bluuebunny/crossref_metadata_2025_split huggingface dataset:
Cooperative control of a DNA origami force sensor
Authors: Robbins Ariel , Hildebolt Hazen , Neuhoff Michael , Beshay Peter , Winter Jessica O. , Castro Carlos E. , Bundschuh Ralf , Poirier Michael G. 
Published: February 2024

AbstractBiomolecular systems are dependent on a complex interplay of forces. Modern force spectroscopy techniques provide means of interrogating these forces, but they are not optimized for studies in constrained environments as they require attachment to micron-scale probes such as beads or cantilevers. Nanomechanical devices are a promising alternative, but this requires versatile designs that can be tuned to respond to a wide range of forces. We investigate the properties of a nanoscale force sensitive DNA origami device which is highly customizable in geometry, functionalization, and mechanical properties. The device, referred to as the NanoDyn, has a binary (open or closed) response to an applied force by undergoing a reversible structural transition. The transition force is tuned with minor alterations of 1 to 3 DNA oligonucleotides and spans tens of picoNewtons (pN). The DNA oligonucleotide design parameters also strongly influence the efficiency of resetting the initial state, with higher stability devices (≳10 pN) resetting more reliably during repeated force-loading cycles. Finally, we show the opening force is tunable in real time by adding a single DNA oligonucleotide. These results establish the potential of the NanoDyn as a versatile force sensor and provide fundamental insights into how design parameters modulate mechanical and dynamic properties.
Case study of chemical and enzymatic degumming processes in soybean oil production at an industrial plant
Authors: Khamies Maged , Hagar Mohamed , Kassem Taher S. E. , Moustafa Amira Hossam Eldin 
Published: February 2024

AbstractThe vegetable oil degumming process plays a critical role in refining edible oil. Phospholipids (PL) removal from crude extracted soybean oil (SBO) by the enzymatic degumming process has been investigated in this work. Enzymatic degumming of extracted SBO with microbial phospholipase A1 PLA-1 Quara LowP and Lecitase Ultra enzymes have also been studied comparatively. The main novelty of our work is the use of the enzymatic degumming process on an industrial scale (600 tons a day). Many parameters have been discussed to understand in detail the factors affecting oil losses during the degumming process. The factors such as chemical conditioning (CC) by phosphoric acid 85%, the enzyme dosage mg/kg (feedstock dependent), the enzymatic degumming reaction time, and the characteristics of the plant-processed SBO have been discussed in detail. As a main point, the degummed oil with a phosphorus content of < 10 mg/kg increases yield. Quara LowP and Lecitase Ultra enzymes are not specific for certain phospholipids PL; however, the conversion rate depends on the SBO phospholipid composition. After 4 h, over 99% of Phospholipids were degraded to their lysophospholipid LPL (lysolecithin). The results showed a significant effect of operating parameters and characteristics of different origins of SBO, fatty acids FFA content, Phosphorus content and total divalent metals (Calcium Ca, Magnesium Mg and Iron Fe mg/kg) content on the oil loss. The benefit of using enzymatic degumming of vegetable oils rather than traditional chemical refining is that the enzymatic degumming process reduces total oil loss. This decrease is known as enzymatic yield. The enzymatic degumming also decreases wastewater and used chemicals and running costs; moreover, it enables physical refining by lowering the residue phosphorus to < 10 mg/kg.
Colonial Microcystis’ biomass affects its shift to diatom aggregates under aeration mixing
Authors: Wang Xiaodong , Che Xuan , Zhou Jian , Qin Boqiang , Tang Xiangming , Liu Ziqiu , Liu Xingguo 
Published: February 2024

AbstractThe effect of hydrodynamic mixing on controlling Microcystis blooms or changing the algal community to diatom dominance has been widely studied; however, the effects of colonial Microcystis biomass on the development of the algal community are poorly known. Here, in order to study the changes in Microcystis blooms under continuous aeration mixing, an experiment was carried out in a greenhouse with factors of varying biomass of Microcystis and inorganic nitrogen and phosphorus enrichment in summer. There were three chlorophyll a (Chl-a) levels in six treatments: low Chl-a level of 68.4 μg L-1 (treatments L, L-E), medium Chl-a level of 468.7 μg L-1 (treatments M, M-E), and high Chl-a level of 924.1 μg L-1 (treatments H, H-E). Treatments L-E, M-E and H-E were enriched with the same inorganic nitrogen and phosphorus nutrients. During the experiment of 30 days, the concentration of Microcystis and Chl-a decreased, and diatom Nitzschia palea cells appeared in all the treatments, which became dominant in treatments M, M-E, H and H-E, with the highest biomass of 9.41 ± 1.96 mg L-1Nitzschia in treatment H-E on day 30. The rank order of the biomass of Nitzschia from low to high was (L = L-E) < (M = M-E) < H < H-E (P < 0.05). In addition, Nitzschia cells were aggregates attached to Microcystis colonies in all the treatments. The results showed that the initial biomass of colonial Microcystis affected the algal shift from Microcystis dominance to Nitzschia dominance. However, the enriched inorganic nitrogen and phosphorus was beneficial for the Nitzschia increase in the high biomass treatment alone. The shift from Microcystis dominance to diatom dominance under continuous aeration mixing may be caused by low light conditions as well as the nutrients released from Microcystis decay. Moreover, the aerobic condition caused by aeration mixing maintained the colonial mucilaginous sheath to support the growth of Nitzschia cells in aggregation. This study found for the first time that Microcystis blooms could shift to diatom Nitzschia dominance in aggregates. It provided a method to control and manipulate Microcystis blooms to diatom dominance through continuous aeration mixing to proper biomass of Microcystis colonies. The shift to diatoms dominance would provide more high quality food organisms for aquaculture and be beneficial to the material cycling and energy flowing in food web dynamics.
Change of perspective: impact of COVID-19 pandemic on axial spondyloarthritis-related web searches in Germany
Authors: Wecker Hannah , Ziehfreund Stefanie , Hindelang Michael , Welcker Martin , Zink Alexander 
Published: February 2024

AbstractSeveral conventional cross-sectional studies have investigated the impact of the coronavirus disease (COVID-19) pandemic on patients with axial spondyloarthritis (axSpA) and reached contrary results regarding health and well-being. As analysis of web search data already provided insights into public interest and unmet needs, this study aimed to examine axSpA-related web searches before and during COVID-19 pandemic to gain a different perspective on the impact of COVID-19 on this disease. The Google Ads Keyword Planner was used to generate axSpA-related keywords and their monthly number of searches between June 2018 and November 2021 in Germany. These keywords were qualitatively classified into seven categories. A total of 538 axSpA-related keywords were used for the analysis. The number of axSpA-related searches increased during COVID-19 pandemic (before: n = 1,525,010 vs. during: n = 1,848,300), particularly searches for symptoms, disease outcomes, and causes, while interest in disease management and diagnosis decreased. This study demonstrated a shift in public interest in axSpA during COVID-19 in Germany and highlights an urgent expansion of telemedicine to be prepared for exceptional situations such as a pandemic.
Omega-3 fatty acid supplementation affects tryptophan metabolism during a 12-week endurance training in amateur runners: a randomized controlled trial
Authors: Tomczyk Maja , Bidzan-Wiącek Monika , Kortas Jakub Antoni , Kochanowicz Magdalena , Jost Zbigniew , Fisk Helena L. , Calder Philip C. , Antosiewicz Jędrzej 
Published: February 2024

AbstractThe effects of long-term omega-3 polyunsaturated fatty acid (n-3 PUFA) supplementation during endurance training on tryptophan (Trp) metabolism and mental state of healthy individuals have not been evaluated so far. Concentrations of plasma Trp, its metabolites and IL-6 were assessed in 26 male runners before and after a 12-week training program combined with supplementation of n-3 PUFAs (O-3 + TRAIN group) or medium chain triglycerides (MCTs; TRAIN group). After the 12-week program participants' mood before and after stress induction was also assessed. The effects of the same supplementation protocol were evaluated also in 14 inactive subjects (O-3 + SEDEN group). Concentrations of 3-hydroxykynurenine (3-HK) and picolinic acid (PA) significantly increased only in the O-3 + TRAIN group (p = 0.01; $${\eta }_{p}^{2}$$

η

p

2

= 0.22 and p = 0.01; $${\eta }_{p }^{2}$$

η

p

2

= 0.26). Favorable, but not statistically significant changes in the concentrations of kynurenic acid (KYNA) (p = 0.06; $${\eta }_{p }^{2}$$

η

p

2

= 0.14), xanthurenic acid (XA) (p = 0.07; $${\eta }_{p }^{2}$$

η

p

2

= 0.13) and 3-hydroxyanthranilic acid (3-HAA) (p = 0.06; $${\eta }_{p }^{2}$$

η

p

2

= 0.15) and in the ratio of neurotoxic to neuroprotective metabolites were seen also only in the O-3 + TRAIN group. No changes in mood and IL-6 concentrations were observed in either group. Supplementation with n-3 PUFAs during endurance training has beneficial effects on Trp's neuroprotective metabolites.Trial registry: This study was registered at ClinicalTrials.gov with identifier NCT05520437 (14/07/2021 first trial registration and 2018/31/N/NZ7/02962 second trial registration).
Multimodal CNN-DDI: using multimodal CNN for drug to drug interaction associated events
Authors: Asfand-e-yar Muhammad , Hashir Qadeer , Shah Asghar Ali , Malik Hafiz Abid Mahmood , Alourani Abdullah , Khalil Waqar 
Published: February 2024

AbstractDrug-to-drug interaction (DDIs) occurs when a patient consumes multiple drugs. Therefore, it is possible that any medication can influence other drugs’ effectiveness. The drug-to-drug interactions are detected based on the interactions of chemical substructures, targets, pathways, and enzymes; therefore, machine learning (ML) and deep learning (DL) techniques are used to find the associated DDI events. The DL model, i.e., Convolutional Neural Network (CNN), is used to analyze the DDI. DDI is based on the 65 different drug-associated events, which is present in the drug bank database. Our model uses the inputs, which are chemical structures (i.e., smiles of drugs), enzymes, pathways, and the target of the drug. Therefore, for the multi-model CNN, we use several layers, activation functions, and features of drugs to achieve better accuracy as compared to traditional prediction algorithms. We perform different experiments on various hyperparameters. We have also carried out experiments on various iterations of drug features in different sets. Our Multi-Modal Convolutional Neural Network - Drug to Drug Interaction (MCNN-DDI) model achieved an accuracy of 90.00% and an AUPR of 94.78%. The results showed that a combination of the drug’s features (i.e., chemical substructure, target, and enzyme) performs better in DDIs-associated events prediction than other features.
Pacritinib inhibits proliferation of primary effusion lymphoma cells and production of viral interleukin-6 induced cytokines
Authors: Wu Yiquan , Wang Victoria , Yarchoan Robert 
Published: February 2024

AbstractPrimary effusion lymphoma (PEL) and a form of multicentric Castleman’s disease (MCD) are both caused by Kaposi sarcoma herpesvirus (KSHV). There is a critical need for improved therapies for these disorders. The IL-6/JAK/STAT3 pathway plays an important role in the pathogenesis of both PEL and KSHV-MCD. We explored the potential of JAK inhibitors for use in PEL and KSHV-MCD, and found that pacritinib was superior to others in inhibiting the growth of PEL cell lines. Pacritinib induced apoptosis in PEL cells and inhibited STAT3 and NF-κB activity as evidenced by reduced amount of phosphorylated moieties. Pacritinib also inhibits FLT3, IRAK1, and ROS1; studies utilizing other inhibitors of these targets revealed that only FLT3 inhibitors exhibited similar cell growth inhibitory effects. FLT3’s likely contribution to pacritinib’s cell growth inhibition was further demonstrated by siRNA knockdown of FLT3. RNA sequencing and RT-PCR showed that many key host genes including cyclins and IL-6 were downregulated by pacritinib, while KSHV genes were variably altered. Finally, pacritinib suppressed KSHV viral IL-6-induced human IL-6 and IL-10 production in peripheral blood mononuclear cells, which may model an important step in KSHV-MCD pathogenesis. These results suggest that pacritinib warrants testing for the treatment of KSHV-MCD and PEL.
CRISPR-mediated germline mutagenesis for genetic sterilization of Anopheles gambiae males
Authors: Smidler Andrea L. , Marrogi Eryney , Kauffman Jamie , Paton Douglas G. , Westervelt Kathleen A. , Church George M. , Esvelt Kevin M. , Shaw W. Robert , Catteruccia Flaminia 
Published: February 2024

AbstractRapid spread of insecticide resistance among anopheline mosquitoes threatens malaria elimination efforts, necessitating development of alternative vector control technologies. Sterile insect technique (SIT) has been successfully implemented in multiple insect pests to suppress field populations by the release of large numbers of sterile males, yet it has proven difficult to adapt to Anopheles vectors. Here we outline adaptation of a CRISPR-based genetic sterilization system to selectively ablate male sperm cells in the malaria mosquito Anopheles gambiae. We achieve robust mosaic biallelic mutagenesis of zero population growth (zpg, a gene essential for differentiation of germ cells) in F1 individuals after intercrossing a germline-expressing Cas9 transgenic line to a line expressing zpg-targeting gRNAs. Approximately 95% of mutagenized males display complete genetic sterilization, and cause similarly high levels of infertility in their female mates. Using a fluorescence reporter that allows detection of the germline leads to a 100% accurate selection of spermless males, improving the system. These males cause a striking reduction in mosquito population size when released at field-like frequencies in competition cages against wild type males. These findings demonstrate that such a genetic system could be adopted for SIT against important malaria vectors.
Economical-environmental-technical optimal power flow solutions using a novel self-adaptive wild geese algorithm with stochastic wind and solar power
Authors: Trojovský Pavel , Trojovská Eva , Akbari Ebrahim 
Published: February 2024

AbstractThis study introduces an enhanced self-adaptive wild goose algorithm (SAWGA) for solving economical-environmental-technical optimal power flow (OPF) problems in traditional and modern energy systems. Leveraging adaptive search strategies and robust diversity capabilities, SAWGA distinguishes itself from classical WGA by incorporating four potent optimizers. The algorithm's application to optimize an OPF model on the different IEEE 30-bus and 118-bus electrical networks, featuring conventional thermal power units alongside solar photovoltaic (PV) and wind power (WT) units, addresses the rising uncertainties in operating conditions, particularly with the integration of renewable energy sources (RESs). The inherent complexity of OPF problems in electrical networks, exacerbated by the inclusion of RESs like PV and WT units, poses significant challenges. Traditional optimization algorithms struggle due to the problem's high complexity, susceptibility to local optima, and numerous continuous and discrete decision parameters. The study's simulation results underscore the efficacy of SAWGA in achieving optimal solutions for OPF, notably reducing overall fuel consumption costs in a faster and more efficient convergence. Noteworthy attributes of SAWGA include its remarkable capabilities in optimizing various objective functions, effective management of OPF challenges, and consistent outperformance compared to traditional WGA and other modern algorithms. The method exhibits a robust ability to achieve global or nearly global optimal settings for decision parameters, emphasizing its superiority in total cost reduction and rapid convergence.
Diffusion-induced lithium isotopic heterogeneity in olivines from peridotites of an oceanized mantle lithosphere at the Yunzhug ophiolite (central Tibet)
Authors: Shi Ren-Deng , Cui Guang-hao , Huang Qi-Shuai , Huang Xiao-Xiao , Zou Haibo , Gong Xiaohan , Yang Jing-Sui 
Published: February 2024

AbstractThis paper reports lithium concentrations and isotopic compositions of olivines in the oceanized subcontinental lithospheric mantle (SCLM) peridotites of the Tibetan Yunzhug ophiolite. The results show systematic Li isotope changes with distance from the rim of olivine grains. δ7Li values of olivine in dunites decrease from + 10.46 to + 1.33‰ with increasing distance to olivine rim from 26.15 to 124.71 μm. A negative correlation of δ7Li and Li content in olivine from dunite and harzburgite indicates recent diffusive ingress of Li into the peridotites. The extremely heavy Li isotopic composition requires the seawater or seawater alteration endmember in the mixing model, and reveals Li diffusion from seawater into olivine. As in dunites, olivines in a harzburgite sample show similar variations in δ7Li as a function of distance from the grain rim (e.g., 6.01 to 1.73 in sample 14YZ13). We suggest that the behavior of Li in the oceanized SCLM peridotites may be controlled by Li diffusion from seawater, as Li activity in the liquid state is higher than the solid state in transporting Li through the olivines in the peridotites. This study supports that seawater Li diffusion is one of the important factors for the heterogeneity of mantle Li isotopes in ophiolites.
Multiple roles for the cytoplasmic C-terminal domains of the yeast cell surface receptors Rgt2 and Snf3 in glucose sensing and signaling
Authors: Kim Jeong-Ho , Mailloux Levi , Bloor Daniel , Tae Haeun , Nguyen Han , McDowell Morgan , Padilla Jaqueline , DeWaard Anna 
Published: February 2024

AbstractThe plasma membrane proteins Rgt2 and Snf3 are glucose sensing receptors (GSRs) that generate an intracellular signal for the induction of gene expression in response to high and low extracellular glucose concentrations, respectively. The GSRs consist of a 12-transmembrane glucose recognition domain and a cytoplasmic C-terminal signaling tail. The GSR tails are dissimilar in length and sequence, but their distinct roles in glucose signal transduction are poorly understood. Here, we show that swapping the tails between Rgt2 and Snf3 does not alter the signaling activity of the GSRs, so long as their tails are phosphorylated in a Yck-dependent manner. Attachment of the GSR tails to Hxt1 converts the transporter into a glucose receptor; however, the tails attached to Hxt1 are not phosphorylated by the Ycks, resulting in only partial signaling. Moreover, in response to non-fermentable carbon substrates, Rgt2 and Hxt1-RT (RT, Rgt2-tail) are efficiently endocytosed, whereas Snf3 and Hxt1-ST (ST, Snf3-tail) are endocytosis-impaired. Thus, the tails are important regulatory domains required for the endocytosis of the Rgt2 and Snf3 glucose sensing receptors triggered by different cellular stimuli. Taken together, these results suggest multiple roles for the tail domains in GSR-mediated glucose sensing and signaling.
Exploring the spatiotemporal relationship between influenza and air pollution in Fuzhou using spatiotemporal weighted regression model
Authors: Chen Qingquan , Zheng Xiaoyan , Xu Binglin , Sun Mengcai , Zhou Quan , Lin Jin , Que Xiang , Zhang Xiaoyang , Xu Youqiong 
Published: February 2024

AbstractAir pollution has become a significant concern for human health, and its impact on influenza, has been increasingly recognized. This study aims to explore the spatiotemporal heterogeneity of the impacts of air pollution on influenza and to confirm a better method for infectious disease surveillance. Spearman correlation coefficient was used to evaluate the correlation between air pollution and the influenza case counts. VIF was used to test for collinearity among selected air pollutants. OLS regression, GWR, and STWR models were fitted to explore the potential spatiotemporal relationship between air pollution and influenza. The R2, the RSS and the AICc were used to evaluate and compare the models. In addition, the DTW and K-medoids algorithms were applied to cluster the county-level time-series coefficients. Compared with the OLS regression and GWR models, STWR model exhibits superior fit especially when the influenza outbreak changes rapidly and is able to more accurately capture the changes in different regions and time periods. We discovered that identical air pollutant factors may yield contrasting impacts on influenza within the same period in different areas of Fuzhou. NO2 and PM10 showed opposite impacts on influenza in the eastern and western areas of Fuzhou during all periods. Additionally, our investigation revealed that the relationship between air pollutant factors and influenza may exhibit temporal variations in certain regions. From 2013 to 2019, the influence coefficient of O3 on influenza epidemic intensity changed from negative to positive in the western region and from positive to negative in the eastern region. STWR model could be a useful method to explore the spatiotemporal heterogeneity of the impacts of air pollution on influenza in geospatial processes. The research findings emphasize the importance of considering spatiotemporal heterogeneity when studying the relationship between air pollution and influenza.
Comparison standards shape everyday judgments of low and high wellbeing in individuals with and without psychopathology: a diary-based investigation
Authors: Meyer Thomas , Sickinghe Marthe , Matera Vanessa , Morina Nexhmedin 
Published: February 2024

AbstractPeople can easily rate and express their current levels of wellbeing, but the cognitive foundations for such judgments are poorly understood. We examined whether comparisons to varying standards underlie fluctuating wellbeing judgments within-person (i.e., throughout daily episodes) and between-person (i.e., high vs. low levels of psychopathology). Clinical and non-clinical participants recorded subjective affect for each distinct episode for one week. Participants briefly described current, best, and worst daily episodes, which we coded for presence and type of comparison standard (social, past temporal, criteria-based, counterfactual, prospective temporal, and dimensional). Participants also rated their engagement with these standards and the respective affective impact. During best episodes, participants reported more downward (vs. upward) comparisons that resulted in positive affective impact. In worst episodes, upward (vs. downward) comparisons were more frequent. In best and worst episodes, we most frequently identified past-temporal and criteria-based comparisons, respectively. The clinical group engaged more often with all potential standard types during worst daily episodes and was more negatively affected by comparative thoughts, amid consistently more negative affect levels across all episode types. Our data suggest that judgments of affect and wellbeing may indeed rely on comparative thinking, whereby certain standards may characterize states of negative affect and poor mental health.