Experimental ALI animal models
Male C57BL/6 mice (8–9 weeks old) were purchased from the Shanghai Model Organisms Center (Shanghai, China) and randomly assigned to the groups. In the laboratory, the mice were kept in a ventilated cage on a 12 h/12 h light–dark cycle at 25 °C with a humidity of 45–55%. The mice had free access to food and water. ALI/ARDS was induced in mice by intratracheal injection of LPS (10 mg/kg, Escherichia coli 0111:B4, Sigma-Aldrich Co., St. Louis, MO, USA). Male mice were anaesthetized by intraperitoneal (i.p.) injection with 1% pentobarbital sodium solution (50 mg/kg, Biyuntian Institute of Biotechnology, Haimen, China). The thoraxes of mice were subjected to a vertical 0-degree single-field irradiation of chest X-ray.
To obtain the best modelling, the mice were euthanized at 0, 2, 6, 12, 24, and 48 h after LPS treatment. To explore the effect of autophagy inhibition, mice were treated with 3-MA (35 mg/kg, Sigma-Aldrich Co., St. Louis, MO, USA, i.p.) for 8 h before LPS treatment. To explore whether autophagy occurs in a RAGE-dependent pathway, Ager gene knockout mice (Ager−/− mice) and C57BL/6 mice were treated with or without LPS for 24 h before euthanization. The Ager gene in mice is equivalent to the RAGE gene in humans. The Ager−/− knockout mice were purchased from Cyagen Biosciences Inc. Knockout of the Ager gene was validated by genotyping. The following polymerase chain reaction (PCR) primer pairs were used for genotyping: Primers1: (Annealing Temperature 60.0 °C), F1: 5’-GAGGTCTCCATTCTTTCTCCAGGTG-3’, R1: 5’-GTGCACACATCTGCAGAGCCAAC-3’. Primers2: (Annealing Temperature 60.0 °C), F1: 5’-GAGGTCTCCATTCTTTCTCCAGGTG-3’, R2: 5’-CTGGGATTGACTCTTGCCTCCCTC-3’. Wildtype allele had two bands with 414 bp and 717 bp, homozygotes had a PCR length of about 520 bp, and heterozygotes had three bands with 520 bp, 414 bp and 717 bp. Serum, lung tissues and bronchoalveolar lavage fluid (BALF) were collected. The lung was lavaged three times in 250 µL phosphate-buffered saline (PBS) and retrieved. The collected supernatants were stored at − 80 °C for further analysis and all experiments were repeated more than three times.
Cell culture and treatments
Human ATII cells, namely, A549 cells were obtained from the Chinese Academy of Science. Primary human ATII cells were purchased from iCell Bioscience, Inc. (Shanghai). Cells were seeded into 6-well plates and cultured in Dulbecco’s-modified Eagle’s medium (for A549 cells) or epithelial cell complete medium (for primary ATII cells) supplemented with 10% fetal bovine serum, 100 U/mL penicillin and 100 μg/mL streptomycin at 37 °C in a humidified atmosphere containing 5% CO2. Cells were grown until 70% confluence before drug treatments were performed. Cells were treated with LPS (10 μg/mL) for 0, 12, 24, and 36 h and LPS (0, 1, 10, 100 μg/mL) for 24 h. The cell samples were harvested at the appointed time after the addition of LPS to further analysis. 3-MA was used at a dose of 5 mM for 12 h before LPS treatment (10 μg/mL). RAGE small interfering RNA (siRAGE) transfection was incubated for 48 h before LPS treatment (10 μg/mL). All transfection kits and reagents were purchased from Guangzhou Ribo Biology Co., Ltd (China). In the Additional files 1, 2, to address the roles of sRAGE, we pretreated A549 cells with or without the recombinant human protein which lacking signal peptide (C423, 25 μg/mL, novoprotein Technology CO., LTD, Suzhou, China) before LPS stimulation.
Cell counting Kit-8 (CCK-8) assay
CCK-8 assay (Biyuntian Institute of Biotechnology, Haimen, China) was performed to determine cell viability. Cells were seeded into 96-well plates (1 × 106 cells/well) and cultivated at 37 °C under 5% CO2 atmosphere. The cell suspension was mixed with 10 μL CCK-8 solution for 1 h and the optical density of each well was assessed at 450 nm using a microplate reader (Thermo Fisher Scientific, MA, USA).
Enzyme-linked immunosorbent assay (ELISA)
The sRAGE concentration in BALF was determined by double antibody sandwich ELISA (MultiScience LIANKE Biotech, CO., LTD, Hangzhou, China). IL-8 and IL-6 levels in BALF were determined with commercially available ELISA kits (MultiScience LIANKE Biotech, CO., LTD, Hangzhou, China) according to the manufacturer’s instructions. The optical density at 450 nm was measured using a microplate reader (Thermo Fisher Scientific, MA, USA).
Histological analysis
The right lungs of mice were collected and fixed in 4% paraformaldehyde buffer overnight at room temperature, then dehydrated and embedded in paraffin, sectioned into 4-µm slices and stained with hematoxylin and eosin (HE). The samples were photographed under a light microscope (LEICA, Leica Microsystems, Wetzlar, Germany), with at least three images acquired for each sample.
Immunohistochemical analysis
Paraffin-embedded tissue sections were used for immunohistochemical staining. The sections were deparaffinized with 100% xylene and rehydrated in graded ethanol series, followed by antigen retrieval using citrate buffer (pH = 6) for 20 min. The rabbit polyclonal anti‐RAGE antibody (1:100; cat. no. ab37647; Abcam, Cambridge, Mass) was used for staining slides at 4 °C overnight. After washing, poly horseradish peroxidase (HRP) anti‐rabbit secondary antibody (1: 5000; cat. no. A24531, Thermo Fisher Scientific Inc. USA) was added and incubated at room temperature for 20 min. Diaminobenzidine was used as chromogen.
Immunofluorescence staining
The paraffin sections of mouse lungs, A549 cells and primary ATII cells were used for immunofluorescence staining. The sections were incubated with rabbit anti-cleaved caspase 3 antibodies (1:1000, cat. no. #9664; Cell Signaling Technology, MA, USA), anti-RAGE (1:1000, ab37647; Abcam, Cambridge, Mass.), and rabbit IgG isotype (1:1000, ab199093; Abcam, Cambridge, Mass.) at 4 °C overnight, followed by incubation with fluorescently labelled secondary antibodies (1:100, Invitrogen, Carlsbad, CA). Images were acquired using a panoramic confocal camera (3DHistech, Budapest, Hungary).
For immunofluorescence double staining, the mouse lung sections prepared as above were exposed to anti-RAGE (1:1000, ab37647, Abcam, Cambridge, Mass.) overnight at 4℃. After washing with PBS three times, the slides were incubated with fluorescently labelled secondary antibodies at room temperature in the dark for 50 min, followed by incubation with CY3-TSA at room temperature in the dark for 10 min and washing with PBS three times. Subsequently, microwave treatment was performed on the sections to remove the primary and secondary antibodies. The sections were then exposed to anti-proSP-C (1:25, AP12333A, Abcepta, Beijing, China) or anti-HOPX (1:500, 11419-1-AP, Proteintech, Wuhan, China) and processed as described above, except that they were incubated with FITC-TSA. DAPI was used for staining for 5 min and the sections were blocked by antifluorescence quenching sealing liquid. The expression and coexpression of RAGE and proSP-C or HOPX were examined under a microscope (Nikon Eclipse C1, Nikon Instruments Inc., Melville, NY), photographed using a Nikon DS-U3 camera, and then evaluated by two pathologists. RAGE protein exhibited red fluorescence (labelled with CY3) while proSP-C or HOPX protein exhibited green fluorescence (labelled with FITC). The cell nucleus exhibited blue fluorescence (stained with DAPI). In addition, terminal deoxynucleotidyl transferase dUTP nick-end labelling (TUNEL) assay was performed to detect apoptosis (Roche, Mannheim, Germany) according to the manufacturer’s protocol.
Transmission electron microscopy
Fresh lungs were separated and cut into 1-mm cubes immediately, which were then fixed by immersion in 2.5% glutaraldehyde buffer for 24 h, followed by washing thrice with PBS (15 min each time). The samples were then fixed in 1% osmium tetroxide for 2 h, dehydrated in fractionated ethanol solution (50%, 70%, 80%, 90%, 95%, 100%, and 100%), and embedded in epoxy resin. Ultrathin sections (60–80 nm) double-stained with a saturated aqueous solution of 2% uranyl acetate and lead citrate were examined under a transmission electron microscope (TECNAI G2 F20, Fei, USA) and images were acquired.
Western blotting analysis
Western blotting was performed as previously described [22]. Anti-RAGE (1:1000, #6996S; Cell Signaling Technology, Inc., MA, USA), anti-STAT3 (1:1000, #12640; Cell Signaling Technology, Inc., MA, USA), anti-phosphorylated STAT3 (1:2000, #9145; Cell Signaling Technology, Inc., MA, USA), anti-cleaved caspase 3 (1:1000, #9664; Cell Signaling Technology, Inc., MA, USA), anti-LC3II/I (1:1000, #4108; Cell Signaling Technology, Inc., MA, USA), anti-Beclin1 (1:1000, #3495; Cell Signaling Technology, Inc., MA, USA) and anti-GADPH (1:1000, #2118; Cell Signaling Technology, Inc., MA, USA) were used as primary antibodies. The membranes were incubated with primary antibodies at 4℃ overnight, followed by incubation with HRP‐conjugated secondary antirabbit antibody (1:50,000; cat. no. BM2006; BOSTER Biological Technology Co., Ltd., Wuhan, Hubei, China) at 37 °C for 1 h after washing. Anti-GADPH was used as an endogenous control for other proteins. Images were obtained using a chemiluminescent western blot scanner.
Statistical analysis
Differences in data were compared using one‐way analysis of variance. Data were analyzed using the GraphPad Prism 11 software (GraphPad Software, Inc., La Jolla, CA) or SPSS 23.0 (IBM SPSS, Armonk, NY). A P value of < 0.05 was considered statistically significant.