Materials
Chemical reagents were mainly purchased from WAKO chemicals (Osaka, Japan) and Nacalai Tesque (Kyoto, Japan). Primary and fluorescein-conjugated secondary antibodies were listed in Suppl. Table S1. Polyclonal anti-TG2 antibody was produced in our laboratory27. HRP-conjugated secondary antibodies were obtained from Jackson ImmunoResearch Laboratories (West Grove, PA, USA). Cystamine was obtained from Sigma-Aldrich (St. Louis, USA). Z-DON and Boc-DON were obtained from Zedira (Darmstadt, Germany). PD146176 and 15S-hydroxy-5Z,8Z,11Z,13E-eicosatetraenoic acid, 15(S)-HETE, were purchased from Cayman Chemical (Ann Arbor, MI, USA).
Ethics statement
Animal experiments were conducted at Nagoya University, complying with the national guidelines for the care and use of laboratory animal. All animal experiments were approved by the animal care and use committee of Nagoya University (No. P220002). All animal experiments were performed under anesthesia and all efforts were made to minimize suffering.
Animal experiments
C57BL/6J mice (8–12 weeks) were purchased from Japan SLC Inc (Shizuoka, Japan) and group-housed with food and water available ad libitum. TG2 knockout and enhanced GFP-transgenic mice was kindly provided by Dr. Robert M. Graham (Victor Chang Cardiac Research Institute, Australia) and Dr. Masaru Okabe (Osaka University, Osaka, Japan), respectively.
Unilateral ureteral obstruction (UUO)
The unilateral ureteral obstruction (UUO) was performed according to the method described by Shweke et al.26. Briefly, under the anesthesia with 2% isoflurane, the left ureter was ligated at two separated points. Sham-operated mice had their ureter exposed but not ligated. Mice after UUO surgery were perfused with PBS to remove the blood in kidney, and pieces of the kidney were either fixed in 4% paraformaldehyde for histological examination. Cystamine was orally administrated at 1.86 mg/kg/day two days before UUO surgery.
Histological analysis
Cryosections from the kidney (5 µm) were fixed with 4% paraformaldehyde and reacted with anti-TG2, F4/80, ALOX15 antibodies. The specific signal was detected by the fluorescent-dye conjugated secondary antibody. As a negative control, the primary antibody was replaced with the same amount of non-immune IgG (NI-IgG) from rabbit or rat (Sigma-Aldrich). Collagen fibers were detected using picrosirius red (Wako chemicals). Briefly, kidney sections (10 µm) were fixed with picric acid saturated solution added of formalin and acetic acid for 15 min and then stained with 0.05% sirius red reagent. In the sections from each animal, more than 5 randomly selected microscopic fields were captured by a Keyence BZ-9000 microscope. All images were quantitatively estimated for collagen fibers in picrosirius red staining within the respective kidney area according to the tutorial about “quantifying stained tissue” in image analyzer (Image J software, National Institute of Health, Bethesda, MD, USA). Each red color image was split as grayscale images and thresholded optimally. The positive areas above threshold level were measured and an average of at least 3 field from four replicates in each sample group was determined.
Flow cytometric analysis
Kidneys were cut and digested in Hanks’ buffered saline solution (HBSS) containing 1 mg/ml collagenase (Wako) and 50 µg/ml DNase I (Roche). After filtering through a 70 µm mesh, cells were washed and incubated with the antibodies listed in Suppl. Table S1, analyzed using Attune Acoustic Focusing Cytometer and Attune Cytometric Software v2.1.0.8626 (Life technologies).
Quantitative real-time PCR
Total RNA was extracted from cultured cells using the Sepasol-RNA Super Reagent (Nacalai Tesque). Corresponding cDNA were prepared using ReverTra Ace qPCR RT Master Mix with gDNA Remover kit (TOYOBO, Osaka, Japan) and Real-time PCR analysis was performed using THUNDERBIRD SYBR qPCR Mix (TOYOBO) in a LightCycler 96 (Roche Diagnostics, Mannheim, Germany). Used specific primer pairs were summarized in Suppl. Table S2.
Western blotting analysis
The cell lysates were homogenized in lysis buffer containing 50 mM Tris-HCl (pH 8.0), 150 mM NaCl, 5 mM EDTA, 1% NP-40, 1 mM NaF, phosphatase inhibitor, and protease inhibitor cocktail (Merck Millipore). After centrifugation, supernatants were collected, and their protein concentrations were measured by Bradford assay (Bio-rad). Then, these samples were mixed with SDS-containing buffer, boiled, subjected to sodium dodecyl sulfate-polyacrylamide gel electrophoresis (SDS-PAGE), and transferred to polyvinylidene difluoride membrane (Merck Millipore). After blocking with PBS containing 5% skim milk or BSA, the membrane was reacted with primary antibody listed in Suppl. Table S1, and the specific signal was detected by the peroxidase-conjugated secondary antibody and chemiluminescence reagent (Thermo Scientific, IL, USA). Each experiment was conducted in triplicate.
Bone marrow transplantation experiments
Bone marrow transplantation experiments were performed as reported28. In brief, bone marrow cells obtained from donor mice were washed three times with cold PBS and injected intravenously (3×106 cells) into 8.5 Gy-irradiated 8-wk-old male recipient mice. After 4 weeks, the substitution rate of bone marrow cells was determined by counting EGFP-positive cells in the peripheral blood, and then the mice were subjected to UUO experiments. WT and TG2KO mice were also transplanted with each bone marrow from WT and TG2KO mice, and then subjected to UUO experiments.
Macrophage cell culture
Bone marrow-derived macrophages (BMDMs) were prepared according to the method reported previously29. Briefly, bone marrow cells were isolated from femur and tibia of 6–10 weeks male mice and differentiated for 6 days in RPMI medium containing 10% FBS and conditioned medium from L929 fibroblasts. M2 macrophage polarization was induced by 20 ng/ml murine recombinant IL-4 (PeproTech, Rocky Hill, NJ, USA) in 5% FBS containing RPMI medium after serum starvation. Human monocytic leukemia cell line (THP-1) was differentiated into macrophages by incubation with 150 nM phorbol 12-myristate-13-acetate (PMA; AdipoGen Life Sciences) for 24 h. M2 macrophage polarization was induced by 20 ng/ml recombinant human IL-4 (PeproTech) in 5% FBS containing RPMI after starvation. For TG2 knockdown, targeting siRNA (sense 5’-cccugaucguugggcugaatt-3’ and antisense 5’-uucagcccaacgaucagggtt-3’) and MISSON siRNA universal negative control #1 (SIC-001) purchased from Sigma-Aldrich were used previously30.
RNA sequence analysis
Total RNA from THP-1 cells was lysed extracted using tissue total RNA mini kit according to manufacturer’s instructions. After the QC procedures, total RNAs were deposited to transcriptome analysis (Filgen biosciences and nanoscience, Nagoya Japan). Briefly, mRNA is enriched using oligo(dT) beads and rRNA is removed. First, the mRNA is fragmented randomly by adding fragmentation buffer, then the cDNA is synthesized by using mRNA template and random hexamers primer, after which a custom second-strand synthesis buffer (Illumina), dNTPs, RNase H and DNA polymerase I are added to initiate the second-strand synthesis. Second, after a series of terminal repair, a ligation and sequencing adaptor ligation, the double-stranded cDNA library is completed through size selection and PCR enrichment. Sequences were performed on NovaSeq6000 (Illumina), (6GB/PE150). Raw reads were aligned to the human genome (hg38) using the RNA-Seq Alignment App on Basespace (Illumina, CA).
Perseus software (version 1.6.14.0) was used to determine the genes differentially and significantly identified in four sample groups treated with vehicle, IL-4, Z-DON, and IL-4 plus Z-DON. A total of 38,552 genes with more than 50 of read counts detected between groups (n = 3) were analyzed. Differential gene expressions (DGEs) were determined using the threshold (FDR < 0.01). The gene list of both 2-fold filtered significant DGEs between vehicle- vs IL-4-treated samples and 1.5-fold filtered significant DGEs between IL-4 vs IL-4 plus Z-DON-treated samples were selected (90 genes). Among them, 55 and 35 genes were identified that increase and decrease in a TG2-dependent manner, respectively. The heat maps and hierarchical clustering were generated using Morpheus (https://clue.io/morpheus)
Statistical analyses.
Quantitative data are expressed as the means plus the standard deviation of three replicates from at least three independent experiments. The statistical significance of differences was assessed using Student’s t-test and the values of P < 0.05 were considered to indicate statistical significance. The one-way ANOVA with post hoc Tukey’s multiple comparisons test was performed with EZR (Saitama Medical Center, Jichi Medical University, Saitama, Japan), which is a graphical user interface for R (The R Foundation for Statistical Computing, Vienna, Austria)31.