On the reproducibility and repeatability of laser absorption spectroscopy measurements for δ2H and δ18O isotopic analysis

The aim of this study was to analyse the reproducibility of off-axis integrated cavity output spectroscopy (OA-ICOS)-derived δ2H and δ18O measurements on a set of 35 water samples by comparing the performance of four laser spectroscopes with the performance of a conventional mass spectrometer under typical laboratory conditions. All samples were analysed using three different schemes of standard/sample combinations and related data processing to assess the improvement of results compared with mass spectrometry. The repeatability of the four OA-ICOS instruments was further investigated by multiple analyses of a sample subset to evaluate the stability of δ2H and δ18O measurements. Results demonstrated an overall agreement between OA-ICOS-based and mass spectrometry-based measurements for the entire dataset. However, a certain degree of variability existed in precision and accuracy between the four instruments. There was no evident bias or systematic deviations from the mass spectrometer values, but random errors, which were apparently not related to external factors, significantly affected the final results. Our investigation revealed that analytical precision ranged ±from ±0.56‰ to ±1.80‰ for δ2H and from ±0.10‰ to ±0.27‰ for δ18O measurements, with a marked variability among the four instruments. The overall capability of laser instruments to reproduce stable results with repeated measurements of the same sample was acceptable, and there were general differences within the range of the analytical precision for each spectroscope. Hence, averaging the measurements of three identical samples led to a higher degree of accuracy and eliminated the potential for random deviations

Genetic hypervariability of a Northeastern Atlantic venomous rockfish

Background: Understanding the interplay between climate and current and historical factors shaping genetic diversity is pivotal to infer changes in marine species range and communities’ composition. A hylogeographical break between the Atlantic and the Mediterranean has been documented for several marine organisms, translating into limited dispersal between the two basins. Methods: In this study, we screened the intraspecific diversity of 150 individuals of the Madeira rockfish (Scorpaena maderensis) across its distributional range (seven sampling locations in the Atlantic and Mediterranean basins) using the mitochondrial control region and the nuclear S7 first intron. Results: The present work is the most comprehensive study done for this species, yielding no genetic structure across sampled locations and no detectable Atlantic-Mediterranean break in connectivity. Our results reveal deep and hyper-diverse bush-like genealogies with large numbers of singletons and very few shared haplotypes. The genetic hyper-diversity found for the Madeira rockfish is relatively uncommon in rocky coastal species, whose dispersal capability is limited by local oceanographic patterns. The effect of climate warming on the distribution of the species is discussed.MARE/UIDB/MAR/04292/2020info:eu-repo/semantics/publishedVersio

Soil moisture and matric potential-an open field comparison of sensor systems

Soil water content and matric potential are central hydrological state variables. A large variety of automated probes and sensor systems for state monitoring exist and are frequently applied. Most applications solely rely on the calibration by the manufacturers. Until now, there has been no commonly agreed-upon calibration procedure. Moreover, several opinions about the capabilities and reliabilities of specific sensing methods or sensor systems exist and compete. A consortium of several institutions conducted a comparison study of currently available sensor systems for soil water content and matric potential under field conditions. All probes were installed at 0.2mb.s. (metres below surface), following best-practice procedures. We present the set-up and the recorded data of 58 probes of 15 different systems measuring soil moisture and 50 further probes of 14 different systems for matric potential. We briefly discuss the limited coherence of the measurements in a cross-correlation analysis. The measuring campaign was conducted during the growing period of 2016. The monitoring data, results from pedophysical analyses of the soil and laboratory reference measurements for calibration are published in Jackisch et al. (2018, https://doi.org/10.1594/PANGAEA.892319)

Two-dimensional electrophoretic comparison of metastatic and non-metastatic human breast tumors using in vitro cultured epithelial cells derived from the cancer tissues

<p>Abstract</p> <p>Background</p> <p>Breast carcinomas represent a heterogeneous group of tumors diverse in behavior, outcome, and response to therapy. Identification of proteins resembling the tumor biology can improve the diagnosis, prediction, treatment selection, and targeting of therapy. Since the beginning of the post-genomic era, the focus of molecular biology gradually moved from genomes to proteins and proteomes and to their functionality. Proteomics can potentially capture dynamic changes in protein expression integrating both genetic and epigenetic influences.</p> <p>Methods</p> <p>We prepared primary cultures of epithelial cells from 23 breast cancer tissue samples and performed comparative proteomic analysis. Seven patients developed distant metastases within three-year follow-up. These samples were included into a metastase-positive group, the others formed a metastase-negative group. Two-dimensional electrophoretical (2-DE) gels in pH range 4–7 were prepared. Spot densities in 2-DE protein maps were subjected to statistical analyses (R/maanova package) and data-mining analysis (GUHA). For identification of proteins in selected spots, liquid chromatography-tandem mass spectrometry (LC-MS/MS) was employed.</p> <p>Results</p> <p>Three protein spots were significantly altered between the metastatic and non-metastatic groups. The correlations were proven at the 0.05 significance level. Nucleophosmin was increased in the group with metastases. The levels of 2,3-trans-enoyl-CoA isomerase and glutathione peroxidase 1 were decreased.</p> <p>Conclusion</p> <p>We have performed an extensive proteomic study of mammary epithelial cells from breast cancer patients. We have found differentially expressed proteins between the samples from metastase-positive and metastase-negative patient groups.</p

Use of stable hydrogen and oxygen isotopes in hydrology of small catchments in the Czech and Slovak Republic

The contribution summarizes the development of isotope hydrology and hydrogeology in the Czech and Slovak Republic over the past 40 years. Records of 18O and 2H in nine experimental catchments and their interpretation provide a description of runoff component mixing from various soil and rock environments, as well as a calculation of mean water residence time of 7 to 25 months. The 18O and 2H content in two profiles of the Jizera River and two boreholes in the lower reaches shows little communication of river water with the groundwater supply resources in the Lower Jizera area; the communicaton increases with pumping intensity. The 18O and 2H content in wetlands and groundwater in two catchments of the Jizera Mts. shows the differences in recharge to the wetlands via groundwater or precipitation. The isotope hydrology and hydrogeology perspectives in the ČR and SR include capacity building, cooperation of laboratories and conjunctive use of izotopic and hydrogeochemical approaches

Monitoring molecular chirality exchange by photon echoes

We construct pulse polarization configurations in heterodyne four wave mixing for monitoring ultrafast(picosecond)exchange rates between optical isomers with axial chirality.This information is not available from linear circular dichroism,since enantiomers may not be isolated and racemate shows no chiral signal

Adding nuclear rhodopsin data where mitochondrial COI indicates discrepancies – can this marker help to explain conflicts in cyprinids?

DNA barcoding is a fast and reliable tool for species identification, and has been successfully applied to a wide range of freshwater fishes. The limitations reported were mainly attributed to effects of geographic scale, taxon-sampling, incomplete lineage sorting, or mitochondrial introgression. However, the metrics for the success of assigning unknown samples to species or genera also depend on a suited taxonomic framework. A simultaneous use of the mitochondrial COI and the nuclear RHO gene turned out to be advantageous for the barcode efficiency in a few previous studies. Here, we examine 14 cyprinid fish genera, with a total of 74 species, where standard DNA barcoding failed to identify closely related species unambiguously. Eight of the genera (Acanthobrama, Alburnus, Chondrostoma, Gobio, Mirogrex, Phoxinus, Scardinius, and Squalius) contain species that exhibit very low interspecific divergence, or haplotype sharing (12 species pairs) with presumed introgression based on mtCOI data. We aimed to test the utility of the nuclear rhodopsin marker to uncover reasons for the high similarity and haplotype sharing in these different groups. The included labeonine species belonging to Crossocheilus, Hemigrammocapoeta, Tylognathus and Typhlogarra were found to be nested within the genus Garra based on mtCOI. This specific taxonomic uncertainty was also addressed by the use of the additional nuclear marker. As a measure of the delineation success we computed barcode gaps, which were present in 75% of the species based on mtCOI, but in only 39% based on nuclear rhodopsin sequences. Most cases where standard barcodes failed to offer unambiguous species identifications could not be resolved by adding the nuclear marker. However, in the labeonine cyprinids included, nuclear rhodopsin data generally supported the lineages as defined by the mitochondrial marker. This suggests that mitochondrial patterns were not mislead by introgression, but are caused by an inadequate taxonomy. Our findings support the transfer of the studied species of Crossocheilus, Hemigrammocapoeta, Tylognathus and Typhlogarra to Garra

Annihilation Dynamics of Molecular Excitons Measured at a Single Perturbative Excitation Energy

Exciton–exciton annihilation (EEA) is a ubiquitous phenomenon, which may limit the efficiency of photovoltaic devices. Conventional methods of determining EEA time scales rely on measuring the intensity dependence of third-order signals. In this work, we directly extract the annihilation rate of molecular excitons in a covalently joined molecular trimer without the need to perform and analyze intensity dependent data by employing fifth-order coherent optical spectroscopy signals emitted into ±2k⃗1 ∓ 2k⃗2 + k⃗3 phase matching directions. Measured two-dimensional line shapes and their time traces are analyzed in the framework of the many-body version of the Frenkel exciton model, extended to incorporate annihilation dynamics. Combining double-sided Feynman diagrams with explicit simulations of the fifth-order response, we identify a single peak as a direct reporter of EEA. We retrieve an annihilation time of 30 fs for the investigated squaraine trimer

Putting European lampreys into perspective: A global‐scale multilocus phylogeny with a proposal for a generic structure of the Petromyzontidae

Previous studies on the phylogenetic relationships between lamprey species relied either on a low number of morphological characters related to the feeding apparatus, or on a low number of molecular mitochondrial DNA markers. Here, we apply a multilocus approach to assess the phylogenetic relationships of northern hemisphere lampreys, with a special emphasis on the 17 European species. The study comprises two mitochondrial (cytochrome c oxidase subunit 1 gene—DNA barcodes, and cytochrome b gene) a nd t wo n uclear (internal transcribed spacers I and II) markers to investigate species' phylogenetic affinities. The phylogeny obtained with mitochondrial markers revealed a clear and highly supported separation of all northern hemisphere lampreys. Among those, our multilocus results show several polyphyletic genera, stressing the need for a taxonomic revision in a near future. Lampetra morii (Berg, 1931) from East Asia, often included in Eudontomyzon, is placed in the genus Lethenteron. Lampetra richardsoni Vladykov & Follett, 1965 and Entosphenus hubbsi (Vladykov & Kott, 1976) should be placed in a new genus, as well as the southern populations of Lethenteron camtschaticum (Tilesius, 1811) and Lethenteron reissneri (Dybowski, 1869). Considering European species, our results argue for a taxonomic revision of Eudontomyzon, with emphasis on Eudontomyzon vladykovi Oliva & Zanandrea, 1959.RESUMEN: Estudios anteriores sobre las relaciones filogenéticas entre especies de lampreas, se basan en un escaso número de caracteres morfológicos relacionados con las estructuras de alimentación, o en un bajo número de marcadores moleculares de ADN mitocondrial. Aquí aplicamos un enfoque multilocus para evaluar las relaciones filogenéticas de las lampreas del hemisferio norte, con especial énfasis en 17 especies europeas. Este estudio comprende dos marcadores mitocondriales (citocromo oxidasa c subunidad 1 —ADN barcodes, y citocromo oxidasa b) y dos marcadores nucleares (espaciadores transcritos internos I y II (ITS) ) para investigar la afinidad filogenética de las especies. La filogenia obtenida con losmarcadores mitocondriales reveló una separación clara y altamente apoyada de todas las lampreas del hemisferio norte. Entre ellas, nuestros resultados multilocus muestran varios géneros polifiléticos, lo que resalta la necesidad de una revisión taxonómica en el futuro. Lampetra morii (Berg, 1931) de Asia oriental, a menudo incluida en Eudontomyzon, se sitúa en el género Lethenteron. Lampetra richardsoni Vladykov & Follett, 1965 y Entosphenus hubbsi (Vladykov & Kott, 1976) deben colocarse en un nuevo género, así como las poblaciones meridionales de Lethenteron camtschaticum (Tilesius, 1811) y Lethenteron reissneri (Dybowski, 1869). Considerando las especies europeas, nuestros resultados abogan por una revisión taxonómica de Eudontomyzon, con énfasis en Eudontomyzon vladykovi Oliva & Zanandrea, 1959.Fundação para a Ciência e Tecnologia - FCTinfo:eu-repo/semantics/publishedVersio