Assessing the genome level diversity of Listeria monocytogenes from contaminated ice cream and environmental samples linked to a listeriosis outbreak in the United States

Comparative evaluation of direct plating and most probable number for enumeration of low levels of Listeria monocytogenes in naturally contaminated ice cream products

(2017) Yi Chen et al.   INTERNATIONAL JOURNAL OF FOOD MICROBIOLOGY

Core Genome Multilocus Sequence Typing for Identification of Globally Distributed Clonal Groups and Differentiation of Outbreak Strains of Listeria monocytogenes

(2016) Yi Chen et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Listeria monocytogenes in Stone Fruits Linked to a Multistate Outbreak: Enumeration of Cells and Whole-Genome Sequencing

(2016) Yi Chen et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Prevalence and Level of Listeria monocytogenes in Ice Cream Linked to a Listeriosis Outbreak in the United States

(2016) YI CHEN et al.   JOURNAL OF FOOD PROTECTION

PHASTER: a better, faster version of the PHAST phage search tool

(2016) David Arndt et al.   NUCLEIC ACIDS RESEARCH

Recovery and Growth Potential of Listeria monocytogenes in Temperature Abused Milkshakes Prepared from Naturally Contaminated Ice Cream Linked to a Listeriosis Outbreak

(2016) Yi Chen et al.   Frontiers in Microbiology

Whole genome-based population biology and epidemiological surveillance of Listeria monocytogenes

(2016) Alexandra Moura et al.   Nature Microbiology

It Is Not All about Single Nucleotide Polymorphisms: Comparison of Mobile Genetic Elements and Deletions in Listeria monocytogenes Genomes Links Cases of Hospital-Acquired Listeriosis to the Environmental Source

(2015) Qinning Wang et al.   JOURNAL OF CLINICAL MICROBIOLOGY

Genomes of sequence type 121 Listeria monocytogenes strains harbor highly conserved plasmids and prophages

(2015) Stephan Schmitz-Esser et al.   Frontiers in Microbiology

Whole genome sequencing as a tool to investigate a cluster of seven cases of listeriosis in Austria and Germany, 2011–2013

(2014) D. Schmid et al.   CLINICAL MICROBIOLOGY AND INFECTION

Automated Reconstruction of Whole-Genome Phylogenies from Short-Sequence Reads

(2014) Frederic Bertels et al.   MOLECULAR BIOLOGY AND EVOLUTION

An evaluation of alternative methods for constructing phylogenies from whole genome sequence data: a case study withSalmonella

(2014) James B. Pettengill et al.   PeerJ

Genome Sequencing Identifies Two Nearly Unchanged Strains of Persistent Listeria monocytogenes Isolated at Two Different Fish Processing Plants Sampled 6 Years Apart

(2013) Anne Holch et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Reassessment of the Listeria monocytogenes pan-genome reveals dynamic integration hotspots and mobile genetic elements as major components of the accessory genome

(2013) Carsten Kuenne et al.   BMC GENOMICS

Multistate Outbreak of Listeriosis Associated with Cantaloupe

(2013) Jeffrey T. McCollum et al.   NEW ENGLAND JOURNAL OF MEDICINE

FSL J1-208, a Virulent Uncommon Phylogenetic Lineage IV Listeria monocytogenes Strain with a Small Chromosome Size and a Putative Virulence Plasmid Carrying Internalin-Like Genes

(2012) Henk C. den Bakker et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

High-throughput genome sequencing of two Listeria monocytogenes clinical isolates during a large foodborne outbreak

(2012) Matthew W Gilmour et al.   BMC GENOMICS

High resolution clustering of Salmonella enterica serovar Montevideo strains using a next-generation sequencing approach

(2012) Marc W Allard et al.   BMC GENOMICS

comKProphage Junction Fragments as Markers for Listeria monocytogenes Genotypes Unique to Individual Meat and Poultry Processing Plants and a Model for Rapid Niche-Specific Adaptation, Biofilm Formation, and Persistence

(2011) Bindhu Verghese et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

PHAST: A Fast Phage Search Tool

(2011) Y. Zhou et al.   NUCLEIC ACIDS RESEARCH

VarScan: variant detection in massively parallel sequencing of individual and pooled samples

(2009) Daniel C. Koboldt et al.   BIOINFORMATICS

The Sequence Alignment/Map format and SAMtools

(2009) H. Li et al.   BIOINFORMATICS

Short-term genome evolution of Listeria monocytogenes in a non-controlled environment

(2009) Renato H Orsi et al.   BMC GENOMICS

Ultrafast and memory-efficient alignment of short DNA sequences to the human genome

(2009) Ben Langmead et al.   GENOME BIOLOGY

Prophages in Listeria monocytogenes Contain Single-Nucleotide Polymorphisms That Differentiate Outbreak Clones within Epidemic Clones

(2008) Y. Chen et al.   JOURNAL OF CLINICAL MICROBIOLOGY

A New Perspective on Listeria monocytogenes Evolution

(2008) Marie Ragon et al.   PLoS Pathogens