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Updated: Feb 13, 2026

Murine Fecal Isolation and Microbiota Transplantation
Published on: May 26, 2023
Fecal microbiota transplantation from psychiatric patients to mice - systematic review of methodologies and a call
Antonio Maria D'Onofrio1, Adrian Gomez-Nguyen2,3, Giovanni Camardese4,5
1Department of Neuroscience, Section of Psychiatry, Università Cattolica del Sacro Cuore, 00168, Rome, Italy.
Background:
Fecal microbiota transplantation (FMT) has emerged as a key tool to explore the role of the microbiome-gut-brain axis in psychiatric disorders. However, the field is hindered by significant methodological inconsistencies.
Methods:
A comprehensive literature search identified 31 studies performing FMT from human patients with psychiatric conditions into rodent models.
Results:
None of the 31 studies followed an identical FMT protocol. Significant heterogeneity was observed across studies in rodent model selection, including germ-free, antibiotic-pretreated, or specific pathogen-free approaches, in antibiotic regimens, timing and microbiota depletion verification, as well as in FMT donor strategy, dosage, frequency, engraftment assessment, and behavioral testing schedules.
Conclusions:
This review highlights the necessity for standardized methodologies in microbiome research. Evidence-based recommendations are provided to promote reproducibility in future work. Investigators are encouraged to publish transparent and rigorous protocols, to enhance the translational potential of microbiome-gut-brain axis research.
Insights
Fecal microbiota transplantation (FMT) research in psychiatric disorders lacks standardized methods. This review highlights inconsistencies and calls for transparent protocols to improve the microbiome-gut-brain axis field.
Area of Science:
- Neuroscience
- Microbiology
- Psychiatry
Background:
- Fecal microbiota transplantation (FMT) is crucial for studying the microbiome-gut-brain axis in psychiatric disorders.
- Methodological inconsistencies currently hinder progress in this research area.
Purpose of the Study:
- To review and highlight methodological inconsistencies in FMT studies related to the microbiome-gut-brain axis and psychiatric disorders.
- To provide recommendations for standardized methodologies to enhance research reproducibility.
Main Methods:
- A comprehensive literature search identified 31 studies using FMT from human psychiatric patients into rodent models.
- Analysis focused on variations in rodent models, antibiotic regimens, FMT protocols, and behavioral assessments.
Main Results:
- Significant heterogeneity was observed across all 31 studies regarding FMT protocols.
- Inconsistencies were noted in rodent model selection, antibiotic use, FMT procedures, and outcome assessments.
Conclusions:
- Standardized methodologies are essential for advancing microbiome research in psychiatric disorders.
- Transparent and rigorous protocols are needed to improve the translational potential of microbiome-gut-brain axis research.
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