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Updated: Feb 24, 2026

Analysis of Microglia and Monocyte-derived Macrophages from the Central Nervous System by Flow Cytometry
Published on: June 22, 2017
Siglec-H is a microglia-specific marker that discriminates microglia from CNS-associated macrophages and
Hiroyuki Konishi1, Masaaki Kobayashi1, Taikan Kunisawa1
1Department of Functional Anatomy and Neuroscience, Nagoya University Graduate School of Medicine, Nagoya, 466-8550, Japan.
Abstract:
Several types of myeloid cell are resident in the CNS. In the steady state, microglia are present in the CNS parenchyma, whereas macrophages reside in boundary regions of the CNS, such as perivascular spaces, the meninges and choroid plexus. In addition, monocytes infiltrate into the CNS parenchyma from circulation upon blood-brain barrier breakdown after CNS injury and inflammation. Although several markers, such as CD11b and ionized calcium-binding adapter molecule 1 (Iba1), are frequently used as microglial markers, they are also expressed by other types of myeloid cell and microglia-specific markers were not defined until recently. Previous transcriptome analyses of isolated microglia identified a transmembrane lectin, sialic acid-binding immunoglobulin-like lectin H (Siglec-H), as a molecular signature for microglia; however, this was not confirmed by histological studies in the nervous system and the reliability of Siglec-H as a microglial marker remained unclear. Here, we demonstrate that Siglec-H is an authentic marker for microglia in mice by immunohistochemistry using a Siglec-H-specific antibody. Siglec-H was expressed by parenchymal microglia from developmental stages to adulthood, and the expression was maintained in activated microglia under injury or inflammatory condition. However, Siglec-H expression was absent from CNS-associated macrophages and CNS-infiltrating monocytes, except for a minor subset of cells. We also show that the Siglech gene locus is a feasible site for specific targeting of microglia in the nervous system. In conclusion, Siglec-H is a reliable marker for microglia that will allow histological identification of microglia and microglia-specific gene manipulation in the nervous system.
Insights
Sialic acid-binding immunoglobulin-like lectin H (Siglec-H) is confirmed as a reliable marker for microglia in the central nervous system (CNS). This discovery enables precise histological identification and genetic manipulation of microglia in research.
Area of Science:
- Neuroscience
- Immunology
- Cell Biology
Background:
- Microglia are the primary myeloid cells in the central nervous system (CNS) parenchyma.
- Macrophages and monocytes are other myeloid cells found in CNS boundary regions or infiltrating during injury.
- Existing markers like CD11b and Iba1 lack specificity for microglia.
Purpose of the Study:
- To validate sialic acid-binding immunoglobulin-like lectin H (Siglec-H) as a specific marker for microglia.
- To assess the reliability of Siglec-H in identifying microglia across different developmental and inflammatory states.
- To explore the potential of the Siglech gene locus for microglia-specific targeting.
Main Methods:
- Immunohistochemistry using a Siglec-H-specific antibody in mouse models.
- Histological analysis of Siglec-H expression in parenchymal microglia, CNS-associated macrophages, and infiltrating monocytes.
- Evaluation of Siglec-H expression in microglia under basal, injury, and inflammatory conditions.
Main Results:
- Siglec-H is confirmed as an authentic marker for mouse microglia from development to adulthood.
- Siglec-H expression persists in activated microglia during CNS injury and inflammation.
- Siglec-H expression is largely absent in CNS-associated macrophages and infiltrating monocytes.
Conclusions:
- Siglec-H is a reliable and specific marker for histological identification of microglia.
- Siglec-H facilitates the distinction between microglia and other myeloid cell populations in the CNS.
- The Siglech gene locus offers a viable target for microglia-specific genetic manipulation.

