bluuebunny/crossref_metadata_2025_split huggingface dataset:
Organic fertilization improves soil aggregation through increases in abundance of eubacteria and products of arbuscular mycorrhizal fungi
Authors: Řezáčová Veronika , Czakó Alena , Stehlík Martin , Mayerová Markéta , Šimon Tomáš , Smatanová Michaela , Madaras Mikuláš 
Published: June 2021

AbstractAn important goal of sustainable agriculture is to maintain soil quality. Soil aggregation, which can serve as a measure of soil quality, plays an important role in maintaining soil structure, fertility, and stability. The process of soil aggregation can be affected through impacts on biotic and abiotic factors. Here, we tested whether soil management involving application of organic and mineral fertilizers could significantly improve soil aggregation and if variation among differently fertilized soils could be specifically attributed to a particular biotic and/or abiotic soil parameter. In a field experiment within Central Europe, we assessed stability of 1–2 mm soil aggregates together with other parameters of soil samples from differently fertilized soils. Application of compost and digestates increased stability of soil aggregates. Most of the variation in soil aggregation caused by different fertilizers was associated with soil organic carbon lability, occurrence of aromatic functional groups, and variations in abundance of eubacteria, total glomalins, concentrations of total S, N, C, and hot water extractable C. In summary, we have shown that application of compost and digestates improves stability of soil aggregates and that this is accompanied by increased soil fertility, decomposition resistance, and abundance of total glomalins and eubacteria. These probably play significant roles in increasing stability of soil aggregates.
Split NanoLuc technology allows quantitation of interactions between PII protein and its receptors with unprecedented sensitivity and reveals transient interactions
Authors: Rozbeh Rokhsareh , Forchhammer Karl 
Published: June 2021

AbstractPII proteins constitute a widespread signal transduction superfamily in the prokaryotic world. The canonical PII signal proteins sense metabolic state of the cells by binding the metabolite molecules ATP, ADP and 2-oxoglutarate. Depending on bound effector molecule, PII proteins interact with and modulate the activity of multiple target proteins. To investigate the complexity of interactions of PII with target proteins, analytical methods that do not disrupt the native cellular context are required. To this purpose, split luciferase proteins have been used to develop a novel complementation reporter called NanoLuc Binary Technology (NanoBiT). The luciferase NanoLuc is divided in two subunits: a 18 kDa polypeptide termed “Large BiT” and a 1.3 kDa peptide termed “Small BiT”, which only weakly associate. When fused to proteins of interest, they reconstitute an active luciferase when the proteins of interest interact. Therefore, we set out to develop a new NanoBiT sensor based on the interaction of PII protein from Synechocystis sp. PCC6803 with PII-interacting protein X (PipX) and N-acetyl-L-glutamate kinase (NAGK). The novel NanoBiT sensor showed unprecedented sensitivity, which made it possible to detect even weak and transient interactions between PII variants and their interacting partners, thereby shedding new light in PII signalling processes.
Low-coherence photonic method of electrochemical processes monitoring
Authors: Kosowska Monika , Jakóbczyk Paweł , Rycewicz Michał , Vitkin Alex , Szczerska Małgorzata 
Published: June 2021

AbstractWe present an advanced multimodality characterization platform for simultaneous optical and electrochemical measurements of ferrocyanides. Specifically, we combined a fiber-optic Fabry–Perot interferometer with a three-electrode electrochemical setup to demonstrate a proof-of-principle of this hybrid characterization approach, and obtained feasibility data in its monitoring of electrochemical reactions in a boron-doped diamond film deposited on a silica substrate. The film plays the dual role of being the working electrode in the electrochemical reaction, as well as affording the reflectivity to enable the optical interferometry measurements. Optical responses during the redox reactions of the electrochemical process are presented. This work proves that simultaneous opto-electrochemical measurements of liquids are possible.
Plasma metabolomic profiles as affected by diet and stress in Spanish goats
Authors: Batchu Phaneendra , Terrill Thomas H. , Kouakou Brou , Estrada-Reyes Zaira M. , Kannan Govind 
Published: June 2021

AbstractThe effects of high-condensed tannin (CT) diet combined with preslaughter stress have not been studied at the metabolome level in goats. This study was conducted to determine the effects of feeding sericea lespedeza (SL; Lespedeza cuneata), a high-CT legume, and transportation stress on plasma metabolome in goats. Uncastrated male Spanish goats (age = 8 months; BW = 26.0 ± 0.48 kg) were either fed ground ‘Serala’ SL hay (SER), bermudagrass (Cynodon dactylon) hay (BG), or bermudagrass hay-dewormed goats (BG-DW; Control) at 75% of intake, with a corn-based supplementation (25%) for 8 weeks (n = 12/Diet). At the end of the trial, goats were subjected to one of two stress treatments (ST): transported for 90 min to impose stress (TS) or held in pens (NTS) before slaughtering, in two replicates. Live and carcass weights, and blood samples were collected at 0, 30, 60 and 90 min of transportation or holding time (Time). The data were analyzed using MIXED procedures in SAS and metabolomics data were analyzed using the R software. When measured after ST, SER group had the lowest body weight (P < 0.05) among the three diet groups. Carcass weights were high in the BG-DW, low in SER, and intermediate in BG group. Plasma creatine concentrations decreased over Time (P < 0.01) in the TS goats in all diet groups. Meat crude protein percentages were higher (P < 0.05) in SER (22.5 ± 0.22) and BG-DW (22.3 ± 0.22) groups compared to the BG group (21.6 ± 0.22). At the metabolome level, SER group had the lowest (P < 0.05) glycine, alanine, threonine, taurine, trans-hydroxyproline, methionine, and histidine concentrations and highest (P < 0.01) lysine and citrulline concentrations among the Diet groups. Butyric acid, concentration was higher (P < 0.05) in the SER group compared to BG group. Eight medium- and long-chained acylcarnitines were higher (P < 0.05) in the BG-DW group than SER or BG groups. In general, amino acid levels decreased and acylcarnitine increased with Time (P < 0.05) in all groups. Sericea diet can be beneficial in enhancing stress coping abilities in goats due to elevated butyrate, lysine, and citrulline levels; however, SER resulted in lower energy level in goats compared to BG or BG-DW groups. Fatty acid metabolism is the main energy pathway in all groups during prolonged stress. Inclusion of certain varieties of SL in the diet must be carefully controlled to prevent possible negative effect.
A new grey quadratic polynomial model and its application in the COVID-19 in China
Authors: Zhang Jianbo , Jiang Zeyou 
Published: June 2021

AbstractThis paper develops a new grey prediction model with quadratic polynomial term. Analytical expressions of the time response function and the restored values of the new model are derived by using grey model technique and mathematical tools. With observations of the confirmed cases, the death cases and the recovered cases from COVID-19 in China at the early stage, the proposed forecasting model is developed. The computational results demonstrate that the new model has higher precision than the other existing prediction models, which show the grey model has high accuracy in the forecasting of COVID-19.
Pharmacological and clinical evaluation of deferasirox formulations for treatment tailoring
Authors: Piolatto Andrea , Berchialla Paola , Allegra Sarah , De Francia Silvia , Ferrero Giovanni Battista , Piga Antonio , Longo Filomena 
Published: June 2021

AbstractDeferasirox (DFX) is the newest among three different chelators available to treat iron overload in iron-loading anaemias, firstly released as Dispersible Tablets (DT) and more recently replaced by Film-Coated Tablets (FCT). In this retrospective observational study, pharmacokinetics, pharmacodynamics, and safety features of DFX treatment were analyzed in 74 patients that took both formulations subsequently under clinical practice conditions. Bioavailability of DFX FCT compared to DT resulted higher than expected [Cmax: 99.5 (FCT) and 69.7 (DT) μMol/L; AUC: 1278 (FCT) and 846 (DT), P < 0.0001]. DFX FCT was also superior in scalability among doses. After one year of treatment for each formulation, no differences were observed between the treatments in the overall iron overload levels; however, DFX FCT but not DT showed a significant dose–response correlation [Spearman r (dose-serum ferritin variation): − 0.54, P < 0.0001]. Despite being administered at different dosages, the long-term safety profile was not different between formulations: a significant increase in renal impairment risk was observed for both treatments and it was reversible under strict monitoring (P < 0.002). Altogether, these data constitute a comprehensive comparison of DFX formulations in thalassaemia and other iron-loading anaemias, confirming the effectiveness and safety characteristics of DFX and its applicability for treatment tailoring.
Long-term prognosis of vascular access in hemodialysis patients with systemic lupus erythematosus: a retrospective cohort study
Authors: Chen Fan-Yu , Chen Chun-Fan , Tan Ann Charis , Chan Chia-Hao , Chen Fu-An , Liu Wen-Sheng , Chen Tz-Heng , Ou Shuo-Ming , Li Szu-Yuan , Tsai Ming-Tsun , Chen Yung-Tai , Lin Chih-Ching 
Published: June 2021

AbstractPatients with systemic lupus erythematosus (SLE) have a higher risk of vascular complications. This retrospective cohort study aimed to analyze the differences in the risk of arteriovenous fistula or graft (AVF/AVG) dysfunction in hemodialysis patients with and without SLE from Taiwan’s National Health Insurance Database over a 10-year period. AVF/AVG dysfunction is defined as the occurrence of the first episode of intervention after vascular access creation. A total of 1366 HD patients with SLE had higher incidence rates of AVF/AVG dysfunction than 4098 non-SLE HD patients in the following 4 periods: (1) after 1 year (incidence rates = 15.21% and 13.01%, respectively; subdistribution hazard ratio (SHR) = 1.16; P = 0.007), (2) 1st-to-10th-year period (15.36% and 13.25%; SHR = 1.16; P = 0.007), (3) 5th-to-10th-year period (11.91% and 8.1%; SHR = 1.42; P = 0.003), and (4) overall period (23.53% and 21.66%; SHR = 1.09; P = 0.027). In conclusion, there were significantly higher incidence rates of AVF/AVG dysfunction in SLE patients during the long-term follow-up period. Vascular access function should be monitored regularly by clinical examinations, especially after 1 year and during 5 to 10 years, to improve AVF/AVG patency and dialysis adequacy in SLE patients undergoing maintenance hemodialysis.
Fatty acids suppress the steroidogenesis of the MA-10 mouse Leydig cell line by downregulating CYP11A1 and inhibiting late-stage autophagy
Authors: Huang Chien , Hsu Hsiu-Ju , Wang Mu-En , Hsu Meng-Chieh , Wu Leang-Shin , Jong De-Shien , Jiang Yi-Fan , Chiu Chih-Hsien 
Published: June 2021

AbstractObese men have lower circulating testosterone than men with an optimal body mass index. Elevated fatty acids (FAs) caused by obesity have been reported to suppress the steroidogenesis of Leydig cells. Recent studies have demonstrated that autophagy regulates steroidogenesis in endocrine cells; however, few studies have investigated the molecular mechanisms of FA-impaired steroidogenesis. To study FA regulation in the steroidogenesis of Leydig cells, MA-10 cells were treated with an FA mixture and co-treated with 8-Br-cAMP to stimulate the steroidogenesis capacity. We showed that FAs led to cellular lipid accumulation and decreased steroidogenesis of MA-10 cells, and FA-suppressed steroidogenesis was largely recovered by P5 treatment but not by 22R-OHC treatment, suggesting the primary defect was the deficiency of CYP11A1. To examine the involvement of autophagy in the steroidogenesis of Leydig cells, we treated MA-10 cells with autophagy regulators, including rapamycin, bafilomycin, and chloroquine. Inhibition of late-stage autophagy including FA-upregulated Rubicon suppressed the steroidogenesis of MA-10 cells. More interestingly, Rubicon played a novel regulatory role in the steroidogenesis of MA-10 cells, independent of inhibitors of late-stage autophagy. Collectively, this study provides novel targets to investigate the interaction between FAs and steroidogenesis in steroidogenic cells.
Growth and dry matter partitioning response in cereal-legume intercropping under full and limited irrigation regimes
Authors: Amanullah  , Khalid Shah , Khalil Farhan , Elshikh Mohamed Soliman , Alwahibi Mona S. , Alkahtani Jawaher , Imranuddin  , Imran  
Published: June 2021

AbstractThe dry matter partitioning is the product of the flow of assimilates from the source organs (leaves and stems) along the transport route to the storage organs (grains). A 2-year field experiment was conducted at the agronomy research farm of the University of Agriculture Peshawar, Pakistan during 2015–2016 (Y1) to 2016–2017 (Y2) having semiarid climate. Four summer crops, pearl millet (Pennisetum typhoidum L.), sorghum (Sorghum bicolor L.) and mungbean (Vigna radiata L.) and pigeonpea (Cajanus cajan L.) and four winter crops, wheat (Triticum aestivum L.), barley (Hordeum vulgare L.), fababean (Vicia faba) and rapeseed (Brassica napus) were grown under two irrigation regimes (full vs. limited irrigation) with the pattern of growing each crop either alone as sole crop or in combination of two crops in each intercropping system under both winter and summer seasons. The result showed that under full irrigated condition (no water stress), all crops had higher crop growth rate (CGR), leaf dry weight (LDW), stem dry weight (SDW), and spike/head dry weight (S/H/PDW) at both anthesis and physiological maturity (PM) than limited irrigated condition (water stress). In winter crops, both wheat and barley grown as sole crop or intercropped with fababean produced maximum CGR, LDW, SDW, S/H/PDW than other intercrops. Among summer crops, sorghum intercropped either with pigeon pea or with mungbean produced maximum CGR, LDW, SDW, and S/H/PDW at both growth stages. Sole mungbean and pigeon pea or pigeon pea and mungbean intercropping had higher CGR, LDW, SDW, S/H/PDW than millet and sorghum intercropping. On the other hand, wheat and barley grown as sole crops or intercropped with fababean produced maximum CGR, LDW, SDW, and S/H/PDW than other intercrops. Fababean grown as sole crop or intercropped with wheat produced higher CGR, LDW, SDW, and S/H/PDW at PM than intercropped with barley or rapeseed. From the results it was concluded that cereal plus legume intercropping particularly wheat/fababean in winter and sorghum/pigeon pea or sorgum/mungbean in summer are the most productive intercropping systems under both low and high moisture regimes.
The scaling of social interactions across animal species
Authors: Rocha Luis E. C. , Ryckebusch Jan , Schoors Koen , Smith Matthew 
Published: June 2021

AbstractSocial animals self-organise to create groups to increase protection against predators and productivity. One-to-one interactions are the building blocks of these emergent social structures and may correspond to friendship, grooming, communication, among other social relations. These structures should be robust to failures and provide efficient communication to compensate the costs of forming and maintaining the social contacts but the specific purpose of each social interaction regulates the evolution of the respective social networks. We collate 611 animal social networks and show that the number of social contactsEscales with group sizeNas a super-linear power-law$$E=CN^\beta$$E=CNβfor various species of animals, including humans, other mammals and non-mammals. We identify that the power-law exponent$$\beta$$βvaries according to the social function of the interactions as$$\beta = 1+a/4$$β=1+a/4, with$$a \approx {1,2,3,4}$$a≈1,2,3,4. By fitting a multi-layer model to our data, we observe that the cost to cross social groups also varies according to social function. Relatively low costs are observed for physical contact, grooming and group membership which lead to small groups with high and constant social clustering. Offline friendship has similar patterns while online friendship shows weak social structures. The intermediate case of spatial proximity (with $$\beta =1.5$$β=1.5and clustering dependency on network size quantitatively similar to friendship) suggests that proximity interactions may be as relevant for the spread of infectious diseases as for social processes like friendship.
Adjoint traveltime tomography unravels a scenario of horizontal mantle flow beneath the North China craton
Authors: Dong Xingpeng , Yang Dinghui , Niu Fenglin , Liu Shaolin , Tong Ping 
Published: June 2021

AbstractThe North China craton (NCC) was dominated by tectonic extension from late Cretaceous to Cenozoic, yet seismic studies on the relationship between crust extension and lithospheric mantle deformation are scarce. Here we present a three dimensional radially anisotropic model of NCC derived from adjoint traveltime tomography to address this issue. We find a prominent low S-wave velocity anomaly at lithospheric mantle depths beneath the Taihang Mountains, which extends eastward with a gradually decreasing amplitude. The horizontally elongated low-velocity anomaly is also featured by a distinctive positive radial anisotropy (VSH > VSV). Combining geodetic and other seismic measurements, we speculate the presence of a horizontal mantle flow beneath central and eastern NCC, which led to the extension of the overlying crust. We suggest that the rollback of Western Pacific slab likely played a pivotal role in generating the horizontal mantle flow at lithospheric depth beneath the central and eastern NCC.
Elucidating causal effects of type 2 diabetes on ischemic heart disease from observational data on middle-aged Swedish women: a triangular analytical approach
Authors: Sundquist Kristina , Johansson Sven-Erik , Memon Ashfaque A. , Calling Susanna , Ohlsson Henrik , Szulkin Robert , Jimenez Eladio , Sundquist Jan 
Published: June 2021

AbstractThe association between type 2 diabetes (T2D) and ischemic heart disease (IHD) is well established but the potential causal association needs further studying. In an attempt to elucidate the causal effect of T2D on IHD, we used three different analytical approaches in two different datasets. A well-defined cohort of 6047 women aged 50–59 years were included at baseline (1995 to 2000) and followed until 2015 for IHD. The median follow-up was 16.3 years. We used a Marginal Structural Cox model (MSM Cox) to account for time-varying exposure (time at onset of T2D) and for ten confounders (using inverse probability weighting, IPW). We also compared the MSM-Cox models with traditional Cox regression modelling in the cohort. Finally, we analyzed information on individuals from Swedish population-based registers with national coverage in a comprehensive co-relative design and extrapolated the results to MZ twins. The Hazard Ratio (HR) for IHD in relation to T2D at baseline and T2D occurring during the follow-up in the MSM Cox model weighted by IPW (based on the ten included confounders) was 1.43 (95% confidence interval [CI] 1.07–1.92). The corresponding HR from the traditional Cox regression model was of similar effect size. The average extrapolated MZ twin estimate from our co-relative model was 1.61 (95% CI 1.48–1.86). Our findings, based on a triangular approach, support the existence of a causal association between T2D and IHD and that preventive long-term measures in order to avoid or postpone IHD should include monitoring and treatment of both the T2D itself as well as other cardiovascular risk factors.
Lévy walk dynamics explain gamma burst patterns in primate cerebral cortex
Authors: Liu Yuxi , Long Xian , Martin Paul R. , Solomon Samuel G. , Gong Pulin 
Published: June 2021

AbstractLévy walks describe patterns of intermittent motion with variable step sizes. In complex biological systems, Lévy walks (non-Brownian, superdiffusive random walks) are associated with behaviors such as search patterns of animals foraging for food. Here we show that Lévy walks also describe patterns of oscillatory activity in primate cerebral cortex. We used a combination of empirical observation and modeling to investigate high-frequency (gamma band) local field potential activity in visual motion-processing cortical area MT of marmoset monkeys. We found that gamma activity is organized as localized burst patterns that propagate across the cortical surface with Lévy walk dynamics. Lévy walks are fundamentally different from either global synchronization, or regular propagating waves, because they include large steps that enable activity patterns to move rapidly over cortical modules. The presence of Lévy walk dynamics therefore represents a previously undiscovered mode of brain activity, and implies a novel way for the cortex to compute. We apply a biophysically realistic circuit model to explain that the Lévy walk dynamics arise from critical-state transitions between asynchronous and localized propagating wave states, and that these dynamics yield optimal spatial sampling of the cortical sheet. We hypothesise that Lévy walk dynamics could help the cortex to efficiently process variable inputs, and to find links in patterns of activity among sparsely spiking populations of neurons.
Beyond pairwise network similarity: exploring mediation and suppression between networks
Authors: Lacasa Lucas , Stramaglia Sebastiano , Marinazzo Daniele 
Published: June 2021

AbstractNetwork similarity measures quantify how and when two networks are symmetrically related, including measures of statistical association such as pairwise distance or other correlation measures between networks or between the layers of a multiplex network, but neither can directly unveil whether there are hidden confounding network factors nor can they estimate when such correlation is underpinned by a causal relation. In this work we extend this pairwise conceptual framework to triplets of networks and quantify how and when a network is related to a second network (of the same number of nodes) directly or via the indirect mediation or interaction with a third network. Accordingly, we develop a simple and intuitive set-theoretic approach to quantify mediation and suppression between networks. We validate our theory with synthetic models and further apply it to triplets (multiplex) of real-world networks, unveiling mediation and suppression effects which emerge when considering different modes of interaction in online social networks and different routes of information processing in the nervous system.
Alignment of Au nanorods along de novo designed protein nanofibers studied with automated image analysis
Authors: Yaman Muammer Y. , Guye Kathryn N. , Ziatdinov Maxim , Shen Hao , Baker David , Kalinin Sergei V. , Ginger David S. 
Published: June 2021

In this study, we focus on exploring the directional assembly of anisotropic Au nanorods along de novo designed 1D protein nanofiber templates using automated image analysis tool.