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Updated: Nov 9, 2025

Analysis of Microglia and Monocyte-derived Macrophages from the Central Nervous System by Flow Cytometry
Published on: June 22, 2017
Divergent Functions of Tissue-Resident and Blood-Derived Macrophages in the Hemorrhagic Brain
Che-Feng Chang1,2, Brittany A Goods3, Michael H Askenase2,4
1Department and Graduate Institute of Physiology, National Taiwan University College of Medicine, Taipei (C.-F.C.).
Background And Purpose:
Brain tissue-resident microglia and monocyte-derived macrophages (MDMs) are innate immune cells that contribute to the inflammatory response, phagocytosis of debris, and tissue repair after injury. We have previously reported that both microglia and MDMs transition from proinflammatory to reparative phenotypes over days after an intracerebral hemorrhage (ICH). However, their individual functional properties in the brain remain largely unknown. Here we characterized the differences between microglia and MDMs and further elucidate their distinct activation states and functional contributions to the pathophysiology and recovery after ICH.
Methods:
Autologous blood injection was used to model ICH in mice. Longitudinal transcriptomic analyses on isolated microglia and MDMs from mice at days 1, 3, 7 and 10 after ICH and naive controls identified core transcriptional programs that distinguish these cells. Imaging flow cytometry and in vivo phagocytosis assays were used to study phagocytic ability of microglia and MDMs. Antigen presentation was evaluated by ovalbumin-OTII CD4 T-cell proliferation assays with bone marrow–derived macrophages and primary microglia cultures.
Results:
MDMs had higher phagocytic activity and higher erythrophagocytosis in the ICH brain. Differential gene expression revealed distinct transcriptional signatures in the MDMs and microglia after ICH. MDMs had higher expression of MHCII (major histocompatibility complex class II) genes than microglia at all time points and greater ability to induce antigen-specific T-cell proliferation.
Conclusions:
The different ontogeny of microglia and MDMs lead to divergent responses and functions in the inflamed brain as these 2 cell populations differ in phagocytic functions and antigen-presenting capabilities in the brain after ICH.
Insights
Monocyte-derived macrophages (MDMs) show greater phagocytic and antigen-presenting abilities than microglia after intracerebral hemorrhage (ICH). These distinct functions of brain immune cells are crucial for understanding ICH pathophysiology and recovery.
Area of Science:
- Neuroimmunology
- Innate Immunity
- Cellular Biology
Background:
- Microglia and monocyte-derived macrophages (MDMs) are innate immune cells in the brain.
- These cells are involved in inflammation, debris clearance, and tissue repair following injury.
- Their specific roles after intracerebral hemorrhage (ICH) remain largely uncharacterized.
Purpose of the Study:
- To differentiate the functional properties of microglia and MDMs post-ICH.
- To elucidate distinct activation states and contributions to ICH pathophysiology and recovery.
- To understand the divergent responses of these two cell populations in the inflamed brain.
Main Methods:
- Intracerebral hemorrhage (ICH) was modeled in mice using autologous blood injection.
- Longitudinal transcriptomic analyses were performed on isolated microglia and MDMs at multiple time points post-ICH.
- Phagocytic activity was assessed using imaging flow cytometry and in vivo assays.
- Antigen presentation capacity was evaluated via T-cell proliferation assays.
Main Results:
- MDMs exhibited higher phagocytic activity and erythrophagocytosis compared to microglia in the ICH brain.
- Distinct transcriptional signatures were identified between MDMs and microglia post-ICH.
- MDMs showed higher expression of MHCII genes and greater capacity for antigen-specific T-cell proliferation.
Conclusions:
- The distinct ontogeny of microglia and MDMs results in divergent functions within the inflamed brain.
- These cell populations differ significantly in their phagocytic and antigen-presenting capabilities after ICH.
- Understanding these differences is key to comprehending brain injury and repair mechanisms.
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