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Series GSE195445 Query DataSets for GSE195445
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
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.
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
Contributor(s) Yu B, Zhang Q
Citation(s) 36788214
Submission date Jan 26, 2022
Last update date May 31, 2023
Contact name qian qian zhang
Phone 15611792311
Organization name Institute of Biophysics
Department State Key Laboratory of Brain and Cognitive Science
Lab wangxiaoqun
Street address Datun road, chaoyang district
City Beijing
ZIP/Postal code 100101
Country China
Platforms (4)
GPL24247 Illumina NovaSeq 6000 (Mus musculus)
GPL24676 Illumina NovaSeq 6000 (Homo sapiens)
GPL26853 Illumina NovaSeq 6000 (Gallus gallus)
Samples (17)
GSM5836863 AMH1 snRNA-seq
GSM5836864 AMH2 snRNA-seq
GSM5836865 AMH3 snRNA-seq
BioProject PRJNA800681
SRA SRP356835

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
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
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