Bioinformatic analysis
The post-natal (P) 21-day WT dataset from Petrany and colleagues (38) was obtained by subsetting the fully processed scMuscle compendium Seurat object from McKellar et al., available for download on Dryad (48). Data were normalized using Seurat’s SCTransform function (Seurat v5) (49). Dimensionality reduction was performed through Principal Component Analysis (PCA) on top variable features, with npcs = 30. FindNeighbors, FindClusters, and UMAP embedding functions were based on the top 30 PCs (Principal Components) of the PCA. We identified 12 clusters using FindClusters with parameters resolution = 0.9. After clustering, cell populations were annotated using the “FindAllMarkers” function according to well-known lineage markers, resulting in 9 meta-clusters. The annotated dataset was used to generate the dotplot in Fig. 1B and the FeaturePlot in Fig. 1C.
Denervation
TA muscles from 4-week-old female WT C57BL/6J mice were used for this experiment. Briefly, mice were deeply anesthetized with a mixture of Rompun (Bayer, 20 mg/mL; 0.5 mL/kg) and Zoletil (100 mg/mL; 0.5 mL/kg). For crush injuries, the sciatic nerve was compressed at three different points for 5 seconds. For cut injuries, approximately 3 mm of the sciatic nerve was removed, followed by wound closure with tissue adhesive (Vetbond). Buprenorphine (0.05–0.1 mg/kg) was administered subcutaneously prior to the animals regaining consciousness (41).
Immunofluorescence
TA muscles from WT C57BL/6J and Sgcb KO mice (B6.129-Sgcbtm1Kcam/2J) females, aged 4 to 8 weeks, were used to obtain cryosections or whole mount preparations of entire fibers. Cryosections were permeabilized with 100% acetone, while fibers were fixed in 4% PFA (MilliporeSigma, P6148) at room temperature. A blocking solution containing 4% BSA (MilliporeSigma, A7030-100G) was applied to both types of preparations. Primary antibodies were applied overnight at 4°C: anti-Sgca (Ab189254), anti-Sgcb (Ab315386), anti-Sgcg (Nova Castra 6091787), and anti-Sgcd (kindly provided by Dr. Sandonà). Secondary antibodies goat anti-rabbit Alexa Fluor 594 (A11011) and goat anti-mouse Alexa Fluor 594 (A21235) were then applied. Alpha-Bungarotoxin coupled to Alexa Fluor 488 (B13422) was used to identify AChR presence. Counterstaining was performed with DAPI (Thermo Fisher Scientific, D1306). All images were acquired using confocal microscopy with z-stack intervals of 1 µm. Images were subsequently analyzed using ImageJ software.
Morphological analysis
Morphological analysis consisted in the assessment of endplate area, fragmentation, compactness and subsynaptic nuclei clusterization. Additionally, colocalization of AChR signal with sarcoglycans was also analysed. All analyses were performed following standard procedures described elsewhere (50).
Muscle fiber preparation and cell-attached patch-clamp recordings
Flexor digitorum brevis (FDB) muscles from WT and Sgcb KO mice were dissected from the hindlimbs of female mice aged 4–8 weeks, which were sacrificed by cervical dislocation. The FDB muscles were incubated with Type I collagenase (3 mg/mL, Sigma) for 30 minutes at 37°C in Minimum Essential Medium (MEM) (Gibco, Thermo Fisher Scientific, #11095-080). After equilibrating in Ca2 + free suspension culture MEM (Gibco, #11380-037) for 30 minutes at room temperature, the muscles were gently triturated until to obtain single fibers. Recordings were performed on fibers imaged by a phase-contrast microscope (Axioskop 2 FS, Zeiss, Jena, Germany). Patch pipettes were filled with a solution containing (in mM, all from Sigma Aldrich, St. Louis, MO, USA): NaCl 140, KCl 2.8, CaCl2 2, MgCl2 2, glucose 10, HEPES/NaOH 10, pH 7.3, plus ACh (100 nM). The resistance was 4–6 MΩ. Single-channel currents were recorded at room temperature (23–26°C) using a low-noise Axo-patch 200B amplifier (Molecular Devices, San Jose, CA, USA) in cell-attached mode. Data were sampled at 25 kHz, digitally filtered at 5 kHz (Gaussian filter), and analyzed using pClamp 9.2 (Molecular Devices). Only single openings (100–3000 at each pipette potential in every patch) were used to determine the channel slope conductance and duration. Measurements were performed at the same pipette potential at the beginning and end of each recording to ensure membrane potential stability. Slope conductance was calculated only if the membrane potential was stable and unitary events were recorded at least at three different pipette potentials. The kinetic properties of ACh-evoked events were compared at an estimated membrane potential of − 90 ± 10 mV, assuming a reversal potential of 0 mV. Histograms of open times were fitted with sums of exponential components using a non-linear algorithm (pClamp 9.2), as required.
RNA extraction and real time PCR
Total RNA was extracted from frozen female tibialis anterior muscles using TRIzol Reagent (Life Technologies, 15596018) following the manufacturer’s protocol. The RNA was then reverse transcribed using the High-Capacity cDNA Reverse Transcription Kit (Life Technologies, 4368814). For quantitative PCR (qPCR), premade TaqMan assays labeled with 6-Carboxyfluorescein (FAM) (Thermo Fisher Scientific) were used.
Intracellular calcium levels determination
INDO-1AM (Invitrogen, I1226) was reconstituted in high-quality, freshly opened DMSO to a concentration of 1 mM. For experiments, it was used at a final concentration of 100 µM in Ca2+/Mg2+-free PBS (phosphate-buffered saline). After reconstitution, the solution was protected from light and stored at − 20°C to prevent freeze-thaw cycles. Samples were washed three times with Ca2+/Mg2+ -free PBS before slowly adding INDO-1AM along the muscle fibers. The samples were then incubated for 30 minutes at 37°C. Following incubation, the samples were washed three times with Ca2+/Mg2+ -free PBS and analyzed using confocal microscopy. Detection was based on the dual emission properties of INDO-1, which shifts from 475 nm in Ca2+ -free media to 400 nm when saturated with Ca2+(51). All analyses were conducted using Zeiss Confocal Software (Zen 3.0 Blue Edition).
Western Blot analysis
Protein extraction and western blotting were carried out using standard techniques as detailed in Supplementary Figure S2.
In vitro cultures
C2C12 were cultured until differentiation following standard proceduresand then, stimulated with agrin (RD Systems, 550-AG) following the procedure described in Proietti et al. (52)
Statistical analysis
All statistical analyses were conducted using Prism version 9.0 (GraphPad Software, San Diego, CA, USA). Data are presented as the mean ± SD. Statistical significance was assessed using paired Student’s t-test, one-way ANOVA, as specified in each figure legend. A p-value of < 0.05 was considered statistically significant (∗p < 0.05, ∗∗p < 0.01, ∗∗∗p < 0.001), while p-values ≥ 0.05 were considered not significant.
Study approval
All experiments in this study were conducted in accordance with protocols approved by the Italian Ministry of Health, Rome, Italy, and the ethical regulations of the University of Rome 1 “Sapienza” (Rome, Italy).