bluuebunny/crossref_metadata_2025_split huggingface dataset:
Combining multiple spatial statistics enhances the description of immune cell localisation within tumours
Authors: Bull Joshua A. , Macklin Philip S. , Quaiser Tom , Braun Franziska , Waters Sarah L. , Pugh Chris W. , Byrne Helen M. 
Published: October 2020

AbstractDigital pathology enables computational analysis algorithms to be applied at scale to histological images. An example is the identification of immune cells within solid tumours. Image analysis algorithms can extract precise cell locations from immunohistochemistry slides, but the resulting spatial coordinates, or point patterns, can be difficult to interpret. Since localisation of immune cells within tumours may reflect their functional status and correlates with patient prognosis, novel descriptors of their spatial distributions are of biological and clinical interest. A range of spatial statistics have been used to analyse such point patterns but, individually, these approaches only partially describe complex immune cell distributions. In this study, we apply three spatial statistics to locations of CD68+ macrophages within human head and neck tumours, and show that images grouped semi-quantitatively by a pathologist share similar statistics. We generate a synthetic dataset which emulates human samples and use it to demonstrate that combining multiple spatial statistics with a maximum likelihood approach better predicts human classifications than any single statistic. We can also estimate the error associated with our classifications. Importantly, this methodology is adaptable and can be extended to other histological investigations or applied to point patterns outside of histology.
Improvements in the production of purified M13 bacteriophage bio-nanoparticle
Authors: Passaretti Paolo , Khan Inam , Dafforn Timothy R. , Goldberg Oppenheimer Pola 
Published: October 2020

AbstractM13 bacteriophage is a well-established versatile nano-building block, which can be employed to produce novel self-assembled functional materials and devices. Sufficient production and scalability of the M13, often require a large quantity of the virus and thus, improved propagation methods characterised by high capacity and degree of purity are essential. Currently, the ‘gold-standard’ is represented by infecting Escherichia coli cultures, followed by precipitation with polyethylene glycol (PEG). However, this is considerably flawed by the accumulation of contaminant PEG inside the freshly produced stocks, potentially hampering the reactivity of the individual M13 filaments. Our study demonstrates the effectiveness of implementing an isoelectric precipitation procedure to reduce the residual PEG along with FT-IR spectroscopy as a rapid, convenient and effective analytic validation method to detect the presence of this contaminant in freshly prepared M13 stocks.
Shared functional connectivity between the dorso-medial and dorso-ventral streams in macaques
Authors: Greulich R. Stefan , Adam Ramina , Everling Stefan , Scherberger Hansjörg 
Published: October 2020

AbstractManipulation of an object requires us to transport our hand towards the object (reach) and close our digits around that object (grasp). In current models, reach-related information is propagated in the dorso-medial stream from posterior parietal area V6A to medial intraparietal area, dorsal premotor cortex, and primary motor cortex. Grasp-related information is processed in the dorso-ventral stream from the anterior intraparietal area to ventral premotor cortex and the hand area of primary motor cortex. However, recent studies have cast doubt on the validity of this separation in separate processing streams. We investigated in 10 male rhesus macaques the whole-brain functional connectivity of these areas using resting state fMRI at 7-T. Although we found a clear separation between dorso-medial and dorso-ventral network connectivity in support of the two-stream hypothesis, we also found evidence of shared connectivity between these networks. The dorso-ventral network was distinctly correlated with high-order somatosensory areas and feeding related areas, whereas the dorso-medial network with visual areas and trunk/hindlimb motor areas. Shared connectivity was found in the superior frontal and precentral gyrus, central sulcus, intraparietal sulcus, precuneus, and insular cortex. These results suggest that while sensorimotor processing streams are functionally separated, they can access information through shared areas.
Circadian misalignment increases mood vulnerability in simulated shift work
Authors: Chellappa Sarah L. , Morris Christopher J. , Scheer Frank A. J. L. 
Published: October 2020

AbstractNight shift work can associate with an increased risk for depression. As night workers experience a ‘misalignment’ between their circadian system and daily sleep–wake behaviors, with negative health consequences, we investigated whether exposure to circadian misalignment underpins mood vulnerability in simulated shift work. We performed randomized within-subject crossover laboratory studies in non-shift workers and shift workers. Simulated night shifts were used to induce a misalignment between the endogenous circadian pacemaker and sleep/wake cycles (circadian misalignment), while environmental conditions and food intake were controlled. Circadian misalignment adversely impacted emotional state, such that mood and well-being levels were significantly decreased throughout 4 days of continuous exposure to circadian misalignment in non-shift workers, as compared to when they were under circadian alignment (interaction of “circadian alignment condition” vs. “day”, mood: p < 0.001; well-being: p < 0.001; adjusted p-values). Similarly, in shift workers, mood and well-being levels were significantly reduced throughout days of misalignment, as compared to circadian alignment (interaction of “circadian alignment condition” vs. “day”, mood: p = 0.002; well-being: p = 0.002; adjusted p-values). Our findings indicate that circadian misalignment is an important biological component for mood vulnerability, and that individuals who engage in shift work are susceptible to its deleterious mood effects.
OSM-9 and OCR-2 TRPV channels are accessorial warm receptors in Caenorhabditis elegans temperature acclimatisation
Authors: Ohnishi Kohei , Saito Shigeru , Miura Toru , Ohta Akane , Tominaga Makoto , Sokabe Takaaki , Kuhara Atsushi 
Published: October 2020

AbstractCaenorhabditis elegans (C. elegans) exhibits cold tolerance and temperature acclimatisation regulated by a small number of head sensory neurons, such as the ADL temperature-sensing neurons that express three transient receptor potential vanilloid (TRPV) channel subunits, OSM-9, OCR-2, and OCR-1. Here, we show that an OSM-9/OCR-2 regulates temperature acclimatisation and acts as an accessorial warmth-sensing receptor in ADL neurons. Caenorhabditis elegans TRPV channel mutants showed abnormal temperature acclimatisation. Ectopic expression of OSM-9 and OCR-2 in non-warming-responsive gustatory neurons in C. elegans and Xenopus oocytes revealed that OSM-9 and OCR-2 cooperatively responded to warming; however, neither TRPV subunit alone was responsive to warming. A warming-induced OSM-9/OCR-2-mediated current was detectable in Xenopus oocytes, yet ADL in osm-9 ocr-2 double mutant responds to warming; therefore, an OSM-9/OCR-2 TRPV channel and as yet unidentified temperature receptor might coordinate transmission of temperature signalling in ADL temperature-sensing neurons. This study demonstrates direct sensation of warming by TRPV channels in C. elegans.
Bacterial inducible expression of plant cell wall-binding protein YesO through conflict between Glycine max and saprophytic Bacillus subtilis
Authors: Sugiura Haruka , Nagase Ayumi , Oiki Sayoko , Mikami Bunzo , Watanabe Daisuke , Hashimoto Wataru 
Published: October 2020

AbstractSaprophytic bacteria and plants compete for limited nutrient sources. Bacillus subtilis grows well on steamed soybeans Glycine max to produce the fermented food, natto. Here we focus on bacterial responses in conflict between B. subtilis and G. max. B. subtilis cells maintained high growth rates specifically on non-germinating, dead soybean seeds. On the other hand, viable soybean seeds with germinating capability attenuated the initial growth of B. subtilis. Thus, B. subtilis cells may trigger saprophytic growth in response to the physiological status of G. max. Scanning electron microscope observation indicated that B. subtilis cells on steamed soybeans undergo morphological changes to form apertures, demonstrating cell remodeling during saprophytic growth. Further, transcriptomic analysis of B. subtilis revealed upregulation of the gene cluster, yesOPQR, in colonies growing on steamed soybeans. Recombinant YesO protein, a putative, solute-binding protein for the ATP-binding cassette transporter system, exhibited an affinity for pectin-derived oligosaccharide from plant cell wall. The crystal structure of YesO, in complex with the pectin oligosaccharide, was determined at 1.58 Å resolution. This study expands our knowledge of defensive and offensive strategies in interspecies competition, which may be promising targets for crop protection and fermented food production.
Novel cobalt–carbon@silica adsorbent
Authors: Alotaibi Nusaybah , Hammud Hassan H. , Al Otaibi Nasreen , Hussain Syed Ghazanfar , Prakasam Thirumurugan 
Published: October 2020

AbstractRecently, carbon nanostructures are of high importance due to their unique characteristics and interesting applications. Pyrolysis of anthracene with cobalt complex Co(2,2′-bipy)Cl2(1), where (2,2′-bipy) is 2,2′-bipyridine, in the absence and presence of silica gave in high yield cobalt-carbon nanocomposite CoCNC (2) and CoCNC@SiO2(3) at 600 °C and 850 °C, respectively. They were characterized using SEM, TEM, PXRD, Raman and XPS. (3) and (2) contain core–shell cobalt(0)/cobalt oxide-graphite with or without silica support. PXRD indicates that (2) contains crystalline hexagonal α-Co and cubic β-Co phases while (3) contains only cubic β-Co phase and silica. The structure of (2) is 3D hierarchical carbon architecture wrapping spherical and elliptical cobalt nanoparticles. (3) consists of graphitized structures around cobalt nanoparticles embedded in the silica matrix. XPS reveals that the nanocomposites contain oxygen functional groups that enhance uptake of cationic dyes. CoCNC@SiO2(3) has higher capacity and thus is better adsorbent of Basic Violet 3 than CoCNC (2). The Langmuir adsorption capacity of (3) is 19.4 mg g−1 while column capacity is 12.55 mg g−1 at 25 °C. Freundlich isotherm and pseudo-second-order kinetic models fit well the adsorption data. Thermodynamics indicate that adsorption(3) is exothermic. Column regeneration was tested for three cycles and Yan et al. was found the best kinetic model.
Seismic signature of the deadly snow avalanche of January 18, 2017, at Rigopiano (Italy)
Authors: Braun Thomas , Frigo Barbara , Chiaia Bernardino , Bartelt Perry , Famiani Daniela , Wassermann Joachim 
Published: October 2020

AbstractMost snow avalanches occur unobserved, which becomes particularly dramatic when human lives are involved. Seismological observations can be helpful to unravel time and dynamics of unseen events, like the deadly avalanche of January 18, 2017, that hit a Resort-hotel at Rigopiano in the Abruzzi (Italy). Particle motion analysis and spectrograms from data recorded by a close seismic broadband station, calculation of synthetic seismograms, as well as simulation of the flow, allowed us to construct the dynamics of the snow avalanche that buried alive 40 people, killing 29. Due to the bad weather conditions, no visual observation was made, thus making it impossible to determine the exact moment of the avalanche and to report necessary observations of the dramatic event. On-site inspections revealed that the hotel was horizontally cut by shear forces and dislocated by 48 m in 70°N direction, once the increasing avalanche pressure exceeded the structural shear strength of the building. Within an eligible 24 min time range of the avalanche, we found three weak seismic transients, starting at 15:42:38 UTC, recorded by the nearest operating station GIGS located in the Gran Sasso underground laboratory approximately 17 km away. Particle motion analysis of the strongest seismic avalanche signal, as well as of the synthetic seismograms match best when assuming a single force seismic source, attacking in direction of 120°N. Simulation of the avalanche dynamics—calculated by using a 2D rapid mass movement simulator—indicates that the seismic signals were rather generated as the avalanche flowed through a narrow and twisting canyon directly above the hotel. Once the avalanche enters the canyon it is travelling at maximum velocity (37 m/s) and is twice strongly deflected by the rock sidewalls. These impacts created a distinct linearly polarized seismic “avalanche transient”s that can be used to time the destruction of the hotel. Our results demonstrate that seismic recordings combined with simulations of mass movements are indispensable to remotely monitor snow avalanches.
Oxidation of ethidium-based probes by biological radicals: mechanism, kinetics and implications for the detection of superoxide
Authors: Michalski Radosław , Thiebaut David , Michałowski Bartosz , Ayhan Mehmet M. , Hardy Micael , Ouari Olivier , Rostkowski Michał , Smulik-Izydorczyk Renata , Artelska Angelika , Marcinek Andrzej , Zielonka Jacek , Kalyanaraman Balaraman , Sikora Adam 
Published: October 2020

AbstractHydroethidine (HE) and hydropropidine ($$\hbox {HPr}^{+}$$

HPr
+

) are fluorogenic probes used for the detection of the intra- and extracellular superoxide radical anion ($$\hbox {O}_{ {2}}^{\bullet -}$$

O

2

∙
-

). In this study, we provide evidence that HE and $$\hbox {HPr}^{+}$$

HPr
+

react rapidly with the biologically relevant radicals, including the hydroxyl radical, peroxyl radicals, the trioxidocarbonate radical anion, nitrogen dioxide, and the glutathionyl radical, via one-electron oxidation, forming the corresponding radical cations. At physiological pH, the radical cations of the probes react rapidly with $$\hbox {O}_{ {2}}^{\bullet -}$$

O

2

∙
-

, leading to the specific 2-hydroxylated cationic products. We determined the rate constants of the reaction between $$\hbox {O}_{ {2}}^{\bullet -}$$

O

2

∙
-

and the radical cations of the probes. We also synthesized N-methylated analogs of $$\hbox {HPr}^{+}$$

HPr
+

and HE which were used in mechanistic studies. Methylation of the amine groups was not found to prevent the reaction between the radical cation of the probe and the superoxide, but it significantly increased the lifetime of the radical cation and had a substantial effect on the profiles of the oxidation products by inhibiting the formation of dimeric products. We conclude that the N-methylated analogs of HE and $$\hbox {HPr}^{+}$$

HPr
+

may be used as a scaffold for the design of a new generation of probes for intra- and extracellular superoxide.
Expansion of US wood pellet industry points to positive trends but the need for continued monitoring
Authors: Aguilar Francisco X. , Mirzaee Ashkan , McGarvey Ronald G. , Shifley Stephen R. , Burtraw Dallas 
Published: October 2020

AbstractImplementation of the European Union Renewable Energy Directive has triggered exponential growth in trading of pelletized wood fibers. Over 18 million tons of wood pellets were traded by EU member countries in 2018 of which a third were imported from the US. Concerns exist about negative impacts on US forests but systematic assessments are currently lacking. We assessed variability in fundamental attributes for timberland structure and carbon stocks within 123 procurement landscapes of wood pellet mills derived from over 38 thousand forest inventory plots in the eastern US from 2005 to 2017. We found more carbon stocks in live trees, but a fewer number of standing-dead trees, associated with the annual operation of large-scale wood pellet mills. In the US coastal southeast—where US pellet exports to the EU originate—there were fewer live and growing-stock trees and less carbon in soils with every year of milling operation than in the rest of the eastern US—which supplies the domestic market. Greater overlap of mills’ procurement areas exhibited discernible increments across selected carbon stocks. These trends likely reflect more intensive land management practices. Localized forest impacts associated with the wood pellet industry should continue to be monitored.
Snow water scarcity induced by record-breaking warm winter in 2020 in Japan
Authors: Watanabe Satoshi , Kotsuki Shunji , Kanae Shinjiro , Tanaka Kenji , Higuchi Atsushi 
Published: October 2020

AbstractThis study highlights the severity of the low snow water equivalent (SWE) and remarkably high temperatures in 2020 in Japan, where reductions in SWE have significant impacts on society due to its importance for water resources. A continuous 60-year land surface simulation forced by reanalysis data revealed that the low SWE in many river basins in the southern snowy region of mainland Japan are the most severe on record. The impact of the remarkably high temperatures in 2020 on the low SWE was investigated by considering the relationships among SWE, temperature, and precipitation. The main difference between the 2020 case and prior periods of low SWE is the record-breaking high temperatures. Despite the fact that SWE was the lowest in 2020, precipitation was much higher than that in 2019, which was one of the lowest SWE on record pre-2020. The results indicate the possibility that even more serious low-SWE periods will be caused if lower precipitation and higher temperatures occur simultaneously.
A low pKa ligand inhibits cancer-associated pain in mice by activating peripheral mu-opioid receptors
Authors: Baamonde Ana , Menéndez Luis , González-Rodríguez Sara , Lastra Ana , Seitz Viola , Stein Christoph , Machelska Halina 
Published: October 2020

AbstractThe newly designed fentanyl derivative [( ±)-N-(3-fluoro-1-phenethylpiperidine-4-yl)-N-phenyl propionamide] (NFEPP) was recently shown to produce analgesia selectively via peripheral mu-opioid receptors (MOR) at acidic pH in rat inflamed tissues. Here, we examined the pH-dependency of NFEPP binding to brain MOR and its effects on bone cancer-induced pain in mice. The IC50 of NFEPP to displace bound [3H]-DAMGO was significantly higher compared to fentanyl at pH 7.4, but no differences were observed at pH 5.5 or 6.5. Intravenous NFEPP (30–100 nmol/kg) or fentanyl (17–30 nmol/kg) inhibited heat hyperalgesia in mice inoculated with B16-F10 melanoma cells. The peripherally-restricted opioid receptor antagonist naloxone-methiodide reversed the effect of NFEPP (100 nmol/kg), but not of fentanyl (30 nmol/kg). The antihyperalgesic effect of NFEPP was abolished by a selective MOR- (cyprodime), but not delta- (naltrindole) or kappa- (nor-binaltorphimine) receptor antagonists. Ten-fold higher doses of NFEPP than fentanyl induced maximal antinociception in mice without tumors, which was reversed by the non-restricted antagonist naloxone, but not by naloxone-methiodide. NFEPP also reduced heat hyperalgesia produced by fibrosarcoma- (NCTC 2472) or prostate cancer-derived (RM1) cells. These data demonstrate the increased affinity of NFEPP for murine MOR at low pH, and its ability to inhibit bone cancer-induced hyperalgesia through peripheral MOR. In mice, central opioid receptors may be activated by ten-fold higher doses of NFEPP.
A combination of electrochemistry and mass spectrometry to monitor the interaction of reactive species with supported lipid bilayers
Authors: Ravandeh M. , Kahlert H. , Jablonowski H. , Lackmann J.-W. , Striesow J. , Agmo Hernández V. , Wende K. 
Published: October 2020

AbstractReactive oxygen and nitrogen species (RONS), e.g. generated by cold physical plasma (CPP) or photodynamic therapy, interfere with redox signaling pathways of mammalian cells, inducing downstream consequences spanning from migratory impairment to apoptotic cell death. However, the more austere impact of RONS on cancer cells remains yet to be clarified. In the present study, a combination of electrochemistry and high-resolution mass spectrometry was developed to investigate the resilience of solid-supported lipid bilayers towards plasma-derived reactive species in dependence of their composition. A 1-palmitoyl-2-oleoyl-sn-glycero-3-phosphocholine (POPC) lipid bilayer was undisturbed by 200 µM H2O2 (control) but showed full permeability after CPP treatment and space-occupying oxidation products such as PoxnoPC, PAzePC, and POPC hydroperoxide were found. Electron paramagnetic resonance spectroscopy demonstrated the presence of hydroxyl radicals and superoxide anion/hydroperoxyl radicals during the treatment. In contrast, small amounts of the intramembrane antioxidant coenzyme Q10 protected the bilayer to 50% and LysoPC was the only POPC derivative found, confirming the membrane protective effect of Q10. Such, the lipid membrane composition including the presence of antioxidants determines the impact of pro-oxidant signals. Given the differences in membrane composition of cancer and healthy cells, this supports the application of cold physical plasma for cancer treatment. In addition, the developed model using the combination of electrochemistry and mass spectrometry could be a promising method to study the effect of reactive species or mixes thereof generated by chemical or physical sources.
Three-dimensional surface printing method for interconnecting electrodes on opposite sides of substrates
Authors: Rahman Md. Khalilur , Kim Seong-jun , Phung Thanh Huy , Lee Jin-Sol , Yu Jaeryul , Kwon Kye-Si 
Published: October 2020

AbstractAs the application of the direct printing method becomes diversified, printing on substrates with non-flat surfaces is increasingly required. However, printing on three-dimensional surfaces suffers from a number of difficulties, which include ink flow due to gravity, and the connection of print lines over sharp edges. This study presents an effective way to print a fine pattern (~ 30 μm) on three different faces with sharp edge boundaries. The method uses a deflectable and stretchable jet stream of conductive ink, which is produced by near-field electrospinning (NFES) technique. Due to added polymer in the ink, the jet stream from the nozzle is less likely to be disconnected, even when it is deposited over sharp edges of objects. As a practical industrial application, we demonstrate that the method can be effectively used for recent display applications, which require the connection of electrical signal and power on both sides of the glass. When the total length of printed lines along the ‘Π’ shaped glass surfaces was 1.2 mm, we could achieve the average resistance of 0.84 Ω.