bluuebunny/crossref_metadata_2025 huggingface dataset:
Diverse Eurasian Winter Temperature Responses to Barents‐Kara Sea Ice Anomalies of Different Magnitudes and Seasonality
Authors: Zhang Ruonan , Screen James A.
Published: June 2021

The sea‐ice‐driven component of observed Eurasian temperature variability, estimated by comparing multimodel large‐ensemble simulations prescribed with either time‐varying or climatological sea‐ice, suggests an intermittent causal effect of Barents‐Kara sea‐ice on Eurasian winter temperature. To understand this intermittency better, bespoke atmospheric model experiments were conducted with the seasonality, sign, and magnitude of sea‐ice anomalies systematically altered. Stronger Eurasian cooling is found in response to modest than to large autumn sea‐ice loss because of nonlinear wave‐mean‐flow interactions that, via a stratospheric pathway, govern the dynamical responses. Winter sea‐ice loss tends to induce Eurasian warming, via thermodynamical effects, which scale approximately linearly with the magnitude of sea‐ice loss. Complete loss of sea‐ice led to Eurasian warming, suggesting the thermodynamical response dominates when sea‐ice loss is sufficiently large. Our results have implications for the stationarity, or lack thereof, of Arctic‐to‐midlatitude connections, and also for reconciling discrepancies between model experiments with different sea‐ice perturbations.
The Role of the Seismically Slow Central‐East Atlantic Anomaly in the Genesis of the Canary and Madeira Volcanic Provinces
Authors: Civiero Chiara , Custódio Susana , Neres Marta , Schlaphorst David , Mata João , Silveira Graça
Published: June 2021

The Canary and Madeira provinces in the Central‐East Atlantic Ocean are characterized by an irregular spatio‐temporal distribution of volcanism along the hotspot tracks, and several alternative scenarios have been suggested to explain it. Here, we combine results from seismic tomography, shear‐wave splitting and gravity along with plate reconstruction constraints to investigate the mantle structure and dynamics beneath those provinces. We find that the Central‐East Atlantic Anomaly (CEAA), which rises from the core‐mantle boundary and stalls in the topmost lower mantle, is the deep source of distinct upper‐mantle upwellings beneath the region. The upwellings detach intermittently from the top of the CEAA and appear to be at different evolutionary stages. We argue that the accumulation of plume material in the topmost lower mantle can play a key role in governing the first‐order spatio‐temporal irregularities in the distribution of hotspot volcanism.
Chronic post-COVID-19 syndrome and chronic fatigue syndrome: Is there a role for extracorporeal apheresis?
Authors: Bornstein Stefan R. , Voit-Bak Karin , Donate Timo , Rodionov Roman N. , Gainetdinov Raul R. , Tselmin Sergey , Kanczkowski Waldemar , Müller Gregor M. , Achleitner Martin , Wang Jun , Licinio Julio , Bauer Michael , Young Allan H. , Thuret Sandrine , Bechmann Nicole , Straube Richard
Published: June 2021

As millions of patients have been infected by SARS-CoV-2 virus a vast number of individuals complain about continuing breathlessness and fatigue even months after the onset of the disease. This overwhelming phenomenon has not been well defined and has been called “post-COVID syndrome” or “long-COVID” [1]. There are striking similarities to myalgic encephalomyelitis also called chronic fatigue syndrome linked to a viral and autoimmune pathogenesis. In both disorders neurotransmitter receptor antibodies against ß-adrenergic and muscarinic receptors may play a key role. We found similar elevation of these autoantibodies in both patient groups. Extracorporeal apheresis using a special filter seems to be effective in reducing these antibodies in a significant way clearly improving the debilitating symptoms of patients with chronic fatigue syndrome. Therefore, such a form of neuropheresis may provide a promising therapeutic option for patients with post-COVID-19 syndrome. This method will also be effective when other hitherto unknown antibodies and inflammatory mediators are involved.
A pig BodyMap transcriptome reveals diverse tissue physiologies and evolutionary dynamics of transcription
Authors: Jin Long , Tang Qianzi , Hu Silu , Chen Zhongxu , Zhou Xuming , Zeng Bo , Wang Yuhao , He Mengnan , Li Yan , Gui Lixuan , Shen Linyuan , Long Keren , Ma Jideng , Wang Xun , Chen Zhengli , Jiang Yanzhi , Tang Guoqing , Zhu Li , Liu Fei , Zhang Bo , Huang Zhiqing , Li Guisen , Li Diyan , Gladyshev Vadim N. , Yin Jingdong , Gu Yiren , Li Xuewei , Li Mingzhou
Published: June 2021

A comprehensive transcriptomic survey of pigs can provide a mechanistic understanding of tissue specialization processes underlying economically valuable traits and accelerate their use as a biomedical model. Here we characterize four transcript types (lncRNAs, TUCPs, miRNAs, and circRNAs) and protein-coding genes in 31 adult pig tissues and two cell lines. We uncover the transcriptomic variability among 47 skeletal muscles, and six adipose depots linked to their different origins, metabolism, cell composition, physical activity, and mitochondrial pathways. We perform comparative analysis of the transcriptomes of seven tissues from pigs and nine other vertebrates to reveal that evolutionary divergence in transcription potentially contributes to lineage-specific biology. Long-range promoter–enhancer interaction analysis in subcutaneous adipose tissues across species suggests evolutionarily stable transcription patterns likely attributable to redundant enhancers buffering gene expression patterns against perturbations, thereby conferring robustness during speciation. This study can facilitate adoption of the pig as a biomedical model for human biology and disease and uncovers the molecular bases of valuable traits.
Chiral high-harmonic generation and spectroscopy on solid surfaces using polarization-tailored strong fields
Authors: Heinrich Tobias , Taucer Marco , Kfir Ofer , Corkum P. B. , Staudte André , Ropers Claus , Sivis Murat
Published: June 2021

Strong-field methods in solids enable new strategies for ultrafast nonlinear spectroscopy and provide all-optical insights into the electronic properties of condensed matter in reciprocal and real space. Additionally, solid-state media offers unprecedented possibilities to control high-harmonic generation using modified targets or tailored excitation fields. Here we merge these important points and demonstrate circularly-polarized high-harmonic generation with polarization-matched excitation fields for spectroscopy of chiral electronic properties at surfaces. The sensitivity of our approach is demonstrated for structural helicity and termination-mediated ferromagnetic order at the surface of silicon-dioxide and magnesium oxide, respectively. Circularly polarized radiation emanating from a solid sample now allows to add basic symmetry properties as chirality to the arsenal of strong-field spectroscopy in solids. Together with its inherent temporal (femtosecond) resolution and non-resonant broadband spectrum, the polarization control of high harmonics from condensed matter can illuminate ultrafast and strong field dynamics of surfaces, buried layers or thin films.
Generation of gravity waves from thermal tides in the Venus atmosphere
Authors: Sugimoto Norihiko , Fujisawa Yukiko , Kashimura Hiroki , Noguchi Katsuyuki , Kuroda Takeshi , Takagi Masahiro , Hayashi Yoshi-Yuki
Published: June 2021

Gravity waves play essential roles in the terrestrial atmosphere because they propagate far from source regions and transport momentum and energy globally. Gravity waves are also observed in the Venus atmosphere, but their characteristics have been poorly understood. Here we demonstrate activities of small-scale gravity waves using a high-resolution Venus general circulation model with less than 20 and 0.25 km in the horizontal and vertical grid intervals, respectively. We find spontaneous gravity wave radiation from nearly balanced flows. In the upper cloud layer (~70 km), the thermal tides in the super-rotation are primary sources of small-scale gravity waves in the low-latitudes. Baroclinic/barotropic waves are also essential sources in the mid- and high-latitudes. The small-scale gravity waves affect the three-dimensional structure of the super-rotation and contribute to material mixing through their breaking processes. They propagate vertically and transport momentum globally, which decelerates the super-rotation in the upper cloud layer (~70 km) and accelerates it above ~80 km.
3D genome alterations associated with dysregulated HOXA13 expression in high-risk T-lineage acute lymphoblastic leukemia
Authors: Yang Lu , Chen Fengling , Zhu Haichuan , Chen Yang , Dong Bingjie , Shi Minglei , Wang Weitao , Jiang Qian , Zhang Leping , Huang Xiaojun , Zhang Michael Q. , Wu Hong
Published: June 2021

3D genome alternations can dysregulate gene expression by rewiring enhancer-promoter interactions and lead to diseases. We report integrated analyses of 3D genome alterations and differential gene expressions in 18 newly diagnosed T-lineage acute lymphoblastic leukemia (T-ALL) patients and 4 healthy controls. 3D genome organizations at the levels of compartment, topologically associated domains and loop could hierarchically classify different subtypes of T-ALL according to T cell differentiation trajectory, similar to gene expressions-based classification. Thirty-four previously unrecognized translocations and 44 translocation-mediated neo-loops are mapped by Hi-C analysis. We find that neo-loops formed in the non-coding region of the genome could potentially regulate ectopic expressions of TLX3, TAL2 and HOXA transcription factors via enhancer hijacking. Importantly, both translocation-mediated neo-loops and NUP98-related fusions are associated with HOXA13 ectopic expressions. Patients with HOXA11-A13 expressions, but not other genes in the HOXA cluster, have immature immunophenotype and poor outcomes. Here, we highlight the potentially important roles of 3D genome alterations in the etiology and prognosis of T-ALL.
Charge carrier mapping for Z-scheme photocatalytic water-splitting sheet via categorization of microscopic time-resolved image sequences
Authors: Ebihara Makoto , Ikeda Takeshi , Okunaka Sayuri , Tokudome Hiromasa , Domen Kazunari , Katayama Kenji
Published: June 2021

Photocatalytic water splitting system using particulate semiconductor materials is a promising strategy for converting solar energy into hydrogen and oxygen. In particular, visible-light-driven ‘Z-scheme’ printable photocatalyst sheets are cost-effective and scalable. However, little is known about the fundamental photophysical processes, which are key to explaining and promoting the photoactivity. Here, we applied the pattern-illumination time-resolved phase microscopy for a photocatalyst sheet composed of Mo-doped BiVO4 and Rh-doped SrTiO3 with indium tin oxide as the electron mediator to investigate photo-generated charge carrier dynamics. Using this method, we successfully observed the position- and structure-dependent charge carrier behavior and visualized the active/inactive sites in the sheets under the light irradiation via the time sequence images and the clustering analysis. This combination methodology could provide the material/synthesis optimization methods for the maximum performance of the photocatalyst sheets.
Evolution of an assembly factor-based subunit contributed to a novel NDH-PSI supercomplex formation in chloroplasts
Authors: Kato Yoshinobu , Odahara Masaki , Shikanai Toshiharu
Published: June 2021

Chloroplast NADH dehydrogenase-like (NDH) complex is structurally related to mitochondrial Complex I and forms a supercomplex with two copies of Photosystem I (the NDH-PSI supercomplex) via linker proteins Lhca5 and Lhca6. The latter was acquired relatively recently in a common ancestor of angiosperms. Here we show that NDH-dependent Cyclic Electron Flow 5 (NDF5) is an NDH assembly factor in Arabidopsis. NDF5 initiates the assembly of NDH subunits (PnsB2 and PnsB3) and Lhca6, suggesting that they form a contact site with Lhca6. Our analysis of the NDF5 ortholog in Physcomitrella and angiosperm genomes reveals the subunit PnsB2 to be newly acquired via tandem gene duplication of NDF5 at some point in the evolution of angiosperms. Another Lhca6 contact subunit, PnsB3, has evolved from a protein unrelated to NDH. The structure of the largest photosynthetic electron transport chain complex has become more complicated by acquiring novel subunits and supercomplex formation with PSI.
Suppression of mitochondrial ROS by prohibitin drives glioblastoma progression and therapeutic resistance
Authors: Huang Haohao , Zhang Songyang , Li Yuanyuan , Liu Zhaodan , Mi Lanjuan , Cai Yan , Wang Xinzheng , Chen Lishu , Ran Haowen , Xiao Dake , Li Fangye , Wu Jiaqi , Li Tingting , Han Qiuying , Chen Liang , Pan Xin , Li Huiyan , Li Tao , He Kun , Li Ailing , Zhang Xuemin , Zhou Tao , Xia Qing , Man Jianghong
Published: June 2021

Low levels of reactive oxygen species (ROS) are crucial for maintaining cancer stem cells (CSCs) and their ability to resist therapy, but the ROS regulatory mechanisms in CSCs remains to be explored. Here, we discover that prohibitin (PHB) specifically regulates mitochondrial ROS production in glioma stem-like cells (GSCs) and facilitates GSC radiotherapeutic resistance. We find that PHB is upregulated in GSCs and is associated with malignant gliomas progression and poor prognosis. PHB binds to peroxiredoxin3 (PRDX3), a mitochondrion-specific peroxidase, and stabilizes PRDX3 protein through the ubiquitin-proteasome pathway. Knockout of PHB dramatically elevates ROS levels, thereby inhibiting GSC self-renewal. Importantly, deletion or pharmacological inhibition of PHB potently slows tumor growth and sensitizes tumors to radiotherapy, thus providing significant survival benefits in GSC-derived orthotopic tumors and glioblastoma patient-derived xenografts. These results reveal a selective role of PHB in mitochondrial ROS regulation in GSCs and suggest that targeting PHB improves radiotherapeutic efficacy in glioblastoma.
Fluorescent nanosensors reveal dynamic pH gradients during biofilm formation
Authors: Hollmann Birte , Perkins Mark , Chauhan Veeren M. , Aylott Jonathan W. , Hardie Kim R.
Published: June 2021

Understanding the dynamic environmental microniches of biofilms will permit us to detect, manage and exploit these communities. The components and architecture of biofilms have been interrogated in depth; however, little is known about the environmental microniches present. This is primarily because of the absence of tools with the required measurement sensitivity and resolution to detect these changes. We describe the application of ratiometric fluorescent pH-sensitive nanosensors, as a tool, to observe physiological pH changes in biofilms in real time. Nanosensors comprised two pH-sensitive fluorophores covalently encapsulated with a reference pH-insensitive fluorophore in an inert polyacrylamide nanoparticle matrix. The nanosensors were used to analyse the real-time three-dimensional pH variation for two model biofilm formers: (i) opportunistic pathogen Pseudomonas aeruginosa and (ii) oral pathogen Streptococcus mutans. The detection of sugar metabolism in real time by nanosensors provides a potential application to identify therapeutic solutions to improve oral health.
Development and pilot of an online, personalized risk assessment tool for a breast cancer precision medicine trial
Authors: Keane Holly , Huilgol Yash S. , Shieh Yiwey , Tice Jeffrey A. , Belkora Jeff , Sepucha Karen , Shibley W. Patrick , Wang Tianyi , Che Mandy , Goodman Deborah , Ozanne Elissa , Fiscalini Allison Stover , Esserman Laura J.
Published: June 2021

Breast cancer risk reduction has been validated by large-scale clinical trials, but uptake remains low. A risk communication tool could provide personalized risk-reduction information for high-risk women. A low-literacy-friendly, visual, and personalized tool was designed as part of the Women Informed to Screen Depending On Measures of risk (WISDOM) study. The tool integrates genetic, polygenic, and lifestyle factors, and quantifies the risk-reduction from undertaking medication and lifestyle interventions. The development and design process utilized feedback from clinicians, decision-making scientists, software engineers, and patient advocates. We piloted the tool with 17 study participants, collecting quantitative and qualitative feedback. Overall, participants felt they better understood their personalized breast cancer risk, were motivated to reduce their risk, and considered lifestyle interventions. The tool will be used to evaluate whether risk-based screening leads to more informed decisions and higher uptake of risk-reduction interventions among those most likely to benefit.
First-principles prediction of electronic transport in fabricated semiconductor heterostructures via physics-aware machine learning
Authors: Pimachev Artem K. , Neogi Sanghamitra
Published: June 2021

First-principles techniques for electronic transport property prediction have seen rapid progress in recent years. However, it remains a challenge to predict properties of heterostructures incorporating fabrication-dependent variability. Machine-learning (ML) approaches are increasingly being used to accelerate design and discovery of new materials with targeted properties, and extend the applicability of first-principles techniques to larger systems. However, few studies exploited ML techniques to characterize relationships between local atomic structures and global electronic transport coefficients. In this work, we propose an electronic-transport-informatics (ETI) framework that trains on ab initio models of small systems and predicts thermopower of fabricated silicon/germanium heterostructures, matching measured data. We demonstrate application of ML approaches to extract important physics that determines electronic transport in semiconductor heterostructures, and bridge the gap between ab initio accessible models and fabricated systems. We anticipate that ETI framework would have broad applicability to diverse materials classes.
Evaluating the lettuce metatranscriptome with MinION sequencing for future spaceflight food production applications
Authors: Haveman Natasha J. , Khodadad Christina L. M. , Dixit Anirudha R. , Louyakis Artemis S. , Massa Gioia D. , Venkateswaran Kasthuri , Foster Jamie S.
Published: June 2021

Healthy plants are vital for successful, long-duration missions in space, as they provide the crew with life support, food production, and psychological benefits. The microorganisms that associate with plant tissues play a critical role in improving plant health and production. To that end, we developed a methodology to investigate the transcriptional activities of the microbiome of red romaine lettuce, a key salad crop that was grown under International Space Station (ISS)-like conditions. Microbial transcripts enriched from host–microbe total RNA were sequenced using the Oxford Nanopore MinION sequencing platform. Results show that this enrichment approach was highly reproducible and could be an effective approach for the on-site detection of microbial transcriptional activity. Our results demonstrate the feasibility of using metatranscriptomics of enriched microbial RNA as a potential method for on-site monitoring of the transcriptional activity of crop microbiomes, thereby helping to facilitate and maintain plant health for on-orbit space food production.
A cautionary perspective regarding the isolation and serial propagation of SARS-CoV-2 in Vero cells
Authors: Funnell Simon G. P. , Afrough Babak , Baczenas John James , Berry Neil , Bewley Kevin R. , Bradford Rebecca , Florence Clint , Duff Yann Le , Lewis Mark , Moriarty Ryan V. , Connor Shelby L. O. , Osman Karen L. , Pullan Steven , Rashid Sujatha , Richards Kevin S. , Stemple Kimberly J. , Knezevic Ivana
Published: June 2021

An array of SARS-CoV-2 virus variants have been isolated, propagated and used in in vitro assays, in vivo animal studies and human clinical trials. Observations of working stocks of SARS-CoV-2 suggest that sequential propagation in Vero cells leads to critical changes in the region of the furin cleavage site, which significantly reduce the value of the working stock for critical research studies. Serially propagating SARS-CoV-2 in Vero E6 cells leads to rapid increases in genetic variants while propagation in other cell lines (e.g. Vero/hSLAM) appears to mitigate this risk thereby improving the overall genetic stability of working stocks. From these observations, investigators are urged to monitor genetic variants carefully when propagating SARS-CoV-2 in Vero cells.
Lower crustal earthquake associated with highly pressurized frictional melts
Authors: Zhong Xin , Petley-Ragan Arianne J. , Incel Sarah H. M. , Dabrowski Marcin , Andersen Niels H. , Jamtveit Bjørn
Published: June 2021

Earthquakes at lower crustal depths are common during continental collision. However, the coseismic weakening mechanisms required to propagate an earthquake at high pressures are poorly understood. Transient high-pressure fluids or melts have been proposed as a viable mechanism, but verifying this requires direct in situ measurement of fluid or melt overpressure along fault planes that have hosted dynamic ruptures. Here, we report direct measurement of highly overpressurized frictional melts along a seismic fault surface. Using Raman spectroscopy, we identified high-pressure quartz inclusions sealed in dendritic garnets that grew from frictional melts formed by lower crustal earthquakes in the Bergen Arcs, Western Norway. Melt pressure was estimated to be 1.8–2.3 GPa on the basis of an elastic model for the quartz-in-garnet system. This is ~0.5 GPa higher than the pressure recorded by the surrounding pseudotachylyte matrix and wall rocks. The recorded melt pressure could not arise solely from the volume expansion of melting, and we propose that it was generated when melt pressure approached the maximum principal stress in a system subject to high differential stress. The associated palaeostress field demonstrates that a strong lower crust accommodated up to 1 GPa differential stress during the compressive stage of the Caledonian orogeny.
Epigenetics Identifier screens reveal regulators of chromatin acylation and limited specificity of acylation antibodies
Authors: Kollenstart Leonie , van der Horst Sophie C. , Vreeken Kees , Janssen George M. C. , Martino Fabrizio , Vlaming Hanneke , van Veelen Peter A. , van Leeuwen Fred , van Attikum Haico
Published: June 2021

The collection of known posttranslational modifications (PTMs) has expanded rapidly with the identification of various non-acetyl histone lysine acylations, such as crotonylation, succinylation and butyrylation, yet their regulation is still not fully understood. Through an unbiased chromatin immunoprecipitation (ChIP)-based approach called Epigenetics-IDentifier (Epi-ID), we aimed to identify regulators of crotonylation, succinylation and butyrylation in thousands of yeast mutants simultaneously. However, highly correlative results led us to further investigate the specificity of the pan-K-acyl antibodies used in our Epi-ID studies. This revealed cross-reactivity and lack of specificity of pan-K-acyl antibodies in various assays. Our findings suggest that the antibodies might recognize histone acetylation in vivo, in addition to histone acylation, due to the vast overabundance of acetylation compared to other acylation modifications in cells. Consequently, our Epi-ID screen mostly identified factors affecting histone acetylation, including known (e.g. GCN5, HDA1, and HDA2) and unanticipated (MET7, MTF1, CLB3, and RAD26) factors, expanding the repertoire of acetylation regulators. Antibody-independent follow-up experiments on the Gcn5-Ada2-Ada3 (ADA) complex revealed that, in addition to acetylation and crotonylation, ADA has the ability to butyrylate histones. Thus, our Epi-ID screens revealed limits of using pan-K-acyl antibodies in epigenetics research, expanded the repertoire of regulators of histone acetylation, and attributed butyrylation activity to the ADA complex.
Lorentz force induced shear waves for magnetic resonance elastography applications
Authors: Flé Guillaume , Gilbert Guillaume , Grasland-Mongrain Pol , Cloutier Guy
Published: June 2021

Quantitative mechanical properties of biological tissues can be mapped using the shear wave elastography technique. This technology has demonstrated a great potential in various organs but shows a limit due to wave attenuation in biological tissues. An option to overcome the inherent loss in shear wave magnitude along the propagation pathway may be to stimulate tissues closer to regions of interest using alternative motion generation techniques. The present study investigated the feasibility of generating shear waves by applying a Lorentz force directly to tissue mimicking samples for magnetic resonance elastography applications. This was done by combining an electrical current with the strong magnetic field of a clinical MRI scanner. The Local Frequency Estimation method was used to assess the real value of the shear modulus of tested phantoms from Lorentz force induced motion. Finite elements modeling of reported experiments showed a consistent behavior but featured wavelengths larger than measured ones. Results suggest the feasibility of a magnetic resonance elastography technique based on the Lorentz force to produce an shear wave source.
Reflectivity relates differently to pro sociality in naïve and strategic subjects
Authors: Pancotto Francesca , Righi Simone
Published: June 2021

Is pro sociality a natural impulse or the result of a self-controlled behavior? We investigate this issue in a lab in the field experiment with participants from the general adult population in Italy. We find two key results: first, that there is a positive relationship between pro sociality and strategic reasoning. Second, that reflectivity relates to lower pro sociality but only among strategic subjects, indicating that the intuitive view of pro sociality is valid only among strategic individuals. Non-strategic individuals are instead intuitively selfish. We surmise that these results emerge due to a common cognitive root between strategizing and pro sociality, namely empathy.
Genome sequencing and de novo assembly of the giant unicellular alga Acetabularia acetabulum using droplet MDA
Authors: Andresen Ina J. , Orr Russell J. S. , Krabberød Anders K. , Shalchian-Tabrizi Kamran , Bråte Jon
Published: June 2021

The macroscopic single-celled green alga Acetabularia acetabulum has been a model system in cell biology for more than a century. However, no genomic information is available from this species. Since the alga has a long life cycle, is difficult to grow in dense cultures, and has an estimated diploid genome size of almost 2 Gb, obtaining sufficient genomic material for genome sequencing is challenging. Here, we have attempted to overcome these challenges by amplifying genomic DNA using multiple displacement amplification (MDA) combined with microfluidics technology to distribute the amplification reactions across thousands of microscopic droplets. By amplifying and sequencing DNA from five single cells we were able to recover an estimated ~ 7–11% of the total genome, providing the first draft of the A. acetabulum genome. We highlight challenges associated with genome recovery and assembly of MDA data due to biases arising during genome amplification, and hope that our study can serve as a reference for future attempts on sequencing the genome from non-model eukaryotes.
Electro-oxidation of formoterol fumarate on the surface of novel poly(thiazole yellow-G) layered multi-walled carbon nanotube paste electrode
Authors: Hareesha N. , Manjunatha J. G.
Published: June 2021

The current study explicates the electro-oxidation behavior of formoterol fumarate (FLFT) in the presence of uric acid (UA) on the surface of poly thiazole yellow-G (TY-G) layered multi-walled carbon nanotube paste electrode (MWCNTPE). The modified (Poly(TY-G)LMWCNTPE) and unmodified (MWCNTPE) electrode materials were characterized through electrochemical impedance spectroscopy (EIS), field emission scanning electron microscopy (FE-SEM), and cyclic voltammetry (CV) approaches. The characterization data confirms the good conducting and electrocatalytic nature with more electrochemical active sites on the Poly(TY-G)LMWCNTPE than MWCNTPE towards the FLFT analysis in the presence of UA. Poly(TY-G)LMWCNTPE easily separates the two drugs (FLFT and UA) even though they both have nearer oxidation peak potential. The electro-catalytic activity of the developed electrode is fast and clear for FLFT electro-oxidation in 0.2 M phosphate buffer (PB) of pH 6.5. The Poly(TY-G)LMWCNTPE offered a well-resolved peak with the highest electro-oxidation peak current at the peak potential of 0.538 V than MWCNTPE. The potential scan rate and oxidation peak growth time studies show the electrode reaction towards FLFT electro-oxidation is continued through a diffusion-controlled step. The variation of concentration of FLFT in the range from 0.2 to 1.5 µM (absence of UA) and 3.0 to 8.0 μM (presence of UA) provides a good linear relationship with increased peak current and a lower limit of detection (LOD) values of 0.0128 µM and 0.0129 µM, respectively. The prepared electrode gives a fine recovery for the detection of FLFT in the medicinal sample with acceptable repeatability, stability, and reproducibility.
Fensomea setacea, gen. & sp. nov. (Cladopyxidaceae, Dinophyceae), is neither gonyaulacoid nor peridinioid as inferred from morphological and molecular data
Authors: Gottschling Marc , Carbonell-Moore Maria Consuelo , Mertens Kenneth Neil , Kirsch Monika , Elbrächter Malte , Tillmann Urban
Published: June 2021

Dinophyte evolution is essentially inferred from the pattern of thecal plates, and two different labelling systems are used for the important subgroups Gonyaulacales and Peridiniales. The partiform hypotheca of cladopyxidoid dinophytes fits into the morphological concepts of neither group, although they are assigned to the Gonyaulacales. Here, we describe the thecate dinophyte Fensomea setacea, gen. & sp. nov., which has a cladopyxidoid tabulation. The cells displayed a Kofoidean plate formula APC, 3′, 4a, 7″, 7C, 6S, 6′′′, 2′′′′, and slender processes were randomly distributed over the echinate or baculate surface. In addition, we obtained rRNA sequences of F. setacea, gen. & sp. nov., but dinophytes that exhibit a partiform hypotheca did not show a close relationship to Gonyaulacales. Character evolution of thecate dinophytes may have progressed from the ancestral state of six postcingular plates, and two more or less symmetrically arranged antapical plates, towards patterns of only five postcingular plates (Peridiniales) or more asymmetrical configurations (Gonyaulacales). Based on our phylogenetic reconsiderations the contact between the posterior sulcal plate and the first postcingular plate, as well as the contact between an antapical plate and the distalmost postcingular plate, do not represent a rare, specialized gonyaulacoid plate configuration (i.e., the partiform hypotheca of cladopyxidoid dinophytes). Instead, these contacts correspond to the common and regular configuration of peridinioid (and other) dinophytes.
Extraordinary diversity of telomeres, telomerase RNAs and their template regions in Saccharomycetaceae
Authors: Peska Vratislav , Fajkus Petr , Bubeník Michal , Brázda Václav , Bohálová Natália , Dvořáček Vojtěch , Fajkus Jiří , Garcia Sònia
Published: June 2021

Telomerase RNA (TR) carries the template for synthesis of telomere DNA and provides a scaffold for telomerase assembly. Fungal TRs are long and have been compared to higher eukaryotes, where they show considerable diversity within phylogenetically close groups. TRs of several Saccharomycetaceae were recently identified, however, many of these remained uncharacterised in the template region. Here we show that this is mainly due to high variability in telomere sequence. We predicted the telomere sequences using Tandem Repeats Finder and then we identified corresponding putative template regions in TR candidates. Remarkably long telomere units and the corresponding putative TRs were found in Tetrapisispora species. Notably, variable lengths of the annealing sequence of the template region (1–10 nt) were found. Consequently, species with the same telomere sequence may not harbour identical TR templates. Thus, TR sequence alone can be used to predict a template region and telomere sequence, but not to determine these exactly. A conserved feature of telomere sequences, tracts of adjacent Gs, led us to test the propensity of individual telomere sequences to form G4. The results show highly diverse values of G4-propensity, indicating the lack of ubiquitous conservation of this feature across Saccharomycetaceae.
Molecular mechanism of calcium induced trimerization of C1q-like domain of otolin-1 from human and zebrafish
Authors: Hołubowicz Rafał , Ożyhar Andrzej , Dobryszycki Piotr
Published: June 2021

The C1q superfamily includes proteins involved in innate immunity, insulin sensitivity, biomineralization and more. Among these proteins is otolin-1, which is a collagen-like protein that forms a scaffold for the biomineralization of inner ear stones in vertebrates. The globular C1q-like domain (gC1q), which is the most conserved part of otolin-1, binds Ca2+ and stabilizes its collagen-like triple helix. The molecular details of the assembly of gC1q otolin-1 trimers are not known. Here, we substituted putative Ca2+-binding acidic residues of gC1q otolin-1 with alanine to analyse how alanine influences the formation of gC1q trimers. We used human and zebrafish gC1q otolin-1 to assess how evolutionary changes affected the function of the protein. Surprisingly, the mutated forms of gC1q otolin-1 trimerized even in the absence of Ca2+, although they were less stable than native proteins saturated with Ca2+. We also found that the zebrafish gC1q domain was less stable than the human homologue under all tested conditions and became stabilized at higher concentrations of Ca2+, which showed that specific interactions leading to the neutralization of the negative charge at the axis of a gC1q trimer by Ca2+ are required for the trimers to form. Moreover, human gC1q otolin-1 seems to be optimized to function at lower concentrations of Ca2+, which is consistent with reported Ca2+ concentrations in the endolymphs of fish and mammals. Our results allow us to explain the molecular mechanism of assembly of proteins from the C1q superfamily, the modulating role of Ca2+ and expand the knowledge of biomineralization of vertebrate inner ear stones: otoliths and otoconia.
Russian forest sequesters substantially more carbon than previously reported
Authors: Schepaschenko Dmitry , Moltchanova Elena , Fedorov Stanislav , Karminov Victor , Ontikov Petr , Santoro Maurizio , See Linda , Kositsyn Vladimir , Shvidenko Anatoly , Romanovskaya Anna , Korotkov Vladimir , Lesiv Myroslava , Bartalev Sergey , Fritz Steffen , Shchepashchenko Maria , Kraxner Florian
Published: June 2021

Since the collapse of the Soviet Union and transition to a new forest inventory system, Russia has reported almost no change in growing stock (+ 1.8%) and biomass (+ 0.6%). Yet remote sensing products indicate increased vegetation productivity, tree cover and above-ground biomass. Here, we challenge these statistics with a combination of recent National Forest Inventory and remote sensing data to provide an alternative estimate of the growing stock of Russian forests and to assess the relative changes in post-Soviet Russia. Our estimate for the year 2014 is 111 ± 1.3 × 109 m3, or 39% higher than the value in the State Forest Register. Using the last Soviet Union report as a reference, Russian forests have accumulated 1163 × 106 m3 yr-1 of growing stock between 1988–2014, which balances the net forest stock losses in tropical countries. Our estimate of the growing stock of managed forests is 94.2 × 109 m3, which corresponds to sequestration of 354 Tg C yr-1 in live biomass over 1988–2014, or 47% higher than reported in the National Greenhouse Gases Inventory.
The effect of cane vigour on the kiwifruit (Actinidia chinensis) and kiwiberry (Actinidia arguta) quality
Authors: Medic Aljaz , Hudina Metka , Veberic Robert
Published: June 2021

Kiwifruit has not been studied as much as other well-known fruits especially when it comes to studies about plant vigour and training systems. The aim of the study was to determine the importance of cane vigour of Actinidia chinensis var. deliciosa ‘Hayward’ and Actinidia arguta ‘Issai’ in order to develop the proper pruning technique that results in the best fruit quality. In addition, the effect of storage parameters such as weight, firmness and quality of the fruit was also studied. The study showed that the fruit size and weight are lower in low vigour canes in A. arguta, in contrast to A. chinensis, where the fruit size and weight are smaller on high-vigorous canes. For A. arguta, it is recommended to choose high-vigour canes as the optimal fruit wood during pruning. In this way, the fruits will ripen more evenly. The other possibility is to perform the harvest two to three times per season to achieve a more uniform fruit quality. In the case of A. chinensis the fruit are less variable between different cane vigour, so harvesting can be done in a single picking. In A. chinensis the less vigorous canes tend to show a slightly better fruit quality.
Exploring nine simultaneously occurring transients on April 12th 1950
Authors: Villarroel Beatriz , Marcy Geoffrey W. , Geier Stefan , Streblyanska Alina , Solano Enrique , Andruk Vitaly N. , Shultz Matthew E. , Gupta Alok C. , Mattsson Lars
Published: June 2021

Nine point sources appeared within half an hour on a region within $$\sim $$
∼
10 arcmin of a red-sensitive photographic plate taken in April 1950 as part of the historic Palomar Sky Survey. All nine sources are absent on both previous and later photographic images, and absent in modern surveys with CCD detectors which go several magnitudes deeper. We present deep CCD images with the 10.4-m Gran Telescopio Canarias, reaching brightness $$r \sim 26$$

r
∼
26

mag, that reveal possible optical counterparts, although these counterparts could equally well be just chance projections. The incidence of transients in the investigated photographic plate is far higher than expected from known detection rates of optical counterparts to e.g. flaring dwarf stars, Fast Radio Bursts, Gamma Ray Bursts or microlensing events. One possible explanation is that the plates have been subjected to an unknown type of contamination producing mainly point sources with of varying intensities along with some mechanism of concentration within a radius of $$\sim $$
∼
10 arcmin on the plate. If contamination as an explanation can be fully excluded, another possibility is fast (t $$<0.5$$

<
0.5

s) solar reflections from objects near geosynchronous orbits. An alternative route to confirm the latter scenario is by looking for images from the First Palomar Sky Survey where multiple transients follow a line.
Increased duration of pollen and mold exposure are linked to climate change
Authors: Paudel Bibek , Chu Theodore , Chen Meng , Sampath Vanitha , Prunicki Mary , Nadeau Kari C.
Published: June 2021

Pollen and molds are environmental allergens that are affected by climate change. As pollen and molds exhibit geographical variations, we sought to understand the impact of climate change (temperature, carbon dioxide (CO2), precipitation, smoke exposure) on common pollen and molds in the San Francisco Bay Area, one of the largest urban areas in the United States. When using time-series regression models between 2002 and 2019, the annual average number of weeks with pollen concentrations higher than zero increased over time. For tree pollens, the average increase in this duration was 0.47 weeks and 0.51 weeks for mold spores. Associations between mold, pollen and meteorological data (e.g., precipitation, temperature, atmospheric CO2, and area covered by wildfire smoke) were analyzed using the autoregressive integrated moving average model. We found that peak concentrations of weed and tree pollens were positively associated with temperature (p < 0.05 at lag 0–1, 0–4, and 0–12 weeks) and precipitation (p < 0.05 at lag 0–4, 0–12, and 0–24 weeks) changes, respectively. We did not find clear associations between pollen concentrations and CO2levels or wildfire smoke exposure. This study’s findings suggest that spore and pollen activities are related to changes in observed climate change variables.
Correlative Microscopy: a tool for understanding soil weathering in modern analogues of early terrestrial biospheres
Authors: Mitchell R. L. , Davies P. , Kenrick P. , Volkenandt T. , Pleydell-Pearce C. , Johnston R.
Published: June 2021

Correlative imaging provides a method of investigating complex systems by combining analytical (chemistry) and imaging (tomography) information across dimensions (2D-3D) and scales (centimetres-nanometres). We studied weathering processes in a modern cryptogamic ground cover from Iceland, containing early colonizing, and evolutionary ancient, communities of mosses, lichens, fungi, and bacteria. Targeted multi-scale X-ray Microscopy of a grain in-situ within a soil core revealed networks of surficial and internal features (tunnels) originating from organic-rich surface holes. Further targeted 2D grain characterisation by optical microscopy (OM), scanning electron microscopy (SEM), and energy dispersive X-ray spectroscopy (SEM–EDS), following an intermediate manual correlative preparation step, revealed Fe-rich nodules within the tunnels. Finally, nanotomographic imaging by focussed ion beam microscopy (FIB-SEM) revealed coccoid and filamentous-like structures within subsurface tunnels, as well as accumulations of Fe and S in grain surface crusts, which may represent a biological rock varnish/glaze. We attribute these features to biological processes. This work highlights the advantages and novelty of the correlative imaging approach, across scales, dimensions, and modes, to investigate biological weathering processes. Further, we demonstrate correlative microscopy as a means of identifying fingerprints of biological communities, which could be used in the geologic rock record and on extra-terrestrial bodies.
Isolation and characterization of a new cold-active protease from psychrotrophic bacteria of Western Himalayan glacial soil
Authors: Farooq Saleem , Nazir Ruqeya , Ganai Shabir Ahmad , Ganai Bashir Ahmad
Published: June 2021

As an approach to the exploration of cold-active enzymes, in this study, we isolated a cold-active protease produced by psychrotrophic bacteria from glacial soils of Thajwas Glacier, Himalayas. The isolated strain BO1, identified as Bacillus pumilus, grew well within a temperature range of 4–30 °C. After its qualitative and quantitative screening, the cold-active protease (Apr-BO1) was purified. The Apr-BO1 had a molecular mass of 38 kDa and showed maximum (37.02 U/mg) specific activity at 20 °C, with casein as substrate. It was stable and active between the temperature range of 5–35 °C and pH 6.0–12.0, with an optimum temperature of 20 °C at pH 9.0. The Apr-BO1 had low Km value of 1.0 mg/ml and Vmax 10.0 µmol/ml/min. Moreover, it displayed better tolerance to organic solvents, surfactants, metal ions and reducing agents than most alkaline proteases. The results exhibited that it effectively removed the stains even in a cold wash and could be considered a decent detergent additive. Furthermore, through protein modelling, the structure of this protease was generated from template, subtilisin E of Bacillus subtilis (PDB ID: 3WHI), and different methods checked its quality. For the first time, this study reported the protein sequence for psychrotrophic Apr-BO1 and brought forth its novelty among other cold-active proteases.
Remodeling of bronchial epithelium caused by asthmatic inflammation affects its response to rhinovirus infection
Authors: Jakiela Bogdan , Rebane Ana , Soja Jerzy , Bazan-Socha Stanislawa , Laanesoo Anet , Plutecka Hanna , Surmiak Marcin , Sanak Marek , Sladek Krzysztof , Bochenek Grazyna
Published: June 2021

Human rhinoviruses (HRV) are frequent cause of asthma exacerbations, however the influence of airway inflammation on the severity of viral infection is poorly understood. Here, we investigated how cytokine-induced remodeling of airway epithelium modulates antiviral response. We analyzed gene expression response in in vitro differentiated bronchial epithelium exposed to cytokines and next infected with HRV16. IL-13-induced mucous cell metaplasia (MCM) was associated with impaired ciliogenesis and induction of antiviral genes, resulting in lower susceptibility to HRV. Epithelial-mesenchymal transition caused by TGF-β was associated with increased virus replication and boosted innate response. Moreover, HRV infection per se caused transient upregulation of MCM markers and growth factors, followed by low-level virus replication and shedding. Our data suggest that the outcome of HRV infection depends on the type of lower airway inflammation and the extent of epithelial damage. Type-2 inflammation (eosinophilic asthma) may induce antiviral state of epithelium and decrease virus sensitivity, while growth factor exposure during epithelial repair may facilitate virus replication and inflammatory response. Additionally, responses to HRV were similar in cells obtained from asthma patients and control subjects, which implicates that antiviral mechanisms are not intrinsically impaired in asthma, but may develop in the presence of uncontrolled airway inflammation.
Inhibitory and facilitatory effects of phonological and orthographic similarity on L2 word recognition across modalities in bilinguals
Authors: Frances Candice , Navarra-Barindelli Eugenia , Martin Clara D.
Published: June 2021

Language perception studies on bilinguals often show that words that share form and meaning across languages (cognates) are easier to process than words that share only meaning. This facilitatory phenomenon is known as the cognate effect. Most previous studies have shown this effect visually, whereas the auditory modality as well as the interplay between type of similarity and modality remain largely unexplored. In this study, highly proficient late Spanish–English bilinguals carried out a lexical decision task in their second language, both visually and auditorily. Words had high or low phonological and orthographic similarity, fully crossed. We also included orthographically identical words (perfect cognates). Our results suggest that similarity in the same modality (i.e., orthographic similarity in the visual modality and phonological similarity in the auditory modality) leads to improved signal detection, whereas similarity across modalities hinders it. We provide support for the idea that perfect cognates are a special category within cognates. Results suggest a need for a conceptual and practical separation between types of similarity in cognate studies. The theoretical implication is that the representations of items are active in both modalities of the non-target language during language processing, which needs to be incorporated to our current processing models.