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Updated: Feb 10, 2026

Magnetic Isolation of Microglial Cells from Neonate Mouse for Primary Cell Cultures
Published on: July 25, 2022
Isolation and Phenotyping of Adult Mouse Microglial Cells
Kathleen Grabert1, Barry W McColl2,3
1The Roslin Institute and R(D)SVS, University of Edinburgh, Edinburgh, UK. Kathleen.Grabert@roslin.ed.ac.uk.
Abstract:
Microglia are the resident macrophages of the central nervous system parenchyma and fulfill crucial roles in brain development, homeostasis, and inflammation. The isolation of a pure microglia population from brain tissue enables the examination of microglial phenotypes without the interference of other cell populations. Microglial extractions from the neonatal brain have been described in various protocols, yet the more established and complex adult mouse brain poses a greater challenge. Here we describe a refined protocol including enzymatic and mechanical dissociation of adult mouse brain tissue and removal of myelin by Percoll density gradient. Microglial cells were subsequently extracted by an immunomagnetic approach. This isolation procedure enables the use of functionally viable cells for various applications such as cell culture, flow cytometry, functional assays including bacteria- or bead-based phagocytosis, stimulation assays, and transcriptome profiling techniques such as qRT-PCR and microarray/RNA sequencing.
Insights
This study presents a refined protocol for isolating pure microglia from adult mouse brains. This method yields viable cells for various functional and molecular analyses, advancing central nervous system research.
Area of Science:
- Neuroscience
- Immunology
- Cell Biology
Background:
- Microglia are key immune cells in the central nervous system (CNS) involved in development, homeostasis, and inflammation.
- Existing protocols for microglia isolation are often limited, particularly for adult mouse brains.
- Pure microglia populations are essential for studying their specific functions and phenotypes.
Purpose of the Study:
- To describe a refined protocol for the efficient isolation of pure, viable microglia from adult mouse brains.
- To enable downstream functional and molecular analyses of microglia without contamination from other cell types.
Main Methods:
- Enzymatic and mechanical dissociation of adult mouse brain tissue.
- Myelin removal using Percoll density gradient centrifugation.
- Immunomagnetic selection for microglia isolation.
Main Results:
- The protocol yields a pure population of microglia from adult mouse brains.
- Isolated microglia are functionally viable for diverse applications.
- The method is suitable for various downstream analyses including cell culture, flow cytometry, phagocytosis assays, and transcriptome profiling.
Conclusions:
- This refined protocol offers a robust method for obtaining pure, viable adult mouse microglia.
- The isolated cells support a wide range of experimental applications, facilitating CNS research.
- This technique advances the study of microglial roles in brain health and disease.
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