Cross-species Transcriptomic Comparison of and Mammalian Neural Cells

The mammalian brain is characterized by distinct classes of cells that differ in morphology, structure, signaling, and function. Dysregulation of gene expression in these cell populations leads to various neurological disorders. Neural cells often need to be acutely purified from animal brains for r...

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Main Authors: Peter R. LoVerso, Christopher M. Wachter, Feng Cui
Format: Article
Language:English
Published: SAGE Publishing 2015-01-01
Series:Bioinformatics and Biology Insights
Online Access:https://doi.org/10.4137/BBI.S33124
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spelling doaj-3a7aa99cb8ee4f98a19e2d841389e9882020-11-25T03:41:16ZengSAGE PublishingBioinformatics and Biology Insights1177-93222015-01-01910.4137/BBI.S33124Cross-species Transcriptomic Comparison of and Mammalian Neural CellsPeter R. LoVerso0Christopher M. Wachter1Feng Cui2Thomas H. Gosnell School of Life Sciences, Rochester Institute of Technology, Rochester, NY, USA.Thomas H. Gosnell School of Life Sciences, Rochester Institute of Technology, Rochester, NY, USA.Thomas H. Gosnell School of Life Sciences, Rochester Institute of Technology, Rochester, NY, USA.The mammalian brain is characterized by distinct classes of cells that differ in morphology, structure, signaling, and function. Dysregulation of gene expression in these cell populations leads to various neurological disorders. Neural cells often need to be acutely purified from animal brains for research, which requires complicated procedure and specific expertise. Primary culture of these cells in vitro is a viable alternative, but the differences in gene expression of cells grown in vitro and in vivo remain unclear. Here, we cultured three major neural cell classes of rat brain (ie, neurons, astrocytes, and oligodendrocyte precursor cells [OPCs]) obtained from commercial sources. We measured transcript abundance of these cell types by RNA sequencing (RNA-seq) and compared with their counterparts acutely purified from mouse brains. Cross-species RNA-seq data analysis revealed hundreds of genes that are differentially expressed between the cultured and acutely purified cells. Astrocytes have more such genes compared to neurons and OPCs, indicating that signaling pathways are greatly perturbed in cultured astrocytes. This dataset provides a powerful resource to demonstrate the similarities and differences of biological processes in mammalian neural cells grown in vitro and in vivo at the molecular level.https://doi.org/10.4137/BBI.S33124
collection DOAJ
language English
format Article
sources DOAJ
author Peter R. LoVerso
Christopher M. Wachter
Feng Cui
spellingShingle Peter R. LoVerso
Christopher M. Wachter
Feng Cui
Cross-species Transcriptomic Comparison of and Mammalian Neural Cells
Bioinformatics and Biology Insights
author_facet Peter R. LoVerso
Christopher M. Wachter
Feng Cui
author_sort Peter R. LoVerso
title Cross-species Transcriptomic Comparison of and Mammalian Neural Cells
title_short Cross-species Transcriptomic Comparison of and Mammalian Neural Cells
title_full Cross-species Transcriptomic Comparison of and Mammalian Neural Cells
title_fullStr Cross-species Transcriptomic Comparison of and Mammalian Neural Cells
title_full_unstemmed Cross-species Transcriptomic Comparison of and Mammalian Neural Cells
title_sort cross-species transcriptomic comparison of and mammalian neural cells
publisher SAGE Publishing
series Bioinformatics and Biology Insights
issn 1177-9322
publishDate 2015-01-01
description The mammalian brain is characterized by distinct classes of cells that differ in morphology, structure, signaling, and function. Dysregulation of gene expression in these cell populations leads to various neurological disorders. Neural cells often need to be acutely purified from animal brains for research, which requires complicated procedure and specific expertise. Primary culture of these cells in vitro is a viable alternative, but the differences in gene expression of cells grown in vitro and in vivo remain unclear. Here, we cultured three major neural cell classes of rat brain (ie, neurons, astrocytes, and oligodendrocyte precursor cells [OPCs]) obtained from commercial sources. We measured transcript abundance of these cell types by RNA sequencing (RNA-seq) and compared with their counterparts acutely purified from mouse brains. Cross-species RNA-seq data analysis revealed hundreds of genes that are differentially expressed between the cultured and acutely purified cells. Astrocytes have more such genes compared to neurons and OPCs, indicating that signaling pathways are greatly perturbed in cultured astrocytes. This dataset provides a powerful resource to demonstrate the similarities and differences of biological processes in mammalian neural cells grown in vitro and in vivo at the molecular level.
url https://doi.org/10.4137/BBI.S33124
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