2.1 Reagents
2.1.1 Preparation of Animals
The study utilized 6-week-old NOD immunodeficient mice, with prostate antigens extracted from adult male Sprague-Dawley rats for the experimental model. The rats were sourced from Nanjing JiCui YaoKang, and all animals were kept at the Animal Experimental Center of Anhui Medical University. They had access to water and food ad libitum and were maintained on a 12-hour light-dark cycle. The animal experimental protocols received approval from the Animal Care and Use Committee of Anhui Medical University and adhered to Chinese guidelines for laboratory animal welfare and ethics, along with the NIH Guide for the Care and Use of Laboratory Animals.
2.1.2 Establishment of the EAP Mice Models
A prostatitis model was established in NOD mice using a secondary immunization method. The mice were acclimatized for five days before the experiment, which lasted 28 days. On days 0 and 28, the mice received subcutaneous injections of prostate antigens from SD rats at six sites, including the armpits, groin, and lower back. The antigens were processed by pulverizing the prostates and combining them with complete Freund's adjuvant.
For the IRF7 gene knockdown, adenovirus-associated vectors were administered via the tail vein at a volume of 100 µl per mouse, with a control group receiving Sh-NC-AAV at the same dosage. Prostate modeling was initiated 14 days after the knockdown. Drug administration commenced two days before the second modeling phase, using Dimethyloxalylglycine (DMOG) (an HIF-1α activator from Glpbio), administered intraperitoneally at 25 mg/kg daily.
The mice were euthanized on day 42 of the modeling phase, and pelvic stimulation responses were evaluated one day earlier. A positive pain response was identified by any of the following behaviors: (a) severe abdominal contractions, (b) immediate scratching or licking of the stimulated area, or (c) jumping.
2.2 Cell Treatment
Immortalized bone marrow-derived macrophages (iBMDM) cells were cultured in high-glucose DMEM supplemented with 10% fetal bovine serum and 1% penicillin-streptomycin. The cells were kept at 37°C in a humidified incubator with an atmosphere of 95% oxygen and 5% carbon dioxide. M1 phenotype polarization of macrophages was induced using 100 ng/ml LPS (sourced from MCE) for 24 hours. IRF7 knockdown was performed using a lentiviral vector, with successfully modified cells being selected using puromycin.
2.3 Immunofluorescence
The procedure began with de-paraffinization of the embedded tissue samples, followed by antigen retrieval and a blocking step. Primary antibodies, such as INOS, IRF7, HIF-1α, F480, and α-SMA, were applied and incubated overnight at 4°C. This was followed by a two-hour incubation with secondary antibodies at room temperature. 4',6-diamidino-2-phenylindole (DAPI) staining was performed for 10 minutes in a dark environment at room temperature to highlight nuclei. The slides were then sealed with an anti-fluorescence quenching agent and analyzed using a fluorescence microscope.
2.4 Hematoxylin-Eosin (HE) Staining
For H&E staining, tissue sections were first deparaffinized until clear, followed by staining with hematoxylin to accentuate cell nuclei and eosin to emphasize cytoplasm. After staining, the samples were dehydrated, cleared, and then mounted on slides. These prepared slides were examined under a light microscope to assess tissue structure and identify any changes in cell morphology.
2.5 Sirius Red staining
First, tissue sections on glass slides were dewaxed and rehydrated. These sections were then immersed in a Sirius Red staining solution for one hour before being rinsed with distilled water. They underwent differentiation in a 0.5% acetic acid solution, followed by dehydration using ethanol, and clearance in xylene. A mounting medium was then applied to the slides, and coverslips were positioned on top. The final step involved examining the collagen fibers, which had been stained with Sirius Red, under a light microscope to assess their structure.
2.6 Masson Staining
Tissue sections were subjected to deparaffinization and dehydration, followed by staining with Weigert's iron hematoxylin, Biebrich scarlet-acid fuchsin, phosphotungstic/phosphomolybdic acid, and aniline blue solutions. Differentiation was achieved using acetic acid, followed by additional dehydration and mounting with an appropriate medium. The stained sections were then examined under a light microscope to assess the distribution and structure of collagen, muscle fibers, and other tissues.
Flow 2.7 Cytometry Analysis
The prepared cell samples were collected into flow tubes and washed three times with PBS. Extracellular antibodies CD11b, MHC II, and F4/80 were then added, and the samples were incubated at room temperature for one hour. After the incubation, the samples were washed three more times with PBS and subsequently analyzed using flow cytometer.
2.8 Western Blotting
The protein extraction process involved collecting cell or tissue samples and disrupting the membranes with lysis buffer, followed by centrifugation to obtain the supernatant containing the proteins. The protein concentration was measured, and samples were stored. For nuclear protein extraction, nuclear lysis buffer was used to disrupt membranes and separate cytoplasmic proteins, followed by centrifugation to collect the nuclear protein supernatant. In the Western blotting process, proteins were separated by sodium dodecyl sulfate polyacrylamide gel electrophoresis (SDS-PAGE), transferred to a membrane, and blocked. The membrane was then incubated with primary and secondary antibodies. Detection was achieved through chemiluminescence or staining to visualize the target proteins.
2.9 RNA Extraction
The RNA extraction procedure involved collecting samples, disrupting the membranes, and adding stabilizing agents. Extraction was then performed using either phenol-chloroform or column methods. RNA was precipitated with ethanol or isopropanol, followed by washing to remove impurities. Finally, the RNA was resuspended in RNase-free water for subsequent experiments.
2.10 RT-qPCR
Utilizing TAKARA's qPCR kit for quantitative PCR experiments involved initially preparing essential materials, including the Master Mix, primers, probes, and cDNA template. The PCR mix was then meticulously configured and dispensed into the PCR plate. It was subsequently subjected to the PCR program within a real-time fluorescence quantitative PCR instrument.
2.11 Seahorse XF Assays
The basic steps of the Seahorse experiment involved seeding cells onto Seahorse assay plates for attachment, followed by calibrating the Seahorse instrument with calibration buffer. The cellular oxygen consumption rate (OCR) and extracellular acidification rate (ECAR) were measured. Cells were then treated with compounds to analyze their effects on cellular bioenergetics. Finally, OCR and ECAR data were collected and analyzed to understand the metabolic characteristics of the cells.
2.12 Lactate and Nitric Oxide (NO) Detection
The experiment employed BioVision assay kits, following the manufacturer's protocols. The cells were cultured in a 96-well plate, and lactate or nitric oxide (NO) detection reagents were added to both standards and test samples. After the reactions, absorbance was measured with an enzyme-linked immunosorbent assay (ELISA) reader to determine lactate or NO concentrations from established standard curves. Sample concentrations were also evaluated using a Bicinchoninic Acid (BCA) assay kit.
2.13 ROS and 2-(N-(7-Nitrobenz-2-oxa-1,3-diazol-4-yl)Amino)-2-Deoxyglucose (2-NBDG) Detection
The test samples were thoroughly mixed with an ROS probe or 2-NBDG and then incubated at 37°C for 30 minutes in a water bath. Afterwards, the samples were transferred to flow cytometry tubes, washed three times with PBS, and analyzed using a flow cytometer to assess the intensity of ROS generation and intracellular glucose uptake.
2.14 Chromatin Immunoprecipitation (ChIP) Assay
ChIP assay was used to study protein-DNA interactions and involved several key steps. Initially, cells were treated to crosslink proteins to DNA, preserving their interactions. Following this, the cells were lysed to release the chromatin. Specific antibodies were then employed to immunoprecipitate the target protein along with its associated DNA fragments. The resulting complexes were washed to eliminate nonspecific binding materials. After purification, the crosslinks between DNA and proteins were reversed, allowing for the separation of DNA from proteins. Finally, the purified DNA was extracted for further analysis, such as PCR or sequencing. ChIP provided valuable insights into the roles of protein-DNA interactions in gene regulation.
2.15 Dual-luciferase Reporter Assay
The dual-luciferase reporter assay uses firefly and Renilla luciferase as reporter genes to study gene expression. The experimental construct was co-transfected into cells, which were then lysed, and luciferase activity was measured using specific substrates. Firefly luciferase reported on the activity of the experimental promoter, while Renilla luciferase served as a control. By normalizing firefly luciferase activity to Renilla luciferase, researchers were able to accurately quantify promoter activity.