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Updated: Oct 29, 2025

DNA-barcode-based Multiplex Immunofluorescence Imaging to Analyze FFPE Specimens from Genetically Reprogrammed Murine Melanoma
Published on: June 6, 2025
Optimized protocol for immunophenotyping of melanoma and tumor-bearing skin from mouse
Sai Sakktee Krisna1,2,3, Christophe Goncalves3, Natascha Gagnon3
1Department of Physiology, Faculty of Medicine, McGill University, Montreal, QC H3G 1Y6, Canada.
Insights
Isolating immune cells from skin is difficult but this new protocol using a murine melanoma model enables viable cell recovery. This method allows for the detection of rare immune cells, such as group 2 innate lymphoid cells.
Area of Science:
- Immunology
- Cell Biology
- Dermatology
Background:
- Isolating immune cells from solid tissues like skin presents significant challenges compared to blood or lymphoid organs.
- Existing methods often result in low cell viability or biased cell representation, hindering comprehensive immune profiling.
- Skin-resident immune cells play crucial roles in local immunity and disease pathogenesis.
Purpose of the Study:
- To develop and validate a robust protocol for the enzymatic digestion of skin tissue.
- To optimize conditions for preserving immune cell viability and function during the isolation process.
- To enable the sensitive detection of low-abundance immune cell populations within the skin, specifically in a cancer model.
Main Methods:
- A step-by-step protocol for enzymatic skin digestion was established using a murine melanoma model.
- Optimization of digestion time, temperature, and enzyme concentrations was performed.
- Flow cytometry was employed to assess immune cell viability and enumerate specific immune cell subsets, including group 2 innate lymphoid cells.
Main Results:
- The developed protocol effectively dissociates murine skin, yielding high numbers of viable immune cells.
- The method demonstrated superior performance in preserving cell integrity compared to standard dissociation techniques.
- Low-abundant immune cell populations, including group 2 innate lymphoid cells, were successfully detected and characterized in skin digests.
Conclusions:
- This protocol provides a reliable method for isolating viable immune cells from murine skin, particularly within a melanoma microenvironment.
- The technique facilitates the study of cellular immunity in skin-associated conditions and cancer research.
- It opens avenues for deeper investigation into the role of rare immune cells in skin health and disease.
Abstract:
While isolating immune cells from spleens and lungs is routinely achieved using flow cytometry, it is challenging to isolate viable immune cells from skin. Here, we describe a step-by-step protocol for skin digestion using a murine melanoma model, which is amenable for detection of low abundant immune cell populations including group 2 innate lymphoid cells.

