Cruise report hydro acoustic survey for blue whiting (Micromesistius poutassou) with R.V. Tridens, 17 March - 04 April 2008

This is the report of the Dutch part of the international North East Atlantic hydro acoustic survey for blue whiting. The survey is coordinated by ICES and has been executed annually. The purpose of the survey is to estimate the blue whiting stock of the North East Atlantic. The ICES uses this estimation is as a “tuning index” to assess the North East Atlantic blue whiting stock. The applied method was echo integration. By sailing transects over the survey area, the total acoustic cross-section can be calculated by surface area sampled. Trawling identified species composition of localized schools. The length composition of each species was determined. Blue whiting was examined on age and fecundity from which a split up stock structure was mad

Tracing Medieval and Renaissance Alabaster Works of Art Back to Quarries: A Multi-Isotope (Sr, S, O) Approach

Multi-isotope fingerprinting (sulphur, oxygen and strontium isotopes) has been tested to study the provenances of medieval and Renaissance French and Swedish alabaster works of art. Isotope signatures of historical English, French and Spanish alabaster source quarries or areas are revealed to be highly specific, with a strong intra-group homogeneity and strong inter-group contrasts, especially for Sr and S isotopes. The chosen combination of isotope tracers is a good basis for forensic work on alabaster provenance, allowing verification of hypotheses about historical trade routes as well as identification of fakes and their origin. The applied analytical techniques of continuous flow isotope ratio mass spectrometry (CF–IRMS) and thermal ionization mass spectrometry (TIMS) only require micro-samples in the low-milligram range, thus minimizing the impact on the works of art

Coordinating the impact of structural genomics on the human α-helical transmembrane proteome

Given the recent successes in determining membrane-protein structures, we explore the tractability of determining representatives for the entire human membrane proteome. This proteome contains 2,925 unique integral α-helical transmembrane-domain sequences that cluster into 1,201 families sharing more than 25% sequence identity. Structures of 100 optimally selected targets would increase the fraction of modelable human α-helical transmembrane domains from 26% to 58%, providing structure and function information not otherwise available

International Bottom Trawl Survey Working Group (IBTSWG). ICES Scientific Reports, 04:65

The International Bottom Trawl Survey Working Group (IBTSWG) coordinates fishery-independent bottom trawl surveys in the ICES area in the Northeast Atlantic and the North Sea. These long-term monitoring surveys provide data for stock assessments and facilitate examina-tion of changes in fish distribution and relative abundance. The group also promotes the stand-ardization of fishing gears and methods as well as survey coordination. This report summarizes the national contributions in 2021–2022 and plans for the 2022–2023 surveys coordinated by IBTSWG

Trophic Ecology of Atlantic Bluefin Tuna (Thunnus thynnus) Larvae from the Gulf of Mexico and NW Mediterranean Spawning Grounds: A Comparative Stable Isotope Study

The present study uses stable isotopes of nitrogen and carbon (δ15Nandδ13C) as trophic indicators for Atlantic bluefin tuna larvae (BFT) (6–10mm standard length) in the highly contrasting environmental conditions of the Gulf of Mexico (GOM) and the Balearic Sea (MED). These regions are differentiated by their temperature regime and relative productivity, with the GOM being significantly warmer and more productive. MED BFT larvae showed the highest δ15N signatures, implying an elevated trophic position above the underlyingmicrozooplankton baseline. Ontogenetic dietary shifts were observed in the BFT larvae from the GOM and MED which indicates early life trophodynamics differences between these spawning habitats. Significant trophic differences between the GOM and MED larvae were observed in relation to δ15N signatures in favour of the MED larvae, which may have important implications in their growth during their early life stages. These low δ15N levels in the zooplankton from the GOM may be an indication of a shifting isotopic baseline in pelagic food webs due to diatrophic inputs by cyanobacteria. Lack of enrichment for δ15N in BFT larvae compared to zooplankton implies an alternative grazing pathway from the traditional food chain of phytoplankton— zooplankton—larval fish. Results provide insight for a comparative characterization of the trophic pathways variability of the two main spawning grounds for BFT larvaeVersión del editor4,411

Discovery of widespread transcription initiation at microsatellites predictable by sequence-based deep neural network

Using the Cap Analysis of Gene Expression (CAGE) technology, the FANTOM5 consortium provided one of the most comprehensive maps of transcription start sites (TSSs) in several species. Strikingly, ~72% of them could not be assigned to a specific gene and initiate at unconventional regions, outside promoters or enhancers. Here, we probe these unassigned TSSs and show that, in all species studied, a significant fraction of CAGE peaks initiate at microsatellites, also called short tandem repeats (STRs). To confirm this transcription, we develop Cap Trap RNA-seq, a technology which combines cap trapping and long read MinION sequencing. We train sequence-based deep learning models able to predict CAGE signal at STRs with high accuracy. These models unveil the importance of STR surrounding sequences not only to distinguish STR classes, but also to predict the level of transcription initiation. Importantly, genetic variants linked to human diseases are preferentially found at STRs with high transcription initiation level, supporting the biological and clinical relevance of transcription initiation at STRs. Together, our results extend the repertoire of non-coding transcription associated with DNA tandem repeats and complexify STR polymorphism

Investigating the Mechanisms of Photosynthetic Proteins Using Continuum Electrostatics

info:eu-repo/semantics/publishe

Monitoring reverse osmosis treated wastewater recharge into a coastal aquifer by environmental isotopes (B, Li, O, H)

Artificial recharge (AR) is gaining importance as a management tool in water stressed regions. The need to prove recovery performance requires new monitoring tools for AR systems. A novel combination of environmental isotope tracers (B, Li, O, H stable isotopes) was tested for the monitoring of AR of tertiary treated, desalinated domestic wastewater into a coastal dune aquifer in Flanders, Belgium. No significant isotope fractionation was observed for the treatment process, which includes low pH RO desalination. The wastewater, after infiltration through ponds and before recovery through pumping wells is characterized by low molar Cl/B ratios (3.3 to 5.2), compared to 130 to 1020 in the wider study area, d11B values close to 0‰, rather homogeneous d7Li values (10.3 ± 1.7‰), and a 18O and 2H enrichment with respect to ambient groundwater due to evaporation in the infiltration ponds. This confers to the AR component a unique isotopic and geochemical fingerprint. Immediately downstream of the pumping wells and in the deeper part of the aquifer no evidence of AR wastewater could be found, indicating a high recovery efficiency. In the wider area and in the deeper part of the aquifer, isotopes evidence mixing of coastal rain and a fresh paleo-groundwater component with residual seawater as well as interaction with the aquifer material. Combining several isotope tracers provides independent constraints on groundwater flow and mixing proportions as a complement to hydrodynamic modeling and geochemical studies

Boron contamination of Mediterranean Groundwater resources: Extent, sources and pathways elucidated by environmental isotopes.

none10noneKloppmann W.; Bianchini G.; Charalambides A.; Dotsika E.; Guerrot C.; Klose P.; Marei A.; Pennisi M.; Vengosh A.; Voutsa D.Kloppmann, W.; Bianchini, Gianluca; Charalambides, A.; Dotsika, E.; Guerrot, C.; Klose, P.; Marei, A.; Pennisi, M.; Vengosh, A.; Voutsa, D