bluuebunny/crossref_metadata_2025_split huggingface dataset:
Dermal IRF4+ dendritic cells and monocytes license CD4+ T helper cells to distinct cytokine profiles
Authors: Hilligan Kerry L. , Tang Shiau-Choot , Hyde Evelyn J. , Roussel Elsa , Mayer Johannes U. , Yang Jianping , Wakelin Kirsty A. , Schmidt Alfonso J. , Connor Lisa M. , Sher Alan , MacDonald Andrew S. , Ronchese Franca 
Published: November 2020

AbstractAntigen (Ag)-presenting cells (APC) instruct CD4+ helper T (Th) cell responses, but it is unclear whether different APC subsets contribute uniquely in determining Th differentiation in pathogen-specific settings. Here, we use skin-relevant, fluorescently-labeled bacterial, helminth or fungal pathogens to track and characterize the APC populations that drive Th responses in vivo. All pathogens are taken up by a population of IRF4+ dermal migratory dendritic cells (migDC2) that similarly upregulate surface co-stimulatory molecules but express pathogen-specific cytokine and chemokine transcripts. Depletion of migDC2 reduces the amount of Ag in lymph node and the development of IFNγ, IL-4 and IL-17A responses without gain of other cytokine responses. Ag+ monocytes are an essential source of IL-12 for both innate and adaptive IFNγ production, and inhibit follicular Th cell development. Our results thus suggest that Th cell differentiation does not require specialized APC subsets, but is driven by inducible and pathogen-specific transcriptional programs in Ag+ migDC2 and monocytes.
The smfBox is an open-source platform for single-molecule FRET
Authors: Ambrose Benjamin , Baxter James M. , Cully John , Willmott Matthew , Steele Elliot M. , Bateman Benji C. , Martin-Fernandez Marisa L. , Cadby Ashley , Shewring Jonathan , Aaldering Marleen , Craggs Timothy D. 
Published: November 2020

AbstractSingle-molecule Förster Resonance Energy Transfer (smFRET) is a powerful technique capable of resolving both relative and absolute distances within and between structurally dynamic biomolecules. High instrument costs, and a lack of open-source hardware and acquisition software have limited smFRET’s broad application by non-specialists. Here, we present the smfBox, a cost-effective confocal smFRET platform, providing detailed build instructions, open-source acquisition software, and full validation, thereby democratising smFRET for the wider scientific community.
Client proximity enhancement inside cellular membrane-less compartments governed by client-compartment interactions
Authors: Song Daesun , Jo Yongsang , Choi Jeong-Mo , Jung Yongwon 
Published: November 2020

AbstractMembrane-less organelles or compartments are considered to be dynamic reaction centers for spatiotemporal control of diverse cellular processes in eukaryotic cells. Although their formation mechanisms have been steadily elucidated via the classical concept of liquid–liquid phase separation, biomolecular behaviors such as protein interactions inside these liquid compartments have been largely unexplored. Here we report quantitative measurements of changes in protein interactions for the proteins recruited into membrane-less compartments (termed client proteins) in living cells. Under a wide range of phase separation conditions, protein interaction signals were vastly increased only inside compartments, indicating greatly enhanced proximity between recruited client proteins. By employing an in vitro phase separation model, we discovered that the operational proximity of clients (measured from client–client interactions) could be over 16 times higher than the expected proximity from actual client concentrations inside compartments. We propose that two aspects should be considered when explaining client proximity enhancement by phase separation compartmentalization: (1) clients are selectively recruited into compartments, leading to concentration enrichment, and more importantly, (2) recruited clients are further localized around compartment-forming scaffold protein networks, which results in even higher client proximity.
Scalable continuous evolution for the generation of diverse enzyme variants encompassing promiscuous activities
Authors: Rix Gordon , Watkins-Dulaney Ella J. , Almhjell Patrick J. , Boville Christina E. , Arnold Frances H. , Liu Chang C. 
Published: November 2020

AbstractEnzyme orthologs sharing identical primary functions can have different promiscuous activities. While it is possible to mine this natural diversity to obtain useful biocatalysts, generating comparably rich ortholog diversity is difficult, as it is the product of deep evolutionary processes occurring in a multitude of separate species and populations. Here, we take a first step in recapitulating the depth and scale of natural ortholog evolution on laboratory timescales. Using a continuous directed evolution platform called OrthoRep, we rapidly evolve the Thermotoga maritima tryptophan synthase β-subunit (TmTrpB) through multi-mutation pathways in many independent replicates, selecting only on TmTrpB’s primary activity of synthesizing l-tryptophan from indole and l-serine. We find that the resulting sequence-diverse TmTrpB variants span a range of substrate profiles useful in industrial biocatalysis and suggest that the depth and scale of evolution that OrthoRep affords will be generally valuable in enzyme engineering and the evolution of biomolecular functions.
A non-classical route of efficient plant uptake verified with fluorescent nanoparticles and root adhesion forces investigated using AFM
Authors: Sharma Sandeep , Muddassir Mohd. , Muthusamy Saraladevi , Vaishnav Pardeep Kumar , Singh Manish , Sharma Deepak , Kanagarajan Selvaraju , Shanmugam Vijayakumar 
Published: November 2020

AbstractClassical plant uptake is limited to hydrophilic or water-dispersible material. Therefore, in order to test the uptake behaviour of hydrophobic particles, here, we tested the fate of hydrophobic particles (oleylamine coated Cu2-xSe NPs (CS@OA)) in comparison to hydrophilic particles (chitosan-coated Cu2-xSe NPs (CS@CH)) by treatment on the plant roots. Surprisingly, hydrophobic CS@OA NPs have been found to be ~ 1.3 times more efficient than hydrophilic CS@CH NPs in tomato plant root penetration. An atomic force microscopy (AFM) adhesion force experiment confirms that hydrophobic NPs experience non-spontaneous yet energetically favorable root trapping and penetration. Further, a relative difference in the hydrophobic vs. hydrophilic NPs movement from roots to shoots has been observed and found related to the change in protein corona as identified by two dimensional-polyacrylamide gel electrophoresis (2D-PAGE) analysis. Finally, the toxicity assays at the give concentration showed that Cu2-xSe NPs lead to non-significant toxicity as compared to control. This technology may find an advantage in fertilizer application.
Tamoxifen induces hypercoagulation and alterations in ERα and ERβ dependent on breast cancer sub-phenotype ex vivo
Authors: Pather K. , Augustine T. N. 
Published: November 2020

AbstractTamoxifen shows efficacy in reducing breast cancer-related mortality but clinically, is associated with increased risk for thromboembolic events. We aimed to determine whether breast tumour sub-phenotype could predict propensity for thrombosis. We present two ex vivo Models of Tamoxifen-therapy, Model 1 in which treatment recapitulates accumulation within breast tissue, by treating MCF7 and T47D cells directly prior to exposure to blood constituents; and Model 2 in which we recreate circulating Tamoxifen by treating blood constituents prior to exposure to cancer cells. Blood constituents included whole blood, platelet-rich plasma and platelet-poor plasma. Hypercoagulation was assessed as a function of thrombin activity, expression of CD62P and CD63 activation markers defined as an index of platelet activation, and platelet morphology; while oestrogen receptor expression was assessed using immunocytochemistry with quantitative analysis. We determined, in concert with clinical studies and contrary to selected laboratory investigations, that Tamoxifen induces hypercoagulation, dependent on sub-phenotypes, with the T47D cell line capacity most enhanced. We determined a weak positive correlation between oestrogen receptor expression, and CD62P and CD63; indicating an association between tumour invasion profiles and hypercoagulation, however, other yet unknown factors may play a predictive role in defining hypercoagulation.
Results from an 18 country cross-sectional study examining experiences of nature for people with common mental health disorders
Authors: Tester-Jones Michelle , White Mathew P. , Elliott Lewis R. , Weinstein Netta , Grellier James , Economou Theo , Bratman Gregory N. , Cleary Anne , Gascon Mireia , Korpela Kalevi M. , Nieuwenhuijsen Mark , O’Connor Aisling , Ojala Ann , van den Bosch Matilda , Fleming Lora E. 
Published: November 2020

AbstractExposure to natural environments is associated with a lower risk of common mental health disorders (CMDs), such as depression and anxiety, but we know little about nature-related motivations, practices and experiences of those already experiencing CMDs. We used data from an 18-country survey to explore these issues (n = 18,838), taking self-reported doctor-prescribed medication for depression and/or anxiety as an indicator of a CMD (n = 2698, 14%). Intrinsic motivation for visiting nature was high for all, though slightly lower for those with CMDs. Most individuals with a CMD reported visiting nature ≥ once a week. Although perceived social pressure to visit nature was associated with higher visit likelihood, it was also associated with lower intrinsic motivation, lower visit happiness and higher visit anxiety. Individuals with CMDs seem to be using nature for self-management, but ‘green prescription’ programmes need to be sensitive, and avoid undermining intrinsic motivation and nature-based experiences.
Lactobacillus casei extracellular vesicles stimulate EGFR pathway likely due to the presence of proteins P40 and P75 bound to their surface
Authors: Bäuerl Christine , Coll-Marqués José M. , Tarazona-González Carmen , Pérez-Martínez Gaspar 
Published: November 2020

AbstractIn the complex interplay of beneficial bacteria with the host, there are few examples of bacterial metabolites and effector molecules that have been consistently identified. Protective effects on the intestinal epithelium have been ascribed to P40 and P75, two well characterized cell wall muramidases, present in the culture supernatant of strains belonging to the taxon Lactobacillus casei/paracasei/rhamnosus. This work reports that Lactobacillus casei BL23 extracellular vesicles (BL23 EVs) have a small size (17–20 nm or 24–32 nm, depending on the method used) and contain lipoteichoic acid (LTA). Interestingly, all detected P40 and most of P75 were associated to EVs and possibly located at their external surface, as shown by proteinase K digestion. Biosensor assays showed that both proteins bind LTA and vesicles, suggesting that they could bind to ligands like LTA present on BL23 EVs. Native BL23 EVs have a moderate proinflammatory effect and they were able to induce phosphorylation of the epidermal growth factor receptor (EGFR), showing an effect similar to purified P40 and P75 and leading to the conclusion that the activity described in the supernatant (postbiotic) of these bacteria would be mainly due to P40 and P75 bound to EVs.
Effects of intense storm events on dolphin occurrence and foraging behavior
Authors: Fandel Amber D. , Garrod A. , Hoover A. L. , Wingfield J. E. , Lyubchich V. , Secor D. H. , Hodge K. B. , Rice A. N. , Bailey H. 
Published: November 2020

AbstractAs storms become increasingly intense and frequent due to climate change, we must better understand how they alter environmental conditions and impact species. However, storms are ephemeral and provide logistical challenges that prevent visual surveys commonly used to understand marine mammal ecology. Thus, relatively little is known about top predators’ responses to such environmental disturbances. In this study, we utilized passive acoustic monitoring to characterize the response of bottlenose dolphins to intense storms offshore Maryland, USA between 2015 and 2017. During and following four autumnal storms, dolphins were detected less frequently and for shorter periods of time. However, dolphins spent a significantly higher percentage of their encounters feeding after the storm than they did before or during. This change in foraging may have resulted from altered distributions and behavior of their prey species, which are prone to responding to environmental changes, such as varied sea surface temperatures caused by storms. It is increasingly vital to determine how these intense storms alter oceanography, prey movements, and the behavior of top predators.
Genetic diversity and population structure in Nothofagus pumilio, a foundation species of Patagonian forests: defining priority conservation areas and management
Authors: Mattera M. Gabriela , Pastorino Mario J. , Lantschner M. Victoria , Marchelli Paula , Soliani Carolina 
Published: November 2020

AbstractPatagonian forests are the southernmost temperate forests in the world, andNothofagus pumiliois one of their most ecologically important tree species (i.e., a foundation species). It presents great adaptability and a wide distribution range, making it a suitable model for predicting the performance of trees facing global climate change.N. pumilioforests are increasingly threatened by extreme climatic events and anthropogenic activities. This study aims to identify priority conservation areas and Genetic Zones (GZs) forN. pumilio, promoting the implementation of specific practices to ensure its management and long-term preservation. Thirty-five populations (965 trees) sampled across its distribution (more than 2200 km latitudinally) were genotyped with SSRs, and geographical patterns of genetic variation were identified using Bayesian approaches. The phylogeographic patterns of the species and geomorphological history of the region were also considered. Six priority conservation areas were identified, which hold high allelic richness and/or exclusive allelic variants. Eighteen GZs were delineated based on the genetic structure of this species, and maps showing their distributional range were drawn up. Overall, this study defines management units based on genetic data forN. pumiliofor the first time, which will facilitate the establishment of sustainable practices and highlight priorities for investment of conservation funding.
Facile preparation and adsorption performance of low-cost MOF@cotton fibre composite for uranium removal
Authors: Yang Aili , Wang Zhijun , Zhu Yukuan 
Published: November 2020

AbstractA novel composite MOF@cotton fibre (HCF) was prepared and characterized by FTIR, SEM, XPS and TGA. The effect of various parameters on the adsorption efficiency, such as the solution pH, contact time, initial U(VI) concentration and temperature, was studied. The maximal sorption capacity (Qm) is 241.28 mg g−1at pH 3.0 for U(VI) according to the Langmuir isotherm adsorption model, and the kinetic and thermodynamic data reveal a relatively fast entropy-driven process (ΔH0 = 13.47 kJ mol−1and ΔS0 = 75.47 J K−1 mol−1). The removal efficiency of U(VI) by HCF is comparable with that of pure cotton fibre and as-prepared MOF (noted as HST). However, the HST composite with cotton fibre significantly improved the treatment process of U(VI) from aqueous solutions in view of higher removal efficiency, lower cost and faster solid–liquid separation. Recycling experiments showed that HCF can be used up to five times with less than 10% efficiency loss.
Exercise reverses learning deficits induced by hippocampal injury by promoting neurogenesis
Authors: Codd Lavinia N. , Blackmore Daniel G. , Vukovic Jana , Bartlett Perry F. 
Published: November 2020

AbstractHippocampal atrophy and cognitive decline are common sequelae of many neurodegenerative disorders, including stroke. To determine whether cognitive decline can be ameliorated by exercise-induced neurogenesis, C57BL/6 mice in which a unilateral hippocampal injury had been induced by injecting the vasoconstrictor endothelin-1 into their right hippocampus, were run voluntarily for 21 days on a running-wheel. We found the severe deficits in spatial learning, as detected by active place-avoidance task, following injury were almost completely restored in animals that ran whereas those that did not run showed no improvement. We show the increase in neurogenesis found in both the injured and contralateral hippocampi following running was responsible for the restoration of learning since bilateral ablation of newborn doublecortin (DCX)-positive neurons abrogated the cognitive improvement, whereas unilateral ablations of DCX-positive neurons did not prevent recovery, demonstrating that elevated neurogenesis in either the damaged or intact hippocampus is sufficient to reverse hippocampal injury-induced deficits.
Modeling cross-field demagnetization of superconducting stacks and bulks for up to 100 tapes and 2 million cycles
Authors: Dadhich Anang , Pardo Enric 
Published: November 2020

AbstractSuperconducting stacks and bulks can act as very strong magnets (more than 17 T), but they lose their magnetization in the presence of alternating (or ripple) transverse magnetic fields, due to the dynamic magneto-resistance. This demagnetization is a major concern for applications requiring high run times, such as motors and generators, where ripple fields are of high amplitude and frequency. We have developed a numerical model based on dynamic magneto-resistance that is much faster than the conventional Power-Law-resistivity model, enabling us to simulate high number of cycles with the same accuracy. We simulate demagnetization behavior of superconducting stacks made of 10–100 tapes for up to 2 million cycles of applied ripple field. We found that for high number of cycles, the trapped field reaches non-zero stationary values for both superconducting bulks and stacks; as long as the ripple field amplitudes are below the parallel penetration field, being determined by the penetration field for a single tape in stacks. Bulks keep substantial stationary values for much higher ripple field amplitudes than the stacks, being relevant for high number of cycles. However, for low number of cycles, stacks lose much less magnetization as compared to bulks.
Determination of mercury thermospecies in South African coals in the enhancement of mercury removal by pre-combustion technologies
Authors: Mathebula Mpho Wendy , Panichev Nikolai , Mandiwana Khakhathi 
Published: November 2020

AbstractSamples of South African bituminous coals were analysed for total mercury (Hg) and Hg thermospecies concentrations using an RA-915 + Zeeman Mercury Analyser. Total mercury concentrations in samples of coals (n = 57) ranged between 10 ng g−1 and 493 ng g−1 with a mean value of 150 ± 53 ng g−1. Thermospecies of Hg were determined by monitoring Hg response as a function of sample temperature, increasing at 0.8 °C/s from ambient to 720 °C. This approach provides important information on thermal release of Hg species, as indicated by their appearance over specific temperature intervals. This permits identification of the presence of Hg thermospecies in coal and their quantification in each time (temperature) interval. It was found that 76% of tested bituminous coal samples release Hg species within low temperature intervals (20–180 °C and180–360 °C). The information generated in this study will aid in the selection of suitable coals for pre-combustion treatment that can lead to significant reduction of atmospheric Hg emission during coal combustion at power stations. This analytical approach can also be used for the creation of a system of coal classification based on the temperature of release of various Hg thermospecies.
Measuring and characterizing the line profile of HARPS with a laser frequency comb
Authors: Zhao F. , Lo Curto G. , Pasquini L. , González Hernández J. I. , De Medeiros J. R. , Canto Martins B. L. , Leão I. C. , Rebolo R. , Suárez Mascareño A. , Esposito M. , Manescau A. , Steinmetz T. , Udem T. , Probst R. , Holzwarth R. , Zhao G. 
Published: November 2020

Aims. We study the 2D spectral line profile of the High Accuracy Radial Velocity Planet Searcher (HARPS), measuring its variation with position across the detector and with changing line intensity. The characterization of the line profile and its variations are important for achieving the precision of the wavelength scales of 10−10 or 3.0 cm s−1 necessary to detect Earth-twins in the habitable zone around solar-like stars.
Methods. We used a laser frequency comb (LFC) with unresolved and unblended lines to probe the instrument line profile. We injected the LFC light – attenuated by various neutral density filters – into both the object and the reference fibres of HARPS, and we studied the variations of the line profiles with the line intensities. We applied moment analysis to measure the line positions, widths, and skewness as well as to characterize the line profile distortions induced by the spectrograph and detectors. Based on this, we established a model to correct for point spread function distortions by tracking the beam profiles in both fibres.
Results. We demonstrate that the line profile varies with the position on the detector and as a function of line intensities. This is consistent with a charge transfer inefficiency effect on the HARPS detector. The estimate of the line position depends critically on the line profile, and therefore a change in the line amplitude effectively changes the measured position of the lines, affecting the stability of the wavelength scale of the instrument. We deduce and apply the correcting functions to re-calibrate and mitigate this effect, reducing it to a level consistent with photon noise.
Yebes 40 m radio telescope and the broad band Nanocosmos receivers at 7 mm and 3 mm for line surveys
Authors: Tercero F. , López-Pérez J. A. , Gallego J. D. , Beltrán F. , García O. , Patino-Esteban M. , López-Fernández I. , Gómez-Molina G. , Diez M. , García-Carreño P. , Malo I. , Amils R. , Serna J. M. , Albo C. , Hernández J. M. , Vaquero B. , González-García J. , Barbas L. , López-Fernández J. A. , Bujarrabal V. , Gómez-Garrido M. , Pardo J. R. , Santander-García M. , Tercero B. , Cernicharo J. , de Vicente P. 
Published: November 2020

Context. Yebes 40 m radio telescope is the main and largest observing instrument at Yebes Observatory and is devoted to very long baseline interferometry (VLBI) and single-dish observations since 2010. It has been covering frequency bands between 2 GHz and 90 GHz in discontinuous and narrow windows in most cases in order to match the current needs of the European VLBI Network (EVN) and the Global Millimeter VLBI Array (GMVA).
Aims. The Nanocosmos project, a European Union-funded synergy grant, has enabled an increase in the instantaneous frequency coverage of the Yebes 40 m radio telescope, making it possible to observe many molecular transitions with single tunings in single-dish mode. This reduces the observing time and maximises the output from the telescope.
Methods. We present technical specifications of the recently installed 31.5−50 GHz (Q band) and 72−90.5 GHz (W band) receivers along with the main characteristics of the telescope at these frequency ranges. We observed IRC+10216, CRL 2688, and CRL 618, which harbour a rich molecular chemistry, to demonstrate the capabilities of the new instrumentation for spectral observations in single-dish mode.
Results. Our results show the high sensitivity of the telescope in the Q band. The spectrum of IRC+10126 offers an unprecedented signal-to-noise ratio for this source in this band. On the other hand, the spectrum normalised by the continuum flux towards CRL 618 in the W band demonstrates that the 40 m radio telescope produces comparable results to those from the IRAM 30 m radio telescope, although with a lower sensitivity. The new receivers fulfil one of the main goals of Nanocosmos and open up the possibility to study the spectrum of different astrophysical media with unprecedented sensitivity.