Preservation and reflection of bisimilarity via invertible steps

In the theory of coalgebras, distributive laws give a general perspective on determinisation and other automata constructions. This perspective has recently been extended to include so-called weak distributive laws, covering several constructions on state-based systems that are not captured by regular distributive laws, such as the construction of a belief-state transformer from a probabilistic automaton, and ultrafilter extensions of Kripke frames. In this paper we first observe that weak distributive laws give rise to the more general notion of what we call an invertible step: a pair of natural transformations that allows to move coalgebras along an adjunction. Our main result is that part of the construction induced by an invertible step preserves and reflects bisimilarity. This covers results that have previously been shown by hand for the instances of ultrafilter extensions and belief-state transformers

Revisiting a pollen-transmitted ilarvirus previously associated with angular mosaic of grapevine

We report the characterization of a novel tri-segmented RNA virus infecting Mercurialis annua, a common crop weed and model species in plant science. The virus, named "Mercurialis latent virus" (MeLaV) was first identified in a mixed infection with the recently described Mercurialis orthotospovirus 1 (MerV1) on symptomatic plants grown in glasshouses in Lausanne (Switzerland). Both viruses were found to be transmitted by Thrips tabaci, which presumably help the inoculation of infected pollen in the case of MeLaV. Complete genome sequencing of the latter revealed a typical ilarviral architecture and close phylogenetic relationship with members of the Ilarvirus subgroup 1. Surprisingly, a short portion of MeLaV replicase was found to be identical to the partial sequence of grapevine angular mosaic virus (GAMV) reported in Greece in the early 1990s. However, we have compiled data that challenge the involvement of GAMV in angular mosaic of grapevine, and we propose alternative causal agents for this disorder. In parallel, three highly-conserved MeLaV isolates were identified in symptomatic leaf samples in The Netherlands, including a herbarium sample collected in 1991. The virus was also traced in diverse RNA sequencing datasets from 2013-2020, corresponding to transcriptomic analyses of M. annua and other plant species from five European countries, as well as metaviromics analyses of bees in Belgium. Additional hosts are thus expected for MeLaV, yet we argue that infected pollen grains have likely contaminated several sequencing datasets and may have caused the initial characterization of MeLaV as GAMV

Biological and genetic characterization of Physostegia chlorotic mottle virus in Europe based on host range, location, and time

Application of high throughput sequencing (HTS) technologies enabled the first identification of Physostegia chlorotic mottle virus (PhCMoV) in 2018 in Austria. Subsequently, PhCMoV was detected in Germany and Serbia on tomatoes showing severe fruit mottling and ripening anomalies. We report here how prepublication data-sharing resulted in an international collaboration across eight laboratories in five countries, enabling an in-depth characterization of PhCMoV. The independent studies converged toward its recent identification in eight additional European countries and confirmed its presence in samples collected 20 years ago (2002). The natural plant host range was expanded from two to nine species across seven families, and we confirmed the association of PhCMoV presence with severe fruit symptoms on economically important crops such as tomato, eggplant, and cucumber. Mechanical inoculations of selected isolates in the greenhouse established the causality of the symptoms on a new indexing host range. In addition, phylogenetic analysis showed a low genomic variation across the 29 near-complete genome sequences available. Furthermore, a strong selection pressure within a specific ecosystem was suggested by nearly identical sequences recovered from different host plants through time. Overall, this study describes the European distribution of PhCMoV on multiple plant hosts, including economically important crops on which the virus can cause severe fruit symptoms. This work demonstrates how to efficiently improve knowledge on an emergent pathogen by sharing HTS data and provides a solid knowledge foundation for further studies on plant rhabdoviruses

MEANTIME, the NewsReader Multilingual Event and Time Corpus

In this paper, we present the NewsReader MEANTIME corpus, a semantically annotated corpus of Wikinews articles. The corpus consists of 480 news articles, i.e. 120 English news articles and their translations in Spanish, Italian, and Dutch. MEANTIME contains annotations at different levels. The document-level annotation includes markables (e.g. entity mentions, event mentions, time expressions, and numerical expressions), relations between markables (modeling, for example, temporal information and semantic role labeling), and entity and event intra-document coreference. The corpus-level annotation includes entity and event cross-document coreference. Semantic annotation on the English section was performed manually; for the annotation in Italian, Spanish, and (partially) Dutch, a procedure was devised to automatically project the annotations on the English texts onto the translated texts, based on the manual alignment of the annotated elements; this enabled us not only to speed up the annotation process but also provided cross-lingual coreference. The English section of the corpus was extended with timeline annotations for the SemEval 2015 TimeLine shared task. The First CLIN Dutch Shared Task at CLIN26 was based on the Dutch section, while the EVALITA 2016 FactA (Event Factuality Annotation) shared task, based on the Italian section, is currently being organized

O-glycan determinants regulate VWF trafficking to Weibel-Palade bodies.

Von Willebrand factor (VWF) undergoes complex post-translational modification within endothelial cells (EC) prior to secretion. This includes significant N- and O-linked glycosylation. Previous studies have demonstrated that changes in N-linked glycan structures significantly influence VWF biosynthesis. In contrast, although abnormalities in VWF O-linked glycans (OLG) have been associated with enhanced VWF clearance, their effect on VWF biosynthesis remains poorly explored. Herein, we report a novel role for OLG determinants in regulating VWF biosynthesis and trafficking within EC. We demonstrate that alterations in OLG (notably reduced terminal sialylation) lead to activation of the A1 domain of VWF within EC. In the presence of altered OLG, VWF multimerization is reduced and Weibel-Palade body (WPB) formation significantly impaired. Consistently, the amount of VWF secreted from WPB following EC activation was significantly reduced in the context of O-glycosylation inhibition. Finally, altered OLG on VWF not only reduced the amount of VWF secreted following EC activation, but also affected its hemostatic efficacy. Notably, VWF secreted following WPB exocytosis consisted predominantly of low molecular weight multimers and the length of tethered VWF string formation on the surface of activated ECs was significantly reduced. In conclusion, our data therefore support the hypothesis that alterations in O-glycosylation pathways directly impact VWF trafficking within human EC. These findings are interesting given that previous studies have reported altered OLG on plasma VWF (notably increased T antigen expression) in patients with von Willebrand disease

Identification of Tomato mottle mosaic virus in historic seed accessions originating from France, the Netherlands and Spain, indicates a wider presence before its first description

Tomato mottle mosaic virus (ToMMV) is a tobamovirus found in a Solanum lycopersicum sample collected in Mexico in 2009. To assess the possible presence of ToMMV in Europe, accessions from a historic seed collection were tested by real-time RT-PCR and Illumina sequencing. ToMMV was identified in historical seed accessions produced in France, the Netherlands and Spain. Three different near complete genome sequences were obtained, each corresponding to the country in which the seeds had been produced. Positive samples from France and Spain could be related to the same production location and year, respectively, while the identical genome sequences from the Netherlands were obtained from samples produced in different locations and years between 1981 and 2007. The latter could be due to the fact that the Dutch seed accessions had been repacked in the past at the same location and time as accessions with a relatively high virus load from 2007. This indicates that possibly only the seeds from 2007 originated from ToMMV-infected plants, while the detection of ToMMV in the older seed accessions resulted from cross contamination. This data shows that ToMMV has been around in Europe before its first description and is possibly more widespread than currently known

Biological and Genetic Characterization of Physostegia Chlorotic Mottle Virus in Europe Based on Host Range, Location, and Time.

peer reviewedApplication of high throughput sequencing (HTS) technologies enabled the first identification of Physostegia chlorotic mottle virus (PhCMoV) in 2018 in Austria. Subsequently, PhCMoV was detected in Germany and Serbia on tomatoes showing severe fruit mottling and ripening anomalies. We report here how prepublication data-sharing resulted in an international collaboration across eight laboratories in five countries, enabling an in-depth characterization of PhCMoV. The independent studies converged toward its recent identification in eight additional European countries and confirmed its presence in samples collected 20 years ago (2002). The natural plant host range was expanded from two to nine species across seven families, and we confirmed the association of PhCMoV presence with severe fruit symptoms on economically important crops such as tomato, eggplant, and cucumber. Mechanical inoculations of selected isolates in the greenhouse established the causality of the symptoms on a new indexing host range. In addition, phylogenetic analysis showed a low genomic variation across the 29 near-complete genome sequences available. Furthermore, a strong selection pressure within a specific ecosystem was suggested by nearly identical sequences recovered from different host plants through time. Overall, this study describes the European distribution of PhCMoV on multiple plant hosts, including economically important crops on which the virus can cause severe fruit symptoms. This work demonstrates how to efficiently improve knowledge on an emergent pathogen by sharing HTS data and provides a solid knowledge foundation for further studies on plant rhabdoviruses.[Formula: see text] Copyright © 2022 The Author(s). This is an open access article distributed under the CC BY-NC-ND 4.0 International license.European Union’s Horizon 2020 Research and Innovation Progra