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Community-acquired infection caused by the uncommon hypervirulent Klebsiella pneumoniae ST66-K2 lineage.

Carla Rodrigues, Camille d'Humières, Grégory Papin, Virginie Passet, Etienne Ruppé, Sylvain Brisse,

Klebsiella pneumoniae (Kp) reference strain Kp52.145 is widely used in experimental Klebsiella pathophysiology. Since 1935, only one other strain of the same sublineage (sequence type ST66, capsular serotype K2) was isolated (AJ210, Australia). Here, we describe a community-acquired invasive infection caused by a ST66-K2 Kp strain in France. Four hypermucoviscous ... Read more >>

Microb Genom (Microbial genomics)
[2020, :]

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Epidemiological, clinical and genomic insights into the ongoing diphtheria outbreak in Yemen

Edgar Badell, Abdulilah Alharazi, Alexis Criscuolo, Noemie Lefrancq, Valerie Bouchez, Melanie Hennart, Melanie Hennart, Annick Carmi-Leroy, Nora Zidane, Marine Pascal-Perrigault, Manon Lebreton, Helena Martini, Henrik Salje, Julie Toubiana, Fekri Dureab, Ghulam Dhabaan, Sylvain Brisse, ,

Background. An outbreak of diphtheria declared in Yemen in October 2017 is still ongoing. Methods. Probable cases were recorded through an electronic diseases early warning system. Microbiological culture, genomic sequencing, antimicrobial susceptibility and toxin production testing were performed. Findings. The Yemen diphtheria outbreak developed in three epidemic waves, which affected ... Read more >>

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Characterization of Klebsiella pneumoniae isolates from a mother-child cohort in Madagascar.

Andriniaina Rakotondrasoa, Virginie Passet, Perlinot Herindrainy, Benoit Garin, Elsa Kermorvant-Duchemin, Elisabeth Delarocque-Astagneau, Didier Guillemot, Bich-Tram Huynh, Sylvain Brisse, Jean-Marc Collard,

OBJECTIVES:To define characteristics of Klebsiella pneumoniae isolated from carriage and infections in mothers and their neonates belonging to a paediatric cohort in Madagascar. METHODS:A total of 2000 mothers and their 2001 neonates were included. For each mother, vaginal and stool samples were collected at the birth. Additionally, upon suspicion of ... Read more >>

J. Antimicrob. Chemother. (The Journal of antimicrobial chemotherapy)
[2020, 75(7):1736-1746]

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The global meningitis genome partnership.

Elizabeth Rodgers, Stephen D Bentley, Ray Borrow, Holly B Bratcher, Sylvain Brisse, Angela B Brueggemann, Dominique A Caugant, Jamie Findlow, LeAnne Fox, Linda Glennie, Lee H Harrison, Odile B Harrison, Robert S Heyderman, Melissa Jansen van Rensburg, Keith A Jolley, Brenda Kwambana-Adams, Shamez Ladhani, Marc LaForce, Michael Levin, Jay Lucidarme, Neil MacAlasdair, Jenny Maclennan, Martin C J Maiden, Laura Maynard-Smith, Alessandro Muzzi, Philipp Oster, Charlene M C Rodrigues, Olivier Ronveaux, Laura Serino, Vinny Smith, Arie van der Ende, Julio Vázquez, Xin Wang, Saber Yezli, James M Stuart,

Genomic surveillance of bacterial meningitis pathogens is essential for effective disease control globally, enabling identification of emerging and expanding strains and consequent public health interventions. While there has been a rise in the use of whole genome sequencing, this has been driven predominately by a subset of countries with adequate ... Read more >>

J. Infect. (The Journal of infection)
[2020, :]

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Population genomics and antimicrobial resistance in Corynebacterium diphtheriae

Melanie Hennart, Leonardo Panunzi, Carla Rodrigues, Quentin Gaday, Sarah Baines, Marina Barros-Pinkelnig, Annick Carmi-Leroy, Melody Dazas, Anne-Marie Wehenkel, Xavier Didelot, Julie Toubiana, Edgar Badell, Sylvain Brisse,

ABSTRACT Corynebacterium diphtheriae , the agent of diphtheria, is a genetically diverse bacterial species. Although antimicrobial resistance has emerged against several drugs including first-line penicillin, the genomic determinants and population dynamics of resistance are largely unknown for this neglected human pathogen. Here we analyzed the associations of antimicrobial susceptibility phenotypes, ... Read more >>

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Klebsiella pneumoniae carriage in low-income countries: antimicrobial resistance, genomic diversity and risk factors.

Bich-Tram Huynh, Virginie Passet, Andriniaina Rakotondrasoa, Thierno Diallo, Alexandra Kerleguer, Melanie Hennart, Agathe De Lauzanne, Perlinot Herindrainy, Abdoulaye Seck, Raymond Bercion, Laurence Borand, Maria Pardos de la Gandara, Elisabeth Delarocque-Astagneau, Didier Guillemot, Muriel Vray, Benoit Garin, Jean-Marc Collard, Carla Rodrigues, Sylvain Brisse,

Background Klebsiella pneumoniae (hereafter, Kp) is a major public health threat responsible for high levels of multidrug resistant (MDR) human infections. Besides, Kp also causes severe infections in the community, especially in Asia and Africa. Although most Kp infections are caused by endogenous intestinal carriage, little is known about the ... Read more >>

Gut Microbes (Gut microbes)
[2020, 11(5):1287-1299]

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The ZKIR Assay, a Real-Time PCR Method for the Detection of Klebsiella pneumoniae and Closely Related Species in Environmental Samples.

Elodie Barbier, Carla Rodrigues, Geraldine Depret, Virginie Passet, Laurent Gal, Pascal Piveteau, Sylvain Brisse,

Klebsiella pneumoniae is of growing public health concern due to the emergence of strains that are multidrug resistant, virulent, or both. Taxonomically, the K. pneumoniae complex ("Kp") includes seven phylogroups, with Kp1 (K. pneumoniae sensu stricto) being medically prominent. Kp can be present in environmental sources such as soils and ... Read more >>

Appl. Environ. Microbiol. (Applied and environmental microbiology)
[2020, 86(7):]

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Corynebacterium rouxii sp. nov., a novel member of the diphtheriae species complex.

Edgar Badell, Mélanie Hennart, Carla Rodrigues, Virginie Passet, Melody Dazas, Leonardo Panunzi, Valérie Bouchez, Annick Carmi-Leroy, Julie Toubiana, Sylvain Brisse,

A group of six clinical isolates previously identified as Corynebacterium diphtheriae biovar Belfanti, isolated from human cutaneous or peritoneum infections and from one dog, were characterized by genomic sequencing, biochemical analysis and MALDI-TOF mass spectrometry. The six isolates were negative for the diphtheria toxin gene. Phylogenetic analyses showed that the ... Read more >>

Res. Microbiol. (Research in microbiology)
[2020, 171(3-4):122-127]

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Determining Factors for Pertussis Vaccination Policy: A Study in Five EU Countries.

Anabelle Wong, Annick Opinel, Simon Jean-Baptiste Combes, Julie Toubiana, Sylvain Brisse,

Pertussis vaccination policy varies across Europe, not only in the type of vaccine-whole cell (wP) vs. acellular (aP1/2/3/5)-but also in the schedule and recommendation for parents. This study aims to investigate the determining factors for the type of vaccine, immunization schedule and maternal immunization recommendation. From March to May 2019, ... Read more >>

Vaccines (Basel) (Vaccines)
[2020, 8(1):]

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The ZKIR Assay, a novel Real-Time PCR Method for the Detection of Klebsiella pneumoniae and Closely Related Species in Environmental Samples

Elodie Barbier, Carla Rodrigues, Geraldine Depret, Virginie Passet, Laurent Gal, Pascal Piveteau, Sylvain Brisse,

ABSTRACT Klebsiella pneumoniae (Kp) is of growing public health concern due to the emergence of strains that are multidrug-resistant, virulent, or both. Taxonomically, Kp includes seven phylogroups, with Kp1 ( K. pneumoniae sensu stricto ) being medically prominent. Kp can be present in environmental sources such as soils and vegetation, ... Read more >>

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Description of Corynebacterium rouxii sp. nov., a novel member of the diphtheriae species complex

Edgar Badell, Mélanie Hennart, Carla Rodrigues, Virginie Passet, Melody Dazas, Leonardo Panunzi, Valérie Bouchez, Annick Carmi-Leroy, Julie Toubiana, Sylvain Brisse,

Abstract A group of six clinical isolates previously identified as Corynebacterium diphtheriae biovar Belfanti, isolated from human cutaneous or peritoneum infections and from one dog, were characterized by genomic sequencing, biochemical analysis and mass spectrometry (MALDI-TOF MS). The six isolates were negative for the diphtheria toxin gene. Phylogenetic analyses showed ... Read more >>

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Determining factors for pertussis vaccination policy: A study in 5 EU countries

Anabelle Wong, Annick Opinel, Simon Jean-Baptiste Combes, Julie Toubiana, Sylvain Brisse,

Pertussis vaccination policy varies across Europe, not only in the type of vaccine (whole cell (wP) vs. acellular (aP1/2/3/5)) but also in the schedule and recommendation for parents. This study aims to investigate the determining factors for the type of vaccine, immunization schedule and maternal immunization recommendation. From March to ... Read more >>

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Gene Composition as a Potential Barrier to Large Recombinations in the Bacterial Pathogen Klebsiella pneumoniae.

Francesco Comandatore, Davide Sassera, Sion C Bayliss, Erika Scaltriti, Stefano Gaiarsa, Xiaoli Cao, Ana C Gales, Ryoichi Saito, Stefano Pongolini, Sylvain Brisse, Edward J Feil, Claudio Bandi,

Klebsiella pneumoniae (Kp) is one of the most important nosocomial pathogens worldwide, able to cause multiorgan infections and hospital outbreaks. One of the most widely disseminated lineage of Kp is the clonal group 258 (CG258), which includes the highly resistant "high-risk" sequence types ST258 and ST11. Genomic investigations revealed that ... Read more >>

Genome Biol Evol (Genome biology and evolution)
[2019, 11(11):3240-3251]

Cited: 3 times

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Description of Klebsiella spallanzanii sp. nov. and of Klebsiella pasteurii sp. nov.

Cristina Merla, Carla Rodrigues, Virginie Passet, Marta Corbella, Harry A Thorpe, Teemu V S Kallonen, Zhiyong Zong, Piero Marone, Claudio Bandi, Davide Sassera, Jukka Corander, Edward J Feil, Sylvain Brisse,

Klebsiella oxytoca causes opportunistic human infections and post-antibiotic haemorrhagic diarrhea. This Enterobacteriaceae species is genetically heterogeneous and is currently subdivided into seven phylogroups (Ko1 to Ko4 and Ko6 to Ko8). Here we investigated the taxonomic status of phylogroups Ko3 and Ko4. Genomic sequence-based phylogenetic analyses demonstrate that Ko3 and Ko4 ... Read more >>

Front Microbiol (Frontiers in microbiology)
[2019, 10:2360]

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Genus-wide Yersinia core-genome multilocus sequence typing for species identification and strain characterization.

Cyril Savin, Alexis Criscuolo, Julien Guglielmini, Anne-Sophie Le Guern, Elisabeth Carniel, Javier Pizarro-Cerdá, Sylvain Brisse,

The genus Yersinia comprises species that differ widely in their pathogenic potential and public-health significance. Yersinia pestis is responsible for plague, while Yersinia enterocolitica is a prominent enteropathogen. Strains within some species, including Y. enterocolitica, also vary in their pathogenic properties. Phenotypic identification of Yersinia species is time-consuming, labour-intensive and ... Read more >>

Microb Genom (Microbial genomics)
[2019, 5(10):]

Cited: 1 time

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Improved quadruplex real-time PCR assay for the diagnosis of diphtheria.

Edgar Badell, Sophie Guillot, Marie Tulliez, Marine Pascal, Leonardo Gabriel Panunzi, Samuel Rose, David Litt, Norman K Fry, Sylvain Brisse,

Introduction. Diphtheria is caused by toxigenic strains of Corynebacterium diphtheriae, Corynebacterium ulcerans and Corynebacterium pseudotuberculosis. For diagnostic purposes, species identification and detection of toxigenic strains (diphtheria toxin (tox)-positive strains) is typically performed using end-point PCR. A faster quadruplex real-time PCR (qPCR) was recently developed (De Zoysa et al. J . ... Read more >>

J. Med. Microbiol. (Journal of medical microbiology)
[2019, 68(10):1455-1465]

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Erratum to "Description of Klebsiella africanensis sp. nov., Klebsiella variicola subsp. tropicalensis subsp. nov. and Klebsiella variicola subsp. variicola subsp. nov." [Res Microbiol 170 (3) (2019) 165-170].

Carla Rodrigues, Virginie Passet, Andriniaina Rakotondrasoa, Thierno Abdoulaye Diallo, Alexis Criscuolo, Sylvain Brisse,

Res. Microbiol. (Research in microbiology)
[2019, 170(6-7):300]

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Genome characteristics of Bordetella pertussis isolates from Tunisia.

Ikram Ben Fraj, Valérie Bouchez, Hanen Smaoui, Amel Kechrid, Sylvain Brisse,

The recent increase in pertussis cases observed in some countries may have several causes, including the evolution of Bordetella pertussis populations towards escape of vaccine-induced immunity. Most genomic studies of B. pertussis isolates performed so far are from countries that use acellular vaccines. The objective was to analyse genomic sequences ... Read more >>

J. Med. Microbiol. (Journal of medical microbiology)
[2019, 68(9):1320-1323]

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The speciation and hybridization history of the genus Salmonella.

Alexis Criscuolo, Sylvie Issenhuth-Jeanjean, Xavier Didelot, Kaisa Thorell, James Hale, Julian Parkhill, Nicholas R Thomson, François-Xavier Weill, Daniel Falush, Sylvain Brisse,

Bacteria and archaea make up most of natural diversity, but the mechanisms that underlie the origin and maintenance of prokaryotic species are poorly understood. We investigated the speciation history of the genus Salmonella, an ecologically diverse bacterial lineage, within which S. enterica subsp. enterica is responsible for important human food-borne ... Read more >>

Microb Genom (Microbial genomics)
[2019, 5(8):]

Cited: 1 time

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Author Correction: Hypervirulent Listeria monocytogenes clones' adaptation to mammalian gut accounts for their association with dairy products.

Mylène M Maury, Hélène Bracq-Dieye, Lei Huang, Guillaume Vales, Morgane Lavina, Pierre Thouvenot, Olivier Disson, Alexandre Leclercq, Sylvain Brisse, Marc Lecuit,

An amendment to this paper has been published and can be accessed via a link at the top of the paper. ... Read more >>

Nat Commun (Nature communications)
[2019, 10(1):3619]

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Description of Klebsiella spallanzanii sp. nov. and of Klebsiella pasteurii sp. nov

Cristina Merla, Carla Rodrigues, Virginie Passet, Marta Corbella, Harry Thorpe, Teemu V.S. Kallonen, Zhiyong Zong, Piero Marone, Claudio Bandi, Davide Sassera, Jukka Corander, Edward Feil, Sylvain Brisse,

Abstract Klebsiella oxytoca causes opportunistic human infections and post-antibiotic haemorrhagic diarrhoea. This Enterobacteriaceae species is genetically heterogeneous and is currently subdivided into seven phylogroups (Ko1 to Ko4, Ko6 to Ko8). Here we investigated the taxonomic status of phylogroups Ko3 and Ko4. Genomic sequence-based phylogenetic analyses demonstrate that Ko3 and Ko4 ... Read more >>

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An MLST approach to support tracking of plasmids carrying OXA-48-like carbapenemase.

Carina Brehony, Elaine McGrath, Wendy Brennan, Alma Tuohy, Thomas Whyte, Sylvain Brisse, Martin Maiden, Keith Jolley, Dearbháile Morris, Martin Cormican,

OBJECTIVES:The prevalence of infections caused by OXA-48-like carbapenemase-producing organisms in Ireland has increased dramatically since 2011 and is an urgent public health issue. Genome-based high-resolution genotyping was used to analyse clinical isolates submitted to the Irish Carbapenemase-Producing Enterobacteriaceae Reference Laboratory Service for a 13 month period (2016-17). METHODS:A total of 109 ... Read more >>

J. Antimicrob. Chemother. (The Journal of antimicrobial chemotherapy)
[2019, 74(7):1856-1862]

Cited: 1 time

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Detection of OXA-48-like-producing Enterobacterales in Irish recreational water.

Bláthnaid M Mahon, Carina Brehony, Niamh Cahill, Elaine McGrath, Louise O'Connor, Aine Varley, Martin Cormican, Sinead Ryan, Paul Hickey, Shane Keane, Martina Mulligan, Bryan Ruane, Keith A Jolley, Martin C Maiden, Sylvain Brisse, Dearbháile Morris,

The rapid dissemination of carbapenemase-producing Enterobacterales (CPE) is a major public health concern. The role that the aquatic environment plays in this dissemination is underexplored. This study aimed to examine seawater as a reservoir for CPE. Seawater sampling took place at a bathing site throughout the 2017 bathing season. Each ... Read more >>

Sci. Total Environ. (The Science of the total environment)
[2019, 690:1-6]

Cited: 2 times

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Hypervirulent Listeria monocytogenes clones' adaption to mammalian gut accounts for their association with dairy products.

Mylène M Maury, Hélène Bracq-Dieye, Lei Huang, Guillaume Vales, Morgane Lavina, Pierre Thouvenot, Olivier Disson, Alexandre Leclercq, Sylvain Brisse, Marc Lecuit,

Listeria monocytogenes (Lm) is a major human and animal foodborne pathogen. Here we show that hypervirulent Lm clones, particularly CC1, are strongly associated with dairy products, whereas hypovirulent clones, CC9 and CC121, are associated with meat products. Clone adaptation to distinct ecological niches and/or different food products contamination routes may ... Read more >>

Nat Commun (Nature communications)
[2019, 10(1):2488]

Cited: 10 times

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Comparative Analysis of the Two Acinetobacter baumannii Multilocus Sequence Typing (MLST) Schemes.

Stefano Gaiarsa, Gherard Batisti Biffignandi, Eliana Pia Esposito, Michele Castelli, Keith A Jolley, Sylvain Brisse, Davide Sassera, Raffaele Zarrilli,

Acinetobacter species assigned to the Acinetobacter calcoaceticus-baumannii (Acb) complex, are Gram-negative bacteria responsible for a large number of human infections. The population structure of Acb has been studied using two 7-gene MLST schemes, introduced by Bartual and coworkers (Oxford scheme) and by Diancourt and coworkers (Pasteur scheme). The schemes have ... Read more >>

Front Microbiol (Frontiers in microbiology)
[2019, 10:930]

Cited: 6 times

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