GSE207251
GSE GEOPrions induce an early Arc response in the hippocampus of prion-infected mice
Relations
Summary
Synapse dysfunction and synaptic loss are a central feature of neurodegenerative disorders, including prion disease. The cellular prion protein (PrPC) binds prion, amyloid-β, tau, and α-synuclein oligomers, resulting in the activation of macromolecular complexes and signaling at the post-synapse, yet the initial signaling events are unclear. Here we used a transcriptomic approach focused on the early-stage, prion-infected hippocampus of male wild type mice, and identify immediate early genes, including the synaptic activity response gene, Arc/Arg3.1, as significantly upregulated. In a longitudinal study of the prion-infected hippocampus, Arc/Arg-3.1 protein increased, from early to terminal disease. Notably, metabotropic glutamate receptor levels (mGluR5 dimers) were markedly reduced over time, while phosphorylated AMPA receptors (pGluA1-S845) levels increased. Sporadic Creutzfeldt-Jakob disease (sCJD) post-mortem cortical samples also showed low levels of mGluR5 dimers. Together, these findings suggest that prions trigger a chronic Arc response, an increase in phosphorylated GluA1, and a reduction in mGluR5 receptors beginning in early disease.
Overall Design
RNA-seq for prion (22L strain)- or mock-inoculated C57/BL6J male mice at 63 days post inoculation or 40% in disease progression to terminal disease
Analysis (4 steps)
View Data Processing- Adapters trimmed with cutadapt (v1.4.0)
- Reads mapping to repetitive elements (RepBase v18.04) with STAR were removed
- Remaining reads were mapped to mouse genome mm9 with STAR (v2.4.0i)
- FeatureCounts was used to assign reads to genes (v1.5.0)
Supplementary Files (2)
GEO Samples (6)
Dataset Citations (1)
SRA Experiments (6) and Runs (6)
Total: 11103 MBSample attributes
Original files (1)
Runs (1)
| Run | Spots | Bases | Size (MB) | Files | Link |
|---|---|---|---|---|---|
| SRR19907652 | 25997031 | 5251400262 | 1641.89 | 2712_1_S25_L003_R1_001.fastq.gz, 2712_1_S25_L003_R2_001.fastq.gz, SRR… | SRA |
Sample attributes
Original files (1)
Runs (1)
| Run | Spots | Bases | Size (MB) | Files | Link |
|---|---|---|---|---|---|
| SRR19907651 | 36115239 | 7295278278 | 2293.4 | 2712_2_S26_L003_R1_001.fastq.gz, 2712_2_S26_L003_R2_001.fastq.gz, SRR… | SRA |
Sample attributes
Original files (1)
Runs (1)
| Run | Spots | Bases | Size (MB) | Files | Link |
|---|---|---|---|---|---|
| SRR19907650 | 26366642 | 5326061684 | 1675.98 | 2712_3_S27_L003_R1_001.fastq.gz, 2712_3_S27_L003_R2_001.fastq.gz, SRR… | SRA |
Sample attributes
Original files (1)
Runs (1)
| Run | Spots | Bases | Size (MB) | Files | Link |
|---|---|---|---|---|---|
| SRR19907649 | 31646862 | 6392666124 | 2004.73 | 2713_2_S28_L003_R1_001.fastq.gz, 2713_2_S28_L003_R2_001.fastq.gz, SRR… | SRA |
Sample attributes
Original files (1)
Runs (1)
| Run | Spots | Bases | Size (MB) | Files | Link |
|---|---|---|---|---|---|
| SRR19907648 | 30107994 | 6081814788 | 1924.22 | 2713_3_S29_L003_R1_001.fastq.gz, 2713_3_S29_L003_R2_001.fastq.gz, SRR… | SRA |
Sample attributes
Original files (1)
Runs (1)
| Run | Spots | Bases | Size (MB) | Files | Link |
|---|---|---|---|---|---|
| SRR19907647 | 24602138 | 4969631876 | 1562.6 | 2713_4_S30_L003_R1_001.fastq.gz, 2713_4_S30_L003_R2_001.fastq.gz, SRR… | SRA |
Linked Publications (2)
Data Files (6)
| Accession | File Name | Stored Type | Output Type | Mapping Assembly | Size | Download | |
|---|---|---|---|---|---|---|---|
| — | 2712_1_S25_L003_R1_001.fastq.gz | RNA-Seq | 1.6 GB | link | |||
| — | 2712_2_S26_L003_R1_001.fastq.gz | RNA-Seq | 2.2 GB | link | |||
| — | 2712_3_S27_L003_R1_001.fastq.gz | RNA-Seq | 1.6 GB | link | |||
| — | 2713_2_S28_L003_R1_001.fastq.gz | RNA-Seq | 2.0 GB | link | |||
| — | 2713_3_S29_L003_R1_001.fastq.gz | RNA-Seq | 1.9 GB | link | |||
| — | 2713_4_S30_L003_R1_001.fastq.gz | RNA-Seq | 1.5 GB | link |