Data from: Pyruvate kinase M2 promotes venous thrombosis by enhancing SNAP23-mediated platelet exocytosis and consequent NETosis
Data files
May 28, 2026 version files 1.01 MB
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README.md
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SourceData_Fig_1.xlsx
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SourceData_Fig_2.xlsx
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SourceData_Fig_6.xlsx
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SourceData_Full_western_blots.pdf
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SourceData_SupplFig_1.xlsx
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Abstract
Little is known about the role of metabolic regulatory mechanisms in the pathobiology of deep vein thrombosis (DVT). Recent studies have demonstrated the involvement of the metabolic enzyme pyruvate kinase M2 (PKM2) in platelet function; however, whether platelet PKM2 contributes to DVT has not been investigated yet. Using platelet-specific PKM2−/− (PKM2Plt-KO) or wild-type (WT) mice orally administered ML265 (a small molecule that limits PKM2 dimers by stabilizing PKM2 tetramers), we found reduced thrombus burden at 48 h post-surgery in the inferior vena cava (IVC) stenosis model compared with littermate controls. This reduction was associated with lower levels of CitH3, a marker of neutrophil extracellular traps (NETs), in the harvested thrombi and improved IVC wall contraction and relaxation responses (assessed by myography). Mechanistically, thrombin-stimulated platelets from PKM2Plt-KO mice or ML265-pretreated platelets from WT mice showed reduced SNAP23 phosphorylation and diminished PF4 release (a marker of α-granule exocytosis). The releasate collected from thrombin-stimulated platelets was less effective at inducing NETosis, compared to respective controls. Utilizing ML265-pretreated human whole blood perfused over a tissue factor-coated surface at a venous shear rate, we found that the area covered by platelet-leukocyte aggregates was profoundly reduced compared to vehicle control. Consistent with murine data, human platelets pretreated with ML265 and stimulated with thrombin exhibited decreased PF4 release and generated releasates that were less potent in inducing NETosis. These findings reveal for the first time that targeting PKM2 genetically or pharmacologically reduces SNAP23-mediated α-granule exocytosis in platelets, platelet releasate-induced NETosis, and susceptibility to DVT.
Description of the data and file structure
This dataset contains the individual source data supporting figures and analyses in the associated article.
Files and variables
File: SourceData_Fig_1.xlsx
Description: Source data for Figure 1, panels A, B, C and D.
Sheet Fig. 1A: % of thrombus incidence in PKM2WT (PKM2fl/fl) and PKM2Plt-KO (PKM2fl/flPF4Cre+) mice 48 hours after IVC stenosis.
Sheet Fig. 1B (left panel): quantified thrombus weight in PKM2WT and PKM2Plt-KO mice 48 hours after IVC stenosis.
Sheet Fig. 1B (right panel): quantified thrombus length in PKM2WT and PKM2Plt-KO mice 48 hours after IVC stenosis.
Sheet Fig. 1C: Western blot analysis of CitH3 levels normalised to β-actin was measured in the thrombus isolated from PKM2WT and PKM2Plt-KO mice.
Sheet Fig. 1D (left panel): Fold increase in contraction measured by wire myography in IVCs isolated from PKM2WT and PKM2Plt-KO mice 48 hours after IVC stenosis.
Sheet Fig. 1D (right panel): Percent of relaxation measured by wire myography in IVCs isolated from PKM2WT and PKM2Plt-KO mice 48 hours after IVC stenosis.
File: SourceData_Fig_2.xlsx
Description: Source data for Figure 2, panels A, B, and C.
Sheet Fig. 2A: Quantification of the percentage of cells releasing NET (right) calculated in lower magnification, NETosis assay was performed by stimulating bone marrow–derived WT neutrophils with releasates collected from thrombin (0.1 U/mL)-activated platelets isolated from PKM2WT or PKM2Plt-KO mice.
Sheet Fig 2B: Western blot analysis of p-SNAP23 levels normalised to total SNAP23 was measured in the Platelets isolated from PKM2WT and PKM2Plt-KO mice, in the absence (resting platelets) and presence of thrombin (activated).
Sheet Fig 2C: Western blot analysis of PF4 in supernatants of Resting and activated platelets. Platelets isolated from PKM2WT and PKM2Plt-KO mice were stimulated with thrombin and centrifuged for 3 minutes. PF4 levels in the supernatant were measured by western blot and normalised to Ponceau.
File: SourceData_Fig_3.xlsx
Description: Source data for Figure 3, panels A, B, C and D.
Sheet Fig. 3A: % of thrombus incidence in vehicle- or ML265-treated mice 48 hours after IVC stenosis.
Sheet Fig. 3B (left panel): quantified thrombus weight in vehicle- or ML265-treated mice 48 hours after IVC stenosis.
Sheet Fig. 3B (right panel): quantified thrombus length in vehicle- or ML265-treated mice 48 hours after IVC stenosis.
Sheet Fig. 3C: Western blot analysis of CitH3 levels normalised to β-actin was measured in the thrombus isolated from vehicle- or ML265-treated mice.
Sheet Fig. 3D (left panel): Fold increase in contraction measured by wire myography in IVCs isolated from vehicle- or ML265-treated mice 48 hours after IVC stenosis.
Sheet Fig. 3D (right panel): Percent of relaxation measured by wire myography in IVCs isolated from vehicle- or ML265-treated mice 48 hours after IVC stenosis.
File: SourceData_Fig_4.xlsx
Description: Source data for Figure 4, panels A, B and C.
Sheet Fig. 4A: quantification of the percentage of cells releasing NET calculated in lower magnification, NETosis assay was performed by stimulating bone marrow–derived WT neutrophils with releasates collected from ML265- or vehicle-pretreated, thrombin-stimulated platelets.
Sheet Fig. 4B: Western blot analysis of p-SNAP23 levels normalised to total SNAP23 was measured in the Platelets. WT platelets pretreated with vehicle or ML265 (50 and 100 μM; 10 minutes) were stimulated with thrombin.
Sheet Fig. 4C: Western blot analysis of PF4 in supernatants of Resting and activated platelets. Vehicle and ML265 pre-treated platelets isolated from WT mice were stimulated with thrombin and centrifuged for 3 minutes; the level of PF4 was measured in the supernatant by western blot and normalised to Ponceau.
File: SourceData_Fig_5.xlsx
Description: Source data for Figure 5, panels A and B.
Sheet Fig. 5A: quantification of thrombus growth (right) on the TF-coated surface over time. Human whole blood pretreated with vehicle or ML265 was perfused over a TF-coated surface for 8 minutes at a shear rate of 500 s–1 in a BioFlux microfluidic flow chamber system.
Sheet Fig 5B: quantification of thrombus growth (fraction of total area) at 25 minutes (the end point of the assay). Human whole blood pretreated with vehicle or ML265 was perfused over a TF-coated surface for 25 minutes in a custom-made DVT device. Accumulation of blood cells after 25 minutes of blood flow. Blood cells were stained with DiOC6 in green.
File: SourceData_Fig_6.xlsx
Description: Source data for Figure 6, panels A and B.
Sheet Fig. 6A: quantification of the percentage of cells releasing NET. NETosis assay was performed by stimulating human neutrophils with releasates collected from thrombin-activated human platelets in the presence or absence of ML265.
Sheet Fig. 6B: Western blot analysis of PF4 in supernatants of Resting and activated platelets. Vehicle and ML265 pre-treated human platelets were stimulated with thrombin and centrifuged for 3 minutes; the level of PF4 was measured in the supernatant by western blot and normalised to Ponceau.
File: SourceData_SupplFig_1.xlsx
Description: Source data for SupplFig 1, panel B.
Sheet SupplFig1B: The line graph shows the plasma recalcification time. The plasma recalcification time was measured in platelet-poor plasma from WT or PKM2Plt-KO mice following the addition of CaCl2.
File: SourceData_SupplFig_2.xlsx
Description: Source data for SupplFig 2
Sheet SupplFig2: Percentage of procoagulant platelets (triple positive for CD41, phosphatidylserine, and P-selectin) in peripheral blood samples, measured by flow cytometry.
File: SourceData_supplFig_4.xlsx
Description: Source data for SupplFig 4
Sheet SupplFig4: Quantification of the percentage of cells releasing NETs calculated in lower magnification. NETosis assay was performed by stimulating bone marrow-derived WT neutrophils with thrombin-activated platelets
isolated from PKM2WT or PKM2Plt-KO mice.
File: SourceData_supplFig_5.xlsx
Description: Source data for SupplFig 5, panel A, B and C.
Sheet SupplFig5A: Sheet SupplFig1B: Western blot analysis of p-SNAP23 levels normalised to total SNAP23 was measured in the Platelets isolated from PKM2WT and PKM2Plt-KO mice, in the absence (resting platelets) and presence of Convulxin (activated).
Sheet SupplFig5B: Western blot analysis of PF4 in supernatants of Resting and activated platelets. Platelets isolated from PKM2WT and PKM2Plt-KO mice were stimulated with convulxin and centrifuged for 3 minutes. PF4 levels in the supernatant were measured by western blot and normalised to Ponceau.
Sheet SupplFig5C: The level of PF4 was measured in the whole cell lysate by western blot normalised to β-actin. Equal number of Platelets isolated from WT and PKM2Plt-KO mice and were lysed.
File: SourceData_supplFig_6.xlsx
Description: Source data for SupplFig 6, panel A and B.
Sheet SupplFig6A: western blot analysis showing dimer/tetramer ratio densitometry, in mouse platelets isolated 48 hours after sham or DVT surgery.
Sheet SupplFig6B: Quantification of the percentage of cells releasing NETs calculated in lower magnification. NETosis assay was performed by stimulating bone marrow-derived WT neutrophils co-incubated with ML265- or vehicle-pretreated thrombin-stimulated platelets.
File: SourceData_supplFig_9.xlsx
Description: Source data for SupplFig 9.
Sheet SupplFig9: Quantification of the percentage of cells releasing NETs calculated in lower magnification. NETosis assay was performed by stimulating human neutrophils with thrombin-activated human platelets in the presence or absence of ML265.
File: SourceData_Full_western_blots.pdf
Description: Source data for Figure 1C, 2B (p-SNAP23), 2B (PF4), 3C, 4B, 4C, 6B, S1A, S5A, S5B, S5C, S6A.
Human subjects data
Human platelets were obtained from healthy volunteers who provided informed consent and had not taken any antiplatelet medication within the preceding two weeks. Blood collection was conducted in accordance with the Declaration of Helsinki and approved by the Institutional Review Board at the University of Iowa.
Materials
ML265 was purchased from Cayman (CAS# 1221186-53-3). Apyrase, EGTA (ethylene glycol tetraacetic acid), prostaglandin I2 (PGI2), thrombin, and protease inhibitors were purchased from Sigma (St. Louis, MO, USA). Convulxin (CAS # 37206-04-5) was purchased from SantaCruz Biotech. Primary anti-PF4 antibodies (rabbit anti-mouse #ab182988, 1:1000; mouse anti-human #ab49735, 1:1000), anti-CitH3 (#ab5103, 1:1000) from Abcam and goat anti-rabbit IgG, HRP-linked secondary antibody (#7074, 1:2500) were from Cell Signaling Technologies; goat anti-mouse IgG, HRP-linked secondary antibody (#P0447, 1:2500) from Dako. SNAP23 and phospho-SNAP23 antibodies were gifted by Makoto Itakura, Department of Biochemistry, Kitasato University School of Medicine, Japan. Super Signal West Pico chemiluminescent substrate (#34580), Femto Maximum Sensitivity Substrate (#34096), and PVDF membrane (#IPVH00010) were the products from Thermo Scientific and Millipore, respectively. Hoechst dye (#33342) was purchased from ThermoFisher Scientific. Sytox™ green (#S7020) and prolong gold antifade mountant (#P36934) were purchased from Invitrogen. Zombie Violet Fixable Viability Kit (#423114), BV605-conjugated anti-mouse CD41 (#133921), and Alexa Fluor 647–conjugated Annexin V (#640943) were purchased from Biolegend. FITC-conjugated CD62P (#553744) was purchased from BD Pharmingen. All other reagents were of analytical grade.
Methods
Human subjects
Human platelets were obtained from healthy volunteers who provided informed consent and had not taken any antiplatelet medication within the preceding two weeks. Blood collection was conducted in accordance with the Declaration of Helsinki and approved by the Institutional Review Board at the University of Iowa.
Mice
Male mice, aged 12–13 weeks, on the C57BL/6J background were used throughout the study. Wild-type mice were obtained from the Jackson Laboratory. Platelet-specific PKM2-deficient mice (PKM2fl/flPF4Cre+) were generated by crossing PKM2fl/fl with PF4Cre+ mice at the University of Iowa animal facility; littermate PKM2fl/flPF4Cre– mice were used as control. For simplicity, from now on PKM2fl/flPF4Cre+ mice will be referred to as PKM2Plt-KO mice and PKM2fl/fl controls as PKM2WT. Mice were genotyped by polymerase chain reaction . Mice were kept in standard animal housing conditions with controlled temperature and humidity, and they had ad libitum access to a standard chow diet and water. The University of Iowa Animal Care and Use Committee approved all experiments.
Human and mouse platelet isolation
Briefly, human venous blood was collected into 10 mL tubes containing acid citric dextrose solution A (ACD-A). Mouse blood from anaesthetized mice was drawn from the retro-orbital plexus and collected into 1.5 mL polypropylene tubes containing enoxaparin (0.3 mg/mL; Sanofi-Aventis, US LLC).
ML265 preparation and administration for in vivo experiments
For in vitro and ex vivo assays, ML265 was dissolved in DMSO and used at final concentrations of 50 or 100 μM, with the final concentration of DMSO maintained at 0.1 % in all samples. For in vivo studies, ML265 was suspended in 0.1 % v/v Tween-80 and 0.5 % w/v carboxymethyl cellulose (CMC). The mice received ML265 at a dose of 50 mg/kg body weight via oral gavage 30 min before inducing DVT and then every 12 h until the animals were sacrificed. Control mice received the same volume of the vehicle (0.1 % v/v Tween-80 and 0.5 % w/v CMC) at the same time points. The appropriate concentrations of ML265 were determined based on our previous study.
Myography
Myography was performed using Myograph System 610M (Danish Myo technology) was used to determine the contraction and relaxation in veins. Briefly, IVC was excised, sufficiently cleaned, and placed into a dish filled with physiologic saline solution (PSS; prepared by dissolving 4.37 g NaCl, 4.47 g KCl, 0.16 g KH2PO4, 0.29 g MgSO4·7H2O, 1.25 g NaHCO3, 1.00 g dextrose, 0.0097 g EDTA, and 0.235 g CaCl2 in 1 L of water) to ensure vessel reactivity. Vessels were then cleaned and mounted on the wire myograph with the chambers filled with PSS and bubbled with a gas mixture of O2 and CO2. Myograph channels were zeroed for force readings to establish a baseline, and a wake-up protocol was utilized to ensure viability. The vessels were then subjected to 2-mN tension and allowed to equilibrate for 30 min. Vessels were then exposed to high-potassium (96 mM) saline solution (KPSS; prepared by dissolving 2.26 g NaCl, 7.16 g KCl, 0.16 g KH2PO4, 0.29 g MgSO4·7H2O, 1.25 g NaHCO3, 1.00 g dextrose, 0.0097 g EDTA, and 0.235 g CaCl2 in 1 L of water) to elicit contraction responses. This response was carried out for 15 min. The vessels were then washed 3 times for 10 min each with PSS. The wake-up protocol was performed twice. Next, vessels were contracted utilizing phenylephrine (0.5 mM) and then subjected to acetylcholine (1.62 mM) to relax for 10 minutes. The maximum relaxation point was considered when the curve plateau was maintained for 2 minutes.
NETosis assay
Freshly isolated neutrophils from the mouse bone marrow or human whole blood were seeded onto poly-L-lysine-coated coverslips (1 × 104 cells/coverslip). The cells were incubated at 37 °C for 1 h in a CO2 incubator and then co-incubated with thrombin-stimulated platelets (4 × 108 cells/mL) or their releasates for an additional 4 h in the same conditions. In this assay, platelets were treated with 0.1 U/mL thrombin for 10 min, centrifuged at 5000g for 5 mins at room temperature, and the resulting supernatant (releasate) was collected for further experiments. Ice-cold PBS was added to stop the reaction, and the coverslips were placed on ice for 10 min. The cells were fixed for 15 min in ice-cold PBS containing 2 % paraformaldehyde at room temperature. The fixed cells were then washed with ice-cold PBS. For specific staining of extracellular nuclear structures and nuclei, cells were incubated at room temperature with Sytox Green (Sigma) dye and Hoechst (Thermo Scientific), respectively, for 30 min at room temperature. Coverslips were washed with PBS and mounted onto glass slides using a drop of the mounting medium (ProLong™ Gold Antifade Mountant, ThermoFisher) before fluorescence microscopy analysis.
NETs quantification: NETs were imaged using fluorescence microscopy and analyzed with ImageJ (NIH, Bethesda, MD, USA). Images were converted to 8-bit grayscale, and a global threshold was applied. The total number of neutrophils based on size (~20 μm in diameter) was quantified from Hoechst staining using the Analyze Particles tool with a size range of 20–2000 μm². NET-positive cells (forming extracellular traps; web-like structure) were identified as irregular structures with a size range of ~50–2000 μm². For quantification, two 20x magnification fields were analyzed (coverslip edges were avoided). The percentage of NET-positive neutrophils was calculated by dividing the number of NET-positive cells by the total neutrophil count and multiplying by 100.
Flow cytometry
Mouse whole blood samples were collected through the retro-orbital plexus into ACD-A 48 h post-DVT surgery. Samples were diluted 1:20 in the Tyrode buffer (20 mM HEPES, 138 mM NaCl, 2.9 mM KCl, 1 mM MgCl2, 0.36 mM NaH2PO4, supplemented with 5 mM glucose and 0.2 % bovine serum albumin, pH 7.4), incubated with 2.1 mM CaCl2 for 10 min, stained with the antibody cocktail (Zombie Violet, CD41-BV605, CD62P-FITC, and Annexin V-Alexa Fluor 647) for 20 min in the dark, fixed in 0.2 % paraformaldehyde for 10 min in the dark, and analyzed using Cytek Aurora spectral flow cytometer (Cytek Biosciences Inc., Fremont, CA, USA). Platelet population of interest was characterized as Live+CD41+CD62P+AnnexinV+ cells.6 Antibodies were used at the final concentrations recommended by the manufacturers. All steps were performed at room temperature.
Bioflux flow chamber assay
Thrombosis assays with human whole blood were performed using BioFluxTM 200 (Fluxion Biosciences, USA) microfluidics flow chamber. The channels were coated with tissue factor (TF) (Innovin stock diluted 1:9 in HBSS) for 1 h at room temperature and then blocked with 1 % Bovine serum albumin (BSA) for 20 min. The whole blood was incubated with DiOC6 (5 μM) for 10 min. The whole blood was then pretreated with ML265 or vehicle (DMSO) for 10 min. Next, whole blood was treated with 10 mM of CaCl2 and immediately perfused over the TF-coated plate at a venous shear stress of 500 s−1 for 8 min. The fluorescently labeled platelets/thrombi on the TF-coated surface were analyzed with ImageJ (NIH, Bethesda, MD, USA).
Western blot analysis
Briefly, immediately after harvesting, a DVT thrombus was placed in a Petri dish containing PBS on ice to prevent protein degradation, transferred to a pre-chilled microcentrifuge tube containing an ice-cold RIPA lysis buffer, and homogenized by using micro-tube homogenizer system. The homogenate was centrifuged at 6000 × g for 10 min at 4 °C to remove cellular debris, and the supernatant was collected for further analysis. Thrombus lysate and platelet lysate proteins were separated on precast 4–20 % SDS-PAGE (sodium dodecyl sulfate-polyacrylamide gel electrophoresis) gradient gels and electrophoretically transferred to PVDF (polyvinylidene fluoride) membrane using Bio-Rad western blotting system. For PKM2 dimer and tetramer study, handcast 6 % native gels (without SDS) are used. PVDF membranes were blocked with 5 % BSA or skimmed milk in 10 mM Tris-HCl, 150 mM NaCl, pH 8.0 (TBS) containing 0.05 % Tween-20 for one hour at room temperature. Blots were incubated with a primary antibody overnight at 4 °C, followed by incubation with a horseradish peroxidase-conjugated secondary antibody for 1 h at room temperature. Blots were developed using enhanced chemiluminescence and quantified using Image J software from NIH (Bethesda, MD, USA).
Ponceau Staining: PVDF membranes were rinsed with distilled water, then incubated in the Ponceau S solution for 30 min at room temperature on a shaker to stain the protein bands. After staining, membranes were washed in distilled water for 2–3 min until the red protein bands were clearly visible against the clear background.
Plasma recalcification assay
Briefly, the blood was collected from mice in 3.8% trisodium citrate. The platelet-poor plasma (PPP) was obtained by centrifuging the blood at 2650 rpm for 5 min and 30 s. The recalcification of plasma was initiated by adding 25 mM CaCl2. The optical density of plasma at 405 nm was observed using a spectrophotometer (Spectramax ID3, Molecular Devices) every minute up to 10 min to estimate fibrin formation in PPP.
Deep venous thrombosis (DVT) model
Briefly, mice were anesthetized and underwent a midline laparotomy. A spacer (30-gauge, 3-mm-long needle) was positioned on the exposed IVC, and a permanent narrowing ligature (with 5-0 nonabsorbable silk sutures) was tied around the IVC and spacer immediately caudal to the junction of the left renal vein. Next, the spacer was removed to restrict the IVC blood flow by 80-90 %. All visible side branches were ligated. Mice were then allowed to recover and were sacrificed 48 h post-surgery (the time required for complete thrombus formation in this model). Control and experimental mice were operated on in batches on the same day to minimize day-to-day variation. Thrombi were isolated from the vessels, and their length and weight were measured. In some mice, thrombi were further processed for western blotting.
Microfluidic studies using custom-made DVT device
DVT was simulated ex vivo using a custom-fabricated microfluidic device consisting of a 150-µm wide channel expanding into a 300 µm-wide channel at an angle of 150° to define two model valve pockets. TF (undiluted) adsorbed into the wide channel and pockets by careful backfilling via pipette aspiration and allowed to incubate for 1 h at room temperature. The device was flushed with 2 % BSA and then blocked with 2 % BSA for 1 h. Citrated whole blood was pre-treated with ML265 (150 μM) or vehicle and incubated with DiOC6 (1 µM) to visualize platelets and leukocytes for 15 min at 37 °C. Whole blood and recalcification buffer (75 mM CaCl2 and 37.5 mM MgCl2 in HEPES-buffered saline, pH 7.4) were mixed upstream of the inlet of the device in T-junction at a volumetric ratio of 9:1 (blood : buffer) and perfused through the device at a flow rate of 372 µL/min for 30 min using two syringe pumps (Harvard Apparatus PhD 2000 and New Era NE300), corresponding to a Reynolds number (the ratio of inertial forces/viscous forces) of 10, enabling secondary flows into the valve pockets. Platelet and leukocyte accumulation was captured by confocal microscopy (Olympus IX83 with Yokogawa CSU-W1 Confocal Scanner Unit, 20x) every 10 s. Kinetic data all utilized the same combined region of interest (ROI) based on the dimensions of the valve pockets in the device. Fluorescent images were thresholded using the ‘Max Entropy’ algorithm in ImageJ and processed into binary masks. The area covered over time within each valve pocket ROI was measured using ImageJ and normalized to the total area of each valve pocket ROI. Final images (20x) at the end of the experiment (25 min) were used for endpoint thrombus size measurements, and fraction of total valve pocket area was reported.
Statistical analysis
Continuous variables were presented as mean ± standard error (SEM) or as median with interquartile range and range, as specified. Categorical variables were presented as counts, proportions, and/or percentages. For continuous variables, differences between two groups were evaluated using the Mann–Whitney U test or Student’s t-test, and differences between three or more groups using one- or two-way ANOVA followed by a post hoc multiple comparisons test. For categorical variables, differences between two groups were evaluated using the Fisher’s exact test. Two-tailed P values less than 0.05 was considered statistically significant. All analyses were performed using GraphPad Prism software, version 10.6.0.
