1. A half-century of nuclear research, education and training : Story of the JSI TRIGA reactorLuka Snoj, Klemen Ambrožič, L. Barbot, Ljudmila Benedik, Arne Bratkič, Ivana Capan, C. Reynard-Carette, Vladimir Cindro, Dušan Čalič, Christophe Destouches, B. Geslot, Alireza Haghighat, Romain Henry, Milena Horvat, Elchin Huseynov, Gregoire De Izzara, Radojko Jaćimović, Anže Jazbec, Igor Jenčič, Robert Jeraj, Malcolm Joyce, Domen Kotnik, Gregor Kramberger, Igor Lengar, Jan Malec, Igor Mandić, Valerio Mascolino, Vid Merljak, Marko Mikuž, Gilles Noguere, Julijan Peric, Anže Pungerčič, Vladimir Radulović, Sebastjan Rupnik, Borut Smodiš, Zdenka Šlejkovec, Marko Štrok, Žiga Štancar, Ingrid Švajger, N. Thiollay, Iztok Tiselj, Andrej Trkov, Bojan Žefran, Gašper Žerovnik, Ylenia Žiber, Tanja Goričanec, 2025, pregledni znanstveni članek Povzetek: The TRIGA Mark II research reactor at the Jožef Stefan Institute is a key facility in the field of nuclear research, characterized by its versatility and applicability in a wide range of scientific disciplines. This document highlights its operational history, contributions to nuclear safety, education and various scientific applications, including advances in reactor and radiation physics, neutron activation analysis, environmental science and even contributions to the fight against the COVID-19 pandemic. It highlights the reactor’s significant role in fostering international collaborations, improving computer modeling techniques for nuclear research, and providing invaluable educational experiences. The great versatility and applicability of the JSI TRIGA reactor is emphasized by its adaptability to various research needs and its ability to enable groundbreaking studies in both fundamental and applied sciences
Objavljeno v DiRROS: 11.04.2025; Ogledov: 901; Prenosov: 233
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2. A primer on the analysis of high-throughput sequencing data for detection of plant virusesDenis Kutnjak, Lucie Tamisier, Ian Adams, Neil Boonham, Thierry Candresse, Michela Chiumenti, Kris De Jonghe, Jan F. Kreuze, Marie Lefebvre, Goncalo Silva, Martha Malapi-Wight, Paolo Margaria, Irena Mavrič Pleško, Sam McGreig, Laura Miozzi, Benoit Remenant, Jean-Sébastien Reynard, Johan Rollin, Mike Rott, Olivier Schumpp, Sébastien Massart, Annelies Haegeman, 2021, pregledni znanstveni članek Povzetek: High-throughput sequencing (HTS) technologies have become indispensable tools assisting plant virus diagnostics and research thanks to their ability to detect any plant virus in a sample without prior knowledge. As HTS technologies are heavily relying on bioinformatics analysis of the huge amount of generated sequences, it is of utmost importance that researchers can rely on efficient and reliable bioinformatic tools and can understand the principles, advantages, and disadvantages of the tools used. Here, we present a critical overview of the steps involved in HTS as employed for plant virus detection and virome characterization. We start from sample preparation and nucleic acid extraction as appropriate to the chosen HTS strategy, which is followed by basic data analysis requirements, an extensive overview of the in-depth data processing options, and taxonomic classification of viral sequences detected. By presenting the bioinformatic tools and a detailed overview of the consecutive steps that can be used to implement a well-structured HTS data analysis in an easy and accessible way, this paper is targeted at both beginners and expert scientists engaging in HTS plant virome projects.
Ključne besede: plant virus, high-throughput sequencing, bioinformatics, detection, discovery
Objavljeno v DiRROS: 05.08.2024; Ogledov: 1196; Prenosov: 993
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3. A framework for the evaluation of biosecurity, commercial, regulatory, and scientific impacts of plant viruses and viroids identified by NGS technologiesSébastien Massart, Thierry Candresse, José Gil, Christophe Lacomme, Lukas Predajna, Maja Ravnikar, Jean-Sébastien Reynard, Artemis Rumbou, Pasquale Saldarelli, Dijana Škorić, Eeva J. Vainio, Jari P. T. Valkonen, Hervé Vanderschuren, Christina Varveri, Thierry Wetzel, 2017, izvirni znanstveni članek Povzetek: Recent advances in high-throughput sequencing technologies and bioinformatics have generated huge new opportunities for discovering and diagnosing plant viruses and viroids. Plant virology has undoubtedly benefited from these new methodologies, but at the same time, faces now substantial bottlenecks, namely the biological characterization of the newly discovered viruses and the analysis of their impact at the biosecurity, commercial, regulatory, and scientific levels. This paper proposes a scaled and progressive scientific framework for efficient biological characterization and risk assessment when a previously known or a new plant virus is detected by next generation sequencing (NGS) technologies. Four case studies are also presented to illustrate the need for such a framework, and to discuss the scenarios.
Ključne besede: NGS, pest risk analysis, virus diseases, biological characterization, plant health, regulatory agencies
Objavljeno v DiRROS: 25.07.2024; Ogledov: 1058; Prenosov: 610
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