Tracking the establishment of local endemic populations of an emergent enteric pathogen

Neutral Genomic Microevolution of a Recently Emerged Pathogen, Salmonella enterica Serovar Agona

(2013) Zhemin Zhou et al.   PLoS Genetics

Genotypes and antimicrobial profiles of Shigella sonnei isolates from diarrheal patients circulating in Beijing between 2002 and 2007

(2012) Fen Qu et al.   DIAGNOSTIC MICROBIOLOGY AND INFECTIOUS DISEASE

Comparison of the prevalence and changing resistance to nalidixic acid and ciprofloxacin of Shigella between Europe–America and Asia–Africa from 1998 to 2009

(2012) Bing Gu et al.   INTERNATIONAL JOURNAL OF ANTIMICROBIAL AGENTS

Antimicrobial-resistant Shigella infections from Iran: an overlooked problem?

(2012) M. Tajbakhsh et al.   JOURNAL OF ANTIMICROBIAL CHEMOTHERAPY

Shigella sonnei genome sequencing and phylogenetic analysis indicate recent global dissemination from Europe

(2012) Kathryn E Holt et al.   NATURE GENETICS

Gut inflammation can boost horizontal gene transfer between pathogenic and commensal Enterobacteriaceae

(2012) B. Stecher et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

The Shigella flexneri Type Three Secretion System Effector IpgD Inhibits T Cell Migration by Manipulating Host Phosphoinositide Metabolism

(2011) Christoph Konradt et al.   Cell Host & Microbe

Similarity of genes horizontally acquired by Escherichia coli and Salmonella enterica is evidence of a supraspecies pangenome

(2011) K. A. Karberg et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Fast and accurate long-read alignment with Burrows–Wheeler transform

(2010) Heng Li et al.   BIOINFORMATICS

Serotypes and extended-spectrum β-lactamase types of clinical isolates of Shigella spp. from the Zhejiang province of China

(2010) Rong Zhang et al.   DIAGNOSTIC MICROBIOLOGY AND INFECTIOUS DISEASE

Evolution of MRSA During Hospital Transmission and Intercontinental Spread

(2010) S. R. Harris et al.   SCIENCE

The Sudden Dominance of blaCTX–M Harbouring Plasmids in Shigella spp. Circulating in Southern Vietnam

(2010) Nguyen Thi Khanh Nhu et al.   PLoS Neglected Tropical Diseases

The Sequence Alignment/Map format and SAMtools

(2009) H. Li et al.   BIOINFORMATICS

A changing picture of shigellosis in southern Vietnam: shifting species dominance, antimicrobial susceptibility and clinical presentation

(2009) Ha Vinh et al.   BMC INFECTIOUS DISEASES

High prevalence of plasmid-mediated quinolone resistance determinants in commensal members of the Enterobacteriaceae in Ho Chi Minh City, Vietnam

(2009) Le Thi Minh Vien et al.   JOURNAL OF MEDICAL MICROBIOLOGY

The metagenomics RAST server – a public resource for the automatic phylogenetic and functional analysis of metagenomes

(2008) F Meyer et al.   BMC BIOINFORMATICS

The RAST Server: Rapid Annotations using Subsystems Technology

(2008) Ramy K Aziz et al.   BMC GENOMICS

Shigella from Humans in Thailand During 1993 to 2006: Spatial-Time Trends in Species and Serotype Distribution

(2008) Aroon Bangtrakulnonth et al.   Foodborne Pathogens and Disease

Velvet: Algorithms for de novo short read assembly using de Bruijn graphs

(2008) D. R. Zerbino et al.   GENOME RESEARCH

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

(2008) Kathryn E Holt et al.   NATURE GENETICS

Geographic analysis of shigellosis in Vietnam

(2008) Deok Ryun Kim et al.   HEALTH & PLACE

The Population Genetics of dN/dS

(2008) Sergey Kryazhimskiy et al.   PLoS Genetics