Invasive non-typhoidal Salmonella (iNTS) aminoglycoside-resistant ST313 isolates feature unique pathogenic mechanisms to reach the bloodstream

Insights about the epidemiology of Salmonella Typhimurium isolates from different sources in Brazil using comparative genomics

(2021) Amanda Ap. Seribelli et al.   Gut Pathogens

Genome profiling of fluoroquinolone-resistant uropathogenic Escherichia coli isolates from Brazil

(2021) Patrick da Silva et al.   BRAZILIAN JOURNAL OF MICROBIOLOGY

Phylogenetic relationship and genomic characterization of Salmonella Typhimurium strains isolated from swine in Brazil

(2021) Amanda Aparecida Seribelli et al.   INFECTION GENETICS AND EVOLUTION

Salmonella Typhimurium ST313 isolated in Brazil revealed to be more invasive and inflammatory in murine colon compared to ST19 strains

(2021) Amanda Aparecida Seribelli et al.   JOURNAL OF MICROBIOLOGY

Stepwise evolution of Salmonella Typhimurium ST313 causing bloodstream infection in Africa

(2020) Caisey V. Pulford et al.   Nature Microbiology

Adding function to the genome of African Salmonella Typhimurium ST313 strain D23580

(2019) Rocío Canals et al.   PLOS BIOLOGY

Antibiotic Resistance in Salmonella Typhimurium Isolates Recovered From the Food Chain Through National Antimicrobial Resistance Monitoring System Between 1996 and 2016

(2019) Xuchu Wang et al.   Frontiers in Microbiology

Genetic characterisation of variants of the virulence plasmid, pSLT, in Salmonella enterica serovar Typhimurium provides evidence of a variety of evolutionary directions consistent with vertical rather than horizontal transmission

(2019) Lester Hiley et al.   PLoS One

The use of chicken and insect infection models to assess the virulence of African Salmonella Typhimurium ST313

(2019) Lizeth Lacharme-Lora et al.   PLoS Neglected Tropical Diseases

ezTree: an automated pipeline for identifying phylogenetic marker genes and inferring evolutionary relationships among uncultivated prokaryotic draft genomes

(2018) Yu-Wei Wu   BMC GENOMICS

A genomic overview of the population structure of Salmonella

(2018) Nabil-Fareed Alikhan et al.   PLoS Genetics

Phylogenetic and antimicrobial resistance gene analysis of Salmonella Typhimurium strains isolated in Brazil by whole genome sequencing

(2018) Fernanda Almeida et al.   PLoS One

Multilocus sequence typing of Salmonella Typhimurium reveals the presence of the highly invasive ST313 in Brazil

(2017) Fernanda Almeida et al.   INFECTION GENETICS AND EVOLUTION

Public health surveillance in the UK revolutionises our understanding of the invasive Salmonella Typhimurium epidemic in Africa

(2017) Philip M. Ashton et al.   Genome Medicine

A Systematic Review of the Incidence, Risk Factors and Case Fatality Rates of Invasive Nontyphoidal Salmonella (iNTS) Disease in Africa (1966 to 2014)

(2017) Ifeanyi Valentine Uche et al.   PLoS Neglected Tropical Diseases

Simulation-based comprehensive benchmarking of RNA-seq aligners

(2016) Giacomo Baruzzo et al.   NATURE METHODS

Loss of Multicellular Behavior in Epidemic African Nontyphoidal Salmonella enterica Serovar Typhimurium ST313 Strain D23580

(2016) Larissa A. Singletary et al.   mBio

MeDuSa: a multi-draft based scaffolder

(2015) Emanuele Bosi et al.   BIOINFORMATICS

OrthoVenn: a web server for genome wide comparison and annotation of orthologous clusters across multiple species

(2015) Yi Wang et al.   NUCLEIC ACIDS RESEARCH

Characterization of the Invasive, Multidrug Resistant Non-typhoidal Salmonella Strain D23580 in a Murine Model of Infection

(2015) Jiseon Yang et al.   PLoS Neglected Tropical Diseases

Non-typhoidal Salmonella Typhimurium ST313 isolates that cause bacteremia in humans stimulate less inflammasome activation than ST19 isolates associated with gastroenteritis

(2015) Sarah Carden et al.   Pathogens and Disease

HTSeq--a Python framework to work with high-throughput sequencing data

(2014) S. Anders et al.   BIOINFORMATICS

A5-miseq: an updated pipeline to assemble microbial genomes from Illumina MiSeq data

(2014) David Coil et al.   BIOINFORMATICS

Trimmomatic: a flexible trimmer for Illumina sequence data

(2014) Anthony M. Bolger et al.   BIOINFORMATICS

The Virulence of Salmonella enterica Serovar Typhimurium in the Insect Model Galleria mellonella Is Impaired by Mutations in RNase E and RNase III

(2013) Sandra C. Viegas et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Salmonella enterica Serovar Typhimurium Skills To Succeed in the Host: Virulence and Regulation

(2013) A. Fabrega et al.   CLINICAL MICROBIOLOGY REVIEWS

IDBA-UD: a de novo assembler for single-cell and metagenomic sequencing data with highly uneven depth

(2012) Y. Peng et al.   BIOINFORMATICS

GapFiller: a de novo assembly approach to fill the gap within paired reads

(2012) Francesca Nadalin et al.   BMC BIOINFORMATICS

Type III effector-mediated processes inSalmonellainfection

(2012) Joris van der Heijden et al.   Future Microbiology

Fast gapped-read alignment with Bowtie 2

(2012) Ben Langmead et al.   NATURE METHODS

The transcriptional landscape and small RNAs of Salmonella enterica serovar Typhimurium

(2012) C. Kroger et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Multilocus Sequence Typing as a Replacement for Serotyping in Salmonella enterica

(2012) Mark Achtman et al.   PLoS Pathogens

Salmonella effector proteins and host-cell responses

(2011) C. V. Srikanth et al.   CELLULAR AND MOLECULAR LIFE SCIENCES

Efficient de novo assembly of large genomes using compressed data structures

(2011) J. T. Simpson et al.   GENOME RESEARCH

Scaffolding pre-assembled contigs using SSPACE

(2010) Marten Boetzer et al.   BIOINFORMATICS

S. Typhimurium sseJ gene decreases the S. Typhi cytotoxicity toward cultured epithelial cells

(2010) A Nicole Trombert et al.   BMC MICROBIOLOGY

Pathogenicity ofAspergillus fumigatusmutants assessed inGalleria mellonellamatches that in mice

(2010) J. L. Slater et al.   MEDICAL MYCOLOGY

Epidemic multiple drug resistant Salmonella Typhimurium causing invasive disease in sub-Saharan Africa have a distinct genotype

(2009) R. A. Kingsley et al.   GENOME RESEARCH

QseC Mediates Salmonella enterica Serovar Typhimurium Virulence In Vitro and In Vivo

(2009) C. G. Moreira et al.   INFECTION AND IMMUNITY

Regulators and signalling in insect haemocyte immunity

(2008) Vassilis J. Marmaras et al.   CELLULAR SIGNALLING

Salmonellae interplay with host cells

(2007) Andrea Haraga et al.   NATURE REVIEWS MICROBIOLOGY