Genomic Signature of Multidrug-Resistant Salmonella enterica Serovar Typhi Isolates Related to a Massive Outbreak in Zambia between 2010 and 2012

Typhoid fever

(2015) John Wain et al.   LANCET

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

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

Evaluation of Whole Genome Sequencing for Outbreak Detection of Salmonella enterica

(2014) Pimlapas Leekitcharoenphon et al.   PLoS One

Burden of typhoid fever in low-income and middle-income countries: a systematic, literature-based update with risk-factor adjustment

(2014) Vittal Mogasale et al.   Lancet Global Health

Evidence of microevolution of Salmonella Typhimurium during a series of egg-associated outbreaks linked to a single chicken farm

(2013) Jane Hawkey et al.   BMC GENOMICS

snpTree - a web-server to identify and construct SNP trees from whole genome sequence data

(2012) Pimlapas Leekitcharoenphon et al.   BMC GENOMICS

A Large Outbreak of Typhoid Fever Associated With a High Rate of Intestinal Perforation in Kasese District, Uganda, 2008-2009

(2012) K. P. Neil et al.   CLINICAL INFECTIOUS DISEASES

Identification of acquired antimicrobial resistance genes

(2012) E. Zankari et al.   JOURNAL OF ANTIMICROBIAL CHEMOTHERAPY

Multilocus Sequence Typing of Total-Genome-Sequenced Bacteria

(2012) M. V. Larsen et al.   JOURNAL OF CLINICAL MICROBIOLOGY

Intracontinental spread of human invasive Salmonella Typhimurium pathovariants in sub-Saharan Africa

(2012) Chinyere K Okoro et al.   NATURE GENETICS

The diagnosis of typhoid fever in the Democratic Republic of the Congo

(2012) Octavie Lunguya et al.   TRANSACTIONS OF THE ROYAL SOCIETY OF TROPICAL MEDICINE AND HYGIENE

SOAPdenovo2: an empirically improved memory-efficient short-read de novo assembler

(2012) Ruibang Luo et al.   GigaScience

Treatment of typhoid fever in the 21st century: promises and shortcomings

(2011) T. Butler   CLINICAL MICROBIOLOGY AND INFECTION

Global Monitoring of Salmonella Serovar Distribution from the World Health Organization Global Foodborne Infections Network Country Data Bank: Results of Quality Assured Laboratories from 2001 to 2007

(2011) Rene S. Hendriksen et al.   Foodborne Pathogens and Disease

Report of a Salmonella enterica serovar Typhi isolate from India producing CMY-2 AmpC  -lactamase

(2011) K. Kumarasamy et al.   JOURNAL OF ANTIMICROBIAL CHEMOTHERAPY

MEGA5: Molecular Evolutionary Genetics Analysis Using Maximum Likelihood, Evolutionary Distance, and Maximum Parsimony Methods

(2011) K. Tamura et al.   MOLECULAR BIOLOGY AND EVOLUTION

Multidrug-resistant typhoid fever: a review

(2011) Syed Ahmed Zaki et al.   Journal of Infection in Developing Countries

Emergence of a Globally Dominant IncHI1 Plasmid Type Associated with Multiple Drug Resistant Typhoid

(2011) Kathryn E. Holt et al.   PLoS Neglected Tropical Diseases

Whole-Genome Analysis ofSalmonella entericaSerovar Typhimurium T000240 Reveals the Acquisition of a Genomic Island Involved in Multidrug Resistance via IS1Derivatives on the Chromosome

(2010) Hidemasa Izumiya et al.   ANTIMICROBIAL AGENTS AND CHEMOTHERAPY

Plasmid-Mediated Resistance to Cephalosporins in Salmonella enterica Serovar Typhi

(2010) M. Morita et al.   ANTIMICROBIAL AGENTS AND CHEMOTHERAPY

Prodigal: prokaryotic gene recognition and translation initiation site identification

(2010) Doug Hyatt et al.   BMC BIOINFORMATICS

A multiplex single nucleotide polymorphism typing assay for detecting mutations that result in decreased fluoroquinolone susceptibility in Salmonella enterica serovars Typhi and Paratyphi A

(2010) Y. Song et al.   JOURNAL OF ANTIMICROBIAL CHEMOTHERAPY

Typhoid in Kenya Is Associated with a Dominant Multidrug-Resistant Salmonella enterica Serovar Typhi Haplotype That Is Also Widespread in Southeast Asia

(2010) S. Kariuki et al.   JOURNAL OF CLINICAL MICROBIOLOGY

Invasive Salmonellosis among Children Admitted to a Rural Tanzanian Hospital and a Comparison with Previous Studies

(2010) George Mtove et al.   PLoS One

The Sequence Alignment/Map format and SAMtools

(2009) H. Li et al.   BIOINFORMATICS

Fast and accurate short read alignment with Burrows-Wheeler transform

(2009) H. Li et al.   BIOINFORMATICS

Invasive Non‐TyphiSalmonellaDisease in Africa

(2009) Susan C. Morpeth et al.   CLINICAL INFECTIOUS DISEASES

Global Trends in Typhoid and Paratyphoid Fever

(2009) John A. Crump et al.   CLINICAL INFECTIOUS DISEASES

Molecular Characterization of Extended-Spectrum Cephalosporinase-ProducingSalmonella entericaSerovar Choleraesuis Isolates from Patients in Thailand and Denmark

(2009) Pantip Sirichote et al.   JOURNAL OF CLINICAL MICROBIOLOGY

Variation in Salmonella enterica Serovar Typhi IncHI1 Plasmids during the Global Spread of Resistant Typhoid Fever

(2008) M.-D. Phan et al.   ANTIMICROBIAL AGENTS AND CHEMOTHERAPY

Extended-Spectrum-Beta-Lactamase Production in a Salmonella enterica Serotype Typhi Strain from the Philippines

(2008) N. Al Naiemi et al.   JOURNAL OF CLINICAL MICROBIOLOGY

PCR Method To Identify Salmonella enterica Serovars Typhi, Paratyphi A, and Paratyphi B among Salmonella Isolates from the Blood of Patients with Clinical Enteric Fever

(2008) H. Levy et al.   JOURNAL OF CLINICAL MICROBIOLOGY

Emergence of CTX-M-15 type extended-spectrum  -lactamase-producing Salmonella spp. in Kuwait and the United Arab Emirates

(2008) V. O. Rotimi et al.   JOURNAL OF MEDICAL MICROBIOLOGY

The genome BLASTatlas—a GeneWiz extension for visualization of whole-genome homology

(2008) Peter F. Hallin et al.   Molecular BioSystems

High-throughput sequencing provides insights into genome variation and evolution in Salmonella Typhi

(2008) Kathryn E Holt et al.   NATURE GENETICS