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Single-cell transcriptomic classification of rabies-infected cortical neurons

Cortical circuit tracing using modified rabies virus can identify input neurons making direct monosynaptic connections onto neurons of interest. However, challenges remain in our ability to establish the cell type identity of rabies-labeled input neurons. While transcriptomics may offer an avenue to...

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Autores principales: Patiño, Maribel, Lagos, Will N., Patne, Neelakshi S., Tasic, Bosiljka, Zeng, Hongkui, Callaway, Edward M.
Formato: Online Artículo Texto
Lenguaje:English
Publicado: National Academy of Sciences 2022
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9295789/
https://www.ncbi.nlm.nih.gov/pubmed/35609197
http://dx.doi.org/10.1073/pnas.2203677119
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author Patiño, Maribel
Lagos, Will N.
Patne, Neelakshi S.
Tasic, Bosiljka
Zeng, Hongkui
Callaway, Edward M.
author_facet Patiño, Maribel
Lagos, Will N.
Patne, Neelakshi S.
Tasic, Bosiljka
Zeng, Hongkui
Callaway, Edward M.
author_sort Patiño, Maribel
collection PubMed
description Cortical circuit tracing using modified rabies virus can identify input neurons making direct monosynaptic connections onto neurons of interest. However, challenges remain in our ability to establish the cell type identity of rabies-labeled input neurons. While transcriptomics may offer an avenue to characterize inputs, the extent of rabies-induced transcriptional changes in distinct neuronal cell types remains unclear, and whether these changes preclude characterization of rabies-infected neurons according to established transcriptomic cell types is unknown. We used single-nucleus RNA sequencing to survey the gene expression profiles of rabies-infected neurons and assessed their correspondence with established transcriptomic cell types. We demonstrated that when using transcriptome-wide RNA profiles, rabies-infected cortical neurons can be transcriptomically characterized despite global and cell-type-specific rabies-induced transcriptional changes. Notably, we found differential modulation of neuronal marker gene expression, suggesting that caution should be taken when attempting to characterize rabies-infected cells with single genes or small gene sets.
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spelling pubmed-92957892022-07-20 Single-cell transcriptomic classification of rabies-infected cortical neurons Patiño, Maribel Lagos, Will N. Patne, Neelakshi S. Tasic, Bosiljka Zeng, Hongkui Callaway, Edward M. Proc Natl Acad Sci U S A Biological Sciences Cortical circuit tracing using modified rabies virus can identify input neurons making direct monosynaptic connections onto neurons of interest. However, challenges remain in our ability to establish the cell type identity of rabies-labeled input neurons. While transcriptomics may offer an avenue to characterize inputs, the extent of rabies-induced transcriptional changes in distinct neuronal cell types remains unclear, and whether these changes preclude characterization of rabies-infected neurons according to established transcriptomic cell types is unknown. We used single-nucleus RNA sequencing to survey the gene expression profiles of rabies-infected neurons and assessed their correspondence with established transcriptomic cell types. We demonstrated that when using transcriptome-wide RNA profiles, rabies-infected cortical neurons can be transcriptomically characterized despite global and cell-type-specific rabies-induced transcriptional changes. Notably, we found differential modulation of neuronal marker gene expression, suggesting that caution should be taken when attempting to characterize rabies-infected cells with single genes or small gene sets. National Academy of Sciences 2022-05-24 2022-05-31 /pmc/articles/PMC9295789/ /pubmed/35609197 http://dx.doi.org/10.1073/pnas.2203677119 Text en Copyright © 2022 the Author(s). Published by PNAS. https://creativecommons.org/licenses/by/4.0/This open access article is distributed under Creative Commons Attribution License 4.0 (CC BY) (https://creativecommons.org/licenses/by/4.0/) .
spellingShingle Biological Sciences
Patiño, Maribel
Lagos, Will N.
Patne, Neelakshi S.
Tasic, Bosiljka
Zeng, Hongkui
Callaway, Edward M.
Single-cell transcriptomic classification of rabies-infected cortical neurons
title Single-cell transcriptomic classification of rabies-infected cortical neurons
title_full Single-cell transcriptomic classification of rabies-infected cortical neurons
title_fullStr Single-cell transcriptomic classification of rabies-infected cortical neurons
title_full_unstemmed Single-cell transcriptomic classification of rabies-infected cortical neurons
title_short Single-cell transcriptomic classification of rabies-infected cortical neurons
title_sort single-cell transcriptomic classification of rabies-infected cortical neurons
topic Biological Sciences
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9295789/
https://www.ncbi.nlm.nih.gov/pubmed/35609197
http://dx.doi.org/10.1073/pnas.2203677119
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