Evaluation of DNA extraction kits for long-read shotgun metagenomics using Oxford Nanopore sequencing for rapid taxonomic and antimicrobial resistance detection by Srinithi Purushothaman, Marco Meola, Tim Roloff, Ashley M. Rooney, Adrian Egli

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Performance of disc diffusion and E-test on different Muller-Hinton agar media plates and ComASPⓇ and Bruker UMICⓇ Cefiderocol Microdilution Panels for Cefiderocol susceptibility t... by Stefano Mancini, Helena Seth Smith, Natalia Kolesnik Goldmann, Vladimira Hinic, Tim Roloff, Muhammad Ali Syed, Oliver Nolte, Adrian Egli

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Comparison of Disk Diffusion, E-Test, and Broth Microdilution Methods for Testing In Vitro Activity of Cefiderocol in <i>Acinetobacter baumannii</i> by Natalia Kolesnik-Goldmann, Helena M. B. Seth-Smith, Klara Haldimann, Frank Imkamp, Tim Roloff, Reinhard Zbinden, Sven N. Hobbie, Adrian Egli, Stefano Mancini

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PCR performance in the SARS-CoV-2 Omicron variant of concern? by César M. J. A. Metzger, Reto Lienhard, Helena M. B. Seth-Smith, Tim Roloff, Fanny Wegner, Jonas Sieber, Michael Bel, Gilbert Greub, Adrian Egli

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Outbreak investigation including molecular characterization of community associated methicillin-resistant Staphylococcus aureus in a primary and secondary school in Eastern Switzer... by Frederike Waldeck, Salome N. Seiffert, Susanne Manser, Danuta Zemp, Angela Walt, Christoph Berger, Werner C. Albrich, Matthias Schlegel, Tim Roloff, Adrian Egli, Oliver Nolte, Christian R. Kahlert

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Factors impacting the pre-analytical quality of blood cultures-Analysis at a tertiary medical center. by Lucas Romann, Laura Werlen, Nikki Rommers, Anja Hermann, Isabelle Gisler, Stefano Bassetti, Roland Bingisser, Martin Siegemund, Tim Roloff, Maja Weisser, Veronika Muigg, Vladimira Hinic, Michael Osthoff, Fabian C Franzeck, Adrian Egli

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S-Gene Target Failure as an Effective Tool for Tracking the Emergence of Dominant SARS-CoV-2 Variants in Switzerland and Liechtenstein, Including Alpha, Delta, and Omicron BA.1, BA... by Dominique Hilti, Faina Wehrli, Sabine Berchtold, Susanna Bigler, Thomas Bodmer, Helena M. B. Seth-Smith, Tim Roloff, Philipp Kohler, Christian R. Kahlert, Laurent Kaiser, Adrian Egli, Lorenz Risch, Martin Risch, Nadia Wohlwend

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Novel Organism Verification and Analysis (NOVA) study: identification of 35 clinical isolates representing potentially novel bacterial taxa using a pipeline based on whole genome s... by Veronika Muigg, Helena M.B. Seth-Smith, Kai-Manuel Adam, Maja Weisser, Vladimira Hinić, Annette Blaich, Tim Roloff, Ulrich Heininger, Hanna Schmid, Maurus Kohler, Lukas Graf, Dylan M. Winterflood, Pascal Schlaepfer, Daniel Goldenberger

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Diagnostic challenges within the Bacillus cereus-group: finding the beast without teeth by Veronika Muigg, Aline Cuénod, Srinithi Purushothaman, Martin Siegemund, Matthias Wittwer, Valentin Pflüger, Kristina M. Schmidt, Maja Weisser, Nicole Ritz, Andreas Widmer, Daniel Goldenberger, Vladimira Hinic, Tim Roloff, Kirstine K. Søgaard, Adrian Egli, Helena M.B. Seth-Smith

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ESBL Displace: A Protocol for an Observational Study to Identify Displacing <i>Escherichia coli</i> Strain Candidates from ESBL-Colonized Travel Returners Using Phenotypic, Genomic... by Michael Schweitzer, Alfredo Mari, Tim Roloff, Esther Künzli, Stefanie Heller, Diana Albertos Torres, Marco Meola, Danica Nogarth, Leanid Laganenka, Lisa Prampolini, Helena M. B. Seth-Smith, Olivia Grüninger, Alexander Gensch, Josiane Reist, Sebastian Bonhoeffer, Wolf-Dietrich Hardt, Adrian Egli

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Bacterial genome-wide association study substantiates papGII of Escherichia coli as a major risk factor for urosepsis by Aline Cuénod, Jessica Agnetti, Helena M. B. Seth-Smith, Tim Roloff, Denise Wälchli, Dimitri Shcherbakov, Rashid Akbergenov, Sarah Tschudin-Sutter, Stefano Bassetti, Martin Siegemund, Christian H. Nickel, Jacob Moran-Gilad, Timothy G. Keys, Valentin Pflüger, Nicholas R. Thomson, Adrian Egli

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A systematic outbreak investigation of SARS-CoV-2 transmission clusters in a tertiary academic care center by Matthias von Rotz, Richard Kuehl, Ana Durovic, Sandra Zingg, Anett Apitz, Fanny Wegner, Helena M. B. Seth-Smith, Tim Roloff, Karoline Leuzinger, Hans H. Hirsch, Sabine Kuster, Manuel Battegay, Luigi Mariani, Stefan Schaeren, Stefano Bassetti, Florian Banderet-Uglioni, Adrian Egli, Sarah Tschudin-Sutter

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Towards unified reporting of genome sequencing results in clinical microbiology by Eugenio Mutschler, Tim Roloff, Aitana Neves, Hege Vangstein Aamot, Belén Rodriguez-Sanchez, Mario Ramirez, John Rossen, Natacha Couto, Ângela Novais, Benjamin P. Howden, Sylvain Brisse, Sandra Reuter, Oliver Nolte, Adrian Egli, Helena M. B. Seth-Smith, the ESCMID Study Group for Epidemiological Markers (ESGEM), and ESCMID Study Group for Genomic and Molecular Diagnostics (ESGMD)

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SARS-CoV-2 outbreak in a tri-national urban area is dominated by a B.1 lineage variant linked to a mass gathering event. by Madlen Stange, Alfredo Mari, Tim Roloff, Helena Mb Seth-Smith, Michael Schweitzer, Myrta Brunner, Karoline Leuzinger, Kirstine K Søgaard, Alexander Gensch, Sarah Tschudin-Sutter, Simon Fuchs, Julia Bielicki, Hans Pargger, Martin Siegemund, Christian H Nickel, Roland Bingisser, Michael Osthoff, Stefano Bassetti, Rita Schneider-Sliwa, Manuel Battegay, Hans H Hirsch, Adrian Egli

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Global Genomic Analysis of SARS-CoV-2 RNA Dependent RNA Polymerase Evolution and Antiviral Drug Resistance by Alfredo Mari, Tim Roloff, Madlen Stange, Kirstine K. Søgaard, Erblin Asllanaj, Gerardo Tauriello, Leila Tamara Alexander, Michael Schweitzer, Karoline Leuzinger, Alexander Gensch, Aurélien E. Martinez, Julia Bielicki, Hans Pargger, Martin Siegemund, Christian H. Nickel, Roland Bingisser, Michael Osthoff, Stefano Bassetti, Parham Sendi, Manuel Battegay, Catia Marzolini, Helena M. B. Seth-Smith, Torsten Schwede, Hans H. Hirsch, Adrian Egli

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Historic methicillin-resistant Staphylococcus aureus: expanding current knowledge using molecular epidemiological characterization of a Swiss legacy collection by Vanni Benvenga, Aline Cuénod, Srinithi Purushothaman, Gottfried Dasen, Maja Weisser, Stefano Bassetti, Tim Roloff, Martin Siegemund, Ulrich Heininger, Julia Bielicki, Marianne Wehrli, Paul Friderich, Reno Frei, Andreas Widmer, Kathrin Herzog, Hans Fankhauser, Oliver Nolte, Thomas Bodmer, Martin Risch, Olivier Dubuis, Sigrid Pranghofer, Romana Calligaris-Maibach, Susanne Graf, Vincent Perreten, Helena M. B Seth-Smith, Adrian Egli

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SARS-CoV-2 Vaccine Alpha and Delta Variant Breakthrough Infections Are Rare and Mild but Can Happen Relatively Early after Vaccination by Jelissa Katharina Peter, Fanny Wegner, Severin Gsponer, Fabrice Helfenstein, Tim Roloff, Rahel Tarnutzer, Kerstin Grosheintz, Moritz Back, Carla Schaubhut, Sabina Wagner, Helena M. B. Seth-Smith, Patrick Scotton, Maurice Redondo, Christiane Beckmann, Tanja Stadler, Andrea Salzmann, Henriette Kurth, Karoline Leuzinger, Stefano Bassetti, Roland Bingisser, Martin Siegemund, Maja Weisser, Manuel Battegay, Sarah Tschudin Sutter, Aitana Lebrand, Hans H. Hirsch, Simon Fuchs, Adrian Egli

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How much should we sequence? An analysis of the Swiss SARS-CoV-2 surveillance effort by Fanny Wegner, Blanca Cabrera-Gil, Araud Tanguy, Christiane Beckmann, Niko Beerenwinkel, Claire Bertelli, Matteo Carrara, Lorenzo Cerutti, Chaoran Chen, Samuel Cordey, Alexis Dumoulin, Louis du Plessis, Marc Friedli, Yannick Gerth, Gilbert Greub, Adrian Härri, Hans Hirsch, Cedric Howald, Michael Huber, Alexander Imhof, Laurent Kaiser, Verena Kufner, Stephen L. Leib, Karoline Leuzinger, Etleva Lleshi, Gladys Martinetti, Mirjam Mäusezahl, Milo Moraz, Richard Neher, Oliver Nolte, Alban Ramette, Maurice Redondo, Lorenz Risch, Lionel Rohner, Tim Roloff, Pascal Schläepfer, Katrin Schneider, Franziska Singer, Valeria Spina, Tanja Stadler, Erik Studer, Ivan Topolsky, Alexandra Trkola, Daniel Walther, Nadia Wohlwend, Cinzia Zehnder, Aitana Neves, Adrian Egli

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SARS-CoV-2 N501Y Introductions and Transmissions in Switzerland from Beginning of October 2020 to February 2021—Implementation of Swiss-Wide Diagnostic Screening and Whole Genome S... by Ana Rita Goncalves Cabecinhas, Tim Roloff, Madlen Stange, Claire Bertelli, Michael Huber, Alban Ramette, Chaoran Chen, Sarah Nadeau, Yannick Gerth, Sabine Yerly, Onya Opota, Trestan Pillonel, Tobias Schuster, Cesar M. J. A. Metzger, Jonas Sieber, Michael Bel, Nadia Wohlwend, Christian Baumann, Michel C. Koch, Pascal Bittel, Karoline Leuzinger, Myrta Brunner, Franziska Suter-Riniker, Livia Berlinger, Kirstine K. Søgaard, Christiane Beckmann, Christoph Noppen, Maurice Redondo, Ingrid Steffen, Helena M. B. Seth-Smith, Alfredo Mari, Reto Lienhard, Martin Risch, Oliver Nolte, Isabella Eckerle, Gladys Martinetti Lucchini, Emma B. Hodcroft, Richard A. Neher, Tanja Stadler, Hans H. Hirsch, Stephen L. Leib, Lorenz Risch, Laurent Kaiser, Alexandra Trkola, Gilbert Greub, Adrian Egli

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