ScRNAseq analysis of hepatocytes from p16-Tom mice following CCl4 treatment
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ABSTRACT:
ORGANISM(S): Mus musculus
PROVIDER: GSE312805 | GEO | 2026/03/02
REPOSITORIES: GEO
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Project description:BACKGROUND: Ischemic heart disease remains a leading cause of mortality worldwide, with adverse remodeling post-myocardial infarction (MI) driven by inflammation and cardiomyocyte loss. While cytotoxic lymphocytes exacerbate injury, and p16 marks cellular senescence in diseased hearts, the cell-type-specific roles of P16+ populations remain undefined. METHODS: Using p16-CreER;R26-tdT reporter mice, we mapped P16+ cellular heterogeneity post-MI. Senolytic effects were assessed via combination of dasatinib and quercetin (DQ) administration. Transcriptomic profiling (bulk/scRNA-seq) of sorted P16+ cells identified secreted factors, validated by in silico predictions and qPCR. Intercellular communication was analyzed using CellChat. Functional roles were tested via CCL8 neutralization, genetic Ccl8 ablation in P16+ cells, lymphocyte depletion, and intersectional genetic ablation of P16+ fibroblasts/macrophages using dual-recombinase systems (p16-DreER;Pdgfra-CreER;R26-lr-tdT-DTR and p16-DreER;Cx3cr1-CreER;R26-lr-tdT-DTR). RESULTS: P16 was induced in fibroblasts, macrophages, coronary endothelial cells, and cardiomyocytes post-MI. DQ treatment selectively eliminated P16+ macrophages and fibroblasts, improving cardiac function. Transcriptomics revealed P16+ macrophages and fibroblasts as primary CCL8 sources. CCL8 blockade reduced infiltration of cytotoxic lymphocytes (CD8+ T cells and NK cells), decreased cardiomyocyte apoptosis, and improved repair. Genetic Ccl8 ablation in P16+ cells replicated these benefits. Crucially, intersectional genetic ablation of P16+ fibroblasts, but not macrophages, reduced fibrosis and enhanced function, whereas CD8+ T cell (not NK cell) depletion attenuated remodeling. CONCLUSIONS: P16+ cells orchestrate adverse post-MI remodeling via CCL8-dependent recruitment of cytotoxic lymphocytes, expecially CD8+ T cells, driving cardiomyocyte apoptosis. Precision targeting of P16+ fibroblasts or CCL8 blockade represents a promising therapeutic strategy for ischemic heart disease.
2026-02-23 | GSE303571 | GEO
Project description:BACKGROUND: Ischemic heart disease remains a leading cause of mortality worldwide, with adverse remodeling post-myocardial infarction (MI) driven by inflammation and cardiomyocyte loss. While cytotoxic lymphocytes exacerbate injury, and p16 marks cellular senescence in diseased hearts, the cell-type-specific roles of P16+ populations remain undefined. METHODS: Using p16-CreER;R26-tdT reporter mice, we mapped P16+ cellular heterogeneity post-MI. Senolytic effects were assessed via combination of dasatinib and quercetin (DQ) administration. Transcriptomic profiling (bulk/scRNA-seq) of sorted P16+ cells identified secreted factors, validated by in silico predictions and qPCR. Intercellular communication was analyzed using CellChat. Functional roles were tested via CCL8 neutralization, genetic Ccl8 ablation in P16+ cells, lymphocyte depletion, and intersectional genetic ablation of P16+ fibroblasts/macrophages using dual-recombinase systems (p16-DreER;Pdgfra-CreER;R26-lr-tdT-DTR and p16-DreER;Cx3cr1-CreER;R26-lr-tdT-DTR). RESULTS: P16 was induced in fibroblasts, macrophages, coronary endothelial cells, and cardiomyocytes post-MI. DQ treatment selectively eliminated P16+ macrophages and fibroblasts, improving cardiac function. Transcriptomics revealed P16+ macrophages and fibroblasts as primary CCL8 sources. CCL8 blockade reduced infiltration of cytotoxic lymphocytes (CD8+ T cells and NK cells), decreased cardiomyocyte apoptosis, and improved repair. Genetic Ccl8 ablation in P16+ cells replicated these benefits. Crucially, intersectional genetic ablation of P16+ fibroblasts, but not macrophages, reduced fibrosis and enhanced function, whereas CD8+ T cell (not NK cell) depletion attenuated remodeling. CONCLUSIONS: P16+ cells orchestrate adverse post-MI remodeling via CCL8-dependent recruitment of cytotoxic lymphocytes, expecially CD8+ T cells, driving cardiomyocyte apoptosis. Precision targeting of P16+ fibroblasts or CCL8 blockade represents a promising therapeutic strategy for ischemic heart disease.
2026-02-23 | GSE305646 | GEO
Project description:We performed the single cell RNA sequencing of mouse normal kidney, normal liver, and NASH-induced liver from p16-tdTomato mice. In order to enrich p16 positive cells, we independently sorted the non-separated cells (including both of p16 positive and negative cells) and p16 positive cells alone through tdTomato intensity by FACS. By obtaining 13,876 single cell transcripts, after the graph-based clustering and marker genes defined cell type classification, we identified the heterogeneity of in vivo p16-positive cells which dispersedly existed in renal cells and non-parenchymal hepatic cells. Differential expressing genes (DEGs) comparisons for each cell type were feasible to study the in vivo p16 dependent transcriptomic pattern change. Finally, we verified several cell type specific senescence-like phenotypes which were previously found on in vitro cellular senescence, and also identified the p16-related subpopulation which might involve in NASH progression and renal damage response.
2020-09-16 | GSE155182 | GEO
Project description:We employed the Chromium GEM-X single-cell RNA sequencing platform by 10x Genomics to investigate how the removal of p16-high-expressing cells affects the lung single-cell transcriptome of 22-month-old male mice. In this experiment, we utilized p16-CreERT2/R26-LSL-DTR mice, administering tamoxifen and diphtheria toxin at 21 months of age. Lung tissues were harvested two weeks later for analysis. Our objective was to examine how the elimination of p16-high cells influences intercellular interactions among diverse cell types in aged lungs.
2025-07-02 | GSE300530 | GEO
Project description:PTPRD is a tumor suppressor of glioma that is frequently co-deleted with CDKN2A/p16. We show that Ptprd and p16 cooperate to promote gliomagenesis in the RCAS PDGFB / Nestin tv-A glioma mouse model. We found unique gene expression changes within tumor cells of Ptprd+/-p16-/- vs. Ptprd+/+p16-/- and Ptprd-/-p16-/- tumor cells. Neonatal mice were injected with RCAS PDGFB GFP. At symptoms, or at 12 weeks post injection, GFP+DAPI- tumor cells were sorted for RNA extraction and hybridization on Affymetrix microarrays. The mouse strain used was a mixed background of C57/BL6 and FVB/N. Ptprd mice were from Uetani et al. 2000 and p16/Nestin-tvA mice were from Tchouganouva et al. 2007.
2014-06-02 | E-GEOD-55061 | biostudies-arrayexpress
Project description:Solanum lycopersicum strain:Micro-Tom | cultivar:Micro-Tom Raw sequence reads
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Project description:Head and neck squamous cell carcinomas are heterogeneous neoplasms that show clinical and biological differences in association with the human papillomavirus (HPV). To provide adequate therapeutic strategies, biological and clinical characterization is essential to stratify patients based on prognostic and predictive factors. Reports on HNSCC are scarce in Mexico, thus in the present study, we analyze 414 cases of HNSCC, including those of the oropharynx (OPSCC), larynx (LASCC), and oral cavity (OCSCC). We determined the presence of HPV and p16 expression. Global expression profiles were analyzed with Affymetrix HTA 2.0 microarray in 25 selected cases HPV+/p16+ versus HPV-/p16-. In our study we analyze 25 samples derived from HNSCC patients. 18 samples were HPV-/p16- and 7 HPV+/p16+. We compared the HPV-/p16- versus the HPV+/p16+ and identified differentially expressed RNAs with a fold change greater than 1.5 or less than -1.5. These data were used to obtain 98 genes that are differentially expressed in absence of HPV. The present study offers information regarding clinical and molecular characteristics of HNSCC, both associated and unassociated with HPV, in Mexican patients.
2021-12-01 | GSE181805 | GEO
Project description:PTPRD is a tumor suppressor of glioma that is frequently co-deleted with CDKN2A/p16. We show that Ptprd and p16 cooperate to promote gliomagenesis in the RCAS PDGFB / Nestin tv-A glioma mouse model. We found unique gene expression changes within tumor cells of Ptprd+/-p16-/- vs. Ptprd+/+p16-/- and Ptprd-/-p16-/- tumor cells.
2014-06-02 | GSE55061 | GEO
Project description:In our laboratory, we developed a new knock-in murine model to trace p16 cells ex vivo using EGFP as a reporter gene under the control of the endogenous promoter (exon 3) of the p16 locus from the CDKN2A gene (p16-Cre/Rosa26-mtmg). We showed previously that cells positive for p16-EGFP accumulated during natural aging. We previously reported (Grosse et al, 2020) that among this cells, liver endothelial cells and macrophages from liver and other tissues are the main population going into p16 activation. We are now analyzing the characteristics of p16High tissue resident peritoneal macrophages to understant the roll they have during adulhood and aging.
2025-01-01 | GSE268932 | GEO
Project description:Transcriptional profiling of p16-induced senescent human diploid fibroblasts compared with proliferating cells. TIG-3 ER-p16 cells (primary normal human diploid fibroblasts expressing a 4-hydroxytamoxifen(4-OHT) regulatable form of human p16) were cultured for 7 days with or without 4-OHT. Total RNA was isolated using TRIzol reagent and were analyzed using the hum
2014-04-10 | E-GEOD-49863 | biostudies-arrayexpress