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A gavage-fomite based method to generate mouse models with natural microbiota.

Geongoo Han1, Mohammad H Hasan1, Olumide Adesioye1

  • 1Department of Molecular Microbiology and Immunology, Brown University, Providence, RI, 02912.

Biorxiv : the Preprint Server for Biology
|June 29, 2026
PubMed
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Introducing a novel gavage-fomite (GaF) method, this study enhances specific pathogen-free (SPF) mice with natural microbiota. GaF-treated mice show improved immune maturation and human-like immune traits, advancing immunological research.

Area of Science:

  • Immunology
  • Microbiology
  • Translational Research

Background:

  • Specific pathogen-free (SPF) mice are crucial for immunology but lack microbial exposure, limiting their predictive value for human clinical outcomes.
  • Sanitized housing environments prevent essential microbial exposure for proper immune maturation in laboratory mice.
  • Existing methods to introduce microbes, like pet store cohousing, have high variability and mortality.

Purpose of the Study:

  • To develop a novel method for introducing diverse microbial communities to SPF mice.
  • To generate mouse models with 'natural microbiota' that better mimic human immune development.
  • To improve the reliability of mouse models in immunological and translational research.

Main Methods:

  • Development and application of the gavage-fomite (GaF) method for microbial exposure.
Keywords:
Antigen-experienced CD8 T cellsImmune maturationMicrobial exposureMouse models with natural microbiota

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  • Comparison of GaF method with pet store mice cohousing approach.
  • Analysis of gut microbial composition, immune cell distribution, cytokine levels, and gene expression in treated mice.
  • Main Results:

    • The GaF method consistently introduced diverse pathogens and commensals, similar to cohousing but with reduced mortality.
    • GaF-treated mice displayed consistent gut microbiota and robust immune maturation, including mucosal T-cell distribution and elevated cytokines.
    • Immune transcriptional signatures in GaF mice aligned closely with adult humans, and they showed enhanced protection against bacterial challenge.

    Conclusions:

    • The gavage-fomite (GaF) method effectively generates mouse models with 'natural microbiota' and human-like immune traits.
    • GaF-treated mice exhibit improved immune maturation and enhanced disease resistance.
    • This method offers a simple, effective, and reproducible approach for advancing immunological research across institutions.