Biological and environmental rhythms in (dark) deep-sea hydrothermal ecosystems

During 2011, two deep-sea observatories focusing on hydrothermal vent ecology were up and running in the Atlantic (Eiffel Tower, Lucky Strike vent field) and the Northeast Pacific Ocean (NEP) (Grotto, Main Endeavour Field). Both ecological modules recorded imagery and environmental variables jointly for a time span of 23 days (7–30 October 2011) and environmental variables for up to 9 months (October 2011–June 2012). Community dynamics were assessed based on imagery analysis and rhythms in temporal variation for both fauna and environment were revealed. Tidal rhythms were found to be at play in the two settings and were most visible in temperature and tubeworm appearances (at NEP). A  ∼  6 h lag in tidal rhythm occurrence was observed between Pacific and Atlantic hydrothermal vents, which corresponds to the geographical distance and time delay between the two sites.info:eu-repo/semantics/publishedVersio

DIMAS Development of an integrated database for the management of accidental spills. Part 2. Global change, ecosystems and biodiversity - SPSDII: final report

DIMAS is a 2-year project executed by three Belgian partners (EURAS, VLIZ and Ghent University) and funded by the SPSD II research program of the Belgian Science Policy (BELSPO). Several shipping accidents in Belgian territorial waters, made the various government agencies involved aware of the need to develop tools to assess the risks and impact on marine resources in the case of an accidental release of hazardous substances. DIMAS aims at the protection of the North Sea and Western Scheldt in case of accidental spills from ships. In the present project, a relational database is developed, providing reliable, easy to interpret and up-to-date information on marine specific issues. The database contains the latest information on effects (acute and chronic), absorption, distribution, bioaccumulation/biomagnification, GESAMP hazard profiles and physico-chemical properties for a selection of priority substances and is publicly available (www.vliz.be/projects/dimas). The selection of the substances is based on criteria such as occurrence on priority lists, volumes transported over sea, frequency of involvement in accidental spills and frequency of transports over sea. The first beneficiaries of this database are the people directly involved in the first phase of a containment plan for an accidental spill. The final indirect beneficiaries are the general public (scientists, journalists, general public, etc.) who will be better informed about the potential impact to man and the environment

Is it possible to separate the graft-versus-leukemia (GVL) effect against B cell acute lymphoblastic leukemia from graft-versus-host disease (GVHD) after hematopoietic cell transplant?

Hematopoietic cell transplant is a curative therapy for many pediatric patients with high risk acute lymphoblastic leukemia. Its therapeutic mechanism is primarily based on the generation of an alloreactive graft-versus-leukemia effect that can eliminate residual leukemia cells thus preventing relapse. However its efficacy is diminished by the concurrent emergence of harmful graft-versus-host disease disease which affects healthly tissue leading to significant morbidity and mortality. The purpose of this review is to describe the interventions that have been trialed in order to augment the beneficial graft-versus leukemia effect post-hematopoietic cell transplant while limiting the harmful consequences of graft-versus-host disease. This includes many emerging and promising strategies such a

Nesprins are mechanotransducers that discriminate epithelial-mesenchymal transition programs

© 2020 Déjardin et al. This article is distributed under the terms of an Attribution–Noncommercial–Share Alike–No Mirror Sites license for the first six months after the publication date (see http://www.rupress.org/terms/). After six months it is available under a Creative Commons License (Attribution–Noncommercial–Share Alike 4.0 International license, as described at https://creativecommons.org/licenses/by-nc-sa/4.0/).LINC complexes are transmembrane protein assemblies that physically connect the nucleoskeleton and cytoskeleton through the nuclear envelope. Dysfunctions of LINC complexes are associated with pathologies such as cancer and muscular disorders. The mechanical roles of LINC complexes are poorly understood. To address this, we used genetically encoded FRET biosensors of molecular tension in a nesprin protein of the LINC complex of fibroblastic and epithelial cells in culture. We exposed cells to mechanical, genetic, and pharmacological perturbations, mimicking a range of physiological and pathological situations. We show that nesprin experiences tension generated by the cytoskeleton and acts as a mechanical sensor of cell packing. Moreover, nesprin discriminates between inductions of partial and complete epithelial-mesenchymal transitions. We identify the implicated mechanisms, which involve α-catenin capture at the nuclear envelope by nesprin upon its relaxation, thereby regulating β-catenin transcription. Our data thus implicate LINC complex proteins as mechanotransducers that fine-tune β-catenin signaling in a manner dependent on the epithelial-mesenchymal transition program.This material is based on work supported by the Centre national de la recherche scientifique (CNRS), Agence nationale de la recherche (ANR; grants ANR-13-JSV5-0007 and ANR-14-CE09-0006), France BioImaging (ANR-10-INBS-04), la Ligue contre le Cancer (REMX17751 to P.M. Davidson), and the Fondation ARC pour la Recherche sur le Cancer (PDF20161205227 to P.M. Davidson). P.S. Carollo has received funding from the European Union’s Horizon 2020 Framework Programme for Research and Innovation (Marie Skłodowska-Curie grant agreement 665850-INSPIRE) and acknowledges the Ecole Doctorale Frontières de l'Innovation en Recherche et Éducation (FIRE) Programme Bettencourt. E.R. Gomes was supported by a European Research Council consolidator grant (617676).info:eu-repo/semantics/publishedVersio

A multi-model study of the hemispheric transport and deposition of oxidised nitrogen.

Fifteen chemistry-transport models are used to quantify, for the first time, the export of oxidised nitrogen (NOy) to and from four regions (Europe, North America, South Asia, and East Asia), and to estimate the uncertainty in the results. Between 12 and 24% of the NOx emitted is exported from each region annually. The strongest impact of each source region on a foreign region is: Europe on East Asia, North America on Europe, South Asia on East Asia, and East Asia on North America. Europe exports the most NOy, and East Asia the least. East Asia receives the most NOy from the other regions. Between 8 and 15% of NOx emitted in each region is transported over distances larger than 1000 km, with 3–10% ultimately deposited over the foreign regions

How and why DNA barcodes underestimate the diversity of microbial eukaryotes

Background: Because many picoplanktonic eukaryotic species cannot currently be maintained in culture, direct sequencing of PCR-amplified 18S ribosomal gene DNA fragments from filtered sea-water has been successfully used to investigate the astounding diversity of these organisms. The recognition of many novel planktonic organisms is thus based solely on their 18S rDNA sequence. However, a species delimited by its 18S rDNA sequence might contain many cryptic species, which are highly differentiated in their protein coding sequences. Principal Findings: Here, we investigate the issue of species identification from one gene to the whole genome sequence. Using 52 whole genome DNA sequences, we estimated the global genetic divergence in protein coding genes between organisms from different lineages and compared this to their ribosomal gene sequence divergences. We show that this relationship between proteome divergence and 18S divergence is lineage dependant. Unicellular lineages have especially low 18S divergences relative to their protein sequence divergences, suggesting that 18S ribosomal genes are too conservative to assess planktonic eukaryotic diversity. We provide an explanation for this lineage dependency, which suggests that most species with large effective population sizes will show far less divergence in 18S than protein coding sequences. Conclusions: There is therefore a trade-off between using genes that are easy to amplify in all species, but which by their nature are highly conserved and underestimate the true number of species, and using genes that give a better description of the number of species, but which are more difficult to amplify. We have shown that this trade-off differs between unicellular and multicellular organisms as a likely consequence of differences in effective population sizes. We anticipate that biodiversity of microbial eukaryotic species is underestimated and that numerous ''cryptic species'' will become discernable with the future acquisition of genomic and metagenomic sequences

Long-term trends in functional diversity of exploited marine fish in the Azores’ archipelago: past and present

IntroductionEffective fisheries management requires monitoring and quantifying changes in exploited fish communities. Concerns about global fisheries sustainability have led to innovative approaches. Functional diversity, rooted in ecological theory, offers valuable insights into fishery activities and ecosystem processes. A trait-based approach was used to investigate the functional diversity of landed fish species in the Azores archipelago from 1980 to 2021.MethodsLandings data of exploited Actinopterygii and Elasmobranchii were provided by the Azores Fisheries Auction Services (LOTAÇOR/OKEANOS-UAc Fisheries Database). A trait matrix was built, incorporating 12 functional traits assigned to each species, capturing their importance in marine ecological processes. The Quickhull algorithm for convex hull was employed to calculate the volume occupied by the species in the four-dimensional functional space. Functional diversity (FD) was measured using three indices: functional richness (FRic), functional evenness (FEve), and functional divergence (FDiv). Trends in FD indices over the past 42 years were visualized using Generalized Additive Models (GAM) with interaction terms.Results and discussionGAM analysis revealed significant variations in the functional space and FD metrics over time. FRic exhibited peaks in the 1980s and 2010s, declining in the 1990s and from the 2010s onwards, indicating diversification in target species. The recent decrease in FRic can be attributed to the absence of catches of species with unique traits. The distribution of landings and trait combinations showed higher regularity in the functional space during the 1980s and 1990s (high FEve). Actinopterygii species targeted in the 1980s and 1990s had lower trait divergence (low FDiv) compared to those targeted from the 2000s onwards (high FDiv). Variability in FD can be linked to changes in fishing practices, species availability, market demand, environmental factors, and local regulations. This study underscores the importance of considering FD metrics alongside species richness and abundance when assessing the potential effects of fisheries on marine ecosystems and sustainable use of fishery resources

The sensitivity of aerosol in Europe to two different emission inventories and temporal distribution of emissions

The sensitivity to two different emission inventories, injection altitude and temporal variations of anthropogenic emissions in aerosol modelling is studied, using the two way nested global transport chemistry model TM5 focussing on Europe in June and December 2000. The simulations of gas and aerosol concentrations and aerosol optical depth (AOD) with the EMEP and AEROCOM emission inventories are compared with EMEP gas and aerosol surface based measurements, AERONET sun photometers retrievals and MODIS satellite data. For the aerosol precursor gases SO2 and NOx in both months the model results calculated with the EMEP inventory agree better ( overestimated by a factor 1.3 for both SO2 and NOx) with the EMEP measurements than the simulation with the AEROCOM inventory ( overestimated by a factor 2.4 and 1.9, respectively). Besides the differences in total emissions between the two inventories, an important role is also played by the vertical distribution of SO2 and NOx emissions in understanding the differences between the EMEP and AEROCOM inventories. In December NOx and SO2 from both simulations agree within 50% with observations. In June SO4= evaluated with the EMEP emission inventory agrees slightly better with surface observations than the AEROCOM simulation, whereas in December the use of both inventories results in an underestimate of SO4 with a factor 2. Nitrate aerosol measured in summer is not reliable, however in December nitrate aerosol calculations with the EMEP and AEROCOM emissions agree with 30%, and 60%, respectively with the filter measurements. Differences are caused by the total emissions and the temporal distribution of the aerosol precursor gases NOx and NH3. Despite these differences, we show that the column integrated AOD is less sensitive to the underlying emission inventories. Calculated AOD values with both emission inventories underestimate the observed AERONET AOD values by 20 - 30%, whereas a case study using MODIS data shows a high spatial agreement. Our evaluation of the role of temporal distribution of anthropogenic emissions on aerosol calculations shows that the daily and weekly temporal distributions of the emissions are only important for NOx, NH3 and aerosol nitrate. However, for all aerosol species SO4=, NH4+, POM, BC, as well as for AOD, the seasonal temporal variations used in the emission inventory are important. Our study shows the value of including at least seasonal information on anthropogenic emissions, although from a comparison with a range of measurements it is often difficult to firmly identify the superiority of specific emission inventories, since other modelling uncertainties, e. g. related to transport, aerosol removal, water uptake, and model resolution, play a dominant role

A novel approach to screen and compare emission inventories

A methodology is proposed to support the evaluation and comparison of different types of emission inventories. The strengths and weaknesses of the methodology are presented and discussed based on an example. The approach results in a “diamond” diagram useful to flag out anomalous behaviors in the emission inventories and to get insight in possible explanations. In particular, the “diamond” diagram is shown to provide meaningful information in terms of: discrepancies between the total emissions reported by macrosector and pollutant, contribution of each macro-sector to the total amount of emissions released by pollutant, and the identification and quantification of the different factors causing the discrepancies between total emissions. A practical example in Barcelona is used for testing and to provide relevant information for the analyzed emission datasets. The tests show the capability of the proposed methodology to flag inconsistencies in the existing inventories. The proposed methodology system may be useful for regional and urban inventory developers as an initial evaluation of the consistency of their inventories