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* Indicates the authors who have equally contributed to the work |
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Supplementary material/Commentary |
| 2012 |
CLERMONT O., CHRISTENSON J.K., DENAMUR E., GORDON D.M. The Clermont Escherichia coli phylo-typing method revisited: improvement of specificity and detection of new phylo-groups. Environ Microbiol Rep, 2012, |
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WIELGOSS S.*, BARRICK J.E.*, TENAILLON O.*, WISER M.J., DITTMAR W.J., CRUVEILLER S., CHANE-WOON-MING B., MEDIGUE C., LENSKI R.E., SCHNEIDER D. Mutation rate dynamics in a bacterial population reflect tension between adaptation and genetic load. PNAS., 2012, (In press) |
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AUBRON C., HUET O., RICOME S., BORDERIE D., PUSSARD E., LEBLANC P.E., BOUVET O., VICAUT E., DENAMUR E., DURANTEAU J. Changes in urine composition after trauma facilitate bacterial growth. BMC Infect Dis, 2012,(In press) |
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TOUCHON M., CHARPENTIER S., POGNARD D., PICARD B., ARLET G., ROCHA E.P.C., DENAMUR E., BRANGER C. Antibiotic resistance plasmids spread among natural isolates of Escherichia coli in spite of CRISPR elements. Microbiology, 2012, 158, 2997-3004 |
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MESSIKA J., MAGDOUD F., CLERMONT O., MARGETIS D., GAUDRY S., ROUX D., BRANGER C., DREYFUSS D., DENAMUR E., RICARD J.D. Pathophysiology of Escherichia coli ventilator-associated pneumonia: implication of highly virulent extraintestinal pathogenic strains. Intensive Care Med, 2012, 38, 2007-2016 |
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LESCAT M., CLERMONT O., WOERTHER P.L., GLODT J., DION S., SKURNIK D., DJOSSOU F., DUPONT C., PERROZ G., PICARD B., CATZEFLIS F., ANDREMONT A., DENAMUR E. Commensal Escherichia coli strains in Guiana reveal a high genetic diversity with host-dependant population structure. Environ Microbiol Rep, 2012, DOI: 10.1111/j.1758-2229.2012.00374.x[Epub ahead of print] |
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LANDRAUD L.*, JAURÉGUY F.*, FRAPY E., GUIGON G., GOURIOU S., CARBONNELLE E., CLERMONT O., DENAMUR E., PICARD B., LEMICHEZ E., BRISSE S., NASSIF X. Severity of Escherichia coli bacteraemia is independent of the intrinsic virulence of the strains assessed in a mouse model. Clin Microbiol Infect, 2012, doi: 10.1111/j.1469-0691.2011.03750.x.[Epub ahead of print] |
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VIMONT S., BOYD A., BLEIBTREU A., BENS M., GOUJON J.M., GARRY L., CLERMONT O., DENAMUR E., ARLET A., VANDEWALLE A. The CTX-M-15-producing Escherichia coli clone O25b:H4-ST131 has high intestine colonization and urinary tract infection abilities. PLoS ONE, 2012, 7, e46547 |
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KARCH H., DENAMUR E., DOBRINDT U., FINLAY B., HENGGE R., JOHANNES L., RON E.Z., TONE TØNJUM T., SANSONETTI P.J., VICENTE M. The enemy within us: lessons from the 2011 European Escherichia coli O104:H4 outbreak. EMBO Mol Med, 2012, 4, 841-848 |
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AUBRON C., GLODT J., MATAR C., HUET O., BORDERIE D., DOBRINDT U., DURANTEAU J., DENAMUR E., CONTI M., BOUVET O. Variation in endogenous oxidative stress in Escherichia coli natural isolates during growth in urine. BMC Microbiology, 2012, 12, 120 |
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JOHNSON J.R., PORTER S.B., ZHANEL G., KUSKOWSKI M.A., DENAMUR E. Virulence of Escherichia coli clinical isolates in a murine sepsis model in relation to sequence type ST131 status, fluoroquinolone resistance, and virulence genotype. Infect Immun, 2012, 80, 1554-1562 |
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HEMING N., LETTÉRON P., DRISS F., MILLOT S., EL BENNA J., TOURRET J., DENAMUR E., MONTRAVERS P., BEAUMONT C., LASOCKI S. Efficacy and toxicity of intravenous iron in a mouse model of critical care anemia. Crit Care Med, 2012, 40, 2141-2148 |
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RICARD J.D., ROUX D. Candida colonization in ventilated ICU patients: no longer a bystander! Intensive Care Med. 2012;38:1243-45 |
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DESMARD M., FORESTI R., MORIN D., DAGOUSSAT M., BERDEAUX A., DENAMUR
E., SIAN H. CROOK S.H., BRIAN E. MANN B.E., SCAPENS D., MONTRAVERS P.,
BOCZKOWSKI J., MOTTERLINI R. Differential antibacterial activity against Pseudomonas
aeruginosa by carbon monoxide-releasing molecules (CO-RMs). Antioxid Redox Signal, 2012, 16, 153-163 |
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TENAILLON O., RODRÍGUEZ-VERDUGO A., GAUT R., MCDONALD P., BENNETT A.F., LONG A.D*. & GAUT, B.G*. The molecular diversity of adaptive convergence. Science., 2012, 335: 457-461. |
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| 2011 |
CLERMONT O., GORDON D.M., BRISSE S., WALK S.T., DENAMUR E. Characterization of the cryptic Escherichia lineages: rapid identification and prevalence. Environ. Microbiol., 2011, 13:2468-2477 |
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CHENOUNE M., LIDOUREN F., ADAM C., PONS S., DARBERA L., BRUNEVAL P., GHALEH B., ZINI R., DUBOIS-RANDE J.L., CARLI P., VIVIEN B., RICARD
J.D., BERDEAUX A., TISSIER R. Ultrafast and whole-body cooling with total liquid ventilation induces favorable neurological and cardiac outcomes after cardiac arrest in rabbits. Circulation. 2011, 124, 901-911 |
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WOERTHER PL, ANGEBAULT C, JACQUIER H, HUGEDE HC, JANSSENS AC,
SAYADI S, EL MNIAI A, ARMAND-LEFÈVRE L, RUPPÉ E, BARBIER F, RASKINE L,
PAGE AL, DE REKENEIRE N, ANDREMONT A. Massive increase, spread, and exchange
of extended spectrum β-lactamase-encoding genes among intestinal Enterobacteriaceae in hospitalized children with severe acute malnutrition in Niger. Clin Infect Dis. 2011, 53, 677- 685 |
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RICARD J.D., EVEILLARD M., MARTIN Y., BARNAUD G., BRANGER C., DREYFUSS
D. Influence of tracheal suctioning systems on health care workers' gloves and equipment
contamination: A comparison of closed and open systems. Am J Infect Control. 2011, 39, 605-607 |
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LESPINATS S., FERTIL B. ColorPhylo: a colour code to accurately display taxonomic classifications. Evol Bioinform., 2011, 7, 257-270 |
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LE NAGARD H., CHAO L., TENAILLON O. The emergence of complexity and restricted pleiotropy in adapting networks. BMC Evol Biol, 2011, 11, 326 |
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WIELGOSS S., BARRICK J.E., TENAILLON O., CRUVEILLER S., CHANE-WOON-MING B., MéDIGUE C., LENSKI R.E., SCHNEIDER D. Mutation rate inferred from synonymous substitutions in a long-term evolution experiment with Escherichia coli. Genes, Genomes, Genetics. 2011, 1:183-186 |
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COURPON-CLAUDINON A., LEFORT A., PANHARD X., CLERMONT O., DORNIC Q.,
FANTIN B., MENTRÉ F., WOLFF M., DENAMUR E., BRANGER C.; COLIBAFI GROUP INCLUANT GLODT J. Bacteremia due to third-generation cephalosporin-resistant Escherichia coli in France: prevalence, molecular epidemiology and clinical features. Clin. Microbiol. Infect., 2011, 17, 557-565 |
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LEFORT A.*, PANHARD X.*, CLERMONT O.*, WOERTHER P.L., BRANGER C., MENTRÉ F., FANTIN B., WOLFF M., DENAMUR E.; COLIBAFI GROUP INCLUANT GLODT J. Host factors and portal of entry overcome bacterial determinants to predict the severity of Escherichia coli bacteremia. J. Clin. Microbiol., 2011, 49, 777-783 |
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TOURRET J., ALOULOU M., GARRY L., TENAILLON O., DION S., RYFFEL B., MONTEIRO R., DENAMUR E. The interaction between a non pathogenic and a pathogenic strain synergistically enhances extra-intestinal virulence in Escherichia coli. Microbiology, 2011, 157, 774-785 |
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VIEIRA G., SABARLY V., BOURGUIGNON P.Y., DUROT M., LE FÈVRE F., MORNICO D., VALLENET D., BOUVET O., DENAMUR E., SCHACHTER V., MÉDIGUE C. The core and pan-metabolism in the Escherichia coli species. J. Bacteriol., 2011, 193, 1461-1472 |
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BILLARD-POMARES T., TENAILLON O., LE NAGARD H., ROUY Z., CRUVELLIER S., MÉDIGUE C., ARLET G., DENAMUR E., BRANGER C. Complete nucleotide sequence of plasmid pTN48 encoding the CTX-M-14 extended spectrum β-lactamase from an Escherichia coli O102-ST405 strain. Antimicrob. Agents Chemother., 2011, 55, 1270-1273 |
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GUTIERREZ A., ELEZ M., CLERMONT O., DENAMUR E., MATIC I. Escherichia coli YafP protein modulates DNA damaging property of the nitroaromatic compounds. Nucleic Acids Res. 2011, 39, 4192-4201 |
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CLERMONT O., OLIER M., HOEDE C., DIANCOURT L., BRISSE S., KEROUDEAN M., GLODT J., PICARD B., OSWALD E., DENAMUR E. Animal and human pathogenic Escherichia coli strains share common genetic backgrounds. Infect. Gen. Evol., 2011, 11, 654-662 |
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INGLE D.J., CLERMONT O., SKURNIK D., DENAMUR E., WALK S.T., GORDON D.M. Biofilm formation by and thermal niche and virulence characteristics of Escherichia spp. Appl. Environ. Microbiol., 2011, 77, 2695-2700 |
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SABARLY V., BOUVET O., GLODT J., CLERMONT O., SKURNIK D., BRISSE S., DE VIENNE D., DENAMUR E., DILLMANN C. The decoupling between genetic structure and metabolic phenotypes in Escherichia coli leads to continuous phenotypic diversity. J. Evol. Biol., 2011, 24, 1559-1571 |
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TOUCHON M., CHARPENTIER S., CLERMONT O., ROCHA E.P.C., DENAMUR E., BRANGER C. CRISPR distribution within the Escherichia coli species is not suggestive of immunity-associated diversifying selection. J. Bacteriol., 2011, 193, 2460-2467 |
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LESPINATS S., GRANDO D., MARÉCHAL E., HAKIMI M.A., TENAILLON O., BASTIEN O. How Fitch-Margoliash algorithm can benefit from Multi Dimensional Scaling. Evolutionary Bioinf., 2011, 7, 61-85 |
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RENDUELES O., TRAVIER L., LATOUR-LAMBERT P., MAGNUS J., FONTAINE T., DENAMUR E., GHIGO J.M. Screening the Escherichia coli species biodiversity reveals new biofilm-associated anti-adhesion polysaccharides. mBio, 2011, 2, e00043 |
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DENAMUR E. The 2011 Shiga toxin-producing Escherichia coli O104:H4 German outbreak: a lesson of genomic plasticity. Clin. Microbiol. Infect., 2011, 17, 1124-1125 |
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| 2010 |
BARNAUD G., ZIHOUNE N., RICARD J.D., HIPPEAUX M.C., EVEILLARD M., DREYFUSS D., BRANGER C. Two sequential outbreaks caused by multidrug-resistant Acinetobacter baumannii isolates producing OXA-58 or OXA-72 oxacillinase in an intensive care unit in France. J Hosp Infect., 2010, 76, 358-360 |
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DHANJI H., DOUMITH M., CLERMONT O., DENAMUR E., HOPE R., LIVERMORE D.M., WOODFORD N. Real-time PCR for detection of the O25b-ST131 clone of Escherichia coli and its CTX-M-15-like extended-spectrum beta-lactamases. Int. J. Antimicrob. Agents., 2010, 36, 355-358 |
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DIARD M., GARRY L., DENAMUR E.*, MATIC I.* Extra-intestinal pathogenic Escherichia coli pathogenicity islands are fitness elements involved in the intestinal colonization. J. Bacteriol., 2010, 192, 4885-4893 |
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LEVERT M., ZAMFIR O., CLERMONT O., BOUVET O., LESPINATS S., HIPEAUX M.C., BRANGER C., PICARD B., SAINT-RUF C., NOREL F., BALLIAU T., ZIVY M., LE NAGARD H., CRUVELLIER S., CHANE-WOON-MING B., NILSSON S., GUDELJ I., PHAN K., FERENCI T., TENAILLON O., DENAMUR E. Molecular and evolutionary bases of within-patient genotypic and phenotypic diversity in Escherichia coli extraintestinal infections. PLoS Pathog., 2010, 6, e1001125 |
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RATAJCZAK M., LAROCHE E., BERTHE T., CLERMONT O., PAWLAK B., DENAMUR E., PETIT F. Influence of hydrological conditions on the Escherichia coli population structure in the water of a creek on a rural watershed. BMC Microbiology, 2010, 10, 222 |
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MICHEL A., CLERMONT O., DENAMUR E., TENAILLON O. Bacteriophage PhiX174’s ecological niche and the flexibility of its Escherichia coli lipopolysaccharide receptor. Appl. Environ. Microbiol., 2010, 76, 7310-7313 |
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ADIBA S., NIZAK C., VAN BAALEN M., DENAMUR E.*, DEPAULIS F.* From grazing resistance to pathogenesis: the coincidental evolution of virulence factors. PLoS ONE, 2010, 5, e11882 |
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MOISSENET D., SALAUZE B., CLERMONT O., BINGEN E., ARLET G., DENAMUR E., MÉRENS A., MITANCHEZ D., VU-THIEN H. A case of meningitis caused by Escherichia coli producing TEM-52 extended-spectrum β-Lactamase within an extensive outbreak in a neonatal ward: epidemiological investigation and characterization of the strain. J. Clin. Microbiol. 2010, 48, 2459-2463 |
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RUIMY R., ANGEBAULT C., DJOSSOU F., DUPONT C., EPELBOIN L., JARRAUD S., ARMAND LEFEVRE L., BES M., LIXANDRU B.E., BERTINE M., EL MINIAI A., RENARD M., BETTINGER R.M., LESCAT M., CLERMONT O., PEROZ G., LINA G., TAVAKOL M., VANDENESCH F., VAN BELKUM A., ROUSSET F., ANDREMONT A. Host genetics as the predominant determinant of persistent nasal Staphylococcus aureus carriage in humans? J. Infect. Dis., 2010, 202, 924-934 |
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TOUZAIN F., DENAMUR E., MÉDIGUE C., BARBE V., EL KAROUI M., PETIT M.A. Small variable segments constitute a major type of diversity of bacterial genomes at the species level. Genome Biol., 2010, 11, R45 |
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MNIF B., VIMONT S., BOYD A., BOURIT E., PICARD B., BRANGER C., DENAMUR E., ARLET G. Molecular characterization of addiction systems of plasmids encoding extended-spectrum beta-lactamase in Escherichia coli. J. Antimicrob. Chemother., 2010, 65, 1599-1603 |
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DENAMUR E., PICARD B., TENAILLON O. Population Genetics of Pathogenic Escherichia coli Bacterial Population Genetics in Infectious Disease (eds D. A. Robinson, D. Falush and E. J. Feil), John Wiley & Sons, Inc., Hoboken, NJ, USA, 2010, doi: 10.1002/9780470600122.ch14. |
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MIHAILA L., WYPLOSZ B., CLERMONT O., GARRY L., HIPEAUX M.C., VITTECOQ D., DUSSAIX E., DENAMUR E., BRANGER C. Probable intra-family transmission of a highly virulent CTX-M-3-producing Escherichia coli belonging to the emerging phylogenetic subgroup D2 O102-ST405 clone. J. Antimicrob. Chemother., 2010, 65, 1537-1539 |
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WOERTHER P.L., ANGEBAULT C., LESCAT M., RUPPE E., SKURNIK D., EL MNIAI A., CLERMONT O., JACQUIER H., DA COSTA A., RENARD M., BETTINGER R.M., EPELBOIN L., DUPONT C., GUILLEMOT D., ROUSSET F., ARLET G., DENAMUR E., DJOSSOU F., ANDREMONT A. Emergence and dissemination of extended spectrum β-lactamase-producing Escherichia coli in the community: lessons from the study of a remote and controlled population. J. Infect. Dis., 2010, 202, 515-23 |
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TOURRET J., DIARD M., GARRY L., MATIC I., DENAMUR E. Effects of single and multiple pathogenicity island deletions of uropathogenic Escherichia coli strain 536 on intrinsic extra-intestinal virulence. Int. J. Med. Microbiol. 2010, 300, 435-439 |
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SCHUBERT S., NÖRENBERG D., CLERMONT O., MAGISTRO G., WIESER A., ROMANN E., HOFFMANN C., WEINERT K., DENAMUR E. Prevalence and phylogenetic history of the TcpC virulence determinant in the Escherichia coli species. Int. J. Med. Microbiol., 2010, 300, 429-434 |
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DENAMUR E., DELEZOIDE A.L., ALBERTI C., BOURILLON A., GUBLER M.C., BOUVIER R., PASCAUD O., ELION J., GRANDCHAMP B., MICHEL-CALEMARD L., MISSY P., ZACCARIA I., LE NAGARD H., GERARD B., LOIRAT C. AND THE SOCETE FRANCAISE DE FOETOPATHOLOGIE. Genotype-phenotype correlations in fetuses and neonates with autosomal recessive polycystic kidney disease. Kindney Int., 2010, 77, 350-358 |
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TENAILLON O., SKURNIK D., PICARD B., DENAMUR E. The population genetics of commensal Escherichia coli. Nature Rev. Microbiol., 2010, 8, 207-217 |
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MOUNIER R., ADRIE C., FRANCAIS A., GARROUSTE-ORGEAS M., CHEVAL C., ALLAOUCHICHE B., JAMALI S., DINH-XUAN A.T., GOLDGRAN-TOLEDANO D., COHEN Y., AZOULAY E., TIMSIT J.F., RICARD J.D. ON BEHALF OF THE OUTCOMEREA STUDY GROUP. Study of prone positioning to reduce ventilator-associated pneumonia in hypoxemic patients. Eur. Respir. J., 2010, 35, 795-804 |
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| 2009 |
JABRE P, COMBES X, LAPOSTOLLE F, DHAOUADI M, RICARD-HIBON A, VIVIEN B, BERTRAND L, BELTRAMINI A, GAMAND P, ALBIZZATI S, PERDRIZET D, LEBAIL G, CHOLLET-XEMARD C, MAXIME V, BRUN-BUISSON C, LEFRANT JY, BOLLAERT PE, MEGARBANE B, RICARD J.D., ANGUEL N, VICAUT E , ADNET F. Etomidate versus ketamine for rapid sequence intubation in acutely ill patients: a multicentre randomised controlled trial. Lancet. 374: 293-300. Epub 2009 Jul 2001. |
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LELLOUCHE F, TAILLE S, LEFRANCOIS F, DEYE N, MAGGIORE SM, JOUVET P, RICARD J.D., FUMAGALLI B, BROCHARD L. Humidification performance of 48 passive airway humidifiers: comparison with manufacturer data. Chest. 135: 276-286.., 2009, |
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SCHUBERT S., DARLU P., CLERMONT O., WIESER A., MAGISTRO G., HOFFMANN C., WEINERT K., TENAILLON O., MATIC I., DENAMUR E. Role of intraspecies recombination in the spread of pathogenicity islands within the Escherichia coli species. PLoS Pathog., 2009, 5, e10000257 |
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TOUCHON T*., HOEDE H.*, TENAILLON O.*, BARBE V., BAERISWYL S., BIDET P., BINGEN E., BONACORSI S., BOUCHIER C., BOUVET O., CALTEAU A., CHIAPELLO H., CLERMONT O., CRUVEILLER S., DANCHIN A., DIARD M., DOSSAT C., EL KAROUI M., FRAPY E., GARRY L., GHIGO J.M., GILLES A.M., JOHNSON J.R., LE BOUGUENEC C., LESCAT M., MANGENOT S., MARTINEZ-JEHANNE V., MATIC I., NASSIF S., OZTAS S., PETIT M.A., PICHON C., ROUY Z., SAINT RUF C., SCHNEIDER D., TOURRET J., VACHERIE B., VALLENET D., MEDIGUE C., ROCHA E., DENAMUR E. Organised genome dynamics in the Escherichia coli species results in highly diverse adaptive paths. PLoS Genet., 2009, 5, e1000344 |
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MARCADE G., DESCHAMPS C., BOYD A., GAUTIER V., PICARD B., BRANGER C., DENAMUR E., ARLET G. Replicon typing of plasmids in Escherichia coli producing extended-spectrum β-lactamases J. Antimicrob. Chemother., 2009, 63, 67-71 |
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LESCAT M., HOEDE C., CLERMONT O., GARRY L., DARLU P., TUFFERY P., DENAMUR E., PICARD B. aes, the gene encoding the esterase B in Escherichia coli, is a powerful phylogenetic marker of the species. BMC Microbiol., 2009, 9, 273 |
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RICARD J.D., ROUX D. Candida pneumonia in the ICU: myth or reality? Intensive Care Med., 2009 35:1500-2 |
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SKURNIK D., LACHEEB S., BERNEDE C., LE MENAC'H A., ELBAZ S., MOHLER J., DENAMUR E., ANDREMONT A., RUIMY R. Integrons and antibiotic resistance in phylogenetic group B2 Escherichia coli. Microb. Drug Resist., 2009, 15, 173-178 |
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DIARD S., LIEVIN-LE MOAL V., TORIBIO A.L., BOUM Y., VIGIER F., SERVIN A.L., BOUVET O. Norepinephrine-dependently released Dr fimbriae of diffusely adhering Escherichia coli strain IH11128 promotes a mitogen-activated protein kinase ERK1/2-dependent production of pro-inflammatory cytokine, IL-8 in human intestinal Caco-2/TC7 cells. Microbes Infect., 2009, 11, 886-894 |
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BIZE S,, KARLSSON E.A. EKEFJARD K., QUAX T.E., PINA M., PREVOST M.C., FORTERRE P., TENAILLON O., BERNANDER R., PRANGISHVILI D. A unique virus release mechanism in the Archaea. Proc Natl Acad Sci U S A, 2009, 106, 11306-11311 |
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CLERMONT O., DHANJI H., UPTON M., GILBREEL T., FOX A., BOYD D., MULVEY M.R., NORDMANN P., RUPPEE., SARTROU J.L., FRANK T., VIMONT S., ARLET G., BRANGER C., WOODFORD N., DENAMUR E. Rapid detection of the O25b-ST131 clone of Escherichia coli encompassing the CTX-M-15 producing strains. J. Antimicrob. Chemother., 2009, 64, 274-277 |
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GROS P.A., TENAILLON O. Selection for chaperone like mediated genetic robustness at low mutation rate: impact of drift, epistasis and complexity. Genetics, 2009, 182, 555-564 |
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LESCAT M., CALTEAU A., HOEDE C., BARBE V., TOUCHON M., ROCHA E., TENAILLON O., MEDIGUE C., JOHNSON J.R., DENAMUR E. A module located at a chromosomal integration hotspot is responsible for the multiple-resistance of a reference strain from Escherichia coli clonal group A. Antimicrobial. Agents Chemother., 2009, 53, 2283-2288 |
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PEIGNE C., BIDET P., MAHJOUB-MESSA F., PLAINVERT C., BARBE V., MEDIGUE C., FRAPY E., NASSIF X., DENAMUR E., BINGEN E., BONACORSI S. The plasmid of neonatal meningitis Escherichia coli strain S88 (O45:K1:H7) is closely related to avian pathogenic E. coli plasmids and is associated with high level bacteremia in neonatal rat meningitis model. Infect. Immun., 2009, 77, 2272-2284 |
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DESCHAMPS C., CLERMONT O., HIPEAUX M.C., ARLET G., DENAMUR E., BRANGER C. Multiple acquisitions of CTX-M-plasmids in the rare D2 genotype of Escherichia coli argue for convergent evolution. Microbiology, 2009, 155, 1656-1668 |
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GROS P.A.*, LE NAGARD H.*, TENAILLON O. The evolution of epistasis and its links with genetic robustness, complexity and drift in a phenotypic model of adaptation. Genetics, 2009, 182, 277-293 |
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DESMARD M., DAVIDGE K., BOUVET O., MORIN D., ROUX D., FORESTI R., RICARD J.D., DENAMUR E., POOPLE R.K., MONTRAVERS P., MOTTERLINI R., BOCZKOWSKI J. A carbon monoxyde-releasing molecule (CORM-3) exerts bactericidal activity against Pseudomonas aeruginosa and improves survival in an animal model of bacteraemia, FASEB J., 2009, 23, 1023-1031 |
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ROUX D., GAUDRY S., DREYFUSS D., EL-BENNA J., DE PROST N., DENAMUR E., SAUMON G., RICARD J.D. Candida albicans impairs macrophage function and facilitates Pseudomonas aeruginosa pneumonia in rat. Crit. Care Med., 2009, 37, 1062-1067 |
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| 2008 |
SKURNIK D., BONNET D., BERNEDE-BAUDUIN C., MICHEL R., GUETTE C., BECKER J.M., BALAIRE C., CHAU F., MOHLER J., JARLIER V., BOUTIN J.P., MOREAU B., GUILLEMOT D., DENAMUR E., ANDREMONT A., RUIMY R. Characteristics of human intestinal Escherichia coli with changing environments Environ. Microbiol., 2008, 10, 2132-2137 |
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GORDON D.M., CLERMONT O., TOLLEY H., DENAMUR E. Assigning Escherichia coli strains to phylogenetic groups: multi-locus sequence typing versus the PCR triplex method. Environ. Microbiol., 2008, 10, 2484-2496 |
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CLERMONT O., LAVOLLAY M., VIMONT S., DESCHAMPS C., FORESTIER C., BRANGER C., DENAMUR E., ARLET G. The CTX-M-15-producing Escherichia coli diffusing clone belongs to a highly virulent B2 phylogenetic subgroup. J. Antimicrob. Chemother., 2008, 61, 1024-1028 |
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TENAILLON M.I., AUSTERLITZ F., TENAILLON O. Apparent mutational hotspots and long distance linkage disequilibrium resulting from a bottleneck. J. Evol. Biol., 2008, 21, 541-550 |
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MARAIS G.A., CALTEAU A., TENAILLON O. Mutation rate and genome reduction in endosymbiotic and free-living bacteria. Genetica, 2008, 134, 205-210 |
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CLERMONT O., LESCAT M., O'BRIEN C.L., GORDON D.M., TENAILLON O., DENAMUR E. Evidence for a human specific Escherichia coli clone. Environ. Microbiol., 2008, 10, 1000-1006 |
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VALLE J. , DA RE S.A., SCHMID S., SKURNIK D., D'ARI R., GHIGO J.M. The amino-acid valine is secreted in continuous-flow bacterial biofilms. J. Bacteriol., 2008, 190, 264-274 |
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| 2007 |
TOURRET J., TOSTIVINT I., TEZENAS DU MONTCEL S., KARIE S., LAUNAY-VACHER V., VIGNEAU C., BESSETTE C., DERAY G., BAGNIS C.I. Antiretroviral drug dosing errors in HIV-infected patients undergoing hemodialysis. Clin. Infect. Dis., 2007, 45, 779-784 |
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LE GALL T.*, CLERMONT O.*, GOURIOU S., PICARD B., NASSIF X., DENAMUR E., TENAILLON O. Extraintestinal virulence is a coincidental by-product of commensalism in B2 phylogenetic group Escherichia coli strains. Mol. Biol. Evol., 2007, 24, 2373-2384 |
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METKAR S., AWASTHI S., DENAMUR E., KIM S.M., GANGLOFF S.C., TEICHBERG S., HAZIOT A., SILVER J., GOYERT S.M. Role of CD14 in responses to clinical isolates of Escherichia coli: effects of K1 capsule expression. Infect Immun., 2007, 75, 5415-5424 |
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PLAINVERT C., BIDET P., PEIGNE C., BARBE V., MEDIGUE C., DENAMUR E., BINGEN E., BONACORSI S. A new O-antigen cluster has a key role in the virulence of the Escherichia coli meningitis clone O45:K1:H7. J. Bacteriol., 2007, 189, 8528-8536 |
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NORA T., CHARPENTIER C., TENAILLON O., HOEDE C., CLAVEL F., HANCE A.J. Contribution of recombination to the evolution of human immunodeficiency viruses expressing resistance to antiretroviral treatment. J. Virol., 2007, 81, 7620-7628 |
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TENAILLON O.*, SILANDER O.K. *, UZAN J.P., CHAO L. Quantifying organismal complexity using population genetics approach. PLoS One., 2007, 2, e217 |
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SILANDER O.K.*, TENAILLON O. *, CHAO L. Understanding the evolutionary fate of finite populations: the dynamics of mutational effects. PLoS Biol., 2007, 5, e94 |
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DIARD M., BAERISWYL S., CLERMONT O., GOURIOU S., PICARD B., TADDEI F., DENAMUR E., MATIC I. Caenorhabditis elegans as a simple model to study phenotypic and genetic virulence determinants of extraintestinal pathogenic Escherichia coli. Microbes Infect., 2007, 9, 214-223 |
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RICARD J.D., WOLFF M., LACHERADE J.C., MOURVILLIER B., HIDRI N., BARNAUD G., CHEVREL G., BOUADMA L., DREYFUSS D. Levels of vancomycin in cerebrospinal fluid of adult patients receiving adjunctive corticosteroids for pneumococcal meningitis: a prospective multicenter observational study. Clin. Infect. Dis., 2007, 44, 250-255 |
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CLERMONT O., JOHNSON J.R., MENARD M., DENAMUR E. Determination of Escherichia coli O types by allele-specific PCR: application to bloodstream isolates. Diagn. Microbiol. Infect. Dis., 2007, 57, 129-136 |
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| 2006 |
HOEDE C., DENAMUR E., TENAILLON O. Selection acts on DNA secondary structures to decrease transcriptional mutagenesis. PLoS Genet., 2006, 2, e176 |
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CATTOIR V., LESPRIT P., LASCOLS C., DENAMUR E., LEGRAND P., SOUSSY CJ., CAMBAU E. In vivo selection during ofloxacin therapy of Escherichia coli with combined topoisomerase mutations that confer high resistance to ofloxacin but sensibility to nalidixic acid. J. Antimicrob. Chemoter., 2006, 58, 1054-1057 |
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JOHNSON J.R., CLERMONT O., MENARD M., KUSKOWSKI M.A., MENARD M., PICARD B., DENAMUR E. Experimental mouse lethality of Escherichia coli isolates in relation to accessory traits, phylogenetic group, and clinical source. J. Infect Dis., 2006, 194, 1141-1150 |
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DIARD S., TORIBIO A.L., BOUM Y., VIGIER F., KANSAU K., BOUVET O., SERVIN A. Environmental signals implicated in Dr fimbriae release of pathogenic Escherichia coli. Microbes Infect., 2006, 8, 1851-1858 |
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ESCOBAR-PARAMO P., LE MENAC'H, LE GALL T., AMORIN C., GOURIOU S., PICARD B., SKURNIK D., DENAMUR E. Identification of forces shaping the commensal Escherichia coli genetic structure by comparing animal and human isolates. Environ. Microbiol., 2006, 8, 1975-1984 |
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SKURNIK D., RUIMY R., ANDREMONT A., AMORIN C., ROUQUET P., PICARD B., DENAMUR E. Effect of human vicinity on antibiotic resistance and integrons in animal commensal Escherichia coli. J. Antimicrob. Chemoter., 2006, 57, 1215-1219 |
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DENAMUR E., MATIC I. Evolution of mutation rates in bacteria. Mol. Microbiol., 2006, 60, 820-827 |
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CHARPENTIER C., NORA T., TENAILLON O., CLAVEL F., HANCE A.J. Extensive recombination between HIV-1 quasispecies makes an important contribution to viral diversity in individual patients. J. Virol., 2006, 80, 2472-2482 |
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| 2005 |
DENAMUR E., TENAILLON O., DESCHAMPS C., SKURNIK D., RONCO E., GAILLARD J.L., PICARD B., BRANGER C., MATIC I. Intermediate mutation frequencies favor evolution of multidrug resistance in Escherichia coli. Genetics., 2005, 171:825-7 |
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BRANGER C., GEOFFROY S., LAURANS G., ARLET G., VU THIEN H., ZAMFIR O., GOURIOU S., PICARD B., DENAMUR E. Extended-spectrum β-lactamase type depends on the genetic background of the strain in Escherichia coli. Emerg. Infect. Dis., 2005, 11, 54-61 |
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LE GALL T., MAVRIS M., MARTINO M.C., BERNARDINI M.L., DENAMUR E., PARSOT C. Analysis of virulence plasmid gene expression defines three classes of effectors in the type III secretion system of Shigella flexneri. Microbiology, 2005, 151, 951-962 |
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LE GALL T., DARLU P. ESCOBAR-PARAMO P., PICARD B., DENAMUR E. Selection-driven transcriptome polymorphism in Escherichia coli/Shigella species. Genome Res., 2005, 15, 260-265 |
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LABAT F., PRADILLON O., GARRY L., PEUCHMAUR M., FANTIN B., DENAMUR E. Mutator phenotype confers advantage in Escherichia coli chronic urinary tract infection pathogenesis. FEMS Immunol. Med. Microbiol., 2005, 44, 317-321 |
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SUCHLAND R.J., BOURILLON A., DENAMUR E., STAMM W.E., ROTHSTEIN D.M. Rifampin-resistant RNA polymerase mutants of Chlamydia trachomatis remain susceptible to the ansamycin rifalazil. Antimicrob. Agents Chemoter., 2005, 49, 1120-1126 |
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FROISSART R., ROZE D., UZEST M., GALIBERT L., BLANC S., MICHALAKIS Y. Recombination every day: abundant recombination in a virus during a single multi-cellular host infection PLoS Biol., 2005, 3, e89 |
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MONTVILLE R.*, FROISSART R.*, REMOLD S.K., TENAILLON O., TURNER P.E. Evolution of mutational robustness in RNA viruses. PLoS Biol, 2005, 3, e381 |
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DENAMUR E., TENAILLON O., DESCHAMPS C., SKURNIK D., RONCO E., GAILLARD J.L., PICARD B., BRANGER C., MATIC I. Intermediate mutation rates favor evolution of multidrug resistance Genetics, 2005, 171, 825-827 |
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HOMMAIS F., PEREIRA S., ACQUAVIVA C., ESCOBAR-PARAMO P., DENAMUR E. Single-nucleotide polymorphism (SNP) phylotyping in Escherichia coli Appl. Environ. Microbiol., 2005, 71, 4784-4792 |
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SKURNIK D., LE MENAC'H A., ZURAKOWSKI D., MAZEL D., COURVALIN P., DENAMUR E., ANDREMONT A., RUIMY R. Integron-associated antibiotic resistance and phylogenetic groups in Escherichia coli from healthy subjects free of recent antibiotic exposure Antimicrob. Agents Chemoter., 2005, 49, 3062-3065 |
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| 2004 |
FROISSART R., WILKE C.O., MONTVILLE R., REMOLD S.K., CHAO L. & P.E. TURNER. Co-infection weakens selection against epistatic mutations in RNA viruses. Genetics, 2004, 168, 9-19. |
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FROISSART R., UZEST M., RUIZ-FERRER V., DRUCKER M., HEBRARD E., HOHN T., BLANC S. Splicing of Cauliflower mosaic virus 35S RNA serves to downregulate a toxic product. J. Gen. Virol., 2004, 85, 2719-2726 |
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NASSIF N., ROUX C., CORADIN T., BOUVET O., LIVAGE J. Bacteria quorum sensing in silica matrices. Journal of Materials Chemistry 1., 2004, 2264-2268. |
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ESCOBAR-PARAMO P., SABBAGH A., DARLU P., PRADILLON O., VAURY C., DENAMUR E., LECOINTRE G. Decreasing the effects of horizontal gene transfer on bacterial phylogeny : the Escherichia coli case study. Mol. Phyl. Evol., 2004 30, 243-250 |
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ESCOBAR-PARAMO P., GRENET K., LE MENAC'H A., RODE L., SALGADO E., AMORIN C., GOURIOU S., PICARD B., CHERIF RAHIMY M., ANDREMONT A., DENAMUR E., RUIMY R. Large-scale population structure of human commensal Escherichia coli Isolates. Appl. Environ. Microbiol., 2004, 70.9, 5698-5700 |
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TENAILLON O., DENAMUR E., MATIC I. Evolutionary significance of stress-induced mutagenesis in bacteria. Trends Microbiol., 2004, 12, 264-270 |
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ESCOBAR-PARAMO P., CLERMONT O., BLANC-POTARD A. B., BUI H., LE BOUGUENEC C., DENAMUR E. A specific genetic background is required for acquisition and expression of virulence factors in Escherichia coli. Mol. Biol. Evol., 2004, 21, 1085-1094 |
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TENAILLON M.I., U'REN J., TENAILLON O., GAUT B.S. Selection versus demography: A multilocus investigation of the domestication process in maize. Mol. Biol. Evol., 2004, 21, 1214-1225 |
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| 2003 |
HOMMAIS F., GOURIOU S., AMORIN C., BUI H., RAHIMY M.C., PICARD B., DENAMUR E. FimH A27V mutation is pathoadaptive for urovirulence in Escherichia coli B2 phylogenetic group isolates. Infect. Immun., 2003, 71, 3619-3622 |
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BJEDOV I., LECOINTRE G., TENAILLON O., VAURY C., RADMAN M., TADDEI F., DENAMUR E., MATIC I. Polymorphism of genes encoding SOS polymerases in natural populations of Escherichia coli. DNA Repair, 2003, 2, 417-426 |
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ESCOBAR-PARAMO P., GIUDICELLI C., PARSOT C., DENAMUR E. The evolutionary history of Shigella and enteroinvasive Escherichia coli revised. J. Mol. Evol., 2003, 57, 140-148 |
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BJEDOV I.*, TENAILLON O.*, GERARD B.*, SOUZA V., DENAMUR E., RADMAN M., TADDEI F., MATIC I. Stress-induced mutagenesis in bacteria. Science, 2003, 300, 1404-1409 |
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| 2002 |
DENAMUR E., BONACORSI S., GIRAUD A., DURIEZ P., HILALI F., AMORIN C., BINGEN E., ANDREMONT A., PICARD B., TADDEI F., MATIC I. High frequency of mutator strains among human uropathogenic Escherichia coli isolates. J. Bacteriol., 2002, 184, 605-609 |
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ROCHA E.P.C., PRADILLON O., BUI H., SAYADA C., DENAMUR E. A new family of highly variable proteins in the Chlamydophila pneumoniae genome. Nucleic Acids Res., 2002, 30, 4351-4360 |
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SCHUBERT S., PICARD B., GOURIOU S., HEESEMANN J., DENAMUR E. Yersinia High-Pathogenicity Island (HPI) contributes to virulence in Escherichia coli causing extraintestinal infections. Infect. Immun., 2002, 70, 5335-5337 |
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MATIC I., TENAILLON O., LECOINTRE G., DARLU P., RADMAN M., TADDEI F., DENAMUR E. Horizontal transfer of mismatch repair genes and the variable speed of bacterial evolution. In Horizontal Gene Transfer 2nd Edition (Syvanen, M., and Kado, C.I. Eds.) Academic Press Inc. London, 2002, 145-154 |
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| 2001 |
TENAILLON O., TADDEI F., RADMAN M., MATIC I. Second order selection in bacterial evolution: selection acting on mutation and recombination rates in the course of adaptation. Res. Microbiol., 2001, 152, 11-16 |
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PORCHER E., TENAILLON O., GODELLE B. From metabolism to polymorphism in bacterial populations: a theoretical study. Evolution, 2001, 55:2181-2193 |
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PICARD B., DURIEZ P., GOURIOU S., MATIC I., DENAMUR E., TADDEI F. Mutator natural Escherichia coli isolates have an unusual virulence phenotype. Infect. Immun., 2001, 69, 9-14 |
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DURIEZ P., CLERMONT O., BONACORSI O., BINGEN E., ELION J., PICARD B., DENAMUR E. Commensal Escherichia coli isolates are phylogenetically distributed among geographically distinct human populations. Microbiology, 2001, 147, 1671-1676 |
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DELOMENIE C., FOUIX S., LONGUEMAUX S., BRAHIMI N., BIZET C., PICARD B., DENAMUR E., DUPRET J.M. Identification and functionnal characterization of arylamine N-acetyltransferases in eubacteria: evidence for highly selective acetylation of 5-aminosalicylic acid. J. Bacteriol., 2001, 183, 3417-3427 |
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| 2000 |
JOHNSON J.R., KUSKOWSKI M., DENAMUR E., PICARD B., ELION J. Clonal origin, virulence factors, and virulence. Infect. Immun., 2000, 68, 424-425Letter |
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TENAILLON O., LE NAGARD H., GODELLE B., TADDEI F. Mutator and sex in bacteria: conflict between adaptive strategies. Proc. Natl. Acad. Sci. USA, 2000, 97, 10465-1047 |
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DENAMUR E., LECOINTRE G., TADDEI F., DARLU P., TENAILLON O., ACQUAVIVA C., SAYADA C., ELION J., RADMAN M., MATIC I. Evolutionary implications of the frequent horizontal transfer of mismatch repair genes. Cell, 2000, 103, 711-721 |
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| 1999 |
TENAILLON O., TOUPANCE B., LE NAGARD H., TADDEI F., GODELLE B. Mutators, population size, adaptive landscape and the adaptation of asexual populations of bacteria. Genetics, 1999, 152: 485-493 |
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PICARD B., SEVALI GARCIA J., GOURIOU S., DURIEZ P., BRAHIMI N. BINGEN E., ELION J., DENAMUR E. The link between phylogeny and virulence in Escherichia coli extraintestinal infection. Infect. Immun., 1999, 67, 546-553 |
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| 1998 |
BINGEN E., PICARD B., BRAHIMI N., MATHY S., DESJARDINS P., ELION J., DENAMUR E. Phylogenetic analysis of Escherichia coli strains causing neonatal meningitis suggests horizontal gene transfer from a predominant pool of highly virulent B2 group strains. J. Infect. Dis., 1998, 177, 642-650 |
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ROLLAND K., LAMBERT-ZECHOWSKI N., PICARD B., DENAMUR E. Shigella and enteroinvasive Escherichia coli strains are derived from distinct ancestral strains of E. coli. Microbiology, 1998, 144, 2667-2672. |
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LECOINTRE G., RACHDI L., DARLU P., DENAMUR E. Escherichia coli molecular phylogeny using incongruence length difference test. Mol. Biol. Evol., 1998, 15, 1685-1695 |
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| 1997 |
BINGEN E., BONACORSI S., BRAHIMI N., DENAMUR E., ELION J. Virulence patterns of E. coli K1 associated with neonatal meningitis. J. Clin. Microbiol., 1997, 35, 2981-2982 |
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MATIC I., RADMAN M., TADDEI F., PICARD B., DOIT C., BINGEN E., DENAMUR E., ELION J. Highly variable mutation rates in commensal and pathogenic Escherichia coli. Science, 1997, 277, 1833-1834 |
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| 1996 |
BINGEN E., DENAMUR E., BRAHIMI N., ELION J. Genotyping may provide rapid identification of Escherichia coli K1 organisms that cause neonatal meningitis. Clin. Infect. Dis., 1996, 22, 152-156 |
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DOIT C., DENAMUR E., PICARD B., GESLIN P., ELION J., BINGEN E. Mechanisms of the spread of penicillin resistance in Streptococcus pneumoniae strains causing meningitis in children in France. J. Infect. Dis., 1996, 174, 520-528 |
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| 1995 |
DESJARDINS P., PICARD B., KALTENBACK B., ELION J., DENAMUR E. Sex in Escherichia coli does not disrupt the clonal structure of the population: evidence from RAPD and rrn RFLP data. J. Mol. Evol., 1995, 41, 440-448 |
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SAYADA C., ANDERSEN A.A., STOREY C., MILON A., EB F., HASHIMOTO N., HIRAI K., ELION J., DENAMUR E. Usefulness of omp1 restriction mapping for avian Chlamydia psittaci isolate differentiation. Res. Microbiol., 1995, 146, 155-165 |
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SAYADA C., DENAMUR E., GRANDCHAMP G., ORFILA J., ELION J. Denaturing gradient gel electrophoresis analysis for the detection of point mutations in the Chlamydia trachomatis major outer-membrane protein gene. J. Med. Microbiol., 1995, 43, 14-25 |
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SAYADA C., VRETOU E., ORFILA J., ELION J., DENAMUR E. Heterogeneity within the first constant segment of the major outer membrane protein gene in Chlamydia trachomatis serovar D/Da distinguishes 2 lineages. C. R. Acad. Sci. Paris, Sciences de la vie/Life Sciences, 1995, 318, 943-949. |
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| 1994 |
SAYADA C., ANDERSEN A.A., RODRIGUEZ P., EB F., MILON A., ELION J., DENAMUR E. Homogeneity of the major outer membrane protein gene of feline Chlamydia psittaci. Res. Vet. Sci., 1994, 56, 116-118 |
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CAVE H., MARIANI P., GRANDCHAMP B., ELION J., DENAMUR E. Reliability of PCR directly from stool samples: usefulness of an internal control. BioTechniques, 1994, 16, 809-810 |
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PICARD B., DENAMUR E., BARAKAT A., ELION J., GOULLET P. Genetic heterogeneity of Pseudomonas aeruginosa clinical isolates revealed by esterase electrophoretic polymorphism and restriction fragment length polymorphism of the ribosomal RNA gene region. J. Med. Microbiol., 1994, 40, 312-322 |
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CAVE H., BINGEN E., ELION J., DENAMUR E. Differentiation of Escherichia coli using randomly amplified polymorphic DNA analysis. Res. Microbiol., 1994, 145, 141-150 |
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BINGEN E., DENAMUR E., ELION J. Use of ribotyping in the epidemiological surveillance of nosocomial outbreaks. Clin. Microbiol. Rev., 1994, 7:311-327 |
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| 1993 |
BINGEN E., CAVE H., AUJARD Y., LAMBERT-ZECHOVSKY N., DESJARDINS P., ELION J., DENAMUR E. Molecular analysis of a multiply recurrent Escherichia coli K1 meningitis in an infant. Clin. Infect. Dis., 1993, 16, 82-85 |
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MARIANI-KURDJIAN P., DENAMUR E., MILON A., PICARD B., CAVE H., LAMBERT-ZECHOVSKY N., LOIRAT C., GOULLET P., SANSONETI P.J., ELION J. Identification of a clone of Escherichia coli O103:H2 as a potential agent of hemolytic-uremic syndrome in France. J. Clin. Microbiol., 1993, 31, 2, 296-301 |
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DENAMUR E., PICARD B., DECOUX G., DENIS J-B., GOULLET P., ELION J. The absence of correlation between allozyme and rrn RFLP analysis indicates a high gene flow rate within human clinical Pseudomonas aeruginosa isolates. FEMS Microbiol. Lett., 1993, 110, 275-280 |
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| 1992 |
BINGEN E., DENAMUR E., PICARD B., GOULLET PH., LAMBERT-ZECHOVSKY N., FOUCAUD P., NAVARRO J., ELION J. Molecular epidemiological analysis of Pseudomonas aeruginosa strains causing failure of antibiotherapy in cystic fibrosis patients. Eur. J. Clin. Microbiol. Infect. Dis., 1992, 11, 432-437 |
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PICARD B., DENAMUR E., SOURIAU A., ORFILA J., RODOLAKIS A., GOULLET PH. Enzyme electrophoretic polymorphism differentiates invasive from non-invasive Chlamydia psittaci ruminant isolates. Res. Microbiol., 1992, 143, 525-531 |
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SAYADA C., DENAMUR E., ELION J. Complete nucleotide sequence of the major outer membrane protein gene of Chlamydia trachomatis serovar Da. Gene, 1992, 120, 129-130 |
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| 1991 |
DENAMUR E., PICARD B, GOULLET PH., BINGEN E., LAMBERT N., ELION J. Complexity of Pseudomonas aeruginosa infection in cystic fibrosis: combined results from esterase electrophoresis and rDNA restriction fragment length polymorphism analysis. Epidem. Infect., 1991, 106, 531-539 |
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DENAMUR E., PICARD-PASQUIER N., MURA C., PICARD B., ORFILA J., KRISHNAMOORTHY R. Comparison among molecular epidemiological tools for Branhamella catarrhalis typing. Res. Microbiol., 1991, 42: 585-589 |
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SAYADA C., DENAMUR E., ORFILA J., CATALAN F., ELION J. Rapid genotyping of the Chlamydia trachomatis major outer membrane protein by the polymerase chain reaction. FEMS Microbiol. Lett., 1991, 83, 73-786 |
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DENAMUR E., SAYADA C., SOURIAU A., ORFILA J., RODOLAKIS A., ELION J. Restriction pattern of the major outer membrane protein gene provides evidence for a homogeneous invasive group among Chlamydia psittaci ruminant isolates. J. Gen. Microbiol., 1991, 137, 2525-2530 |
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