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  • 05.02. Data dissemination  (4)
  • ArenaviridaeendonucleasesLymphocytic choriomeningitis virusLCMVdiketo acidscompound optimizationmetal chelation
  • European Geosciences Union (EGU)  (2)
  • Springer  (2)
  • International Union of Crystallography (IUCr)  (1)
  • American Institute of Physics (AIP)
  • Taylor & Francis
  • 2015-2019  (5)
  • 1950-1954
  • 1
    Publication Date: 2018-02-23
    Description: The Arenaviridae family, together with the Bunyaviridae and Orthomyxoviridae families, is one of the three negative-stranded RNA viral families that encode an endonuclease in their genome. The endonuclease domain is at the N-terminus of the L protein, a multifunctional protein that includes the RNA-dependent RNA polymerase. The synthesis of mRNA in arenaviruses is a process that is primed by capped nucleotides that are `stolen' from the cellular mRNA by the endonuclease domain in cooperation with other domains of the L protein. This molecular mechanism has been demonstrated previously for the endonuclease of the prototype Lymphocytic choriomeningitis virus (LCMV). However, the mode of action of this enzyme is not fully understood as the original structure did not contain catalytic metal ions. The pivotal role played by the cap-snatching process in the life cycle of the virus and the highly conserved nature of the endonuclease domain make it a target of choice for the development of novel antiviral therapies. Here, the binding affinities of two diketo-acid (DKA) compounds (DPBA and L-742,001) for the endonuclease domain of LCMV were evaluated using biophysical methods. X-ray structures of the LCMV endonuclease domain with catalytic ions in complex with these two compounds were determined, and their efficacies were assessed in an in vitro endonuclease-activity assay. Based on these data and computational simulation, two new DKAs were synthesized. The LCMV endonuclease domain exhibits a good affinity for these DKAs, making them a good starting point for the design of arenavirus endonuclease inhibitors. In addition to providing the first example of an X-ray structure of an arenavirus endonuclease incorporating a ligand, this study provides a proof of concept that the design of optimized inhibitors against the arenavirus endonuclease is possible.
    Keywords: ArenaviridaeendonucleasesLymphocytic choriomeningitis virusLCMVdiketo acidscompound optimizationmetal chelation
    Electronic ISSN: 2052-2525
    Topics: Geosciences , Physics
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  • 2
    Publication Date: 2020-12-15
    Description: The construction of seismological community services for the European Plate Observing System Research Infrastructure (EPOS) is by now well under way. A significant number of services are already operational, largely based on those existing at established institutions or collaborations like ORFEUS, EMSC, AHEAD and EFEHR, and more are being added to be ready for internal validation by late 2017. In this presentation we focus on a number of issues related to the interaction of the community of users with the services provided by the seismological part of the EPOS research infrastructure. How users interact with a service (and how satisfied they are with this interaction) is viewed as one important component of the validation of a service within EPOS, and certainly is key to the uptake of a service and from that also it’s attributed value. Within EPOS Seismology, the following aspects of user interaction have already surfaced: a) User identification (and potential tracking) versus ease-of-access and openness Requesting users to identify themselves when accessing a service provides various advantages to providers and users (e.g. quantifying & qualifying the service use, customization of services and interfaces, handling access rights and quotas), but may impact the ease of access and also shy away users who don’t wish to be identified for whatever reason. b) Service availability versus cost There is a clear and prominent connection between the availability of a service, both regarding uptime and capacity, and its operational cost (IT systems and personnel), and it is often not clear where to draw the line (and based on which considerations). In connection to that, how to best utilize third-party IT infrastructures (either commercial or public), and what the long-term cost implications of that might be, is equally open. c) Licensing and attribution The issue of intellectual property and associated licensing policies for data, products and services is only recently gaining more attention in the community. Whether at all, and if yes then how to license, is still diversely discussed, while on national level more and more legislative requirements create boundary conditions that need to be respected. Attribution (of service use and of data/product origin) is only one related aspect, but of high importance the scientific world. In EPOS Seismology we attempt to find common approaches to address the above issues, also closely co-ordinated to the developments across the other EPOS domains. In this presentation we discuss the current strategies, potential solutions identified, and remaining open questions.
    Description: H2020 Project EPOS-IP, Cordis Project ID 676564
    Description: Published
    Description: Vienna, Austria
    Description: 4T. Sismologia, geofisica e geologia per l'ingegneria sismica
    Description: 4IT. Banche dati
    Keywords: seismology ; data dissemination ; 04. Solid Earth ; 04.06. Seismology ; 05.02. Data dissemination
    Repository Name: Istituto Nazionale di Geofisica e Vulcanologia (INGV)
    Type: Abstract
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  • 3
    Publication Date: 2018-03-19
    Description: The importance of historical earthquake data is largely recognized by both seismologists and engineers, who use such data in a wide range of applications. At the European-Mediterranean scale, several databases dealing with historical earthquake data – mostly intensity data points – exist and are constantly maintained and updated, as well as national earthquake catalogues. In addition, a number of studies on historical earthquakes are published every year. Most of these activities are being performed at a national scale, depending on each country’s needs, and according to diverse methodologies. As a result, the earthquake history of Europe is today fragmented in a puzzle of different, only partially overlapping sets of data, which, at the continent scale, are not homogeneously collected and interpreted. This situation is particularly evident in the frontier areas, where historical earthquakes are often interpreted in a conflicting and/or partial way by the catalogues of the bordering countries. In addition, the background information upon which several historical catalogues are built is not published or not easily accessible. In recent years, a major effort was made to bridge over these gaps, by establishing cooperation among existing national databases, and creating new ones according to common standards. Particular attention was devoted to retrieve the earthquake background information, that is, the results of historical earthquake investigation in terms of a paper, a report, a book chapter, a map, etc. As most of the information on an historical earthquake can be summarized in a set of Macroseismic Data Points (MDPs) – i.e. a list of localities (name and coordinates) with a macroseismic intensity assessment and the related macroseismic scale – a dedicated effort was addressed to make such data publicly available. The described activities resulted in the European Archive of Historical Earthquake Data (AHEAD). The Archive is conceived as a pan-European common and open platform supporting the research activities in the field of historical seismology by (i) tracing back, preserving and granting access to the sources of data on the earthquake history of Europe (papers, reports, MDPs, and catalogues), and (ii) establishing relations among these data. AHEAD inventories multiple sets of information concerning each European earthquake in the time-window 1000–1899. The AHEAD web portal (http://www.emidius.eu/AHEAD/) gives access, as of today, to 4,722 earthquakes and the related background information as provided by 338 data sources. All these data can be queried by earthquake and by study, through a user-friendly web-interface. The distinguishing feature of AHEAD is to grant access not only to one study, but to all the available (published) data sources dealing with each individual earthquake, allowing researchers to take into account the different point of views and interpretations.
    Description: Published
    Description: 359-369
    Description: 3T. Storia Sismica
    Description: 4T. Sismologia, geofisica e geologia per l'ingegneria sismica
    Description: 4IT. Banche dati
    Keywords: historical seismology ; seismicity ; historical earthquakes ; 04.06. Seismology ; 05.02. Data dissemination
    Repository Name: Istituto Nazionale di Geofisica e Vulcanologia (INGV)
    Type: book chapter
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  • 4
    Publication Date: 2022-11-23
    Description: Easy, efficient and comprehensive access to data, data products, scientific services and scientific software is a key ingredient in enabling research at the frontiers of science. Organizing this access across the European Research Infrastructures in the field of seismology, so that it best serves user needs, takes advantage of state-of-the-art ICT solutions, provides cross-domain interoperability, and is organizationally and financially sustainable in the long term, is the core challenge of the implementation phase of the Thematic Core Service (TCS) Seismology within the EPOS-IP project. Building upon the existing European-level infrastructures ORFEUS for seismological waveforms, EMSC for seismological products, and EFEHR for seismological hazard and risk information, and implementing a pilot Computational Earth Science service starting from the results of the VERCE project, the work within the EPOS-IP project focuses on improving and extending the existing services, aligning them with global developments, to at the end produce a well coordinated framework that is technically, organizationally, and financially integrated with the EPOS architecture. This framework needs to respect the roles and responsibilities of the underlying national research infrastructures that are the data owners and main providers of data and products, and allow for active input and feedback from the (scientific) user community. At the same time, it needs to remain flexible enough to cope with unavoidable challenges in the availability of resources and dynamics of contributors. The technical work during the next years is organized in four areas: - constructing the next generation software architecture for the European Integrated (waveform) Data Archive EIDA, developing advanced metadata and station information services, fully integrate strong motion waveforms and derived parametric engineering-domain data, and advancing the integration of mobile (temporary) networks and OBS deployments in EIDA; - further development and expansion of services to access seismological products of scientific interest as provided by the community by implementing a common collection and development (IT) platform, improvements in the earthquake information services e.g. by introducing more robust quality indicators and diversifying collection and dissemination mechanisms, as well as improving historical earthquake data services; - development of a comprehensive suite of earthquake hazard products, tools, and services harmonized on the European level and available through a common access platform, encompassing information on seismic sources, seismogenic faults, ground-motion prediction equations, geotechnical information, and strong-motion recordings in buildings, together with an interface to earthquake risk; - a portal implementation of computational seismology tools and services, specifically for seismic wave- form propagation in complex 3D media following the results of the VERCE project, and initiating the inclusion of further suitable codes on that portal in discussion with the community, forming the basis of EPOS computational earth science infrastructure. This will be accompanied by development and implementation of integrated and interoperable metadata structures, adequate and referencable persistent identifiers, and appropriate user access and authorization mecha- nisms. Here we present further detail on the work plan with the attempt to foster interaction with the target user community on the spectrum of services as well as on feedback mechanisms and governance.
    Description: H2020 Project EPOS-IP, Cordis Project ID 676564
    Description: Published
    Description: Vienna, Austria
    Description: 4T. Sismologia, geofisica e geologia per l'ingegneria sismica
    Description: 4IT. Banche dati
    Keywords: data dissemination ; seismology ; data infrastructure ; 04.06. Seismology ; 05.02. Data dissemination
    Repository Name: Istituto Nazionale di Geofisica e Vulcanologia (INGV)
    Type: Abstract
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  • 5
    Publication Date: 2022-05-24
    Description: Investigating relationships between macroseismic intensity and strong-motion data requires the existence of these two records for the same seismic event and site. In Italy, this comparison is feasible through the cross-matching of the Italian Macroseismic Database (DBMI) and the Italian Strong-Motion Database (ITACA) which are the most comprehensive sources of both data. However, the two databases lack a direct link which would allow performing joint analysis of macroseismic data points and strong-motion recordings, making the comparison a time consuming job for the researcher. This paper demonstrates the usefulness of cross-database identifiers, and presents their use in a webtool called Rosetta, an initial proof-of-concept that helped testing linking procedures among DBMI and ITACA, and user friendly visual solutions. The development allowed the working group to exchange expertise on their respective database structures and workflows, laying the groundwork for a consistent, low-maintenance, and durable solution that will be easily updatable each time a new version of DBMI or ITACA will be released.
    Description: Italian Department of Civil Protection to the project INGV-DPC S2-2014 “Constraining Observations into Seismic Hazard”
    Description: Published
    Description: 2429–2443
    Description: 3T. Storia Sismica
    Description: 4T. Sismologia, geofisica e geologia per l'ingegneria sismica
    Description: 4IT. Banche dati
    Description: JCR Journal
    Keywords: seismology ; macroseismic intensity ; strong-motion ; stations ; historical earthquakes ; database ; identifiers ; 04.06. Seismology ; 05.02. Data dissemination
    Repository Name: Istituto Nazionale di Geofisica e Vulcanologia (INGV)
    Type: article
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