All animal procedures were approved by the Institutional Animal Care and Use Committee (Protocol number: IACUC-2024-FK-007) and conducted in accordance with the Association for Research in Vision and Ophthalmology Statement for the Use of Animals in Ophthalmic and Vision Research. Male C57BL/6 mice, aged 8-10 weeks and weighing 20-25 g, were housed in individually ventilated cages under controlled environmental conditions of 22 ± 2 °C and 50%-60% relative humidity with a 12:12 h light-dark cycle. These specific pathogen-free animals were obtained from Charles River Laboratories (see Table of Materials). All mice underwent a 1 week acclimatization period to adapt to the new environment before experimental procedures, with unrestricted access to standard rodent chow and water.
CAUTION: Aspergillus fumigatus is a pathogenic organism requiring biosafety level 2 containment. All fungal cultures must be handled in a certified biological safety cabinet using appropriate personal protective equipment, including gloves, laboratory coats, and eye protection. Dimethyl sulfoxide (DMSO) is flammable and can penetrate skin; handle in well-ventilated areas and avoid direct contact. Ketamine and xylazine are controlled substances requiring secure storage and proper documentation per institutional regulations.
Experimental preparation
All required reagents, drugs, and materials were prepared according to the experimental workflow (see Table of Materials and Supplementary Figure 1 for schematic). Racemic (±)-α-Lipoic acid (LA) stock solutions were prepared using racemic α-lipoic acid (1,2-dithiolane-3-pentanoic acid) dissolved in DMSO to a concentration of 60 mM and stored in single-use aliquots at -80 °C to prevent oxidative degradation. The Nrf2 inhibitor ML385 and HO-1 inhibitor SnPPIX were similarly prepared and aliquoted for single-use to avoid freeze-thaw cycles. All cell culture media and supplements were prepared under sterile conditions and pre-warmed to 37 °C before use.
All materials contaminated with fungal cultures, including agar plates, culture tubes, and disposable plastics, were autoclaved at 121 °C for 30 min before disposal in biohazard waste containers. Chemical waste containing organic solvents was collected separately and disposed of through institutional environmental health and safety protocols. Animal tissues and carcasses were incinerated through approved biomedical waste services.
Fungal culture and infection preparation
Aspergillus fumigatus was cultured on Sabouraud dextrose agar at 37 °C for 5-7 days until mature conidial formation was observed. Conidia were harvested by flooding mature cultures with sterile phosphate-buffered saline (PBS) containing 0.05% Tween-80, and conidial suspensions were filtered through sterile gauze to remove hyphal fragments. Conidial concentration was determined using a hemocytometer and adjusted to established concentrations based on published fungal keratitis models. For in vitro experiments, 1 x 106 conidia/mL (multiplicity of infection of 10:1) was selected based on previous studies demonstrating that this concentration induces robust inflammatory responses in corneal epithelial cells while maintaining adequate cell viability for downstream analyses16,17. For in vivo studies, 1 x 107 conidia/mL was chosen as this inoculum produces consistent, moderate-severity keratitis with reproducible disease scores by day 5 post-infection, providing sufficient dynamic range to assess therapeutic efficacy without excessive mortality16,19.
Animal treatment and corneal infection
Under general anesthesia (intraperitoneal injection of ketamine 100 mg/kg and xylazine 10 mg/kg), fungal keratitis was induced by creating three 1 mm linear scratches on the central cornea using a sterile 25G needle, followed by topical application of 5 µL of A. fumigatus conidial suspension. Mice were randomly assigned to treatment groups (n=8 per group): control (uninfected), infected control, infected + LA treatment (60 µmol/L topically 4x times daily), and infected + LA + SnPPIX treatment (LA plus 5 mg/kg SnPPIX intraperitoneally daily). Clinical assessment and tissue collection were performed on day 5 post-infection.
Animal handling precautions: All procedures involving anesthetized animals should be performed under aseptic conditions. Monitor animals continuously during anesthesia for respiratory depression. Dispose of contaminated bedding, surgical waste, and infected tissues by autoclaving followed by incineration according to institutional biohazard waste management protocols.
Cell culture and treatment
Human corneal epithelial cells (HCECs) were obtained from ATCC and maintained in DMEM/F-12 medium supplemented with 10% fetal bovine serum, 1% penicillin-streptomycin, and 1% L-glutamine at equimolar concentrations at 37 °C in a humidified 5% CO₂ atmosphere. Cells were subcultured every 3-4 days upon reaching 80%-90% confluence and used between passages 3-8 to ensure consistency. For experimental treatments, cells were seeded at 5 x 10⁴ cells per well in appropriate plates and allowed to adhere for 24 h before treatment. For all in vitro mechanistic experiments, cells were first exposed to Aspergillus fumigatus conidia at a multiplicity of infection (MOI) of 10:1 for 4 h to establish infection, followed by the addition of LA (60 µM), ML385 (5 µM), or SnPPIX (1 µM) alone or in combination for an additional 24 h before sample collection. This sequential design allows assessment of LA's therapeutic effects on established fungal challenge rather than prophylactic treatment.
Cell viability assessment (CCK-8 analysis)
Cell viability was assessed using the Cell Counting Kit-8 (CCK-8). Cells were seeded in 96-well plates at 5 x 104 cells per well and incubated for 24 h before treatment. Following drug exposure, 10 µL of CCK-8 solution was added to each well, and plates were incubated for 2 h at 37 °C. Absorbance was measured at 450 nm using a Multi-Mode Microplate Reader. Each experimental condition was performed in octuplicate, and experiments were repeated three times independently. Vehicle control (DMSO) concentration was maintained below 0.1% to avoid cytotoxic effects.
RNA extraction and quantitative real-time PCR
Total RNA was isolated from cultured cells and corneal tissues using the RNeasy Mini Kit according to the manufacturer's protocol. Tissue samples were homogenized in RLT buffer using a tissue homogenizer for 2 min at 50 Hz. RNA quality and concentration were assessed using a spectrophotometer, with samples having 260/280 ratios of 1.8-2.0 used for downstream analysis. First-strand cDNA synthesis was performed using the High-Capacity cDNA Reverse Transcription Kit with 1 µg total RNA per reaction. Quantitative PCR was conducted using SYBR Green-based qPCR master mix on a real-time PCR system with initial denaturation at 95 °C for 2 min, followed by 40 cycles of 95 °C for 15 s and 60 °C for 1 min. Melting curve analysis was performed to verify amplicon specificity. All primers were validated for efficiency (90%-110%) and specificity prior to use. Relative mRNA expression was calculated using the 2(-ΔΔCT) method with GAPDH as the reference gene.
Protein extraction and Western blot analysis
For total protein extraction, cells and tissues were lysed in RIPA buffer supplemented with protease and phosphatase inhibitor cocktails. Nuclear and cytoplasmic protein fractions were prepared using the NE-PER Nuclear and Cytoplasmic Extraction Reagents according to the manufacturer's protocol. Protein concentrations were determined using the Bradford assay. Equal amounts of protein (30-50 µg) were separated by SDS-PAGE and transferred to PVDF membranes. After blocking with 5% non-fat milk in Tris-buffered saline containing 0.1% Tween-20 for 1 h, membranes were incubated with primary antibodies overnight at 4 °C, followed by appropriate HRP-conjugated secondary antibodies for 1 h at room temperature. Protein bands were visualized using enhanced chemiluminescence reagent with exposure times of 30-180 s depending on signal intensity. Bands were quantified using ImageJ software, with β-actin serving as the loading control for total proteins and lamin B1 for nuclear proteins.
Clinical assessment and histological analysis
Corneal disease severity was evaluated using a standardized clinical scoring system based on established protocols for murine fungal keratitis22. The scoring system assesses three parameters on a 0-4 scale: corneal opacity (0 = clear, 4 = completely opaque), surface irregularity (0 = smooth, 4 = severe ulceration with perforation), and inflammatory response (0 = no infiltrate, 4 = dense infiltration with hypopyon), yielding total scores from 0 to 12. All clinical assessments were performed by two independent observers who were masked to treatment group assignments, with inter-observer agreement exceeding 90%. Corneal photographs were captured using a slit-lamp biomicroscope equipped with a digital camera. For histological analysis, eyes were enucleated, fixed in 4% paraformaldehyde, paraffin-embedded, and sectioned at 5 µm thickness. Sections were stained with hematoxylin and eosin for general morphology assessment.
Enzyme-linked immunosorbent assay (ELISA)
Secreted levels of IL-1β and TNF-α in cell culture supernatants and corneal tissue homogenates were quantified using commercial ELISA kits according to the manufacturer's instructions. Cell culture supernatants were collected after 24 h of treatment, while corneal tissues were homogenized in PBS containing protease inhibitors. Samples were centrifuged at 12,000 x g for 10 min at 4 °C, and supernatants were used for ELISA analysis. All samples were analyzed in duplicate, and cytokine concentrations were calculated from standard curves.
Statistical analysis
All experiments were performed with appropriate biological replicates (n ≥6 for in vitro studies, n =8 for animal studies) and repeated at least 3x independently. Data are presented as mean ± standard error of the mean (SEM). Data analysis was performed using GraphPad Prism version 9.0. Specifically, we used the normality test function (Shapiro-Wilk) to assess data distribution, one-way ANOVA with Tukey's multiple comparisons test for experiments with more than two groups, and unpaired Student's t-test for two-group comparisons. Graphs were generated as grouped bar charts with individual data points overlaid as scatter plots, with error bars representing the standard error of the mean.