Mouse spinal cord injury contusion model
Female animals are commonly used in experimental studies on spinal cord injury (SCI) due to their shorter urethra, which makes artificial voiding to prevent urine retention after SCI easier compared to male animals. [31]. Healthy adult C57BL/6 mice (female, average weight 25–30 g) originated from Wenzhou Medical University’s Experimental Animal Center (Licence no. SCXK [ZJ]LY2020-0001), Zhejiang Province, China.
To construct spinal cord contusion model, mice were first anesthetized with 1% sodium pentobarbital (50 mg/kg, i.p.) to induce anesthesia. Then, a standard T9-10 laminectomy was performed to expose the spinal cord by sequentially dissecting the skin and muscles on the back. Subsequently, a Spinal Cord Impactor was used to induce moderate SCI by releasing a 10 g weight bar with 3.0 mm diameter from a height of 20 mm onto the exposed spinal cord surface. After spinal cord injury, the integrity of the spinal cord was carefully observed for any signs of bleeding or rupture. In the end, muscle, fascia, and skin were sutured layer by layer with 4-0 nonabsorbable silk sutures. Mice in the sham group underwent the same operation as mentioned above, without any injury induced by weight drop. Postoperatively, mice were manually assisted with urination three times a day, and were housed under standard conditions including a temperature of 21-25°C, a 12-hour light/dark cycle, and 50-60% humidity, with free access to water and food. The experimental procedure related to animals followed the Guide for the Care and Use of Laboratory Animals of the China National Institutes of Health, as accepted by the Animal Care and Use Committee of Wenzhou Medical University (wydw 2017-0096).
Antibodies and reagents
Topscience in Shanghai, China, manufactured the DADLE (TP1905) used in this study. Solarbio Science & Technology in Beijing, China, provided the pentobarbital sodium, the Masson staining instrument (Catalogue Number: G1340), the haematoxylin and eosin (HE) staining tools (Catalogue Number: G1120), Nissl staining kit (Catalogue Number: G1430), lysosomal protein extraction kit (Catalogue Number: EX1230) and N-Acetyl-β-D-Glucosidase (NAG) activity assay kit (Catalogue Number: BC4295). Sigma‒Aldrich in St. Louis, Missouri, US, supplied chloroquine (CQ, Catalogue Number: C6628), Anti-cPLA2 antibody (SAB4502200) and Anti-Phospho-cPLA2 antibody (Catalogue Number: SAB4503812). Med Chem Express in the United States of America provided dorsomorphin (compound C, Catalogue Number: HY-13418A) and naltrindole hydrochloride (Nal, Catalogue Number: 111469-81-9). Applied Biological Materials in Jiangsu, China, developed the AAV- Pla2g4a Virus (Mouse) (serotype# 1, with no fluorescent reporter gene) and AAV-vehicle Control Virus (serotype# 1, with no fuorescent reporter gene). Cell Signaling Technology in Beverly, Massachusetts, US, provided the primary antibodies against Beclin-1 (Catalogue Number: 3738), LC3B (Catalogue Number: 3868), SIRT1 (Catalogue Number: 9745t), RIP (Catalogue Number: 3493), RIP3 (Catalogue Number: 95702) and cleaved caspase-8 antibodies. The Proteintech Group in Chicago, Illinois, US, produced the CTSD (Catalogue Number: 21327-1) antibodies, GAPDH (Catalogue Number: 10494-1) antibodies,the secondary antibodies goat anti-mouse IgG (H+L), HRP conjugate (Proteintech, SA00001-1) and goat anti-rabbit IgG (H+L), HRP conjugate (Proteintech, SA00001-2). Abcam in Cambridge, UK, provided the goat anti-mouse IgG H&L (Alexa Fluor® 594) (Catalogue Number: ab150116), goat anti-mouse IgG H&L (Alexa Fluor® 488) (Catalogue Number: ab150113), goat anti-rabbit IgG H&L (Alexa Fluor® 488) (Catalogue Number: ab150077), goat anti-rabbit IgG H&L (Alexa Fluor® 594) (Catalogue Number: ab150080), microtubule-associated protein-2 (MAP2) (Catalogue Number: ab5392), mouse monoclonal to NeuN (Catalogue Number: ab104224), rabbit monoclonal to NeuN (Catalogue Number: ab177487), p62/SQSTM1 (Catalogue Number: ab240635), CTSB (Catalogue Number: ab214428). Affinity Biosciences in Ohio, US, supplied PI3 Kinase Class III (VPS34, Catalogue Number: DF7921), MLKL (Catalogue Number: AF7919), p38(Catalogue Number: BF8015), p-p38 (Catalogue Number: AF4001) antibodies. The 4’,6-diamidino-2-phenylindole (DAPI) solution was provided by Beyotime Biotechnology in Jiangsu, China.
Adeno-associated virus (AAV) vector packaging
AAV-cPLA2 (mouse Pla2g4e) and AAV-Vehicle (mouse Blank) were constructed and packaged by Applied Biological Materials Company Co., Ltd. (Jiangsu, China). The detailed protocols were conducted according to previously published instructions [32, 33]. The titres of AAV-cPLA2 and AAV-vehicle were 5.63×1012 genomic copies and 8.74×1012 genomic copies per ml respectively under the analysis of quantitative PCR (qPCR).
Drug and AAV vector administration
We separated 255 mice in a random manner into thirteen groups: Sham (n=25), Sham + AAV-vehicle (n=5), Sham+AAV-cPLA2 (n=5), SCI (n=45), SCI+DA (n=55), SCI+DA+CQ (n=10), SCI+AAV-vehicle (n=15), SCI+AAV-cPLA2 (n=15), SCI+DA+AAV-vehicle (n=15), SCI+DA+AAV-cPLA2 (n=15), SCI+Nal (n=15), SCI+DA+Nal (n=20), SCI+DA+Nal+CQ (n=5), SCI+CC (n=5), SCI+DA+CC (n=5). The DADLE was dissolved in phosphate bufer saline (PBS) and was injected intraperitoneally in DADLE group as previous study recorded (16mg/kg/day) [34]. The CQ was dissolved in DMSO and then diluted in coil oil at concentration of 1%, Comound C and Naltrindole hydrochloride were dissolved in PBS. Daily intraperitoneal injection of CQ (60 mg/kg), Naltrindole hydrochloride( 10 mg/kg) and compound C (1.5 mg/kg) was performed 30 min prior to DADLE administration for 3 days. The dose and time of Nal, CC and CQ administration were chosen according to previous studies on CNS trauma [34-36]. The mice were killed by overdosing them with pentobarbital sodium, and processed for western blot at 3 days after injury, and histological samples were acquired for corresponding experiments on days 3 and 28. The SCI + AAV-vehicle control, SCI+AAV-cPLA2, SCI+DA+AAV-vehicle control and SCI+DA+AAV-cPLA2 groups received a 100-µl intravenous injection of the viral vectors in PBS 14 days before SCI. After 14 days, the SCI+DA+AAV-vehicle control and SCI+DA + AAV-cPLA2 groups received the same treatment as the DA group, while SCI + AAV-vehicle control and SCI+AAV-cPLA2 groups only received operation. The animals were killed by overdosing them with pentobarbital sodium, and histological samples were acquired for corresponding experiments on days 3 and 28.
Functional behavioural assessment
BMS scores was utilized to evaluate motor function at 0, 1, 3, 7, 14, and 28 days after spinal cord injury in mice. The BMS score ranges from 0 to 9, with 0 representing complete motor paralysis in mice and 9 representing mice with normal motor function. Footprint analysis was also applied to evaluate motor function at 28 days after surgery. The hind limbs were stained in red and forelimbs in blue using different color dyes. The results were measured by two independent testers who were blinded to the experimental conditions.
Hematoxylin-Eosin Staining, Masson staining and Nissl Staining
On day 28 post-surgery, mice were re-anesthetized using 2% (w/v) pentobarbital sodium and perfused with PBS saline to prepare the spinal cord tissue. Subsequently, the spinal cord tissue containing the lesion (15 mm long, epicenter in the center) was dissected and fixed in 4% (w/v) paraformaldehyde for 48 h. Then, the samples were embedded in paraffin and respective longitudinal and cross sections were prepared. Longitudinal sections of 4 μm thickness were cut using a microtome in preparation for next step. The prepared tissue sections slides are degreased and dehydrated, followed by immersion in Masson staining solution. Subsequently, they are washed multiple times with distilled water, then dehydrated, and mounted on slides according to established protocols. For HE staining, the tissue sections are degreased and dehydrated, followed by immersion in hematoxylin dye, washing with distilled water, soaking in eosin dye, and washing with distilled water again. Finally, the slides are dehydrated and sealed. The crossed sections of spinal cord from mice at 28 days were incubated in 1 % cresyl violet acetate for Nissl staining. Finally, a light microscope (Olympus, Tokyo, Japan) was used to acquire images. Masson-stained lesion area (blue) was measured by using thresholding method in Image J software. Number of Nissl-stained ventral motor neuron was counted manually in a double-blind manner.
Western blot (WB) analysis
Mice were euthanized on day 3 under SCI, and the spinal cord parts containing lesion part from mice (1.5 cm; covering the injury epicentre) were isolated and stored at -80°C prior to WB. Then RIPA, PMSF and phosphatase inhibitors were added to the tissue in 1.5 ml griding tubes. Ten minutes later, the samples were placed in a homogenizer for the preparation of tissue homogenate. After the supernatant was absorbed, the supernatant was centrifuged for 5 minutes at 3000 rpm. Absorb the supernatant again process with ultrasound for 3 times. The supernatant was sent to the next centrifuge for 5 minutes at 12000 rpm. After centrifugation, the samples made from the supernatant are placed on ice for the next experiment. BCA assays were used for protein quantification. We performed 12% (w/v) gel electrophoresis to separate equal amounts of protein (60 μg); the samples were then transferred to polyvinylidene fluoride membranes (Roche Applied Science, Indianapolis, IN, the United States of America), which were blocked in 5% (w/v) skimmed milk and probed with the following antibodies overnight at 4°C: Beclin1 (1:1,000), SQSTM1/p62 (1:1,000) LC3B (1:1,000), VPS34 (1:1,000), CTSD (1:1,000), CTSB (1:1000), RIPK1 (1:1,000), RIPK3 (1:1,000), MLKL (1:1,000), c-caspase8 (1:1,000), cPLA2 (1:1000), p-cPLA2 (1:1000), p38 (1:1000), p-p38 (1:1000), p-AMPK (1:1,000), AMPK (1:1,000), Sirt1 (1:1000), GAPDH (1:1,000). The membranes were subsequently incubated with HRP-conjugated IgG secondary antibodies at an ambient temperature for 2 h. Using a ChemiDocTM XRS + Imaging System (Bio-Rad) based on an ECL immune-detection tool, band signals were visualized and investigated.
Immunofluorescence (IF) staining
On day 3 after SCI, spinal cord specimens from mice were dissected and collected for IF staining. We performed IF staining on the tissue side according to the rostral spinal cord (1 mm long, 4 mm from the epicentre) following a previous description. We deparaffinized, rehydrated, washed, and then treated the sections with 10.2 mM sodium citrate buffer for 20 min at 95°C. Subsequently, we permeabilized the sections with 0.1% (v/v) PBS-Triton X-100 (10 min). Next, we blocked the sections with 10% (v/v) bovine serum albumin in PBS (1 h). The slides were then incubated overnight at 4°C with antibodies against CTSD (1:200)/NeuN (1:400), LAMP 1 (1:100)/CTSB (1:400), LC3 (1:200)/NeuN (1:400), p62 (1:200)/NeuN (1:400), RIPK1 (1:200)/NeuN (1:400), RIPK3 (1:200)/NeuN (1:400) p-p38 (1:200)/NeuN (1:400) and MAP2 (1:200). Next, we washed the sections for 10 min at an ambient temperature 3 times and incubated them at an ambient temperature for 1 h with FITC-conjugated secondary antibody. Finally, we captured and evaluated images with a fluorescence microscope (Olympus, Tokyo, Japan) within six fields taken in a random manner in three random sections pertaining to the respective sample. The Immunofluorescence intensity of MAP2, p62, RIPK1, RIPK3, p-cPLA2 and p-p38 in each neuron was estimated by utilizing ImageJ software. IF images of LC3 puncta in each neuron were counting using Image J software. Number of diffused CTSD was estimated manually in a double-blind manner. Number of positive CTSB lysosome in each neuron was estimated manually in a double-blind manner.
Subcellular fractionation and preparation of lysosome protein extraction
4 mm Spinal cord tissue fragments obtained from mice were gathered and homogenized on ice using a Dounce tissue grinder. Purified lysosomal protein components obtained by differential centrifugation of spinal cord homogenate according to protocol of the manufacturer (Lysosomal Protein Extraction Kit; Solarbio Science & Technology). The resulting supernatant fractions were saved as cytosolic fractions. Isolated lysosome protein fractions and cytosolic fractions were stored at -80 °C for further research.
NAG activity assay
NAG was estimated with N-Acetyl-β-D-Glucosidase (NAG) activity assay kit following the manufacturer’s instructions. Fluorescence released from the synthetic substrate was measured using a fluorescent plate reader at absorbance of 450 nm for NAG activity. NAG activities in the lysosomal or cytosol fraction were evaluated as change in absorbance per ml of extracting solution.
Collection of targets of SCI and prediction of targets of DADLE
The disease targets of SCI were derived by searching the databases. With the key words including "spinal cord injury", targets related to SCI were founded in the the GeneCards. The target of DADLE was processed from a website (SwissTargetPrediction) using for compound target prediction by giving a canonical SMILE. And the canonical SMILE was download from pubchem. These target genes were took an intersection for subsequent KEGG analysis.
Kyoto encyclopedia of genes and genomes (KEGG) enrichment analyses
The database for annotation, visualization and integrated discovery (metascape, version 3.5.20230101) was used to carry out KEGG enrichment analysis on the intersection target genes. Metascape utilizes the well-adopted hypergeometric test and Benjamini-Hochberg p-value correction algorithm to identify all ontology terms that contain a statistically greater number of genes in common with an input list than expected by chance [37]. KEGG is a knowledge base for systematic analysis of gene functions and related pathway involving in.
Statistical analysis
We completed all statistical investigations using SPSS ver. 19 software (SPSS, Chicago, IL) and adopted a double-blind approach during the analysis process. Values are expressed as the mean ± standard error of the mean (SEM). To control for unwanted sources of variation, data normalization was performed in this study. Two-way ANOVA followed by Tukey’s multiple comparisons test were used to analyse diferences among three or four groups when the data were normally distributed, and nonparametric Mann–Whitney U tests were used for groups if the data were not normally distributed. We employed an independent-sample t-test to compare two independent groups. The p-values less than 0.05 indicated statistical significance.