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Monocyte/macrophage heterogeneity during skin wound healing in mice

ABSTRACT: Monocyte/macrophage heterogeneity during skin wound healing in mice

PROVIDER: PRJNA839240 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR19262444_1.fastq.gz	Fastqsanger.gz
	SRR19262444_2.fastq.gz	Fastqsanger.gz
	SRR19262445_1.fastq.gz	Fastqsanger.gz
	SRR19262445_2.fastq.gz	Fastqsanger.gz
	SRR19262446_1.fastq.gz	Fastqsanger.gz

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Transcription Factor Activity Regulating Macrophage Heterogeneity during Skin Wound Healing

Project description:Transcription Factor Activity Regulating Macrophage Heterogeneity during Skin Wound Healing

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Metabolic Reprogramming and Reliance in Human Skin Wound Healing

Project description:Impaired skin wound healing is a significant global health issue, especially among the elderly. Wound healing is a well-orchestrated process involving the sequential phases of inflammation, proliferation, and tissue remodeling. Although wound healing is a highly dynamic and energy-requiring process, the role of metabolism remains largely unexplored. By combining transcriptomics and metabolomics of human skin biopsy samples, we mapped the core bioenergetic and metabolic changes in normal acute as well as chronic wounds in elderly subjects. We found upregulation of glycolysis, the tricarboxylic acid cycle, glutaminolysis, and β-oxidation in the later stages of acute wound healing and in chronic wounds. To ascertain the role of these metabolic pathways on wound healing, we targeted each pathway in a wound healing assay as well as in a human skin explant model using metabolic inhibitors and stimulants. Enhancement or inhibition of glycolysis and, to a lesser extent, glutaminolysis had a far greater impact on wound healing than similar manipulations of oxidative phosphorylation and fatty acid β-oxidation. These findings increase the understanding of wound metabolism and identify glycolysis and glutaminolysis as potential targets for therapeutic intervention.

2024-07-02 | MTBLS3315 | MetaboLights

Monocyte/Macrophage Heterogeneity during Skin Wound Healing in Mice.

Project description:Monocytes (Mos)/macrophages (Mϕs) orchestrate biological processes critical for efficient skin wound healing. However, current understanding of skin wound Mo/Mϕ heterogeneity is limited by traditional experimental approaches such as flow cytometry and immunohistochemistry. Therefore, we sought to more fully explore Mo/Mϕ heterogeneity and associated state transitions during the course of excisional skin wound healing in mice using single-cell RNA sequencing. The live CD45+CD11b+Ly6G- cells were isolated from skin wounds of C57BL/6 mice on days 3, 6, and 10 postinjury and captured using the 10x Genomics Chromium platform. A total of 2813 high-quality cells were embedded into a uniform manifold approximation and projection space, and eight clusters of distinctive cell populations were identified. Cluster dissimilarity and differentially expressed gene analysis categorized those clusters into three groups: early-stage/proinflammatory, late-stage/prohealing, and Ag-presenting phenotypes. Signature gene and Gene Ontology analysis of each cluster provided clues about the different functions of the Mo/Mϕ subsets, including inflammation, chemotaxis, biosynthesis, angiogenesis, proliferation, and cell death. Quantitative PCR assays validated characteristics of early- versus late-stage Mos/Mϕs inferred from our single-cell RNA sequencing dataset. Additionally, cell trajectory analysis by pseudotime and RNA velocity and adoptive transfer experiments indicated state transitions between early- and late-state Mos/Mϕs as healing progressed. Finally, we show that the chemokine Ccl7, which was a signature gene for early-stage Mos/Mϕs, preferentially induced the accumulation of proinflammatory Ly6C+F4/80lo/- Mos/Mϕs in mouse skin wounds. In summary, our data demonstrate the complexity of Mo/Mϕ phenotypes, their dynamic behavior, and diverse functions during normal skin wound healing.

| S-EPMC9643652 | biostudies-literature

Transcription Factor Activity Regulating Macrophage Heterogeneity during Skin Wound Healing

Project description:We aimed to study chromatin accessibility for TF binding sites for inferring TF activity in monocytes and macrophages during skin wound healing. Monocytes and macrophages isolated from skin wounds on male C57BL6/J mice on day 3 and 6 post-injury, subjected to enzymatic digestion to obtain single cells and pooled from two mice per time point. Nuclei were processed using the 10x Chromium platform. Libraries sequenced on NovaSeq 6000 with paired-end reads. Fastq files were generated and demultiplexed into single cells using Cell Ranger software.

2024-08-14 | GSE250317 | GEO

Exploring mechanisms of scar-free skin wound healing in adult zebrafish

Project description:We performed single-cell RNA sequencing to better characterize the dynamics and heterogeneity of involved cell types during different stages of zebrafish cutaneous wound healing.

2025-09-12 | GSE306419 | GEO

Spatiotemporal Single-Cell Roadmap of Human Skin Wound Healing (Single-cell-Wound)

Project description:The process of wound healing in humans is poorly understood. To identify spatiotemporal gene expression patterns during human wound healing, we performed single cell and spatial transcriptomics profiling of human in vivo wound samples.

2024-09-04 | GSE241132 | GEO

Single-cell RNA-sequencing of skin immune cells uncover a role for Angptl4-mediated ifi20b expression in monocyte cell fate differentiation during wound healing

Project description:Angiopoietin-like protein 4 (Angptl4) is a matricellular protein that associates with extracellular matrix proteins, mediating complex cell-cell, and cell-matrix interactions. It has been implicated in various inflammation-associated diseases, including wound healing, but very few reports describe a direct role for Angptl4 in the immune landscape of wound microenvironment. Here, we studied whether Angptl4 regulates the immune response during wound healing. Using single-cell RNA sequencing to examine the temporal changes in the immune cell landscape of excisional wounds from wild type and Angplt4-knockout (Angplt4-/-) mice revealed that Angptl4-/- wounds had a stalled inflammatory phase. Infiltrated neutrophils remained elevated in the Angptl4-/- wounds due to an impaired monocyte to macrophage differentiation needed for clearance. The impaired monocyte differentiation was also validated in wounds using multi-color flow cytometry. Pairwise comparisons of differentially expressed genes from wound-derived and bone-marrow derived macrophages demonstrated few differences, suggesting that Angptl4 has a confined regulome. We identified interferon activated protein 202B (ifi202b) to be consistently upregulated in Angptl4-/- macrophages. . Pathway analysis further confirmed that ifi202b significantly impacted multiple gene networks involved in the cell fate of monocytes and the functions of monocyte-derived macrophages. Taken altogether, we conclude that Angptl4 orchestrates the inflammatory state, innate immune landscape, and healing process in the wound microenvironment via its transcriptional regulation on ifi202b.

2022-03-02 | GSE186986 | GEO

Human Skin Transcriptome during Epidermal Wound Healing

Project description:In order to clarify the human response of re-epithelialization, we biopsied split-thickness skin graft donor site wounds immediately before and after harvesting, as well as during the healing process 3 and 7 days thereafter. Altogether 25 biopsies from 8 patients qualified for the study. All samples were analysed by genome-wide microarrays. Here we identified the genes associated with normal skin re-epithelialization on time-scale, and organized them by similarities according to their induction or suppression patterns during wound healing. Overall 25 samples were analyzed

2011-04-29 | E-GEOD-28914 | biostudies-arrayexpress

Spatiotemporal Single-Cell Roadmap of Human Skin Wound Healing (Spatial)

Project description:The process of wound healing in humans is poorly understood. To identify spatiotemporal gene expression patterns during human wound healing, we performed spatial transcriptomics profiling of human in vivo wound samples.

2024-09-04 | GSE241124 | GEO

Monocyte/macrophage heterogeneity during skin wound healing in mice

Project description:Monocytes and macrophages isolated from skin wounds on male C57BL6/J mice on day 3, 6, and 10 post-injury, subjected to enzymatic digestion to obtain single cells and pooled from two mice per time point. Fresh cells with viability over 70% processed using the 10x Chromium platform. Libraries sequenced on HiSeq with paired-end reads. Fastq files were generated and demultiplexed into single cells using Cell Ranger software

2022-09-08 | GSE203244 | GEO

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