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Updated: Sep 9, 2025

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Isolation and Flow Cytometric Characterization of Murine Small Intestinal Lymphocytes
Published on: May 8, 2016
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Rapid Isolation and Flow Cytometry Analysis of Murine Intestinal Immune Cells After Chemically Induced Colitis
Ashish K Singh1, Alfonso Blanco2, Ray Sinnott3
1Conway Institute, School of Medicine, University College Dublin, Dublin, Ireland.
Bio-Protocol
|August 28, 2025
Summary
Researchers developed a faster method to isolate immune cells from inflamed mouse colons, improving cell viability for better inflammatory bowel disease (IBD) research. This technique enhances the study of gut inflammation and immune responses.
Area of Science:
- Immunology
- Gastroenterology
- Cell Biology
Background:
- Chemically induced murine colitis models are crucial for studying intestinal homeostasis and inflammatory bowel disease (IBD).
- Understanding immune cell dynamics during gut inflammation is essential for elucidating disease mechanisms.
- Isolating viable immune cells, especially activated neutrophils and macrophages, from inflamed gut tissue is challenging due to prolonged enzymatic digestion.
Purpose of the Study:
- To develop an improved method for isolating high-yield, viable immune cells from inflamed mouse colons.
- To overcome the limitations of conventional cell isolation techniques that can compromise cell integrity and alter activation states.
- To facilitate downstream analyses of immune cell populations involved in intestinal inflammation.
Main Methods:
- Utilized a cell dissociator (Medimachine II) for rapid separation of intestinal tissue after short enzymatic digestion.
- Obtained a single-cell suspension suitable for immune cell isolation.
- Compared the new method's cell viability and yield against conventional protocols.
Main Results:
- Achieved 80%-90% cell viability, a 1.5 to 2-fold improvement over conventional methods.
- Enabled faster isolation of immune cells from inflamed mouse colons.
- Isolated cells retained their composition, phenotype, and activation state for downstream analysis.
Conclusions:
- The described protocol significantly enhances immune cell isolation from inflamed murine colons, yielding higher cell viability and quantity.
- This method provides a more reliable approach for studying immune cell populations in models of gut inflammation, such as IBD.
- The isolated cells are suitable for a wide range of analyses, including flow cytometry, gene expression profiling, and functional assays.

