Go to The Journal of Clinical Investigation
  • About
  • Editors
  • Consulting Editors
  • For authors
  • Publication ethics
  • Publication alerts by email
  • Transfers
  • Advertising
  • Job board
  • Contact
  • Physician-Scientist Development
  • Current issue
  • Past issues
  • By specialty
    • COVID-19
    • Cardiology
    • Immunology
    • Metabolism
    • Nephrology
    • Oncology
    • Pulmonology
    • All ...
  • Videos
  • Collections
    • In-Press Preview
    • Resource and Technical Advances
    • Clinical Research and Public Health
    • Research Letters
    • Editorials
    • Perspectives
    • Physician-Scientist Development
    • Reviews
    • Top read articles

  • Current issue
  • Past issues
  • Specialties
  • In-Press Preview
  • Resource and Technical Advances
  • Clinical Research and Public Health
  • Research Letters
  • Editorials
  • Perspectives
  • Physician-Scientist Development
  • Reviews
  • Top read articles
  • About
  • Editors
  • Consulting Editors
  • For authors
  • Publication ethics
  • Publication alerts by email
  • Transfers
  • Advertising
  • Job board
  • Contact
Integrated single-cell transcriptomics and proteomics reveal cellular-specific responses and microenvironment remodeling in aristolochic acid nephropathy
Jiayun Chen, Piao Luo, Chen Wang, Chuanbin Yang, Yunmeng Bai, Xueling He, Qian Zhang, Junzhe Zhang, Jing Yang, Shuang Wang, Jigang Wang
Jiayun Chen, Piao Luo, Chen Wang, Chuanbin Yang, Yunmeng Bai, Xueling He, Qian Zhang, Junzhe Zhang, Jing Yang, Shuang Wang, Jigang Wang
View: Text | PDF
Research Article Cell biology Nephrology

Integrated single-cell transcriptomics and proteomics reveal cellular-specific responses and microenvironment remodeling in aristolochic acid nephropathy

  • Text
  • PDF
Abstract

Aristolochic acid nephropathy (AAN) is characterized by acute proximal tubule necrosis and immune cell infiltration, contributing to the global burden of chronic kidney disease and urothelial cancer. Although the proximal tubule has been defined as the primary target of aristolochic acids I (AAI), the mechanistic underpinning of gross renal deterioration caused by AAI has not been explicitly explained, prohibiting effective therapeutic intervention. To this point, we employed integrated single-cell RNA-Seq, bulk RNA-Seq, and mass spectrometry–based proteomics to analyze the mouse kidney after acute AAI exposure. Our results reveal a dramatic reduction of proximal tubule epithelial cells, associated with apoptotic and inflammatory pathways, indicating permanent damage beyond repair. We found the enriched development pathways in other nephron segments, suggesting activation of reparative programs triggered by AAI. The divergent response may be attributed to the segment-specific distribution of organic anion channels along the nephron, including OAT1 and OAT3. Moreover, we observed dramatic activation and recruitment of cytotoxic T and macrophage M1 cells, highlighting inflammation as a principal contributor to permanent renal injury. Ligand-receptor pairing revealed that critical intercellular crosstalk underpins damage-induced activation of immune cells. These results provide potentially novel insight into the AAI-induced kidney injury and point out possible pathways for future therapeutic intervention.

Authors

Jiayun Chen, Piao Luo, Chen Wang, Chuanbin Yang, Yunmeng Bai, Xueling He, Qian Zhang, Junzhe Zhang, Jing Yang, Shuang Wang, Jigang Wang

×

Figure 5

AAI induces robust renal infiltration of cytotoxic T cells.

Options: View larger image (or click on image) Download as PowerPoint
AAI induces robust renal infiltration of cytotoxic T cells.
(A) The UMAP...
(A) The UMAP visualization shows unsupervised scRNA-Seq clustering, revealing 9 distinct subtypes of T lymphocyte and NK cells. CD4+Tn, CD4+ T naive; CD4+Te, CD4+ T effector; CD4+Tem, CD4+ T memory; CD8+ Tn, CD8+ Tnaive; CD8+CTL, CD8+ cytotoxic T cell; CD8+Tem, CD8+ T memory; T Pro, T proliferation; NK, NK cell. (B) The heatmap depicts the cell markers expression of each cell subtype in the T lymphocyte and NK cells subpopulation. (C) The pie chart revealed the relative proportion of each cell subtype of T lymphocyte and NK cells in the Con (upper panel) and the AAN groups (lower panel). (D) Cumulative distribution function shows the distribution of naive, cytokine, cytotoxic, and regulatory state scores across T lymphocyte and NK cell subpopulation. (E) The UpSet plot depicts the concordance of upregulated differentially expressed gene (DEG) numbers of each cell subtype in T lymphocyte and NK cell subpopulations. The Venn plot shows the overlap genes number between subgroup union DEGs and whole T lymph/NK DEGs. (F) The bubble plot shows the GO enrichment BP items of AAN versus Con upregulated DEGs in the whole T lymph/NK subgroup. (G) The scatter plot shows the relative gene expression level of 12 cytokines (upper), cytotoxic (middle), and regulatory (lower) genes in pseudotime, colored according to group types. (H) Representative immunofluorescence staining of CD4 (green) and CD8 (red) (n = 3 per group). Scale bar: 100 μm.

Copyright © 2026 American Society for Clinical Investigation
ISSN 2379-3708

Sign up for email alerts