1. Introduction
Epilepsy is a neurological disorder affecting around 50 million people worldwide [
1]. Patients suffering from epilepsy have access to a variety of symptomatic pharmacological treatments [
2,
3,
4,
5]. However, despite the growing number of these anti-seizure medications (ASMs), there are no established preventive or disease-modifying treatments available [
6]. Moreover, long-term intake of ASMs is associated with adverse side effects [
7,
8,
9], and most importantly, available medications are not effective in 30% of patients who become drug-resistant [
10,
11]. Most commonly these patients suffer from temporal lobe epilepsy (TLE), which is characterised by focal spontaneous recurrent seizures (SRSs) originating in the mesial temporal lobe often with secondary generalization. Many TLE patients also exhibit comorbidities, such as depression, anxiety, psychosis, and impairment of learning and memory [
12]. For some of these drug-resistant patients, surgical resection of the epileptogenic focus may be an effective treatment, nonetheless, this therapeutic approach is possible only in a relatively small number of individuals due to the location of the seizure focus in, e.g., eloquent brain areas [
13].
One of the structures affected in TLE is the hippocampus, where alterations of its neuronal circuitry lead to hyperexcitability [
14]. One of the causes of hyperexcitability is dysfunction and/or degeneration of inhibitory GABAergic interneurons [
15,
16] which express and release the inhibitory neurotransmitter γ-amino-butyric acid (GABA) [
17]. The loss of these neurons can lead to decreased inhibition in the neuronal networks, shifting the balance towards increased excitability, and reduced threshold for seizure initiation [
18,
19,
20]. Therefore, there is an increased interest in developing cell therapies for epilepsy based on transplanting GABAergic progenitor cells in the seizure focus, thus enhancing inhibitory neurotransmission, which could normalize increased excitability of the local networks and thereby suppress SRSs. Several studies in animal models of TLE focused on medial ganglionic eminence (MGE)-derived GABAergic progenitor cells. After in vivo transplantation, these cells can differentiate into subclasses of interneurons typical for the hippocampus, migrate extensively, are capable of integration into the hippocampal circuitry, and most importantly, significantly diminish SRSs [
21,
22,
23,
24,
25,
26]. However, in all the studies, foetal rodent tissue has been used as the source of MGE-derived GABAergic progenitor cells. Although this approach provides a proof-of-concept for this idea, it lacks the translational potential for treating human patients. It is therefore not surprising that recent research has focused on the use of cells derived from human pluripotent stem cells (hPSCs), as a renewable resource for cell-based therapies. Studies using MGE-like GABAergic progenitors derived from hPSCs indicated seizure attenuation several months after transplantation in two rodent TLE models [
27,
28] suggesting that this strategy may be a promising approach for new therapy development.
In our previous study [
29], we successfully generated optogenetically regulatable GABAergic interneurons from hESCs in vitro in a relatively short time, by adapting a protocol based on overexpressing two transcription factors,
Dlx2 and
Ascl1 [
30]. Using optogenetic activation of these cells, we demonstrated the establishment of functional efferent synapses onto other human neurons in vitro [
29]. In the current study, we asked whether these cells would also generate such synapses when grafted in vivo into the epileptic hippocampus. We transplanted these cells into the hippocampi of immunodeficient rats with kainate-induced TLE. We demonstrated that the hESC-derived GABAergic interneurons (hdInts) can functionally mature and form inhibitory synapses onto the host cells in the hippocampus already at three months and more prominently at six months post-transplantation (PT). Importantly, we observed a significant reduction of SRS frequency and total time spent in seizures in treated animals compared to untreated controls four months after status epilepticus (SE) induction. Taken together, our results provide evidence that hESC-derived interneurons suppress SRSs in epileptic animals by establishing inhibitory synaptic connections onto the host neurons and contribute to a better understanding of the potential mechanisms by which novel cell-based therapy would counteract refractory epilepsy.
3. Discussion
In the presented study, we demonstrate that the transplanted hESC-derived GABAergic neurons mature and integrate into the epileptic rat hippocampal network by forming afferent and efferent synaptic connections with the host cells. Furthermore, we show that these cells inhibit epileptiform discharges in hippocampal slices in vitro when activated optogenetically and reduce the frequency of motor seizures in chronically epileptic rats in vivo.
The rationale for transplanting GABAergic neurons, derived from different sources, into the epileptic brain is based on an assumption that seizures arise due to increased excitability of neuronal circuits caused by an imbalance between excitatory and inhibitory synaptic processes. This imbalance is thought to be a consequence of the impairment of GABAergic synaptic transmission as a consequence of interneuron degeneration documented in a number of studies [
18,
19,
20]. Thus, supplementing GABAergic interneurons by transplantation is supposed to ameliorate the impaired excitability and thereby counteract seizures. Indeed, several animal studies have demonstrated the beneficial effects of grafting foetal GABAergic neuron precursors in the epileptic hippocampus [
21,
22,
23,
24,
25,
26]. Although proving the principle in experimental conditions, foetal progenitors have limited if any translational value and cannot be applied clinically due to ethical concerns and variability in the quality of cell sources. A more viable source of cells for clinical application is hPSCs and their differentiation into MGE-like cells. Transplantation of these cells has proven to inhibit SRSs and behavioural comorbidities in various TLE models [
27,
28]. From the clinical perspective, a potential limitation of the approach used in these studies is a relatively slow differentiation rate of the cells taking five or even seven weeks to be ready for grafting. In our study, we transplanted hESC-derived neuronal precursors after only seven days in culture, while overexpressing
Ascl1 and
Dlx2, two transcription factors necessary for determining their GABAergic fate [
30]. Importantly, already at this early time point, the cells expressed neither stem cell nor mitotic markers, thus decreasing the risk of tumour formation (
Figure S3). This short and simple protocol gives a significant advantage in terms of sustainability, lower demand on resources, and relatively high reproducibility [
29,
31].
Our present study demonstrates the maturation of hESC-derived interneurons over time from three months up to six-months after transplantation. All recorded cells were able to generate APs, with the properties maturing over time, reflecting corresponding increases in voltage-dependent sodium and potassium currents. Moreover, spontaneous synaptic activity was increased at the later timepoint PT, indicating improved integration into the neural network, by receiving more afferent synapses. Importantly, we demonstrate that the transplanted cells form efferent inhibitory synapses onto the host neurons providing a possibility of increased GABA release within the hippocampal network. In previous studies, synaptic integration of hPSC-derived interneurons into the epileptic rodent hippocampus was reported at five months PT histologically [
28]. Functional maturation and efferent synapse formation of grafted hPSC-derived interneurons were also shown previously [
27] although authors did not investigate whether these efferent connections were increasing over time. In yet another recent study authors report electrophysiological and morphological maturation of transplanted hPSC-derived interneurons from 16 to 24 weeks PT, however, without studying functional efferent synapse formation [
32]. These cells failed to suppress SRSs in a mouse TLE model [
33]. In our study, we report the continuing maturation of the grafted hdInts from three- to six-months PT with an increase in efferent synapse formation over time.
Interestingly, the time range of the delayed graft-derived synaptic responses, measured from the switch-on of the light illumination of the slices, was quite broad (
Figure S5). Several factors may contribute to such variation (
Figure S6). One possible explanation could be diverse wiring of the connections, ranging from direct synaptic input from a grafted hdInt to the patched cell, to a multisynaptic pattern with a variable number of intermediate neurons activated by the hdInt efferents before the patched cell is finally responding, which would explain the long delay times. The latter scenario is only possible when assuming altered chloride homeostasis in the epileptic tissue converting GABA from hyperpolarising to a depolarising excitatory neurotransmitter [
34,
35] or as a consequence of neuronal damage induced during the slice preparation [
36]. In addition, the longer delay times can also be a consequence of a delayed light-induced AP onset in the optogenetically stimulated hdInts (
Figures S6B and S7), presumably depending on a variable level of ChR2 expression within the hdInt population in different cells.
Apart from the GABAergic phenotype of the grafted cells assessed by electrophysiology and immunohistochemistry, the predominant subtypes of the grafted hdInts were consistent with those expressing CR and CB as was also the case in our in vitro study [
29]. Unfortunately, around 30% of the grafted cells remained unidentified, due to the lack of sufficient hippocampal sub-slices remaining after electrophysiological experiments for immunohistochemistry staining. Thus, there is a possibility that other subtypes of interneurons, such as somatostatin-, parvalbumin- or neuropeptide Y-expressing interneurons have been missed in these 30%. Nevertheless, one could argue that the presence of CR and CB interneurons observed in the grafts could be sufficient for a beneficial effect, since it has been shown for example that in the human epileptic hippocampus CB interneurons display an altered morphology, and the number of CR interneurons is significantly reduced [
37]. Additionally, in rodent epilepsy models, CR interneurons appear to be vulnerable to excitotoxic damage [
38]. In line with these observations, a recent study with reprogrammed glial cells into predominantly CR interneurons using the same transcription factors reported a reduction in chronic SRSs in a mouse model of epilepsy [
39].
One obvious question regarding our study is whether video monitoring (without EEG recordings) for one week is sufficient as a reliable outcome measure of the effect of the grating of hdInts on SRSs. As mentioned previously in
Section 2.1, when animals were monitored with both EEG and video, on average 97% of the SRSs were generalised, with clear motor components that were similar to those analysed in the experimental cohort with only video monitoring (
Figure S2). Moreover, it has been reported in a similar KA-SE rat TLE model that 94% of all seizures detected by combined video-EEG monitoring were stage 5, thus detectable on video [
28]. In the same study, grafting of hPSC-derived interneurons resulted in a 72% decrease of motor SRSs over a three-week recording period at the fifth month after SE. Importantly, this seizure-suppressing effect remained stable during the course of these 3 weeks. The authors also reported a significant reduction in total time spent in seizures, while no difference in the average duration of individual seizures was observed [
28]. Taken together, these data support our assumption that the observed decrease (87%) in motor SRSs in our study reflects the alterations in almost all seizures that these animals experienced. However, we cannot exclude that transplanted hdInts may have converted motor SRSs into milder, only electrographic non-generalised SRSs. Even if this would be the case, this result on its own could be considered as a major positive outcome of the treatment.
In conclusion, our new data provide proof-of-concept of seizure-suppressant effects of grafted hdInts generated by a simple, fast, and efficient protocol for interneuron differentiation. This protocol proved to provide a reliable and renewable source of hdInts showing positive outcomes on various epileptic phenotype read-outs, including optogenetic inhibition of epileptiform discharges in vitro and SRSs in vivo. Although certain aspects of hdInt transplantation, such as more detailed histological analysis and EEG characterisation, need further investigation, this study can be considered as an important milestone in the development of a cell-based therapy for treating drug-resistant epilepsy.
4. Materials and Methods
4.1. Animals
Immunodeficient nude rat males (RNU rat, Charles River, Wilmington, MA, USA) were housed under a 12/12-h light cycle with ad libitum access to water and food in individually ventilated cages. A total of 25 rats were used.
The experimental procedures performed were approved by the local ethical committee for experimental animals (Ethical permit no. M47-15 and M49-15) and conducted in agreement with the Swedish Animal Welfare Agency regulations and the EU Directive 2010/63/EU for animal experiments.
4.2. Lentiviral Constructs and Virus Generation
The following lentivirus constructs were used: lentivirus vector hSyn-hChR2(H134R)-mCherry-WPRE (obtained by cloning at the lab from Addgene #20945, a gift from Karl Deisseroth [
40]) for expressing channelrhodopsin-2 (ChR2) coupled with mCherry; and for the doxycycline-inducible Tet-On system: lentivirus vector FUW-TetO-Ascl1-T2A-puromycin (Addgene #97329) for expressing Ascl1-T2A-puromycin cassette; lentivirus vector FUW-TetO-Dlx2-IRES-hygromycin (Addgene #97330) for expressing Dlx2-IRES-hygromycin cassette; and lentivirus vector FUW-rtTA (Addgene #20342) containing rtTA, all gift from Marius Werning [
30]. The lentiviral particles were produced as described elsewhere [
41].
4.3. Cell Culture
H1 (WA01) ES cells were obtained from WiCell Research Resources (WiCell, Madison, WI, USA). hESCs were maintained as feeder-free cultures in mTeSR1 medium (Stem Cell Technologies, Vancouver, BC, Canada) and Matrigel-coated plates (Corning, Corning, NY, USA).
4.3.1. Generation of Induced GABAergic Interneuron Precursors from hESCs
H1 ESCs were transduced with Tet-On system lentiviral particles and ChR2-mCherry lentivirus. Cells were then expanded as needed, frozen down, and kept at −150 °C as a stock for starting differentiation.
The induced GABAergic interneurons were generated as described in Gonzalez-Ramos et al., 2021. Briefly, Tet-On-ChR2-H1 ESCs were thawed and expanded as needed. For starting the differentiation protocol, 60–70% of confluent cells were treated with Accutase (Stem Cell Technologies, Vancouver, BC, Canada) and plated as dissociated cells in six well plates (~3–5 × 105 cells/well) on day 0. Cells were plated on plates coated with Matrigel (Corning, Corning, NY, USA), in mTeSR1 containing 10 mM Y-27632 (Stem Cell Technologies, Vancouver, BC, Canada). On day 1, the culture medium was replaced with N2 Medium consisting of DMEM/F12 supplemented with 1% N-2 Supplement (both Gibco, Waltham, MA, USA), containing doxycycline (2 g/L, Sigma Aldrich, St. Louis, MO, USA) to induce Tet-On gene expression. The culture was retained in the medium for one week. On day 2, a drug-resistance selection period was started by adding puromycin (0.5 mg/mL, Gibco, Waltham, MA, USA) and hygromycin (750 mg/mL, Invitrogen, Waltham, MA, USA) to the fresh media. On day 4, the medium was replaced containing all antibiotics and on day 5, antibiotics were removed and cytosine β-D-arabinofuranoside (Ara-C, 4 µM, Sigma Aldrich, St. Louis, MO, USA) was added. On day 7, cells were used for in vivo grafting.
4.3.2. Cell Transplantation
Cell transplantation was performed four weeks post SE. Neuronal precursors were dissociated at 7 DIV using Tryple Express Enzyme (Gibco, Waltham, MA, USA), centrifuged, resuspended to a concentration of 100.000 cells/uL in HBSS (Gibco, Waltham, MA, USA) containing 10 mM Y-27632 and DNase I Solution (1 µg/mL, Stem Cell Technologies, Vancouver, BC, Canada) and kept on ice until grafting. Cells were then injected stereotaxically in the hippocampus of epileptic RNU rats under isoflurane anaesthesia. Cells were injected bilaterally in both hippocampi with the following coordinates from bregma: anterior-posterior (AP) −6.2 mm, medial-lateral (ML) ±5.2 mm, dorsal-ventral (DV) −6.0, −4.8 and −3.6 mm, 3 μL in total per hippocampus (1 μL at each DV coordinate). Animals were given doxycycline in drinking water (1 mg/mL, 0.5% sucrose) for two days before and four weeks PT to continue the cell differentiation in vivo. Cells remaining after grafting were re-plated on Matrigel-coated coverslips in 24-well plates and cultured in N2 medium overnight, until being fixed with 4% paraformaldehyde containing 0.25% glutaraldehyde and used for immunocytochemistry.
4.4. Induction of Status Epilepticus
Male immunodeficient RNU rats (7–8-week-old) were injected subcutaneously in the neck region with an initial dose of 10 mg/kg of KA and subsequently with 5 mg/kg every hour until the first stage 3 or higher seizure grade was observed (scheme of the process is illustrated in
Figure S1). Seizures were classified according to the modified Racine scale registering only stages 3 and higher: (3) unilateral forelimb clonus; (4) generalized seizure with rearing, body jerks, bilateral forelimb clonus; (5) generalized seizure with rearing, imbalance, falling, or wild running [
42] (
Video S1). SE was defined as at least four seizures per hour. After SE, the animals were injected with a Ringer/glucose (25 mg/mL) solution (1:1 ratio) and returned to housing cages. Animals were weighed every day for a week after SE induction and subsequently once per week. Cell transplantation was performed four weeks after SE induction.
4.5. Video Recordings and Video-EEG Recordings
To assess the frequency of motor SRSs, animals were video monitored continuously for four months after SE induction. During the dark (night) hours, infrared lamps were used to illuminate the cages. Videos were manually analysed retrospectively and animals not showing SRSs were excluded from the study. Only motor SRSs were detected, noting the time of seizure occurrence, duration of the seizure, and seizure severity (
Video S2). Duration of seizures and seizure severity was averaged for each animal, seizure frequency was calculated as a number of seizures per hour for each animal and these values were then used for statistical analyses.
Furthermore, three non-grafted animals underwent implantation of electrodes and transmitters for wireless video-EEG monitoring five months after SE induction. This was done to determine if this rat strain tolerates the procedure and the implants and for further characterisation of their seizures. The whole procedure was performed as described previously [
43]. Firstly, the rats were anesthetized with 4% isoflurane and placed in the stereotaxic frame while kept on 2% isofluorane. The transmitter (F40-EET, Data Sciences International, St. Paul, MN, USA) was placed in a subcutaneous pocket on the rats’ backs. One stainless steel electrode (Plastics One, Roanoke, VA, USA), soldered to the wire of the transmitter, was implanted at the following coordinates: AP −6.2 mm, ML +5.2 mm, DV −6.0 mm. The second electrode was placed on top of dura mater above the motor cortex ipsilateral to the depth electrode. Two reference electrodes were placed on the dura mater, 2 mm rostral to the lambda. Two stainless screws were attached to the skull bone to secure the electrode assembly by dental cement. Animals were weighed every day for a week after implantation and consequently once per week henceforth. To begin the video-EEG monitoring, the wireless transmitter was activated by a magnet and the cage was placed on top of a receiver unit (Data Sciences International, St. Paul, MN, USA). Two cameras (Axis, Lund, Sweden) were used to continuously record video of the animal activity for 30 h, and seizures were then detected off-line in NeuroScore (Data Sciences International, St. Paul, MN, USA).
4.6. Electrophysiology
4.6.1. Whole-Cell Patch-Clamp Recordings in Hippocampal Slices
RNU rats at three- or six-months PT were briefly anesthetized with isoflurane and decapitated. Brains were transferred to an ice-cold modified artificial cerebrospinal fluid (aCSF) solution containing in mM: 75 sucrose, 67 NaCl, 26 NaHCO3, 25 D-glucose, 2.5 KCl, 1.25 NaH2PO4, 0.5 CaCl2, 7 MgCl2 (all from Sigma Aldrich, St. Louis, MO, USA), equilibrated with carbogen (95% O2/5% CO2), with pH 7.4 and osmolarity ~300 mOsm. The brains were cut on a vibratome (VT1200S, Leica Microsystems, Wetzlar, Germany) into 300 μm thick quasi-horizontal hippocampal slices, which were transferred to aCSF containing in mM: 118 NaCl, 2 MgCl2, 2 CaCl2, 2.5 KCl, 26 NaHCO3, 1.25 NaH2PO4, 10 D-glucose. Slices were incubated in this solution for 30 min at 34 °C, and subsequently at room temperature until recordings were performed. The individual cells in the slices were visualized for whole-cell patch-clamp recordings using infrared differential interference contrast video microscopy (BX51WI; Olympus, Shinjuku, Tokyo, Japan). Recordings were performed from grafted (identified under fluorescence with 520 nm light for mCherry+) and host cells (mCherry−) at 32 °C using a glass pipette filled with a solution containing (in mM): 140 KCl, 10 NaCl, 10 HEPES, 0.2 EGTA, 4 MgATP, and 0.4 Na3GTP (~300 mOsm, pH 7.2; all from Sigma Aldrich, St. Louis, MO, USA). This solution inverts the polarity of chloride currents inward while increasing their amplitude, making them easier to detect. Average pipette resistance was between 2 and 4 MΩ, pipette capacitance was compensated for during cell-attached configuration. Biocytin (0.5–1 mg/mL, Biotium, Fremont, CA, USA) was included in the pipette solution to retrospectively identify recorded cells. All recordings were done using a HEKA EPC10 amplifier (HEKA Elektronik, Lambrecht, Germany) and sampled at 10 kHz with a 3 kHz Bessel anti-aliasing filter and using PatchMaster software for data acquisition.
4.6.2. Passive Membrane Properties of Transplanted Cells
Estimated resting membrane potential (RMP), series resistance (Rs), input resistance (Ri), and cell membrane capacitance (Cm) were calculated from a series of 5 mV pulses of 100 ms duration, applied through the patch pipette immediately after whole-cell configuration was established. The membrane capacitance was calculated from the charge integration of the transient response to the test pulse. To determine the ability to fire action potentials (APs), 500 ms current steps ranging from −40 pA to 200 pA in 10 pA steps were applied while holding the cell membrane potential at approximately −70 mV. From the same holding potential, 1-s linear ramp currents were injected into the cells to determine the AP threshold. AP amplitude was measured from threshold to peak, and duration was measured as the width at the threshold. The amplitude of the afterhyperpolarization (AHP) was measured as the difference between the AHP peak and the AP threshold. Sodium and potassium currents were evoked by a series of 100 ms long voltage steps ranging from −90 mV to +40 mV in 10 mV steps. In addition, their sensitivity to 1 µM tetrodotoxin (TTX, Abcam, Cambridge, UK) and 10 mM tetraethylammonium (TEA, Abcam, Cambridge, UK) was assessed.
4.6.3. Optogenetics
For optogenetic depolarization of ChR2-expressing cells, blue light was applied at 460 nm wavelength with a LED light source (Prizmatix, Holon, Israel) and delivered through a water immersion 40× microscope objective. Blue light was delivered for a duration of 500 milliseconds, or by 5 pulses of 3 milliseconds repeated at 10 Hz. For detection of graft-to-host synaptic connections, the same stimulation was used during recoding from a “host” cell in the vicinity of a ChR2-expressing cell.
4.6.4. Spontaneous Synaptic Activity
Spontaneous postsynaptic currents (sPSCs) were recorded at −70 mV. Whole-cell patch-clamp recordings of sPSCs were analysed offline with Igor Pro (Wavemetrics, Portland, OR, USA) and Python. sPSCs were detected automatically and analysed using a custom Python script [
44]. A postsynaptic current template was generated from the voltage-clamp recordings which were low-pass filtered at 400 Hz and was used for the detection algorithm. Events with a correlation coefficient to the template lower than 0.6 were excluded from the analysis, as well as those with amplitude <3 pA and rise-time >5 ms. For distribution comparisons, an equal number of events was analysed from all recorded neurons, while for median comparisons all events were considered.
4.6.5. Drugs and Concentrations
For the blocking of GABAA and GABAC receptors, picrotoxin (PTX, 100 μM, Tocris, Bristol, UK) was used, although it might act on glycine and 5-HT
3 receptors [
45,
46]. However, the used concentration of PTX is considered to be insufficient to block the signalling through serotonin receptors [
47]. (2R)-amino-5-phosphonovaleric acid (D-AP5, 50 μM, Abcam, Cambridge, UK) and 2,3-dihydroxy-6-nitro-7-sulfamoyl-benzo-quinoxaline-2,3-dione disodium salt (NBQX, 10 μM, Alomone Labs, Jerusalem, Israel) were used to block NMDA and AMPA receptors, respectively. TTX (1 μM, Abcam, Cambridge, UK) and TEA (10 mM, Abcam, Cambridge, UK) were used to block sodium and potassium channels, respectively.
4.6.6. Epileptiform Activity and Local Field Potential Recordings
To test the effect of grafted hdInts on epileptiform activity in vitro, we used local field potential (LFP) recordings in hippocampal slices from six-month PT rats. The slices were perfused by either high-K+ aCSF or zero-Mg2+ aCSF. The high-K+ aCSF contained in mM: 118 NaCl, 2 MgCl2, 2 CaCl2, 26 NaHCO3, 1.25 NaH2PO4, 10 D-glucose and 7.5 to 9.5 KCl. The zero- Mg2+ was the same but contained 2.5 KCl and no MgCl2. LFPs were recorded by a pipette of 1–3 MΩ resistance filled by the same aCSF. The pipette was placed in the vicinity of the graft and where the epileptiform discharges were most prominent. The LFPs were amplified and sampled at 10 kHz. To assess whether hdInts could suppress the epileptiform discharges, we activated them by blue light stimulation. We tested 3 stimulation protocols separated by 2 min of baseline (no light): (1) Five-second continuous light pulse separated by 35 s of a dark period, repeated 30 times. (2) Five-second pulse train at 30 Hz and 3 ms pulse width separated by 35 s of a dark period, repeated 30 times. (3) Three-minute pulse train at 30 Hz and 3 ms pulse width.
The epileptiform discharges were detected and analysed offline using a custom-made script in Matlab. Briefly, the signal was filtered between 2 and 400 Hz, comb-filtered to remove power line noise, and down-sampled to 1 kHz. Then, the signal power was computed in a 50 ms window, sliding sample-by-sample. The threshold for detection was determined as of the power and detections were marked at the maxima of the regions exceeding the threshold.
We analysed the frequency of occurrence of the events and, using the filtered signal, we computed 3 parameters for each event: peak-to-peak amplitude, peak signal power, and coastline index according to the formula: , where y is the filtered signal, N is the number of samples and n is the index of the sample. For the statistical analysis, the mean of these parameters was computed for the dark period and light stimulation period in each of the 30 runs of the given protocol in the given slice. Then, the runs were averaged and the resulting two numbers per slice (dark and light) were subtracted. The differences were then evaluated by Wilcoxon signed-rank test.
4.7. Immunohistochemistry, Immunocytochemistry, Imaging, and Quantification
For immunohistochemistry, 300 μm slices used for electrophysiological experiments were collected from aCSF and immediately fixed in 4% paraformaldehyde containing 0.25% glutaraldehyde. After overnight fixation at 4 °C, slices were transferred to 20% sucrose in 0.1 M sodium phosphate-buffered saline and kept at 4 °C for at least two days until further processing. The slices were either immediately stained or cut on a microtome into 30 μm thick sections and stored in a glycerol-based antifreeze solution at −20 °C until stained. For staining, sections were washed thoroughly with PBS, then blocked in 5% serum of the species specific to the secondary antibody, in PBS containing 0.25% Triton-X and incubated with primary antibodies overnight (or for 48 h for 300 μm slices) in the same solution at 4 °C. Following primary antibody incubation, sections were washed with PBS and blocked again with the same serum solution as above. Then, sections were incubated with secondary antibodies for 2 h (or 24 h for 300 μm slices) either fluorophore-conjugated to allow for fluorescent detection (AlexaFluor Plus 488/555/647, 1:1000, Thermo Fisher Scientific, Waltham, MA, USA), or biotinylated for streptavidin amplification (1:200, Vector Laboratories, Burlingame, CA, USA). In some cases, for signal amplification and for visualisation of patched biocytin-filled cells, streptavidin-conjugated fluorophores were used (1:2000, Jackson Immunoresearch, West Grove, PA, USA). Immunofluorescent sections were coverslipped with PVA-DABCO containing 1:1000 Hoechst. For detailed information of antibodies and dilutions used, see
Table S2. Images were acquired either by confocal microscopy (Nikon Confocal A1RHD microscope, Nikon, Minato, Tokyo, Japan) or by epifluorescence microscopy (Olympus BX61, Olympus, Shinjuku, Tokyo, Japan). For immunocytochemistry, the same staining process was used, omitting the second-day blocking step.
For all quantifications ImageJ software (NIH, Annapolis, MD, USA) was used. For quantification of GABA immunostaining, mean fluorescence intensity was measured in confocal Z-stack images taken at 20× magnification using maximal intensity projection from 13 stacks (1 µm distance). In each slice, the area of the graft was outlined based on the STEM121 immunostaining, and the median grey value was measured in the GABA-staining channel. Together with the graft area, an area outside of the graft was outlined and fluorescence intensity was measured. The two values in each slice were then compared. For quantification of CR and CB stainings, similar Z-stack images were composed. Firstly, all cells positive for the human cytoplasm marker (STEM121+ cells) were counted, and Hoechst was used to visualise the nuclei and identify individual cells. Secondly, cells double positive for STEM121 and CB or CR, respectively, were counted. A percentage of double-positive cells out of all STEM121+ cells was calculated for each slice and used for statistical analyses.
4.8. Statistical Analyses
Statistical analysis of the data was performed using Prism 9 software (GraphPad, San Diego, CA, USA). A Mann-Whitney test was used for comparison of medians, an unpaired t-test was used for comparison of means when data were normally distributed, the Wilcoxon test was used for paired data, and the binomial test was used for comparison of proportions. Spearman correlation was used for exploring the relationship of two variables. The level of significance for these tests was set at p < 0.05. The Kolmogorov-Smirnov test was used for distribution comparisons and the level of significance was set to p < 0.01 and D > 0.1. In box plots, the centre line represents the median, the box edges represent interquartile range, and whiskers the complete range of the values. The individual values are plotted as dots. In the rest of the graphs, the mean ± SEM is shown, which is also used to represent values in the main text.