Colonization resistance in the intensive care unit: ecological collapse, pathogen domination, and the transition from colonization to infection
Abstract
Healthcare-associated infections in the intensive care unit (ICU) arise through interactions among pathogen exposure, host susceptibility, and the ecological conditions that govern microbial colonization and expansion. Colonization resistance refers to the combined capacity of resident microbial communities, mucosal environments, and host defenses to restrict the establishment and expansion of potential pathogens. This protection depends on nutrient competition, niche occupancy, direct antagonism, microbial cross-feeding, physicochemical conditions, and immune containment. Critical illness and its treatments may disrupt these mechanisms by altering resource availability, opening previously occupied niches, and creating new habitats. Antibiotic exposure is a major ecological pressure, whereas acid suppression, interrupted nutrition, impaired gastrointestinal transit, circulatory dysfunction, altered oxygenation, and invasive devices may contribute through mechanisms supported by varying levels of clinical and experimental evidence. These perturbations can favor pathogen persistence or expansion, although reduced microbial diversity or high relative abundance alone does not establish an increased absolute pathogen burden or subsequent infection. We synthesize evidence concerning the ecological strategies of major ICU opportunists, including Enterococcus, Enterobacterales, Klebsiella pneumoniae, Pseudomonas aeruginosa, Acinetobacter baumannii, and Candida species. We then propose a four-gate conceptual model for the transition from colonization to infection: reservoir amplification, access through a permissive anatomical route, failure of local containment, and establishment of clinically significant infection. These processes are neither necessarily sequential nor sufficient individually to establish causality. Evidence from longitudinal microbiome studies, strain-resolved analyses, and clinical cohorts supports associations between colonization states and infection risk, but direct source attribution and causal inference remain challenging, particularly in heterogeneous adult ICU populations. The framework also recognizes that devices and healthcare environments can influence microbial persistence and transmission. Future research should integrate absolute microbial quantification, longitudinal multi-compartment sampling, strain-level genomics, host-response measurements, and clinically adjudicated infection outcomes. Clinically, established antimicrobial stewardship and infection-prevention practices should be distinguished from microbiome-targeted interventions that remain investigational.
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BibTeX
@article{liu2026colonization,
title = {{Colonization resistance in the intensive care unit: ecological collapse, pathogen domination, and the transition from colonization to infection}},
author = {Rui Liu and Jiancheng Zhang},
journal = {Frontiers in Microbiology},
year = {2026},
month = nov,
doi = {10.3389/fmicb.2026.1995208},
url = {https://www.frontiersin.org/articles/10.3389/fmicb.2026.1995208},
note = {CC BY 4.0},
}
RIS
TY - JOUR
TI - Colonization resistance in the intensive care unit: ecological collapse, pathogen domination, and the transition from colonization to infection
AU - Rui Liu
AU - Jiancheng Zhang
PY - 2026
DA - 2026/11/02
JO - Frontiers in Microbiology
DO - 10.3389/fmicb.2026.1995208
UR - https://www.frontiersin.org/articles/10.3389/fmicb.2026.1995208
AB - Healthcare-associated infections in the intensive care unit (ICU) arise through interactions among pathogen exposure, host susceptibility, and the ecological conditions that govern microbial colonization and expansion. Colonization resistance refers to the combined capacity of resident microbial communities, mucosal environments, and host defenses to restrict the establishment and expansion of potential pathogens. This protection depends on nutrient competition, niche occupancy, direct antagonism, microbial cross-feeding, physicochemical conditions, and immune containment. Critical illness and its treatments may disrupt these mechanisms by altering resource availability, opening previously occupied niches, and creating new habitats. Antibiotic exposure is a major ecological pressure, whereas acid suppression, interrupted nutrition, impaired gastrointestinal transit, circulatory dysfunction, altered oxygenation, and invasive devices may contribute through mechanisms supported by varying levels of clinical and experimental evidence. These perturbations can favor pathogen persistence or expansion, although reduced microbial diversity or high relative abundance alone does not establish an increased absolute pathogen burden or subsequent infection. We synthesize evidence concerning the ecological strategies of major ICU opportunists, including Enterococcus, Enterobacterales, Klebsiella pneumoniae, Pseudomonas aeruginosa, Acinetobacter baumannii, and Candida species. We then propose a four-gate conceptual model for the transition from colonization to infection: reservoir amplification, access through a permissive anatomical route, failure of local containment, and establishment of clinically significant infection. These processes are neither necessarily sequential nor sufficient individually to establish causality. Evidence from longitudinal microbiome studies, strain-resolved analyses, and clinical cohorts supports associations between colonization states and infection risk, but direct source attribution and causal inference remain challenging, particularly in heterogeneous adult ICU populations. The framework also recognizes that devices and healthcare environments can influence microbial persistence and transmission. Future research should integrate absolute microbial quantification, longitudinal multi-compartment sampling, strain-level genomics, host-response measurements, and clinically adjudicated infection outcomes. Clinically, established antimicrobial stewardship and infection-prevention practices should be distinguished from microbiome-targeted interventions that remain investigational.
SN - 1664-302X
ER -