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Gain-of-function PPM1D mutations attenuate ischemic stroke

Abstract

Identification of genetic aberrations in stroke, the second leading cause of death worldwide, is of paramount importance for understanding the disease pathogenesis and generating new therapies. Whole-genome sequencing from 10,241 ischemic stroke patients identified eight patients carrying gain-of-function mutations on coding variants in the protein phosphatase magnesium-dependent 1 δ (PPM1D) gene. Patients carrying PPM1D mutations exhibit better stroke-related clinical phenotypes, including improvements in peripheral inflammation, fibrinogen, low-density lipoprotein, cholesterol and plateletcrit level. Experimental brain ischemia in Ppm1d-deficient (Ppm1d/) mice resulted in enlarged lesions and pronounced neurological impairments. Spatial transcriptomics revealed a distinct Ppm1d-associated gene expression pattern, indicating disrupted endothelial homeostasis during ischemic brain injury. Proteomic analysis demonstrated that differentially expressed proteins in primary brain endothelial cells from Ppm1d/ mice were significantly enriched in the peroxisome proliferator-activated receptors (PPARs)-mediated metabolic signaling. Mechanistically, Ppm1d deficiency promoted aberrant fatty acid β-oxidation and increased oxidative stress, which impaired endothelial cell function through the PPARα pathway. A small molecule, T2755, was identified to engage Trp427 and stabilize PPM1D, thereby mitigating ischemic brain injury in mice. Collectively, we find that PPM1D protects against ischemic brain injury and validates its pharmacological stabilizer T2755 as a promising therapy for ischemic stroke.

Gain-of-function PPM1D mutations attenuate ischemic cerebral injury. Whole-genome sequencing data of 10,241 ischemic stroke patients from the Third Chinese National Stroke Registry (CNSR-III) identified eight patients with gain-of-function mutations in the protein phosphatase magnesium-dependent 1 δ (PPM1D) gene (17q23.2). These mutation carriers displayed improved peripheral inflammation, decreased fibrinogen, low-density lipoprotein, cholesterol and plateletcrit level. Ppm1d-deficient (Ppm1d/) mice exhibited exacerbated stroke outcomes, characterized by enlarged infarct volumes, disrupted cerebrovascular architecture, and enhanced neuro-inflammation. Mechanistically, Ppm1d deficiency induced the disturbance of endothelial fatty acid metabolism involving the PPARα pathway. Through integrated computational modeling, virtual screening, and in vitro validation, T2755 was identified as a small molecule PPM1D stabilizer. Pharmacological PPM1D stabilization with T2755 significantly attenuated ischemic brain injury in murine models.

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Fig. 1: Genetic landscape and identification of PPM1D variants in ischemic stroke patients.
Fig. 2: Ppm1d deficiency exacerbates ischemic brain injury in mice.
Fig. 3: Spatial transcriptomics reveals unique Ppm1d-associated molecular patterns affecting cerebrovascular function in stroke mice.
Fig. 4: Ppm1d deficiency impairs exogenous fatty acid β-oxidation in CD31+ endothelial cells.
Fig. 5: The interaction between PPM1D and PPARα.
Fig. 6: Small-molecule compounds targeting PPM1D attenuate neuro-deficits and ischemic stroke injury.

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Data availability

All data generated and analyzed during this study are included in this published article or its supplementary information files, with additional data available from the corresponding author upon reasonable request. The raw and processed spatial transcriptomics data generated in this study have been deposited in the Gene Expression Omnibus public repository under accession number GSE295060.

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Acknowledgements

We are deeply grateful to many colleagues at the China National Clinical Research Center for Neurological Diseases for their invaluable contributions in establishing, maintaining, and conducting whole-genome analysis of The Third Chinese National Stroke Registry (CNSR-III). We thank Samuel. X. Shi for editorial assistance and Yingying Chang for artistic improvement of figures. We are grateful to Dr. L.A. Donehower from Baylor College of Medicine for the Ppm1d knockout mice. We acknowledge the assistance provided by Tianjin BioAI-global Technology Co., Ltd. in molecular modeling and virtual screening. This study was supported by the National Natural Science Foundation of China (82371324, 82371353, 82320108007); the Beijing Municipal Science and Technology Project (Z241100009024046).

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W-NJ, F-DS, and YW (Yongjun Wang) formulated the concept and study design. WH, W-NJ, YL, JF, MY, BY, YX, HZ, and TL performed the experiments. YL, SC, and XH analyzed GWAS data. ZZ and ZC analyzed the spatial transcriptomics data. W-NJ, WH, HL, YJ, XM, YW (Yilong Wang), LVK, AV, and F-DS interpreted the results. F-DS, LVK, AV, YW (Yongjun Wang),WH, and W-NJ drafted the manuscript.

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Correspondence to Yongjun Wang, Fu-Dong Shi or Wei-Na Jin.

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LVK is a member of the scientific advisory board of Isu Abxis Co., Ltd. (Republic of Korea). The other authors declare no competing interests.

Ethical approval

The whole-genome sequencing data utilized in this study were derived from the CNSR-III cohort, with ethical approval granted by the Institutional Review Board of Beijing Tiantan Hospital (approval number: KY2015-001-01). Written informed consents were obtained from all participating patients prior to their inclusion in this study. All animal experiments were conducted in accordance with the ARRIVE (Animal Research: Reporting of in vivo Experiments) guidelines and were performed under protocols approved by the Institutional Animal Care and Use Committee of Beijing Tiantan Hospital (201902026).

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He, W., Li, Y., Fan, J. et al. Gain-of-function PPM1D mutations attenuate ischemic stroke. Cell Death Differ 32, 2146–2159 (2025). https://doi.org/10.1038/s41418-025-01523-6

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