bluuebunny/crossref_metadata_2025_split huggingface dataset:
Induction of hypocalcaemia and evaluation of reticuloruminal motility using a three-axis accelerometer
Authors: Choi Woojae , Ro Younghye , Kim Dohee , Hong Leegon , Kim Danil 
Published: February 2022

Context Reticuloruminal motility, which is continuous and regular, is essential for digestive activity, but some functional abnormalities can appear in cattle with several metabolic disorders. Particularly in periparturient dairy cows, decreased blood calcium concentrations induce deterioration of rumen motility as well as the risk of reproductive disorders. Aims This study aimed to evaluate reticuloruminal motility using a bolus-type biosensor incorporated with a three-axis accelerometer (3XA) following induction of hypocalcaemia by infusion of ethylenediamine–tetraacetic acid disodium salt dihydrate (Na2EDTA) solution. Methods In the 2 × 2 crossover experiment, six non-pregnant and non-lactating cows were assigned to each of the treatment (TRE) and control (CON) groups and infused for 1 h with 13% Na2EDTA solution and physiological saline respectively. The cylindrical biosensor was fed and placed in the reticulum before the experiment, and the three acceleration values of each cow were recorded and transmitted wirelessly. Considering the device shape, the reticuloruminal motility was represented as the vector value (V2) calculated with each change in X- and Z-axis acceleration over time. Key results Plasma calcium concentrations were measured to confirm hypocalcaemia, and the average was significantly decreased to 1.23 mmol/L at 1 h in TRE. The mean V2 value was significantly decreased in TRE compared with CON, from 1 to 2 h after Na2EDTA infusion. Conclusion 3XA was able to detect a change in reticuloruminal motility caused by hypocalcaemia. The use of 3XA in cattle will allow for rapid treatment of hypocalcaemia or other metabolic disorders that reduce productivity. Implications The 3XA inserted into the reticulum of a dairy cow detected a decrease in reticuloruminal motility wirelessly caused by induced hypocalcaemia.
Cullin neddylation inhibitor attenuates hyperglycemia by enhancing hepatic insulin signaling through insulin receptor substrate stabilization
Authors: Chen Cheng , Gu Lijie , Matye David J. , Clayton Yung-Dai , Hasan Mohammad Nazmul , Wang Yifeng , Friedman Jacob E. , Li Tiangang 
Published: February 2022

Significance
Hepatic insulin resistance is a well-recognized cause of hepatic glucose overproduction and fasting hyperglycemia in fatty liver disease and type-2 diabetes. Here, we have discovered that pharmacological inhibition of cullin neddylation by NAE1 inhibitor enhances hepatic insulin signaling and lowers blood glucose in mice. Hepatic neddylation inhibition delays cullin-RING E3 ligase–mediated insulin receptor substrate protein degradation and thus directly targets a key pathogenic defect underlying hepatic insulin resistance. This finding suggests that targeting cullin neddylation may be a potential therapeutic strategy for treating hyperglycemia.
The Neogrammarian hypothesis and pandemic irregularity*
Authors: Blust Robert 
Published: February 2022

AbstractAt least three types of sound change (prenasalization of obstruents, lenition of obstruents, conversion of labial consonants to the corresponding labiovelars) are widespread in the Austronesian language family as sporadic innovations. What marks these off as different from more familiar types of irregularity is their repeated occurrence across hundreds of related languages, a phenomenon that can conveniently be called “pandemic irregularity.” All attempts to find an explanation for why pandemic irregularities occur in terms of possibly unrecognized affixation, conditioning, borrowing, or unfinished processes, have proven futile. In particular, it is stressed that pandemic irregularity in sound change is fundamentally different from “lexical diffusion”, and deserves to be recognized in its own right as a process that works against the general application of the regularity hypothesis.
Molecular dynamics simulations of structural and dynamical aspects of DNA hydration water
Authors: Netz Paulo A 
Published: February 2022

Abstract
Water is a remarkable liquid, both because of it is intriguing but also because of its importance. Water plays a key role on the structure and function of biological molecules, but on the other hand also the structure and dynamics of water are deeply influenced by its interactions with biological molecules, specially at low temperatures, where water’s anomalies are enhanced. Here we present extensive molecular dynamics simulations of water hydrating a oligonucleotide down to very low temperatures (supercooled water), comparing four water models and analyzing the water structure and dynamics in different domains: water in the minor groove, water in the major groove and bulk water. We found that the water in the grooves is slowed down by the interactions with the nucleic acid and a hints of a dynamic transition regarding translational and orientational dynamics were found, specially for the water models TIP4P/2005 and TIP4P-Ew, which also showed the closest agreement with available experimental data. The behavior of water in such extreme conditions is relevant for the study of cryopreservation of biological tissues.
Constraints on self-interacting Bose-Einstein condensate dark matter using large-scale observables
Authors: Hartman S.T.H. , Winther H.A. , Mota D.F. 
Published: February 2022

Abstract
Constraints on the cosmic history of self-interacting Bose-Einstein condensed (SIBEC) dark matter (DM) are obtained using the cosmic microwave background (CMB), baryonic acoustic oscillations (BAO), growth factor measurements, and type Ia supernovae (SNIa) distances. Four scenarios are considered, one with purely SIBEC-DM, and three in which SIBEC-DM is the final product of some transition from different initial states, which are either cold, warm, or has a constant equation of state. Using a fluid approximation for the self-interacting scalar field it is found that in the simplest scenario of purely SIBEC-DM the self-interaction necessary for solving the cusp-core problem, with core-radii of low-mass halos of order R
c ≳ 1kpc, is excluded at 2.4σ, or 98.5% confidence. Introducing a transition, however, relaxes this constraint, but the transitions are preferred to be after matter-radiation equality, and the initial phase to be cold.
Scaffold-free approaches for the fabrication of engineered articular cartilage tissue
Authors: Sun Kang , Tao Chao , Wang Dong-An 
Published: February 2022

Abstract
Tissue engineered cartilaginous constructs have meet great advances in the past decades as a treatment for osteoarthritis, a degenerative disease affecting people all over the world as the population ages. Scaffold-free tissue engineered constructs are designed and developed in recent years with only cells and cell-derived matrix involved. Scaffold-free tissue constructs do not require cell adherence on exogenous materials and are superior to scaffold-based constructs in (a) relying on only cells to produce matrix, (b) not interfering cell–cell signaling, cell migration or small molecules diffusion after implantation and (c) introducing no exogenous impurities. In this review, three main scaffold-free methodologies for cartilage tissue engineering, the cell sheet technology, the phase transfer cell culture-living hyaline cartilage graft system and the cell aggregate-based (bottom-up) methods, were reviewed, covering mold fabrication, decellularization and 3D bioprinting. The recent advances, medical applications, superiority and drawbacks were elaborated in detail.
Attractiveness and toxicity of two insecticides to Tetragonula laeviceps (Apidae: Meliponinae)
Authors: Mubin N , Nurulalia L , Dadang  
Published: February 2022

Abstract
Stingless bee, Tetragonula laeviceps, plays a primary role in ecosystem services as a pollinator for coffee, cocoa, and pepper. Attacks of insect pests cause low production of several plantation plants. Farmers commonly use synthetic insecticides to control insect pests. However, improper use of insecticides often adversely affects the ecosystem and human health, including pollinators. In Indonesia, research on the side effects of insecticides on non-target insects such as flower visitor insects (pollinators) is minimal. This study aimed to evaluate the attractiveness and toxicity of two insecticides to T. laeviceps. Stingless bees were obtained from beekeepers at Banten. Y-tube olfactometer test was used to determine the attractiveness of bees to insecticides, and a topical test was used to determine the mortality effect of insecticide on bees. The insecticides used were insecticide A (a.i. alpha-cypermethrin) and insecticide B (a.i. spinetoram) at 100 ppm and 60 ppm, respectively. The results showed that bees were more attracted to insecticide B by 73.3% than insecticide A (26.7%). Insecticide B caused 100% bee mortality after 48 hours after treatment (HAT), while Insecticide A caused 0% bee mortality after 48 HAT. The results indicate that insecticide B attracted stingless bees and has a high mortality level.
The efficacy of single and double tank thermal fogging tool of Bacillus thuringiensis application in oil palm
Authors: Rozziansha T A P , Priwiratama H , Prasetyo A E , Susanto A 
Published: February 2022

Abstract
Many oil palm planters argue that the application of Bacillus thuringiensis through fogging can only be conducted using double-tank fogging equipment. It was believed that the use of single-tank fogging will be resulting in low efficacy. The study aimed to evaluate the efficacy of single and double-tank fogging machines trial of B. thuringiensis against Mahasena corbetti in oil palm plantations. Two doses of application, i.e., 0.5 L/ha and 1 L/ha, were tested using each fogging machine. A plot of mock fogging application was used as a control treatment. The result showed that B. thuringiensis have high efficacy against M. corbetti. More than 90% of larvae mortality was observed at 14 day s after application via a single-tank and a double-tank fogging machine. This result suggests that a single-tank fogging machine could be used for B. thuringiensis application without reducing its efficacy against target pests.
Fertilizer recommendation for pepper based on soil properties and nutrient uptake
Authors: Hartono A , Barus B , Simanihuruk D M P 
Published: February 2022

Abstract
Generally, pepper fertilizer’s application is based on the old recommendation decided by related institutions. Fertilizer application in the SpiceUp project is based on current soil properties and nutrient uptake. This study aimed to compare leaf chlorophyll content and plant growth with fertilization treatment based on soil and nutrient uptake (recommendation) and fertilization treatment based on the old recommendation (conventional). The treatments tested on two varieties of pepper, namely Petaling 1 and Nyelungkup. Measurements of leaf chlorophyll content and plant growth parameters were in a demonstration plot located in Namang District, Central Bangka Regency, Bangka Belitung Islands, from December 2020 to March 2021. The leaf chlorophyll content was expressed by the chlorophyll content index, and plant growth parameters were represented by the number of leaves, number of internodes, number of climbing vines, number of fruit stalks, and plant height. The results showed that the leaf chlorophyll content and plant growth parameters with the recommendation treatment were higher than conventional treatments, in the Petaling 1 and Nyelungkup varieties. The results suggested that recommended treatment of the SpiceUp provided more optimum nutrients for pepper.
Increase of coffee tree susceptibility to stem canker disease mediated by glyphosate application
Authors: Suryaningsih A S , Wiyono S , Sopandie D 
Published: February 2022

AbstractStem canker is a major disease of coffee in Indonesia, caused byFusarium solani. Previous studies showed a correlation between stem canker incidence and glyphosate application. The study aimed to determine the effect of glyphosate application on coffee stem canker and the underlying physiological mechanisms. The research used glyphosate treatments with the concentrations of 0, 4, 8, and 16 ml.L−1.In vitroexperiments were carried out by measuring the growth ofF. solanicolony after glyphosate treatment.In planta, tests were conducted by artificial inoculation on glyphosate-treated coffee seedlings. The severity of stem canker was assessed. In a separate test, coffee seedlings were treated with glyphosate without pathogen inoculation. In the second experiment, physiological change was determined by measuring photosynthetic pigments, gas-exchange properties, lipid peroxidation, and activity of ascorbate peroxidase (APX) and catalase (CAT) enzymes.In vitrotests showed that glyphosate had antifungal activity againstF. solani. In planta, the test showed that glyphosate treatment caused higher susceptibility to stem canker in coffee seedlings, indicated by the increase of canker wound depth. Glyphosate treatment on coffee decreased the chlorophyll, carotene contents, and reduced photosynthesis rate, caused oxidative stress depicted by higher lipid peroxidation and increased enzyme APX and CAT activity.
The analysis of labor efficiency on sugarcane cultivation through mechanization application
Authors: Fatah G S A , Supriyadi  , Verona L , Nugraheni S D 
Published: February 2022

Abstract
One of the problems that often arise in people’s sugarcane cultivation is the scarcity of labor and high wages. The application of mechanization is an alternative solution to this problem, especially in people’s sugarcane fields on the island of Java. Land ownership of sugarcane farmers on the island of Java is relatively narrow, with an average land area of less than 0.25 ha. This requires the application of mechanization by the area of the land. This study examines the prospects for the application of tools and machines in sugarcane cultivation by farmers, planters, and companies. Mechanization in sugarcane cultivation can be carried out starting from soil processing, seeding, planting, weed control, and root cutting (pedot oyot) for sugar cane treated with ratoon. The use of mechanization in sugarcane cultivation can increase efficiency by 45.91% and save labor as much as 22 people. The use of mechanization in sugarcane cultivation in Indonesia needs to be encouraged, especially in planting and maintenance activities, to increase farmers’ income and support the country’s sugarcane plantation sustainable development.
Synthesis of polypyrrole-modified Fe3O4/SiO2/TiO2 nanocomposite microspheres and their photocatalytic activity
Authors: Han Kwang-Hyok , Kim Yong-Ho , Mun Myong-Hak , Yu Ju-Hyon , Han Ryong-Huan 
Published: February 2022

Abstract
A polypyrrole-modified Fe3O4/SiO2/TiO2 composite material was successfully synthesized on the FST surface by in situ polymerization of pyrrole. Structural, morphological and magnetic response of Fe3O4/SiO2/TiO2/PPy(FST/PPy) were characterized by transmission electron microscopy, scanning electron microscopy, X-ray diffraction pattern, Fourier transform infrared spectroscopy and energy-dispersive X-ray spectroscopy, etc. Through SEM images, the crystal sizes of the prepared FST/PPy nanoparticles were determined to be about 110 nm. The catalytic activity of FST/PPy was evaluated by the degree of decomposition of rhodamine B under ultraviolet and visible light, respectively. FST/PPy had the photocatalytic activity under the action of the light: the degradation rate of rhodamine B reached 92.8% and 63.5% after 3 h of UV and Vis light irradiation, respectively. Especially, compared with FST, the degradation rate has shown obvious improvement under the action of Vis light. Furthermore, FST/PPy photocatalyst could be easily recycled using a magnet.
Sampling Validation Data to Achieve a Planned Precision of the Bias-Adjusted Estimate of Effect
Authors: Collin Lindsay J , MacLehose Richard F , Ahern Thomas P , Gradus Jaimie L , Getahun Darios , Silverberg Michael J , Goodman Michael , Lash Timothy L 
Published: February 2022

AbstractData collected from a validation substudy permit calculation of a bias-adjusted estimate of effect that is expected to equal the estimate that would have been observed had the gold standard measurement been available for the entire study population. In this paper, we develop and apply a framework for adaptive validation to determine when sufficient validation data have been collected to yield a bias-adjusted effect estimate with a prespecified level of precision. Prespecified levels of precision are decided a priori by the investigator, based on the precision of the conventional estimate and allowing for wider confidence intervals that would still be substantively meaningful. We further present an applied example of the use of this method to address exposure misclassification in a study of transmasculine/transfeminine youth and self-harm. Our method provides a novel approach to effective and efficient estimation of classification parameters as validation data accrue, with emphasis on the precision of the bias-adjusted estimate. This method can be applied within the context of any parent epidemiologic study design in which validation data will be collected and modified to meet alternative criteria given specific study or validation study objectives.
SPLDExtraTrees: robust machine learning approach for predicting kinase inhibitor resistance
Authors: Yang Zi-Yi , Ye Zhao-Feng , Xiao Yi-Jia , Hsieh Chang-Yu , Zhang Sheng-Yu 
Published: February 2022

AbstractDrug resistance is a major threat to the global health and a significant concern throughout the clinical treatment of diseases and drug development. The mutation in proteins that is related to drug binding is a common cause for adaptive drug resistance. Therefore, quantitative estimations of how mutations would affect the interaction between a drug and the target protein would be of vital significance for the drug development and the clinical practice. Computational methods that rely on molecular dynamics simulations, Rosetta protocols, as well as machine learning methods have been proven to be capable of predicting ligand affinity changes upon protein mutation. However, the severely limited sample size and heavy noise induced overfitting and generalization issues have impeded wide adoption of machine learning for studying drug resistance. In this paper, we propose a robust machine learning method, termed SPLDExtraTrees, which can accurately predict ligand binding affinity changes upon protein mutation and identify resistance-causing mutations. Especially, the proposed method ranks training data following a specific scheme that starts with easy-to-learn samples and gradually incorporates harder and diverse samples into the training, and then iterates between sample weight recalculations and model updates. In addition, we calculate additional physics-based structural features to provide the machine learning model with the valuable domain knowledge on proteins for these data-limited predictive tasks. The experiments substantiate the capability of the proposed method for predicting kinase inhibitor resistance under three scenarios and achieve predictive accuracy comparable with that of molecular dynamics and Rosetta methods with much less computational costs.
CRESSP: a comprehensive pipeline for prediction of immunopathogenic SARS-CoV-2 epitopes using structural properties of proteins
Authors: An Hyunsu , Eun Minho , Yi Jawoon , Park Jihwan 
Published: February 2022

AbstractThe development of autoimmune diseases following SARS-CoV-2 infection, including multisystem inflammatory syndrome, has been reported, and several mechanisms have been suggested, including molecular mimicry. We developed a scalable, comparative immunoinformatics pipeline called cross-reactive-epitope-search-using-structural-properties-of-proteins (CRESSP) to identify cross-reactive epitopes between a collection of SARS-CoV-2 proteomes and the human proteome using the structural properties of the proteins. Overall, by searching 4 911 245 proteins from 196 352 SARS-CoV-2 genomes, we identified 133 and 648 human proteins harboring potential cross-reactive B-cell and CD8+ T-cell epitopes, respectively. To demonstrate the robustness of our pipeline, we predicted the cross-reactive epitopes of coronavirus spike proteins, which were recognized by known cross-neutralizing antibodies. Using single-cell expression data, we identified PARP14 as a potential target of intermolecular epitope spreading between the virus and human proteins. Finally, we developed a web application (https://ahs2202.github.io/3M/) to interactively visualize our results. We also made our pipeline available as an open-source CRESSP package (https://pypi.org/project/cressp/), which can analyze any two proteomes of interest to identify potentially cross-reactive epitopes between the proteomes. Overall, our immunoinformatic resources provide a foundation for the investigation of molecular mimicry in the pathogenesis of autoimmune and chronic inflammatory diseases following COVID-19.
An interactive process model of knowledge transfer for social work through university–agency collaboration: Subjective experiences of the agency social workers in Hong Kong
Authors: Xia Lily L L , Ma Joyce L C , Yau-Ng Monica L T , Yiu Cindy Yan-Yee 
Published: February 2022

Abstract
This article reports on the outcome of an exploratory study on a university–agency collaboration in a Chinese context for transferring social work knowledge from academia to the field and beyond. A six-stage process characterised by interactive contributions from the university and the agency in question was identified from the trainees’ narratives of the content, process and their subjective experiences with the three-year collaboration. The two parties co-constructed and adapted knowledge oriented for a specific clientele and agency context, and they implemented the intervention together with underlying theories and ways of thinking. Through interactive practising and coaching, knowledge was indigenised and disseminated into and beyond the agency. The study highlighted the trainees’ active participation, the deep collaboration between the two parties and the trusting relationship within the changing power dynamics, and the comprehensive planning at the organisational level for a fully sustainable transfer of social work knowledge with tacit characteristics. Multiple implications for continuing professional education in social work are drawn.
Spike-timing-dependent plasticity rewards synchrony rather than causality
Authors: Anisimova Margarita , van Bommel Bas , Wang Rui , Mikhaylova Marina , Wiegert Jörn Simon , Oertner Thomas G , Gee Christine E 
Published: February 2022

Abstract
Spike-timing-dependent plasticity (STDP) is a candidate mechanism for information storage in the brain, but the whole-cell recordings required for the experimental induction of STDP are typically limited to 1 h. This mismatch of time scales is a long-standing weakness in synaptic theories of memory. Here we use spectrally separated optogenetic stimulation to fire precisely timed action potentials (spikes) in CA3 and CA1 pyramidal cells. Twenty minutes after optogenetic induction of STDP (oSTDP), we observed timing-dependent depression (tLTD) and timing-dependent potentiation (tLTP), depending on the sequence of spiking. As oSTDP does not require electrodes, we could also assess the strength of these paired connections three days later. At this late time point, late tLTP was observed for both causal (CA3 before CA1) and anticausal (CA1 before CA3) timing, but not for asynchronous activity patterns (Δt = 50 ms). Blocking activity after induction of oSTDP prevented stable potentiation. Our results confirm that neurons wire together if they fire together, but suggest that synaptic depression after anticausal activation (tLTD) is a transient phenomenon.