Versatile Emerging infectious disease Observatory

Pubblicazioni

SARS-CoV-2 and Type 1 Diabetes in Finnish Children

Autori: Knip M, Parviainen A, Turtinen M, But A, Härkönen T, Hepojoki J, Sironen T, Iheozor-Ejiofor R, Uğurlu H, Saksela K, Lempainen J, Ilonen J, Vapalahti O, Register FPD
Pubblicato in: Social Science Research Network, 2022, ISSN 1556-5068
Editore: Elsevier
DOI: 10.2139/ssrn.4237744

SARS-CoV-2 infections among healthcare workers at Helsinki University Hospital, Finland, spring 2020: Serosurvey, symptoms and risk factors

Autori: Anu Kantele, Tinja Lääveri, Lauri Kareinen, Sari H. Pakkanen, Karin Blomgren, Sointu Mero, Anu Patjas, Jenni Virtanen, Ruut Uusitalo, Maija Lappalainen, Asko Järvinen, Satu Kurkela, Anne J. Jääskeläinen, Olli Vapalahti, Tarja Sironen
Pubblicato in: Travel Medicine and Infectious Disease, Numero 39, 2021, ISSN 1477-8939
Editore: Elsevier BV
DOI: 10.1016/j.tmaid.2020.101949

Canine Saliva as a Possible Source of Antimicrobial Resistance Genes

Autori: Adrienn Gréta Tóth, Imre Tóth, Bernadett Rózsa, Attila Dubecz, Árpád V. Patai, Tibor Németh, Selçuk Kaplan, Eszter Gabriella Kovács, László Makrai, Norbert Solymosi
Pubblicato in: Antibiotics, Numero 11/11, 2022, ISSN 2078-2489
Editore: Multidisciplinary Digital Publishing Institute (MDPI)
DOI: 10.3390/antibiotics11111490

Impact of antigenic evolution and original antigenic sin on SARS-CoV-2 immunity

Autori: Muriel Aguilar-Bretones, Ron Am Fouchier, Marion Pg Koopmans, Gijsbert P van Nierop
Pubblicato in: The Journal of Clinical Investigation, Numero 133/1, 2023, ISSN 0021-9738
Editore: American Society for Clinical Investigation
DOI: 10.1172/jci162192

Rise and fall of SARS-CoV-2 variants in Rotterdam: Comparison of wastewater and clinical surveillance

Autori: Ray W Izquierdo-Lara, Leo Heijnen, Bas B Oude Munnink, Claudia M E Schapendonk, Goffe Elsinga, Jeroen Langeveld, Johan Post, Divyae K Prasad, Christian Carrizosa, Frederic Been, Janko van Beek, Remy Schilperoort, Rianne Vriend, Ewout Fanoy, Evelien I T de Schepper, Reina S Sikkema, Richard Molenkamp, Frank M Aarestrup, Gertjan Medema, Marion P G Koopmans and Miranda de Graaf
Pubblicato in: Science of the Total Environment, Numero 873, 2023, ISSN 0048-9697
Editore: Elsevier BV
DOI: 10.1016/j.scitotenv.2023.162209

Temporal Dynamics, Discovery, and Emergence of Human-Transmissible RNA Viruses

Autori: Lu Lu, Feifei Zhang, Liam Brierley, Gail Robertson, Margo Chase-Topping, Samantha Lycett, Mark Woolhouse
Pubblicato in: Molecular Biology and Evolution, Numero 41, 2024, ISSN 0737-4038
Editore: Oxford University Press
DOI: 10.1093/molbev/msad272

Case Report: The Carotid Body in COVID-19: Histopathological and Virological Analyses of an Autopsy Case Series

Autori: Andrea Porzionato, Aron Emmi, Martina Contran, Elena Stocco, Silvia Riccetti, Alessandro Sinigaglia, Veronica Macchi, Luisa Barzon and Raffaele De Caro
Pubblicato in: Frontiers in Immunology, Numero 12, 2021, ISSN 1664-3224
Editore: Frontiers Media SA
DOI: 10.3389/fimmu.2021.736529

Has Epizootic Become Enzootic? Evidence for a Fundamental Change in the Infection Dynamics of Highly Pathogenic Avian Influenza in Europe, 2021

Autori: Anne Pohlmann, Jacqueline King, Alice Fusaro, Bianca Zecchin, Ashley C Banyard, Ian H Brown, Alexander M P Byrne, Nancy Beerens, Yuan Liang, Rene Heutink, Frank Harders, Joe James, Scott M Reid, Rowena D E Hansen, Nicola S Lewis, Charlotte Hjulsager, Lars E Larsen, Siamak Zohari, Kristofer Anderson, Caroline Bröjer, Alexander Nagy, Vladimir Savič, Steven van Borm, Mieke Steensels, Francois-Xavie
Pubblicato in: mBio, Numero 13/4, 2022, ISSN 2161-2129
Editore: American Society for Microbiology
DOI: 10.1128/mbio.00609-22

One Day in Denmark: Nationwide point-prevalence survey of human bacterial isolates and comparison of classical and whole-genome sequence-based species identification methods

Autori: Ana Rita Rebelo,Tobias Ibfelt, Valeria Bortolaia, Pimlapas Leekitcharoenphon, Dennis Schrøder Hansen, Hans Linde Nielsen, Svend Ellermann-Eriksen, Michael Kemp, Bent Løwe Røder, Niels Frimodt-Møller, Turid Snekloth Søndergaard, John Eugenio Coia, Claus Østergaard, Michael Pedersen, Henrik Westh and Frank Møller Aarestrup
Pubblicato in: PLOS ONE, 2022, ISSN 1932-6203
Editore: Public Library of Science
DOI: 10.1371/journal.pone.0261999

HAVoC, a bioinformatic pipeline for reference-based consensus assembly and lineage assignment for SARS-CoV-2 sequences

Autori: Phuoc Thien Truong Nguyen, Ilya Plyusnin, Tarja Sironen, Olli Vapalahti, Ravi Kant, Teemu Smura
Pubblicato in: BMC Bioinformatics, Numero 22/1, 2021, ISSN 1471-2105
Editore: BioMed Central
DOI: 10.1186/s12859-021-04294-2

Iceland: an underestimated hub for the spread of high-pathogenicity avian influenza viruses in the North Atlantic

Autori: Ann Kathrin Ahrens, Stefán Ragnar Jónsson, Vilhjálmur Svansson, Brigitte Brugger, Martin Beer, Timm C. Harder, Anne Pohlmann
Pubblicato in: Journal of General Virology, Numero 105, 2024, ISSN 0022-1317
Editore: Society for General Microbiology
DOI: 10.1099/jgv.0.001985

SARS-CoV-2 Infection and Disease Modelling Using Stem Cell Technology and Organoids

Autori: Marta Trevisan, Silvia Riccetti, Alessandro Sinigaglia, Luisa Barzon
Pubblicato in: International Journal of Molecular Sciences, Numero 22/5, 2021, Pagina/e 2356, ISSN 1422-0067
Editore: Multidisciplinary Digital Publishing Institute (MDPI)
DOI: 10.3390/ijms22052356

Apis mellifera filamentous virus from a honey bee gut microbiome survey in Hungary

Autori: Márton Papp, Adrienn Gréta Tóth, László Békési, Róbert Farkas, László Makrai, Gergely Maróti, Norbert Solymosi
Pubblicato in: Scientific Reports, Numero 14, 2024, ISSN 2045-2322
Editore: Nature Publishing Group
DOI: 10.1038/s41598-024-56320-x

Leptospira Status in Sweden during the Past Century, Neglected and Re-Emerging?

Autori: Tanja M. Strand, Eva Olsson Engvall, Elina Lahti, Marika Hjertqvist, Åke Lundkvist
Pubblicato in: Microorganisms, Numero 11, 2023, Pagina/e 1991, ISSN 2076-2607
Editore: MDPI
DOI: 10.3390/microorganisms11081991

Hypopharyngeal Ulcers in COVID-19: Histopathological and Virological Analyses – A Case Report

Autori: Andrea Porzionato, Elena Stocco1, Aron Emmi, Martina Contran, Veronica Macchi, Silvia Riccetti, Alessandro Sinigaglia, Luisa Barzon and Raffaele De Caro
Pubblicato in: Frontiers in Immunology, Numero 12, 2021, ISSN 1664-3224
Editore: Frontiers Media SA
DOI: 10.3389/fimmu.2021.676828

Sindbis virus neutralising antibodies detected in Swedish horses

Autori: Agnes Björnström, Anne-Lie Blomström, Manish Chandra Singh, Jenny C Hesson
Pubblicato in: One Health, Numero 12, 2021, ISSN 2352-7714
Editore: Elsevier BV
DOI: 10.1016/j.onehlt.2021.100242

Antigenic evolution of SARS coronavirus 2

Autori: Anna Z Mykytyn, Ron AM Fouchier, Bart L Haagmans
Pubblicato in: Current Opinion in Virology, Numero 62, 2024, Pagina/e 101349, ISSN 1879-6257
Editore: Elsevier BV
DOI: 10.1016/j.coviro.2023.101349

West Nile virus spread in Europe: Phylogeographic pattern analysis and key drivers

Autori: Lu Lu, Feifei Zhang, Bas B. Oude Munnink, Emmanuelle Munger, Reina S. Sikkema, Styliani Pappa, Katerina Tsioka, Alessandro Sinigaglia, Emanuela Dal Molin, Barbara B. Shih, Anne Günther, Anne Pohlmann, Ute Ziegler, Martin Beer, Rachel A. Taylor, Frederic Bartumeus, Mark Woolhouse, Frank M. Aarestrup, Luisa Barzon, Anna Papa, Samantha Lycett, Marion P. G. Koopmans
Pubblicato in: PLOS Pathogens, Numero 20, 2024, Pagina/e e1011880, ISSN 1553-7374
Editore: PLOS
DOI: 10.1371/journal.ppat.1011880

An advanced sequence clustering and designation workflow reveals the enzootic maintenance of a dominant West Nile virus subclade in Germany

Autori: Pauline Dianne Santos, Anne Günther, Markus Keller, Timo Homeier-Bachmann, Martin H. Groschup, Martin Beer, Dirk Höper and Ute Ziegler
Pubblicato in: BioRxiv, 2022, ISSN 2692-8205
Editore: Cold Spring Harbor Laboratory Press
DOI: 10.1101/2022.10.05.509209

A survey on antimicrobial resistance genes of frequently used probiotic bacteria, 1901 to 2022

Autori: Adrienn Gréta Tóth, Maura Fiona Judge, Sára Ágnes Nagy, Márton Papp, Norbert Solymosi
Pubblicato in: Eurosurveillance, Numero 28, 2023, ISSN 1560-7917
Editore: European Centre for Disease Prevention and Control (ECDC)
DOI: 10.2807/1560-7917.es.2023.28.14.2200272

Monitoring SARS-CoV-2 Circulation and Diversity through Community Wastewater Sequencing, the Netherlands and Belgium

Autori: Ray Izquierdo-Lara, Goffe Elsinga, Leo Heijnen, Bas B. Oude Munnink, Claudia M.E. Schapendonk, David Nieuwenhuijse, Matthijs Kon, Lu Lu, Frank M. Aarestrup, Samantha Lycett, Gertjan Medema, Marion P.G. Koopmans, Miranda de Graaf
Pubblicato in: Emerging Infectious Diseases, Numero 27/5, 2021, Pagina/e 1405-1415, ISSN 1080-6040
Editore: US National Center for Infectious Diseases
DOI: 10.3201/eid2705.204410

Prevalence, Infectious Characteristics and Genetic Diversity of Staphylococcus aureus and Methicillin-Resistant Staphylococcus aureus (MRSA) in Two Raw-Meat Processing Establishments in Northern Greece

Autori: Dimitrios Komodromos, Charalampos Kotzamanidis, Virginia Giantzi, Styliani Pappa, Anna Papa, Antonios Zdragas, Apostolos Angelidis, Daniel Sergelidis
Pubblicato in: Pathogens, Numero 11/11, 2022, ISSN 2076-0817
Editore: Multidisciplinary Digital Publishing Institute (MDPI)
DOI: 10.3390/pathogens11111370

Influenza-A mediated pre-existing immunity levels to SARS-CoV-2 could predict early COVID-19 outbreak dynamics

Autori: Nerea Martín Almazán, Afsar Rahbar, Marcus Carlsson, Tove Hoffman, Linda Kolstad, Bengt Rönnberg, Mattia Russel Pantalone, Ilona Lewensohn Fuchs, Anna Nauclér, Mats Ohlin, Mariusz Sacharczuk, Piotr Religa, Stefan Amér, Christian Molnár, Åke Lundkvist, Andres Susrud, Birger Sörensen, Cecilia Söderberg-Nauclér
Pubblicato in: iScience, Numero 26, 2024, Pagina/e 108441, ISSN 2589-0042
Editore: Cell Press
DOI: 10.1016/j.isci.2023.108441

Integrating Global Citizen Science Platforms to Enable Next-Generation Surveillance of Invasive and Vector Mosquitoes

Autori: Ryan M. Carney, Connor Mapes, Russanne D. Low, Alex Long, Anne Bowser, David Durieux, Karlene Rivera, Berj Dekramanjian, Frederic Bartumeus, Daniel Guerrero, Carrie E. Seltzer, Farhat Azam, Sriram Chellappan and John R. B. Palmer
Pubblicato in: Insects, Numero 13/8, 2022, ISSN 2075-4450
Editore: Multidisciplinary Digital Publishing Institute (MDPI)
DOI: 10.3390/insects13080675

Time-series sewage metagenomics distinguishes seasonal, human-derived and environmental microbial communities potentially allowing source-attributed surveillance

Autori: Ágnes Becsei, Alessandro Fuschi, Saria Otani, Ravi Kant, Ilja Weinstein, Patricia Alba, József Stéger, Dávid Visontai, Christian Brinch, Miranda de Graaf, Claudia M. E. Schapendonk, Antonio Battisti, Alessandra De Cesare, Chiara Oliveri, Fulvia Troja, Tarja Sironen, Olli Vapalahti, Frédérique Pasquali, Krisztián Bányai, Magdolna Makó, Péter Pollner, Alessandra Merlotti, Marion Koopmans,
Pubblicato in: Nature Communications, Numero 15, 2024, ISSN 2041-1723
Editore: Nature Publishing Group
DOI: 10.1038/s41467-024-51957-8

Normalisation of SARS-CoV-2 concentrations in wastewater: The use of flow, electrical conductivity and crAssphage

Autori: Jeroen Langeveld, Remy Schilperoort, Leo Heijnen, Goffe Elsinga, Claudia E.M. Schapendonk, Ewout Fanoy, Evelien I.T. de Schepper, Marion P.G. Koopmans, Miranda de Graaf and Gertjan Medema
Pubblicato in: Science of the Total Environment, Numero 865, 2022, ISSN 0048-9697
Editore: Elsevier BV
DOI: 10.1016/j.scitotenv.2022.161196

Timeliness of online COVID-19 reports from official sources

Autori: Laura Espinosa, Olesia Altunina, and Marcel Salathé
Pubblicato in: Frontiers in Public Health, Numero 10, 2023, ISSN 2296-2565
Editore: Future Biologics
DOI: 10.3389/fpubh.2022.1027812

Kinetics of Neutralizing Antibodies of COVID-19 Patients Tested Using Clinical D614G, B.1.1.7, and B 1.351 Isolates in Microneutralization Assays

Autori: Jenni Virtanen, Ruut Uusitalo, Essi M. Korhonen, Kirsi Aaltonen, Teemu Smura, Suvi Kuivanen, Sari H. Pakkanen, Sointu Mero, Anu Patjas, Marianna Riekkinen, Anu Kantele, Visa Nurmi, Klaus Hedman, Jussi Hepojoki,Tarja Sironen, Eili Huhtamo and Olli Vapalahti
Pubblicato in: Viruses, Numero 13/6, 2021, ISSN 1999-4915
Editore: Multidisciplinary Digital Publishing Institute (MDPI)
DOI: 10.3390/v13060996

ClusTRace, a bioinformatic pipeline for analyzing clusters in virus phylogenies

Autori: Ilya Plyusnin1, Phuoc Thien Truong Nguyen, Tarja Sironen, Olli Vapalahti, Teemu Smura and Ravi Kant
Pubblicato in: BMC Bioinformatics, Numero 23/196, 2022, ISSN 1471-2105
Editore: BioMed Central
DOI: 10.1186/s12859-022-04709-8

Nanobody engineering for SARS-CoV-2 neutralization and detection

Autori: Liina Hannula, Suvi Kuivanen, Jonathan Lasham, Ravi Kant, Lauri Kareinen, Mariia Bogacheva, Tomas Strandin, Tarja Sironen, Vivek Sharma, Petri Saviranta, Anja Kipar, Olli Vapalahti, Juha T. Huiskonen, Ilona Rissanen
Pubblicato in: BioRxiv, 2022, ISSN 2692-8205
Editore: Cold Spring Harbor Laboratory Press
DOI: 10.1101/2022.09.14.507920

Association of health, nutrition, and socioeconomic variables with global antimicrobial resistance: a modelling study

Autori: Patrick Murigu Kamau Njage, Bram van Bunnik, Patrick Munk, Ana Rita Pinheiro Marques, Frank M Aarestrup
Pubblicato in: The Lancet Planetary Health, Numero 7, 2023, Pagina/e e888-e899, ISSN 2542-5196
Editore: The Lancet
DOI: 10.1016/s2542-5196(23)00213-9

Experimental Infection and Genetic Characterization of Two Different Capripox Virus Isolates in Small Ruminants

Autori: Janika Wolff, Jacqueline King, Tom Moritz, Anne Pohlmann, Donata Hoffmann, Martin Beer, Bernd Hoffmann
Pubblicato in: Viruses, Numero 12/10, 2020, Pagina/e 1098, ISSN 1999-4915
Editore: Multidisciplinary Digital Publishing Institute (MDPI)
DOI: 10.3390/v12101098

Systematic detection of co-infection and intra-host recombination in more than 2 million global SARS-CoV-2 samples

Autori: Orsolya Anna Pipek, Anna Medgyes-Horváth, József Stéger, Krisztián Papp, Dávid Visontai, Marion Koopmans, David Nieuwenhuijse, Bas B. Oude Munnink, null null, Guy Cochrane, Nadim Rahman, Carla Cummins, David Yu Yuan, Sandeep Selvakumar, Milena Mansurova, Colman O’Cathail, Alexey Sokolov, Ross Thorne, Nathalie Worp, Clara Amid, István Csabai
Pubblicato in: Nature Communications, Numero 15, 2024, ISSN 2041-1723
Editore: Nature Publishing Group
DOI: 10.1038/s41467-023-43391-z

Experimental SARS-CoV-2 Infection of Bank Voles

Autori: Lorenz Ulrich, Anna Michelitsch, Nico Halwe, Kerstin Wernike, Donata Hoffmann, Martin Beer
Pubblicato in: Emerging Infectious Diseases, Numero 27/4, 2021, Pagina/e 1193-1195, ISSN 1080-6040
Editore: US National Center for Infectious Diseases
DOI: 10.3201/eid2704.204945

Phylogenetic Investigation of Norovirus Transmission between Humans and Animals

Autori: Nele Villabruna, Ray W. Izquierdo Lara, Judit Szarvas, Marion P. G. Koopmans, Miranda de Graaf
Pubblicato in: Viruses, Numero 12/11, 2020, Pagina/e 1287, ISSN 1999-4915
Editore: Multidisciplinary Digital Publishing Institute (MDPI)
DOI: 10.3390/v12111287

Pathogens Detected in Questing Ixodes ricinus Ticks in a Mountainous Area in Greece

Autori: Katerina Tsioka, Anastasios Saratsis, Styliani Pappa, Anna Papa
Pubblicato in: Pathogens, Numero 13, 2024, Pagina/e 449, ISSN 2076-0817
Editore: Multidisciplinary Digital Publishing Institute (MDPI)
DOI: 10.3390/pathogens13060449

COVID-19 in health-care workers in three hospitals in the south of the Netherlands: a cross-sectional study

Autori: Reina S Sikkema, Suzan D Pas, David F Nieuwenhuijse, Áine O'Toole, Jaco Verweij, Anne van der Linden, Irina Chestakova, Claudia Schapendonk, Mark Pronk, Pascal Lexmond, Theo Bestebroer, Ronald J Overmars, Stefan van Nieuwkoop, Wouter van den Bijllaardt, Robbert G Bentvelsen, Miranda M L van Rijen, Anton G M Buiting, Anne J G van Oudheusden, Bram M Diederen, Anneke M C Bergmans, Annemiek van der E
Pubblicato in: The Lancet Infectious Diseases, Numero 20/11, 2020, Pagina/e 1273-1280, ISSN 1473-3099
Editore: The Lancet Publishing Group
DOI: 10.1016/s1473-3099(20)30527-2

Diagnostic Potential of a Luminex-Based Coronavirus Disease 2019 Suspension Immunoassay (COVID-19 SIA) for the Detection of Antibodies against SARS-CoV-2

Autori: Tove Hoffman, Linda Kolstad, Johanna F. Lindahl, Bo Albinsson, Anders Bergqvist, Bengt Rönnberg and Åke Lundkvist
Pubblicato in: Viruses, Numero 13/993, 2021, ISSN 1999-4915
Editore: Multidisciplinary Digital Publishing Institute (MDPI)
DOI: 10.3390/v13060993

Red knots in Europe: a dead end host species or a new niche for highly pathogenic avian influenza?

Autori: Jacqueline King, Anne Pohlmann, Andreas Bange, Elisabeth Horn, Bernd Hälterlein, Angele Breithaupt, Anja Globig, Anne Günther, Angie Kelm, Christian Wiedemann, Christian Grund, Karena Haecker, Stefan Garthe, Timm Harder, Martin Beer, Philipp Schwemmer
Pubblicato in: Journal of General Virology, Numero 105, 2024, ISSN 0022-1317
Editore: Society for General Microbiology
DOI: 10.1099/jgv.0.002003

The genetics of highly pathogenic avian influenza viruses of subtype H5 in Germany, 2006–2020

Autori: Jacqueline King, Timm Harder, Franz J. Conraths, Martin Beer, Anne Pohlmann
Pubblicato in: Transboundary and Emerging Diseases, Numero 68/3, 2021, Pagina/e 1136-1150, ISSN 1865-1674
Editore: Blackwell-Wiss.-Verl
DOI: 10.1111/tbed.13843

Genomic analysis of sewage from 101 countries reveals global landscape of antimicrobial resistance

Autori: Patrick Munk, Christian Brinch, Frederik Duus Møller, Thomas N. Petersen, Rene S. Hendriksen, Anne Mette Seyfarth, Jette S. Kjeldgaard, Christina Aaby Svendsen, Bram van Bunnik, Fanny Berglund, null null, Artan Bego, Pablo Power, Catherine Rees, Dionisia Lambrinidis, Elizabeth Heather Jakobsen Neilson, Karen Gibb, Kris Coventry, Peter Collignon, Susan Cassar, Franz Allerberger, Anowara Begum, Zen
Pubblicato in: Nature Communications, Numero 13, 2023, ISSN 2041-1723
Editore: Nature Publishing Group
DOI: 10.1038/s41467-022-34312-7

Human Virus Genomes Are Enriched in Conserved Adenine/Thymine/Uracil Multiple Tracts That Pause Polymerase Progression

Autori: Emanuela Ruggiero, Enrico Lavezzo, Marco Grazioli, Irene Zanin, Maja Marušič, Janez Plavec, Sara N. Richter and Stefano Toppo
Pubblicato in: Frontiers in Microbiology, Numero 13, 2022, ISSN 1664-302X
Editore: Frontiers Media
DOI: 10.3389/fmicb.2022.915069

Human West Nile Virus Lineage 2 Infection: Epidemiological, Clinical, and Virological Findings

Autori: Monia Pacenti, Alessandro Sinigaglia, Elisa Franchin, Silvana Pagni, Enrico Lavezzo, Fabrizio Montarsi, Gioia Capelli, Luisa Barzon
Pubblicato in: Viruses, Numero 12/4, 2020, Pagina/e 458, ISSN 1999-4915
Editore: Multidisciplinary Digital Publishing Institute (MDPI)
DOI: 10.3390/v12040458

Suppression of a SARS-CoV-2 outbreak in the Italian municipality of Vo’

Autori: Enrico Lavezzo, Elisa Franchin, Constanze Ciavarella, Gina Cuomo-Dannenburg, Luisa Barzon, Claudia Del Vecchio, Lucia Rossi, Riccardo Manganelli, Arianna Loregian, Nicolò Navarin, Davide Abate, Manuela Sciro, Stefano Merigliano, Ettore De Canale, Maria Cristina Vanuzzo, Valeria Besutti, Francesca Saluzzo, Francesco Onelia, Monia Pacenti, Saverio G. Parisi, Giovanni Carretta, Daniele Donato, Lucia
Pubblicato in: Nature, Numero 584/7821, 2020, Pagina/e 425-429, ISSN 0028-0836
Editore: Nature Publishing Group
DOI: 10.1038/s41586-020-2488-1

Filling the gaps in the global prevalence map of clinical antimicrobial resistance

Autori: Rik Oldenkamp, Constance Schultsz, Emiliano Mancini, Antonio Cappuccio
Pubblicato in: Proceedings of the National Academy of Sciences, Numero 118/1, 2020, Pagina/e e2013515118, ISSN 0027-8424
Editore: National Academy of Sciences
DOI: 10.1073/pnas.2013515118

Next-generation diagnostics: virus capture facilitates a sensitive viral diagnosis for epizootic and zoonotic pathogens including SARS-CoV-2

Autori: Claudia Wylezich, Sten Calvelage, Kore Schlottau, Ute Ziegler, Anne Pohlmann, Dirk Höper, Martin Beer
Pubblicato in: Microbiome, Numero 9/1, 2021, ISSN 2049-2618
Editore: BMC
DOI: 10.1186/s40168-020-00973-z

Targeting the NS2B-NS3 protease of tick-borne encephalitis virus withpan-flaviviral protease inhibitors

Autori: Dario Akaberi, Amanda Båhlström, Praveen K. Chinthakindi, Tomas Nyman, Anja Sandström, Josef D. Järhult, Navaneethan Palanisamy, Åke Lundkvist and Johan Lennerstrand
Pubblicato in: Antiviral Research, Numero 190, 2021, ISSN 0166-3542
Editore: Elsevier BV
DOI: 10.1016/j.antiviral.2021.105074

SARS-CoV-2 spike D614G change enhances replication and transmission

Autori: Bin Zhou, Tran Thi Nhu Thao, Donata Hoffmann, Adriano Taddeo, Nadine Ebert, Fabien Labroussaa, Anne Pohlmann, Jacqueline King, Silvio Steiner, Jenna N. Kelly, Jasmine Portmann, Nico Joel Halwe, Lorenz Ulrich, Bettina Salome Trüeb, Xiaoyu Fan, Bernd Hoffmann, Li Wang, Lisa Thomann, Xudong Lin, Hanspeter Stalder, Berta Pozzi, Simone de Brot, Nannan Jiang, Dan Cui, Jaber Hossain, Malania M. Wilson,
Pubblicato in: Nature, Numero 592/7852, 2021, Pagina/e 122-127, ISSN 0028-0836
Editore: Nature Publishing Group
DOI: 10.1038/s41586-021-03361-1

Co‐infections: Simultaneous detections of West Nile virus and Usutu virus in birds from Germany

Autori: Pauline Dianne Santos, Friederike Michel, Claudia Wylezich, Dirk Höper, Markus Keller, Cora M. Holicki, Claudia A. Szentiks, Martin Eiden, Aemero Muluneh, Antonie Neubauer‐Juric, Sabine Thalheim, Anja Globig, Martin Beer, Martin H. Groschup, Ute Ziegler
Pubblicato in: Transboundary and Emerging Diseases, 2021, ISSN 1865-1674
Editore: Blackwell-Wiss.-Verl
DOI: 10.1111/tbed.14050

Neutralising reactivity against SARS-CoV-2 Delta and Omicron variants by vaccination and infection history

Autori: Enrico Lavezzo, Monia Pacenti, Laura Manuto, Caterina Boldrin, Margherita Cattai, Marco Grazioli, Federico Bianca, Margherita Sartori, Federico Caldart, Gioele Castelli, Michele Nicoletti, Eleonora Nieddu, Elisa Salvadoretti, Beatrice Labella, Ludovico Fava, Maria Cristina Vanuzzo, Vittoria Lisi, Maria Antonello, Carmela Ileana Grimaldi, Chiara Zulian, Claudia Del Vecchio, Mario Plebani, Andrea Pa
Pubblicato in: Genome Medicine, Numero 14/61, 2022, ISSN 1756-994X
Editore: BioMed Central
DOI: 10.1186/s13073-022-01066-2

Highly pathogenic avian influenza virus incursions of subtype H5N8, H5N5, H5N1, H5N4, and H5N3 in Germany during 2020-21

Autori: Jacqueline King, Timm Harder, Anja Globig, Lina Stacker, Anne Günther, Christian Grund, Martin Beer, Anne Pohlmann
Pubblicato in: Virus Evolution, Numero 8/1, 2022, ISSN 2057-1577
Editore: Oxford University Press
DOI: 10.1093/ve/veac035

The next phase of SARS-CoV-2 surveillance: real-time molecular epidemiology

Autori: Bas B Oude Munnink, Nathalie Worp, David F Nieuwenhuijse, Reina S Sikkema, Bart Haagmans, Ron A M Fouchier, Marion Koopmans
Pubblicato in: Nature Medicine, Numero 27/9, 2021, ISSN 1078-8956
Editore: Nature Publishing Group
DOI: 10.1038/s41591-021-01472-w

Nephropathia Epidemica Caused by Puumala Virus in Bank Voles, Scania, Southern Sweden

Autori: Jiaxin Ling, Elin Economou Lundeberg, Anishia Wasberg, Inês R. Faria, Sanja Vucicevic, Bo Settergren, Åke Lundkvist
Pubblicato in: Emerging Infectious Diseases, Numero 30, 2024, ISSN 1080-6040
Editore: US National Center for Infectious Diseases
DOI: 10.3201/eid3004.231414

Deep learning identification for citizen science surveillance of tiger mosquitoes

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A 10-Minute “Mix and Read” Antibody Assay for SARS-CoV-2

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Introduction and Rapid Spread of SARS-CoV-2 Omicron Variant and Dynamics of BA.1 and BA.1.1 Sublineages, Finland, December 2021

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Common Laboratory Mice Are Susceptible to Infection with the SARS-CoV-2 Beta Variant

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Evaluation of Production Lots of a Rapid Point-of-Care Lateral Flow Serological Test Intended for Identification of IgM and IgG against the N-Terminal Part of the Spike Protein (S1) of SARS-CoV-2

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Rapid SARS-CoV-2 whole-genome sequencing and analysis for informed public health decision-making in the Netherlands

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Emergence and potential transmission route of avian influenza A (H5N1) virus in domestic cats in Poland, June 2023

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Genetic data in the fight against pandemics

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One Day in Denmark: Comparison of Phenotypic and Genotypic Antimicrobial Susceptibility Testing in Bacterial Isolates From Clinical Settings

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Clusters of science and health related Twitter users become more isolated during the COVID-19 pandemic

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Wolbachia prevalence in the vector species Culex pipiens and Culex torrentium in a Sindbis virus-endemic region of Sweden

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Sindbis Virus Infection in Non-Blood-Fed Hibernating Culex pipiens Mosquitoes in Sweden

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Rapid multiplex MinION nanopore sequencing workflow for Influenza A viruses

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Modeling the impact of surveillance activities combined with physical distancing interventions on COVID-19 epidemics at a local level

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The potential of Hungarian bauxite residue isolates for biotechnological applications

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First detection of Ixodiphagus hookeri (Hymenoptera: Encyrtidae) in Ixodes ricinus ticks (Acari: Ixodidae) from multiple locations in Hungary

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Image-based and machine learning-guided multiplexed serology test for SARS-CoV-2

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Incidence Trends for SARS-CoV-2 Alpha and Beta Variants, Finland, Spring 2021

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Mis-tweeting communication: a Vaccine Hesitancy analysis among twitter users in Italy

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SARS-CoV-2 in hospital indoor environments is predominantly non-infectious

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Emergence of ST39 carbapenem-resistant Klebsiella pneumoniae producing VIM-1 and KPC-2

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Predicting Spatial Patterns of Sindbis Virus (SINV) Infection Risk in Finland Using Vector, Host and Environmental Data

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Transmission of SARS-CoV-2 on mink farms between humans and mink and back to humans

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A curated data resource of 214K metagenomes for characterization of the global antimicrobial resistome

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Mosquito alert: leveraging citizen science to create a GBIF mosquito occurrence dataset

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Differential plasmacytoid dendritic cell phenotype and type I Interferon response in asymptomatic and severe COVID-19 infection

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Modelling West Nile Virus and Usutu Virus Pathogenicity in Human Neural Stem Cells

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Connect to Protect: Dynamics and Genetic Connections of Highly Pathogenic Avian Influenza Outbreaks in Poultry from 2016 to 2021 in Germany

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Detection of antimicrobial resistance genes in urban air

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Rapid SARS-CoV-2 Intra-Host and Within-Household Emergence of Novel Haplotypes

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Metagenomic analysis of sewage for surveillance of bacterial pathogens: A release experiment to determine sensitivity

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A glimpse of antimicrobial resistance gene diversity in kefir and yoghurt

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Autochthonous dengue outbreak in Italy 2020: Clinical, virological and entomological findings

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Neuropilin-1 facilitates SARS-CoV-2 cell entry and infectivity

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Discovery of Vibrio cholerae in Urban Sewage in Copenhagen, Denmark

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Seroprevalence of tick-borne encephalitis virus and vaccination coverage of tick-borne encephalitis, Sweden, 2018 to 2019

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Susceptibility of Raccoon Dogs for Experimental SARS-CoV-2 Infection

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Highly Divergent SARS-CoV-2 Alpha Variant in Chronically Infected Immunocompromised Person

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Early start of seasonal transmission and co-circulation of West Nile virus lineage 2 and a newly introduced lineage 1 strain in northern Italy, June 2022

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Enhanced Viral Metagenomics with Lazypipe 2

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Intranasal trimeric sherpabody inhibits SARS-CoV-2 including recent immunoevasive Omicron subvariants

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West Nile Virus in Culex Mosquitoes in Central Macedonia, Greece, 2022

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Synergistic Block of SARS-CoV-2 Infection by Combined Drug Inhibition of the Host Entry Factors PIKfyve Kinase and TMPRSS2 Protease

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Scaling neighbor joining to one million taxa with dynamic and heuristic neighbor joining

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Antimicrobial resistance gene lack in tick-borne pathogenic bacteria

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Pubblicato in: Scientific Reports, Numero 13, 2023, ISSN 2045-2322
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At the tip of an iceberg: citizen science and active surveillance collaborating to broaden the known distribution of Aedes japonicus in Spain

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The central role of Italy in the spatial spread of USUTU virus in Europe

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Infections with highly pathogenic avian influenza A virus (HPAIV) H5N8 in harbor seals at the German North Sea coast, 2021

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Automated download and clean-up of family-specific databases for kmer-based virus identification

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Mobilisation and analyses of publicly available SARS-CoV-2 data for pandemic responses

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Antimicrobial resistance determinants in silage

Autori: Sára Ágnes Nagy, Adrienn Gréta Tóth, Márton Papp, Selçuk Kaplan & Norbert Solymosi
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Comparative pathogenesis of COVID-19, MERS, and SARS in a nonhuman primate model

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High number of HPAI H5 virus infections and antibodies in wild carnivores in the Netherlands, 2020–2022

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Importance of mobile genetic elements for dissemination of antimicrobial resistance in metagenomic sewage samples across the world

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History and classification of Aigai virus (formerly Crimean-Congo haemorrhagic fever virus genotype VI)

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Identification of mutations in SARS-CoV-2 PCR primer regions

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Modelling antimicrobial resistance transmission to guide personalized antimicrobial stewardship interventions and infection control policies in healthcare setting: a pilot study

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Flankophile: a bioinformatic pipeline for prokaryotic genomic synteny analysis

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COVID-19 Neuropathology: evidence for SARS-CoV-2 invasion of Human Brainstem Nuclei

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Vector competence of Swedish Culex pipiens mosquitoes for Usutu virus

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Natural diversity of the honey bee (Apis mellifera) gut bacteriome in various climatic and seasonal states

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Genomic monitoring of SARS-CoV-2 uncovers an Nsp1 deletion variant that modulates type I interferon response

Autori: Jing-wen Lin, Chao Tang, Han-cheng Wei, Baowen Du, Chuan Chen, Minjin Wang, Yongzhao Zhou, Ming-xia Yu, Lu Cheng, Suvi Kuivanen, Natacha S. Ogando, Lev Levanov, Yuancun Zhao, Chang-ling Li, Ran Zhou, Zhidan Li, Yiming Zhang, Ke Sun, Chengdi Wang, Li Chen, Xia Xiao, Xiuran Zheng, Sha-sha Chen, Zhen Zhou, Ruirui Yang, Dan Zhang, Mengying Xu, Junwei Song, Danrui Wang, Yupeng Li, ShiKun Lei, Wanqin Ze
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Sindbis virus outbreak and evidence for geographical expansion in Finland, 2021

Autori: Maija T Suvanto, Ruut Uusitalo, Eveline Otte im Kampe, Tytti Vuorinen, Satu Kurkela, Olli Vapalahti, Timothée Dub, Eili Huhtamo and Essi M Korhonen
Pubblicato in: Euro Surveillance, Numero 27/31, 2022, ISSN 1025-496X
Editore: Centre Europeen pour la Surveillance Epidemiologique du SIDA
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Mobile Antimicrobial Resistance Genes in Probiotics

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Pubblicato in: Antibiotics, Numero 10/11, 2021, ISSN 2078-2489
Editore: Multidisciplinary Digital Publishing Institute (MDPI)
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Occurrence of Antibodies against SARS-CoV-2 in the Domestic Cat Population of Germany

Autori: Anna Michelitsch, Donata Hoffmann, Kerstin Wernike, Martin Beer
Pubblicato in: Vaccines, Numero 8/4, 2020, Pagina/e 772, ISSN 2076-393X
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Association between guilds of birds in the African-Western Palaearctic region and the tick species Hyalomma rufipes, one of the main vectors of Crimean-Congo hemorrhagic fever virus

Autori: Tove Hoffman, Laura G. Carra, Patrik Öhagen, Thord Fransson, Christos Barboutis, Dario Piacentini, Jordi Figuerola, Yosef Kiat, Alejandro Onrubia, Thomas G.T. Jaenson, Kenneth Nilsson, Åke Lundkvist, and Björn Olsen
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Novel HPAIV H5N8 Reassortant (Clade 2.3.4.4b) Detected in Germany

Autori: Jacqueline King, Christoph Schulze, Andreas Engelhardt, Andreas Hlinak, Sara-Lisa Lennermann, Kerstin Rigbers, Jasmin Skuballa, Christoph Staubach, Thomas C. Mettenleiter, Timm Harder, Martin Beer, Anne Pohlmann
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Seasonal coronavirus-specific B cells with limited SARS-CoV-2 cross-reactivity dominate the IgG response in severe COVID-19.

Autori: Muriel Aguilar-Bretones; Brenda M. Westerhuis; Matthijs P. Raadsen; Erwin de Bruin; Felicity D. Chandler; Nisreen M.A. Okba; Bart L. Haagmans; Thomas Langerak; Henrik Endeman; Johannes P. C. van den Akker; Diederik Gommers; Eric C. M. van Gorp; Corine H. GeurtsvanKessel; Rory D. de Vries; Ron A. M. Fouchier; Barry Rockx; Marion Koopmans; Gijsbert P. van Nierop
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Antigenic cartography of SARS-CoV-2 reveals that Omicron BA.1 and BA.2 are antigenically distinct.

Autori: Mykytyn, Anna Z; Rissmann, Melanie; Kok, Adinda; Rosu, Miruna E; Schipper, Debby; Breugem, Tim I; van den Doel, Petra B; Chandler, Felicity; Bestebroer, Theo; de Wit, Maurice; van Royen, Martin E; Molenkamp, Richard; Oude Munnink, Bas B; de Vries, Rory D; GeurtsvanKessel, Corine; Smith, Derek J; Koopmans, Marion P G; Rockx, Barry; Lamers, Mart M; Fouchier, Ron A M; Haagmans, Bart L.
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Longitudinal analysis of T cell receptor repertoires reveals shared patterns of antigen-specific response to SARS-CoV-2 infection

Autori: Rachel M Gittelman, Enrico Lavezzo, Thomas M Snyder, H Jabran Zahid, Cara L Carty, Rebecca Elyanow, Sudeb Dalai, Ilan Kirsch, Lance Baldo, Laura Manuto, Elisa Franchin, Claudia Del Vecchio, Monia Pacenti, Caterina Boldrin, Margherita Cattai, Francesca Saluzzo, Andrea Padoan, Mario Plebani, Fabio Simeoni, Jessica Bordini, Nicola I Lorè, Dejan Lazarević, Daniela M Cirillo, Paolo Ghia, Stefano Topp
Pubblicato in: JCI Insight, 2022, ISSN 2077-0383
Editore: Multidisciplinary Digital Publishing Institute (MDPI)
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Surveillance and risk assessment for early detection of emerging infectious diseases in livestock

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Evaluation of the use of alternative sample types for mosquito-borne flavivirus surveillance: Using Usutu virus as a model

Autori: Nnomzie C. Atama, Irina V. Chestakova, Erwin de Bruin, Tijs J. van den Berg, Emmanuelle Munger, Chantal Reusken, Bas B. Oude Munnink, Henk van der Jeugd, Judith M.A. van den Brand, Marion P.G. Koopmans and Reina S. Sikkema
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Neonatal Bloodstream Infection with Ceftazidime-Avibactam-Resistant blaKPC-2-Producing Klebsiella pneumoniae Carrying blaVEB-25

Autori: Charalampos Zarras, Elias Iosifidis, Maria Simitsopoulou, Styliani Pappa, Angeliki Kontou, Emmanuel Roilides, Anna Papa
Pubblicato in: Antibiotics, Numero 12, 2023, Pagina/e 1290, ISSN 2079-6382
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Comparing full variation profile analysis with the conventional consensus method in SARS-CoV-2 phylogeny

Autori: Regina Nóra Fiam, Csabai István, Solymosi Norbert
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MINTyper: an outbreak-detection method for accurate and rapid SNP typing of clonal clusters with noisy long reads

Autori: Malte B Hallgren, Søren Overballe-Petersen, Ole Lund, Henrik Hasman, Philip T L C Clausen
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Experimental Infection of Mink with SARS-COV-2 Omicron Variant and Subsequent Clinical Disease

Autori: Jenni Virtanen, Kirsi Aaltonen, Kristel Kegler, Vinaya Venkat, Thanakorn Niamsap, Lauri Kareinen, Rasmus Malmgren, Olga Kivelä, Nina Atanasova, Pamela Österlund, Teemu Smura, Antti Sukura, Tomas Strandin, Lara Dutra, Olli Vapalahti, Heli Nordgren, Ravi Kant and Tarja Sironen
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Intranasal inhibitor broadly blocks SARS-CoV-2 including recent highly immunoevasive Omicron subvariants

Autori: Anna R. Mäkelä, Hasan Uğurlu, Liina Hannula, Ravi Kant, Petja Salminen, Riku Fagerlund, Sanna Mäki, Anu Haveri, Tomas Strandin, Lauri Kareinen, Jussi Hepojoki, Suvi Kuivanen, Lev Levanov, Arja Pasternack, Rauno A. Naves, Olli Ritvos, Pamela Österlund, Tarja Sironen, Olli Vapalahti, Anja Kipar, Juha T. Huiskonen, Ilona Rissanen and Kalle Saksela
Pubblicato in: BioRxiv, 2022, ISSN 2692-8205
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Iceland as Stepping Stone for Spread of Highly Pathogenic Avian Influenza Virus between Europe and North America

Autori: Anne Günther, Oliver Krone, Vilhjalmur Svansson, Anne Pohlmann, Jacqueline King, Gunnar Thor Hallgrimsson, Kristinn Haukur Skarphéðinsson, Heiða Sigurðardóttir, Stefán Ragnar Jónsson, Martin Beer, Brigitte Brugger, Timm Harder
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Editore: US National Center for Infectious Diseases
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West Nile Virus spread in Europe - phylogeographic pattern analysis and key drivers

Autori: Lu Lu, Feifei Zhang, Bas B. Oude Munnink, Emmanuelle Munger, Reina S. Sikkema, Styliani Pappa, Katerina Tsioka, Alessandro Sinigaglia, Emanuela Dal Molin, Barbara B. Shih, Anne Günther, Anne Pohlmann, Martin Beer, Rachel A. Taylor, Frederic Bartumeus, Mark Woolhouse, Frank M. Aarestrup, Luisa Barzon, Anna Papa and Samantha Lycett
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Editore: Cold Spring Harbor Laboratory Press
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SARS-CoV-2 Neutralizing Human Antibodies Protect Against Lower Respiratory Tract Disease in a Hamster Model

Autori: Bart L Haagmans, Danny Noack, Nisreen M A Okba, Wentao Li, Chunyan Wang, Theo Bestebroer, Rory de Vries, Sander Herfst, Dennis de Meulder, Elwin Verveer, Peter van Run, Mart M Lamers, Bart Rijnders, Casper Rokx, Frank van Kuppeveld, Frank Grosveld, Dubravka Drabek, Corine Geurts van Kessel, Marion Koopmans, Berend Jan Bosch, Thijs Kuiken, Barry Rockx
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Spa diversity and genetic characterization of t127 methicillin-resistant Staphylococcus aureus in a tertiary Greek hospital

Autori: Katerina Tsergouli, Theodoros Karampatakis, Konstantina Kontopoulou, Styliani Pappa, Parthena Kampouridou, Georgia Kallasidou, Katerina Tsioka, Sophia Zotou, Εleftheria-Eugenia Farmaki, Charalampos Kotzamanidis and Anna Papa
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The increasing complexity of arbovirus serology: An in-depth systematic review on cross-reactivity

Autori: Louella M. R. Kasbergen, David F. Nieuwenhuijse, Erwin de Bruin, Reina S. Sikkema, Marion P. G. Koopmans
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Risks of SARS-CoV-2 transmission between free-ranging animals and captive mink in the Netherlands

Autori: Reina S. Sikkema, Lineke Begeman, René Janssen, Wendy J. Wolters, Corine Geurtsvankessel, Erwin de Bruin, Renate W. Hakze-van der Honing, Phaedra Eblé, Wim H.M. van der Poel, Judith M.A. van den Brand, Roy Slaterus, Maurice La Haye, Marion P.G. Koopmans, Francisca Velkers and Thijs Kuiken
Pubblicato in: Transboundary and Emerging Diseases, 2022, ISSN 1865-1674
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Rapid spread of a new West Nile virus lineage 1 associated with increased risk of neuroinvasive disease during a large outbreak in northern Italy, 2022: One Health analysis.

Autori: Barzon L, Pacenti M, Montarsi F, Fornasiero D, Gobbo F, Quaranta E, Monne I, Fusaro A, Volpe A, Sinigaglia A, Riccetti S, Molin ED, Satto S, Lisi V, Gobbi F, Galante S, Feltrin G, Valeriano V, Favero L, Russo F, Mazzucato M, Bortolami A, Mulatti P, Terregino C, Capelli G.
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Editore: B.C. Decker Inc.
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Autoantibodies neutralizing type I IFNs underlie West Nile virus encephalitis in ∼40% of patients

Autori: Adrian Gervais, Francesca Rovida, Maria Antonietta Avanzini, Stefania Croce, Astrid Marchal, Shih-Ching Lin, Alessandro Ferrari, Christian W. Thorball, Orianne Constant, Tom Le Voyer, Quentin Philippot, Jérémie Rosain, Micol Angelini, Malena Pérez Lorenzo, Lucy Bizien, Cristian Achille, Francesca Trespidi, Elisa Burdino, Irene Cassaniti, Daniele Lilleri, Chiara Fornara, José Camilla Sammartino
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Editore: Rockefeller University Press
DOI: 10.1084/jem.20230661

Assessing West Nile virus (WNV) and Usutu virus (USUV) exposure in bird ringers in the Netherlands: a high-risk group for WNV and USUV infection?

Autori: Chiara de Bellegarde de Saint Lary, Louella M.R. Kasbergen, Patricia C.J.L. Bruijning-Verhagen, Henk van der Jeugd, Felicity Chandler, Boris M. Hogema, Hans L. Zaaijer, Fiona R.M. van der Klis, Luisa Barzon, Erwin de Bruin, Quirine ten Bosch, Marion P.G. Koopmans, Reina S. Sikkema, Leo G. Visser
Pubblicato in: One Health, Numero 16, 2024, Pagina/e 100533, ISSN 2352-7714
Editore: Elsevier
DOI: 10.1016/j.onehlt.2023.100533

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