|
| Status |
Public on Mar 15, 2022 |
| Title |
ATAC-Seq of young and aged satellite cells |
| Organism |
Mus musculus |
| Experiment type |
Genome binding/occupancy profiling by high throughput sequencing
|
| Summary |
The function of skeletal muscle stem cells (MuSC) declines during aging, contributing to the advent of age-related myopathies. However, whether this decline is the result of accumulating cellular damage, altered heterogeneity in stem cell populations or due to the effect of the changing niche environment remains largely unknown. By scRNA-Seq, we show that the age-related reduction in the MuSC pool is not stochastic, with different subpopulations being distinctly affected in aging. Using an in vivo allogeneic stem cell transplantation model, we show that exposure of MuSCs from old mice to a youthful niche environment significantly restores the gene expression of genes that are altered in aging. We show that age-related changes in the MuSC transcriptome are mainly driven by alterations in chromatin and transcription but are not due to posttranscriptional mechanisms affecting RNA stability. Furthermore, our data indicates that the portion of the genome that is activated in aging is significantly more responsive to restoration by niche factors compared to the repressed counterpart. Taken together, our data reveals that the niche environment plays a decisive role in controlling the transcriptional activity of MuSCs.
|
| |
|
| Overall design |
5000 satellite cells were isolated by Fluorescence-Activated Cell Sorting (FACS) from 2 young and 2 aged Pax7-eGFP male mice and sorted directly into ATAC-Seq Lysis buffer. Each sample was processed using a modified version of the OMNI ATAC-Seq protocol (Corces, M. R. et al. Nature Methods, 2017).
|
| |
|
| Contributor(s) |
Soleimani VD, Najafabadi HS |
| Citation(s) |
35188098, 36726011 |
| |
| Submission date |
Apr 05, 2021 |
| Last update date |
Feb 10, 2023 |
| Contact name |
Vahab Soleimani |
| E-mail(s) |
vahab.soleimani@mcgill.ca
|
| Organization name |
McGill University
|
| Department |
Human Genetics
|
| Street address |
3640 rue University
|
| City |
Montreal |
| State/province |
QC |
| ZIP/Postal code |
H3A 0C7 |
| Country |
Canada |
| |
|
| Platforms (2) |
| GPL19057 |
Illumina NextSeq 500 (Mus musculus) |
| GPL24247 |
Illumina NovaSeq 6000 (Mus musculus) |
|
| Samples (4)
|
|
| This SubSeries is part of SuperSeries: |
| GSE171998 |
Transcriptional reprogramming of skeletal muscle stem cells by the niche environment |
|
| Relations |
| BioProject |
PRJNA719868 |
| SRA |
SRP313576 |
Less...
More...