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2017Listeria monocytogenes isolation from urine: a series of 15 cases and review., Clin Microbiol Infect 2017 Aug; 23(8): 583-585.
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2017Clinical features and prognostic factors of listeriosis: the MONALISA national prospective cohort study., Lancet Infect Dis 2017 May; 17(5): 510-519.
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2016Genomic epidemiology and global diversity of the emerging bacterial pathogen Elizabethkingia anophelis, Sci Rep 2016;6:30379.
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2016Emergence of Antimicrobial-Resistant Escherichia coli of Animal Origin Spreading in Humans., Mol Biol Evol 2016 Apr; 33(4): 898-914.
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2016Uncovering Listeria monocytogenes hypervirulence by harnessing its biodiversity., Nat Genet 2016 Mar; 48(3): 308-313.
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2016Liver Abscess Caused by Infection with Community-Acquired Klebsiella quasipneumoniae subsp. quasipneumoniae, Emerging Infect. Dis. 2016 Mar;22(3):529-31.
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2016Genome-wide mosaicism within Mycobacterium abscessus: evolutionary and epidemiological implications, BMC Genomics 2016 Feb;17:118.
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2015Clonogrouping, a Rapid Multiplex PCR Method for Identification of Major Clones of Listeria monocytogenes., J Clin Microbiol 2015 Oct; 53(10): 3355-8.
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2015Phylogenetic lineages, clones and β-lactamases in an international collection of Klebsiella oxytoca isolates non-susceptible to expanded-spectrum cephalosporins, J. Antimicrob. Chemother. 2015 Dec;70(12):3230-7.
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2015Tracking Nosocomial Klebsiella pneumoniae Infections and Outbreaks by Whole-Genome Analysis: Small-Scale Italian Scenario within a Single Hospital, J. Clin. Microbiol. 2015 Sep;53(9):2861-8.
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2015Genomic analysis of diversity, population structure, virulence, and antimicrobial resistance in Klebsiella pneumoniae, an urgent threat to public health, Proc. Natl. Acad. Sci. U.S.A. 2015 Jul;112(27):E3574-81.
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2015In silico analysis of usher encoding genes in Klebsiella pneumoniae and characterization of their role in adhesion and colonization, PLoS ONE 2015;10(3):e0116215.
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2015Association of tellurite resistance with hypervirulent clonal groups of Klebsiella pneumoniae, J. Clin. Microbiol. 2015 Apr;53(4):1380-2.
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2015Acinetobacter seifertii sp. nov., a member of the Acinetobacter calcoaceticus-Acinetobacter baumannii complex isolated from human clinical specimens, Int. J. Syst. Evol. Microbiol. 2015 Mar;65(Pt 3):934-42.
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2014Exploring the diversity of Listeria monocytogenes biofilm architecture by high-throughput confocal laser scanning microscopy and the predominance of the honeycomb-like morphotype, Appl. Environ. Microbiol. 2015 Mar;81(5):1813-9.
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2014Molecular epidemiology of carbapenem non-susceptible Acinetobacter baumannii in France, PLoS ONE 2014;9(12):e115452.
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2014Klebsiella variicola is a frequent cause of bloodstream infection in the stockholm area, and associated with higher mortality compared to K. pneumoniae, PLoS ONE 2014;9(11):e113539.
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2014Resequencing microarray technology for genotyping human papillomavirus in cervical smears, PLoS ONE 2014;9(11):e109301.
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2014Genomic definition of hypervirulent and multidrug-resistant Klebsiella pneumoniae clonal groups, Emerging Infect. Dis. 2014 Nov;20(11):1812-20.
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2014Multiplex PCR for detection of seven virulence factors and K1/K2 capsular serotypes of Klebsiella pneumoniae, J. Clin. Microbiol. 2014 Dec;52(12):4377-80.
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2014Development of a multiplex PCR assay for identification of Klebsiella pneumoniae hypervirulent clones of capsular serotype K2, J. Med. Microbiol. 2014 Dec;63(Pt 12):1608-14.
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2014Leptospira mayottensis sp. nov., a pathogenic species of the genus Leptospira isolated from humans, Int. J. Syst. Evol. Microbiol. 2014 Dec;64(Pt 12):4061-7.
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2014Differential contribution of AcrAB and OqxAB efflux pumps to multidrug resistance and virulence in Klebsiella pneumoniae, J. Antimicrob. Chemother. 2015 Jan;70(1):81-8.
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2014Campylobacter coli cultured from the stools of a patient with immunoproliferative small intestinal disease., Clin Microbiol Infect 2014 Sep; 20(9): 908-11.
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2014Characterization of Listeria monocytogenes strains isolated during 2011-2013 from human infections in Switzerland, Foodborne Pathog. Dis. 2014 Oct;11(10):753-8.
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2014Description of Klebsiella quasipneumoniae sp. nov., isolated from human infections, with two subspecies, Klebsiella quasipneumoniae subsp. quasipneumoniae subsp. nov. and Klebsiella quasipneumoniae subsp. similipneumoniae subsp. nov., and demonstration that Klebsiella singaporensis is a junior heterotypic synonym of Klebsiella variicola, Int. J. Syst. Evol. Microbiol. 2014 Sep;64(Pt 9):3146-52.
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2014AlienTrimmer removes adapter oligonucleotides with high sensitivity in short-insert paired-end reads. Commentary on Turner (2014) Assessment of insert sizes and adapter content in FASTQ data from NexteraXT libraries, Front Genet 2014;5:130.
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2014Complete nucleotide sequence of two multidrug-resistant IncR plasmids from Klebsiella pneumoniae, Antimicrob. Agents Chemother. 2014 Jul;58(7):4207-10.
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2014Comparison of widely used Listeria monocytogenes strains EGD, 10403S, and EGD-e highlights genomic variations underlying differences in pathogenicity., mBio 2014 Mar; 5(2): e00969-14.
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2014Carbapenem-resistant Klebsiella pneumoniae exhibit variability in capsular polysaccharide and capsule associated virulence traits, J. Infect. Dis. 2014 Sep;210(5):803-13.
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2014Draft Genome Sequence of Campylobacter coli Strain IPSID-1 Isolated from a Patient with Immunoproliferative Small Intestinal Disease., Genome Announc 2014 Mar; 2(2): .
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2014Microbial molecular markers and epidemiological surveillance in the era of high throughput sequencing: an update from the IMMEM-10 conference, Res. Microbiol. 2014 Feb-Mar;165(2):140-53.
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2013Multilocus sequence typing scheme for the Mycobacterium abscessus complex, Res. Microbiol. 2014 Feb-Mar;165(2):82-90.
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2013“Epidemic clones” of Listeria monocytogenes are widespread and ancient clonal groups., J Clin Microbiol 2013 Nov; 51(11): 3770-9.
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2013wzi Gene sequencing, a rapid method for determination of capsular type for Klebsiella strains, J. Clin. Microbiol. 2013 Dec;51(12):4073-8.
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2013Different factors associated with CTX-M-producing ST131 and non-ST131 Escherichia coli clinical isolates, PLoS ONE 2013;8(9):e72191.
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2013AlienTrimmer: a tool to quickly and accurately trim off multiple short contaminant sequences from high-throughput sequencing reads, Genomics 2013 Nov-Dec;102(5-6):500-6.
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2013Deciphering bartonella diversity, recombination, and host specificity in a rodent community, PLoS ONE 2013;8(7):e68956.
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2013Lactobacillus paracasei comparative genomics: towards species pan-genome definition and exploitation of diversity, PLoS ONE 2013;8(7):e68731.
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2013Optimized Multilocus variable-number tandem-repeat analysis assay and its complementarity with pulsed-field gel electrophoresis and multilocus sequence typing for Listeria monocytogenes clone identification and surveillance., J Clin Microbiol 2013 Jun; 51(6): 1868-80.
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2013Neutral genomic microevolution of a recently emerged pathogen, Salmonella enterica serovar Agona, PLoS Genet. 2013 Apr;9(4):e1003471.
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2013Characterization of an extended-spectrum class A β-lactamase from a novel enterobacterial species taxonomically related to Rahnella spp./Ewingella spp, J. Antimicrob. Chemother. 2013 Aug;68(8):1733-6.
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2013A novel murine model of rhinoscleroma identifies Mikulicz cells, the disease signature, as IL-10 dependent derivatives of inflammatory monocytes, EMBO Mol Med 2013 Apr;5(4):516-30.
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2013Development of variable number of tandem repeats typing schemes for Ralstonia solanacearum, the agent of bacterial wilt, banana Moko disease and potato brown rot, J. Microbiol. Methods 2013 Mar;92(3):366-74.
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2013From molecular to genomic epidemiology: transforming surveillance and control of infectious diseases, Euro Surveill. 2013;18(4):20386.
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2013Genomic analysis of smooth tubercle bacilli provides insights into ancestry and pathoadaptation of Mycobacterium tuberculosis, Nat. Genet. 2013 Feb;45(2):172-9.
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2012Complete nucleotide sequence of the first KPC-2- and SHV-12-encoding IncX plasmid, pKpS90, from Klebsiella pneumoniae, Antimicrob. Agents Chemother. 2013 Jan;57(1):618-20.
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2012Population genetic structure of 4,12:a:- Salmonella enterica strains from harbor porpoises, Appl. Environ. Microbiol. 2012 Dec;78(24):8829-33.
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2012The emergence of multidrug-resistant Klebsiella pneumoniae of international clones ST13, ST16, ST35, ST48 and ST101 in a teaching hospital in the Paris region, Epidemiol. Infect. 2013 Aug;141(8):1705-12.
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2012Microbiological and clinical characteristics of bacteraemia caused by the hypermucoviscosity phenotype of Klebsiella pneumoniae in Korea, Epidemiol. Infect. 2013 Jan;141(1):188.
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2012Multilocus sequence typing analysis of Staphylococcus lugdunensis implies a clonal population structure, J. Clin. Microbiol. 2012 Sep;50(9):3003-9.
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2012Phylogenetic distribution of CTX-M- and non-extended-spectrum-β-lactamase-producing Escherichia coli isolates: group B2 isolates, except clone ST131, rarely produce CTX-M enzymes, J. Clin. Microbiol. 2012 Sep;50(9):2974-81.
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2012Primary liver abscess due to CC23-K1 virulent clone of Klebsiella pneumoniae in France, Clin. Microbiol. Infect. 2012 Sep;18(9):E338-9.
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2012Inter-hospital outbreak of Klebsiella pneumoniae producing KPC-2 carbapenemase in Ireland, J. Antimicrob. Chemother. 2012 Oct;67(10):2367-72.
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2012Multilocus sequence typing as a replacement for serotyping in Salmonella enterica, PLoS Pathog. 2012;8(6):e1002776.
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2012Azole preexposure affects the Aspergillus fumigatus population in patients., Antimicrob. Agents Chemother. 2012 Sep; 56(9): 4948-50.
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2012CRISPR typing and subtyping for improved laboratory surveillance of Salmonella infections, PLoS ONE 2012;7(5):e36995.
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2012Detection of OXA-48 carbapenemase in the pandemic clone Escherichia coli O25b:H4-ST131 in the course of investigation of an outbreak of OXA-48-producing Klebsiella pneumoniae, Antimicrob. Agents Chemother. 2012 Jul;56(7):4030-1.
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2012Klebsiella pneumoniae resistant to third-generation cephalosporins in five African and two Vietnamese major towns: multiclonal population structure with two major international clonal groups, CG15 and CG258, Clin. Microbiol. Infect. 2013 Apr;19(4):349-55.
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2012Severity of Escherichia coli bacteraemia is independent of the intrinsic virulence of the strains assessed in a mouse model, Clin. Microbiol. Infect. 2013 Jan;19(1):85-90.
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2011Human leptospira isolates circulating in Mayotte (Indian Ocean) have unique serological and molecular features, J. Clin. Microbiol. 2012 Feb;50(2):307-11.
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2011Evaluation of high-throughput sequencing for identifying known and unknown viruses in biological samples., J Clin Microbiol 2011 Sep; 49(9): 3268-75.
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2011Expansion of European vacA and cagA alleles to East-Asian Helicobacter pylori strains in Cambodia, Infect. Genet. Evol. 2011 Dec;11(8):1899-905.
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2011Evolutionary history of Helicobacter pylori sequences reflect past human migrations in Southeast Asia, PLoS ONE 2011;6(7):e22058.
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2011Worldwide distribution of major clones of Listeria monocytogenes., Emerg Infect Dis 2011 Jun; 17(6): 1110-2.
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2011PCR-based identification of Klebsiella pneumoniae subsp. rhinoscleromatis, the agent of rhinoscleroma, PLoS Negl Trop Dis 2011 May;5(5):e1052.
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2011Characterization of the novel Listeria monocytogenes PCR serogrouping profile IVb-v1., Int J Food Microbiol 2011 May; 147(1): 74-7.
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2011Multilocus VNTR analysis of Mycobacterium ulcerans strains isolated in Côte d’Ivoire, J Infect Dev Ctries 2011 Feb;5(1):59-63.
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2010Reconstructed ancestral sequences improve pathogen identification using resequencing DNA microarrays, PLoS ONE 2010;5(12):e15243.
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2010Population genetic structure of Anopheles gambiae and Anopheles arabiensis in Niger, J. Med. Entomol. 2010 May;47(3):355-66.
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2010The population structure of Acinetobacter baumannii: expanding multiresistant clones from an ancestral susceptible genetic pool, PLoS ONE 2010;5(4):e10034.
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2010Species delineation and clonal diversity in four Bifidobacterium species as revealed by multilocus sequencing, Res. Microbiol. 2010 Mar;161(2):82-90.
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2009Virulent clones of Klebsiella pneumoniae: identification and evolutionary scenario based on genomic and phenotypic characterization, PLoS ONE 2009;4(3):e4982.
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2009Uneven distribution of mating types among genotypes of Candida glabrata isolates from clinical samples, Eukaryotic Cell 2009 Mar;8(3):287-95.
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2008Phylogeny and identification of Pantoea species and typing of Pantoea agglomerans strains by multilocus gene sequencing, J. Clin. Microbiol. 2009 Feb;47(2):300-10.
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2008A new perspective on Listeria monocytogenes evolution., PLoS Pathog 2008 Sep; 4(9): e1000146.
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2007Comparative phylogenies of Burkholderia, Ralstonia, Comamonas, Brevundimonas and related organisms derived from rpoB, gyrB and rrs gene sequences, Res. Microbiol. 2008 Apr;159(3):169-77.
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2007Multilocus sequence typing of Lactobacillus casei reveals a clonal population structure with low levels of homologous recombination, Appl. Environ. Microbiol. 2007 Oct;73(20):6601-11.
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2007Recombining population structure of Plesiomonas shigelloides (Enterobacteriaceae) revealed by multilocus sequence typing, J. Bacteriol. 2007 Nov;189(21):7808-18.
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2006Genome microevolution of chikungunya viruses causing the Indian Ocean outbreak, PLoS Med. 2006 Jul;3(7):e263.
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2005Variants of the Klebsiella pneumoniae OKP chromosomal beta-lactamase are divided into two main groups, OKP-A and OKP-B, Antimicrob. Agents Chemother. 2005 Dec;49(12):5149-52.
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2005Ancient origin and gene mosaicism of the progenitor of Mycobacterium tuberculosis, PLoS Pathog. 2005 Sep;1(1):e5.
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2005Multilocus sequence typing of Klebsiella pneumoniae nosocomial isolates, J. Clin. Microbiol. 2005 Aug;43(8):4178-82.
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2005Six groups of the OXY beta-Lactamase evolved over millions of years in Klebsiella oxytoca, Antimicrob. Agents Chemother. 2005 Aug;49(8):3453-62.
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2005Identification and antimicrobial susceptibility of 100 Klebsiella animal clinical isolates, Vet. Microbiol. 2005 Feb;105(3-4):307-12.
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2004Species distribution and ribotype diversity of Burkholderia cepacia complex isolates from French patients with cystic fibrosis, J. Clin. Microbiol. 2004 Oct;42(10):4824-7.
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2004Molecular serotyping of Klebsiella species isolates by restriction of the amplified capsular antigen gene cluster, J. Clin. Microbiol. 2004 Aug;42(8):3388-98.