Good microbes, bad genes? The dissemination of antimicrobial resistance in the human microbiome

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Ecology drives a global network of gene exchange connecting the human microbiome

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An omics-based framework for assessing the health risk of antimicrobial resistance genes

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Role of Mobile DNA in the Evolution of Vancomycin-Resistant Enterococcus faecalis

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Genetic Analysis of a High-Level Vancomycin-Resistant Isolate of Staphylococcus aureus

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Functional characterization of the antibiotic resistance reservoir in the human microflora

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Recovery of gut microbiota of healthy adults following antibiotic exposure

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Human intestinal bacteria as reservoirs for antibiotic resistance genes

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Metagenome-wide analysis of antibiotic resistance genes in a large cohort of human gut microbiota

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ARGs-OAP v2.0 with an expanded SARG database and Hidden Markov Models for enhancement characterization and quantification of antibiotic resistance genes in environmental metagenomes

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Maternal gut and breast milk microbiota affect infant gut antibiotic resistome and mobile genetic elements

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Improved annotation of antibiotic resistance determinants reveals microbial resistomes cluster by ecology

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Dramatic uneven urbanization of large cities throughout the world in recent decades

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Interconnected microbiomes and resistomes in low-income human habitats

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Antibiotic resistance in European wastewater treatment plants mirrors the pattern of clinical antibiotic resistance prevalence

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Global Spread of Vancomycin-resistant Enterococcus faecium from Distinct Nosocomial Genetic Complex

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Evidence for Extensive Resistance Gene Transfer among Bacteroides spp. and among Bacteroides and Other Genera in the Human Colon

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Stable Engraftment of Bifidobacterium longum AH1206 in the Human Gut Depends on Individualized Features of the Resident Microbiome

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Vancomycin-resistant enterococcal infections: epidemiology, clinical manifestations, and optimal management

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Gut inflammation can boost horizontal gene transfer between pathogenic and commensal <i>Enterobacteriaceae</i>

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Emergence of Epidemic Multidrug-Resistant Enterococcus faecium from Animal and Commensal Strains

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Developmental dynamics of the preterm infant gut microbiota and antibiotic resistome

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Country-specific antibiotic use practices impact the human gut resistomePreprint

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Phages rarely encode antibiotic resistance genes: a cautionary tale for virome analyses

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“Blooming” in the gut: how dysbiosis might contribute to pathogen evolution.

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Deciphering the mobility and bacterial hosts of antibiotic resistance genes under antibiotic selection pressure by metagenomic assembly and binning approaches

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Forecasting the dissemination of antibiotic resistance genes across bacterial genomes

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Elevated rates of horizontal gene transfer in the industrialized human microbiome

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High-Specificity Targeted Functional Profiling in Microbial Communities with ShortBRED

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Spatial organization of bacterial flora in normal and inflamed intestine: A fluorescence<i>in situ</i>hybridization study in mice

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Cooperating Commensals Restore Colonization Resistance to Vancomycin-Resistant Enterococcus faecium

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Minimizing treatment-induced emergence of antibiotic resistance in bacterial infections

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Environmental remodeling of human gut microbiota and antibiotic resistome in livestock farms

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Antibiotic resistance spread in food

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Salmonella persisters promote the spread of antibiotic resistance plasmids in the gut

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Probiotics impact the antibiotic resistance gene reservoir along the human GI tract in a person-specific and antibiotic-dependent manner

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Antibiotic resistance genes in the environment: prioritizing risks

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Both Oral Metronidazole and Oral Vancomycin Promote Persistent Overgrowth of Vancomycin-Resistant Enterococci during Treatment of Clostridium difficile -Associated Disease

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In Vivo Transfer of the vanA Resistance Gene from an Enterococcus faecium Isolate of Animal Origin to an E. faecium Isolate of Human Origin in the Intestines of Human Volunteers

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Fecal Microbial Transplants Reduce Antibiotic-resistant Genes in Patients With Recurrent Clostridium difficile Infection

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Widespread transfer of mobile antibiotic resistance genes within individual gut microbiomes revealed through bacterial Hi-C

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Species-Level Deconvolution of Metagenome Assemblies with Hi-C–Based Contact Probability Maps

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A Reverse Ecology Approach Based on a Biological Definition of Microbial Populations

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Pediatric Fecal Microbiota Harbor Diverse and Novel Antibiotic Resistance Genes

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Antibiotic resistome in a large‐scale healthy human gut microbiota deciphered by metagenomic and network analyses

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In vitro conjugal transfer of tetracycline resistance fromLactobacillusisolates to other Gram-positive bacteria

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Artificial sweeteners stimulate horizontal transfer of extracellular antibiotic resistance genes through natural transformation

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Distinct impact of antibiotics on the gut microbiome and resistome: a longitudinal multicenter cohort study

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Horizontal transfer of tet(M) and erm(B) resistance plasmids from food strains of Lactobacillus plantarum to Enterococcus faecalis JH2-2 in the gastrointestinal tract of gnotobiotic rats

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Tracking microbial evolution in the human gut using Hi-C reveals extensive horizontal gene transfer, persistence and adaptation

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Evidence of Extensive DNA Transfer between Bacteroidales Species within the Human Gut

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Metagenome-assembled genome binning methods with short reads disproportionately fail for plasmids and genomic islands

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Systematic detection of horizontal gene transfer across genera among multidrug-resistant bacteria in a single hospital

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A framework for identifying the recent origins of mobile antibiotic resistance genes

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Transfer of Carbapenem-Resistant Plasmid fromKlebsiella pneumoniaeST258 toEscherichia coliin Patient

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The infant gut resistome associates with E. coli, environmental exposures, gut microbiome maturity, and asthma-associated bacterial composition

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Transfer of an ampicillin resistance gene between two Escherichia coli strains in the bowel microbiota of an infant treated with antibiotics

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Enterococcal vanB resistance locus in anaerobic bacteria in human faeces

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Discordant bioinformatic predictions of antimicrobial resistance from whole-genome sequencing data of bacterial isolates: an inter-laboratory study

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NanoARG: a web service for detecting and contextualizing antimicrobial resistance genes from nanopore-derived metagenomes

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Transfer of Vancomycin Resistance Transposon Tn 1549 from Clostridium symbiosum to Enterococcus spp. in the Gut of Gnotobiotic Mice

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Integrate genome-based assessment of safety for probiotic strains: Bacillus coagulans GBI-30, 6086 as a case study

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Gut resistome development in healthy twin pairs in the first year of life

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Functions predict horizontal gene transfer and the emergence of antibiotic resistance

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Characterization of the human skin resistome and identification of two microbiota cutotypes

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Abundance and diversity of resistomes differ between healthy human oral cavities and gut

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Machine Learning Leveraging Genomes from Metagenomes Identifies Influential Antibiotic Resistance Genes in the Infant Gut Microbiome

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Gut Bacterial Microbiota and its Resistome Rapidly Recover to Basal State Levels after Short-term Amoxicillin-Clavulanic Acid Treatment in Healthy Adults

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Effects of Probiotic Supplementation on the Gut Microbiota and Antibiotic Resistome Development in Preterm Infants

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In Vivo Horizontal Gene Transfer of the Carbapenemase OXA-48 During a Nosocomial Outbreak

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Whole genome phylogenies reflect the distributions of recombination rates for many bacterial species

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Microbiota restoration reduces antibiotic-resistant bacteria gut colonization in patients with recurrent Clostridioides difficile infection from the open-label PUNCH CD study

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Natural transfer of sulphonamide and ampicillin resistance between Escherichia coli residing in the human intestine

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Fecal Microbiota Transplant in Cirrhosis Reduces Gut Microbial Antibiotic Resistance Genes: Analysis of Two Trials

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