|
| Status |
Public on Dec 12, 2019 |
| Title |
Cross-species analysis across 450 million years of evolution reveals conservation and divergence of the microglia program (bulk RNA-seq) |
| Organisms |
Danio rerio; Gallus gallus; Callithrix jacchus; Macaca fascicularis; Homo sapiens; Ovis aries; Mesocricetus auratus; Mus musculus; Rattus norvegicus |
| Experiment type |
Expression profiling by high throughput sequencing
|
| Summary |
Here we characterize microglia transcriptional program across ten species spanning more than 450 million years of evolution. We find that microglia express a conserved core gene program of orthologous genes from rodents to human, including ligands and receptors associated with interactions between glia and neurons. In most species, microglia show a single dominant transcriptional state, while humans express significant microglia heterogeneity. In addition, we observed notable differences in complement, phagocytic and several critical signaling pathways that are enriched with susceptibility genes to brain disorders, including Alzheimer’s and Parkinson’s disease in microglia of common animal models as compared to human. Our study provides an essential resource of conserved and divergent microglia pathways across evolution with important implications for future development of microglia-based therapies in humans.
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| |
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| Overall design |
Single cell and bulk RNA-seq of microglia from 10 different species and comparison of transcriptional landcape over species. Biological replicates of different species were n=3-6.
The raw data for human subjects will be submitted through EGA for controlled access.
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| |
|
| Contributor(s) |
Geirsdottir L, Amit I, David E, Weiner A, Keren-Shaul H, Ulitsky I |
| Citation(s) |
31835035 |
| |
| Submission date |
Jul 23, 2019 |
| Last update date |
Mar 12, 2020 |
| Contact name |
Ido Amit |
| E-mail(s) |
ido.amit@weizmann.ac.il
|
| Phone |
972-8-9343338
|
| Organization name |
Weizmann Institute of Science
|
| Department |
Immunology
|
| Street address |
234 Herzl st.
|
| City |
Rehovot |
| ZIP/Postal code |
760001 |
| Country |
Israel |
| |
|
| Platforms (9)
|
| GPL18573 |
Illumina NextSeq 500 (Homo sapiens) |
| GPL19057 |
Illumina NextSeq 500 (Mus musculus) |
| GPL19787 |
Illumina NextSeq 500 (Gallus gallus) |
| GPL20084 |
Illumina NextSeq 500 (Rattus norvegicus) |
| GPL20828 |
Illumina NextSeq 500 (Danio rerio) |
| GPL22509 |
Illumina NextSeq 500 (Ovis aries) |
| GPL22523 |
Illumina NextSeq 500 (Macaca fascicularis) |
| GPL24490 |
Illumina NextSeq 500 (Mesocricetus auratus) |
| GPL26636 |
Illumina NextSeq 500 (Callithrix jacchus) |
|
| Samples (44)
|
|
| This SubSeries is part of SuperSeries: |
| GSE134707 |
Cross-species analysis across 450 million years of evolution reveals conservation and divergence of the microglia program |
|
| Relations |
| BioProject |
PRJNA556201 |
| SRA |
SRP216247 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE134706_chicken_gal5_raw_.txt.gz |
159.6 Kb |
(ftp)(http) |
TXT |
| GSE134706_hamster_ma1_raw_.txt.gz |
150.8 Kb |
(ftp)(http) |
TXT |
| GSE134706_human_hg38_raw_.txt.gz |
380.2 Kb |
(ftp)(http) |
TXT |
| GSE134706_macaca_rm8_raw_.txt.gz |
178.9 Kb |
(ftp)(http) |
TXT |
| GSE134706_marmoset_cj3_raw_.txt.gz |
173.0 Kb |
(ftp)(http) |
TXT |
| GSE134706_mouse_mm10_raw_.txt.gz |
579.6 Kb |
(ftp)(http) |
TXT |
| GSE134706_rat_Rnor6_raw_.txt.gz |
185.6 Kb |
(ftp)(http) |
TXT |
| GSE134706_sheep_oa3_raw_.txt.gz |
160.4 Kb |
(ftp)(http) |
TXT |
| GSE134706_zebrafish_dr10_raw_.txt.gz |
214.2 Kb |
(ftp)(http) |
TXT |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data are available on Series record |
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