Ecology, more than antibiotics consumption, is the major predictor for the global distribution of aminoglycoside-modifying enzymes

Global burden of bacterial antimicrobial resistance in 2019: a systematic analysis

(2022) Christopher JL Murray et al.   LANCET

PlasForest: a homology-based random forest classifier for plasmid detection in genomic datasets

(2021) Léa Pradier et al.   BMC BIOINFORMATICS

Online searching platform for antibiotic resistome in bacterial tree of life and global habitats

(2020) An Ni Zhang et al.   FEMS MICROBIOLOGY ECOLOGY

Global ocean resistome revealed: Exploring antibiotic resistance gene abundance and distribution in TARA Oceans samples

(2020) Rafael R C Cuadrat et al.   GigaScience

Prevalence of antibiotic resistant Escherichia coli isolates from local and imported retail chicken carcasses

(2020) Nahla Eltai et al.   JOURNAL OF FOOD PROTECTION

Is antimicrobial resistance evolution accelerating?

(2020) Christopher Witzany et al.   PLoS Pathogens

Fecal pollution can explain antibiotic resistance gene abundances in anthropogenically impacted environments

(2019) Antti Karkman et al.   Nature Communications

The use of aminoglycosides in animals within the EU: development of resistance in animals and possible impact on human and animal health: a review

(2019) Engeline van Duijkeren et al.   JOURNAL OF ANTIMICROBIAL CHEMOTHERAPY

Antibiotic pollution in surface fresh waters: Occurrence and effects

(2019) Marie-Claire Danner et al.   SCIENCE OF THE TOTAL ENVIRONMENT

Validating the NCBI AMRFinder Tool and Resistance Gene Database Using Antimicrobial Resistance Genotype-Phenotype Correlations in a Collection of NARMS Isolates

(2019) Michael Feldgarden et al.   ANTIMICROBIAL AGENTS AND CHEMOTHERAPY

Defining and combating antibiotic resistance from One Health and Global Health perspectives

(2019) Sara Hernando-Amado et al.   Nature Microbiology

GTDB-Tk: a toolkit to classify genomes with the Genome Taxonomy Database

(2019) Pierre-Alain Chaumeil et al.   BIOINFORMATICS

Transient Silencing of Antibiotic Resistance by Mutation Represents a Significant Potential Source of Unanticipated Therapeutic Failure

(2019) Louise Kime et al.   mBio

Review of antimicrobial resistance surveillance programmes in livestock and meat in EU with focus on humans

(2018) R. Schrijver et al.   CLINICAL MICROBIOLOGY AND INFECTION

Antimicrobial resistance among migrants in Europe: a systematic review and meta-analysis

(2018) Laura B Nellums et al.   LANCET INFECTIOUS DISEASES

Bipartite Network Analysis of Gene Sharings in the Microbial World

(2018) Eduardo Corel et al.   MOLECULAR BIOLOGY AND EVOLUTION

Overcoming Aminoglycoside Enzymatic Resistance: Design of Novel Antibiotics and Inhibitors

(2018) Sandra Zárate et al.   MOLECULES

How robust are popular beta diversity indices to sampling error?

(2018) P. Jason Schroeder et al.   Ecosphere

Wastewater treatment plant resistomes are shaped by bacterial composition, genetic exchange, and upregulated expression in the effluent microbiomes

(2018) Feng Ju et al.   ISME Journal

A standardized bacterial taxonomy based on genome phylogeny substantially revises the tree of life

(2018) Donovan H Parks et al.   NATURE BIOTECHNOLOGY

Computational tools to unmask transposable elements

(2018) Patricia Goerner-Potvin et al.   NATURE REVIEWS GENETICS

Antibiotic discovery: History, methods and perspectives

(2018) Guillaume André Durand et al.   INTERNATIONAL JOURNAL OF ANTIMICROBIAL AGENTS

ICEberg 2.0: an updated database of bacterial integrative and conjugative elements

(2018) Meng Liu et al.   NUCLEIC ACIDS RESEARCH

Impact of anthropogenic activities on the dissemination of antibiotic resistance across ecological boundaries

(2017) Vijay Tripathi et al.   Essays in Biochemistry

An evolutionary model to predict the frequency of antibiotic resistance under seasonal antibiotic use, and an application to Streptococcus pneumoniae

(2017) François Blanquart et al.   PROCEEDINGS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES

Sources identification of antibiotic pollution combining land use information and multivariate statistics

(2016) Jia Li et al.   ENVIRONMENTAL MONITORING AND ASSESSMENT

Metagenomic Evidence of the Prevalence and Distribution Patterns of Antimicrobial Resistance Genes in Dairy Agroecosystems

(2016) Dipti W. Pitta et al.   Foodborne Pathogens and Disease

Understanding the mechanisms and drivers of antimicrobial resistance

(2016) Alison H Holmes et al.   LANCET

Interconnected microbiomes and resistomes in low-income human habitats

(2016) Erica C. Pehrsson et al.   NATURE

Identification and analysis of integrons and cassette arrays in bacterial genomes

(2016) Jean Cury et al.   NUCLEIC ACIDS RESEARCH

Complete nucleotide sequence of pH11, an IncHI2 plasmid conferring multi-antibiotic resistance and multi-heavy metal resistance genes in a clinical Klebsiella pneumoniae isolate

(2016) Yao Zhai et al.   PLASMID

Mechanisms of resistance to aminoglycoside antibiotics: overview and perspectives

(2016) Sylvie Garneau-Tsodikova et al.   MedChemComm

Antibiotic Resistance in the Food Chain: A Developing Country-Perspective

(2016) Luria Leslie Founou et al.   Frontiers in Microbiology

Extended-Spectrum-β-Lactamase-Producing Enterobacteriaceae Isolated from Vegetables Imported from the Dominican Republic, India, Thailand, and Vietnam

(2015) Katrin Zurfluh et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Red: an intelligent, rapid, accurate tool for detecting repeats de-novo on the genomic scale

(2015) Hani Z. Girgis   BMC BIOINFORMATICS

Co-occurrence of resistance genes to antibiotics, biocides and metals reveals novel insights into their co-selection potential

(2015) Chandan Pal et al.   BMC GENOMICS

Does human activity impact the natural antibiotic resistance background? Abundance of antibiotic resistance genes in 21 Swiss lakes

(2015) Nadine Czekalski et al.   ENVIRONMENT INTERNATIONAL

Prioritizing risks of antibiotic resistance genes in all metagenomes

(2015) José L. Martínez et al.   NATURE REVIEWS MICROBIOLOGY

Tackling antibiotic resistance: the environmental framework

(2015) Thomas U. Berendonk et al.   NATURE REVIEWS MICROBIOLOGY

Limited dissemination of the wastewater treatment plant core resistome

(2015) Christian Munck et al.   Nature Communications

Functional Characterization of Bacteria Isolated from Ancient Arctic Soil Exposes Diverse Resistance Mechanisms to Modern Antibiotics

(2015) Gabriel G. Perron et al.   PLoS One

Prokka: rapid prokaryotic genome annotation

(2014) T. Seemann   BIOINFORMATICS

InterProScan 5: genome-scale protein function classification

(2014) P. Jones et al.   BIOINFORMATICS

A systematic review and meta-analysis of the effects of antibiotic consumption on antibiotic resistance

(2014) Brian G Bell et al.   BMC INFECTIOUS DISEASES

Antibiotic Pollution in the Environment: A Review

(2014) Ritu Gothwal et al.   CLEAN-Soil Air Water

Testing environmental and genetic effects in the presence of spatial autocorrelation

(2014) François Rousset et al.   ECOGRAPHY

Role of EfrAB efflux pump in biocide tolerance and antibiotic resistance of Enterococcus faecalis and Enterococcus faecium isolated from traditional fermented foods and the effect of EDTA as EfrAB inhibitor

(2014) Leyre Lavilla Lerma et al.   FOOD MICROBIOLOGY

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

(2014) Molly K Gibson et al.   ISME Journal

Bacterial phylogeny structures soil resistomes across habitats

(2014) Kevin J. Forsberg et al.   NATURE

Molecular mechanisms of antibiotic resistance

(2014) Jessica M. A. Blair et al.   NATURE REVIEWS MICROBIOLOGY

Spatial heterogeneity of gut microbiota reveals multiple bacterial communities with distinct characteristics

(2014) Hsiao-Pei Lu et al.   Scientific Reports

A Modeling Framework for the Evolution and Spread of Antibiotic Resistance: Literature Review and Model Categorization

(2013) Ian H. Spicknall et al.   AMERICAN JOURNAL OF EPIDEMIOLOGY

Strategies to overcome the action of aminoglycoside-modifying enzymes for treating resistant bacterial infections

(2013) Kristin J Labby et al.   Future Medicinal Chemistry

The role of aquatic ecosystems as reservoirs of antibiotic resistance

(2013) Elisabet Marti et al.   TRENDS IN MICROBIOLOGY

Selective Pressure of Antibiotic Pollution on Bacteria of Importance to Public Health

(2012) Alfredo Tello et al.   ENVIRONMENTAL HEALTH PERSPECTIVES

PhiSpy: a novel algorithm for finding prophages in bacterial genomes that combines similarity- and composition-based strategies

(2012) Sajia Akhter et al.   NUCLEIC ACIDS RESEARCH

The Shared Antibiotic Resistome of Soil Bacteria and Human Pathogens

(2012) K. J. Forsberg et al.   SCIENCE

Heavy metal driven co-selection of antibiotic resistance in soil and water bodies impacted by agriculture and aquaculture

(2012) Claudia Seiler et al.   Frontiers in Microbiology

Ultra-fast sequence clustering from similarity networks with SiLiX

(2011) Vincent Miele et al.   BMC BIOINFORMATICS

Discovery research: the scientific challenge of finding new antibiotics

(2011) D. M. Livermore et al.   JOURNAL OF ANTIMICROBIAL CHEMOTHERAPY

International Spread of an Epidemic Population of Salmonella enterica Serotype Kentucky ST198 Resistant to Ciprofloxacin

(2011) S. Le Hello et al.   JOURNAL OF INFECTIOUS DISEASES

Risk of Highly Resistant Bacteria Importation from Repatriates and Travelers Hospitalized in Foreign Countries: About the French Recommendations to Limit Their Spread

(2011) Didier Lepelletier et al.   JOURNAL OF TRAVEL MEDICINE

Antibiotic resistance is ancient

(2011) Vanessa M. D’Costa et al.   NATURE

Accelerated Profile HMM Searches

(2011) Sean R. Eddy   PLoS Computational Biology

Selection of Resistant Bacteria at Very Low Antibiotic Concentrations

(2011) Erik Gullberg et al.   PLoS Pathogens

Acquired Antibiotic Resistance Genes: An Overview

(2011) Angela H. A. M. van Hoek et al.   Frontiers in Microbiology

Aminoglycoside modifying enzymes

(2010) Maria S. Ramirez et al.   DRUG RESISTANCE UPDATES

Call of the wild: antibiotic resistance genes in natural environments

(2010) Heather K. Allen et al.   NATURE REVIEWS MICROBIOLOGY

BLAST+: architecture and applications

(2009) Christiam Camacho et al.   BMC BIOINFORMATICS

Bacterial gene amplification: implications for the evolution of antibiotic resistance

(2009) Linus Sandegren et al.   NATURE REVIEWS MICROBIOLOGY

Ecology and evolution of antibiotic resistance

(2009) F. Baquero et al.   Environmental Microbiology Reports

Significant Reduction of Antibiotic Use in the Community after a Nationwide Campaign in France, 2002–2007

(2009) Elifsu Sabuncu et al.   PLOS MEDICINE

Fast unfolding of communities in large networks

(2008) Vincent D Blondel et al.   JOURNAL OF STATISTICAL MECHANICS-THEORY AND EXPERIMENT

Sustained reduction of antibiotic use and low bacterial resistance: 10-year follow-up of the Swedish Strama programme

(2008) S Mölstad et al.   LANCET INFECTIOUS DISEASES

Microbes on mountainsides: Contrasting elevational patterns of bacterial and plant diversity

(2008) J. A. Bryant et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA