ArticleBMC genomics2019
Comparative genomic analysis revealed great plasticity and environmental adaptation of the genomes of Enterococcus faecium.
Article in BMC genomics, 2019. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 35 papers.
What it found
Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.
The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
The trial behind it
Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.
Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.
Who cites it
35 citing papers in PubMed, 76 citations in OpenAlex.
- Clade-specific evolution and genome plasticity underlying antimicrobial resistance in Enterococcus faecium.Archives of microbiology · 2026Review
- The interplay of specialized metabolites, antibiotic resistance, and virulence in Enterococcus faecium: in silico analysis of bacterial genomes.BMC genomics · 2026Article
- Dynamics of genome evolution in the era of pangenome analysis.Cell genomics · 2026Review
- Genome-based reassessment ofCurrent research in microbial sciences · 2026Article
- Article
- From cognition to response: clinical challenges, antibiotic resistance mechanisms, and prevention and control strategies ofFrontiers in microbiology · 2026Review
- Article
- Clinical and Genomic Characterization of Recalcitrant Enterococcal Bacteremia: A Multicenter Prospective Cohort Study (VENOUS).The Journal of infectious diseases · 2025Article
- Comparative Genomic Analysis and Antimicrobial Resistance Profile ofVeterinary sciences · 2025Article
- Probiotic potential and safety assessment of bacteriocinogenicFrontiers in microbiology · 2025Article
- RIBAP: a comprehensive bacterial core genome annotation pipeline for pangenome calculation beyond the species level.Genome biology · 2024Article
- Comparative pangenome analysis of Enterococcus faecium and Enterococcus lactis provides new insights into the adaptive evolution by horizontal gene acquisitions.BMC genomics · 2024Article
- Genomic analysis ofFrontiers in microbiology · 2024Article
- Comparative genomic analysis of clinical Enterococcus faecalis distinguishes strains isolated from the bladder.BMC genomics · 2023Article
- Article
- Article
- Comparative genomic analysis of Stenotrophomonas maltophilia unravels their genetic variations and versatility trait.Journal of applied genetics · 2023Article
- Inter-species diversity and functional genomic analyses of closed genome assemblies of clinically isolated, megaplasmid-containingAccess microbiology · 2023Article
- Safety assessment ofFrontiers in microbiology · 2023Article
- Pan-Genome Analysis of Staphylococcus aureus Reveals Key Factors Influencing Genomic Plasticity.Microbiology spectrum · 2022Article
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
7 authors at 1 institution in 1 country.
Funding
Abstract
backgroundAs an important nosocomial pathogen, Enterococcus faecium has received increasing attention in recent years. However, a large number of studies have focused on the hospital-associated isolates and ignored isolates originated from the natural environments.
resultsIn this study, comparative genomic analysis was conducted on 161 isolates originated from human, animal, and naturally fermented dairy products. The results showed that the environment played an important role in shaping the genomes of Enterococcus faecium. The isolates from human had the largest average genome size, while the isolates from dairy products had the smallest average genome size and fewest antibiotic resistance genes. A phylogenetic tree was reconstructed based on the genomes of these isolates, which revealed new insights into the phylogenetic relationships among the dairy isolates and those from hospitals, communities, and animals. Furthermore, 202 environment-specific genes were identified, including 136 dairy-specific, 31 human blood-specific, and 35 human gastrointestinal-specific genes. Interestingly, five dairy-specific genes (namely lacF, lacA/B, lacD, lacG, and lacC) that constituted an integrated lactose metabolism pathway existed in almost all dairy isolates. The pathway conservation demonstrated an active role of the environment in shaping the genomes of Enterococcus faecium.
conclusionsThis study shows that the Enterococcus faecium species has great genomic plasticity and high versatility to occupy broad ecological roles, dwelling as non-harmful dairy and animal gut commensals as well as significant nosocomial pathogens that disseminate antibiotic resistance genes.
Indexed as
Identifiers
What OpenQuestion holds
Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.