Multidrug resistance and virulence genes carried by mobile genomic elements in Salmonella enterica isolated from live food animals, processed, and retail meat in North Carolina, 2018–2019

IntegronFinder 2.0: Identification and Analysis of Integrons across Bacteria, with a Focus on Antibiotic Resistance in Klebsiella

(2022) Bertrand Néron et al.   Microorganisms

Antimicrobial resistance and interspecies gene transfer in Campylobacter coli and Campylobacter jejuni isolated from food animals, poultry processing, and retail meat in North Carolina, 2018–2019

(2021) Dawn M. Hull et al.   PLoS One

RFPlasmid: predicting plasmid sequences from short-read assembly data using machine learning

(2021) Linda van der Graaf-van Bloois et al.   Microbial Genomics

Extraintestinal Pathogenic Escherichia coli: Virulence Factors and Antibiotic Resistance

(2021) Valerio M. Sora et al.   Pathogens

The mcr-9 Gene of Salmonella and Escherichia coli Is Not Associated with Colistin Resistance in the United States

(2020) Gregory H. Tyson et al.   ANTIMICROBIAL AGENTS AND CHEMOTHERAPY

A Multidrug-Resistant Salmonella Infantis Clone Is Spreading and Recombining in the United States

(2020) Gregory H. Tyson et al.   Microbial Drug Resistance

Worldwide Epidemiology of Salmonella Serovars in Animal-Based Foods: a Meta-analysis

(2019) Rafaela G Ferrari et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Embracing Diversity: Differences in Virulence Mechanisms, Disease Severity, and Host Adaptations Contribute to the Success of Nontyphoidal Salmonella as a Foodborne Pathogen

(2019) Rachel A. Cheng et al.   Frontiers in Microbiology

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

Effect of Sodium Hypochlorite and Benzalkonium Chloride on the Structural Parameters of the Biofilms Formed by Ten Salmonella enterica Serotypes

(2019) Rosa Capita et al.   Pathogens

RefSeq: an update on prokaryotic genome annotation and curation

(2017) Daniel H Haft et al.   NUCLEIC ACIDS RESEARCH

Identification and analysis of integrons and cassette arrays in bacterial genomes

(2016) Jean Cury et al.   NUCLEIC ACIDS RESEARCH

The Salmonella In Silico Typing Resource (SISTR): An Open Web-Accessible Tool for Rapidly Typing and Subtyping Draft Salmonella Genome Assemblies

(2016) Catherine E. Yoshida et al.   PLoS One

VFDB 2016: hierarchical and refined dataset for big data analysis—10 years on

(2015) Lihong Chen et al.   NUCLEIC ACIDS RESEARCH

In SilicoDetection and Typing of Plasmids using PlasmidFinder and Plasmid Multilocus Sequence Typing

(2014) Alessandra Carattoli et al.   ANTIMICROBIAL AGENTS AND CHEMOTHERAPY

Solving the Problem of Comparing Whole Bacterial Genomes across Different Sequencing Platforms

(2014) Rolf S. Kaas et al.   PLoS One

QUAST: quality assessment tool for genome assemblies

(2013) Alexey Gurevich et al.   BIOINFORMATICS

Infernal 1.1: 100-fold faster RNA homology searches

(2013) E. P. Nawrocki et al.   BIOINFORMATICS

Salmonella biofilms: An overview on occurrence, structure, regulation and eradication

(2011) Hans Steenackers et al.   FOOD RESEARCH INTERNATIONAL

Diversity, biology and evolution of IncQ-family plasmids

(2011) Wesley Loftie-Eaton et al.   PLASMID

Accelerated Profile HMM Searches

(2011) Sean R. Eddy   PLoS Computational Biology