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Gasdermin D-mediated metabolic crosstalk promotes tissue repair

Abstract

The establishment of an early pro-regenerative niche is crucial for tissue regeneration1,2. Gasdermin D (GSDMD)-dependent pyroptosis accounts for the release of inflammatory cytokines upon various insults3,4,5. However, little is known about its role in tissue regeneration followed by homeostatic maintenance. Here we show that macrophage GSDMD deficiency delays tissue recovery but has little effect on the local inflammatory milieu or the lytic pyroptosis process. Profiling of the metabolite secretome of hyperactivated macrophages revealed a non-canonical metabolite-secreting function of GSDMD. We further identified 11,12-epoxyeicosatrienoic acid (11,12-EET) as a bioactive, pro-healing oxylipin that is secreted from hyperactive macrophages in a GSDMD-dependent manner. Accumulation of 11,12-EET by direct supplementation or deletion of Ephx2, which encodes a 11,12-EET-hydrolytic enzyme, accelerated muscle regeneration. We further demonstrated that EPHX2 accumulated within aged muscle, and that consecutive 11,12-EET treatment rejuvenated aged muscle. Mechanistically, 11,12-EET amplifies fibroblast growth factor signalling by modulating liquid–liquid phase separation of fibroblast growth factors, thereby boosting the activation and proliferation of muscle stem cells. These data depict a GSDMD-guided metabolite crosstalk between macrophages and muscle stem cells that governs the repair process, which offers insights with therapeutic implications for the regeneration of injured or aged tissues.

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Fig. 1: Myeloid GSDMD deficiency compromises tissue repair.
Fig. 2: Myeloid-expressing GSDMD is essential for MuSC function during regeneration.
Fig. 3: Release of GSDMD-dependent metabolites promotes tissue regeneration.
Fig. 4: Accumulation of 11,12-EET promotes tissue regeneration in vivo.
Fig. 5: 11,12-EET promotes MuSC proliferation by enhancing FGF–FGFR signalling.
Fig. 6: 11,12-EET exhibits pro-regeneration capacity in multiple organs.

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Data availability

All raw and processed sequencing data generated in this study have been deposited in the NCBI Gene Expression Omnibus (GEO) under accession numbers GSE246007 (bulk RNA sequencing) and GSE250049 (scRNA-seq). The publicly available dataset used in this study is available at GEO under the accession numbers GSE113631 and GSE164471. The gating strategy for flow cytometry and raw, uncropped images of western blots are provided in the Supplementary InformationSource data are provided with this paper.

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Acknowledgements

The authors thank I. C. Bruce for reading the manuscript; Z. Zhao for support with flow cytometric experiments; S.-Z. Luo for providing eGFP–bFGF plasmids; X. Gao and S. Xu for support with phase separation experiments; and Q. Han for technical support. This work was supported by the National Natural Science Foundation of China (82025017 and 81930042 to D.W., 32370919 and 32100692 to Z.C. and 32370832 to W.Y.), the China Postdoctoral Science Foundation (2023M733063 to Z.W.), the Huadong Medicine Joint Funds of the Zhejiang Provincial Natural Science Foundation of China (LHDMD23H160002 to D.W.), the Key R&D Program of Zhejiang (2024SSYS0024 to D.W.), and the Dr Li Dak Sum & Yip Yio Chin Development Fund for Regenerative Medicine. Graphics in Figs. 3c, 4i, 5n and 6e,i,n,s and Extended Data Figs. 1a,d,j, 5a,e,f,q and 10a,j were created using BioRender.com.

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Z.C., S.C., D.Y., W.C., Y. Lu, Z.W., M.L., Y.J., W.Y., J.Z., Q.Y., T.H., X.L., Q.D., Y.Y., T.Z. and M.C. performed animal and cell experiments. S.C. and R.S. performed scRNA-seq downstream analysis. Q.X. and K.D. provided human muscle samples. Z.C., S.C., D.Y., M.L., W.C., Y. Li, M.S., X.Z. and D.W. conceived and designed the study. Z.C., S.C., D.Y. and D.W. wrote the manuscript, and Z.C. and D.W. supervised the project.

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Correspondence to Zhexu Chi or Di Wang.

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Extended data figures and tables

Extended Data Fig. 1 Myeloid GSDMD deficiency compromises tissue repair.

a, Schematic of the tissue repair process coupled with an inflammatory response. b,c, Representative flow cytometry analysis contour plots (b, left), quantification (b, right) of baseline MuSC number and mean CSA (c), related to Fig. 1d (n = 4), from tibialis anterior muscles of Gsdmdf/f and GsdmdCKO mice (n = 6). d-i, Schematic of GsdmdCKO and littermate controls subjected to CTX-induced injury upon macrophage depletion by anti-CSF1R antibody intraperitoneally (d). Representative images and quantification of macrophages at 3 dpi (e). Muscle strength (n = 3) (f), myofiber CSA (g), frequency distribution (h) and mean CSA (i) of TA muscles at 14 dpi with isotype or anti-CSF1R injection (n = 5, isotype; n = 6, anti-CSF1R). j, Schematic of MuSC myogenic gene programs during regeneration. k,l, Immunoblots of GSDMD in muscle extracts post CTX injury at indicated time. m, Representative images and quantitation (n = 3, 0 dpi; n = 6, 1–10 dpi) of F4/80+ staining in injured TA muscles. n, Immunoblots of muscle extracts for GSDMD from mice with isotype or anti-CSF1R injection at 3dpi. o, Representative images and quantitation (n = 3, 1dpi; n = 4, 3dpi; n = 3, 5dpi; n = 3 Gsdmdf/f, n = 4 GsdmdCKO, 7 dpi) of CD31+ staining in injured TA muscles. A representative (b,c-i,k-o) of at least two independent experiments is shown. Unpaired two-tailed t test applied for (b,c,e,m,o). Two-way ANOVA applied for (f,h,i) with Šidák correction. Mean ± SEM.

Source Data

Extended Data Fig. 2 Single-cell data analysis of muscles from Gsdmdf/f and GsdmdCKO mice.

a,b, Heatmap (a) and featureplot (b) showing the expression of signature markers of each cell type. c,d, UMAP plot of dynamics of cell populations during regeneration. e-g, CytoTRACE score of each state of MuSCs (e,f). Dotplot of the enrichment score of indicated gene sets calculated by AddModuleScore, related to Fig. 2d (g). h, Immunoblots and grayscale statistics of the PI3K-AKT-mTOR and MAPK signaling pathways downstream of FGF-FGFR in TA muscles from Gsdmdf/f and GsdmdCKO mice subjected to CTX-induced injury. A representative (h) of at least two independent experiments is shown.

Extended Data Fig. 3 Single-cell data analysis of intramuscular immune components of Gsdmdf/f and GsdmdCKO mice.

a-c, Analysis of intramuscular immune components of Gsdmdf/f and GsdmdCKO mice. Dynamics of percentages of each cell type in Gsdmdf/f and GsdmdCKO muscles (a). Stacked violin plot of signature marker genes of each immune cell type (b) and dynamics of immune cell percentages in Gsdmdf/f and GsdmdCKO muscles (c). d, Flow cytometry analysis of myeloid cell composition at 2 dpi (n = 8). e,f, Violin plot (e) and dotplot of VISION enrichment analysis of indicated signature genesets (f). g, Dotplot of the enrichment score of indicated gene sets in highly dynamic immune cells determined in Ccr2high monocytes, Spp1high and Mrc1high macrophages.h, Trajectory analysis of the monocyte-macrophage lineage. i, Expression of the top ranked ligands in immune cells upon injury. j,k, Cell-cell interaction analysis using NicheNet. Top ranked intramuscular ligands at 2 dpi (j) and expression of top ranked receptors in each immune cell type (k). A representative of at least two independent experiments is shown. Unpaired two-tailed t test applied for (d). Mean ± SEM.

Source Data

Extended Data Fig. 4 Gsdmd deficiency has little impact on the muscle microenvironment upon injury.

a, Immunoblots of GSDMD and NINJ1 oligomerization (a) in injured TA muscle lysates (2dpi) after treatment with/without the membrane-impermeable BS3 crosslinker, which stabilizes protein-protein interactions for further analysis by immunoprecipitation. The intensity of Vinculin was used as control. b, Immunoblots of intracellular proteins using total muscle lysates and TIF to confirm the purity of the interstitial fluid. Ponceau S is used as loading control. c, OLINK analysis of muscle TIF. PCA plot of each sample during regeneration. d, Intramuscular levels of inflammatory and regenerating proteins determined by OLINK (n = 3 per group),and boxchart of intramuscular Il1β protein levels (n = 3). e, Immunoblots of HMGB1 secretion in muscle TIF at 2 dpi. f, Dotplot of pyroptosis index and indicated gene expression of three highly dynamic immune cell types. A representative (a,b,e) of at least two independent experiments is shown. Unpaired two-tailed t test applied for (d). Abbreviation: BS3, bis-(sulfosuccinimidyl)-suberate, used as a crosslinker.

Source Data

Extended Data Fig. 5 Release of GSDMD-dependent metabolites promotes tissue regeneration.

a, Schematic of supernatant collection and ultracentrifugation. Macrophages were stimulated with 500 ng/mL LPS for 4 h. Thirty minutes before the second signal (3.5 h post LPS stimulation), 10 mM glycine was supplemented to maintain plasma membrane integrity. The second signals, 10 µM nigericin or 1 µg/mL poly(dA:dT), were added to induce GSDMD pore formation. b-d, Quantification of IL-1β (b), IL-6 (c) and TNFα (d) by ELISA (n = 3). e, f, LDH levels in supernatants determined by LDH releasing assay (n = 4) and PI+ cells detected by flow cytometry (n = 3). g-j, Volcano plot of metabolite levels with indicated comparisons, representing total lytic release (g), glycine-induced secretion (h), active secretion (i), and GSDMD pore-dependent active release (j), related to Fig. 3c,d. k, Schematic of 11,12-EET biogenesis and hydrolysis. l, 11,12-EET levels in supernatants determined by ELISA (n = 2, technical replicates). m, PCA plot of targeted metabolites of cell lysates and supernatants, related to Fig. 3e. n, The proportion of 11,12-EET secretion in the supernatant relative to the intracellular quantity, related to Fig. 3e. o,p, Representative images (o) and quantification (p) of C2C12 cell fusion index and myotube size with/without 11,12-EET treatment (n = 6). Scale bar, 200 μm. q, Schematic of primary MuSC isolation procedure. r,s, Representative scanning electron microscope image (r) and statistics (s) of 11,12-EET treated (n = 30) and control (n = 40) MuSCs. t,u, Representative flow cytometry contour plots, related to Fig l,m. A representative (l,o,p,r) or a pool (b-f, s-u) of at least two independent experiments is shown. Unpaired two-tailed t test applied for (b-d,n,p,s). Two-way ANOVA applied for (e,f) with Šidák correction. Mean ± SEM, except Mean ± SD for 5l.

Source Data

Extended Data Fig. 6 Accumulation of 11,12-EET boosts tissue regeneration in vivo.

a, Immunoblots and quantification (n = 3) of EPHX2 expression in peritoneal macrophages. b, Mean CSA (n = 5), related to Fig. 4c. c,d, Muscle strength (n = 3) (c) and weight (n = 6) (d) of TA muscles from Ephx2f/f and Ephx2CKO mice at 14 dpi. e, Expression of Myod and Myog mRNA levels in Ephx2f/f and Ephx2CKO muscle at indicated dpi (n = 4). f,g, The frequency distribution (n = 3, GsdmdCKOEphx2CKO and GsdmdCKOEphx2Het; n = 6, GsdmdHetEphx2CKO and GsdmdHetEphx2Het) of myofiber CSA at 14 dpi, related to Fig. 4j. h,i, Representative images of Ephx2f/f and Ephx2CKO TA muscle cross-sections (h) and the frequency distribution (n = 4, DMSO; n = 6, DSF) (i) of myofiber CSA at 14 dpi with or without DSF treatment. A representative of at least two independent experiments is shown. Unpaired two-tailed t test applied for (a-d); Two-way ANOVA applied for (e-g,i) with Šidák correction. Mean ± SEM. Abbreviation: DSF, disulfiram (MCE, HY-B0240).

Source Data

Extended Data Fig. 7 11,12-EET propels MuSC proliferation via enhancing FGF-FGFR signaling.

a, Correlation between gene fold-changes of 11,12-EET versus control, and gene fold-changes of activated versus quiescent MuSCs (from GSE113631). b, Dotplot of expressions of growth factor receptor genes in different MuSC celltype from scRNAseq data of Fig. 2b. c,d Immunoblots of the PI3K-AKT-mTOR and MAPK signaling pathways downstream of FGF-FGFR in NIH-3T3 cells treated with bFGF with/without 11,12-EET (c), or with vehicle, 11,12-EET or 11,12-EET + FGFR inhibitor (d). e, Immunoblots of EGFR activation in NIH-3T3 with or without 11,12-EET. f,g, Analysis pipeline of the correlation level between each gene and FGF signaling score (f) and GO enrichment with the top 300 correlated genes (g), related to Fig. 5d. FGF signaling score was determined using AddModuleScore with gene set ‘RESPONSE_TO_FIBROBLAST_GROWTH_FACTOR’. h, Representative images of FGF condensates on cell surface. Scale bars, 10 μm. i, Immunoblots of eGFP-bFGF oligomerization in NIH-3T3 cells after FGF treatment with/without 11,12-EET.j, Schematic of 11,12-EET treatment and scRNAseq design. k,l, Immunoblots of the PI3K-AKT-mTOR and MAPK signaling pathways downstream of FGF-FGFR in TA muscles subjected to CTX-induced injury with vehicle, vehicle+FGFR inhibitor, 11,12-EET or 11,12-EET + FGFR inhibitor intramuscularly treatment (k), or from Ephx2f/f and Ephx2CKO mice at 3 dpi (l). A representative (c-e,h,i,k,l) of at least two independent experiments is shown. Pearson correlation analysis for (a). Abbreviation: FGFRi, FGFR inhibitor.

Extended Data Fig. 8 scRNAseq analysis of muscles with or without 11,12-EET treatment.

a-i, Heatmap of signature marker genes of each cell type (a, upper), and dynamics of cell type population after injury (a, lower). UMAP plot and percentage of each cell type with indicated treatment (b). Feature plot of signature marker genes of each cell type (c). UMAP plot of 6 consecutive MuSC states and changes of cell proportion upon 11,12-EET treatment (d). Dotplot of signature marker genes of each state of MuSCs (e). Trajectory analysis and the density plots of the relative number of MuSCs separately for 11,12-EET treatment or vehicle (f,g). Red arrow indicates the enriched proliferation lineage and more terminally-differentiated Myoghi MuSCs upon 11,12-EET treatment. Dotplot of the enrichment scores of the indicated gene sets (h). Correlation between FGF binding capacity and P38MAPK cascade level of MuSCs with the indicated treatment (i). Pearson correlation analysis for (i).

Extended Data Fig. 9 11,12-EET has multi-organ pro-regenerating capacity.

a, Mean CSA (n = 4), related to Fig. 6b. b, Representative H&E staining of TA muscle cross-sections with/without 11,12-EET supplement and the percentage of necrotic area at 14 dpi (n = 8). c, F4/80 immunofluorescence and statistics at 10 dpi (n = 7). d, Representative images of eMyHC+ myofibers and quantification (n = 4). e, The strength (n = 4) of TA muscles with indicated treatment post CTX-induced injury. f,g, Representative images (f left panel), the frequency distribution (f right panel) and mean of myofiber CSA (g) at 14 dpi with vehicle, vehicle+FGFR inhibitor, 11,12-EET or 11,12-EET + FGFR inhibitor treatment (n = 6). h-l, Representative H&E staining of corneal (h), statistics of epithelium and anterior stroma layer thickness (i) and inflammation infiltration (j) with 11,12-EET (50 ng 11,12-EET, twice daily) or vehicle treatment (n = 6). F4/80 staining (k) and quantification (n = 8) (l). m, Images of mice subjected to skin punch biopsy with 11,12-EET (300 ng daily) or vehicle treatment at 7 dpi. A representative of at least two independent experiments is shown. Unpaired two-tailed t test applied for (a-d,i,j,l); One-way ANOVA for (e,g) with tukey’s multiple comparisons test. Two-way ANOVA applied for (f) with Šidák correction. Mean ± SEM. Abbreviation: FGFRi, FGFR inhibitor; ROI, region of interest.

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Extended Data Fig. 10 11,12-EET rejuvenates aged muscle.

a-d, Schematic of UV-induced skin injury model (a). Statistics of wound closure over time (n = 10) (b), and images of mouse ear post UV irradiation with/without 11,12-EET (300 ng daily) treatment (n = 4) (c). Representative H&E staining of ears 14 days after UV irradiation (d). e, Quantification of EPHX2 expression in TA muscles from young and aged mice (n = 3)., related to Fig. 6l. f, Micrographs and quantification of collagen deposition in TA muscles of aged mice by Masson’s trichrome staining (n = 8). g, Quantification of muscle weight (n = 8) and strength (n = 4) in vehicle- and 11,12-EET-treated aged mice. h,i, Representative cross-sections of TA muscles stained with H&E (h) and myofiber CSA quantification (n = 8) i, Working model. A representative (c-i) or a pool (b) of at least two independent experiments is shown. Unpaired two-tailed t test applied for (e-h). Two-way ANOVA applied for (b) with Šidák correction; Mean ± SEM.

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Chi, Z., Chen, S., Yang, D. et al. Gasdermin D-mediated metabolic crosstalk promotes tissue repair. Nature 634, 1168–1177 (2024). https://doi.org/10.1038/s41586-024-08022-7

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