Related references
Note: Only part of the references are listed.The use of next generation sequencing for improving food safety: Translation into practice
Balamurugan Jagadeesan et al.
FOOD MICROBIOLOGY (2019)
Comparison of long-read sequencing technologies in the hybrid assembly of complex bacterial genomes
Nicola De Maio et al.
MICROBIAL GENOMICS (2019)
RaGOO: fast and accurate reference-guided scaffolding of draft genomes
Michael Alonge et al.
GENOME BIOLOGY (2019)
Next generation microbiological risk assessment: opportunities of whole genome sequencing (WGS) for foodborne pathogen surveillance, source tracking and risk assessment
Kalliopi Rantsiou et al.
INTERNATIONAL JOURNAL OF FOOD MICROBIOLOGY (2018)
Genomics of foodborne pathogens for microbial food safety
Marc W. Allard et al.
CURRENT OPINION IN BIOTECHNOLOGY (2018)
Long reads: their purpose and place
Martin O. Pollard et al.
HUMAN MOLECULAR GENETICS (2018)
Nanopore sequencing and assembly of a human genome with ultra-long reads
Miten Jain et al.
NATURE BIOTECHNOLOGY (2018)
The Galaxy platform for accessible, reproducible and collaborative biomedical analyses: 2018 update
Enis Afgan et al.
NUCLEIC ACIDS RESEARCH (2018)
Whole genome sequencing as a typing tool for foodborne pathogens like Listeria monocytogenes - The way towards global harmonisation and data exchange
Stefanie Lueth et al.
TRENDS IN FOOD SCIENCE & TECHNOLOGY (2018)
A Validation Approach of an End-to-End Whole Genome Sequencing Workflow for Source Tracking of Listeria monocytogenes and Salmonella enterica
Anne-Catherine Portmann et al.
FRONTIERS IN MICROBIOLOGY (2018)
Evaluation of Oxford Nanopore's MinION Sequencing Device for Microbial Whole Genome Sequencing Applications
Andrea D. Tyler et al.
SCIENTIFIC REPORTS (2018)
The outbreak that changed meat and poultry inspection systems worldwide
Elsa A. Murano et al.
ANIMAL FRONTIERS (2018)
Canu: scalable and accurate long-read assembly via adaptive k-mer weighting and repeat separation
Sergey Koren et al.
GENOME RESEARCH (2017)
Time to review the gold standard for genotyping vancomycin-resistant enterococci in epidemiology: Comparing whole-genome sequencing with PFGE and MLSTin three suspected outbreaks in Sweden during 2013-2015
Birgitta Lytsy et al.
INFECTION GENETICS AND EVOLUTION (2017)
Unicycler: Resolving bacterial genome assemblies from short and long sequencing reads
Ryan R. Wick et al.
PLOS COMPUTATIONAL BIOLOGY (2017)
High Throughput Sequencing for Detection of Foodborne Pathogens
Camilla Sekse et al.
FRONTIERS IN MICROBIOLOGY (2017)
Food Safety in the Age of Next Generation Sequencing, Bioinformatics, and Open Data Access
Eduardo N. Taboada et al.
FRONTIERS IN MICROBIOLOGY (2017)
DeepNano: Deep recurrent neural networks for base calling in MinION nanopore reads
Vladimir Boza et al.
PLOS ONE (2017)
Whole genome sequencing: an efficient approach to ensuring food safety
B. Lakicevic et al.
59TH INTERNATIONAL MEAT INDUSTRY CONFERENCE MEATCON2017 (2017)
Completing bacterial genome assemblies with multiplex MinION sequencing
Ryan R. Wick et al.
MICROBIAL GENOMICS (2017)
VFDB 2016: hierarchical and refined dataset for big data analysis-10 years on
Lihong Chen et al.
NUCLEIC ACIDS RESEARCH (2016)
Implementation of Nationwide Real-time Whole-genome Sequencing to Enhance Listeriosis Outbreak Detection and Investigation
Brendan R. Jackson et al.
CLINICAL INFECTIOUS DISEASES (2016)
Navigating Microbiological Food Safety in the Era of Whole-Genome Sequencing
J. Ronholm et al.
CLINICAL MICROBIOLOGY REVIEWS (2016)
Practical Value of Food Pathogen Traceability through Building a Whole-Genome Sequencing Network and Database
Marc W. Allard et al.
JOURNAL OF CLINICAL MICROBIOLOGY (2016)
Coming of age: ten years of next-generation sequencing technologies
Sara Goodwin et al.
NATURE REVIEWS GENETICS (2016)
NCBI prokaryotic genome annotation pipeline
Tatiana Tatusova et al.
NUCLEIC ACIDS RESEARCH (2016)
Food safety trends: From globalization of whole genome sequencing to application of new tools to prevent foodborne diseases
Siyun Wang et al.
TRENDS IN FOOD SCIENCE & TECHNOLOGY (2016)
Genomic Epidemiology: Whole-Genome-Sequencing-Powered Surveillance and Outbreak Investigation of Foodborne Bacterial Pathogens
Xiangyu Deng et al.
ANNUAL REVIEW OF FOOD SCIENCE AND TECHNOLOGY, VOL 7 (2016)
The Food Industry's Current and Future Role in Preventing Microbial Foodborne Illness Within the United States
Michael P. Doyle et al.
CLINICAL INFECTIOUS DISEASES (2015)
Oxford Nanopore sequencing, hybrid error correction, and de novo assembly of a eukaryotic genome
Sara Goodwin et al.
GENOME RESEARCH (2015)
Rapid and Easy In Silico Serotyping of Escherichia coli Isolates by Use of Whole-Genome Sequencing Data
Katrine G. Joensen et al.
JOURNAL OF CLINICAL MICROBIOLOGY (2015)
Twenty years of bacterial genome sequencing
Nicholas J. Loman et al.
NATURE REVIEWS MICROBIOLOGY (2015)
Structure and function of enterotoxigenic Escherichia coli fimbriae from differing assembly pathways
Narges Mortezaei et al.
MOLECULAR MICROBIOLOGY (2015)
Biogenesis and adhesion of type 1 and P pili
James Lillington et al.
BIOCHIMICA ET BIOPHYSICA ACTA-GENERAL SUBJECTS (2014)
Trimmomatic: a flexible trimmer for Illumina sequence data
Anthony M. Bolger et al.
BIOINFORMATICS (2014)
Resistance to rifampicin: a review
Beth P. Goldstein
JOURNAL OF ANTIBIOTICS (2014)
Pilon: An Integrated Tool for Comprehensive Microbial Variant Detection and Genome Assembly Improvement
Bruce J. Walker et al.
PLOS ONE (2014)
The Structure of the CS1 Pilus of Enterotoxigenic Escherichia coli Reveals Structural Polymorphism
Vitold E. Galkin et al.
JOURNAL OF BACTERIOLOGY (2013)
Adhesion patterns of commensal and pathogenic Escherichia coli from humans and wild animals on human and porcine epithelial cell lines
Ulrike Froemmel et al.
GUT PATHOGENS (2013)
Artemis: an integrated platform for visualization and analysis of high-throughput sequence-based experimental data
Tim Carver et al.
BIOINFORMATICS (2012)
Multilocus Sequence Typing of Total-Genome-Sequenced Bacteria
Mette V. Larsen et al.
JOURNAL OF CLINICAL MICROBIOLOGY (2012)
SPAdes: A New Genome Assembly Algorithm and Its Applications to Single-Cell Sequencing
Anton Bankevich et al.
JOURNAL OF COMPUTATIONAL BIOLOGY (2012)
VFDB 2012 update: toward the genetic diversity and molecular evolution of bacterial virulence factors
Lihong Chen et al.
NUCLEIC ACIDS RESEARCH (2012)
GenBank
Dennis A. Benson et al.
NUCLEIC ACIDS RESEARCH (2012)
Discovery and Phylogenetic Analysis of Novel Members of Class b Enterotoxigenic Escherichia coli Adhesive Fimbriae
Rania A. Nada et al.
JOURNAL OF CLINICAL MICROBIOLOGY (2011)
The Biology of the Cytolethal Distending Toxins
Lina Guerra et al.
TOXINS (2011)
BEDTools: a flexible suite of utilities for comparing genomic features
Aaron R. Quinlan et al.
BIOINFORMATICS (2010)
Identification of Escherichia coli O157:H7 Surrogate Organisms To Evaluate Beef Carcass Intervention Treatment Efficacy
Steven C. Ingham et al.
JOURNAL OF FOOD PROTECTION (2010)
Escherichia coli Cytotoxic Necrotizing Factor 1 (CNF1): Toxin Biology, in Vivo Applications and Therapeutic Potential
Alessia Fabbri et al.
TOXINS (2010)
Cleavage of Escherichia coli Cytotoxic Necrotizing Factor 1 Is Required for Full Biologic Activity
Zeynep Knust et al.
INFECTION AND IMMUNITY (2009)
Evaluation of Escherichia coli Biotype I as a Surrogate for Escherichia coli O157:H7 for Cooking, Fermentation, Freezing, and Refrigerated Storage in Meat Processes
Carisa Keeling et al.
JOURNAL OF FOOD PROTECTION (2009)
Fluorescent Protein-Marked Escherichia coli Biotype I Strains as Surrogates for Enteric Pathogens in Validation of Beef Carcass Interventions
Elisa Cabrera-Diaz et al.
JOURNAL OF FOOD PROTECTION (2009)
Structural biology of the chaperone-usher pathway of pilus biogenesis
Gabriel Waksman et al.
NATURE REVIEWS MICROBIOLOGY (2009)
Evaluation of nonpathogenic surrogate bacteria as process validation indicators for Salmonella enterica for selected antimicrobial treatments, cold storage, and fermentation in meat
S. E. Niebuhr et al.
JOURNAL OF FOOD PROTECTION (2008)
VFDB 2008 release: an enhanced web-based resource for comparative pathogenomics
Jian Yang et al.
NUCLEIC ACIDS RESEARCH (2008)
Role of P-fimbrial-mediated adherence in pyelonephritis and persistence of uropathogenic Escherichia coli (UPEC) in the mammalian kidney
M. C. Lane et al.
KIDNEY INTERNATIONAL (2007)
Commensal and pathogenic Escherichia coli use a common pilus adherence factor for epithelial cell colonization
Maria A. Rendon et al.
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2007)
Cytolethal distending toxin in Escherichia coli O157:H7:: Spectrum of conservation, structure, and endothelial toxicity
Alexander W. Friedrich et al.
JOURNAL OF CLINICAL MICROBIOLOGY (2006)
Cytolethal distending toxin generates cell death by inducing a bottleneck in the cell cycle
LM Ceelen et al.
MICROBIOLOGICAL RESEARCH (2006)
Identification of Escherichia coli O157:H7 meat processing indicators for fresh meat through comparison of the effects of selected antimicrobial interventions
KM Marshall et al.
JOURNAL OF FOOD PROTECTION (2005)
VFDB: a reference database for bacterial virulence factors
LH Chen et al.
NUCLEIC ACIDS RESEARCH (2005)
Analysis of the genome structure of the nonpathogenic probiotic Escherichia coli strain Nissle 1917
L Grozdanov et al.
JOURNAL OF BACTERIOLOGY (2004)
Assembly and function of a bacterial genotoxin
D Nesic et al.
NATURE (2004)
Identification and molecular characterization of the gene encoding coli surface antigen 20 of enterotoxigenic Escherichia coli
H Valvatne et al.
FEMS MICROBIOLOGY LETTERS (2004)
Cytolethal distending toxin gene cluster in enterohemorrhagic Escherichia coli O157:H- and O157:H7:: Characterization and evolutionary considerations
A Janka et al.
INFECTION AND IMMUNITY (2003)
The role of P fimbriae for Escherichia coli establishment and mucosal inflammation in the human urinary tract
B Wullt et al.
INTERNATIONAL JOURNAL OF ANTIMICROBIAL AGENTS (2002)
Cytotoxic necrotizing factor-1 contributes to Escherichia coli K1 invasion of the central nervous system
NA Khan et al.
JOURNAL OF BIOLOGICAL CHEMISTRY (2002)
An activator of glutamate decarboxylase genes regulates the expression of enteropathogenic Escherichia coli virulence genes through control of the plasmid-encoded regulator, per
S Shin et al.
MOLECULAR MICROBIOLOGY (2001)
CdtA, CdtB, and CdtC form a tripartite complex that is required for cytolethal distending toxin activity
M Lara-Tejero et al.
INFECTION AND IMMUNITY (2001)
Escherichia coli CdtB mediates cytolethal distending toxin cell cycle arrest
C Elwell et al.
INFECTION AND IMMUNITY (2001)
Share Paper
