Microglia markers
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Your at-a-glance guide to microglial markers.
Updated October 24, 2022
We've pulled together the most common microglial markers from the literature, so you can easily identify the right marker for your experiment.
Find your marker:
| Microglia-specific markers | Microglia and macrophage markers |
What are microglia?
Microglia are specialized macrophages in the brain and spinal cord. They play various roles in brain development and aging but most commonly function as the innate immune cells of the central nervous system (CNS).
Due to the shared lineage of microglia and macrophages, many markers are common to both cell types.
Microglia-specific markers
TMEM119
TMEM119 is a cell-surface protein, which is a specific microglial marker in both mouse and human samples.
This marker isn’t expressed by macrophages or any other immune or neural cell types, so it has a huge advantage over other microglial markers.
Mouse brain tissue sections stained with anti-TMEM119 (green) (ab209064).
Choosing a TMEM119 antibody:
| Species reactivity | Tested applications | Recommended products | References |
| Mouse | IHC-Fr, IHC-P | Anti-TMEM119 antibody [28-3] - Microglial marker (ab209064) | 72 |
| Mouse, Human | Flow cytometry | Anti-TMEM119 antibody [106-6] - Microglial marker (ab210405) | 12 |
| Human | IHC-P | Anti-TMEM119 antibody - C-terminal (ab185333) Corresponding blocking peptide for ab185333: TMEM119 peptide (ab207307) | 18 |
CD11b and CD45
A combination of CD11b and CD45 labeling can be used to distinguish microglia from macrophages. Resting microglia are CD11bhi, CD45low, whereas macrophages are CD11bhi, CD45hi.
We recommend Recombinant Anti-CD45 antibody [EPR20033] (ab208022)
Image (left): Mouse tissue (Eo771 breast cancer) stained with anti-CD11b (green) (ab133357).
Microglia and macrophage markers
Iba1
Ionized calcium-binding adaptor molecule 1 (Iba1) is a microglial and macrophage-specific calcium-binding protein involved with membrane ruffling and phagocytosis in activated microglia.
We recommend Recombinant Anti-Iba1 antibody [EPR16588] (ab178846)
Image (left): Mouse cerebral cortex tissue sections stained with anti-Iba1 (green) (ab178846).
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CX3CR1
CX3CR1 is the fractalkine receptor found on the surface of both microglia and macrophages in the CNS, where it responds to CX3CL1 (fractalkine) secreted by neurons.
We recommend Recombinant Anti-CX3CR1 antibody [EPR22354-15] (ab245248)
Image (left): Flow cytometric analysis of human peripheral blood mononuclear cells stained with anti-CX3CR1 (right) (ab245248) compared with a Rabbit monoclonal IgG (ab172730) isotype control (left).
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F4/80
F4/80 is a 160 KDa glycoprotein found on the surface of macrophages and resting microglia.
We recommend Recombinant Anti-F4/80 antibody [SP115] (ab111101)
Image (left): Mouse liver tissue sections stained with anti-F4/80 [SP115] (ab111101).
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CD68
CD68 is a lysosomal protein expressed in high levels by macrophages and activated microglia and in low levels by resting microglia.
We recommend Recombinant Anti-CD68 antibody [EPR20545] (ab213363)
Image (left): Human cervical carcinoma tissue sections stained with anti-CD68 (ab213363).
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CD40
CD40 is a cell surface molecule necessary for antigen presentation and is expressed by activated microglia and macrophages.
We recommend Recombinant Anti-CD40 antibody [EPR20735] (ab224639)
Image (left): Human diffuse large B-cell lymphoma tissue sections stained with anti-CD40 (ab224639).
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References
- Bennetta, M. L. et al. New tools for studying microglia in the mouse and human CNS. PNAS 113, 1738-1746 (2016). doi:10.1073/pnas.1525528113
- Bhasin, M., Wu, M. & Tsirka, S. E. Modulation of microglial/macrophage activation by macrophage inhibitory factor (TKP) or tuftsin (TKPR) attenuates the disease course of experimental autoimmune encephalomyelitis. BMC Immunol. 8, 10 (2007).
- Becher, B. & Antel, J. P. Comparison of phenotypic and functional properties of immediately ex vivo and cultured human adult microglia. Glia 18, 1–10 (1996).
- Ford, A. L., Goodsall, A. L., Hickey, W. F. & Sedgwick, J. D. Normal adult ramified microglia separated from other central nervous system macrophages by flow cytometric sorting. Phenotypic differences defined and direct ex vivo antigen presentation to myelin basic protein-reactive CD4+ T cells compared. J. Immunol. 154, 4309–21 (1995).
- Imai, Y., Ibata, I., Ito, D., Ohsawa, K. & Kohsaka, S. A novel gene iba1 in the major histocompatibility complex class III region encoding an EF hand protein expressed in a monocytic lineage. Biochem. Biophys. Res. Commun. 224, 855–62 (1996).
- Ito, D., Tanaka, K., Suzuki, S., Dembo, T. & Fukuuchi, Y. Enhanced Expression of Iba1, Ionized Calcium-Binding Adapter Molecule 1, After Transient Focal Cerebral Ischemia In Rat Brain. Stroke 32, 1208–1215 (2001).
- Patel, A. R., Ritzel, R., McCullough, L. D. & Liu, F. Microglia and ischemic stroke: A double-edged sword. International Journal of Physiology, Pathophysiology and Pharmacology 5, 73–90 (2013).
- Ponomarev, E. D., Shriver, L. P. & Dittel, B. N. CD40 Expression by Microglial Cells Is Required for Their Completion of a Two-Step Activation Process during Central Nervous System Autoimmune Inflammation. J. Immunol. 176, 1402–1410 (2006).
- Schwabenland, M. et al. Analyzing microglial phenotypes across neuropathologies: a practical guide. Acta Neuropathologica (2021).