bluuebunny/crossref_metadata_2025 huggingface dataset:
Measuring Facial Illuminance with Smartphones and Mobile Devices
Authors: Salmerón-Campillo Rosa María , Bradley Arthur , Jaskulski Mateusz , López-Gil Norberto
Published: August 2021

Introduction: To uncover a relationship between light exposure and myopia is complicated because of the challenging nature of measuring visually relevant illumination experienced by children. Objective: To find a methodology to measure face illuminance using a mobile device. Methods: Accuracy and precision of the mobile device’s built-in ambient light sensor were tested under three different lighting conditions: full-field, a single small light, and one mimicking typical office illumination. Face illuminance was computed in six faces with different skin reflectances using pixel values in face images captured by the device camera placed at 30 cm in front of the face. The results were compared with those obtained with a commercial light meter situated at the face. Results: The illuminance measured by the device’s ambient light sensor showed high linearity (R2 > 0.99) slightly under-estimating or conversely over-estimating face illuminance with full-field or single light sources but accurate for office lighting. Face illuminance measured by the devices’ camera under indoor conditions using the new methodology showed a mean relative error of 27% and a high linearity (R2 > 0.94). Conclusions: Introduction of an app can be used to assess the association between visually relevant environmental light levels and myopia progression.
Comparison of Dynamic Characteristics between Small and Super-Large Diameter Cross-River Twin Tunnels under Train Vibration
Authors: Wu Lin , Zhang Xiedong , Wang Wei , Meng Xiancong , Guo Hong
Published: August 2021

Train vibration from closely aligned adjacent tunnels could cause safety concerns, especially given the soaring size of the tunnel diameter. This paper established a two-dimensional discrete element model (DEM) of small (d = 6.2 m) and super-large (D = 15.2 m) diameter cross-river twin tunnels and discussed the dynamic characteristics of adjacent tunnels during the vibration of a train that runs through the tunnel at a speed of 120 km/h. Results in the D tunnel showed that the horizontal walls have the same horizontal displacement (DH) and the vertical walls have the same vertical displacement (DV). The stress state of the surroundings of the D tunnel is the decisive factor for DH, and the distance from the vibration point to the measurement point is the decisive factor for DV. Results in the comparison of the d and D tunnels showed that the D tunnel is more stable than the d tunnel with respect to two aspects: the time the tunnel reaches the equilibrium state and the vibration amplitude of the structure’s dynamic and static responses. The dynamic characteristic of the d and D tunnel is significantly different. This research is expected to guide the design and construction of large diameter twin tunnels.
An Attempt to Model the Surface Pressures of Apples Using the Finite Element Method
Authors: Szyjewicz Daniel , Kuta Łukasz , Działak Paulina , Stopa Roman
Published: August 2021

Apples are the most popular fruits grown in Polish orchards. In order to obtain the best quality fruit, it is necessary to improve plantation maintenance, fruit harvesting, and processing. Given that many fruits are exposed to external factors, including forces that adversely affect their structure—causing them to crack, bruise, or crush—it is necessary to provide conditions that do not adversely affect their quality. Therefore, the aim of this article was to develop a simplified model of an apple that could be tested under different loads using the finite element method. The parameters of the model were selected to reflect the actual apple as accurately as possible. To assess the apples under impact load, as well as the construction of the FEM model, concrete and wooden substrates were used, where apples were dropped from height of 10 mm and 30 mm. Due to this research, an apple model was obtained that reflects the actual object very well (high R2 coefficient). In addition, the layering and distribution of surface pressures of the real and model objects from the distribution are presented. This shows that the constructed model corresponds to the behaviour of the biological material, subjected to loads in real conditions.
Modeling and Simulation of Sky Survey
Authors: Hu Kun , Wang Hongfei , Zhang Wenzhao , Xu Yuohua , He Shengmao
Published: August 2021

Sky surveys with wide and deep field are the key direction of international astronomy research for the next decades. It is worthwhile to study how to design a sky survey algorithm to obtain the maximum scientific output in a limited period of observation. In this paper, the modeling and simulation of a wide and deep sky survey mission are presented using a Staged Design Algorithm (SDA), which takes into account the inefficient time periods and difficult-to-observe sky areas. In order to ensure the effective completion of the long-time survey observation tasks in large sky areas, a two-stage scheduling algorithm is designed. Firstly, the inefficient time periods and difficult observation areas are scheduled, and then the overall observation is carried out. The prearranged schedule is arranged when inefficient time periods or difficult areas are encountered during the overall arrangement. The simulation results are verified on the basic data of the China Space Station Telescope (CSST), and the obtained simulation result is three years ahead of the target of the telescope design to complete the wide and deep sky survey of 15,000 deg2. The design ideas in this paper not only have good results for sky survey observation but also can be extended to similar satellite Earth observation mission planning.
Surface Modification of a Graphite Felt Cathode with Amide-Coupling Enhances the Electron Uptake of Rhodobacter sphaeroides
Authors: Fitriana Hana Nur , Lee Jiye , Lee Sangmin , Moon Myounghoon , Lee Yu Rim , Oh You-Kwan , Park Myeonghwa , Lee Jin-Suk , Song Jinju , Lee Soo Youn
Published: August 2021

Microbial electrosynthesis (MES) is a promising technology platform for the production of chemicals and fuels from CO2 and external conducting materials (i.e., electrodes). In this system, electroactive microorganisms, called electrotrophs, serve as biocatalysts for cathodic reaction. While several CO2-fixing microorganisms can reduce CO2 to a variety of organic compounds by utilizing electricity as reducing energy, direct extracellular electron uptake is indispensable to achieve highly energy-efficient reaction. In the work reported here, Rhodobacter sphaeroides, a CO2-fixing chemoautotroph and a potential electroactive bacterium, was adopted to perform a cathodic CO2 reduction reaction via MES. To promote direct electron uptake, the graphite felt cathode was modified with a combination of chitosan and carbodiimide compound. Robust biofilm formation promoted by amide functionality between R. sphaeroides and a graphite felt cathode showed significantly higher faradaic efficiency (98.0%) for coulomb to biomass and succinic acid production than those of the bare (34%) and chitosan-modified graphite cathode (77.8%), respectively. The results suggest that cathode modification using a chitosan/carbodiimide composite may facilitate electron utilization by improving direct contact between an electrode and R. sphaeroides.
Strength Characteristics of Iron Tailings Blended Soil as a Road Base Material
Authors: Tong Jiannan , Niu Xujing , Wang Yonghua , Lu Yunhua
Published: August 2021

Cement and ionic curing agent were blended with iron tailings (ITS) and natural soil to prepare a new road base material. 7-d unconfined compressive strength (UCS) was selected as the evaluation index for determining the optimal mix ratio. The results reveal that the 7-d UCS always increases with the increase of cement content, and firstly increases with the increase of curing agent content and then tends to remain stable, exhibiting an increasing trend first and then dropping with the increase of ITS content. In lieu of this, the optimum ratio of iron tailings blended soil (ITBS) is determined as follows: ITS and soil are mixed in ratio of 50:50, and cement and soil curing agent account for 5% and 2% of the total mass, respectively. The results of splitting strength and flexural-tensile strength tests show that these strengths of the ITBS always increase with the curing age, and firstly increases and then decreases with the increase in ITS content. XRD and SEM analyses show that the ratio of ITS to soil significantly influences the micro-pore structure of the blended soil. At an ITS to soil ratio of 50%:50%, the combination of soil and ITS particles is the closest which results in the highest strength attainment.
Air-Based Contactless Wafer Precision Positioning System
Authors: Hooijschuur Rico , Saikumar Niranjan , HosseinNia S. Hassan , van Ostayen Ron A. J.
Published: August 2021

This paper presents the development of a contactless sensing system and the dynamic evaluation of an air-bearing-based precision wafer positioning system. The contactless positioning stage is a response to the trend seen in the high-tech industry, where the substrates are becoming thinner and larger to reduce the cost and increase the yield. Using contactless handling it is possible to avoid damage and contamination. The system works by floating the substrate on a thin film of air. A viscous traction force is created on the substrate by steering the airflow. A cascaded control design structure has been implemented on the contactless positioning system, where the inner loop controller (ILC) controls the actuator which steers the airflow and the outer loop controller (OLC) controls the position of the substrate by controlling the reference of the ILC. The dynamics of the ILC are evaluated and optimized for the performance of the positioning of the substrate. The vibration disturbances are also handled by the ILC. The bandwidth of the system has been improved to 300 Hz. For the OLC, a linear charge-coupled device has been implemented as a contactless sensor. The performance of the sensing system has been analysed. During control in steady-state, this resulted in a position error of the substrate of 12.9 μm RMS, which is a little more than two times the resolution. The bandwidth of the OLC is approaching 10 Hz.
Li2CO3 as Protection for a High-Temperature Thermoelectric Generator: Thermal Stability and Corrosion Analysis
Authors: Argandoña Gorka , Aresti Maite , Blanco Jesus M. , Muel Esteban , Esarte Jesús
Published: August 2021

In most steelmaking processes, huge amounts of waste heat at high temperature (700–800 °C) are thrown into the environment without any use. An alternative use for this waste heat is electricity generation through thermoelectric generators. However, these high temperatures, as well as their fluctuations over time, affect not only the conversion rate of the thermoelectric generator but also its useful lifetime. The incorporation of a latent thermal energy storage (TES) system could be a solution; nevertheless, the thermal stability and corrosive effect of the (PCM) phase change material are key aspects for the thermal storage system definition, in terms of durability. In this work, developed in the framework of the European project “PowGETEG” (RFSR-CT-2015-00028, funded by the Research Fund for Coal and Steel), a high-temperature analysis (700–800 °C) of the Li2CO3 thermal properties, thermal stability and corrosive effect on the AISI 304 and AISI 310 stainless steels is carried out. The results show that the eutectic salt Li2CO3 exhibits high thermal stability with neither change in its thermal properties nor material degradation. This work shows that lithium carbonate Li2CO3 and AISI 310 make a very good combination for the definition of a thermal storage system able to protect a high-temperature thermoelectric converter from temperature variations, making it more reliable.
Marketing and Self-Promotion in Early Modern Painting: The Case of Guercino
Authors: Unger Daniel M.
Published: August 2021

This article focuses on Guercino’s Return of the Prodigal Son, commissioned in the name of Cardinal Alessandro Ludovisi and on his marketing choices. This is a case study in terms of self-promotion tactics employed by an ambitious artist. My argument is that one finds in the painting a secondary and more sophisticated level of interpretation, which relates to the relationship between the painter and his patron. To the most traditional iconography of the scene, Guercino added musicians and spectators, thus positioning the entire composition in the theatre. One of the musicians is depicted in a way that casts him as a representative of the painter. The patron understood Guercino’s intentions and commissioned what became Guercino’s most important artworks. It was Guercino’s ability of shifting the attention of a given iconography and deliver current political meaning that is discernible in his Roman works commissioned by the same Cardinal Ludovisi who was elected Pope Gregory XV.
Forest Management and Adaptation Strategies in Response to Climate Change by the Taiwanese Public
Authors: Liu Wan-Yu , Wu Chien-Chen , Wang Shih-Yu Simon
Published: August 2021

Forests account for 60% of lands in Taiwan. Climate change impacts forests in many aspects and is increasingly likely to undermine the ability of forests to provide basic ecosystem services. To help reduce the impact of climate change on Taiwan’s forests, people must be made aware of the relationship between climate change and forests. Based on questionnaires collected from 17 cities in Taiwan, this study applied spatial analysis to assess the respondents’ understanding of climate change and adaptation strategies for forest management. A total of 650 questionnaires were distributed and 488 valid ones were collected. The results show that (1) Most respondents believe that climate change is true and more than half of the respondents have experienced extreme weather events, especially extreme rainfall; (2) Most respondents believe that climate change will affect Taiwan’s forests with the majority recognizing the increasing impact of extreme events being the primary cause, followed by changes in the composition of tree species and the deterioration of forest adaptability due to climate change; (3) Most respondents expressed that forest management should be adjusted for climate change and called for measures being taken to establish mixed forests as well as monitoring forest damage; (4) In order to address the difficulties faced by forest owners on the impact of climate change, the majority of respondents felt that the government should raise forest owners’ understanding on climate change and adaptation policies, while the subsidy incentives must also be adjusted. The results of this study show that the respondents do realize the importance of climate change and forest management so much so their awareness in this matter led to their support for forest adaptation measures and policies.
Effect of Mid-Latitude Jet Stream on the Intensity of Tropical Cyclones Affecting Korea: Observational Analysis and Implication from the Numerical Model Experiments of Typhoon Chaba (2016)
Authors: Do Gunwoo , Kim Hyeong-Seog
Published: August 2021

The effect of the jet stream on the changes in the intensity of tropical cyclones (TC) affecting Korea is discussed. We classified the TCs into three categories based on the decreasing rate of TC intensity in 24 h after TC passed 30° N. The TCs with a large intensity decrease had a more vigorous intensity when the TCs approached the mid-latitudes. The analysis of observational fields showed that the strong jet stream over Korea and Japan may intensify TCs by the secondary circulations of jet entrance but induces a large decrease in TC intensity in the mid-latitudes by the strong vertical wind shear. We also performed the numerical simulation for the effect of the jet stream on the intensity changes of Typhoon Chaba (2016). As a result, the stronger jet stream induced more low-level moisture convergence at the south of the jet stream entrance, enhancing the intensity when the TC approached Korea. Furthermore, it induced a rapid reduction in intensity when TC approached in the strong jet stream area. The results suggest that the upper-level jet stream is one of the critical factors modulating the intensity of TC affecting Korea in the vicinity of the mid-latitudes.
Constrained Molecular Dynamic Simulation of the Potential Mean Force of Lithium Bromide Ion Pairs in Acetonitrile
Authors: Pinzón Reinhardt
Published: August 2021

Molecular dynamic simulations of Li+, and Br− ions in acetonitrile were carried out. The simulated structural properties were compared to experimental data. The solvent potentials of Li+-Br−, Li+-Li+, and Br−-Br− were evaluated using constrained molecular dynamics (CMD) simulations, to determine the solvent contribution to the total force acting on the solute and estimate the liquid arrangements according to the potential of mean force (PMF) values. The PMF of friction kernels and the passage across the Li+-Br− barrier was studied using the Grote–Hynes theory. The union-separation development happens in the polarization confining system.
Does Coenzyme Q10 Supplementation Improve Testicular Function and Spermatogenesis in Male Mice with Chronic Kidney Disease?
Authors: Tsao Chih-Wei , Hsu Yu-Juei , Tseng Xiang-Ting , Chang Ting-Chia , Tsao Chang-Huei , Liu Chin-Yu
Published: August 2021

The aim of the study was to examine the potential effects of coenzyme Q10 (CoQ10) on reproductive function in a chronic kidney disease (CKD) mouse model. Nine-week-old mice were randomly assigned to two groups: sham surgery (n = 18) and CKD surgery (n = 18). After surgery, the study groups received CoQ10 (10 mg/kg body weight dissolved in corn oil by oral gavage) or corn oil as a vehicle daily for 8 weeks. The groups that underwent 5/6 nephrectomy developed significant elevations of serum BUN and creatinine levels. The CoQ10 treatment significantly increased the serum and testicular CoQ10 levels and alleviated the poor semen quality from incomplete spermatogenesis. The testosterone concentration, in addition to the protein expression of enzymes related to testosterone biosynthesis, was also elevated, and the CKD-induced decrease in antioxidant activity in the testes was significantly ameliorated. The results suggest that CoQ10 could act against CKD-induced testicular dysfunction through improvements in the sperm function, testicular morphology, testosterone levels and related biosynthesis pathways, in addition to antioxidant activity.
Transcriptome Analysis of Two Near-Isogenic Lines with Different NUE under Normal Nitrogen Conditions in Wheat
Authors: Zhang Xinbo , Li Fujian , Ding Yonggang , Ma Quan , Yi Yuan , Zhu Min , Ding Jinfeng , Li Chunyan , Guo Wenshan , Zhu Xinkai
Published: August 2021

Nitrogen (N) is an essential nutrient element for crop productivity. Unfortunately, the nitrogen use efficiency (NUE) of crop plants gradually decreases with the increase of the N application rate. Nevertheless, little has been known about the molecular mechanisms of differences in NUE among genotypes of wheat. In this study, we used RNA-Sequencing (RNA-Seq) to compare the transcriptome profiling of flag leaves at the stage of anthesis in wheat NILs (1Y, high-NUE, and 1W, low-NUE) under normal nitrogen conditions (300 kg N ha−1, corresponding to 1.6 g N pot−1). We identified 7023 DEGs (4738 upregulated and 2285 downregulated) in the comparison between lines 1Y and 1W. The responses of 1Y and 1W to normal N differed in the transcriptional regulatory mechanisms. Several genes belonging to the GS and GOGAT gene families were upregulated in 1Y compared with 1W, and the enhanced carbon metabolism might lead 1Y to produce more C skeletons, metabolic energy, and reductants for nitrogen metabolism. A subset of transcription factors (TFs) family members, such as ERF, WRKY, NAC, and MYB, were also identified. Collectively, these identified candidate genes provided new information for a further understanding of the genotypic difference in NUE.
A Comparison of Acute Pharmacological Effects of Methylone and MDMA Administration in Humans and Oral Fluid Concentrations as Biomarkers of Exposure
Authors: Poyatos Lourdes , Papaseit Esther , Olesti Eulalia , Pérez-Mañá Clara , Ventura Mireia , Carbón Xoán , Grifell Marc , Fonseca Francina , Torrens Marta , de la Torre Rafael , Farré Magí
Published: August 2021

Considered the β-keto analogue of 3,4-methylenedioxymethamphetamine (MDMA, ecstasy), 3,4-Methylenedioxymethcathinone (methylone) is a synthetic cathinone. Over the years, methylone has been used as a substitute for conventional psychostimulants, such as MDMA. To date, little is known about the human pharmacology of methylone; the only available information has been provided by surveys or published intoxication reports. In the present observational–naturalistic study, we evaluate the acute subjective and physiological effects of methylone after oral self-administration in comparison to MDMA in healthy poly-drug users. Fourteen participants (10 males, 4 females) selected their single oral doses of methylone from 100 to 300 mg (n = 8, mean dose 187.5 mg) or MDMA from 75 to 100 mg (n = 6, mean dose 87.5 mg) based on their experience. Study variables were assessed at 0, 1, 2, and 4 h (h) and included vital signs (non-invasive blood pressure, heart rate, cutaneous temperature) and subjective effects using visual analogue scales (VAS), the 49-item Addiction Research Centre Inventory (ARCI) short form, and the Evaluation of the Subjective Effects of Substances with Abuse Potential (VESSPA-SSE) questionnaire. Additionally, oral fluid concentrations of methylone and MDMA were determined. Acute pharmacological effects produced by methylone followed the prototypical psychostimulant and empathogenic profile associated with MDMA, although they were less intense. Methylone concentrations in oral fluid can be considered a useful biomarker to detect acute exposure in oral fluid. Oral fluid concentrations of MDMA and methylone peaked at 2 h and concentrations of MDMA were in the range of those previously described in controlled studies. Our results demonstrate that the potential abuse liability of methylone is similar to that of MDMA in recreational subjects.
Phytochemicals from Leucas zeylanica Targeting Main Protease of SARS-CoV-2: Chemical Profiles, Molecular Docking, and Molecular Dynamics Simulations
Authors: Dutta Mycal , Tareq Abu Montakim , Rakib Ahmed , Mahmud Shafi , Sami Saad Ahmed , Mallick Jewel , Islam Mohammad Nazmul , Majumder Mohuya , Uddin Md. Zia , Alsubaie Abdullah , Almalki Abdulraheem S. A. , Khandaker Mayeen Uddin , Bradley D.A. , Rana Md. Sohel , Emran Talha Bin
Published: August 2021

Severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2), a contemporary coronavirus, has impacted global economic activity and has a high transmission rate. As a result of the virus’s severe medical effects, developing effective vaccinations is vital. Plant-derived metabolites have been discovered as potential SARS-CoV-2 inhibitors. The SARS-CoV-2 main protease (Mpro) is a target for therapeutic research because of its highly conserved protein sequence. Gas chromatography–mass spectrometry (GC-MS) and molecular docking were used to screen 34 compounds identified from Leucas zeylanica for potential inhibitory activity against the SARS-CoV-2 Mpro. In addition, prime molecular mechanics–generalized Born surface area (MM-GBSA) was used to screen the compound dataset using a molecular dynamics simulation. From molecular docking analysis, 26 compounds were capable of interaction with the SARS-CoV-2 Mpro, while three compounds, namely 11-oxa-dispiro[4.0.4.1]undecan-1-ol (−5.755 kcal/mol), azetidin-2-one 3,3-dimethyl-4-(1-aminoethyl) (−5.39 kcal/mol), and lorazepam, 2TMS derivative (−5.246 kcal/mol), exhibited the highest docking scores. These three ligands were assessed by MM-GBSA, which revealed that they bind with the necessary Mpro amino acids in the catalytic groove to cause protein inhibition, including Ser144, Cys145, and His41. The molecular dynamics simulation confirmed the complex rigidity and stability of the docked ligand–Mpro complexes based on the analysis of mean radical variations, root-mean-square fluctuations, solvent-accessible surface area, radius of gyration, and hydrogen bond formation. The study of the postmolecular dynamics confirmation also confirmed that lorazepam, 11-oxa-dispiro[4.0.4.1]undecan-1-ol, and azetidin-2-one-3, 3-dimethyl-4-(1-aminoethyl) interact with similar Mpro binding pockets. The results of our computerized drug design approach may assist in the fight against SARS-CoV-2.
agReg-SNPdb: A Database of Regulatory SNPs for Agricultural Animal Species
Authors: Klees Selina , Heinrich Felix , Schmitt Armin , Gültas Mehmet
Published: August 2021

Transcription factors (TFs) govern transcriptional gene regulation by specifically binding to short DNA motifs, known as transcription factor binding sites (TFBSs), in regulatory regions, such as promoters. Today, it is well known that single nucleotide polymorphisms (SNPs) in TFBSs can dramatically affect the level of gene expression, since they can cause a change in the binding affinity of TFs. Such SNPs, referred to as regulatory SNPs (rSNPs), have gained attention in the life sciences due to their causality for specific traits or diseases. In this study, we present agReg-SNPdb, a database comprising rSNP data of seven agricultural and domestic animal species: cattle, pig, chicken, sheep, horse, goat, and dog. To identify the rSNPs, we constructed a bioinformatics pipeline and identified a total of 10,623,512 rSNPs, which are located within TFBSs and affect the binding affinity of putative TFs. Altogether, we implemented the first systematic analysis of SNPs in promoter regions and their impact on the binding affinity of TFs for livestock and made it usable via a web interface.
Effects of Silicon and Silicon-Based Nanoparticles on Rhizosphere Microbiome, Plant Stress and Growth
Authors: Rajput Vishnu D. , Minkina Tatiana , Feizi Morteza , Kumari Arpna , Khan Masudulla , Mandzhieva Saglara , Sushkova Svetlana , El-Ramady Hassan , Verma Krishan K. , Singh Abhishek , Hullebusch Eric D. van , Singh Rupesh Kumar , Jatav Hanuman Singh , Choudhary Ravish
Published: August 2021

Silicon (Si) is considered a non-essential element similar to cadmium, arsenic, lead, etc., for plants, yet Si is beneficial to plant growth, so it is also referred to as a quasi-essential element (similar to aluminum, cobalt, sodium and selenium). An element is considered quasi-essential if it is not required by plants but its absence results in significant negative consequences or anomalies in plant growth, reproduction and development. Si is reported to reduce the negative impacts of different stresses in plants. The significant accumulation of Si on the plant tissue surface is primarily responsible for these positive influences in plants, such as increasing antioxidant activity while reducing soil pollutant absorption. Because of these advantageous properties, the application of Si-based nanoparticles (Si-NPs) in agricultural and food production has received a great deal of interest. Furthermore, conventional Si fertilizers are reported to have low bioavailability; therefore, the development and implementation of nano-Si fertilizers with high bioavailability could be crucial for viable agricultural production. Thus, in this context, the objectives of this review are to summarize the effects of both Si and Si-NPs on soil microbes, soil properties, plant growth and various plant pathogens and diseases. Si-NPs and Si are reported to change the microbial colonies and biomass, could influence rhizospheric microbes and biomass content and are able to improve soil fertility.
Microbial Involvement in Carbon Transformation via CH4 and CO2 in Saline Sedimentary Pool
Authors: Goraj Weronika , Szafranek-Nakonieczna Anna , Grządziel Jarosław , Polakowski Cezary , Słowakiewicz Mirosław , Zheng Yanhong , Gałązka Anna , Stępniewska Zofia , Pytlak Anna
Published: August 2021

Methane and carbon dioxide are one of the most important greenhouse gases and significant components of the carbon cycle. Biogeochemical methane transformation may occur even in the extreme conditions of deep subsurface ecosystems. This study presents methane-related biological processes in saline sediments of the Miocene Wieliczka Formation, Poland. Rock samples (W2, W3, and W4) differed in lithology (clayey salt with veins of fibrous salt and lenses of gypsum and anhydrite; siltstone and sandstone; siltstone with veins of fibrous salt and lenses of anhydrite) and the accompanying salt type (spiza salts or green salt). Microbial communities present in the Miocene strata were studied using activity measurements and high throughput sequencing. Biological activity (i.e., carbon dioxide and methane production or methane oxidation) occurred in all of the studied clayey salt and siltstone samples but mainly under water-saturated conditions. Microcosm studies performed at elevated moisture created more convenient conditions for the activity of both methanogenic and methanotrophic microorganisms than the intact sediments. This points to the fact that water activity is an important factor regulating microbial activity in saline subsurface sediments. Generally, respiration was higher in anaerobic conditions and ranged from 36 ± 2 (W2200%t.w.c) to 48 ± 4 (W3200%t.w.c) nmol CO2 gdw−1 day−1. Methanogenic activity was the highest in siltstone and sandstone (W3, 0.025 ± 0.018 nmol CH4 gdw−1 day−1), while aerobic methanotrophic activity was the highest in siltstone with salt and anhydrite (W4, 220 ± 66 nmol CH4 gdw−1 day−1). The relative abundance of CH4-utilizing microorganisms (Methylomicrobium, Methylomonas, Methylocystis) constituted 0.7–3.6% of all taxa. Methanogens were represented by Methanobacterium (0.01–0.5%). The methane-related microbes were accompanied by a significant number of unclassified microorganisms (3–64%) and those of the Bacillus genus (4.5–91%). The stable isotope composition of the CO2 and CH4 trapped in the sediments suggests that methane oxidation could have influenced δ13CCH4, especially in W3 and W4.
Cloning and Functional Verification of CYP408A3 and CYP6CS3 Related to Chlorpyrifos Resistance in the Sogatella furcifera (Horváth) (Hemiptera: Delphacidae)
Authors: Ruan Yanwei , Liu Xinxian , Gong Changwei , Zhang Yuming , Shen Litao , Ali Hasnain , Huang Yanyan , Wang Xuegui
Published: August 2021

The white-back planthopper (WBPH), Sogatella furcifera, mainly harms rice and occurs in most rice regions in China and Asia. With the use of chemical pesticides, S. furcifera has developed varying degrees of resistance to a variety of pesticides. In our study, a chlorpyrifos-resistant population (44.25-fold) was built through six generations of screening with a sublethal dose of chlorpyrifos (LD50) from a field population. The expression levels of ten selected resistance-related P450 genes were analyzed by RT-qPCR and found that CYP408A3 and CYP6CS3 were significantly more expressed in the third instar nymphs of the XY17-G5 and XY17-G6 populations, about 25-fold more than the Sus-Lab strain, respectively (p < 0.01). To elucidate their molecular function in the development of resistance towards chlorpyrifos, we cloned two P450 full lengths and predicted their tertiary protein structures. CYP408A3 and CYP6CS3 were also downregulated after injecting dsCYP408A3, dsCYP6CS3, or their mixture compared to the control group. Moreover, the mortality rates of the dsCYP6CS3 (91.7%) and the mixture injection treatment (93.3%) treated by the LC50 concentration of chlorpyrifos were significantly higher than the blank control group (51.7%) and dsCYP408A3 injection treatment (69.3%) at 72 h (p < 0.01). Meanwhile, the P450 enzyme activities in the dsRNA treatments were lower than that in the control (XY17-G6) (p < 0.01). Therefore, the P450 gene CYP6CS3 may be one of the main genes in the development of chlorpyrifos resistance in S. furcifera.
Possible Synergistic Antidiabetic Effects of Quantified Artemisia judaica Extract and Glyburide in Streptozotocin-Induced Diabetic Rats via Restoration of PPAR-α mRNA Expression
Authors: Saeedan Abdulaziz , Soliman Gamal , Abdel-Rahman Rehab , Abd-Elsalam Reham , Ogaly Hanan , Alharthy Khalid , Abdel-Kader Maged
Published: August 2021

Several members of the genus Artemisia are used in both Western and African traditional medicine for the control of diabetes. A considerable number of diabetic patients switch to using oral antidiabetic drugs in combination with certain herbs instead of using oral antidiabetic drugs alone. This study examined the effect of Artemisia judaica extract (AJE) on the antidiabetic activity of glyburide (GLB) in streptozotocin (STZ)-induced diabetes. Forty-two male Wistar rats were divided into seven equal groups. Normal rats of the first group were treated with the vehicle. The diabetic rats in the second–fifth groups received vehicle, GLB (5 mg/kg), AJE low dose (250 mg/kg), and AJE high dose (500 mg/kg), respectively. Groups sixth–seventh were treated with combinations of GLB plus the lower dose of AJE and GLB plus the higher dose of AJE, respectively. All administrations were done orally for eight weeks. Fasting blood glucose (FBG) and insulin levels, glycated hemoglobin (HbA1c) percentage, serum lipid profile, and biomarkers of oxidative stress were estimated. The histopathological examination of the pancreas and the immunohistochemical analysis of anti-insulin, anti-glucagon, and anti-somatostatin protein expressions were also performed. The analysis of the hepatic mRNA expression of PPAR-α and Nrf2 genes were performed using quantitative RT-PCR. All treatments significantly lowered FBG levels when compared with the STZ-control group with the highest percentage reduction exhibited by the GLB plus AJE high dose combination. This combination highly improved insulin levels, HbA1c, and lipid profile in blood of diabetic rats compared to GLB monotherapy. In addition, all medicaments restored insulin content in the β-cells and diminished the levels of glucagon and somatostatin of the α- and δ-endocrine cells in the pancreatic islets. Furthermore, the GLB plus AJE high dose combination was the most successful in restoring PPAR-α and Nrf2 mRNA expression in the liver. In conclusion, these data indicate that the GLB plus AJE high dose combination gives greater glycemic improvement in male Wistar rats than GLB monotherapy.
Contrasting Host-Parasite Population Structure: Morphology and Mitogenomics of a Parasitic Flatworm on Pelagic Deepwater Cichlid Fishes from Lake Tanganyika
Authors: Kmentová Nikol , Hahn Christoph , Koblmüller Stephan , Zimmermann Holger , Vorel Jiří , Artois Tom , Gelnar Milan , Vanhove Maarten P. M.
Published: August 2021

Little phylogeographic structure is presumed for highly mobile species in pelagic zones. Lake Tanganyika is a unique ecosystem with a speciose and largely endemic fauna famous for its remarkable evolutionary history. In bathybatine cichlid fishes, the pattern of lake-wide population differentiation differs among species. We assessed the congruence between the phylogeographic structure of bathybatine cichlids and their parasitic flatworm Cichlidogyrus casuarinus to test the magnifying glass hypothesis. Additionally, we evaluated the use of a PoolSeq approach to study intraspecific variation in dactylogyrid monogeneans. The lake-wide population structure of C. casuarinus ex Hemibates stenosoma was assessed based on a portion of the cox1 gene combined with morphological characterisation. Additionally, intraspecific mitogenomic variation among 80 parasite samples from one spatially constrained metapopulation was assessed using shotgun NGS. While no clear geographic genetic structure was detected in parasites, both geographic and host-related phenotypic variation was apparent. The incongruence with the genetic north-south gradient observed in H. stenosoma may be explained by the broad host range of this flatworm including eupelagic bathybatine host species that form panmictic populations across the lake. In addition, we present the first parasite mitogenome from Lake Tanganyika and propose a methodological framework for studying the intraspecific mitogenomic variation of dactylogyrid monogeneans.
Post-Transcriptional Control of Mating-Type Gene Expression during Gametogenesis in Saccharomyces cerevisiae
Authors: Yeager Randi , Bushkin G. Guy , Singer Emily , Fu Rui , Cooperman Benjamin , McMurray Michael
Published: August 2021

Gametogenesis in diploid cells of the budding yeast Saccharomyces cerevisiae produces four haploid meiotic products called spores. Spores are dormant until nutrients trigger germination, when they bud asexually or mate to return to the diploid state. Each sporulating diploid produces a mix of spores of two haploid mating types, a and α. In asexually dividing haploids, the mating types result from distinct, mutually exclusive gene expression programs responsible for production of mating pheromones and the receptors to sense them, all of which are silent in diploids. It was assumed that spores only transcribe haploid- and mating-type-specific genes upon germination. We find that dormant spores of each mating type harbor transcripts representing all these genes, with the exception of Mata1, which we found to be enriched in a spores. Mata1 transcripts, from a rare yeast gene with two introns, were mostly unspliced. If the retained introns reflect tethering to the MATa locus, this could provide a mechanism for biased inheritance. Translation of pheromones and receptors were repressed at least until germination. We find antisense transcripts to many mating genes that may be responsible. These findings add to the growing number of examples of post-transcriptional regulation of gene expression during gametogenesis.
Protective Effects of Purple Rice Husk against Diabetic Nephropathy by Modulating PGC-1α/SIRT3/SOD2 Signaling and Maintaining Mitochondrial Redox Equilibrium in Rats
Authors: Wongmekiat Orawan , Lailerd Narissara , Kobroob Anongporn , Peerapanyasut Wachirasek
Published: August 2021

Diabetic nephropathy (DN) is the primary cause of end-stage renal disease worldwide. Oxidative stress and mitochondrial dysfunction are central to its pathogenesis. Rice husk, the leftover from the milling process, is a good source of phytochemicals with antioxidant activity. This study evaluated the possible protection of purple rice husk extract (PRHE) against diabetic kidney injury. Type 2 diabetic rats were given vehicle, PRHE, metformin, and PRHE+metformin, respectively, while nondiabetic rats received vehicle. After 12 weeks, diabetic rats developed nephropathy as proven by metabolic alterations (increased blood glucose, insulin, HOMA-IR, triglycerides, cholesterol) and renal abnormalities (podocyte injury, microalbuminuria, increased serum creatinine, decreased creatinine clearance). Treatment with PRHE, metformin, or combination diminished these changes, improved mitochondrial function (decreased mitochondrial swelling, reactive oxygen species production, membrane potential changes), and reduced renal oxidative damage (decreased lipid peroxidation and increased antioxidants). Increased expression of PGC-1α, SIRT3, and SOD2 and decreased expression of Ac-SOD2 correlated with the beneficial outcomes. HPLC revealed protocatechuic acid and cyanidin-3-glucoside as the key components of PRHE. The findings indicate that PRHE effectively protects against the development of DN by retaining mitochondrial redox equilibrium via the regulation of PGC-1α-SIRT3-SOD2 signaling. This study creates an opportunity to develop this agricultural waste into a useful health product for diabetes.
Epithelial Cell Line Derived from Endometriotic Lesion Mimics Macrophage Nervous Mechanism of Pain Generation on Proteome and Metabolome Levels
Authors: Neuditschko Benjamin , Leibetseder Marlene , Brunmair Julia , Hagn Gerhard , Skos Lukas , Gerner Marlene C. , Meier-Menches Samuel M. , Yotova Iveta , Gerner Christopher
Published: August 2021

Endometriosis is a benign disease affecting one in ten women of reproductive age worldwide. Although the pain level is not correlated to the extent of the disease, it is still one of the cardinal symptoms strongly affecting the patients’ quality of life. Yet, a molecular mechanism of this pathology, including the formation of pain, remains to be defined. Recent studies have indicated a close interaction between newly generated nerve cells and macrophages, leading to neurogenic inflammation in the pelvic area. In this context, the responsiveness of an endometriotic cell culture model was characterized upon inflammatory stimulation by employing a multi-omics approach, including proteomics, metabolomics and eicosanoid analysis. Differential proteomic profiling of the 12-Z endometriotic cell line treated with TNFα and IL1β unexpectedly showed that the inflammatory stimulation was able to induce a protein signature associated with neuroangiogenesis, specifically including neuropilins (NRP1/2). Untargeted metabolomic profiling in the same setup further revealed that the endometriotic cells were capable of the autonomous production of 7,8-dihydrobiopterin (BH2), 7,8-dihydroneopterin, normetanephrine and epinephrine. These metabolites are related to the development of neuropathic pain and the former three were found up-regulated upon inflammatory stimulation. Additionally, 12-Z cells were found to secrete the mono-oxygenated oxylipin 16-HETE, a known inhibitor of neutrophil aggregation and adhesion. Thus, inflammatory stimulation of endometriotic 12-Z cells led to specific protein and metabolite expression changes suggesting a direct involvement of these epithelial-like cells in endometriosis pain development.
Impact of a Single Nucleotide Change or Non-Nucleoside Modifications in G-Rich Region on the Quadruplex–Duplex Hybrid Formation
Authors: Gudanis Dorota , Zielińska Karolina , Baranowski Daniel , Kierzek Ryszard , Kozłowski Piotr , Gdaniec Zofia
Published: August 2021

In this paper, a method to discriminate between two target RNA sequences that differ by one nucleotide only is presented. The method relies on the formation of alternative structures, i.e., quadruplex–duplex hybrid (QDH) and duplex with dangling ends (Dss), after hybridization of DNA or RNA G-rich oligonucleotides with target sequences containing 5′–GGGCUGG–3′ or 5′–GGGCGGG–3′ fragments. Using biophysical methods, we studied the effect of oligonucleotide types (DNA, RNA), non-nucleotide modifications (aliphatic linkers or abasic), and covalently attached G4 ligand on the ability of G-rich oligonucleotides to assemble a G-quadruplex motif. We demonstrated that all examined non-nucleotide modifications could mimic the external loops in the G-quadruplex domain of QDH structures without affecting their stability. Additionally, some modifications, in particular the presence of two abasic residues in the G-rich oligonucleotide, can induce the formation of non-canonical QDH instead of the Dss structure upon hybridization to a target sequence containing the GGGCUGG motif. Our results offer new insight into the sequential requirements for the formation of G-quadruplexes and provide important data on the effects of non-nucleotide modifications on G-quadruplex formation.
Prenatal Diagnosis of Small Supernumerary Marker Chromosome 10 by Array-Based Comparative Genomic Hybridization and Microdissected Chromosome Sequencing
Authors: Lebedev Igor , Karamysheva Tatyana , Elisaphenko Eugeny , Makunin Alexey , Zhigalina Daria , Lopatkina Maria , Drozdov Gleb , Cheremnykh Aleksander , Torkhova Natalia , Seitova Gulnara , Vasilyev Stanislav , Kashevarova Anna , Nazarenko Ludmila , Rubtsov Nikolay
Published: August 2021

Interpreting the clinical significance of small supernumerary marker chromosomes (sSMCs) in prenatal diagnosis is still an urgent problem in genetic counselling regarding the fate of a pregnancy. We present a case of prenatal diagnosis of mosaic sSMC(10) in a foetus with a normal phenotype. Comprehensive cytogenomic analyses by array-based comparative genomic hybridization (aCGH), sSMC microdissection with next-generation sequencing (NGS) of microdissected library, fluorescence in situ hybridization (FISH) with locus-specific and telomere-specific DNA probes and quantitative real-time PCR revealed that sSMC(10) had a ring structure and was derived from the pericentromeric region of chromosome 10 with involvement of the 10p11.21-p11.1 and 10q11.21-q11.23 at 1.243 Mb and 7.173 Mb in size, respectively. We observed a difference in the length of sSMC(10) between NGS data of the DNA library derived from a single copy of sSMC(10), and aCGH results that may indicate instability and structural mosaicism for ring chromosomes in foetal cells. The presence of a 9 Mb euchromatin region in the analysed sSMC(10) did not lead to clinical manifestations, and a healthy girl was born at term. We suggest that the ring structure of sSMCs could influence sSMC manifestations and should be taken into account in genetic counselling during prenatal diagnosis.
Interleukin-30 Suppresses Not Only CD4+ T Cells but Also Regulatory T Cells in Murine Primary Biliary Cholangitis
Authors: Chen Hung-Wen , Lin Chia-I. , Chuang Ya-Hui
Published: August 2021

Primary biliary cholangitis (PBC) is a chronic liver autoimmune disease with augmented T helper (Th) 1 and corresponding cytokine IFN-γ immune responses. Using 2-octynoic acid (2-OA) coupled to OVA (2-OA-OVA)-induced mouse models of autoimmune cholangitis (inducible chemical xenobiotic models of PBC), our previous study demonstrated that overexpression of IFN-γ in the model mice enhanced liver inflammation upon disease initiation, but subsequently led to the suppression of chronic inflammation with an increase in interleukin-30 (IL-30) levels. In this study, we investigated whether IL-30 had an immunosuppressive function and whether it could be part of an immune therapeutic regimen for PBC, by treating model mice with murine IL-30-expressing recombinant adeno-associated virus (AAV-mIL-30). We first defined the effects of AAV-mIL-30 in vivo by administering it to a well-known concanavalin A (ConA)-induced hepatitis model of mice and found that AAV-mIL-30 reduced the numbers of activated CD25+CD4+ T cells and the levels of serum IFN-γ and IL-12. In autoimmune cholangitis, decreased numbers of activated CD4+ T cells and Foxp3+ regulatory T cells were noted in the mice treated with AAV-mIL-30 at 3 weeks after the 2-OA-OVA immunization. Treatment with IL-30 did not change the features of autoimmune cholangitis including autoantibodies, cell infiltration, and collagen deposition in the liver at 11 weeks of examination. However, increased levels of cytokines and chemokines were observed. These results suggest that IL-30 suppresses not only CD4+ T cells but also regulatory T cells. Additionally, the administration of IL-30 did not suppress liver inflammation in the murine model of PBC.