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Series GSE166548 Query DataSets for GSE166548
Status Public on Feb 18, 2021
Title White matter aging drives microglial diversity
Organism Mus musculus
Experiment type Expression profiling by high throughput sequencing
Summary Aging results in both grey and white matter degeneration, but the specific microglial responses are unknown. Using single-cell RNA sequencing from white and grey matter separately, we identified white matter associated microglia (WAM), which share parts of the disease-associated microglia (DAM) gene signature and are characterized by the activation of genes implicated in phagocytic activity and lipid metabolism. WAM depend on triggering receptor expressed on myeloid cells 2 (TREM2) signaling and are aging dependent. In the aged brain, WAM form independently of apolipoprotein E (APOE), which is in contrast to mouse models of Alzheimer’s disease, in which microglia with WAM gene signature are generated prematurely and in an APOE-dependent pathway similar to DAM. Within the white matter, microglia frequently cluster in nodules, where they are engaged in clearing degenerated myelin. Thus, WAM may represent a potentially protective response required to clear degenerated myelin accumulating during white matter aging and disease.
 
Overall design Study of microglia in aging and in a tissue specific manner (white and grey matter) using Smart-seq2 and 10x scRNA-seq technologies. We also analysed, 5xFAD mice (AD model) with Smart-seq2, and Apoe-KO with 10x transcriptomics. Additionally we studied the impact of Actinomycin-D during tissue dissociation on gene expression in microglia using Smart-seq2.
 
Contributor(s) Besson-Girard S, Kaya T, Liu L, Ji H, Usifo F, Gokce O, Simons M
Citation(s) 33606969, 34159323
Submission date Feb 10, 2021
Last update date Jul 02, 2021
Contact name Ozgun Gokce
E-mail(s) ozguengoekce@gmail.com
Organization name Institute for Stroke and Dementia Research
Lab Systems Neuroscience
Street address Feodor-Lynen-Strasse 17
City Munich
ZIP/Postal code 81377
Country Germany
 
Platforms (2)
GPL21103 Illumina HiSeq 4000 (Mus musculus)
GPL28457 DNBSEQ-G400 (Mus musculus)
Samples (1047)
GSM5074550 43556_1_A1: SS2 Aged Wild type Grey Matter A1 1
GSM5074551 43556_1_B1: SS2 Aged Wild type Grey Matter A1 2
GSM5074552 43556_1_C1: SS2 Aged Wild type Grey Matter A1 3
Relations
BioProject PRJNA701252
SRA SRP305673

Download family Format
SOFT formatted family file(s) SOFTHelp
MINiML formatted family file(s) MINiMLHelp
Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE166548_10xaged.tsv.gz 54.9 Mb (ftp)(http) TSV
GSE166548_10xapoeko.tsv.gz 34.2 Mb (ftp)(http) TSV
GSE166548_ss2actinomycin.tsv.gz 375.4 Kb (ftp)(http) TSV
GSE166548_ss2ad.tsv.gz 749.0 Kb (ftp)(http) TSV
GSE166548_ss2aged.tsv.gz 3.8 Mb (ftp)(http) TSV
SRA Run SelectorHelp
Raw data are available in SRA
Processed data are available on Series record
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