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Updated: Apr 15, 2026
Comparative Proteomic Analysis of Whole Kidney, Medulla, and Cortical Tubules in Diabetic Pathogenesis of Kidney Injury in Mice
Published on: May 2, 2025
Characterization of NLRP3 Inflammasome-Associated Hub Genes in the Progression of Diabetic Nephropathy
Sheng Zhao1, Yuejiao Li1,2, Wenchuan Li1
1Department of Nephrology, Guangzhou First People's Hospital, The Second Affiliated Hospital, School of Medicine, South China University of Technology, Guangzhou, China.
Background:
Diabetic nephropathy (DN) is widely recognized as the primary cause of end-stage renal disease. However, the underlying mechanisms and pathogenesis of DN remain incompletely understood. Exploring novel biomarkers aiding in tracking the progression of DN has important clinical implications.
Methods:
Human renal transcriptomic datasets (GSE142025 and GSE96804) from the Gene Expression Omnibus (GEO) were analyzed. Differentially expressed genes (DEGs) were identified using a staged analysis, which involved sequential comparisons between normal controls and early-stage DN, as well as between early DN (eDN) and advanced DN (aDN). Enrichment analysis of DEGs was performed using R software. WGCNA was utilized to construct gene co-expression networks and to identify the key genes. Then, Venn diagrams were generated using DEGs and key genes from both datasets to determine the final hub genes. ROC curves were then used to assess the diagnostic accuracy of hub genes for DN disease progression. Finally, we cross-validated the hub genes using the clinical kidney specimens.
Results:
After analyzing the datasets, we identified 22 and 43 hub genes using the WGCNA and DEGs at the eDN and aDN stages. Further investigation of the literature on the hub genes led to the discovery of their association with the activity of NLRP3 inflammasome, including ZFP36, CLEC2D, and HCK, which were identified as NLRP3 inflammasome-associated hub genes (NIAHGs). We found that the AUC of all the NIAHGs can indicate their potential diagnostic value. Then, we validated the expression levels of NIAHGs in human renal tissues, which were consistent with those in both data sets. Importantly, immunoblot analysis indicated that NIAHGs expression was associated with NLRP3 inflammasome activation. Furthermore, NLRP3 inflammasome was significantly activated, leading to the release of large amounts of IL-1β and IL-18 in eDN, further initiating the inflammatory response in the diabetic kidney.
Conclusions:
Our findings identify critical hub genes associated with DN progression and NLRP3 inflammasome activity, providing a theoretical basis and candidate targets for subsequent research.
