|
| Status |
Public on Apr 26, 2022 |
| Title |
Projection neuron subtypes establish microglia sub-states and regulate neuroimmune interactions |
| Organism |
Mus musculus |
| Experiment type |
Expression profiling by high throughput sequencing
|
| Summary |
Microglia are the resident immune cells of the brain, and have critical roles in circuit development and plasticity. During embryonic and postnatal development, microglia exist in multiple transcriptional states. However, it is still poorly understood how these states are established, and whether they are influenced by their cellular environment. Here we show that in the juvenile neocortex, microglia exist in multiple states whose identity and laminar distribution is instructed by the neuronal class identity of local pyramidal neurons. Using single-cell RNA sequencing, we unveil molecular signatures of distinct microglia sub-states, and show that they can be divided into layer-restricted or broadly-distributed states. Strikingly, conversion of deep-layer pyramidal neurons to an alternate class identity reconfigures both the density and molecular state of local layer-restricted microglia to correspond to the new neuronal niche, thus identifying specific populations of microglia that are sensitive to pyramidal neuron subtypes. Ligand-receptor interactomes for individual neuronal subtype-microglia pairings uncovers two categories of neuron-to-microglia communication: one associated with neuronal class identity and one associated with microglial state. Our findings highlight the fundamental role that neuronal identity and neuronal niches play in locally controlling the transcriptional status of postnatal microglia.
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| Overall design |
Examination of Mg states from different neuronal niches of the cerebral cortex.
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| Contributor(s) |
Stogsdill JA, Kim K, Binan L, Farhi SL, Levin JZ, Arlotta P |
| Citation(s) |
35948630 |
| Submission date |
Sep 16, 2020 |
| Last update date |
Aug 17, 2022 |
| Contact name |
Paola Arlotta |
| E-mail(s) |
paola_arlotta@harvard.edu
|
| Organization name |
Harvard University
|
| Department |
Stem Cell and Regenerative Biology
|
| Lab |
Arlotta
|
| Street address |
7 Divinity Ave
|
| City |
Cambridge |
| State/province |
MA |
| ZIP/Postal code |
02138 |
| Country |
USA |
| |
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| Platforms (3) |
| GPL19057 |
Illumina NextSeq 500 (Mus musculus) |
| GPL21626 |
NextSeq 550 (Mus musculus) |
| GPL24247 |
Illumina NovaSeq 6000 (Mus musculus) |
|
| Samples (28)
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| Relations |
| BioProject |
PRJNA663957 |
| SRA |
SRP282670 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE158096_scRNA_Cx3cr1_GFP_P60_metadata.txt.gz |
640.2 Kb |
(ftp)(http) |
TXT |
| GSE158096_scRNA_Cx3cr1_GFP_P60_raw_counts.dge.txt.gz |
22.8 Mb |
(ftp)(http) |
TXT |
| GSE158096_scRNA_Cx3cr1_GFP_metadata.txt.gz |
603.8 Kb |
(ftp)(http) |
TXT |
| GSE158096_scRNA_Cx3cr1_GFP_raw_counts.dge.txt.gz |
26.9 Mb |
(ftp)(http) |
TXT |
| GSE158096_scRNA_Fezf2_Control_KO_metadata.txt.gz |
507.7 Kb |
(ftp)(http) |
TXT |
| GSE158096_scRNA_Fezf2_Control_KO_raw_counts.dge.txt.gz |
35.6 Mb |
(ftp)(http) |
TXT |
| GSE158096_snRNA_Fezf2WTKO_metadata.txt.gz |
356.0 Kb |
(ftp)(http) |
TXT |
| GSE158096_snRNA_Fezf2WTKO_raw_counts.dge.txt.gz |
44.4 Mb |
(ftp)(http) |
TXT |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data are available on Series record |
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