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| Status |
Public on Dec 13, 2022 |
| Title |
Cross-Species Single-cell Comparative Analysis of Amygdala |
| Organisms |
Gallus gallus; Macaca mulatta; Homo sapiens; Mus musculus |
| Experiment type |
Expression profiling by high throughput sequencing
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| Summary |
The amygdala or amygdala-like structure in the brain are found in all vertebrates, and plays a critical role for emotional processing. But the cellular architecture of amygdala and how they evolved are still elusive. Here, we generated single-nucleus RNA-sequencing data for more than 200,000 cells in human, macaque, mouse and chicken amygdala. Abundant neuronal cell types derived from different subnuclei of amygdala were identified in all datasets. Cross-species analyses revealed GABAergic neurons and GABAergic neuron-enriched subnuclei of amygdala were well-conserved in cellular composition and marker gene expression, whereas glutamatergic neuron-enriched subnuclei were relatively divergent. Furthermore, we discovered that LAMP5+ interneurons were much more numerous in primates, while DRD2+ GABAergic neurons, LAMP5+ and SATB2+ glutamatergic neurons were predominant in the human central amygdalar nucleus (CEA) and basolateral amygdala complex (BLA), respectively. In addition, we also identified GABAergic neuron-enriched subnuclei of amygdala in the chicken. Altogether, our study highlight extremely cell-type diversity in the amygdala across species and their species-specifc adaptations.
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| Overall design |
To transcriptomically characterize cell types of the amygdala in mammals and sauropsids, which have been the most diverse and successful group of land vertebrates, we applied snRNA-seq assays (Chromium v3) and focused on human, macaque, mouse and chicken. Human samples were from postmortem donors with very short postmortem interval (within 6 hours), and macaque, mouse and chicken amygdala were freshly dissected. We profiled a total of 17 specimens, including 3 human amygdala samples, 3 macaque amygdala samples, 2 chicken amygdala homolog samples, 4 mouse amygdala samples, 3 mouse basolateral amygdala complex (BLA; made up of the lateral (LA), basal (BA) and basomedial (BM) nucleus) samples, and 2 mouse central amygdalar nucleus (CEA) samples
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| Contributor(s) |
Yu B, Zhang Q |
| Citation(s) |
36788214 |
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| Submission date |
Jan 26, 2022 |
| Last update date |
May 31, 2023 |
| Contact name |
qian qian zhang |
| E-mail(s) |
zhangqianqian171@ibp.ac.cn
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| Phone |
15611792311
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| Organization name |
Institute of Biophysics
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| Department |
State Key Laboratory of Brain and Cognitive Science
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| Lab |
wangxiaoqun
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| Street address |
Datun road, chaoyang district
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| City |
Beijing |
| ZIP/Postal code |
100101 |
| Country |
China |
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| Platforms (4)
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| GPL24247 |
Illumina NovaSeq 6000 (Mus musculus) |
| GPL24676 |
Illumina NovaSeq 6000 (Homo sapiens) |
| GPL26853 |
Illumina NovaSeq 6000 (Gallus gallus) |
| GPL27943 |
Illumina NovaSeq 6000 (Macaca mulatta) |
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| Samples (17)
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| Relations |
| BioProject |
PRJNA800681 |
| SRA |
SRP356835 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE195445_Chicken_metadata.csv.gz |
315.2 Kb |
(ftp)(http) |
CSV |
| GSE195445_Chicken_normalized_count.csv.gz |
203.6 Mb |
(ftp)(http) |
CSV |
| GSE195445_Human_obj.rds.gz |
3.8 Gb |
(ftp)(http) |
RDS |
| GSE195445_Macaque_metadata.csv.gz |
1.1 Mb |
(ftp)(http) |
CSV |
| GSE195445_Macaque_normalized_count.csv.gz |
1.1 Gb |
(ftp)(http) |
CSV |
| GSE195445_Mouse_metadata.csv.gz |
1.8 Mb |
(ftp)(http) |
CSV |
| GSE195445_Mouse_normalized_count.csv.gz |
1.1 Gb |
(ftp)(http) |
CSV |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data are available on Series record |
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