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| Status |
Public on Mar 06, 2023 |
| Title |
Molecular and spatial profiling of the paraventricular nucleus of the thalamus |
| Organism |
Mus musculus |
| Experiment type |
Expression profiling by high throughput sequencing
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| Summary |
The paraventricular nucleus of the thalamus (PVT) is known to regulate various cognitive and behavioral processes. However, while functional diversity among PVT circuits has often been linked to cellular differences, the molecular identity and spatial distribution of PVT cell types remains unclear. To address this gap, here we used single nucleus RNA sequencing (snRNA-seq) and identified five molecularly distinct PVT neuronal subtypes. Additionally, multiplex fluorescent in situ hybridization of top marker genes revealed that PVT subtypes are organized by a combination of previously unidentified molecular gradients. Lastly, comparing our dataset with a recently published single-cell sequencing atlas of thalamus yielded novel insight into the PVT’s connectivity with cortex, including unexpected innervation of auditory and visual areas. This comparison also revealed that our data contains a largely non-overlapping transcriptomic map of multiple midline thalamic nuclei. Collectively, our findings uncover previously unknown features of the molecular diversity and anatomical organization of the PVT and provide a valuable resource for future investigations.
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| Overall design |
Nuclei suspensions were collected from bulk tissue punches of the mouse PVT were collected and processed using snRNAseq.
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| Contributor(s) |
Gao C, Penzo M |
| Citation(s) |
36867023 |
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| Submission date |
Jul 20, 2022 |
| Last update date |
Mar 06, 2023 |
| Contact name |
Claire Gao |
| E-mail(s) |
[email protected]
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| Organization name |
NIMH
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| Department |
Unit on the Neurobiology of Affective Memory
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| Lab |
Penzo Lab
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| Street address |
35 Covent Dr, Bldg 35 Rm 2E-614G
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| City |
Bethesda |
| State/province |
MD |
| ZIP/Postal code |
20892 |
| Country |
USA |
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| Platforms (1) |
| GPL24247 |
Illumina NovaSeq 6000 (Mus musculus) |
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| Samples (10)
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| GSM6364809 |
Sample 4, biol rep 4, snRNAseq |
| GSM7062613 |
Sample 5, female biol rep 1, snRNAseq |
| GSM7062614 |
Sample 6, female biol rep 2, snRNAseq |
| GSM7062615 |
Sample 7, female biol rep 3, snRNAseq |
| GSM7062616 |
Sample 8, female biol rep 4, snRNAseq |
| GSM7062617 |
Sample 9, female biol rep 5, snRNAseq |
| GSM7062618 |
Sample 10, female biol rep 6, snRNAseq |
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| Relations |
| BioProject |
PRJNA860636 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE208707_allnuclei_barcodes.tsv.gz |
104.7 Kb |
(ftp)(http) |
TSV |
| GSE208707_allnuclei_genes.tsv.gz |
205.9 Kb |
(ftp)(http) |
TSV |
| GSE208707_allnuclei_matrix.mtx.gz |
171.6 Mb |
(ftp)(http) |
MTX |
| GSE208707_allnuclei_metadata.csv.gz |
1018.2 Kb |
(ftp)(http) |
CSV |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data are available on Series record |
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