Adding function to the genome of African Salmonella Typhimurium ST313 strain D23580
Published 2019 View Full Article
- Home
- Publications
- Publication Search
- Publication Details
Title
Adding function to the genome of African Salmonella Typhimurium ST313 strain D23580
Authors
Keywords
Journal
PLOS BIOLOGY
Volume 17, Issue 1, Pages e3000059
Publisher
Public Library of Science (PLoS)
Online
2019-01-16
DOI
10.1371/journal.pbio.3000059
References
Ask authors/readers for more resources
Related references
Note: Only part of the references are listed.- Genome variation and molecular epidemiology of Salmonella Typhimurium pathovariants
- (2018) Priscilla Branchu et al. INFECTION AND IMMUNITY
- Role of a single noncoding nucleotide in the evolution of an epidemic African clade ofSalmonella
- (2018) Disa L. Hammarlöf et al. PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
- Evolution of Salmonella within Hosts
- (2018) Jennifer R. Tanner et al. TRENDS IN MICROBIOLOGY
- Regulation of Flagellum Biosynthesis in Response to Cell Envelope Stress in Salmonella enterica Serovar Typhimurium
- (2018) Imke Spöring et al. mBio
- Machine learning identifies signatures of host adaptation in the bacterial pathogen Salmonella enterica
- (2018) Nicole E. Wheeler et al. PLoS Genetics
- 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
- Unicycler: Resolving bacterial genome assemblies from short and long sequencing reads
- (2017) Ryan R. Wick et al. PLoS Computational Biology
- 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
- Virulence of invasive Salmonella Typhimurium ST313 in animal models of infection
- (2017) Girish Ramachandran et al. PLoS Neglected Tropical Diseases
- Three-dimensional organotypic co-culture model of intestinal epithelial cells and macrophages to study Salmonella enterica colonization patterns
- (2017) Jennifer Barrila et al. NPJ Microgravity
- The TraDIS toolkit: sequencing and analysis for dense transposon mutant libraries
- (2016) Lars Barquist et al. BIOINFORMATICS
- Loss of Multicellular Behavior in Epidemic African Nontyphoidal Salmonella enterica Serovar Typhimurium ST313 Strain D23580
- (2016) Larissa A. Singletary et al. mBio
- Poor biofilm-forming ability and long-term survival of invasiveSalmonellaTyphimurium ST313
- (2016) Girish Ramachandran et al. Pathogens and Disease
- Disseminated infections with antibiotic-resistant non-typhoidalSalmonellastrains: contributions of host and pathogen factors
- (2016) Kristen L. Lokken et al. Pathogens and Disease
- Quantitative bacterial transcriptomics with RNA-seq
- (2015) James P Creecy et al. CURRENT OPINION IN MICROBIOLOGY
- A BTP1 prophage gene present in invasive non-typhoidalSalmonelladetermines composition and length of the O-antigen of the lipopolysaccharide
- (2015) Erica Kintz et al. MOLECULAR MICROBIOLOGY
- limma powers differential expression analyses for RNA-sequencing and microarray studies
- (2015) Matthew E. Ritchie et al. NUCLEIC ACIDS RESEARCH
- 2016 update of the PRIDE database and its related tools
- (2015) Juan Antonio Vizcaíno et al. NUCLEIC ACIDS RESEARCH
- Correction: Signatures of Adaptation in Human Invasive Salmonella Typhimurium ST313 Populations from Sub-Saharan Africa
- (2015) Chinyere K. Okoro et al. PLoS Neglected Tropical Diseases
- 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
- Invasive Salmonella Typhimurium ST313 with Naturally Attenuated Flagellin Elicits Reduced Inflammation and Replicates within Macrophages
- (2015) Girish Ramachandran et al. PLoS Neglected Tropical Diseases
- RNA-seq Brings New Insights to the Intra-Macrophage Transcriptome of Salmonella Typhimurium
- (2015) Shabarinath Srikumar et al. PLoS Pathogens
- Fast and efficient three-step target-specific curing of a virulence plasmid in Salmonella enterica
- (2015) Marcos H de Moraes et al. AMB Express
- 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
- 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
- Rapid phylogenetic analysis of large samples of recombinant bacterial whole genome sequences using Gubbins
- (2014) Nicholas J. Croucher et al. NUCLEIC ACIDS RESEARCH
- The Role of the st313-td Gene in Virulence of Salmonella Typhimurium ST313
- (2014) Ana Herrero-Fresno et al. PLoS One
- 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
- Unprecedented High-Resolution View of Bacterial Operon Architecture Revealed by RNA Sequencing
- (2014) T. Conway et al. mBio
- Structure-based mechanism for Na+/melibiose symport by MelB
- (2014) Abdul S. Ethayathulla et al. Nature Communications
- voom: precision weights unlock linear model analysis tools for RNA-seq read counts
- (2014) Charity W Law et al. GENOME BIOLOGY
- featureCounts: an efficient general purpose program for assigning sequence reads to genomic features
- (2013) Y. Liao et al. BIOINFORMATICS
- Structural analysis of O-polysaccharide chains extracted from different Salmonella Typhimurium strains
- (2013) Francesca Micoli et al. CARBOHYDRATE RESEARCH
- An Infection-Relevant Transcriptomic Compendium for Salmonella enterica Serovar Typhimurium
- (2013) Carsten Kröger et al. Cell Host & Microbe
- Nonhybrid, finished microbial genome assemblies from long-read SMRT sequencing data
- (2013) Chen-Shan Chin et al. NATURE METHODS
- A comparison of dense transposon insertion libraries in the Salmonella serovars Typhi and Typhimurium
- (2013) Lars Barquist et al. NUCLEIC ACIDS RESEARCH
- A Multi-Omic View of Host-Pathogen-Commensal Interplay in Salmonella-Mediated Intestinal Infection
- (2013) Brooke L. Deatherage Kaiser et al. PLoS One
- A model based criterion for gene expression calls using RNA-seq data
- (2013) Günter P. Wagner et al. THEORY IN BIOSCIENCES
- Invasive Non-Typhoidal Salmonella Typhimurium ST313 Are Not Host-Restricted and Have an Invasive Phenotype in Experimentally Infected Chickens
- (2013) Bryony N. Parsons et al. PLoS Neglected Tropical Diseases
- High-throughput comparison of gene fitness among related bacteria
- (2012) Rocio Canals et al. BMC GENOMICS
- Visualizing next-generation sequencing data with JBrowse
- (2012) O. Westesson et al. BRIEFINGS IN BIOINFORMATICS
- A program for annotating and predicting the effects of single nucleotide polymorphisms, SnpEff
- (2012) Pablo Cingolani et al. FLY
- Invasive African nontyphoidal Salmonella requires high levels of complement for cell-free antibody-dependent killing
- (2012) Yun Shan Goh et al. JOURNAL OF IMMUNOLOGICAL METHODS
- Invasive non-typhoidal salmonella disease: an emerging and neglected tropical disease in Africa
- (2012) Nicholas A Feasey et al. LANCET
- YdiV: a dual function protein that targets FlhDC for ClpXP-dependent degradation by promoting release of DNA-bound FlhDC complex
- (2012) Akiko Takaya et al. MOLECULAR MICROBIOLOGY
- Intracontinental spread of human invasive Salmonella Typhimurium pathovariants in sub-Saharan Africa
- (2012) Chinyere K Okoro et al. NATURE GENETICS
- Fast gapped-read alignment with Bowtie 2
- (2012) Ben Langmead et al. NATURE METHODS
- Identification of a common immune signature in murine and human systemic Salmonellosis
- (2012) S.-J. Lee et al. PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
- 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
- Dendroscope 3: An Interactive Tool for Rooted Phylogenetic Trees and Networks
- (2012) Daniel H. Huson et al. SYSTEMATIC BIOLOGY
- Measurement of mRNA abundance using RNA-seq data: RPKM measure is inconsistent among samples
- (2012) Günter P. Wagner et al. THEORY IN BIOSCIENCES
- Dalliance: interactive genome viewing on the web
- (2011) T. A. Down et al. BIOINFORMATICS
- Engineering multiple genomic deletions in Gram-negative bacteria: analysis of the multi-resistant antibiotic profile of Pseudomonas putida KT2440
- (2011) Esteban Martínez-García et al. ENVIRONMENTAL MICROBIOLOGY
- Salmonella enterica Serovar Typhimurium Colonizing the Lumen of the Chicken Intestine Grows Slowly and Upregulates a Unique Set of Virulence and Metabolism Genes
- (2011) P. C. Harvey et al. INFECTION AND IMMUNITY
- EAL Domain Protein YdiV Acts as an Anti-FlhD4C2 Factor Responsible for Nutritional Control of the Flagellar Regulon in Salmonella enterica Serovar Typhimurium
- (2011) T. Wada et al. JOURNAL OF BACTERIOLOGY
- Genome Sequences of Salmonella enterica Serovar Typhimurium, Choleraesuis, Dublin, and Gallinarum Strains of Well- Defined Virulence in Food-Producing Animals
- (2011) E. J. Richardson et al. JOURNAL OF BACTERIOLOGY
- Probing Cellular Processes with Oligo-Mediated Recombination and Using the Knowledge Gained to Optimize Recombineering
- (2011) James A. Sawitzke et al. JOURNAL OF MOLECULAR BIOLOGY
- Activation of cryptic aminoglycoside resistance in Salmonella enterica
- (2011) Sanna Koskiniemi et al. MOLECULAR MICROBIOLOGY
- BEDTools: a flexible suite of utilities for comparing genomic features
- (2010) Aaron R. Quinlan et al. BIOINFORMATICS
- Pan-genome sequence analysis using Panseq: an online tool for the rapid analysis of core and accessory genomic regions
- (2010) Chad Laing et al. BMC BIOINFORMATICS
- Reproducible Science
- (2010) A. Casadevall et al. INFECTION AND IMMUNITY
- Tackling the widespread and critical impact of batch effects in high-throughput data
- (2010) Jeffrey T. Leek et al. NATURE REVIEWS GENETICS
- ABACAS: algorithm-based automatic contiguation of assembled sequences
- (2009) S. Assefa et al. BIOINFORMATICS
- The Sequence Alignment/Map format and SAMtools
- (2009) H. Li et al. BIOINFORMATICS
- edgeR: a Bioconductor package for differential expression analysis of digital gene expression data
- (2009) M. D. Robinson et al. BIOINFORMATICS
- Simultaneous assay of every Salmonella Typhi gene using one million transposon mutants
- (2009) G. C. Langridge et al. GENOME RESEARCH
- 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
Find Funding. Review Successful Grants.
Explore over 25,000 new funding opportunities and over 6,000,000 successful grants.
ExploreBecome a Peeref-certified reviewer
The Peeref Institute provides free reviewer training that teaches the core competencies of the academic peer review process.
Get Started