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List of works by Henk C den Bakker

A population genetics-based and phylogenetic approach to understanding the evolution of virulence in the genus Listeria

scientific article published on 23 July 2010

A whole-genome single nucleotide polymorphism-based approach to trace and identify outbreaks linked to a common Salmonella enterica subsp. enterica serovar Montevideo pulsed-field gel electrophoresis type

scientific article published on 14 October 2011

Comparative genomic and morphological analyses of Listeria phages isolated from farm environments

scientific article

Comparative genomics of the bacterial genus Listeria: Genome evolution is characterized by limited gene acquisition and limited gene loss

scientific article

Comparison of typing methods with a new procedure based on sequence characterization for Salmonella serovar prediction

scientific article published on 03 April 2013

Complete Genome Sequence of the Porcine Strain Brachyspira pilosicoli P43/6/78(T.).

scientific article published on January 2013

Equine stomachs harbor an abundant and diverse mucosal microbiota

scientific article

Evolution and host specificity in the ectomycorrhizal genus Leccinum

scientific article published in 2004

Evolutionary dynamics of the accessory genome of Listeria monocytogenes

scientific article

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

scientific article published on 13 January 2012

Genome sequencing identifies Listeria fleischmannii subsp. coloradonensis subsp. nov., isolated from a ranch

scientific article

Genome sequencing reveals diversification of virulence factor content and possible host adaptation in distinct subpopulations of Salmonella enterica

scientific article

Genomic characterization of Salmonella Cerro ST367, an emerging Salmonella subtype in cattle in the United States

scientific article

Genomic characterization provides new insight into Salmonella phage diversity

scientific article

Genomic comparison of sporeforming bacilli isolated from milk.

scientific article

Genomic epidemiology of Salmonella enterica serotype Enteritidis based on population structure of prevalent lineages

scientific article

High-Resolution Genomic Comparisons within <i>Salmonella enterica</i> Serotypes Derived from Beef Feedlot Cattle: Parsing the Roles of Cattle Source, Pen, Animal, Sample Type, and Production Period

scientific article published on 26 May 2021

Identification and characterization of novel Salmonella mobile elements involved in the dissemination of genes linked to virulence and transmission

scientific article (publication date: 2012)

Identification and characterization of psychrotolerant sporeformers associated with fluid milk production and processing

scientific article published on 13 January 2012

Lineage specific recombination rates and microevolution in Listeria monocytogenes

scientific article

Listeria booriae sp. nov. and Listeria newyorkensis sp. nov., from food processing environments in the USA.

scientific article

Listeria floridensis sp. nov., Listeria aquatica sp. nov., Listeria cornellensis sp. nov., Listeria riparia sp. nov. and Listeria grandensis sp. nov., from agricultural and natural environments.

scientific article

Listeria marthii sp. nov., isolated from the natural environment, Finger Lakes National Forest

scientific article

Listeria monocytogenes and hemolytic Listeria innocua in poultry

scientific article published in September 2012

Listeria monocytogenes lineages: Genomics, evolution, ecology, and phenotypic characteristics

scientific article published on 13 August 2010

Mashtree: a rapid comparison of whole genome sequence files

scientific article published on 10 December 2019

Morphological and molecular evidence supporting an arbutoid mycorrhizal relationship in the Costa Rican páramo

scientific article

Multilocus sequence typing of outbreak-associated Listeria monocytogenes isolates to identify epidemic clones

scientific article published in March 2010

Phylogeographic patterns in Leccinum sect. Scabra and the status of the arctic-alpine species L. rotundifoliae

scientific article

Rapid whole-genome sequencing for surveillance of Salmonella enterica serovar enteritidis

scientific article

Ribosomal RNA gene diversity, effective population size, and evolutionary longevity in asexual glomeromycota

scientific article published on 22 August 2012

Salmonella bacteriophage diversity reflects host diversity on dairy farms

scientific article

Salt stress phenotypes in Listeria monocytogenes vary by genetic lineage and temperature

scientific article

Sepia, a taxonomy oriented read classifier in Rust

scientific article published on 24 December 2021

Silage collected from dairy farms harbors an abundance of listeriaphages with considerable host range and genome size diversity

scientific article

SneakerNet: A modular quality assurance and quality check workflow for primary genomic and metagenomic read data

scientific article published on 16 April 2021

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