Identification ofSalmonellafor public health surveillance using whole genome sequencing

Whole-Genome Sequencing for National Surveillance of Shiga Toxin–ProducingEscherichia coliO157

(2015) Timothy J. Dallman et al.   CLINICAL INFECTIOUS DISEASES

Salmonella Serotype Determination Utilizing High-Throughput Genome Sequencing Data

(2015) Shaokang Zhang et al.   JOURNAL OF CLINICAL MICROBIOLOGY

Typhoid fever

(2015) John Wain et al.   LANCET

Trimmomatic: a flexible trimmer for Illumina sequence data

(2014) Anthony M. Bolger et al.   BIOINFORMATICS

Patterns of genome evolution that have accompanied host adaptation inSalmonella

(2014) Gemma C. Langridge et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Supplement 2008–2010 (no. 48) to the White–Kauffmann–Le Minor scheme

(2014) Sylvie Issenhuth-Jeanjean et al.   RESEARCH IN MICROBIOLOGY

Molecular methods for serovar determination of Salmonella

(2013) Chunlei Shi et al.   CRITICAL REVIEWS IN MICROBIOLOGY

A multiplex real-time PCR assay for the identification and differentiation of Salmonella enterica serovar Typhimurium and monophasic serovar 4,[5],12:i:–

(2013) Deirdre M. Prendergast et al.   INTERNATIONAL JOURNAL OF FOOD MICROBIOLOGY

Comparison of Typing Methods with a New Procedure Based on Sequence Characterization for Salmonella Serovar Prediction

(2013) M. L. Ranieri et al.   JOURNAL OF CLINICAL MICROBIOLOGY

Short read sequence typing (SRST): multi-locus sequence types from short reads

(2012) Michael Inouye et al.   BMC GENOMICS

Routine Use of Microbial Whole Genome Sequencing in Diagnostic and Public Health Microbiology

(2012) Claudio U. Köser et al.   PLoS Pathogens

Multilocus Sequence Typing as a Replacement for Serotyping in Salmonella enterica

(2012) Mark Achtman et al.   PLoS Pathogens

Invasive nontyphoidal Salmonella disease

(2011) Melita A. Gordon   CURRENT OPINION IN INFECTIOUS DISEASES

A novel real-time polymerase chain reaction for identification of Salmonella enterica subspecies enterica

(2011) Katie L. Hopkins et al.   DIAGNOSTIC MICROBIOLOGY AND INFECTIOUS DISEASE

A framework for variation discovery and genotyping using next-generation DNA sequencing data

(2011) Mark A DePristo et al.   NATURE GENETICS

Salmonella bongori Provides Insights into the Evolution of the Salmonellae

(2011) Maria Fookes et al.   PLoS Pathogens

The Global Burden of NontyphoidalSalmonellaGastroenteritis

(2010) Shannon E. Majowicz et al.   CLINICAL INFECTIOUS DISEASES

Evolution and Population Structure of Salmonella enterica Serovar Newport

(2010) V. Sangal et al.   JOURNAL OF BACTERIOLOGY

Identification by PCR of Non-typhoidal Salmonella enterica Serovars Associated with Invasive Infections among Febrile Patients in Mali

(2010) Sharon M. Tennant et al.   PLoS Neglected Tropical Diseases

Fast and accurate short read alignment with Burrows-Wheeler transform

(2009) H. Li et al.   BIOINFORMATICS

Rapid identification of Salmonella enterica subsp. arizonae and S. enterica subsp. diarizonae by real-time polymerase chain reaction

(2009) Katie L. Hopkins et al.   DIAGNOSTIC MICROBIOLOGY AND INFECTIOUS DISEASE

Emergence, Distribution, and Molecular and Phenotypic Characteristics of Salmonella enterica Serotype 4,5,12:i:–

(2009) Andrea I. Moreno Switt et al.   Foodborne Pathogens and Disease

Salmonella enterica Serotype 4,5,12:i:-, an Emerging Salmonella Serotype That Represents Multiple Distinct Clones

(2009) Y. Soyer et al.   JOURNAL OF CLINICAL MICROBIOLOGY

Supplement 2003–2007 (No. 47) to the White-Kauffmann-Le Minor scheme

(2009) Martine Guibourdenche et al.   RESEARCH IN MICROBIOLOGY

Comparative genome analysis of Salmonella Enteritidis PT4 and Salmonella Gallinarum 287/91 provides insights into evolutionary and host adaptation pathways

(2008) N. R. Thomson et al.   GENOME RESEARCH