236
Alexa 647-conjugated goat anti-rabbit secondary	Life Technologies	A21245
B27	Gibco	17504044
CaCl2	Sigma	C7902
Corning Costar Flat Bottom Cell Culture Plates	Corning	3513
Dynasore	Tocris	2897
Glucose	Sigma	G8270
Glycine	Tocris	0219
Goat anti-rabbit Fab fragments	Sigma	SAB3700970
HEPES	Sigma	H7006
KCl	Sigma	P9541
L-Glutamine	Sigma	G7513
Lipofectamine 2000	Invitrogen	11668019
Mouse anti-GluA1 antibody	Millipore	MAB2263
NaCl	Sigma	S6546
Neurobasal Media	Gibco	21103049
NGS	Abcam	Ab7481
Parafilm	Bemis	PM999
PBS	Gibco	10010023
Pelco BioWave	Ted Pella	36500
PFA	Alfa Aesar	43368
Picrotoxin	Tocris	1128
Poly-D-lysine hydrobromide	Sigma	P7280
ProLong Gold Antifade Mountant	Life Technologies	P36934
Rabbit anti-GFP antibody	Invitrogen	A11122
Rabbit anti-PSD-95 antibody	Cell Signaling	2507
Strychnine	Tocris	2785
Sucrose	Sigma	S0389
Superfrost plus microscope slides	Fisher	12-550-15
Triton X-100	Sigma	X100
TTX	Tocris	1078