Language

English

Publication Date

12-31-2025

Journal

Gut Microbes

DOI

10.1080/19490976.2025.2569739

PMID

41137523

PMCID

PMC12562794

PubMedCentral® Posted Date

10-25-2025

PubMedCentral® Full Text Version

Post-print

Abstract

Gut microbiome metagenomics is emerging as a cornerstone of precision medicine, offering exceptional opportunities for improved diagnostics, risk stratification, and therapeutic development. Advances in high-throughput sequencing have uncovered robust microbial signatures linked to infectious, inflammatory, metabolic, and neoplastic diseases. Clinical applications now include pathogen detection, antimicrobial resistance profiling, microbiota-based therapies, and enterotype-guided patient stratification. However, translation into routine care is hindered by significant barriers including methodological variability, limited functional annotation, lack of bioinformatics standardization, and underrepresentation of global populations. This review synthesizes current translational strategies, emphasizing the need for hypothesis-driven designs, multi-omic integration, longitudinal and multi-center cohorts, and mechanistic validation. We also examine critical ethical, regulatory, and equity considerations shaping the clinical landscape. Realizing the full potential of microbiome-informed care will require globally harmonized standards, cross-sector collaboration, and inclusive frameworks that ensure scientific rigor and equitable benefit.

Keywords

Humans, Metagenomics, Gastrointestinal Microbiome, Precision Medicine, Gut microbiome, metagenomics, precision medicine, biomarkers, clinical translation, antimicrobial resistance

Published Open-Access

yes

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