Data from: SGLT2 inhibition attenuates renal tubular senescence by suppressing CTRP1-mediated glucotoxic stress in diabetic kidney disease
Data files
Jul 30, 2026 version files 632.61 MB
-
FASEB_Dryad_dataset_.zip
632.61 MB
-
README.md
6.56 KB
Abstract
Renal tubular senescence is a defining pathological feature of diabetic kidney disease (DKD) and a key driver of disease progression. While glucotoxic stress is recognized as a major contributor to tubular aging, the upstream regulatory mechanisms remain incompletely understood. Here, we investigated the role of C1q/TNF-related protein 1 (CTRP1) in DKD-associated tubular senescence and its mechanistic link to SGLT2-mediated glucose uptake. We conducted a retrospective observational case–control analysis of human renal biopsy specimens, complemented by mechanistic experiments in NRK-52E cells and a high-fat diet/streptozotocin/uninephrectomy (HFD–STZ–UNx) rat model. Renal cortical tissues from DKD patients and controls were analyzed via immunohistochemistry and Western blotting. CTRP1 expression increased progressively with DKD severity and was positively correlated with the senescence markers p21 (R = 0.498) and p16 (R = 0.494). Bioinformatic analysis of CTRP1-deficient mice revealed consistent SGLT2 downregulation, which was validated experimentally in NRK-52E cells, where CTRP1 overexpression increased SGLT2 expression and glucose uptake, particularly under hyperglycemic conditions. In HFD/STZ/UNx-induced DKD rats, dapagliflozin (0.1 mg/kg/day) improved metabolic abnormalities and renal dysfunction and attenuated tubular senescence. Dapagliflozin suppressed CTRP1–SGLT2 axis activation, reduced glucose uptake in renal tubular cells, and markedly decreased the proportion of CTRP1⁺SGLT2⁺ double-positive tubular cells. These findings support the presence of a previously unrecognized CTRP1–SGLT2 signaling axis associated with glucose-mediated tubular senescence in DKD and provide mechanistic insight into SGLT2 inhibitor-mediated renoprotection.
Dataset DOI: 10.5061/dryad.fj6q57495
Description of the data and file structure
This submission contains human, animal, and cell datasets generated to study CTRP1, tubular senescence, glucose handling, and kidney injury in diabetic kidney disease. The human data include de-identified kidney biopsy measurements from immunohistochemistry, QuPath-based image analysis, and Western blot quantification. The animal data include rat diabetic kidney disease experiments, longitudinal metabolic measurements, kidney immunofluorescence analysis, flow cytometry-based glucose uptake measurements, and associated source files. The cell data include NRK-52E flow cytometry-based glucose uptake measurements, Western blot densitometry results, and transcriptomic expression datasets used to support figure generation and interpretation.
Files and variables
File: FASEB_Dryad_dataset_.zip
Description: This submission includes multiple related datasets organized by experimental system and assay type. File-level documentation is provided in the accompanying README file(s), which describe file contents, file relationships, variable definitions, abbreviations, units of measurement, and missing-value coding. Across the submission, primary files include CSV tables for quantitative measurements, ZIP archives containing raw image or FCS files, and PDF files containing representative source images or figure panels. Missing values are coded as NA unless otherwise specified in the relevant file-level documentation.
The human tissue datasets in the current Dryad repository are provided as group-level summary datasets only. The human IHC / QuPath subfolder contains kidney_biopsy_ihc_group_summary.csv and its README file, which provide group-level quantitative summary data for CTRP1, p16, and p21 in human kidney biopsy samples. The human Western blot subfolder contains kidney_biopsy_wb_group_summary.csv, wb_uncropped_images_human.zip, and its README file, which provide group-level quantitative summary data and uncropped source-image files. No ROI-level, sample-level, or participant-level human data are included in the current repository.
The animal datasets include a rat experiment master sheet, GTT and ITT time-course tables, GTT and ITT AUC summary tables, animal kidney immunofluorescence files, and animal flow cytometry files. Variables in the animal experiment files include identifiers, group assignments, metabolic measurements, intervention variables, endpoint biochemistry, and sample availability fields such as animal_id, group, diet, stz1_mgkg, dapa_mgkgd, bw_g_wk0, glu_mmolL_wk20, crea_umolL, and urea_mmolL. Animal immunofluorescence files include cell-level and animal-level variables such as classification, ctrp1_intensity, sglt2_intensity, pct_double_positive, and mean fluorescence intensity summary fields, while animal flow cytometry files include variables such as subpopulation, n_events, pct_of_parent, and glucose_uptake_mfi
The cell datasets include NRK-52E flow cytometry glucose uptake summary tables, condition metadata tables, raw FCS archives, representative flow-cytometry image PDFs, and Western blot densitometry tables. Cell flow cytometry variables include experiment_id, group, glucose_condition, sample_id, cell_type, glucose_probe_channel, and glucose_uptake_mfi. Cell Western blot files include sample_id, group, target_protein, target_band_raw, loading_control_raw, normalized_to_gapdh, and fold_change_vs_control. Transcriptomic datasets include expression matrices and sample-metadata tables for mouse tubular glucose transporter expression and time-series CTRP1/SGLT2 expression, with variables such as gene_symbol, sample_id, group, genotype, zeitgeber_time, replicate, and expression_unit.
Code/software
Most tabular data files in this submission are provided in CSV format and can be viewed using free or open software such as LibreOffice Calc, OpenOffice Calc, or any standard text editor. PDF files can be viewed with any PDF reader, and ZIP archives can be opened using standard archive utilities. Raw flow cytometry files in .fcs format require flow cytometry analysis software capable of reading FCS files. TIFF image files can be opened with standard image-viewing software such as ImageJ/Fiji.
Quantitative image analysis for the kidney immunohistochemistry and immunofluorescence datasets was performed using QuPath, with the README indicating version examples such as v0.6.0; the exact version used for each dataset should be stated in the corresponding file-level documentation where applicable. The general workflow was: image acquisition, annotation or detection in QuPath where relevant, export of measurement tables to CSV where applicable during internal analysis, derivation of group-level summary tables for the deposited human dataset where applicable, and downstream statistical analysis and figure generation using the processed tabular files. If no custom code or scripts are included in the submission, this should be stated explicitly in the final deposited README.
Access information
Other publicly accessible locations of the data:
- Dryad submission only for study-generated files. Publicly sourced transcriptomic data, if included, are additionally available from their original public repositories; source links and accession information are provided in the README.
Data was derived from the following sources:
- The human biopsy, animal, and cell experimental datasets were generated in the present study. If any transcriptomic datasets included in this submission were derived from previously published public datasets, the original source identifiers, accession numbers or URLs, and license information are documented in the corresponding README sections.
Human subjects data
This dataset contains de-identified human subject data only. The research dataset provided for analysis did not include direct personal identifiers. All publicly shared files exclude names, medical record numbers, hospital specimen numbers, dates, and other identifying information. Sample identifiers in the shared dataset were replaced with study-specific coded IDs, and no re-identification key is included in the deposited files. The dataset was reviewed and prepared to minimize re-identification risk in accordance with applicable ethical and legal requirements.
Human tissue collection
This retrospective observational case–control study included all eligible adults undergoing native kidney biopsy at a hospital during the study period. DKD tissues were obtained from 18 patients with biopsy-confirmed diabetic kidney disease, whereas control tissues were retrospectively identified from 5 non-DKD patients biopsied during the same period whose renal histology showed largely preserved architecture without evidence of DKD and whose serum creatinine and blood urea nitrogen levels were within the normal range. The cohort comprised 23 participants (18 DKD and 5 controls). Patients were classified according to KDIGO staging criteria, with representative samples from stages G1–G5 included. Those with other primary kidney diseases, active infection, malignancy, or insufficient tissue were excluded.
Sample size was determined by the number of eligible specimens available during the study period; no formal a priori sample size or power calculation was performed, and the analysis should therefore be considered exploratory. Baseline demographic and clinical characteristics are summarized in Supplementary Table 1. Clinical data, including age, eGFR, and UACR, were collected at biopsy. Tissue samples were fixed in 4% paraformaldehyde for immunohistochemistry or snap-frozen for Western blotting. For correlation analyses of CTRP1 with p16 and p21, cases with unavailable or unevaluable staining were excluded, yielding a final sample size of 18. Ethics approval (2022NL-090-01) was obtained, and written informed consent was obtained from all participants. Clinical trial number: not applicable.
Definition of variables
The primary exposure was renal cortical CTRP1 expression, quantified as the percentage of CTRP1-positive tubular cells in each biopsy core. Primary outcomes were tubular senescence markers, assessed as the percentages of p16-positive and p21-positive tubular cells. Secondary outcomes included renal function parameters (estimated glomerular filtration rate [eGFR], serum creatinine, and blood urea nitrogen), albuminuria (urinary albumin-to-creatinine ratio), and histological markers of renal cortical fibrosis. DKD cases were staged according to kidney disease: Improving Global Outcomes (KDIGO) criteria. Age was categorized as 18–35, 36–64, or ≥ 65 years, and eGFR was stratified as 30–89 or <30 mL/min/1.73 m² to reflect clinically meaningful categories of renal impairment.
Analyses were conducted using complete cases; samples with missing or unevaluable staining for a given marker were excluded from the corresponding analysis without imputation.
Immunohistochemistry and analysis
Paraffin-embedded sections (5 µm) were deparaffinized, rehydrated, treated with 3% H₂O₂, and subjected to antigen retrieval in citrate buffer (pH 6.0). After being blocked with 10% goat serum, the sections were incubated overnight at 4°C with antibodies against CTRP1, p21, or p16 (1:100), followed by incubation with HRP-conjugated secondary antibodies (1:500) for 1 h at room temperature and subsequent DAB development. Whole-slide images were acquired via a KFBIO scanner. Each whole-slide image contained one or more renal biopsy cores, and the percentage of cells positive for CTRP1, p21, or p16 in each biopsy core was quantified using QuPath software (version 0.6.0 , RRID:SCR_018257).
Western blotting
Tissues or cultured cells were lysed in RIPA buffer supplemented with protease/phosphatase inhibitors. Proteins (30–50 µg) were separated by 10% SDS‒PAGE, transferred to PVDF membranes, blocked with 5% nonfat milk, and incubated overnight with primary antibodies (1:1000) against CTRP1, SGLT2, p21, Collagen I, α-SMA, or GAPDH (1:5000). After HRP-conjugated secondary antibodies were added (1:5000, 1 h), the signals were detected via ECL and quantified via ImageJ (RRID:SCR_003070).
Antibodies and reagents
The following primary antibodies were used in this study: anti-CTRP1 (Abcam, Cat# ab25973, RRID: AB_448937), anti-SGLT2 (mouse monoclonal, Santa Cruz Biotechnology, Cat# sc-393350, RRID:AB_2814658), anti-p21 (rabbit monoclonal, Cell Signaling Technology, Cat# 2947S, RRID:AB_823586), anti-p16INK4a/CDKN2A (rabbit monoclonal, ABclonal, Cat# A11651, RRID:AB_2861619), anti-COL1A1 (rabbit monoclonal, Cell Signaling Technology, Cat# 91144S, RRID:AB_2800169), anti-α-SMA (rabbit monoclonal, Cell Signaling Technology, Cat# 19245S, RRID:AB_2734735), and anti-GAPDH (rabbit monoclonal, ABclonal, Cat# A19056, RRID:AB_2862549).
Bioinformatics analysis
Transcriptomic datasets of renal tubular epithelial cells from CTRP1-knockout and control mice were obtained from the Gene Expression Omnibus (GEO) database (GSE127332) [22] to assess glucose transporter expression, with a focus on SGLT2. Time-series transcriptomic data over 48 hours (GSE217853) [23] were further used to quantify CTRP1 and SGLT2 mRNA levels. A generalized additive mixed-effects model was applied to the time-series data to characterize their expression trajectories and evaluate parallel changes over the 48-hour period.
Cell culture and lentiviral transduction
NRK-52E cells (RRID:CVCL_0468) were cultured in DMEM supplemented with 10% FBS and 1% penicillin–streptomycin. The cells were transduced with CTRP1-overexpressing (LV-CTRP1-OE) or control (LV-CTRP1-NC) lentivirus; GFP positivity confirmed transduction. After transduction, the cells were cultured under normal-glucose (5.5 mM) or high-glucose (30 mM) conditions for 48 h. These conditions were selected with reference to published in vitro models of diabetic hyperglycemic stress in renal tubular epithelial cells[24, 25].
Glucose uptake assay
Glucose uptake was measured via a Glucose Uptake Assay Kit-Blue (Dojindo, UP01)[26]. The cells were washed and incubated in glucose-free DMEM (15 min) and then in probe solution (1:500, 15 min). The mean fluorescence intensity (MFI) was measured via flow cytometry.
Animal model
Male Sprague–Dawley rats (RRID:RGD_70508, 8 weeks old, 200-250 g at baseline) were fed a high-fat diet (D12462), subjected to unilateral nephrectomy, and injected with streptozotocin (50 mg/kg) to establish DKD. The HFD/STZ/UNx protocol was selected because it integrates insulin resistance, hyperglycemia, and nephron loss, thereby reproducibly accelerating DKD progression and inducing metabolic and renal abnormalities that resemble progressive DKD[27, 28]. Hyperglycemic/proteinuric rats were randomized (n=5/group) into the following groups: Sham, DKD, DAPA, and DKD + DAPA. The experimental unit was a single animal. Dapagliflozin (0.1 mg/kg/day) or saline was administered orally for 12 weeks. The dapagliflozin dose and treatment duration were selected with reference to previous experimental studies and adapted to the present DKD model[29]. No unexpected animal deaths or exclusions occurred during the study. All animal experiments were approved by the Animal Ethics Committee of Nanjing University of Chinese Medicine and carried out in strict accordance with the institutional guidelines for the care and use of laboratory animals (Approval No. 202308A014).
Metabolic and renal function assessments
After 12 weeks, glucose tolerance tests (GTTs) and insulin tolerance tests (ITTs) were performed. Serum creatinine, blood urea nitrogen, total cholesterol, and triglycerides were measured.
Histopathology
Sections were stained with PAS, HE, Masson's trichrome, and SA-β-gal. Transmission electron microscopy (TEM) was used to examine ultrastructural changes (Hitachi HT7800, ×7000). Histological image quantification was performed by investigators blinded to group allocation.
Dual immunofluorescence and colocalization analysis
The sections were incubated with primary antibodies against CTRP1 (rabbit, 1:100) and SGLT2 (mouse, 1:100), followed by Alexa Fluor-conjugated secondary antibodies and DAPI staining. Images were acquired (Pannoramic SCAN II) and analyzed (v0.6.0, RRID:SCR_018257) for colocalization and MFI. Immunofluorescence image quantification was performed by investigators blinded to group allocation.
Flow cytometry
Renal tubular cells were isolated via enzymatic digestion. The cells were incubated with a glucose uptake probe, fixed, permeabilized, and stained with anti-CTRP1 and anti-SGLT2 antibodies, followed by incubation with fluorescent secondary antibodies. The signals were analyzed by flow cytometry.
Statistical analysis
Continuous data are expressed as the mean ± SEM. Data distribution was assessed using Shapiro–Wilk normality tests, and homogeneity of variances was evaluated using Brown–Forsythe and Bartlett tests. When appropriate, right‑skewed variables were log10‑transformed to better meet model assumptions. In particular, serum creatinine, blood urea nitrogen, and serum total cholesterol and triglyceride levels were analysed on log10‑transformed values, whereas the corresponding figures display the mean ± SEM of the untransformed data.
For two‑group comparisons, unpaired Student’s t tests were used when normality and equal variance assumptions were reasonably satisfied. For comparisons among more than two groups, one‑way ANOVA followed by Tukey’s post hoc test was applied under the same assumptions. Glucose and insulin tolerance curves were analysed by two‑way repeated‑measures ANOVA (factors: group and time), and the corresponding areas under the curve were compared using one‑way ANOVA. Pearson correlation was used to assess associations between continuous variables. A two‑sided P value < 0.05 was considered statistically significant.
Given the limited sample size of the human biopsy cohort, multivariable regression modelling was not performed, and we focused on unadjusted correlations between CTRP1, senescence markers, and clinical variables.
