Analysis of gut microbiomes reveals co-colonization patterns and potential therapeutic targets against Enterobacteriaceae, addressing global health challenges.
By Vijay Kumar MalesuReviewed by Lily Ramsey, LLMJan 14 2025 Large-scale analysis of 12,238 gut metagenomes identifies microbial co-colonizers and co-excluders, offering insights into infection resistance and potential non-antibiotic therapies.
Their overabundance, coupled with rising multidrug resistance, poses a significant global health challenge. While microbiome-based therapies show promise, most research on Enterobacteriaceae has focused on clinical isolates, limiting ecological insights. Filtered datasets were mapped against a curated database of 4,612 species from the Unified Human Gastrointestinal Genome catalog. Rigorous curation excluded low-quality genomes using criteria such as low completeness scores assessed by CheckM and potential chimeric classifications identified by Genome UNClutterer .
Differential abundance analyses, conducted with Analysis of Differential Abundance Using Compositional Data and Multivariable Association with Linear Models 2 , identified microbial species significantly associated with Enterobacteriaceae presence or absence. Enterobacteriaceae were detected in 66% of the samples, with E. coli, K. pneumoniae, and Enterobacter hormaechei being the most prevalent species. Their distribution varied across geographic locations, age groups, and health states, with notable prevalence among African samples and individuals with rheumatoid arthritis .
Antibiotic Digestion E. Coli Genome Global Health Machine Learning Metabolism Microbiology Mortality Quorum Sensing Research
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