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7 results on '"MESH : Multilocus Sequence Typing"'

1. Clinical epidemiology and resistance mechanisms of carbapenem-resistant Acinetobacter baumannii, French Guiana, 2008-2014

Author

Magalie Demar, Pierre Couppié, Hatem Kallel, Mathieu Nacher, Christine Simonnet, Didier Hommel, Félix Djossou, Aba Mahamat, Xavier Bertrand, B. Moreau, Centre Hospitalier Régional Universitaire [Besançon] ( CHRU Besançon ), Laboratoire Chrono-environnement ( LCE ), Université Bourgogne Franche-Comté ( UBFC ) -Centre National de la Recherche Scientifique ( CNRS ) -Université de Franche-Comté ( UFC ), Institut de l’Élevage, Centre Hospitalier Andrée-Rosemond, Epidemiologie des Parasitoses Tropicales ( EPaT Team ), Université des Antilles et de la Guyane ( UAG ) -Institut National de la Santé et de la Recherche Médicale ( INSERM ), Centre Hospitalier Andrée Rosemon [Cayenne, Guyane Française], Département de Biologie, Unité de Biochimie des Lipides et des Protéines, Faculté des Sciences de Tunis, Ecosystemes Amazoniens et Pathologie Tropicale ( EPat ), Université de Guyane ( UG ) -Institut Pasteur de la Guyane, Réseau International des Instituts Pasteur ( RIIP ) -Réseau International des Instituts Pasteur ( RIIP ) -Institut National de la Santé et de la Recherche Médicale ( INSERM ), Laboratoire Hospitalo-Universitaire de Parasitologie-Mycologie, Coordination Régionale de la lutte contre le Virus de L'Immunodéficience Humaine (COREVIH)-Centre Hospitalier Andrée Rosemon [Cayenne, Guyane Française]-Université des Antilles ( UA ), Unité des Maladies Infectieuses et Tropicales [Cayenne, Guyanne Française], Centre d'investigation clinique Antilles-Guyane ( CIC - Antilles Guyane ), Institut National de la Santé et de la Recherche Médicale ( INSERM ) -CHU Pointe-à-Pitre/Abymes [Guadeloupe] -CHU de la Martinique-Centre Hospitalier Andrée Rosemon [Cayenne, Guyane Française], Coordination Régionale de la lutte contre le Virus de L'Immunodéficience Humaine ( COREVIH Guyane ), Centre Hospitalier Régional Universitaire de Besançon (CHRU Besançon), Laboratoire Chrono-environnement - CNRS - UBFC (UMR 6249) (LCE), Centre National de la Recherche Scientifique (CNRS)-Université de Franche-Comté (UFC), Université Bourgogne Franche-Comté [COMUE] (UBFC)-Université Bourgogne Franche-Comté [COMUE] (UBFC), Ecosystemes Amazoniens et Pathologie Tropicale (EPat), Institut National de la Santé et de la Recherche Médicale (INSERM)-Université de Guyane (UG), Faculté des Sciences Mathématiques, Physiques et Naturelles de Tunis (FST), Université de Tunis El Manar (UTM)-Université de Tunis El Manar (UTM), Coordination Régionale de la lutte contre le Virus de L'Immunodéficience Humaine (COREVIH)-Centre Hospitalier Andrée Rosemon [Cayenne, Guyane Française]-Université des Antilles (UA), Centre d'investigation clinique Antilles-Guyane (CIC - Antilles Guyane), Institut National de la Santé et de la Recherche Médicale (INSERM)-CHU de la Martinique [Fort de France]-CHU Pointe-à-Pitre/Abymes [Guadeloupe] -Centre Hospitalier Andrée Rosemon [Cayenne, Guyane Française], and Coordination Régionale de la lutte contre le Virus de L'Immunodéficience Humaine (COREVIH Guyane)

Subjects
0301 basic medicine, Male, Acinetobacter baumannii, Imipenem, MESH : Retrospective Studies, Epidemiology, MESH : Multilocus Sequence Typing, MESH: beta-Lactamases, MESH : Carbapenems, Disease Outbreaks, MESH: Carbapenems, Disk Diffusion Antimicrobial Tests, [ SDV.MP ] Life Sciences [q-bio]/Microbiology and Parasitology, polycyclic compounds, MESH : Bacterial Proteins, Pharmacology (medical), MESH : Female, MESH: Disease Outbreaks, MESH: Bacterial Proteins, Cross Infection, Molecular Epidemiology, MESH: Middle Aged, biology, MESH : beta-Lactamases, General Medicine, Middle Aged, MESH : Adult, MESH: Hospitals, Hospitals, 3. Good health, Electrophoresis, Gel, Pulsed-Field, French Guiana, MESH : Hospitals, Infectious Diseases, MESH: Multilocus Sequence Typing, MESH: Electrophoresis, Gel, Pulsed-Field, [SDV.MP]Life Sciences [q-bio]/Microbiology and Parasitology, Amikacin, MESH: Young Adult, MESH: Disk Diffusion Antimicrobial Tests, Female, MESH: Acinetobacter Infections, MESH : Cross Infection, medicine.drug, Acinetobacter Infections, Microbiology (medical), Adult, MESH : French Guiana, MESH : Male, 030106 microbiology, MESH : Molecular Epidemiology, MESH : Young Adult, Tazobactam, beta-Lactam Resistance, beta-Lactamases, Microbiology, Carbapenem-resistant, 03 medical and health sciences, Young Adult, Bacterial Proteins, MESH : beta-Lactam Resistance, MESH: French Guiana, medicine, Humans, MESH: Molecular Epidemiology, MESH : Acinetobacter Infections, Intensive care unit, MESH : Middle Aged, MESH : Disease Outbreaks, MESH : Disk Diffusion Antimicrobial Tests, MESH : Acinetobacter baumannii, Retrospective Studies, MESH : Electrophoresis, Gel, Pulsed-Field, MESH: Humans, Molecular epidemiology, business.industry, MESH: Acinetobacter baumannii, MESH : Humans, Outbreak, MESH: Cross Infection, MESH: Retrospective Studies, MESH: Adult, biochemical phenomena, metabolism, and nutrition, biology.organism_classification, bacterial infections and mycoses, MESH: Male, MESH: beta-Lactam Resistance, Carbapenems, Colistin, Nosocomial, business, MESH: Female, Piperacillin, Multilocus Sequence Typing
Abstract

International audience; This study investigated the clinical epidemiology and resistance mechanisms of Acinetobacter baumannii and characterised the clonal diversity of carbapenem-resistant A. baumannii (CRAB) during an ICU-associated outbreak at Cayenne Hospital, French Guiana. All non-duplicate A. baumannii isolates from 2008 to 2014 were tested for antibiotic susceptibility by disk diffusion. Multilocus sequence typing, pulsed-field gel electrophoresis (PFGE) and characterisation of carbapenemase-encoding genes were performed on CRAB. Of the 441 A. baumannii isolates, most were from males (54.0%) and were detected mainly from the ICU (30.8%) and medicine wards (21.8%). In the ICU, strains were mainly isolated from the respiratory tract (44.1%) and bloodstream (14.0%), whereas in medicine wards they mainly were from wound/drainage (36.5%) and bloodstream (25.0%). A. baumannii showed the greatest susceptibility to piperacillin/tazobactam (92.7%), imipenem (92.5%), colistin (95.6%) and amikacin (97.2%), being lower in the ICU and medicine wards compared with other wards. An outbreak of OXA-23-producing CRAB occurred in the 13-bed ICU in 2010. CRAB strains were more co-resistant to other antimicrobials compared with non-CRAB. Molecular genetics analysis revealed five sequence types [ST78, ST107 and ST642 and two new STs (ST830 and ST831)]. Analysis of PFGE profiles indicated cross-transmissions of CRAB within the ICU, between the ICU and one medicine ward during transfer of patients, and within that medicine ward. This study provides the first clinical and molecular data of A. baumannii from French Guiana and the Amazon basin. The ICU was the highest risk unit of this nosocomial outbreak of OXA-23-producing CRAB, which could subsequently disseminate within the hospital.

Published
2016

2. Trends of extended-spectrum β-lactamase-producing Escherichia coli sequence type 131 and its H30 subclone in a French hospital over a 15-year period

Author

Michelle Thouverez, Xavier Bertrand, Andréa Vannier, Marie-Hélène Nicolas-Chanoine, Marlène Sauget, Didier Hocquet, Pascal Cholley, Centre Hospitalier Régional Universitaire de Besançon (CHRU Besançon), Laboratoire Chrono-environnement - CNRS - UBFC (UMR 6249) (LCE), Centre National de la Recherche Scientifique (CNRS)-Université de Franche-Comté (UFC), Université Bourgogne Franche-Comté [COMUE] (UBFC)-Université Bourgogne Franche-Comté [COMUE] (UBFC), Centre de recherche sur l'Inflammation (CRI (UMR_S_1149 / ERL_8252 / U1149)), Université Paris Diderot - Paris 7 (UPD7)-Institut National de la Santé et de la Recherche Médicale (INSERM)-Centre National de la Recherche Scientifique (CNRS), Laboratoire Chrono-environnement - CNRS - UFC (UMR 6249) (LCE), Hôpital Beaujon, Assistance publique - Hôpitaux de Paris (AP-HP) (AP-HP)-Université Paris Diderot - Paris 7 (UPD7)-Hôpital Beaujon [AP-HP], Assistance publique - Hôpitaux de Paris (AP-HP) (AP-HP), Centre Hospitalier Régional Universitaire [Besançon] ( CHRU Besançon ), Laboratoire Chrono-environnement ( LCE ), Université Bourgogne Franche-Comté ( UBFC ) -Centre National de la Recherche Scientifique ( CNRS ) -Université de Franche-Comté ( UFC ), Centre de recherche sur l'inflamation - UMR 1149, Université Paris Diderot - Paris 7 ( UPD7 ) -Institut National de la Santé et de la Recherche Médicale ( INSERM ), Centre Hospitalier Régional Universitaire [Besançon] (CHRU Besançon), Laboratoire Chrono-environnement - UFC (UMR 6249) (LCE), Université Bourgogne Franche-Comté [COMUE] (UBFC)-Centre National de la Recherche Scientifique (CNRS)-Université de Franche-Comté (UFC), and Institut National de la Santé et de la Recherche Médicale (INSERM)-Centre National de la Recherche Scientifique (CNRS)-Université Paris Diderot - Paris 7 (UPD7)

Subjects
0301 basic medicine, MESH : Escherichia coli, MESH : Retrospective Studies, MESH : Multilocus Sequence Typing, MESH: beta-Lactamases, MESH : Genotype, Multidrug resistance, medicine.disease_cause, Hospitals, University, MESH: Genotype, [ SDV.MP ] Life Sciences [q-bio]/Microbiology and Parasitology, Pharmacology (medical), MESH: Incidence, MESH: Genetic Variation, Escherichia coli Infections, ComputingMilieux_MISCELLANEOUS, Cross Infection, Molecular Epidemiology, Extraintestinal Pathogenic Escherichia coli, MESH: Escherichia coli, Incidence, Incidence (epidemiology), MESH : beta-Lactamases, General Medicine, PFGE, MESH : Incidence, Electrophoresis, Gel, Pulsed-Field, 3. Good health, Infectious Diseases, MESH: Electrophoresis, Gel, Pulsed-Field, MESH: Multilocus Sequence Typing, [SDV.MP]Life Sciences [q-bio]/Microbiology and Parasitology, MESH : Escherichia coli Infections, [SDE]Environmental Sciences, France, MESH : Cross Infection, Microbiology (medical), clone (Java method), Lineage (genetic), Genotype, MESH : Molecular Epidemiology, 030106 microbiology, Biology, beta-Lactamases, Microbiology, 03 medical and health sciences, Extended-spectrum β-lactamase, MESH : Genetic Variation, Escherichia coli, Pulsed-field gel electrophoresis, medicine, Humans, MESH: Molecular Epidemiology, Typing, MESH : France, MESH : Hospitals, University, Retrospective Studies, MESH : Electrophoresis, Gel, Pulsed-Field, MESH: Escherichia coli Infections, MESH: Hospitals, University, MESH: Humans, MESH : Humans, Genetic Variation, MESH: Cross Infection, MESH: Retrospective Studies, bacterial infections and mycoses, Multiple drug resistance, MESH: France, ESBL, Multilocus Sequence Typing
Abstract

International audience; Sequence type 131 (ST131) is a predominant lineage among extraintestinal pathogenic Escherichia coli. It plays a major role in the worldwide dissemination of E. coli producing extended-spectrum β-lactamases (ESBLs). Here we describe the long-term epidemiology of this clonal group in a French university hospital, where the incidence of ESBL-producing E. coli has increased from 0.018 case per 1000 patient-days in the year 2000 to 0.50 case per 1000 patient-days in 2014. The first of the 141 ST131 isolates was recovered in 2006, and the ST131 clonal group accounted for 18.1% of total ESBL-producing E. coli over the whole period (2000-2014). Subclonal typing showed that 75.9% (107/141) of ST131 isolates were H30, of which 81.3% (87/107) were H30-Rx. The large majority (137/141) of ESBLs produced were of the CTX-M group, with 94 CTX-M-15, 19 CTX-M-1, 10 CTX-M-27, 8 CTX-M-14 and four other CTX-M types (n = 6). Pulsed-field gel electrophoresis (PFGE) analysis showed high diversity, which increased during the course of the study. The 141 ST131 isolates clustered in 53 pulsotypes (PTs), with 2 dominant PTs (PT14 and PT13) with 36 and 17 isolates, respectively. These findings showed that ST131 was a predominant clone among ESBL-producing E. coli in our hospital, even though it only accounted for

Published
2016

3. Detection of Escherichia coli sequence type 131 by matrix-assisted laser desorption ionization time-of-flight mass spectrometry: implications for infection control policies?

Author

Nadège Cabrolier, Didier Hocquet, Jeremy Lafolie, Marlène Sauget, Xavier Bertrand, Centre Hospitalier Régional Universitaire de Besançon (CHRU Besançon), Laboratoire Chrono-environnement - CNRS - UBFC (UMR 6249) (LCE), Centre National de la Recherche Scientifique (CNRS)-Université de Franche-Comté (UFC), Université Bourgogne Franche-Comté [COMUE] (UBFC)-Université Bourgogne Franche-Comté [COMUE] (UBFC), Centre Hospitalier Régional Universitaire [Besançon] ( CHRU Besançon ), Laboratoire Chrono-environnement ( LCE ), and Université Bourgogne Franche-Comté ( UBFC ) -Centre National de la Recherche Scientifique ( CNRS ) -Université de Franche-Comté ( UFC )

Subjects
MESH : Escherichia coli, MESH : Multilocus Sequence Typing, MESH: beta-Lactamases, medicine.disease_cause, MESH: Infection Control, [ SDV.MP ] Life Sciences [q-bio]/Microbiology and Parasitology, Drug Resistance, Multiple, Bacterial, Infection control, MESH : Biomarkers, MESH : Algorithms, Escherichia coli Infections, Extraintestinal Pathogenic Escherichia coli, MESH: Escherichia coli, MESH : beta-Lactamases, General Medicine, 3. Good health, Infectious Diseases, MESH: Multilocus Sequence Typing, [SDV.MP]Life Sciences [q-bio]/Microbiology and Parasitology, MESH : Escherichia coli Infections, MESH : Sensitivity and Specificity, Algorithms, Microbiology (medical), MESH : Drug Resistance, Multiple, Bacterial, Matrix assisted laser desorption ionization time of flight, MESH: Algorithms, Biology, Mass spectrometry, Sensitivity and Specificity, beta-Lactamases, Microbiology, medicine, Escherichia coli, Humans, In patient, Sequence (medicine), MESH: Escherichia coli Infections, Infection Control, MESH: Humans, MESH : Infection Control, MESH : Humans, MESH: Drug Resistance, Multiple, Bacterial, MESH: Sensitivity and Specificity, MESH : Spectrometry, Mass, Matrix-Assisted Laser Desorption-Ionization, MESH: Spectrometry, Mass, Matrix-Assisted Laser Desorption-Ionization, Spectrometry, Mass, Matrix-Assisted Laser Desorption-Ionization, Mass spectrum, MESH: Biomarkers, Biomarkers, Multilocus Sequence Typing
Abstract

Summary Background Sequence type 131 (ST131) is a predominant lineage among extraintestinal pathogenic Escherichia coli. It plays a major role in the worldwide dissemination of extended-spectrum β-lactamase (ESBL)-producing E. coli . The ST131 pandemic is mainly the result of clonal expansion of the single well-adapted subclone H 30-Rx, which is acquired in hospitals more frequently than other ESBL-producing E. coli clones. Aim To develop a rapid method using matrix-assisted laser desorption ionization time-of-flight mass spectrometry (MALDI-TOF MS) to identify ST131 for infection control purposes. Methods Peak biomarkers of ST131 were identified from the mass spectrum profiles of 109 E. coli isolates (including 50 ST131 isolates). Findings The models accurately identified ST131 isolates from mass spectrum profiles obtained with and without protein extraction. Conclusions The rapid identification of ST131 isolates with MALDI-TOF MS can be easily implemented in the laboratory, and could help to target infection control measures in patients carrying multi-drug-resistant E. coli that are more likely to spread.

Published
2015

4. An Atypical Outbreak of Food-Borne Botulism Due to Clostridium botulinum Types B and E from Ham

Author

Christelle Mazuet, Christiane Bouchier, Jean Sautereau, Christine Legeay, Philippe Bouvet, Michel R. Popoff, Bactéries anaérobies et Toxines, Institut Pasteur [Paris], Génomique (Plate-Forme), High-throughput sequencing has been performed on the Genomics Platform, a member of the France Génomique Consortium (ANR10-INBS-09-08)., We thank Benoit Jaulhac, Laboratoire de Bactériologie, Hôpitaux Universitaires, Strasbourg, France, for his assistance., ANR-10-INBS-09-01/10-INBS-0009,France-Génomique,Organisation et montée en puissance d'une Infrastructure Nationale de Génomique ( 2010 ), Génomique (Plate-Forme) - Genomics Platform, ANR-10-INBS-0009,France-Génomique,Organisation et montée en puissance d'une Infrastructure Nationale de Génomique(2010), and Institut Pasteur [Paris] (IP)

Subjects
Male, MESH: Sequence Analysis, DNA, MESH : Molecular Sequence Data, MESH : Multilocus Sequence Typing, Sequence Homology, MESH : Genotype, Case Reports, medicine.disease_cause, MESH: Genome, Bacterial, Disease Outbreaks, MESH: Genotype, Cluster Analysis, MESH : DNA, Bacterial, Botulism, MESH : Female, MESH: Sequence Homology, MESH: Clostridium botulinum type A, MESH: Disease Outbreaks, MESH: Phylogeny, MESH: Clostridium botulinum type F, Phylogeny, 0303 health sciences, MESH: Middle Aged, Middle Aged, [ SDV.TOX.TCA ] Life Sciences [q-bio]/Toxicology/Toxicology and food chain, MESH: Multilocus Sequence Typing, MESH : Botulism, Female, Microbiology (medical), Clostridium botulinum type F, DNA, Bacterial, Clostridium botulinum type E, Genotype, Clostridium botulinum type A, MESH : Male, Molecular Sequence Data, MESH : Genome, Bacterial, MESH: Botulism, [SDV.TOX.TCA]Life Sciences [q-bio]/Toxicology/Toxicology and food chain, Biology, Microbiology, 03 medical and health sciences, MESH : Sequence Homology, medicine, Food microbiology, Humans, MESH : Cluster Analysis, MESH : Middle Aged, MESH : Disease Outbreaks, MESH: Food Microbiology, 030304 developmental biology, [SDV.GEN]Life Sciences [q-bio]/Genetics, MESH: Humans, MESH: Molecular Sequence Data, 030306 microbiology, MESH : Humans, Outbreak, MESH : Phylogeny, Sequence Analysis, DNA, MESH : Food Microbiology, medicine.disease, Virology, MESH: Cluster Analysis, MESH: DNA, Bacterial, MESH: Male, MESH : Clostridium botulinum type F, Food Microbiology, Multilocus sequence typing, Clostridium botulinum, [ SDV.GEN ] Life Sciences [q-bio]/Genetics, MESH: Female, Genome, Bacterial, MESH : Clostridium botulinum type A, Multilocus Sequence Typing, MESH : Sequence Analysis, DNA
Abstract

An outbreak of human botulism was due to consumption of ham containing botulinum neurotoxins B and E. A Clostridium botulinum type E strain isolated from ham was assigned to a new subtype (E12) based on bont / E gene sequencing and belongs to a new multilocus sequence subtype, as analyzed by whole-genome sequencing.

Published
2015

5. A multi-locus inference of the evolutionary diversification of extant flamingos (Phoenicopteridae)

Author

Brittney Ferrari, Marcel van Tuinen, Lisa M. Ogawa, Christopher R. Torres, Mark A. F. Gillingham, Department of Biology and Marine Biology, University of North Carolina Wilmington, Biogéosciences [Dijon] ( BGS ), AgroSup Dijon - Institut National Supérieur des Sciences Agronomiques, de l'Alimentation et de l'Environnement-Université de Bourgogne ( UB ) -Centre National de la Recherche Scientifique ( CNRS ), Centre de recherche de la Tour du Valat, Department of Evolutionary Genetics, Leibniz Institute for Zoo and Wildlife Research, and Financial support from the College of Arts and Sciences and Department of Biology and Marine Biology at UNCW, the Conseil Régional de Bourgogne, and the Total Foundation.

Subjects
Bill, Biogeography, Population, MESH : Multilocus Sequence Typing, Zoology, Metapopulation, Mirandornithes, Birds, Evolution, Molecular, MESH : Bayes Theorem, Phylogenetics, MESH : Genetic Variation, MESH : Biological Evolution, MESH : Phylogeography, Animals, MESH : Evolution, Molecular, MESH : Birds, education, Divergence time, Ecology, Evolution, Behavior and Systematics, Phylogeny, Cell Nucleus, education.field_of_study, MESH : Cell Nucleus, biology, Phylogenetic tree, Fossils, Genetic Variation, Bayes Theorem, Fossil, biology.organism_classification, Biological Evolution, Phoenicoparrus, Phoenicopteridae, Phylogeography, Flamingo, Evolutionary biology, Filter feeding, MESH : Fossils, MESH : Animals, [ SDV.BID.SPT ] Life Sciences [q-bio]/Biodiversity/Systematics, Phylogenetics and taxonomy, Multilocus Sequence Typing, Research Article
Abstract

9 pages; International audience; BACKGROUND: Modern flamingos (Phoenicopteridae) occupy a highly specialized ecology unique among birds and represent a potentially powerful model system for informing the mechanisms by which a lineage of birds adapts and radiates. However, despite a rich fossil record and well-studied feeding morphology, molecular investigations of the evolutionary progression among modern flamingos have been limited. Here, using three mitochondrial (mtDNA) markers, we present the first DNA sequence-based study of population genetic variation in the widely distributed Chilean Flamingo and, using two mtDNA and 10 nuclear (nDNA) markers, recover the species tree and divergence time estimates for the six extant species of flamingos. Phylogenetic analyses include likelihood and Bayesian frameworks and account for potential gene tree discordance. Analyses of divergence times are fossil calibrated at the divergence of Mirandornithes (flamingos + grebes) and the divergence of crown grebes. RESULTS: mtDNA sequences confirmed the presence of a single metapopulation represented by two minimally varying mtDNA barcodes in Chilean flamingos. Likelihood and Bayesian methods recovered identical phylogenies with flamingos falling into shallow-keeled (comprising the Greater, American and Chilean Flamingos) and deep-keeled (comprising the Lesser, Andean and James's Flamingos) sub-clades. The initial divergence among flamingos occurred at or shortly after the Mio-Pliocene boundary (6-3 Ma) followed by quick consecutive divergences throughout the Plio-Pleistocene. There is significant incongruence between the ages recovered by the mtDNA and nDNA datasets, likely due to mutational saturation occurring in the mtDNA loci. CONCLUSION: The finding of a single metapopulation in the widespread Chilean Flamingo confirms similar findings in other widespread flamingo species. The robust species phylogeny is congruent with previous classifications of flamingos based on feeding morphology. Modern phoenicopterids likely originated in the New World with each sub-clade dispersing across the Atlantic at least once. Our divergence time estimates place flamingos among the youngest families of birds, counter to the classical notion of flamingos as among the oldest based on biogeography and the fossil record. Finally, we designate 'Phoeniconaias' as a junior synonym of 'Phoenicoparrus' and redefine the latter genus as containing all flamingos more closely related to Phoenicoparrus andinus than Phoenicopterus roseus.

Published
2014

6. Candida albicans is not always the preferential yeast colonizing humans: a study in Wayampi Amerindians

Author

Mouna Ben Soltana, Laure Diancourt, Antoine Andremont, Paul-Louis Woerther, Sophie Abélanet, Félix Djossou, Emmanuelle Permal, Cécile Angebault, Christiane Bouchier, Christophe d'Enfert, François Catzeflis, Marie-Elisabeth Bougnoux, CHU Necker - Enfants Malades [AP-HP], Université Paris Descartes - Paris 5 (UPD5), Laboratoire de bactériologie, Assistance publique - Hôpitaux de Paris (AP-HP) (APHP)-AP-HP - Hôpital Bichat - Claude Bernard [Paris]-Université Paris Diderot - Paris 7 (UPD7), Biologie et Pathogénicité fongiques, Institut National de la Recherche Agronomique (INRA)-Institut Pasteur [Paris], Unité des Maladies Infectieuses et Tropicales [Cayenne, Guyanne Française], Centre Hospitalier Andrée Rosemon [Cayenne, Guyane Française], Génotypage des Pathogènes et Santé Publique (Plate-forme) (PF8), Institut Pasteur [Paris], Génomique (Plate-Forme), Institut des Sciences de l'Evolution de Montpellier (UMR ISEM), Centre de Coopération Internationale en Recherche Agronomique pour le Développement (Cirad)-École pratique des hautes études (EPHE)-Université de Montpellier (UM)-Institut de recherche pour le développement [IRD] : UR226-Centre National de la Recherche Scientifique (CNRS), The ERAES project was supported in part by the Agence Française de Sécurité Sanitaire de l’Environnement et du Travail(contracts ES-05-01 and EST-09-21), the Agence Nationale pour la Recherche (contract 05-9-114), the Institut National de la Santé et de la Recherche Médicale (INSERM, contracts C06-18 and C10-19), the Centre National de Référence' Résistance bactérienne dans les flores commensales, 'the Fondation pour la Recherche Médicale (grants FDM20090615761 andFDM20100619023 to C. A.), and the French government ’ s Investissement d'Avenir program, Laboratoire d’Excellence'Integrative Biology of Emerging Infectious Diseases' (grant ANR-10-LABX-62-IBEID), ANR: the Agence Nationale pour la Recher- che (contract 05-9-114),the Agence Nationale pour la Recher- che (contract 05-9-114),05-9-114 the Agence Nationale pour la Recher- che (contract 05-9-114), ANR-10-LABX-62-IBEID,IBEID,Laboratoire d'Excellence 'Integrative Biology of Emerging Infectious Diseases'(2010), Assistance publique - Hôpitaux de Paris (AP-HP) - AP-HP - Hôpital Bichat - Claude Bernard [Paris] - Université Paris Diderot - Paris 7 (UPD7), Institut National de la Recherche Agronomique (INRA) - Institut Pasteur [Paris], Institut des Sciences de l'Evolution de Montpellier (ISEM), Université de Montpellier (UM) - Institut de recherche pour le développement [IRD] : UR226 - Centre National de la Recherche Scientifique (CNRS), ANR : the Agence Nationale pour la Recher- che (contract 05-9-114), the Agence Nationale pour la Recher- che (contract 05-9-114), 05-9-114 the Agence Nationale pour la Recher- che (contract 05-9-114), ANR-10-LABX-62-IBEID, IBEID, Laboratoire d'Excellence 'Integrative Biology of Emerging Infectious Diseases'(2010), Assistance publique - Hôpitaux de Paris (AP-HP) (AP-HP), Assistance publique - Hôpitaux de Paris (AP-HP) (AP-HP)-AP-HP - Hôpital Bichat - Claude Bernard [Paris], Assistance publique - Hôpitaux de Paris (AP-HP) (AP-HP)-Université Paris Diderot - Paris 7 (UPD7), Institut Pasteur [Paris]-Institut National de la Recherche Agronomique (INRA), Génomique (Plate-Forme) - Genomics Platform, Centre de Coopération Internationale en Recherche Agronomique pour le Développement (Cirad)-École pratique des hautes études (EPHE), Université Paris sciences et lettres (PSL)-Université Paris sciences et lettres (PSL)-Université de Montpellier (UM)-Institut de recherche pour le développement [IRD] : UR226-Centre National de la Recherche Scientifique (CNRS), 05-9-114 the Agence Nationale pour la Recher- che (contract 05-9-114) the Agence Nationale pour la Recher- che (contract 05-9-114), ANR-10-LABX-0062,IBEID,Integrative Biology of Emerging Infectious Diseases(2010), Biologie et Pathogénicité fongiques (BPF), Institut National de la Recherche Agronomique (INRA)-Institut Pasteur [Paris] (IP), Institut Pasteur [Paris] (IP), and Centre de Coopération Internationale en Recherche Agronomique pour le Développement (Cirad)-École Pratique des Hautes Études (EPHE)

Subjects
Male, MESH : Prevalence, MESH : Multilocus Sequence Typing, MESH : Aged, MESH : Candidiasis, MESH: Aged, 80 and over, Prevalence, Immunology and Allergy, Colonization, MESH : Female, MESH: Animals, Candida albicans, MESH: Phylogeny, Phylogeny, MESH: Evolution, Molecular, [SDV.MP.MYC]Life Sciences [q-bio]/Microbiology and Parasitology/Mycology, Aged, 80 and over, 2. Zero hunger, MESH : Intestines, MESH: Aged, 0303 health sciences, MESH: Middle Aged, biology, MESH: Yeasts, Candidiasis, intestinal colonization, Middle Aged, MESH : Adult, Corpus albicans, MESH: Candidiasis, French Guiana, Intestines, Infectious Diseases, MESH : Carrier State, MESH: Multilocus Sequence Typing, whole-genome sequencing, MESH: Young Adult, Carrier State, MESH: Genome, Fungal, Female, Genome, Fungal, MESH: Carrier State, MLST, MESH: Intestines, Adult, MESH : French Guiana, Adolescent, Human intestine, MESH : Candida albicans, MESH : Male, Saccharomyces cerevisiae, MESH : Young Adult, yeasts, Microbiology, Evolution, Molecular, Young Adult, 03 medical and health sciences, MESH: Mycoses, Candida krusei, MESH : Adolescent, MESH: French Guiana, Animals, Humans, MESH : Middle Aged, MESH : Evolution, Molecular, MESH : Aged, 80 and over, MESH: Prevalence, Aged, 030304 developmental biology, MESH : Mycoses, MESH: Adolescent, MESH : Yeasts, MESH: Humans, 030306 microbiology, amerindians, MESH : Genome, Fungal, MESH: Candida albicans, MESH : Humans, MESH : Phylogeny, MESH: Adult, biology.organism_classification, [SDV.MP.MYC] Life Sciences [q-bio]/Microbiology and Parasitology/Mycology, Yeast, MESH: Male, Carriage, Mycoses, candida albicans, MESH : Animals, MESH: Female, Multilocus Sequence Typing
Abstract

Chantier qualité GA; International audience; In industrialized countries Candida albicans is considered the predominant commensal yeast of the human intestine, with approximately 40% prevalence in healthy adults. We discovered a highly original colonization pattern that challenges this current perception by studying in a 4- year interval a cohort of 151 Amerindians living in a remote community (French Guiana), and animals from their environment. The prevalence of C. albicans was persistently low (3% and 7% of yeast carriers). By contrast, Candida krusei and Saccharomyces cerevisiae were detected in over 30% of carriers. We showed that C. krusei and S. cerevisiae carriage was of food or environmental origin, whereas C. albicans carriage was associated with specific risk factors (being female and living in a crowded household). We also showed using whole-genome sequence comparison that C. albicans strains can persist in the intestinal tract of a healthy individual over a 4-year period.

Published
2013

7. Capsular Switching in Group B Streptococcus CC17 Hypervirulent Clone: A Future Challenge for Polysaccharide Vaccine Development

Author

Agnès Fouet, Claire Poyart, Anne Six, Samuel Bellais, Philippe Glaser, Magalie Longo, Patrick Trieu-Cuot, Nicolas Dmytruk, Institut Cochin (IC UM3 (UMR 8104 / U1016)), Université Paris Descartes - Paris 5 (UPD5)-Institut National de la Santé et de la Recherche Médicale (INSERM)-Centre National de la Recherche Scientifique (CNRS), Centre national de Référence des Streptocoques (CNR), Assistance publique - Hôpitaux de Paris (AP-HP) (AP-HP), Biologie des Bactéries pathogènes à Gram-positif, Institut Pasteur [Paris]-Centre National de la Recherche Scientifique (CNRS), Service de Bactériologie, Assistance publique - Hôpitaux de Paris (AP-HP) (AP-HP)-Hôpital Cochin [AP-HP], This work was supported by the Fondation pour la Recherche Médicale (grant number DEQ20100318279), ANR (grant number ANR-08-GENM-027–001), INSERM, CNRS, Université Paris Descartes, the Institut Pasteur, and Institut de Veille Sanitaire. S. B. was a recipient of a postdoctoral fellowship from ANR (grant number ANR-08-MIEN-015), the Fondation pour la Recherche Médicale. A. S. was a recipient of a doctoral fellowship from the Ministère de la Recherche et de l'Enseignement supérieur., ANR-08-MIEN-0015,HYPERVIRGBS,Rôle de la protéine Gbs2018C dans l'hypervirulence du clone ST-17 du Streptocoque du groupe B(2008), ANR-08-GENM-0027,Genopop-GBS,Génomique des populations de Streptococcus agalactiae, la diversification des génomes et l'adaptation à l'hôte(2008), Assistance publique - Hôpitaux de Paris (AP-HP) (APHP), Assistance publique - Hôpitaux de Paris (AP-HP) (APHP)-CHU Cochin [AP-HP], Institut Pasteur [Paris] (IP)-Centre National de la Recherche Scientifique (CNRS), Institut Cochin ( UM3 (UMR 8104 / U1016) ), Université Paris Descartes - Paris 5 ( UPD5 ) -Institut National de la Santé et de la Recherche Médicale ( INSERM ) -Centre National de la Recherche Scientifique ( CNRS ), Assistance publique - Hôpitaux de Paris (AP-HP), Institut Pasteur [Paris]-Centre National de la Recherche Scientifique ( CNRS ), Assistance publique - Hôpitaux de Paris (AP-HP)-CHU Cochin [AP-HP], ANR-08-MIEN-0015,HYPERVIRGBS,Rôle de la protéine Gbs2018C dans l'hypervirulence du clone ST-17 du Streptocoque du groupe B ( 2008 ), and ANR-08-GENM-0027,Genopop-GBS,Génomique des populations de Streptococcus agalactiae, la diversification des génomes et l'adaptation à l'hôte ( 2008 )

Subjects
MESH : France/epidemiology, MESH : Multilocus Sequence Typing, [ SDV.MP.BAC ] Life Sciences [q-bio]/Microbiology and Parasitology/Bacteriology, medicine.disease_cause, MESH: Genome, Bacterial, MESH: Streptococcal Infections/microbiology, Immunology and Allergy, Pathogen, MESH : Gene Expression Regulation, Bacterial/physiology, MESH: Gene Expression Regulation, Bacterial/physiology, 0303 health sciences, education.field_of_study, MESH: France/epidemiology, Streptococcus, Polysaccharides, Bacterial, MESH : Infant, MESH : Adult, MESH : Bacterial Capsules/genetics, MESH: Infant, 3. Good health, Infectious Diseases, MESH: Multilocus Sequence Typing, MESH : Streptococcus agalactiae/pathogenicity, France, MESH : Streptococcal Infections/microbiology, Adult, MESH : Genome, Bacterial, Population, Biology, Polysaccharide Vaccine, MESH: Polysaccharides, Bacterial/immunology, MESH : Streptococcal Infections/prevention & control, Streptococcus agalactiae, Microbiology, MESH: Bacterial Capsules/metabolism, 03 medical and health sciences, MESH: Streptococcal Infections/prevention & control, MESH : Streptococcus agalactiae/immunology, MESH : Streptococcal Infections/epidemiology, MESH : Bacterial Capsules/metabolism, Streptococcal Infections, medicine, Pulsed-field gel electrophoresis, Humans, MESH: Streptococcus agalactiae/immunology, Typing, Serotyping, education, Bacterial Capsules, 030304 developmental biology, 030306 microbiology, Infant, MESH: Serotyping, MESH: Adult, Gene Expression Regulation, Bacterial, bacterial infections and mycoses, Virology, [SDV.MP.BAC]Life Sciences [q-bio]/Microbiology and Parasitology/Bacteriology, MESH: Streptococcus agalactiae/pathogenicity, Multilocus sequence typing, bacteria, MESH : Polysaccharides, Bacterial/immunology, MESH: Streptococcal Infections/epidemiology, MESH : Serotyping, Genome, Bacterial, MESH: Bacterial Capsules/genetics, Multilocus Sequence Typing
Abstract

Background. The capsular polysaccharide (CPS) is an important virulence factor and a vaccine target of the major neonatal pathogen group B Streptococcus (GBS). Population studies revealed no strong correlation between CPS type and multilocus sequence typing (MLST) cluster, with the remarkable exception of the worldwide spread of hypervirulent GBS CC17, which were all until recently CPS type III. Methods. A total of 965 GBS strains from invasive infection isolated in France were CPS typed and the presence of the CC17-specific surface protein encoding gene hvgA gene was investigated. Three hvgA-positive GBS strains screened were surprisingly CPS type IV and thus further characterized by MLST typing, pulsed-field gel electrophoresis (PFGE), and whole genome sequencing. Results. MLST and PFGE demonstrated a capsular switching from CPS type III to IV within the highly homogeneous GBS CC17. Sequence analysis revealed that this capsular switch was due to the exchange of a 35.5-kb DNA fragment containing the entire cps operon. Conclusions. This work shows that GBS CC17 hypervirulent strains have switched one of their main vaccine targets. Thus, continued surveillance of GBS population remains of the utmost importance during clinical trials of conjugate GBS vaccines. Streptococcus agalactiae or group B Streptococcus (GBS) is a gram-positive encapsulated commensal bacterium of the human intestine that is also present in the vagina of 15%–30% of healthy women. In neonates, it may turn into a deadly pathogen and is the

Published
2012

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