bluuebunny/crossref_metadata_2025_split huggingface dataset:
Global effects of land-use intensity on local pollinator biodiversity
Authors: Millard Joseph , Outhwaite Charlotte L. , Kinnersley Robyn , Freeman Robin , Gregory Richard D. , Adedoja Opeyemi , Gavini Sabrina , Kioko Esther , Kuhlmann Michael , Ollerton Jeff , Ren Zong-Xin , Newbold Tim 
Published: May 2021

AbstractPollinating species are in decline globally, with land use an important driver. However, most of the evidence on which these claims are made is patchy, based on studies with low taxonomic and geographic representativeness. Here, we model the effect of land-use type and intensity on global pollinator biodiversity, using a local-scale database covering 303 studies, 12,170 sites, and 4502 pollinating species. Relative to a primary vegetation baseline, we show that low levels of intensity can have beneficial effects on pollinator biodiversity. Within most anthropogenic land-use types however, increasing intensity is associated with significant reductions, particularly in urban (43% richness and 62% abundance reduction compared to the least intensive urban sites), and pasture (75% abundance reduction) areas. We further show that on cropland, the strongly negative response to intensity is restricted to tropical areas, and that the direction and magnitude of response differs among taxonomic groups. Our findings confirm widespread effects of land-use intensity on pollinators, most significantly in the tropics, where land use is predicted to change rapidly.
Interaction-induced topological phase transition and Majorana edge states in low-dimensional orbital-selective Mott insulators
Authors: Herbrych J. , Środa M. , Alvarez G. , Mierzejewski M. , Dagotto E. 
Published: May 2021

AbstractTopological phases of matter are among the most intriguing research directions in Condensed Matter Physics. It is known that superconductivity induced on a topological insulator’s surface can lead to exotic Majorana modes, the main ingredient of many proposed quantum computation schemes. In this context, the iron-based high critical temperature superconductors are a promising platform to host such an exotic phenomenon in real condensed-matter compounds. The Coulomb interaction is commonly believed to be vital for the magnetic and superconducting properties of these systems. This work bridges these two perspectives and shows that the Coulomb interaction can also drive a canonical superconductor with orbital degrees of freedom into the topological state. Namely, we show that above a critical value of the Hubbard interaction the system simultaneously develops spiral spin order, a highly unusual triplet amplitude in superconductivity, and, remarkably, Majorana fermions at the edges of the system.
Climate risks and adaptation strategies of farmers in East Africa and South Asia
Authors: Aryal Jeetendra Prakash , Sapkota Tek Bahadur , Rahut Dil Bahadur , Marenya Paswel , Stirling Clare M. 
Published: May 2021

AbstractUnderstanding major climate risks, adaptation strategies, and factors influencing the choice of those strategies is crucial to reduce farmers’ vulnerability. Employing comprehensive data from 2822 farm households in Ethiopia and Kenya (East Africa; EA) and 1902 farm households in Bangladesh, India, and Nepal (South Asia; SA), this study investigates the main climate risks that farmers faced and the adaptation strategies they used. Among others, excessive rainfall and heightened crop pest/disease incidence are commonly observed climate-induced risks in all study areas, while cyclones and salinity are unique to Bangladesh. Drought is prevalent in Ethiopia, India, Kenya, and Nepal. Farmers in those countries responded with strategies that include change in farming practices, sustainable land management, reduce consumption, sell assets, use savings and borrowings, seek alternative employment and assistance from government or NGO. In general, farmers faced several multiple climate risks simultaneously and they responded with multiple adaptation strategies. Therefore, this study used a multivariate probit (MVP) approach to examine the factors influencing the adoption of adaptation strategies. Unlike other studies, we also tested and corrected for possible endogeneity in model estimation. All the countries mentioned have low adaptive capacity to address climate change, which is further weakened by inadequate governance and inefficient institutions. We observed significant differences in the choice of adaptation strategies between male-headed households (MHHs) and female-headed households (FHHs), as well as across countries. Generally, MHHs are more likely to seek additional employment and change agricultural practices, while FHHs and households headed by older persons tend to reduce consumption and rely on savings and borrowings. Institutional support for adaptation is much less in EA compared to SA. Training on alternative farming practices, enhancing non-farm employment options, better institutional support, and social security for older farmers are crucial for climate change adaptation in both regions.
Effect of COVID-19 on liver abnormalities: a systematic review and meta‐analysis
Authors: Bzeizi Khalid , Abdulla Maheeba , Mohammed Nafeesa , Alqamish Jehad , Jamshidi Negar , Broering Dieter 
Published: May 2021

AbstractEmerging evidence suggest association of severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) infection with the development of many liver abnormalities. The overarching aim of this study was therefore to assess the available evidence on the clinical effects of SARS-CoV-2 on the profiles of liver chemistries and coagulation in COVID-19 diagnosed patients. We considered all study designs including epidemiological and observational that reported liver function test abnormalities in patients confirmed with SARS-CoV-2 infection. Medline, Embase databases and Google Scholar as well as relevant reviews were searched to identify appropriate studies from inception to 31st of August 2020. We calculated the pooled mean with 95% confidence intervals (95% CI) through a random-effect model meta-analysis. A total of 35 studies with 10,692 participants were considered for the review from which 23 studies with sufficient quantitative data were included in the meta-analysis. The pooled mean for liver enzymes and coagulation parameters did not significantly change in patients diagnosed with COVID-19 and remained within normal range. Notwithstanding potential bias from confounding factors in interpretation of data in this review, findings from the observational studies and case reports suggest that COVID-19 does not appear to have a significant impact on the transaminases or total bilirubin levels of patients with confirmed SARS-CoV-2 infection. Further controlled studies and larger sample size observational studies are needed with adequate reporting of other liver function parameters are warranted.
ATP hydrolysis and nucleotide exit enhance maltose translocation in the MalFGK2E importer
Authors: Abreu Bárbara , Cruz Carlos , Oliveira A. Sofia F. , Soares Cláudio M. 
Published: May 2021

AbstractATP binding cassette (ABC) transporters employ ATP hydrolysis to harness substrate translocation across membranes. The Escherichia coli MalFGK2E maltose importer is an example of a type I ABC importer and a model system for this class of ABC transporters. The MalFGK2E importer is responsible for the intake of malto-oligossacharides in E.coli. Despite being extensively studied, little is known about the effect of ATP hydrolysis and nucleotide exit on substrate transport. In this work, we studied this phenomenon using extensive molecular dynamics simulations (MD) along with potential of mean force calculations of maltose transport across the pore, in the pre-hydrolysis, post-hydrolysis and nucleotide-free states. We concluded that ATP hydrolysis and nucleotide exit trigger conformational changes that result in the decrease of energetic barriers to maltose translocation towards the cytoplasm, with a concomitant increase of the energy barrier in the periplasmic side of the pore, contributing for the irreversibility of the process. We also identified key residues that aid in positioning and orientation of maltose, as well as a novel binding pocket for maltose in MalG. Additionally, ATP hydrolysis leads to conformations similar to the nucleotide-free state. This study shows the contribution of ATP hydrolysis and nucleotide exit in the transport cycle, shedding light on ABC type I importer mechanisms.
The role of tunable nonlinear dark resonances on vacuum Rabi splitting and optical bistability in an atom-cavity system
Authors: Hui SiJia , Wen Feng , Zhang Minghui , Zhang ShaoWei , Yang YuanJie , Dai ZhiPing , Su YungPeng , Zhang YanPeng , Wang HongXing 
Published: May 2021

AbstractThe phenomenon of “dark resonances” is a well-known concept in quantum optics and laser spectroscopy. As a general rule, interactions involving in such a “dark state” lead to multiple quantum superposition states that interact coherently and are undesirable. In this paper, two types nonlinear interaction in an atomic cavity, namely the nested and cascaded interactions, are theoretically analyzed how the dark resonances form the dark state peak to modulate the vacuum Rabi splitting (VRS) and optical bistability (OB) behavior. In both the zero- and high order modes, there are four VRS peaks generated in the nested interaction and three in the cascade interaction. Dark resonance can modulate not only the peak number of VRS, but also the OB thresholds. It is found that dark state can determine the asymmetric OB distribution of nested type and symmetric OB distribution of cascade type. Besides that, the distinctive OB thresholds in two kinds of interaction also be studied. The observations not only conceptually extend the conventional “dark resonances” phenomenon, but also opens the door for a variety of new applications in tunable all-optical switch and quantum communication.
Altered endothelial dysfunction-related miRs in plasma from ME/CFS patients
Authors: Blauensteiner J. , Bertinat R. , León L. E. , Riederer M. , Sepúlveda N. , Westermeier F. 
Published: May 2021

AbstractMyalgic encephalomyelitis/chronic fatigue syndrome (ME/CFS) is a complex disease characterized by unexplained debilitating fatigue. Although the etiology is unknown, evidence supports immunological abnormalities, such as persistent inflammation and immune-cell activation, in a subset of patients. Since the interplay between inflammation and vascular alterations is well-established in other diseases, endothelial dysfunction has emerged as another player in ME/CFS pathogenesis. Endothelial nitric oxide synthase (eNOS) generates nitric oxide (NO) that maintains endothelial homeostasis. eNOS is activated by silent information regulator 1 (Sirt1), an anti-inflammatory protein. Despite its relevance, no study has addressed the Sirt1/eNOS axis in ME/CFS. The interest in circulating microRNAs (miRs) as potential biomarkers in ME/CFS has increased in recent years. Accordingly, we analyze a set of miRs reported to modulate the Sirt1/eNOS axis using plasma from ME/CFS patients. Our results show that miR-21, miR-34a, miR-92a, miR-126, and miR-200c are jointly increased in ME/CFS patients compared to healthy controls. A similar finding was obtained when analyzing public miR data on peripheral blood mononuclear cells. Bioinformatics analysis shows that endothelial function-related signaling pathways are associated with these miRs, including oxidative stress and oxygen regulation. Interestingly, histone deacetylase 1, a protein responsible for epigenetic regulations, represented the most relevant node within the network. In conclusion, our study provides a basis to find endothelial dysfunction-related biomarkers and explore novel targets in ME/CFS.
Integrated metabolomic analysis and cytokine profiling define clusters of immuno-metabolic correlation in new-onset psoriasis
Authors: Tarentini Elisabetta , Odorici Giulia , Righi Valeria , Paganelli Alessia , Giacomelli Luca , Mirisola Valentina , Mucci Adele , Benassi Luisa , D’Aversa Elisabetta , Lasagni Claudia , Kaleci Shaniko , Reali Eva , Magnoni Cristina 
Published: May 2021

AbstractThe association between the metabolic profile and inflammatory cytokines in psoriasis is poorly understood. We analyzed the metabolic and cytokine/chemokine profiles in serum and skin from patients with new-onset psoriasis and healthy subjects (n = 7/group) by HR-MAS NMR and Bio-Plex immunoassay. Immuno-metabolic correlation matrix was analyzed in skin and serum to identify a potential immune-metabolic signature. Metabolomics analysis showed a significant increase in ascorbate and a decrease in scyllo-inositol, and a trend towards an increase in eight other metabolites in psoriatic skin. In serum, there was a significant increase of dimethylglycine and isoleucine. In parallel, psoriatic skin exhibited an increase of early inflammatory cytokines (IL-6, IL-8, TNF-α, IL-1β) and correlation analysis highlighted some major clusters of immune-metabolic correlations. A cluster comprising scyllo-inositol and lysine showed correlations with T-cell cytokines; a cluster comprising serine and taurine showed a negative correlation with early inflammatory cytokines (IL-6, G-CSF, CCL3). A strong positive correlation was enlightened between glutathione and inflammatory cytokines/angiogenesis promoters of psoriasis. The integration of metabolic and immune data indicated a molecular signature constituted by IL-6, IL1-ra, DMG, CCL4, Ile, Gly and IL-8, which could discriminate patients and healthy subjects and could represent a candidate tool in the diagnosis of new-onset psoriasis.
Metabarcoding Malaise traps and soil eDNA reveals seasonal and local arthropod diversity shifts
Authors: Kirse Ameli , Bourlat Sarah J. , Langen Kathrin , Fonseca Vera G. 
Published: May 2021

AbstractForest habitats host enormous diversity, but little is known about the seasonal turnover of arthropod species between the above- and below ground forest layers. In this study, we used metabarcoding approaches to uncover arthropod diversity in different forest types and seasons. Our study shows that metabarcoding soil eDNA and Malaise trap bulk samples can provide valuable insights into the phenology and life cycles of arthropods. We found major differences in arthropod species diversity between soil samples and Malaise traps, with only 11.8% species overlap. Higher diversity levels were found in Malaise traps in summer whereas soil samples showed a diversity peak in winter, highlighting the seasonal habitat preferences and life strategies of arthropods. We conclude that collecting time series of bulk arthropod samples and eDNA in the same locations provides a more complete picture of local arthropod diversity and turnover rates and may provide valuable information on climate induced phenological shifts for long-term monitoring.
In search of nano-materials with enhanced secondary electron emission for radiation detectors
Authors: Cholewa Marian , Cappellazzo Mario , Ley Mario , Bittner Dennis , Jolie Jan , Lee Keundong , Song Minho , Yi Gyu-Chul , Boutachkov Plamen 
Published: May 2021

AbstractThere has been limited research devoted to secondary electron emission (SEE) from nano-materials using rapid and heavy ion bombardment. Here we report a comparison of SEE properties between novel nano-materials with a three-dimensional nano-structure composed of a mostly regular pattern of rods and gold used as a standard material for SEE under bombardment of heavy ions at energies of a few MeV/nucleon. The nano-structured materials show enhanced SEE properties when compared with gold. Results from this work will enable the development of new radiation detectors for science and industry.
BMP signaling alters aquaporin-4 expression in the mouse cerebral cortex
Authors: Morita Kazuya , Matsumoto Naoyuki , Saito Kengo , Hamabe-Horiike Toshihide , Mizuguchi Keishi , Shinmyo Yohei , Kawasaki Hiroshi 
Published: May 2021

AbstractAquaporin-4 (AQP4) is a predominant water channel expressed in astrocytes in the mammalian brain. AQP4 is crucial for the regulation of homeostatic water movement across the blood–brain barrier (BBB). Although the molecular mechanisms regulating AQP4 levels in the cerebral cortex under pathological conditions have been intensively investigated, those under normal physiological conditions are not fully understood. Here we demonstrate that AQP4 is selectively expressed in astrocytes in the mouse cerebral cortex during development. BMP signaling was preferentially activated in AQP4-positive astrocytes. Furthermore, activation of BMP signaling by in utero electroporation markedly increased AQP4 levels in the cerebral cortex, and inhibition of BMP signaling strongly suppressed them. These results indicate that BMP signaling alters AQP4 levels in the mouse cerebral cortex during development.
A python code for automatic construction of Fischer plots using proxy data
Authors: Yang Daming , Huang Yongjian , Chen Zongyang , Huang Qinghua , Ren Yanguang , Wang Chengshan 
Published: May 2021

AbstractFischer plots are widely used in paleoenvironmental research as graphic representations of sea- and lake-level changes through mapping linearly corrected variation of accumulative cycle thickness over cycle number or stratum depth. Some kinds of paleoenvironmental proxy data (especially subsurface data, such as natural gamma-ray logging data), which preserve continuous cyclic signals and have been largely collected, are potential materials for constructing Fischer Plots. However, it is laborious to count the cycles preserved in these proxy data manually and map Fischer plots with these cycles. In this paper, we introduce an original open-source Python code “PyFISCHERPLOT” for constructing Fischer Plots in batches utilizing paleoenvironmental proxy data series. The principle of constructing Fischer plots based on proxy data, the data processing and usage of the PyFISCHERPLOT code and the application cases of the code are presented. The code is compared with existing methods for constructing Fischer plots.
Unusual mode of dimerization of retinitis pigmentosa-associated F220C rhodopsin
Authors: Khelashvili George , Pillai Anoop Narayana , Lee Joon , Pandey Kalpana , Payne Alexander M. , Siegel Zarek , Cuendet Michel A. , Lewis Tylor R. , Arshavsky Vadim Y. , Broichhagen Johannes , Levitz Joshua , Menon Anant K. 
Published: May 2021

AbstractMutations in the G protein-coupled receptor (GPCR) rhodopsin are a common cause of autosomal dominant retinitis pigmentosa, a blinding disease. Rhodopsin self-associates in the membrane, and the purified monomeric apo-protein opsin dimerizes in vitro as it transitions from detergent micelles to reconstitute into a lipid bilayer. We previously reported that the retinitis pigmentosa-linked F220C opsin mutant fails to dimerize in vitro, reconstituting as a monomer. Using fluorescence-based assays and molecular dynamics simulations we now report that whereas wild-type and F220C opsin display distinct dimerization propensities in vitro as previously shown, they both dimerize in the plasma membrane of HEK293 cells. Unexpectedly, molecular dynamics simulations show that F220C opsin forms an energetically favored dimer in the membrane when compared with the wild-type protein. The conformation of the F220C dimer is unique, with transmembrane helices 5 and 6 splayed apart, promoting widening of the intracellular vestibule of each protomer and influx of water into the protein interior. FRET experiments with SNAP-tagged wild-type and F220C opsin expressed in HEK293 cells are consistent with this conformational difference. We speculate that the unusual mode of dimerization of F220C opsin in the membrane may have physiological consequences.
Timeliness of antiretroviral therapy initiation in the era before universal treatment
Authors: Bogdanić Nikolina , Bendig Liam , Lukas Davorka , Zekan Šime , Begovac Josip 
Published: May 2021

AbstractWe assessed the prevalence and factors related to the time to antiretroviral (ART) initiation among persons who entered HIV care and subsequently started ART in Croatia from 2005 to 2014. Included were patients ≥ 18 years, the follow-up ended on Dec/31/2017. 628 patients were included into the study 91.9% were men; median age was 36.1 (Q1–Q3: 29.6–43.8) years. Rapid (within 7 days of diagnosis) ART initiation was observed in 21.8% patients, 49.8% initiated ART within 30 days, 21.7% and 28.5% had intermediate (31 days–1 year) and late initiation (> 1 year), respectively. Of 608 patients that achieved an undetectable viral load, 94% had a plasma HIV-1 RNA < 50 copies/ml at last measurement after a median follow-up of 5.2 years. On quantile regression analysis, calendar year of entry into care, and markers of more advanced HIV disease (higher viral load, lower CD4 cell count and clinical AIDS) were significantly associated with earlier ART initiation. Early ART was not related to a gap in care afterwards at all quantiles. In conclusion, a significant proportion of patients started ART early in Croatia in 2005–2014. Early ART initiation led to durable viral load suppression and was not associated with a subsequent gap in care.
Three-dimensional in vivo analysis of water uptake and translocation in maize roots by fast neutron tomography
Authors: Tötzke Christian , Kardjilov Nikolay , Hilger André , Rudolph-Mohr Nicole , Manke Ingo , Oswald Sascha E. 
Published: May 2021

AbstractRoot water uptake is an essential process for terrestrial plants that strongly affects the spatiotemporal distribution of water in vegetated soil. Fast neutron tomography is a recently established non-invasive imaging technique capable to capture the 3D architecture of root systems in situ and even allows for tracking of three-dimensional water flow in soil and roots. We present an in vivo analysis of local water uptake and transport by roots of soil-grown maize plants—for the first time measured in a three-dimensional time-resolved manner. Using deuterated water as tracer in infiltration experiments, we visualized soil imbibition, local root uptake, and tracked the transport of deuterated water throughout the fibrous root system for a day and night situation. This revealed significant differences in water transport between different root types. The primary root was the preferred water transport path in the 13-days-old plants while seminal roots of comparable size and length contributed little to plant water supply. The results underline the unique potential of fast neutron tomography to provide time-resolved 3D in vivo information on the water uptake and transport dynamics of plant root systems, thus contributing to a better understanding of the complex interactions of plant, soil and water.