Animals models
As in previous animal-based studies, all protocols were performed according to the guidelines of the German Institute of Health Guide for the Care and Use of Laboratory Animals and approved by the Institutional Animal Care and Use Committee of the University of Göttingen. For all experiments, we employed male C57/Bl6N mice (8–12 weeks old). Mice were bred in the local animal facility of the Göttingen University Hospital. Animals were separately caged with a 12:12-h light-dark cycle and had free access to water and chow throughout the study.
Surgical procedures
Anaesthesia was performed with a solution of 300 μl 6 mg/100 g ketamine hydrochloride plus 0.77 mg/100 of xylazine hydrochloride, applied intraperitoneally. Mice were placed on a heated surgical pad during the whole procedure. Rectal temperature was permanently maintained at 37°C. The abdominal cavity was opened by a 1.5-cm midlaparotomy. Both kidneys were exposed and clamping of the renal pedicles was performed with microserrefines (Fine Science Tools, Forster City, USA) for 40 minutes, respectively. The clamps were released and a constant volume of MV or SECR containing buffer / medium (Isolation of cell-derived microvesicles (MV) and secretome (SECR) from native and preconditioned PACs) was injected into the tail vein and thus, into the systemic circulation. The abdominal incision was closed with a 4–0 suture and surgical staples. In each experimental group 10 animals were analyzed. Animals were sacrificed 48 hours later. Euthanization was performed by injecting the threefold dose of anaethesia, followed by dissecting the diaphragm.
Isolation of cell-derived microvesicles (MV) and secretome (SECR) from native and preconditioned PACs
Both components, PAC-derived microvesicles (MV) and the secretome (SECR) were isolated from syngeneic murine PACs. The cells were isolated and expanded as described previously in detail [14]. However, we will briefly describe the procedure again. Mouse mononuclear cells (MNCs) were enriched by density gradient centrifugation using Biocoll solution (Biochrom, Berlin, Germany) from peripheral blood and spleen cell extracts. The reason for collecting cells from the two compartments was the intention to maximize the total number of cells available for injection. Mononuclear cells were mixed and, differing to previous protocols in which 4×106 cells were used [14], 25×106 cells were plated on 6-well culture dishes coated with human fibronectin (Sigma, St Louis, MO) and maintained in endothelial cell medium–2 (EGM–2 - Clonetics, Lonza, Walkersville, MD, USA) supplemented with endothelial growth medium (EGM) Single-Quots containing 5% FCS. Four to 5 days later, cultured PACs were identified by the uptake of DiI-labeled acetylated low density lipoprotein (acLDL) (Invitrogen, Carlsbad, CA, USA) and simultaneous binding of FITC-labeled BS–1 lectin (BS–1) (Sigma Diagnostics, St. Louis, MO). SECR: at the day of surgery (5–6 days after initial cell seeding), PACs were incubated with one of the following substances: Angiopoietin–1 (250 ng/mL); Angiopoietin–2 (250 ng/mL); Bone Morphogenetic Protein–5 (BMP–5—100 ng/mL); melatonin (5 µMol/L). Incubations were performed for 1 hour at 37°C, the mediators were applied in fresh EGM–2, respectively. Supernatants were collected and filtered (pore size 0.8 µm). Filtrates were subsequently centrifuged for 6 minutes at 13,000 rpm auf (Vivaspin 500 100,000 MWCO - Satorius VS0142). For SECR injection experiments, every mouse received 100 µL per tail vein injection. MV: after supernatant filtration (pore size 0.8 µm), cell-derived microvesicles were collected using the ExoEasy Kit (Qiagen 76064) according to the manufacturer´s protocol. Finally, a total volume of MV-containing eluate was applied in an individual mouse per tail vein injection.
Histology and immunoflurescence staining of tissue sections
The following methodical approaches were used for the quantification of fibrosis (masson trichrome) and of endothelial alpha-Smooth Muscle Actin (aSMA) or alpha-Tubulin (aT) expression. All analyses were performed using ImageJ software. Fibrosis: the cortical area of every kidney was documented, areas not being covered by tissue were not considered. The total area of analysis was quantified by the total number of pixels. All pixels within a particular colour range (here: green) were quantified and related to the total pixel number of interest. Results were given as percent of the total number of image pixels. Co-localization analysis (CD31 in combination with aSMA or aT): in every kidney section, at least three different small blood vessels were evaluated in an individual manner. The endothelial surface was quantified by counting the total number of red pixels (CD31). Yellow areas were also quantified, according to a defined color range. The colour yellow reflected the respective marker of interest in endothelial cells, the absolute number of yellow pixels was related to the absolute number of red pixels, respectively (results in percent). Kidney fibrosis was examined in formalin fixated, paraffin-embedded tissue sections after masson trichrome staining. Endothelial expression of aSMA and aT were also analyzed in formalin fixated, paraffin-embedded tissue sections after deparaffinization, followed by incubation in 3% H2O2 for 10 minutes. After citrate-buffer treatment (microwave, 5 times 3 minutes, pH 6.0) sections were stained with rat anti-mouse CD31 (PECAM–1 - CloneSZ31, Dianova), and rabbit anti- Smooth Muscle Actin (EMELCA) or mouse anti-alpha Tubulin (abcam - ab24610) for primary incubation and with Alexa Fluor 488 goat anti-rabbit IgG (Dianova) and Alexa Fluor 594 goat anti-rat IgG (Dianova) or Alexa Fluor 488 anti-mouse IgG (Dianova) for secondary incubation, respectively. Primary incubation was performed overnight at 4°C while secondary incubation was performed for 1 hour at room temperature. To visualize the nuclei, tissue sections were counterstained with DAPI.
Quantification of peritubular capillary density (PTCD)
For PTCD quantification, exclusively cortical areas not containing glomeruli were documented. The total area of interest was evaluated for the absolute number of pixels. After CD31 staining (
Histology and immunoflurescence staining of tissue sections) the colour red was quantified as described above and related to the total area of interest (red pixels as percentage of all pixels per area).
Quantification of serum Cystatin C
Serum Cystatin C levels were quantified using a commercially available kit (BioVendor, RD291009200R) according to the manufacturer´s instructions.
PAC isolation and treatment for proteomic analyses
PACs from wildtype mice blood and spleen were isolated, expanded over 5–6 days of culture in EGM–2-medium (Lonza, CC–3156, CC–4176). Medium was aspirated and replaced by pre-warmed 10 mL serum-free EGM–2-medium per 10 cm/dish. The serum-free EGM–2-medium was replaced by fresh medium 3 times, each incubation period lasting for 120 minutes in the presence of CO2. Finally, medium was replaced by FCS free EGM–2 containing either Ang–2 (200 ng/ml) or BMP–5 (100 ng/ml). The treatment was carried out for 48 hours in an CO2 incubator at 37°C. Subsequently conditioned medium was collected, centrifuged at 300g for 5 minutes at 4°C, supernatants collected and stored at –80°C.
Protein precipitation and concentration estimation
To enrich the secretome proteins, the supernatants from control and treated PACs (10 ml each) were concentrated separately to 2 ml with a Vivaspin 20 Ultrafiltration Unit (Sartorius Göttingen, Germany). The resulting samples were then subjected to protein precipitation to reduce the volume and enrich the proteins. The precipitation was carried out by adding 3 volumes of ice-cold acetone containing 10% methanol and incubating overnight at –20°C. Precipitated proteins were pelleted by centrifugation at 12,000g for 45 min at 4°C. The pellets were dried and resolved in urea buffer (30 mM Tris-HCl pH 8.5, 9.5 M urea, 2% CHAPS). The protein concentration was determined according to the Bradford method using BSA as the calibrator.
SDS-PAGE, tryptic in gel digestion and mass spectrometric analysis of the PAC-derived secretome
The protein extracts from control sample and the different treatments were separated in 1D-SDS-PAGE. The gels were stained with Coomassie blue and the visualized protein lanes were excised in 20 band section each and subjected to in gel digestion with trypsin (12.5 ng/µl). The resulting tryptic digests were extracted and analyzed using the Thermo Scientific Q Exactive. All MS/MS samples were analyzed using Mascot (Matrix Science, London, UK; version 2.4.1). Mascot was searched with a fragment ion mass tolerance of 0.020 Da and a parent ion tolerance of 10.0 PPM. Scaffold (version Scaffold_4.8.9), Proteome Software Inc., Portland, OR) was used to validate MS/MS based peptide and protein identifications. The software normalizes the MS/MS data between samples. This allows us to compare abundances of a protein between samples. The normalization scheme used works for the common experimental situation where individual proteins may be up-regulated or down-regulated, but the total amount of all proteins in each sample is about the same like it was the case in our experiments. Normalization is done on the MS sample level. The normalization method that Scaffold uses is to sum the “Unweighted Spectrum Counts” for each MS sample. These sums are then scaled so that they are all the same. The scaling factor for each sample is then applied to each protein group and adjusts its “Unweighted Spectrum Count” to a normalized “Quantitative Value”.
Bioinformatic Analyses
To examine potential protein function categories and pathways of significantly regulated proteins, we performed bioinformatics analysis using the following public protein software: DAVID Functional Annotation Bioinformatics Microarray Analysis (http://david.abcc.ncifcrf.gov/), the protein-protein interaction network software String 10.5 (https://string-db.org), and the pathway analysis software Kegg (https://www.genome.jp/kegg/).
Statistical analyses
All results are given an mean +/- SEM. The means of two groups were compared using the student´s ttest. Differences between three or more groups were analyzed with the ANOVA test. Significance was postulated if the p-value was below 0.05.