Journal article
A spatially-resolved transcriptional atlas of the murine dorsal pons at single-cell resolution
Nature communications, Vol.15(1), 1966
03/04/2024
DOI: 10.1038/s41467-024-45907-7
PMCID: PMC10912765
PMID: 38438345
Abstract
The "dorsal pons", or "dorsal pontine tegmentum" (dPnTg), is part of the brainstem. It is a complex, densely packed region whose nuclei are involved in regulating many vital functions. Notable among them are the parabrachial nucleus, the Kölliker Fuse, the Barrington nucleus, the locus coeruleus, and the dorsal, laterodorsal, and ventral tegmental nuclei. In this study, we applied single-nucleus RNA-seq (snRNA-seq) to resolve neuronal subtypes based on their unique transcriptional profiles and then used multiplexed error robust fluorescence in situ hybridization (MERFISH) to map them spatially. We sampled ~1 million cells across the dPnTg and defined the spatial distribution of over 120 neuronal subtypes. Our analysis identified an unpredicted high transcriptional diversity in this region and pinpointed the unique marker genes of many neuronal subtypes. We also demonstrated that many neuronal subtypes are transcriptionally similar between humans and mice, enhancing this study's translational value. Finally, we developed a freely accessible, GPU and CPU-powered dashboard ( http://harvard.heavy.ai:6273/ ) that combines interactive visual analytics and hardware-accelerated SQL into a data science framework to allow the scientific community to query and gain insights into the data.
Details
- Title: Subtitle
- A spatially-resolved transcriptional atlas of the murine dorsal pons at single-cell resolution
- Creators
- Stefano Nardone - Beth Israel Deaconess Medical CenterRoberto De Luca - Beth Israel Deaconess Medical CenterAntonino Zito - King's College LondonNataliya Klymko - Beth Israel Deaconess Medical CenterDimitris Nicoloutsopoulos - University College LondonOren Amsalem - Beth Israel Deaconess Medical CenterCory Brannigan - HEAVY.AI, 100 Montgomery St Fl 5, San Francisco, California, 94104, USAJon M Resch - University of IowaChristopher L Jacobs - Broad InstituteDeepti Pant - Beth Israel Deaconess Medical CenterMolly Veregge - Beth Israel Deaconess Medical CenterHarini Srinivasan - Broad InstituteRyan M Grippo - Beth Israel Deaconess Medical CenterZongfang Yang - Beth Israel Deaconess Medical CenterMark L Zeidel - Beth Israel Deaconess Medical CenterMark L Andermann - Beth Israel Deaconess Medical CenterKenneth D Harris - University College LondonLinus T Tsai - Broad InstituteElda Arrigoni - Beth Israel Deaconess Medical CenterAnne M J Verstegen - Beth Israel Deaconess Medical CenterClifford B Saper - Beth Israel Deaconess Medical CenterBradford B Lowell - Beth Israel Deaconess Medical Center
- Resource Type
- Journal article
- Publication Details
- Nature communications, Vol.15(1), 1966
- DOI
- 10.1038/s41467-024-45907-7
- PMID
- 38438345
- PMCID
- PMC10912765
- eISSN
- 2041-1723
- Grant note
- DP1 AT010971 / NCCIH NIH HHS R01 DK135541 / NIDDK NIH HHS R01 DK113030 / NIDDK NIH HHS R01 NS091126 / NINDS NIH HHS P30 DK135043 / NIDDK NIH HHS P01 HL149630 / NHLBI NIH HHS R01 DK075632 / NIDDK NIH HHS P30 DK046200 / NIDDK NIH HHS R01 DK125708 / NIDDK NIH HHS R00 HL144923 / NHLBI NIH HHS P20 DK119789 / NIDDK NIH HHS R01 NS072337 / NINDS NIH HHS F32 MH012343 / NIMH NIH HHS
- Language
- English
- Date published
- 03/04/2024
- Academic Unit
- Iowa Neuroscience Institute; Fraternal Order of Eagles Diabetes Research Center; Neuroscience and Pharmacology
- Record Identifier
- 9984568048702771
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