The multidrug-resistant human pathogen Clostridium difficile has a highly mobile, mosaic genome.

PubWeight™: 8.02‹?› | Rank: Top 0.1%

🔗 View Article (PMID 16804543)

Published in Nat Genet on June 25, 2006

Authors

Mohammed Sebaihia1, Brendan W Wren, Peter Mullany, Neil F Fairweather, Nigel Minton, Richard Stabler, Nicholas R Thomson, Adam P Roberts, Ana M Cerdeño-Tárraga, Hongmei Wang, Matthew T G Holden, Anne Wright, Carol Churcher, Michael A Quail, Stephen Baker, Nathalie Bason, Karen Brooks, Tracey Chillingworth, Ann Cronin, Paul Davis, Linda Dowd, Audrey Fraser, Theresa Feltwell, Zahra Hance, Simon Holroyd, Kay Jagels, Sharon Moule, Karen Mungall, Claire Price, Ester Rabbinowitsch, Sarah Sharp, Mark Simmonds, Kim Stevens, Louise Unwin, Sally Whithead, Bruno Dupuy, Gordon Dougan, Bart Barrell, Julian Parkhill

Author Affiliations

1: Wellcome Trust Sanger Institute, Wellcome Trust Genome Campus, Hinxton, Cambridge, CB10 1SA, UK.

Articles citing this

(truncated to the top 100)

Comparative metagenomics revealed commonly enriched gene sets in human gut microbiomes. DNA Res (2007) 13.08

The Streptococcus thermophilus CRISPR/Cas system provides immunity in Escherichia coli. Nucleic Acids Res (2011) 10.43

Clostridium difficile infection: new developments in epidemiology and pathogenesis. Nat Rev Microbiol (2009) 7.89

Evolutionary conservation of sequence and secondary structures in CRISPR repeats. Genome Biol (2007) 5.40

The role of toxin A and toxin B in Clostridium difficile infection. Nature (2010) 5.32

The CRISPR system: small RNA-guided defense in bacteria and archaea. Mol Cell (2010) 4.60

Microbiota-liberated host sugars facilitate post-antibiotic expansion of enteric pathogens. Nature (2013) 4.43

Multilocus sequence typing of Clostridium difficile. J Clin Microbiol (2009) 4.16

Emergence and global spread of epidemic healthcare-associated Clostridium difficile. Nat Genet (2012) 4.10

A pilot study of rapid benchtop sequencing of Staphylococcus aureus and Clostridium difficile for outbreak detection and surveillance. BMJ Open (2012) 3.93

Targeted restoration of the intestinal microbiota with a simple, defined bacteriotherapy resolves relapsing Clostridium difficile disease in mice. PLoS Pathog (2012) 3.81

Comparative genome and phenotypic analysis of Clostridium difficile 027 strains provides insight into the evolution of a hypervirulent bacterium. Genome Biol (2009) 3.66

A eukaryotic-like Ser/Thr kinase signals bacteria to exit dormancy in response to peptidoglycan fragments. Cell (2008) 3.57

Bile salts and glycine as cogerminants for Clostridium difficile spores. J Bacteriol (2008) 3.37

The human gut virome: inter-individual variation and dynamic response to diet. Genome Res (2011) 3.32

Evolutionary dynamics of Clostridium difficile over short and long time scales. Proc Natl Acad Sci U S A (2010) 3.18

Efflux-mediated drug resistance in bacteria: an update. Drugs (2009) 3.18

Genome sequence of a proteolytic (Group I) Clostridium botulinum strain Hall A and comparative analysis of the clostridial genomes. Genome Res (2007) 2.67

Complete genome sequence of uropathogenic Proteus mirabilis, a master of both adherence and motility. J Bacteriol (2008) 2.47

A bacteriophage encodes its own CRISPR/Cas adaptive response to evade host innate immunity. Nature (2013) 2.46

The Harvest suite for rapid core-genome alignment and visualization of thousands of intraspecific microbial genomes. Genome Biol (2014) 2.44

The phage-host arms race: shaping the evolution of microbes. Bioessays (2011) 2.27

Characterization of Clostridium difficile isolates using capillary gel electrophoresis-based PCR ribotyping. J Med Microbiol (2008) 2.17

The genome of Clostridium kluyveri, a strict anaerobe with unique metabolic features. Proc Natl Acad Sci U S A (2008) 2.12

Shaping a bacterial genome by large chromosomal replacements, the evolutionary history of Streptococcus agalactiae. Proc Natl Acad Sci U S A (2008) 2.06

Clinical Clostridium difficile: clonality and pathogenicity locus diversity. PLoS One (2011) 2.04

Microevolutionary analysis of Clostridium difficile genomes to investigate transmission. Genome Biol (2012) 2.04

The Clostridium difficile spo0A gene is a persistence and transmission factor. Infect Immun (2012) 2.02

The repertoire of ICE in prokaryotes underscores the unity, diversity, and ubiquity of conjugation. PLoS Genet (2011) 2.01

Proteomic and genomic characterization of highly infectious Clostridium difficile 630 spores. J Bacteriol (2009) 1.96

Markers of intestinal inflammation, not bacterial burden, correlate with clinical outcomes in Clostridium difficile infection. Clin Infect Dis (2013) 1.95

Typing and subtyping of Clostridium difficile isolates by using multiple-locus variable-number tandem-repeat analysis. J Clin Microbiol (2006) 1.87

Metabolism of bile salts in mice influences spore germination in Clostridium difficile. PLoS One (2010) 1.87

Diagnosis of Clostridium difficile infection: an ongoing conundrum for clinicians and for clinical laboratories. Clin Microbiol Rev (2013) 1.85

Inhibiting the initiation of Clostridium difficile spore germination using analogs of chenodeoxycholic acid, a bile acid. J Bacteriol (2010) 1.82

Clostridium difficile spore biology: sporulation, germination, and spore structural proteins. Trends Microbiol (2014) 1.73

Morphological and genetic diversity of temperate phages in Clostridium difficile. Appl Environ Microbiol (2007) 1.71

Characterization of the sporulation initiation pathway of Clostridium difficile and its role in toxin production. J Bacteriol (2009) 1.57

Bile acid recognition by the Clostridium difficile germinant receptor, CspC, is important for establishing infection. PLoS Pathog (2013) 1.55

ClonalFrameML: efficient inference of recombination in whole bacterial genomes. PLoS Comput Biol (2015) 1.53

Characterization of Clostridium perfringens spores that lack SpoVA proteins and dipicolinic acid. J Bacteriol (2008) 1.53

Revised nomenclature for transposable genetic elements. Plasmid (2008) 1.50

Clostridium difficile has two parallel and essential Sec secretion systems. J Biol Chem (2011) 1.50

Comparative genomics of the bacterial genus Listeria: Genome evolution is characterized by limited gene acquisition and limited gene loss. BMC Genomics (2010) 1.48

Importance of prophages to evolution and virulence of bacterial pathogens. Virulence (2013) 1.48

Germination of spores of Bacillus species: what we know and do not know. J Bacteriol (2014) 1.47

The association of virulence factors with genomic islands. PLoS One (2009) 1.47

A phylogenomic view of ecological specialization in the Lachnospiraceae, a family of digestive tract-associated bacteria. Genome Biol Evol (2014) 1.46

Motility and flagellar glycosylation in Clostridium difficile. J Bacteriol (2009) 1.45

High frequency of rifampin resistance identified in an epidemic Clostridium difficile clone from a large teaching hospital. Clin Infect Dis (2009) 1.41

Characterization of ApuB, an extracellular type II amylopullulanase from Bifidobacterium breve UCC2003. Appl Environ Microbiol (2008) 1.38

Detection of mixed infection from bacterial whole genome sequence data allows assessment of its role in Clostridium difficile transmission. PLoS Comput Biol (2013) 1.38

Extensive DNA mimicry by the ArdA anti-restriction protein and its role in the spread of antibiotic resistance. Nucleic Acids Res (2009) 1.38

SleC is essential for germination of Clostridium difficile spores in nutrient-rich medium supplemented with the bile salt taurocholate. J Bacteriol (2009) 1.35

Distinctive profiles of infection and pathology in hamsters infected with Clostridium difficile strains 630 and B1. Infect Immun (2009) 1.35

Clostridium botulinum group III: a group with dual identity shaped by plasmids, phages and mobile elements. BMC Genomics (2011) 1.34

Clostridium difficile infection: toxins and non-toxin virulence factors, and their contributions to disease establishment and host response. Gut Microbes (2012) 1.33

Use of purified Clostridium difficile spores to facilitate evaluation of health care disinfection regimens. Appl Environ Microbiol (2010) 1.32

A novel genetic switch controls phase variable expression of CwpV, a Clostridium difficile cell wall protein. Mol Microbiol (2009) 1.30

Regulation of neurotoxin production and sporulation by a Putative agrBD signaling system in proteolytic Clostridium botulinum. Appl Environ Microbiol (2010) 1.30

The key sigma factor of transition phase, SigH, controls sporulation, metabolism, and virulence factor expression in Clostridium difficile. J Bacteriol (2011) 1.30

Cefoperazone-treated mice as an experimental platform to assess differential virulence of Clostridium difficile strains. Gut Microbes (2011) 1.29

Mapping interactions between germinants and Clostridium difficile spores. J Bacteriol (2010) 1.29

Genetic organisation, mobility and predicted functions of genes on integrated, mobile genetic elements in sequenced strains of Clostridium difficile. PLoS One (2011) 1.29

Binary toxin production in Clostridium difficile is regulated by CdtR, a LytTR family response regulator. J Bacteriol (2007) 1.29

Molecular characterization of a Clostridium difficile bacteriophage and its cloned biologically active endolysin. J Bacteriol (2008) 1.28

The anti-sigma factor TcdC modulates hypervirulence in an epidemic BI/NAP1/027 clinical isolate of Clostridium difficile. PLoS Pathog (2011) 1.28

Global transcriptional control by glucose and carbon regulator CcpA in Clostridium difficile. Nucleic Acids Res (2012) 1.25

Cwp84, a surface-associated cysteine protease, plays a role in the maturation of the surface layer of Clostridium difficile. J Biol Chem (2009) 1.25

Global analysis of the sporulation pathway of Clostridium difficile. PLoS Genet (2013) 1.24

Microarray identification of Clostridium difficile core components and divergent regions associated with host origin. J Bacteriol (2009) 1.24

Genomic analysis of carbon monoxide utilization and butanol production by Clostridium carboxidivorans strain P7. PLoS One (2010) 1.24

Genome-wide identification of regulatory RNAs in the human pathogen Clostridium difficile. PLoS Genet (2013) 1.23

Expanding the repertoire of gene tools for precise manipulation of the Clostridium difficile genome: allelic exchange using pyrE alleles. PLoS One (2013) 1.23

Surface layers of Clostridium difficile endospores. J Bacteriol (2011) 1.22

SleC is essential for cortex peptidoglycan hydrolysis during germination of spores of the pathogenic bacterium Clostridium perfringens. J Bacteriol (2009) 1.22

Toward a structural understanding of Clostridium difficile toxins A and B. Front Cell Infect Microbiol (2012) 1.22

Recombinational switching of the Clostridium difficile S-layer and a novel glycosylation gene cluster revealed by large-scale whole-genome sequencing. J Infect Dis (2012) 1.21

Structural and functional analysis of the CspB protease required for Clostridium spore germination. PLoS Pathog (2013) 1.19

The lifestyle of the segmented filamentous bacterium: a non-culturable gut-associated immunostimulating microbe inferred by whole-genome sequencing. DNA Res (2011) 1.18

Adaptive strategies and pathogenesis of Clostridium difficile from in vivo transcriptomics. Infect Immun (2013) 1.17

Clostridium difficile has an original peptidoglycan structure with a high level of N-acetylglucosamine deacetylation and mainly 3-3 cross-links. J Biol Chem (2011) 1.17

Evolutionary history of the Clostridium difficile pathogenicity locus. Genome Biol Evol (2014) 1.16

Emergence of new PCR ribotypes from the hypervirulent Clostridium difficile 027 lineage. J Med Microbiol (2011) 1.16

The dlt operon confers resistance to cationic antimicrobial peptides in Clostridium difficile. Microbiology (2011) 1.15

Mucin glycan foraging in the human gut microbiome. Front Genet (2015) 1.14

Cyclic diguanylate inversely regulates motility and aggregation in Clostridium difficile. J Bacteriol (2012) 1.14

Complete genome sequence of the plant pathogen Erwinia amylovora strain ATCC 49946. J Bacteriol (2010) 1.14

CRISPR inhibition of prophage acquisition in Streptococcus pyogenes. PLoS One (2011) 1.14

SpoIVA and SipL are Clostridium difficile spore morphogenetic proteins. J Bacteriol (2013) 1.13

Identification of novel pathogenicity loci in Clostridium perfringens strains that cause avian necrotic enteritis. PLoS One (2010) 1.13

Kinetic evidence for the presence of putative germination receptors in Clostridium difficile spores. J Bacteriol (2010) 1.12

Two distinct genetic elements are responsible for erm(TR)-mediated erythromycin resistance in tetracycline-susceptible and tetracycline-resistant strains of Streptococcus pyogenes. Antimicrob Agents Chemother (2011) 1.12

The Clostridium difficile cell wall protein CwpV is antigenically variable between strains, but exhibits conserved aggregation-promoting function. PLoS Pathog (2011) 1.11

Prophage-stimulated toxin production in Clostridium difficile NAP1/027 lysogens. J Bacteriol (2011) 1.10

Reconstructing viral genomes from the environment using fosmid clones: the case of haloviruses. PLoS One (2012) 1.10

Proline-dependent regulation of Clostridium difficile Stickland metabolism. J Bacteriol (2012) 1.09

Analysis of proline reduction in the nosocomial pathogen Clostridium difficile. J Bacteriol (2006) 1.09

Bacteriophage-mediated toxin gene regulation in Clostridium difficile. J Virol (2009) 1.09

Horizontal gene transfer converts non-toxigenic Clostridium difficile strains into toxin producers. Nat Commun (2013) 1.08

Articles by these authors

Accurate whole human genome sequencing using reversible terminator chemistry. Nature (2008) 90.20

Identification of somatically acquired rearrangements in cancer using genome-wide massively parallel paired-end sequencing. Nat Genet (2008) 43.63

A human gut microbial gene catalogue established by metagenomic sequencing. Nature (2010) 43.63

Genome sequence of the human malaria parasite Plasmodium falciparum. Nature (2002) 37.89

The minimum information about a genome sequence (MIGS) specification. Nat Biotechnol (2008) 31.04

Enterotypes of the human gut microbiome. Nature (2011) 24.36

High-throughput sequencing provides insights into genome variation and evolution in Salmonella Typhi. Nat Genet (2008) 19.97

Genomic and epigenomic landscapes of adult de novo acute myeloid leukemia. N Engl J Med (2013) 19.87

ACT: the Artemis Comparison Tool. Bioinformatics (2005) 17.91

Massive genomic rearrangement acquired in a single catastrophic event during cancer development. Cell (2011) 16.72

Requirement of bic/microRNA-155 for normal immune function. Science (2007) 16.24

Complex landscapes of somatic rearrangement in human breast cancer genomes. Nature (2009) 13.45

Evolution of MRSA during hospital transmission and intercontinental spread. Science (2010) 13.34

Typhoid fever. N Engl J Med (2002) 12.96

The patterns and dynamics of genomic instability in metastatic pancreatic cancer. Nature (2010) 12.43

Genome-wide association study of CNVs in 16,000 cases of eight common diseases and 3,000 shared controls. Nature (2010) 12.27

Prepublication data sharing. Nature (2009) 12.24

Population genomics of domestic and wild yeasts. Nature (2009) 11.79

The genome of the African trypanosome Trypanosoma brucei. Science (2005) 11.48

Amplification-free Illumina sequencing-library preparation facilitates improved mapping and assembly of (G+C)-biased genomes. Nat Methods (2009) 10.41

De novo assembly and analysis of RNA-seq data. Nat Methods (2010) 9.69

Artemis and ACT: viewing, annotating and comparing sequences stored in a relational database. Bioinformatics (2008) 9.17

Comparative analysis of the genome sequences of Bordetella pertussis, Bordetella parapertussis and Bordetella bronchiseptica. Nat Genet (2003) 9.13

Rapid pneumococcal evolution in response to clinical interventions. Science (2011) 9.09

Complete genomes of two clinical Staphylococcus aureus strains: evidence for the rapid evolution of virulence and drug resistance. Proc Natl Acad Sci U S A (2004) 8.95

The genome of the kinetoplastid parasite, Leishmania major. Science (2005) 8.64

Genomic sequence of the pathogenic and allergenic filamentous fungus Aspergillus fumigatus. Nature (2005) 8.55

The zebrafish reference genome sequence and its relationship to the human genome. Nature (2013) 8.52

Escherichia coli K-12: a cooperatively developed annotation snapshot--2005. Nucleic Acids Res (2006) 7.93

Salmonella enterica serovar typhimurium exploits inflammation to compete with the intestinal microbiota. PLoS Biol (2007) 7.58

Genomic plasticity of the causative agent of melioidosis, Burkholderia pseudomallei. Proc Natl Acad Sci U S A (2004) 7.30