 |
 |
GEO help: Mouse over screen elements for information. |
|
| Status |
Public on Oct 22, 2020 |
| Title |
Dissecting the effect of a 3D micro-scaffold on the transcriptome of Neural Stem Cells with computational genomics |
| Organism |
Mus musculus |
| Experiment type |
Expression profiling by high throughput sequencing
|
| Summary |
3D cell cultures are becoming more and more important in the field of regenerative medicine due to their ability to mimic the cellular physiological microenvironment. Among the different types of 3D scaffolds there is the Nichoid: an engineered 3D micro-scaffold with a structure inspired by the natural staminal niche. The Nichoid can activate cellular response simply by subjecting the cells to mechanical stimuli. This kind of influence results in different cellular morphology and organization, but the molecular bases of these changes remain largely unknown. Here, we show that the main cellular response to the Nichoid is an alteration of the mechanotransduction, which in turn affects the global cellular activity. Through RNA-seq approach on murine Neural Precursors Stem Cells (NPCs) expanded inside the Nichoid, we investigated the deregulated genes and pathways showing that the Nichoid causes alteration in genes strongly connected to mechanical properties. We found 1934 deregulated RNAs, 81% of which were coding genes. Moreover, we fully dissected this mechanism highlighting how the changes start at a membrane level, with subsequent alterations in the cytoskeleton, signalling pathways, and metabolism, all leading to a final alteration in gene expression. The results shown here demonstrate that the 3D scaffold Nichoid influences the biological and genetic response of stem cells thorough specific alterations of cellular signaling.
|
| |
|
| Overall design |
3 Neural Precursor Stem Cells (NPCs) grown in standard floating condition (CTRL) and 3 NPCs grown inside the Nichoid (NIC)
|
| |
|
| Contributor(s) |
Rey F, Pandini C, Barzaghini B, Giallongo T, Messa L, Pansarasa O, Gagliardi S, Brilli M, Zuccotti GV, Cereda C, Raimondi MT, Carelli S |
| Citation(s) |
32942778 |
| |
| Submission date |
May 18, 2020 |
| Last update date |
Oct 22, 2020 |
| Contact name |
Stella Gagliardi |
| E-mail(s) |
stella.gagliardi@mondino.it
|
| Organization name |
IRCCS Mondino Foundation
|
| Department |
GPG center
|
| Street address |
Via Mondino, 2
|
| City |
Pavia |
| State/province |
Pavia |
| ZIP/Postal code |
27100 |
| Country |
Italy |
| |
|
| Platforms (1) |
| GPL19057 |
Illumina NextSeq 500 (Mus musculus) |
|
| Samples (6)
|
| GSM4558306 |
CRT1_S1: NPCs grown in floating conditions |
| GSM4558307 |
CRT2_S2: NPCs grown in floating conditions |
| GSM4558308 |
CRT4_S4: NPCs grown in floating conditions |
|
| Relations |
| BioProject |
PRJNA633537 |
| SRA |
SRP262150 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE150767_RAW.tar |
8.6 Mb |
(http)(custom) |
TAR (of TXT) |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data provided as supplementary file |
|
|
|
|
 |
Less...
More...