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15 results on '"Ruppé, Etienne"'

5. Two original observations concerning bacterial infections in COVID-19 patients hospitalized in intensive care units during the first wave of the epidemic in France

Author

d’Humières, Camille, primary, Patrier, Juliette, additional, Lortat-Jacob, Brice, additional, Tran-dinh, Alexy, additional, Chemali, Lotfi, additional, Maataoui, Naouale, additional, Rondinaud, Emilie, additional, Ruppé, Etienne, additional, Burdet, Charles, additional, Ruckly, Stéphane, additional, Montravers, Philippe, additional, Timsit, Jean-François, additional, and Armand-Lefevre, Laurence, additional

Published
2021
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8. Clinical metagenomics bioinformatics pipeline for the identification of hospital-acquired pneumonia pathogens antibiotic resistance genes from bronchoalveolar lavage samples

Author

Tournoud, Maud, primary, Ruppé, Etienne, additional, Perrin, Guillaume, additional, Schicklin, Stéphane, additional, Guigon, Ghislaine, additional, Mahé, Pierre, additional, Lazarevic, Vladimir, additional, Hauser, Sébastien, additional, Mirande, Caroline, additional, Levrat, Albrice, additional, Louis, Karen, additional, Gervasi, Gaspard, additional, and Schrenzel, Jacques, additional

Published
2020
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9. The intestinal microbiota predisposes to traveller’s diarrhoea and to the carriage of multidrug-resistant Enterobacteriaceae after travelling to tropical regions

Author

Leo, Stefano, Lazarevic, Vladimir, Gaïa, Nadia, Estellat, Candice, Girard, Myriam, Matheron, Sophie, Armand-Lefèvre, Laurence, Andremont, Antoine, Bouchaud, Olivier, Boussadia, Yacine, Campa, Pauline, Coignard, Bruno, Consigny, Paul-Henri, Mniai, Assiya El, Esposito-Farèse, Marina, Girard, Pierre-Marie, Goujon, Catherine, Hoffmann, Isabelle, Le Loup, Guillaume, Lucet, Jean-Christophe, Moussa, Nabila, Perrier, Marion, Pialoux, Gilles, Ralaimazava, Pascal, Ruppè, Etienne, Vittecoq, Daniel, Wieder, Ingrid, Wyplosz, Benjamin, Schrenzel, Jacques, and Ruppé, Etienne

Subjects
0303 health sciences, biology, 030306 microbiology, Tropics, Traveller's diarrhoea, biology.organism_classification, Enterobacteriaceae, Microbiology, Multiple drug resistance, stomatognathic diseases, 03 medical and health sciences, Carriage, Human gut, Prevotella copri, Relative species abundance, 030304 developmental biology
Abstract

The risk of acquisition of multidrug-resistant Enterobacteriaceae (MRE) and of occurrence of diarrhoea is high when travelling to tropical regions. The relationships between these phenomena and the composition of human gut microbiota have not yet been assessed. Here, we investigated the dynamics of changes of metabolically active microbiota by sequencing total RNA from faecal samples taken before and after travel to tropical regions. We found that the occurrence of diarrhoea during the travel was associated with a higher relative abundance of Prevotella copri before departure and after return. The composition of microbiota, before travel as well as at return, was not correlated with the acquisition of MRE. However, the clearance of MRE one month after return was linked to a specific pattern of bacterial species that was also found before and after return.

Published
2018

11. Abundance and diversity of the fecal resistome in slaughter pigs and broilers in nine European countries

Author

Munk, Patrick, Knudsen, Berith Elkær, Lukjacenko, Oksana, Duarte, Ana Sofia Ribeiro, Van Gompel, Liese, Luiken, Roosmarijn E.C., Smit, Lidwien A.M., Schmitt, Heike, Garcia, Alejandro Dorado, Hansen, Rasmus Borup, Petersen, Thomas Nordahl, Bossers, Alex, Ruppé, Etienne, Graveland, Haitske, van Essen, Alieda, Gonzalez-Zorn, Bruno, Moyano, Gabriel, Sanders, Pascal, Chauvin, Claire, David, Julie, Battisti, Antonio, Caprioli, Andrea, Dewulf, Jeroen, Blaha, Thomas, Wadepohl, Katharina, Brandt, Maximiliane, Wasyl, Dariusz, Skarzyńska, Magdalena, Zajac, Magdalena, Daskalov, Hristo, Saatkamp, Helmut W., Stärk, Katharina D.C., Lund, Ole, Hald, Tine, Pamp, Sünje Johanna, Vigre, Håkan, Heederik, Dick, Wagenaar, Jaap A., Mevius, Dik, Aarestrup, Frank M., One Health Microbieel, LS Klinisch Onderzoek Wagenaar, Dep IRAS, dIRAS RA-I&I RA, dIRAS RA-I&I I&I, dI&I I&I-4, Institute for Risk Assessment Sciences [Utrecht, The Netherlands] (IRAS), Utrecht University [Utrecht], Part of Wageningen UR, Central Veterinary Institute, Genomic Research Laboratory [Geneva, Switzerland], Geneva University Hospital (HUG), Agence nationale de sécurité sanitaire de l'alimentation, de l'environnement et du travail (ANSES), Laboratoire de Ploufragan - Plouzané, Center for Biological Sequence Analysis, Technical University of Denmark [Lyngby] (DTU), Division of Occupational and Environmental Health, Institute for Risk Assessment (IRAS), EFFORT Group, One Health Microbieel, LS Klinisch Onderzoek Wagenaar, Dep IRAS, dIRAS RA-I&I RA, dIRAS RA-I&I I&I, and dI&I I&I-4

Subjects
0301 basic medicine, pig, Veterinary medicine, antibiotic resistance, Epidemiology, Swine, WASS, Applied Microbiology and Biotechnology, Feces, Environmental DNA, animal, proc, ComputingMilieux_MISCELLANEOUS, 2. Zero hunger, bactérie, 0303 health sciences, poultry, Bacteriologie, Bacteriology, Host Pathogen Interaction & Diagnostics, Biodiversity, Poultry farming, Human morbidity, Europe, [SDV.MP]Life Sciences [q-bio]/Microbiology and Parasitology, Livestock, Gene pool, Microbiology (medical), Bioinformatica & Diermodellen, Immunology, Bedrijfseconomie, Coronacrisis-Taverne, Biology, 03 medical and health sciences, Antibiotic resistance, SDG 3 - Good Health and Well-being, Bacterial Proteins, Species Specificity, Business Economics, Bio-informatics & Animal models, Drug Resistance, Bacterial, Genetics, Life Science, Animals, Epidemiology, Bio-informatics & Animal models, microbiologie, 030304 developmental biology, Host Pathogen Interaction & Diagnostics, Epidemiologie, [SDV.BA.MVSA]Life Sciences [q-bio]/Animal biology/Veterinary medicine and animal Health, Bacteria, 030306 microbiology, business.industry, résistane aux antibiotiques, Gene Expression Profiling, microbiology, Bacteriology, Cell Biology, Sequence Analysis, DNA, Host Pathogen Interactie & Diagnostiek, Biotechnology, Resistome, volaille, 030104 developmental biology, Metagenomics, Epidemiologie, Bioinformatica & Diermodellen, Bacteriologie, Host Pathogen Interactie & Diagnostiek, business, Chickens
Abstract

EFFORT groupHaitske Graveland, Alieda van Essen, Bruno Gonzalez-Zorn, Gabriel Moyano, Pascal Sanders, Claire Chauvin, Julie David, Antonio Battisti, Andrea Caprioli, Jeroen Dewulf, Thomas Blaha, Katharina Wadepohl, Maximiliane Brandt, Dariusz Wasyl, Magdalena Skarzyñska, Magdalena Zajac, Hristo Daskalov, Helmut W Saatkamp, Katharina D.C. Stärk.AbstractAntimicrobial resistance (AMR) in bacteria and associated human morbidity and mortality is increasing. Use of antimicrobials in livestock selects for AMR that can subsequently be transferred to humans. This flow of AMR between reservoirs demands surveillance in livestock as well as in humans. As part of the EFFORT project (www.effort-against-amr.eu), we have quantified and characterized the acquired resistance gene pools (resistomes) of 181 pig and 178 poultry farms from nine European countries, generating more than 5,000 gigabases of DNA sequence, using shotgun metagenomics. We quantified acquired AMR using the ResFinder database and a database constructed for this study, consisting of AMR genes identified through screening environmental DNA. The pig and poultry resistomes were very different in abundance and composition. There was a significant country effect on the resistomes, more so in pigs than poultry. We found higher AMR loads in pigs, while poultry resistomes were more diverse. We detected several recently described, critical AMR genes, includingmcr-1andoptrA, the abundance of which differed both between host species and countries. We found that the total acquired AMR level, was associated with the overall country-specific antimicrobial usage in livestock and that countries with comparable usage patterns had similar resistomes. Novel, functionally-determined AMR genes were, however, not associated with total drug use.

Published
2017
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12. Prediction of the intestinal resistome by a novel 3D-based method

Author

Ruppé, Etienne, primary, Ghozlane, Amine, additional, Tap, Julien, additional, Pons, Nicolas, additional, Alvarez, Anne-Sophie, additional, Maziers, Nicolas, additional, Cuesta, Trinidad, additional, Hernando-Amado, Sara, additional, Martínez, Jose Luís, additional, Coque, Teresa M., additional, Baquero, Fernando, additional, Lanza, Val F., additional, Maiz, Luis, additional, Goulenok, Tiphaine, additional, Lastours, Victoire de, additional, Amor, Nawal, additional, Fantin, Bruno, additional, Wieder, Ingrid, additional, Andremont, Antoine, additional, Schaik, Willem van, additional, Rogers, Malbert, additional, Zhang, Xinglin, additional, Willems, Rob J.L., additional, De Brevern, Alexandre G., additional, Batto, Jean-Michel, additional, Blottière, Hervé, additional, Léonard, Pierre, additional, Léjard, Véronique, additional, Letur, Aline, additional, Levenez, Florence, additional, Weiszer, Kevin, additional, Haimet, Florence, additional, Doré, Joël, additional, Kennedy, Sean P., additional, and Dusko Ehrlich, S., additional

Published
2017
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13. Abundance and diversity of the fecal resistome in slaughter pigs and broilers in nine European countries

Author

Munk, Patrick, primary, Knudsen, Berith Elkær, additional, Lukjacenko, Oksana, additional, Duarte, Ana Sofia Ribeiro, additional, Luiken, Roosmarjin E. C., additional, Gompel, Liese Van, additional, Smit, Lidwien A. M., additional, Schmitt, Heike, additional, Garcia, Alejandro Dorado, additional, Hansen, Rasmus Borup, additional, Petersen, Thomas Nordahl, additional, Bossers, Alex, additional, Ruppé, Etienne, additional, Lund, Ole, additional, Tine, Hald, additional, Pamp, Sünje Johanna, additional, Vigre, Håkan, additional, Heederik, Dick, additional, Wagenaar, Jaap A., additional, Mevius, Dik, additional, and Aarestrup, Frank M., additional

Published
2017
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14. Protection of the human gut microbiome from antibiotics

Author

Gunzburg, Jean de, primary, Ghozlane, Amine, additional, Ducher, Annie, additional, Le Chatelier, Emmanuelle, additional, Duval, Xavier, additional, Ruppé, Etienne, additional, Armand-Lefevre, Laurence, additional, Sablier-Gallis, Frédérique, additional, Burdet, Charles, additional, Alavoine, Loubna, additional, Chachaty, Elisabeth, additional, Augustin, Violaine, additional, Varastet, Marina, additional, Levenez, Florence, additional, Kennedy, Sean, additional, Pons, Nicolas, additional, Mentré, France, additional, and Andremont, Antoine, additional

Published
2017
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