Increased neutrophils in inflammatory bowel disease accelerate the accumulation of amyloid plaques in the mouse model of Alzheimer's disease
Download from source ↗Dataset overview
Increased neutrophils in inflammatory bowel disease accelerate the accumulation of amyloid plaques in the mouse model of Alzheimer's disease.
Abstract
<h4>Background</h4>Alzheimer's disease (AD) is one of the neurodegenerative diseases and characterized by the appearance and accumulation of amyloid-β (Aβ) aggregates and phosphorylated tau with aging. The aggregation of Aβ, which is the main component of senile plaques, is closely associated with disease progression. App<sup>NL-G-F</sup> mice, a mouse model of AD, have three familial AD mutations in the amyloid-β precursor gene and exhibit age-dependent AD-like symptoms and pathology. Gut-brain interactions have attracted considerable attention and inflammatory bowel disease (IBD) has been associated with a higher risk of dementia, especially AD, in humans. However, the underlying mechanisms and the effects of intestinal inflammation on the brain in AD remain largely unknown. Therefore, we aimed to investigate the effects of intestinal inflammation on AD pathogenesis.<h4>Methods</h4>Wild-type and App<sup>NL-G-F</sup> mice at three months of age were fed with water containing 2% dextran sulfate sodium (DSS) to induce colitis. Immune cells in the brain were analyzed using single-cell RNA sequencing (scRNA-seq) analysis, and the aggregation of Aβ protein in the brain was analyzed via immunohistochemistry.<h4>Results</h4>An increase in aggregated Aβ was observed in the brains of App<sup>NL-G-F</sup> mice with acute intestinal inflammation. Detailed scRNA-seq analysis of immune cells in the brain showed that neutrophils in the brain increased after acute enteritis. Eliminating neutrophils by antibodies suppressed the accumulation of Aβ, which increased because of intestinal inflammation.<h4>Conclusion</h4>These results suggest that neutrophils infiltrate the AD brain parenchyma when acute colitis occurs, and this infiltration is significantly related to disease progression. Therefore, we propose that neutrophil-targeted therapies could reduce Aβ accumulation observed in early AD and prevent the increased risk of AD due to colitis.
doi:10.1186/s41232-023-00257-7 ↗ PMID 36922861 ↗ PMC10015716 ↗
Study facts
- Organism
- Mus musculus
- Platform
- Illumina NovaSeq 6000
- Age group
- paediatric
- Disease groups
- —
- Anatomical sites
- Brain
Data availability
- Raw counts
- Processed matrix
File types
MTXTSV
Files and samples
- filelist.txt ↗
- GSE214747_RAW.tar ↗
- GSM6615346_A_barcodes.tsv.gz ↗
- GSM6615346_A_features.tsv.gz ↗
- GSM6615346_A_matrix.mtx.gz ↗
- GSM6615347_B_barcodes.tsv.gz ↗
- GSM6615347_B_features.tsv.gz ↗
- GSM6615347_B_matrix.mtx.gz ↗
- GSM6615348_C_barcodes.tsv.gz ↗
- GSM6615348_C_features.tsv.gz ↗
- GSM6615348_C_matrix.mtx.gz ↗
- GSM6615349_D_barcodes.tsv.gz ↗
- GSM6615349_D_features.tsv.gz ↗
- GSM6615349_D_matrix.mtx.gz ↗
- GSM6615350_E_barcodes.tsv.gz ↗
- GSM6615350_E_features.tsv.gz ↗
- GSM6615350_E_matrix.mtx.gz ↗
- GSM6615351_F_barcodes.tsv.gz ↗
- GSM6615351_F_features.tsv.gz ↗
- GSM6615351_F_matrix.mtx.gz ↗
- GSM6615352_G_barcodes.tsv.gz ↗
- GSM6615352_G_features.tsv.gz ↗
- GSM6615352_G_matrix.mtx.gz ↗
- GSM6615353_H_barcodes.tsv.gz ↗
- GSM6615353_H_features.tsv.gz ↗
- GSM6615353_H_matrix.mtx.gz ↗
- index.html ↗
- Brain8
| Accession | Sample | Tissue | Molecule |
|---|---|---|---|
GSM6615346 |
WT control, scRNAseq | Brain | total RNA |
GSM6615347 |
WT acute, scRNAseq | Brain | total RNA |
GSM6615348 |
WT chronic, scRNAseq | Brain | total RNA |
GSM6615349 |
WT allergy, scRNAseq | Brain | total RNA |
GSM6615350 |
APP control, scRNAseq | Brain | total RNA |
GSM6615351 |
APP acute, scRNAseq | Brain | total RNA |
GSM6615352 |
APP chronic, scRNAseq | Brain | total RNA |
GSM6615353 |
APP allergy, scRNAseq | Brain | total RNA |
Strengths & limitations for reuse
Strengths
- Raw reads are advertised
- Raw counts are advertised
- Processed matrices are advertised
Limitations
- Not documented: cell metadata are advertised
- Not documented: participant counts are documented
Extraction evidence & provenance
Each extracted field is shown with the source excerpt and location used to resolve it.
Assay
| Field | Value | Evidence |
|---|---|---|
assay.assay_type |
single-cell RNA sequencing |
Single-cell RNA sequencing (scRNA-seq) Section |
assay.library_chemistry |
Chromium Next GEM Single Cell 5' Reagent Kits v2 |
Libraries were prepared according to the protocol of the Chromuim Next GEM Single Cell 5' Reagent Kits v2 Section |
assay.platform |
Illumina NovaSeq 6000 |
Illumina NovaSeq 6000 Section |
assay.reference_genome |
Genome Reference Consortium Mouse Build 38 (mm10) |
Feature barcode matrices were created from the FASTQ data by Cell Ranger Multi (mouse genome; Genome Reference Consortium Mouse Build 38, mm10) Section |
assay.sequencing_type |
scrna_seq |
immune cells in their brains were analyzed by scRNA-seq analysis Section |
Cohort
| Field | Value | Evidence |
|---|---|---|
cohort.age_group |
paediatric from source |
GEO age characteristics: 16 weeks old; 16 weeks old; 16 weeks old; 16 weeks old; 16 weeks old; 16 weeks old; 16 weeks old; 16 weeks old Section |
cohort.treatment_exposure_documented |
True |
The control groups received only water, the acute colitis groups received DSS (2%, w/v...) in their drinking water for one week, and the chronic colitis group received three cycles of alternating 2% DSS then only water Section |
Data_Assets
| Field | Value | Evidence |
|---|---|---|
data_assets.open_access |
True |
Public on Dec 01 2022 Section |
data_assets.processed_matrix |
True |
matrix.mtx.gz Section |
data_assets.raw_counts |
True |
matrix.mtx.gz Section |
data_assets.raw_reads |
True |
GSE214747_RAW.tar Section |
Processing
| Field | Value | Evidence |
|---|---|---|
processing.cell_type_annotation_method |
Manual annotation using previously reported marker genes |
Each identified cluster was then manually annotated with marker genes that have been previously reported as marker genes for defining cell subsets Section |
processing.normalization_method |
Seurat normalizeData with scale.factor = 10,000 |
Expression data were normalized with the normalizeData function (scale.factor = 10,000) Section |
processing.quality_control_reported |
True |
Cells with more than 5% of mitochondrial genes and cells with nFeature_RNA less than 200 were filtered out Section |
Specimens
| Field | Value | Evidence |
|---|---|---|
specimens.anatomical_sites |
['Brain'] |
Brain Section |
specimens.number_of_samples |
8 |
"sample_count": 8 Section |