Comparative genome and phenotypic analysis of three Clostridioides difficile strains isolated from a single patient provide insight into multiple infection of C. difficile

Manual curation and reannotation of the genomes of Clostridium difficile 630Δerm and C. difficile 630

(2017) Henning Dannheim et al.   JOURNAL OF MEDICAL MICROBIOLOGY

A genetic switch controls the production of flagella and toxins in Clostridium difficile

(2017) Brandon R. Anjuwon-Foster et al.   PLoS Genetics

Use of single molecule sequencing for comparative genomics of an environmental and a clinical isolate of Clostridium difficile ribotype 078

(2016) Katherine R. Hargreaves et al.   BMC GENOMICS

Insight into alteration of gut microbiota in Clostridium difficile infection and asymptomatic C. difficile colonization

(2015) Lihua Zhang et al.   ANAEROBE

Diversity and Evolution in the Genome of Clostridium difficile

(2015) Daniel R. Knight et al.   CLINICAL MICROBIOLOGY REVIEWS

As Clear as Mud? Determining the Diversity and Prevalence of Prophages in the Draft Genomes of Estuarine Isolates ofClostridium difficile

(2015) Katherine R. Hargreaves et al.   Genome Biology and Evolution

Recurrence of dual-strainClostridium difficileinfection in anin vitrohuman gut model

(2015) Grace S. Crowther et al.   JOURNAL OF ANTIMICROBIAL CHEMOTHERAPY

IslandViewer 3: more flexible, interactive genomic island discovery, visualization and analysis: Figure 1.

(2015) Bhavjinder K. Dhillon et al.   NUCLEIC ACIDS RESEARCH

Genomics of Clostridium tetani

(2015) Holger Brüggemann et al.   RESEARCH IN MICROBIOLOGY

Mobile genetic elements in Clostridium difficile and their role in genome function

(2015) Peter Mullany et al.   RESEARCH IN MICROBIOLOGY

The role of flagella in Clostridium difficile pathogenicity

(2015) Emma Stevenson et al.   TRENDS IN MICROBIOLOGY

Host–Pathogen Coevolution: The Selective Advantage of Bacillus thuringiensis Virulence and Its Cry Toxin Genes

(2015) Leila Masri et al.   PLOS BIOLOGY

Tracing the Spread of Clostridium difficile Ribotype 027 in Germany Based on Bacterial Genome Sequences

(2015) Matthias Steglich et al.   PLoS One

Prokka: rapid prokaryotic genome annotation

(2014) T. Seemann   BIOINFORMATICS

Detection of Mixed Infection from Bacterial Whole Genome Sequence Data Allows Assessment of Its Role in Clostridium difficile Transmission

(2013) David W. Eyre et al.   PLoS Computational Biology

Clostridium difficile infection in the twenty-first century

(2013) Chandrabali Ghose   Emerging Microbes & Infections

Phylomark, a Tool To Identify Conserved Phylogenetic Markers from Whole-Genome Alignments

(2012) Jason W. Sahl et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Current Status of Clostridium difficile Infection Epidemiology

(2012) F. C. Lessa et al.   CLINICAL INFECTIOUS DISEASES

Clostridium difficile infection in the community: a zoonotic disease?

(2012) M.P.M. Hensgens et al.   CLINICAL MICROBIOLOGY AND INFECTION

Overcoming barriers to effective recognition and diagnosis of Clostridium difficile infection

(2012) M.H. Wilcox   CLINICAL MICROBIOLOGY AND INFECTION

Genome sequence analyses of two isolates from the recent Escherichia coli outbreak in Germany reveal the emergence of a new pathotype: Entero-Aggregative-Haemorrhagic Escherichia coli (EAHEC)

(2011) Elzbieta Brzuszkiewicz et al.   ARCHIVES OF MICROBIOLOGY

Proteinortho: Detection of (Co-)orthologs in large-scale analysis

(2011) Marcus Lechner et al.   BMC BIOINFORMATICS

BLAST Ring Image Generator (BRIG): simple prokaryote genome comparisons

(2011) Nabil-Fareed Alikhan et al.   BMC GENOMICS

Comparison of the Burdens of Hospital-Onset, Healthcare Facility-Associated Clostridium difficile Infection and of Healthcare-Associated Infection due to Methicillin-Resistant Staphylococcus aureus in Community Hospitals

(2011) Becky A. Miller et al.   INFECTION CONTROL AND HOSPITAL EPIDEMIOLOGY

Prevalence and implications of multiple-strain infections

(2011) Oliver Balmer et al.   LANCET INFECTIOUS DISEASES

Reconsidering the Sporulation Characteristics of Hypervirulent Clostridium difficile BI/NAP1/027

(2011) David A. Burns et al.   PLoS One

The Impact of Recombination on dN/dS within Recently Emerged Bacterial Clones

(2011) Santiago Castillo-Ramírez et al.   PLoS Pathogens

Molecular characterization of moxifloxacin resistance from Canadian Clostridium difficile clinical isolates

(2010) Andrew Walkty et al.   DIAGNOSTIC MICROBIOLOGY AND INFECTIOUS DISEASE

progressiveMauve: Multiple Genome Alignment with Gene Gain, Loss and Rearrangement

(2010) Aaron E. Darling et al.   PLoS One

Evolutionary dynamics of Clostridium difficile over short and long time scales

(2010) M. He et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Host Imprints on Bacterial Genomes—Rapid, Divergent Evolution in Individual Patients

(2010) Jaroslaw Zdziarski et al.   PLoS Pathogens

Diversity of moxifloxacin resistance during a nosocomial outbreak of a predominantly ribotype ARU 027 Clostridium difficile diarrhea

(2009) Robert J. Carman et al.   ANAEROBE

Fast and accurate short read alignment with Burrows-Wheeler transform

(2009) H. Li et al.   BIOINFORMATICS

A novel genetic switch controls phase variable expression of CwpV, aClostridium difficilecell wall protein

(2009) Jenny E. Emerson et al.   MOLECULAR MICROBIOLOGY

Comparative genome and phenotypic analysis of Clostridium difficile 027 strains provides insight into the evolution of a hypervirulent bacterium

(2009) Richard A Stabler et al.   GENOME BIOLOGY

Artemis and ACT: viewing, annotating and comparing sequences stored in a relational database

(2008) Tim Carver et al.   BIOINFORMATICS

Comparative analysis of BI/NAP1/027 hypervirulent strains reveals novel toxin B-encoding gene (tcdB) sequences

(2008) R. A. Stabler et al.   JOURNAL OF MEDICAL MICROBIOLOGY