List of works by Erick Denamur

"Evolution of a dominant natural isolate of Escherichia coli in the human gut over a year suggests a neutral evolution with reduced effective population size".

scientific article published on 5 January 2018

A 16th century Escherichia coli draft genome associated with an opportunistic bile infection

scientific article published in 2022

A carbon monoxide-releasing molecule (CORM-3) exerts bactericidal activity against Pseudomonas aeruginosa and improves survival in an animal model of bacteraemia

scientific article

A module located at a chromosomal integration hot spot is responsible for the multidrug resistance of a reference strain from Escherichia coli clonal group A.

scientific article published on 13 April 2009

A new O-antigen gene cluster has a key role in the virulence of the Escherichia coli meningitis clone O45:K1:H7

scientific article

A new family of highly variable proteins in the Chlamydophila pneumoniae genome

scientific article

A simple, reproducible and cost-effective procedure to analyse gut phageome: from phage isolation to bioinformatic approach

scientific article published on 05 August 2019

A specific genetic background is required for acquisition and expression of virulence factors in Escherichia coli

scientific article published on 10 March 2004

Advantage of the F2:A1:B- IncF Pandemic Plasmid over IncC Plasmids in In Vitro Acquisition and Evolution of bla CTX-M Gene-Bearing Plasmids in Escherichia coli

scientific article published on 23 September 2019

Airway fungal colonization compromises the immune system allowing bacterial pneumonia to prevail

scientific article published in September 2013

Analysis of virulence plasmid gene expression defines three classes of effectors in the type III secretion system of Shigella flexneri

scientific article published on 01 March 2005

Animal and human pathogenic Escherichia coli strains share common genetic backgrounds

scientific article published on 13 February 2011

Antibiotic resistance plasmids spread among natural isolates of Escherichia coli in spite of CRISPR elements.

scientific article published on 11 October 2012

Assigning Escherichia coli strains to phylogenetic groups: multi-locus sequence typing versus the PCR triplex method.

scientific article published on 2 June 2008

Association of the 16S rRNA methylase gene rmtB with a novel insertion sequence element belonging to the ISL3 family

scientific article published on 21 October 2016

Author Correction: The impact of genetic diversity on gene essentiality within the Escherichia coli species

correction of a scholarly article

Bacteriophage LM33_P1, a fast-acting weapon against the pandemic ST131-O25b:H4 Escherichia coli clonal complex.

scientific article

Bacteriophage PhiX174's ecological niche and the flexibility of its Escherichia coli lipopolysaccharide receptor

scientific article

Biofilm formation by and thermal niche and virulence characteristics of Escherichia spp.

scientific article

CD89 Is a Potent Innate Receptor for Bacteria and Mediates Host Protection from Sepsis

scientific article published on 01 April 2019

CRISPR distribution within the Escherichia coli species is not suggestive of immunity-associated diversifying selection.

scientific article published on 18 March 2011

Caenorhabditis elegans as a simple model to study phenotypic and genetic virulence determinants of extraintestinal pathogenic Escherichia coli.

scientific article published on 8 December 2006

Candida albicans impairs macrophage function and facilitates Pseudomonas aeruginosa pneumonia in rat

scientific article published on 01 March 2009

Ceftriaxone and Cefotaxime Have Similar Effects on the Intestinal Microbiota in Human Volunteers Treated by Standard-Dose Regimens

scientific article published on 24 May 2019

Change in the Structure of Escherichia coli Population and the Pattern of Virulence Genes along a Rural Aquatic Continuum.

scientific article published on 18 April 2017

Changes in urine composition after trauma facilitate bacterial growth

scientific article

Characteristics of human intestinal Escherichia coli with changing environments

scientific article published on 4 May 2008

Characterization and rapid identification of phylogroup G in Escherichia coli, a lineage with high virulence and antibiotic resistance potential

scientific article published on 28 June 2019

Characterization of a P1-like bacteriophage carrying an SHV-2 extended-spectrum β-lactamase from an Escherichia coli strain

scientific article published on 18 August 2014

Characterization of fecal extended-spectrum-β-lactamase-producing Escherichia coli in a remote community during a long time period

scientific article published on 05 August 2013

Characterization of the cryptic Escherichia lineages: rapid identification and prevalence

scientific article published on 8 June 2011

ClermonTyping: an easy-to-use and accurate in silico method for Escherichia genus strain phylotyping

scientific article published on 19 June 2018

Colistin resistance in Parisian inpatient faecal Escherichia coli as the result of two distinct evolutionary pathways

scientific article published on 01 June 2019

Commensal Escherichia coli strains in Guiana reveal a high genetic diversity with host-dependant population structure

scientific article published on 19 August 2012

Complete nucleotide sequence of plasmid pTN48, encoding the CTX-M-14 extended-spectrum β-lactamase from an Escherichia coli O102-ST405 strain

scientific article

Complexity of Escherichia coli bacteremia pathophysiology evidenced by comparison of isolates from blood and portal of entry within single patients.

scientific article published on 17 July 2013

Contribution to Carbapenem Resistance and Fitness Cost of DcuS/DcuR, RcsC/RcsB, and YehU/YehT Two-Component Systems in CTX-M-15-Producing Escherichia coli

scientific article published on 09 October 2019

Core and panmetabolism in Escherichia coli

scientific article

Core elements of the vegetative replication control of the Inc1 plasmid pO104_90 of Escherichia coli O104:H4 also regulate its transfer frequency

scientific article published on 18 July 2018

Correction: Molecular and Evolutionary Bases of Within-Patient Genotypic and Phenotypic Diversity in Escherichia coli Extraintestinal Infections

scientific article published on 2 June 2011

Day-to-Day Dynamics of Commensal Escherichia coli in Zimbabwean Cows Evidence Temporal Fluctuations within a Host-Specific Population Structure.

scientific article published on 14 April 2017

Decreased susceptibility to chlorhexidine affects a quarter of Escherichia coli isolates responsible for pneumonia in ICU patients

scientific article published on 29 January 2018

Decreasing the effects of horizontal gene transfer on bacterial phylogeny: the Escherichia coli case study.

scientific article

Determination of Escherichia coli O types by allele-specific polymerase chain reaction: application to the O types involved in human septicemia.

scientific article

Development of an allele-specific PCR for Escherichia coli B2 sub-typing, a rapid and easy to perform substitute of multilocus sequence typing

scientific article published on 28 March 2014

Differential Antibacterial Activity Against Pseudomonas aeruginosa by Carbon Monoxide-Releasing Molecules

scientific article published on 15 September 2011

Diversity of the auxotrophic requirements in natural isolates of Escherichia coli

scientific article published on 26 June 2017

Effect of human vicinity on antimicrobial resistance and integrons in animal faecal Escherichia coli

scientific article published on 31 March 2006

Effects of Proanthocyanidins on Adhesion, Growth, and Virulence of Highly Virulent Extraintestinal Pathogenic Escherichia coli Argue for Its Use to Treat Oropharyngeal Colonization and Prevent Ventilator-Associated Pneumonia

scientific article published on June 2015

Effects of single and multiple pathogenicity island deletions on uropathogenic Escherichia coli strain 536 intrinsic extra-intestinal virulence.

scientific article

Efficacy and toxicity of intravenous iron in a mouse model of critical care anemia*.

scientific article published in July 2012

Emergence and dissemination of extended-spectrum beta-lactamase-producing Escherichia coli in the community: lessons from the study of a remote and controlled population.

scientific article published on August 2010

Emergence of Antimicrobial-Resistant Escherichia coli of Animal Origin Spreading in Humans.

scientific article published on 26 November 2015

Emergence of Imipenem Resistance in a CpxA-H208P-Variant-Producing Proteus mirabilis Clinical Isolate

scientific article published on 24 November 2020

Emergence of colistin-resistant Gram-negative Enterobacterales in the gut of patients receiving oral colistin and neomycin decontamination

scientific article published on 15 January 2020

Erratum for Kieffer et al., "mcr-9, an Inducible Gene Encoding an Acquired Phosphoethanolamine Transferase in Escherichia coli, and Its Origin"

scientific article published on 22 October 2019

Erratum: Diversity of the auxotrophic requirements in natural isolates of Escherichia coli

scientific article published on 01 August 2017

Erratum: Global phylogeography and evolutionary history of Shigella dysenteriae type 1

article

Escherichia coli B2 Phylogenetic Subgroups in the Infant Gut Microbiota: Predominance of Uropathogenic Lineages in Swedish Infants and Enteropathogenic Lineages in Pakistani Infants

scientific article published on 27 November 2019

Escherichia coli Genomic Diversity within Extraintestinal Acute Infections Argues for Adaptive Evolution at Play

scientific article published on 06 January 2021

Escherichia coli Genomic Diversity within Extraintestinal Acute Infections Argues for Adaptive Evolution at Play

scientific article published in 2021

Escherichia coli Population Structure and Antibiotic Resistance at a Buffalo/Cattle Interface in Southern Africa.

scientific article

Escherichia coli YafP protein modulates DNA damaging property of the nitroaromatic compounds

scientific article

Escherichia coli bacteremia in children: age and portal of entry are the main predictors of severity.

scientific article published on August 2014

Evidence for a human-specific Escherichia coli clone.

scientific article published on 6 January 2008

Evolution of mutation rates in bacteria

scientific article (publication date: May 2006)

Evolutionary significance of stress-induced mutagenesis in bacteria

scientific article published on June 2004

Experimental mouse lethality of Escherichia coli isolates, in relation to accessory traits, phylogenetic group, and ecological source

scientific article published on 15 September 2006

Extended-spectrum beta-lactamase-producing Escherichia coli infections in children: are community-acquired strains different from nosocomial strains?

scientific article

Extended-spectrum β-lactamase-encoding genes are spreading on a wide range of Escherichia coli plasmids existing prior to the use of third-generation cephalosporins

article

Extra-corporeal membrane oxygenation-associated infections: implication of extra-intestinal pathogenic Escherichia coli clones

scientific article

Extraintestinal virulence is a coincidental by-product of commensalism in B2 phylogenetic group Escherichia coli strains.

scientific article published on 19 August 2007

Fine-Scale Structure Analysis Shows Epidemic Patterns of Clonal Complex 95, a Cosmopolitan Escherichia coli Lineage Responsible for Extraintestinal Infection

scientific article

Fitness, stress resistance, and extraintestinal virulence in Escherichia coli.

scientific article published on 20 May 2013

French Intensive Care Society, International congress - Réanimation 2016

scientific article published in June 2016

From grazing resistance to pathogenesis: the coincidental evolution of virulence factors

scientific article

Genetic background of Escherichia coli and extended-spectrum beta-lactamase type

scientific article published on January 2005

Genotype–phenotype correlations in fetuses and neonates with autosomal recessive polycystic kidney disease

scientific article published on 25 November 2009

Genotypic and phenotypic characteristics of Escherichia coli involved in transfusion-transmitted bacterial infections: implications for preventive strategies

scientific article published on 01 August 2018

Global phylogeography and evolutionary history of Shigella dysenteriae type 1.

scientific article

Guide to the various phylogenetic classification schemes for Escherichia coli and the correspondence among schemes

scientific article published on 24 February 2015

Gut microbiota composition alterations are associated with the onset of diabetes in kidney transplant recipients

scientific article published on 07 January 2020

Hepcidin as a Major Component of Renal Antibacterial Defenses against Uropathogenic Escherichia coli

scientific article published on 20 August 2015

High Recombinant Frequency in Extraintestinal Pathogenic Escherichia coli Strains.

scientific article

High frequency of mutator strains among human uropathogenic Escherichia coli isolates.

scientific article published on January 2002

High-density lipoprotein (HDL) particle size and concentration changes in septic shock patients.

scientific article published on 13 June 2019

Host factors and portal of entry outweigh bacterial determinants to predict the severity of Escherichia coli bacteremia

scientific article

Identification of a clone of Escherichia coli O103:H2 as potential agent of hemolytic-uremic syndrome in France.

scientific article published in March 1994

Identification of forces shaping the commensal Escherichia coli genetic structure by comparing animal and human isolates.

scientific article published in November 2006

Immunosuppressive Treatment Alters Secretion of Ileal Antimicrobial Peptides and Gut Microbiota, and Favors Subsequent Colonization by Uropathogenic Escherichia coli

scientific article

Impact of Escherichia coli probiotic strains ED1a and Nissle 1917 on the excretion and gut carriage of extended-spectrum beta-lactamase-producing E. coli in pigs

scientific article published in 2021

Influence of hydrological conditions on the Escherichia coli population structure in the water of a creek on a rural watershed

scientific article

Integron-associated antibiotic resistance and phylogenetic grouping of Escherichia coli isolates from healthy subjects free of recent antibiotic exposure

scientific article

Integrons and antibiotic resistance in phylogenetic group B2 Escherichia coli

scientific article published in September 2009

Interactions between genotype and environment drive the metabolic phenotype within Escherichia coli isolates

scientific article

Intermediate mutation frequencies favor evolution of multidrug resistance in Escherichia coli

scientific article published on 18 June 2005

Interplay between Bacterial Clones and Plasmids in the Spread of Antibiotic Resistance Genes in the Gut: Lessons from a Temporal Study in Veal Calves

scientific article published on 06 October 2021

KPC-3-producing ST167 Escherichia coli from mussels bought at a retail market in Tunisia.

scientific article

Lack of association between colistin resistance and chlorhexidine reduced susceptibility in clinical isolates of <i>Escherichia coli</i>

scientific article published in 2021

Lack of dissemination of acquired resistance to β-lactams in small wild mammals around an isolated village in the Amazonian forest

scientific article

Large-scale population structure of human commensal Escherichia coli isolates

scientific article published on September 2004

Links between Transcription, Environmental Adaptation and Gene Variability in Escherichia coli: Correlations between Gene Expression and Gene Variability Reflect Growth Efficiencies

scientific article published on 28 June 2016

Major role of iron uptake systems in the intrinsic extra-intestinal virulence of the genus Escherichia revealed by a genome-wide association study

scientific article published on 28 October 2020

Massive Prevalence of Faecal Carriage of ESBL-Producing &lt;i&gt;Escherichia Coli&lt;/i&gt; in Community in Niger Due to the Spread of &lt;i&gt;blac&lt;/i&gt; &lt;sub&gt;CTX-M-15&lt;/sub&gt; Gene in Multiple Commensal Clones

scientific article published in 2022

Maternally acquired genotoxic Escherichia coli alters offspring's intestinal homeostasis.

scientific article

Meningitis caused by Escherichia coli producing TEM-52 extended-spectrum beta-lactamase within an extensive outbreak in a neonatal ward: epidemiological investigation and characterization of the strain

scientific article

Molecular and evolutionary bases of within-patient genotypic and phenotypic diversity in Escherichia coli extraintestinal infections

scientific article

Molecular characterization of addiction systems of plasmids encoding extended-spectrum beta-lactamases in Escherichia coli.

scientific article published on 27 May 2010

Molecular epidemiology and kinetics of early Escherichia coli urinary tract infections in kidney transplant recipients

scientific article published on 30 May 2017

Molecular epidemiology and virulence of Escherichia coli O16:H5-ST131: comparison with H30 and H30-Rx subclones of O25b:H4-ST131.

scientific article

Multiple acquisitions of CTX-M plasmids in the rare D2 genotype of Escherichia coli provide evidence for convergent evolution

scientific article published on 9 April 2009

Mutator phenotype confers advantage in Escherichia coli chronic urinary tract infection pathogenesis.

scientific article

Organised genome dynamics in the Escherichia coli species results in highly diverse adaptive paths

scientific article published in January 2009

Pathogenicity-associated islands in extraintestinal pathogenic Escherichia coli are fitness elements involved in intestinal colonization

scientific article

Pathophysiology of Escherichia coli pneumonia: Respective contribution of pathogenicity islands to virulence

scientific article published on 5 January 2018

Pathophysiology of Escherichia coli ventilator-associated pneumonia: implication of highly virulent extraintestinal pathogenic strains.

scientific article published on 28 September 2012

Phenotype inference in an Escherichia coli strain panel.

scientific article published on 27 December 2017

Phenotype prediction in an Escherichia coli strain panel

scholarly article published 24 May 2017

Phylogenetic and genomic diversity of human bacteremic Escherichia coli strains

scientific article

Phylogenetic background and habitat drive the genetic diversification of Escherichia coli

scientific article published on 12 June 2020

Phylogenetic, virulence and antibiotic resistance characteristics of commensal strain populations of Escherichia coli from community subjects in the Paris area in 2010 and evolution over 30 years.

scientific article published on 28 January 2016

Phylum barrier and Escherichia coli intra-species phylogeny drive the acquisition of antibiotic-resistance genes

scientific article published in 2021

Pneumonia-Specific Escherichia coli with Distinct Phylogenetic and Virulence Profiles, France, 2012-2014

article

Polymorphism of genes encoding SOS polymerases in natural populations of Escherichia coli.

scientific article published in April 2003

Population Phylogenomics of Extraintestinal Pathogenic Escherichia coli

scientific article published on February 2016

Prevalence and phylogenetic history of the TcpC virulence determinant in Escherichia coli

scientific article published on 23 May 2010

Prevalence, Risk Factors, and Genetic Characterization of Extended-Spectrum Beta-Lactamase Escherichia coli Isolated From Healthy Pregnant Women in Madagascar

scientific article published in 2021

Probable intrafamily transmission of a highly virulent CTX-M-3-producing Escherichia coli belonging to the emerging phylogenetic subgroup D2 O102-ST405 clone.

scientific article

Prospective Cohort Study of the Relative Abundance of Extended-Spectrum-Beta-Lactamase-Producing Escherichia coli in the Gut of Patients Admitted to Hospitals

scientific article published on 06 September 2016

Publisher Correction: The impact of genetic diversity on gene essentiality within the Escherichia coli species

correction of a scholarly article

Quantitative analysis of commensal Escherichia coli populations reveals host-specific enterotypes at the intra-species level

scientific article

Rapid and specific detection, molecular epidemiology, and experimental virulence of the O16 subgroup within Escherichia coli sequence type 131.

scientific article published on 05 February 2014

Rapid detection of the O25b-ST131 clone of Escherichia coli encompassing the CTX-M-15-producing strains

scientific article

Rare Spontaneous Loss of Multiresistance Gene Carrying IncI/ST12 Plasmid in Escherichia coli in Pig Microbiota.

scientific article published on August 2016

Real-time PCR for detection of the O25b-ST131 clone of Escherichia coli and its CTX-M-15-like extended-spectrum beta-lactamases ⬇️

scientific article published on August 5, 2010

Real-time PCR for quantitative analysis of human commensal Escherichia coli populations reveals a high frequency of subdominant phylogroups

scientific article published on 14 June 2013

Reconstituted High-density Lipoprotein Therapy Improves Survival in Mouse Models of Sepsis

scientific article published on 01 April 2020

Relative fecal abundance of extended-spectrum-β-lactamase-producing Escherichia coli strains and their occurrence in urinary tract infections in women.

scientific article published on 08 July 2013

Replicon typing of plasmids in Escherichia coli producing extended-spectrum beta-lactamases.

scientific article

Rifampin-resistant RNA polymerase mutants of Chlamydia trachomatis remain susceptible to the ansamycin rifalazil

scientific article published on March 2005

Role of CD14 in responses to clinical isolates of Escherichia coli: effects of K1 capsule expression

scientific article

Role of intraspecies recombination in the spread of pathogenicity islands within the Escherichia coli species

scientific article

Screening of Escherichia coli species biodiversity reveals new biofilm-associated antiadhesion polysaccharides.

scientific article

Selection acts on DNA secondary structures to decrease transcriptional mutagenesis

scientific article

Selection-driven transcriptome polymorphism in Escherichia coli/Shigella species

scientific article

Single-nucleotide polymorphism phylotyping of Escherichia coli

scientific article published on August 2005

Small Intestine Early Innate Immunity Response during Intestinal Colonization by Escherichia coli Depends on Its Extra-Intestinal Virulence Status

scientific article

Small variable segments constitute a major type of diversity of bacterial genomes at the species level

scientific article

Specialization of small non-conjugative plasmids in Escherichia coli according to their family types

scientific article published on 05 August 2019

Strain-specific impact of the high-pathogenicity island on virulence in extra-intestinal pathogenic Escherichia coli.

scientific article published on 22 November 2016

Stress-induced mutagenesis in bacteria

scientific article

Structural Alteration of OmpR as a Source of Ertapenem Resistance in a CTX-M-15-Producing Escherichia coli O25b:H4 Sequence Type 131 Clinical Isolate

scientific article published on 6 March 2017

Success of Escherichia coli O25b:H4 ST131 clade C associated with a decrease in virulence

scientific article published on 28 September 2020

The <i>cnf1</i> gene is associated with an expanding <i>Escherichia coli</i> ST131 <i>H</i>30Rx/C2 subclade and confers a competitive advantage for gut colonization

scientific article published in 2022

The Arginine Deiminase Operon Is Responsible for a Fitness Trade-Off in Extended-Spectrum-β-Lactamase-Producing Strains of Escherichia coli

scientific article published on 25 July 2019

The CTX-M-15-producing Escherichia coli clone O25b: H4-ST131 has high intestine colonization and urinary tract infection abilities

scientific article

The CTX-M-15-producing Escherichia coli diffusing clone belongs to a highly virulent B2 phylogenetic subgroup

scientific article

The Clermont Escherichia coli phylo-typing method revisited: improvement of specificity and detection of new phylo-groups

scientific article

The Evolutionary History of Shigella and Enteroinvasive Escherichia coli Revised ⬇️

scientific article published on August 1, 2003

The FimH A27V mutation is pathoadaptive for urovirulence in Escherichia coli B2 phylogenetic group isolates

scientific article

The Population Genomics of Increased Virulence and Antibiotic Resistance in Human Commensal Escherichia coli over 30 Years in France

scientific article published in 2022

The authors reply

The enemy within us: lessons from the 2011 European Escherichia coli O104:H4 outbreak

scientific article

The impact of genetic diversity on gene essentiality within the Escherichia coli species

scientific article published in 2021

The interaction between a non-pathogenic and a pathogenic strain synergistically enhances extra-intestinal virulence in Escherichia coli.

scientific article published on 11 November 2010

The plasmid of Escherichia coli strain S88 (O45:K1:H7) that causes neonatal meningitis is closely related to avian pathogenic E. coli plasmids and is associated with high-level bacteremia in a neonatal rat meningitis model

scientific article published on 23 March 2009

The population genetics of commensal Escherichia coli

scientific article published on March 2010

The population genetics of pathogenic Escherichia coli

scientific article published on 21 August 2020

The rpoS gene is predominantly inactivated during laboratory storage and undergoes source-sink evolution in Escherichia coli species.

scientific article

TisB Protein Protects Escherichia coli Cells Suffering Massive DNA Damage from Environmental Toxic Compounds

scientific article published in 2022

Urinary tract infections in diabetic patients

scientific article published on September 2014

Using long-term experimental evolution to uncover the patterns and determinants of molecular evolution of an Escherichia coli natural isolate in the streptomycin-treated mouse gut.

scientific article published on 23 September 2016

Variation in endogenous oxidative stress in Escherichia coli natural isolates during growth in urine.

scientific article

Virulence of Escherichia coli clinical isolates in a murine sepsis model in relation to sequence type ST131 status, fluoroquinolone resistance, and virulence genotype

scientific article published on 6 February 2012

Virulence patterns in a murine sepsis model of ST131 Escherichia coli clinical isolates belonging to serotypes O25b:H4 and O16:H5 are associated to specific virotypes

scientific article published on 30 January 2014

WT1 splice site mutation in a 46,XX female with minimal-change nephrotic syndrome and Wilms' tumour

scientific article published on 01 April 2003

Yersinia high-pathogenicity island contributes to virulence in Escherichia coli causing extraintestinal infections

scientific article

[Genetic adaptation of bacteria].

scientific article published in June 2012

aes, the gene encoding the esterase B in Escherichia coli, is a powerful phylogenetic marker of the species

scientific article

mcr-9, an Inducible Gene Encoding an Acquired Phosphoethanolamine Transferase in Escherichia coli, and Its Origin

scientific article published on 23 August 2019

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