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Series GSE215305 Query DataSets for GSE215305
Status Public on Oct 14, 2022
Title Muscle injury induces a transient senescence-like state that is required for myofiber growth during muscle regeneration [Spatial Transcriptomics]
Organism Mus musculus
Experiment type Expression profiling by high throughput sequencing
Summary Cellular senescence is the irreversible arrest of normally dividing cells and is driven by the cell cycle inhibitors Cdkn2a, Cdkn1a, and Trp53. Senescent cells are implicated in chronic diseases and tissue repair through their increased secretion of proinflammatory factors known as the senescence-associated secretory phenotype (SASP). Here, we use spatial transcriptomics and single-cell RNA sequencing (scRNAseq) to demonstrate that cells displaying senescent characteristics are “transiently" present within regenerating skeletal muscle and within the muscles of D2-mdx mice, a model of Muscular Dystrophy. Following injury, multiple cell types including macrophages and fibro-adipogenic progenitors (FAPs) upregulate senescent features such as senescence pathway genes, SASP factors, and senescence-associated beta-gal (SA-β-gal) activity. Importantly, when these cells were removed with ABT-263, a senolytic compound, satellite cells are reduced, and muscle fibers were impaired in growth and myonuclear accretion. These results highlight that an “acute” senescent phenotype facilitates regeneration similar to skin and neonatal myocardium.
Overall design 10x Genomics Visium platform was used to assay the spatial distribution of skeletal muscle transcriptome in situ in D2-Mdx mouse, a model of muscular dystrophy. Gastrocnemius muscle of 8-week old D2-Mdx mouse was dissected and frozen in OCT compound using liquid nitrogen-cooled 2-methylbutane. We performed spatial transcriptomics on a 10µm section of this tissue. To identify spatially-correlated genes expressed preferentially within areas of focal regeneration in the dystrophic muscle, we used SpatialDE2 (Kats et al., 2021) (all spatially-variable genes provided in metadata).
Contributor(s) Young LV, Wakelin GM, Johnston AP
Citation(s) 36190443
Submission date Oct 12, 2022
Last update date Dec 02, 2022
Contact name Adam Johnston
Organization name Dalhousie University
Department Medical Neuroscience
Lab Johnston Lab
Street address 1344 Summer Street
City Halifax
State/province NS
ZIP/Postal code B3H0A8
Country Canada
Platforms (1)
GPL24247 Illumina NovaSeq 6000 (Mus musculus)
Samples (1)
GSM6631766 mmusculus_GASTROC_mdx
BioProject PRJNA889740

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Supplementary file Size Download File type/resource
GSE215305_RAW.tar 38.2 Mb (http)(custom) TAR (of H5AD, TAR)
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Raw data are available in SRA
Processed data provided as supplementary file

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