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13 p, 2.1 MB |
Pseudomonas aeruginosa antibiotic susceptibility profiles, genomic epidemiology and resistance mechanisms : a nation-wide five-year time lapse analysis
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Quesada, Maria Dolores (Institut Germans Trias i Pujol. Hospital Universitari Germans Trias i Pujol) ;
Wang, Yun Hao (Institut Germans Trias i Pujol. Hospital Universitari Germans Trias i Pujol) ;
Pitart, Cristina (Hospital Clínic i Provincial de Barcelona) ;
Marco, Francesc (Hospital Clínic i Provincial de Barcelona) ;
Prim, Núria (Hospital del Mar (Barcelona, Catalunya)) ;
Horcajada, Juan Pablo (Hospital del Mar (Barcelona, Catalunya)) ;
Padilla, Eduardo (Hospital del Mar (Barcelona, Catalunya)) ;
del Barrio-Tofiño, Ester (Hospital Universitari Vall d'Hebron) ;
Viñado, Belén (Hospital Universitari Vall d'Hebron) ;
Larrosa, María Nieves (Hospital Universitari Vall d'Hebron) ;
Tubau, Fe (Hospital Universitari de Bellvitge) ;
Capilla, Silvia (Parc Taulí Hospital Universitari. Institut d'Investigació i Innovació Parc Taulí (I3PT)) ;
Casabella Pernas, Antonio (Parc Taulí Hospital Universitari. Institut d'Investigació i Innovació Parc Taulí (I3PT)) ;
Rivera, Alba (Institut d'Investigació Biomèdica Sant Pau) ;
Navarro Risueño, Ferran (Institut d'Investigació Biomèdica Sant Pau) ;
Universitat Autònoma de Barcelona
Pseudomonas aeruginosa healthcare-associated infections are one of the top antimicrobial resistance threats world-wide. In order to analyze the current trends, we performed a Spanish nation-wide high-resolution analysis of the susceptibility profiles, the genomic epidemiology and the resistome of P. [...]
2023 -  10.1016/j.lanepe.2023.100736
The Lancet Regional Health - Europe, Vol. 34 (2023) , p. 100736
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12 p, 658.2 KB |
Impact of the Introduction of a Two-Step Laboratory Diagnostic Algorithm in the Incidence and Earlier Diagnosis of Clostridioides difficile Infection
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Sopena, Nieves (Institut Germans Trias i Pujol. Hospital Universitari Germans Trias i Pujol) ;
Wang-Wang, Jun Hao (Institut Germans Trias i Pujol. Hospital Universitari Germans Trias i Pujol) ;
Casas, Irma (Institut Germans Trias i Pujol. Hospital Universitari Germans Trias i Pujol) ;
Mateu, Lourdes (Institut Germans Trias i Pujol. Hospital Universitari Germans Trias i Pujol) ;
Castellà, Laia (Institut Germans Trias i Pujol. Hospital Universitari Germans Trias i Pujol) ;
García-Quesada, María José (Institut Germans Trias i Pujol. Hospital Universitari Germans Trias i Pujol) ;
Gutiérrez-Enríquez, Sara (Institut Germans Trias i Pujol. Hospital Universitari Germans Trias i Pujol) ;
Llibre, Josep M.. (Institut Germans Trias i Pujol. Hospital Universitari Germans Trias i Pujol) ;
Pedro-Botet, M. Luisa (Institut Germans Trias i Pujol. Hospital Universitari Germans Trias i Pujol) ;
Fernandez Rivas, Gema (Institut Germans Trias i Pujol. Hospital Universitari Germans Trias i Pujol) ;
Universitat Autònoma de Barcelona
Our aim was to determine changes in the incidence of CD infection (CDI) following the introduction of a two-step diagnostic algorithm and to analyze CDI cases diagnosed in the study period. We retrospectively studied CDI (January 2009 to July 2018) in adults diagnosed by toxin enzyme immunoassay (EIA) (2009-2012) or toxin-EIA + polymerase chain reaction (PCR) algorithm (2013 onwards). [...]
2022 - 10.3390/microorganisms10051075
Microorganisms, Vol. 10 (may 2022)
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3.
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12 p, 2.4 MB |
Evaluation of Fourier Transform Infrared Spectroscopy as a First-Line Typing Tool for the Identification of Extended-Spectrum β-Lactamase-Producing Klebsiella pneumoniae Outbreaks in the Hospital Setting
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Wang-Wang, Jun Hao (Institut Germans Trias i Pujol. Hospital Universitari Germans Trias i Pujol) ;
Bordoy, Antoni E. (Institut Germans Trias i Pujol. Hospital Universitari Germans Trias i Pujol) ;
Martró, Elisa (Institut Germans Trias i Pujol. Hospital Universitari Germans Trias i Pujol) ;
Quesada, María Dolores (Institut Germans Trias i Pujol. Hospital Universitari Germans Trias i Pujol) ;
Pérez-Vázquez, María (Instituto de Salud Carlos III) ;
Guerrero Murillo, Mercedes (Institut Germans Trias i Pujol. Hospital Universitari Germans Trias i Pujol) ;
Tiburcio, Andrea (Institut Germans Trias i Pujol. Hospital Universitari Germans Trias i Pujol) ;
Navarro, Marina (Institut Germans Trias i Pujol. Hospital Universitari Germans Trias i Pujol) ;
Castellà, Laia (Institut Germans Trias i Pujol. Hospital Universitari Germans Trias i Pujol) ;
Sopena, Nieves (Institut Germans Trias i Pujol. Hospital Universitari Germans Trias i Pujol) ;
Casas, Irma (Institut Germans Trias i Pujol. Hospital Universitari Germans Trias i Pujol) ;
Saludes, Verónica (Institut Germans Trias i Pujol. Hospital Universitari Germans Trias i Pujol) ;
Giménez, Montserrat (Institut Germans Trias i Pujol. Hospital Universitari Germans Trias i Pujol) ;
Cardona, Pere-Joan (Institut Germans Trias i Pujol. Hospital Universitari Germans Trias i Pujol) ;
Universitat Autònoma de Barcelona
Early detection of pathogen cross-transmission events and environmental reservoirs is needed to control derived nosocomial outbreaks. Whole-genome sequencing (WGS) is considered the gold standard for outbreak confirmation, but, in most cases, it is time-consuming and has elevated costs. [...]
2022 - 10.3389/fmicb.2022.897161
Frontiers in microbiology, Vol. 13 (june 2022)
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6 p, 1.1 MB |
Automated parasitological diagnosis in clinical microbiology laboratories
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Fernandez Rivas, Gema (Universitat Autònoma de Barcelona. Departament de Genètica i de Microbiologia) ;
Rivaya, Belén (Institut Germans Trias i Pujol. Hospital Universitari Germans Trias i Pujol) ;
Romaní, Nona (Institut Germans Trias i Pujol. Hospital Universitari Germans Trias i Pujol) ;
Wang, Jun Hao Wang (Institut Germans Trias i Pujol. Hospital Universitari Germans Trias i Pujol) ;
Alcaide, Mireya (Institut Germans Trias i Pujol. Hospital Universitari Germans Trias i Pujol) ;
Matas, Lurdes (Centro de Investigación Biomédica en Red de Epidemiología y Salud Pública)
Although there is a low prevalence of parasitological infections in Europe, the diagnosis of intestinal parasites is still difficult and laborious for microbiology laboratories. Currently, antigen detection assays and molecular biology allow a more accurate diagnosis, but these techniques have limitations as they cannot detect all the possible parasites present in the samples. [...]
2021 - 10.1038/s41598-021-92441-3
Scientific reports, Vol. 11 (june 2021)
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5 p, 391.3 KB |
Impact of the MALDI-TOF as a tool for bacterial identification in the frequency of isolation of Aerococcus spp and Actinotignum schaalii in urinary tract infection Impacto del MALDI-TOF como herramienta de identificación bacteriana en la frecuencia de aislamiento de Aerococcus spp y Actinotignum schaalii en infecciones del tracto urinario
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Romaní, Nona (Institut Germans Trias i Pujol. Hospital Universitari Germans Trias i Pujol) ;
Fernandez Rivas, Gema (Institut Germans Trias i Pujol. Hospital Universitari Germans Trias i Pujol) ;
Molinos, Sonia (Institut Germans Trias i Pujol. Hospital Universitari Germans Trias i Pujol) ;
Antuori Torres, Adrián (Institut Germans Trias i Pujol. Hospital Universitari Germans Trias i Pujol) ;
Wang, Jun Hao (Institut Germans Trias i Pujol. Hospital Universitari Germans Trias i Pujol) ;
Pagan Maldonado, Natalia (Institut Germans Trias i Pujol. Hospital Universitari Germans Trias i Pujol) ;
Carrasco, María (Institut Germans Trias i Pujol. Hospital Universitari Germans Trias i Pujol) ;
Matas, Lurdes (Institut Germans Trias i Pujol. Hospital Universitari Germans Trias i Pujol) ;
Universitat Autònoma de Barcelona
Background: Actinotignum schaalii and the genus Aerococcus are considered emerging pathogens, since their isolation has been rising the last years thanks to the improvement of diagnosis techniques, such as the implementation of MALDI-TOF in microbiology laboratories for routine. [...]
2019 - 10.1016/j.mcpsp.2018.12.004
Medicina Clinica Practica, Vol. 2 Núm. 2 (marzo 2019) , p. 17-21
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10 p, 1.6 MB |
The genome of woodland strawberry (Fragaria vesca)
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Shulaev, Vladimir (University of North Texas. Department of Biological Sciences) ;
Sargent, Daniel J. (East Malling Research) ;
Crowhurst, Ross (New Zealand Institute for Plant and Food Research Limited) ;
Mockler, Todd C. (Oregon State University. Center for Genome Research and Biocomputing) ;
Folkerts, Otto (Chromatin Inc.) ;
Delcher, Arthur L. (University of Maryland. Center for Bioinformatics and Computational Biology) ;
Jaiswal, Pankaj (Oregon State University. Department of Botany and Plant Pathology) ;
Mockaitis, Keithanne (Indiana University. Center for Genomics and Bioinformatics) ;
Liston, Aaron (Oregon State University. Department of Botany and Plant Pathology) ;
Mane, Shrinivasrao P. (Virginia Bioinformatics Institute) ;
Burns, Paul (Joint Georgia Tech and Emory Wallace H. Coulter. Department of Biomedical Engineering) ;
Davis, Thomas M. (University of New Hampshire. Department of Biological Sciences) ;
Slovin, Janet P. (Henry Wallace Beltsville Agricultural Research Center) ;
Bassil, Nahla (National Clonal Germplasm Repository) ;
Hellens, Roger P. (New Zealand Institute for Plant and Food Research Limited) ;
Evans, Clive (State University. Virginia Bioinformatics Institute) ;
Harkins, Tim (Roche Diagnostics. Roche Applied Science) ;
Kodira, Chinnappa (Roche Diagnostics. Roche Applied Science) ;
Desany, Brian (Roche Diagnostics. Roche Applied Science) ;
Crasta, Oswald R. (Chromatin Inc.) ;
Jensen, Roderick V. (Virginia Tech. Department of Biological Sciences) ;
Allan, Andrew C. (New Zealand Institute for Plant and Food Research Limited) ;
Michael, Todd P. (State University of New Jersey. Waksman Institute of Microbiology) ;
Setubal, Joao Carlos (Virginia Tech. Department of Computer Science) ;
Celton, Jean-Marc (University of the Western Cape. Department of Biotechnology) ;
Rees, D. Jasper G. (University of the Western Cape. Department of Biotechnology) ;
Williams, Kelly P. (State University. Virginia Bioinformatics Institute) ;
Holt, Sarah H. (Institute for Sustainable and Renewable Resources) ;
Rojas, Juan Jairo (State University. Virginia Polytechnic Institute. Department of Horticulture) ;
Chatterjee, Mithu (University of Florida. Graduate Program for Plant Molecular and Cellular Biology) ;
Liu, Bo (University of New Hampshire. Department of Biological Sciences) ;
Silva, Herman (University of Chile. Millennium Nucleus in Plant Cell Biotechnology) ;
Meisel, Lee (Universidad Andres Bello. Millennium Nucleus in Plant Cell Biotechnology) ;
Adato, Avital (Weizmann Institute of Science (Israel). Department of Plant Sciences) ;
Filichkin, Sergei A. (Oregon State University. Center for Genome Research and Biocomputing) ;
Troggio, Michela (Foundation Edmund Mach. Istituto Agrario San Michele all'Adige () ;
Viola, Roberto (Istituto Agrario San Michele all'Adige (IASMA). Research and Innovation Centre. Foundation Edmund Mach) ;
Ashman, Tia-Lynn (University of Pittsburgh. Department of Biological Sciences) ;
Wang, Hao (University of Georgia. Department of Genetics) ;
Dharmawardhana, Palitha (Oregon State University. Department of Botany and Plant Pathology) ;
Elser, Justin (Oregon State University. Department of Botany and Plant Pathology) ;
Raja, Rajani (Oregon State University. Department of Botany and Plant Pathology) ;
Priest, Henry D. (Oregon State University. Center for Genome Research and Biocomputing) ;
Bryant, Douglas W. (Oregon State University. Center for Genome Research and Biocomputing) ;
Fox, Samuel E. (Oregon State University. Center for Genome Research and Biocomputing) ;
Givan, Scott A. (Oregon State University. Center for Genome Research and Biocomputing) ;
Wilhelm, Larry J. (Oregon State University. Center for Genome Research and Biocomputing) ;
Naithani, Sushma (Oregon State University. Department of Horticulture) ;
Christoffels, Alan (University of the Western Cape. South African National Bioinformatics Institute) ;
Salama, David Y. (University of Florida. Horticultural Sciences Department) ;
Carter, Jade (Indiana University. Center for Genomics and Bioinformatics) ;
Girona, Elena L. (East Malling Research) ;
Zdepski, Anna (State University of New Jersey. Waksman Institute of Microbiology) ;
Wang, Wenqin (State University of New Jersey. Waksman Institute of Microbiology) ;
Kerstetter, Randall A. (State University of New Jersey. Waksman Institute of Microbiology) ;
Schwab, Wilfried (Technical University München. Biotechnology of Natural Products) ;
Korban, Schuyler S. (University of Illinois. Department of Natural Resources and Environmental Sciences) ;
Davik, Jahn (Norwegian Institute for Agricultural and Environmental Research. Genetics and Biotechnology) ;
Monfort, Amparo (Centre de Recerca en Agrigenòmica) ;
Denoyes, Beatrice (Institut National de la Recherche Agronomique (França)) ;
Arús i Gorina, Pere (Centre de Recerca en Agrigenòmica) ;
Mittler, Ron (University of North Texas. Department of Biological Sciences) ;
Flinn, Barry (Institute for Sustainable and Renewable Resources. Institute for Advanced Learning and Research) ;
Aharoni, Asaph (Universidad Andres Bello. Millennium Nucleus in Plant Cell Biotechnology. Centro de Biotecnología Vegetal.) ;
Bennetzen, Jeffrey L. (University of Georgia. Department of Genetics) ;
Salzberg, Steven L. (University of Maryland. Center for Bioinformatics and Computational Biology) ;
Dickerman, Allan W. (State University. Virginia Bioinformatics Institute. Virginia Polytechnic Institute) ;
Velasco, Riccardo (Foundation Edmund Mach. Istituto Agrario San Michele all'Adige) ;
Borodovsky, Mark (Georgia Tech. School of Computational Science and Engineering) ;
Veilleux, Richard E. (State University. Virginia Polytechnic Institute. Department of Horticulture) ;
Folta, Kevin M. (University of Florida. Graduate Program for Plant Molecular and Cellular Biology)
The woodland strawberry, Fragaria vesca (2n = 2x = 14), is a versatile experimental plant system. This diminutive herbaceous perennial has a small genome (240 Mb), is amenable to genetic transformation and shares substantial sequence identity with the cultivated strawberry (Fragaria Ã- ananassa) and other economically important rosaceous plants. [...]
2011 - 10.1038/ng.740
Nature genetics, Vol. 43, Issue 2 (February 2011) , p. 109-116
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