Publication

Transcriptional profiling of microglia; current state of the art and future perspectives

Gerrits, E., Heng, Y., Boddeke, E. W. G. M. & Eggen, B. J. L., 17-Dec-2019, In : Glia. 16 p.

Research output: Contribution to journalArticleAcademicpeer-review

APA

Gerrits, E., Heng, Y., Boddeke, E. W. G. M., & Eggen, B. J. L. (2019). Transcriptional profiling of microglia; current state of the art and future perspectives. Glia. https://doi.org/10.1002/glia.23767

Author

Gerrits, Emma ; Heng, Yang ; Boddeke, Erik W. G. M. ; Eggen, Bart J. L. / Transcriptional profiling of microglia; current state of the art and future perspectives. In: Glia. 2019.

Harvard

Gerrits, E, Heng, Y, Boddeke, EWGM & Eggen, BJL 2019, 'Transcriptional profiling of microglia; current state of the art and future perspectives', Glia. https://doi.org/10.1002/glia.23767

Standard

Transcriptional profiling of microglia; current state of the art and future perspectives. / Gerrits, Emma; Heng, Yang; Boddeke, Erik W. G. M.; Eggen, Bart J. L.

In: Glia, 17.12.2019.

Research output: Contribution to journalArticleAcademicpeer-review

Vancouver

Gerrits E, Heng Y, Boddeke EWGM, Eggen BJL. Transcriptional profiling of microglia; current state of the art and future perspectives. Glia. 2019 Dec 17. https://doi.org/10.1002/glia.23767


BibTeX

@article{2f35e838e18744ecb87d59d437db4b87,
title = "Transcriptional profiling of microglia; current state of the art and future perspectives",
abstract = "Microglia are the tissue macrophages of the central nervous system (CNS) and the first to respond to CNS dysfunction and disease. Gene expression profiling of microglia during development, under homeostatic conditions, and in the diseased CNS provided insight in microglia functions and changes thereof. Single-cell sequencing studies further contributed to our understanding of microglia heterogeneity in relation to age, sex, and CNS disease. Recently, single nucleus gene expression profiling was performed on (frozen) CNS tissue. Transcriptomic profiling of CNS tissues by (single) nucleus RNA-sequencing has the advantage that it can be applied to archived and well-stratified frozen specimens. Here, we give an overview of the significant advances recently made in microglia transcriptional profiling. In addition, we present matched cellular and nuclear microglia RNA-seq datasets we generated from mouse and human CNS tissue to compare cellular versus nuclear transcriptomes from fresh and frozen samples. We demonstrate that microglia can be similarly profiled with cell and nucleus profiling, and importantly also with nuclei isolated from frozen tissue. Nuclear microglia transcriptomes are a reliable proxy for cellular transcriptomes. Importantly, lipopolysaccharide-induced changes in gene expression were conserved in the nuclear transcriptome. In addition, heterogeneity in microglia observed in fresh samples was similarly detected in frozen nuclei of the same donor. Together, these results show that microglia nuclear RNAs obtained from frozen CNS tissue are a reliable proxy for microglia gene expression and cellular heterogeneity and may prove an effective strategy to study of the role of microglia in neuropathology.",
keywords = "human, microglia, mouse, single-cell RNA-sequencing, single-nucleus RNA-sequencing, transcriptomes, GENE-EXPRESSION, RNA-SEQ, MOUSE, DIVERSITY, REVEALS, BRAIN, NEURODEGENERATION, ACTIVATION, MATURATION, DATABASE",
author = "Emma Gerrits and Yang Heng and Boddeke, {Erik W. G. M.} and Eggen, {Bart J. L.}",
year = "2019",
month = "12",
day = "17",
doi = "10.1002/glia.23767",
language = "English",
journal = "Glia",
issn = "0894-1491",
publisher = "Wiley",

}

RIS

TY - JOUR

T1 - Transcriptional profiling of microglia; current state of the art and future perspectives

AU - Gerrits, Emma

AU - Heng, Yang

AU - Boddeke, Erik W. G. M.

AU - Eggen, Bart J. L.

PY - 2019/12/17

Y1 - 2019/12/17

N2 - Microglia are the tissue macrophages of the central nervous system (CNS) and the first to respond to CNS dysfunction and disease. Gene expression profiling of microglia during development, under homeostatic conditions, and in the diseased CNS provided insight in microglia functions and changes thereof. Single-cell sequencing studies further contributed to our understanding of microglia heterogeneity in relation to age, sex, and CNS disease. Recently, single nucleus gene expression profiling was performed on (frozen) CNS tissue. Transcriptomic profiling of CNS tissues by (single) nucleus RNA-sequencing has the advantage that it can be applied to archived and well-stratified frozen specimens. Here, we give an overview of the significant advances recently made in microglia transcriptional profiling. In addition, we present matched cellular and nuclear microglia RNA-seq datasets we generated from mouse and human CNS tissue to compare cellular versus nuclear transcriptomes from fresh and frozen samples. We demonstrate that microglia can be similarly profiled with cell and nucleus profiling, and importantly also with nuclei isolated from frozen tissue. Nuclear microglia transcriptomes are a reliable proxy for cellular transcriptomes. Importantly, lipopolysaccharide-induced changes in gene expression were conserved in the nuclear transcriptome. In addition, heterogeneity in microglia observed in fresh samples was similarly detected in frozen nuclei of the same donor. Together, these results show that microglia nuclear RNAs obtained from frozen CNS tissue are a reliable proxy for microglia gene expression and cellular heterogeneity and may prove an effective strategy to study of the role of microglia in neuropathology.

AB - Microglia are the tissue macrophages of the central nervous system (CNS) and the first to respond to CNS dysfunction and disease. Gene expression profiling of microglia during development, under homeostatic conditions, and in the diseased CNS provided insight in microglia functions and changes thereof. Single-cell sequencing studies further contributed to our understanding of microglia heterogeneity in relation to age, sex, and CNS disease. Recently, single nucleus gene expression profiling was performed on (frozen) CNS tissue. Transcriptomic profiling of CNS tissues by (single) nucleus RNA-sequencing has the advantage that it can be applied to archived and well-stratified frozen specimens. Here, we give an overview of the significant advances recently made in microglia transcriptional profiling. In addition, we present matched cellular and nuclear microglia RNA-seq datasets we generated from mouse and human CNS tissue to compare cellular versus nuclear transcriptomes from fresh and frozen samples. We demonstrate that microglia can be similarly profiled with cell and nucleus profiling, and importantly also with nuclei isolated from frozen tissue. Nuclear microglia transcriptomes are a reliable proxy for cellular transcriptomes. Importantly, lipopolysaccharide-induced changes in gene expression were conserved in the nuclear transcriptome. In addition, heterogeneity in microglia observed in fresh samples was similarly detected in frozen nuclei of the same donor. Together, these results show that microglia nuclear RNAs obtained from frozen CNS tissue are a reliable proxy for microglia gene expression and cellular heterogeneity and may prove an effective strategy to study of the role of microglia in neuropathology.

KW - human

KW - microglia

KW - mouse

KW - single-cell RNA-sequencing

KW - single-nucleus RNA-sequencing

KW - transcriptomes

KW - GENE-EXPRESSION

KW - RNA-SEQ

KW - MOUSE

KW - DIVERSITY

KW - REVEALS

KW - BRAIN

KW - NEURODEGENERATION

KW - ACTIVATION

KW - MATURATION

KW - DATABASE

U2 - 10.1002/glia.23767

DO - 10.1002/glia.23767

M3 - Article

JO - Glia

JF - Glia

SN - 0894-1491

ER -

ID: 110396848