bluuebunny/crossref_metadata_2025 huggingface dataset:
Characterizing Geomorphology of Mesophotic Coral Reef Ecosystems in the Southwestern Gulf of Mexico: Implications for Conservation and Management
Authors: Mayorga-Martínez Melissa , Bello-Pineda Javier , Perales-Valdivia Héctor , Pérez-España Horacio , Heyman William D.
Published: June 2021

Coral reefs are the most biodiverse ecosystems on earth and are presently experiencing severe declines globally. Shallow coral reef ecosystems (<30 m) have been studied extensively while mesophotic coral ecosystems (MCE) are poorly studied. As a result, MCE are rarely included in marine reserve design and management, despite their ecological importance and connectivity to shallow reefs. In this study, we assessed the fine-scale topographic complexity, a proxy for structural complexity, for a group of coastal coral reefs in a marine park in the southwestern Gulf of Mexico, in depths between 2 and 49 m. We conducted hydrographic surveys using a semi-portable multibeam echosounder system to produce 3D bathymetry digital terrain models (DTM) with a 2.5 m spatial resolution for three submerged bank reefs and two emerging reefs. From these models, descriptive terrain parameters were calculated for each reef, including slope, aspect, curvature, rugosity and ruggedness. Results show that all reefs are predominantly northeast-southwest oriented, with well-defined leeward and windward sides. For the three submerged bank reefs, structural complexity increased with depth. Estimated mean ruggedness and rugosity were highest at 20–40 m depth range on windward side slopes. Emerging reefs showed high structural complexity, particularly at the 25–40 m depth range. We identified a spur and groove zone with maximum ruggedness (0.26) and rugosity (3.17) values, and four channels with steep slopes (68°) and dispersed mounds. We found that at mesophotic depths (>30 m), southern reefs basements from two distinct reefs merge to form a continuous complex. This has important management implications since presently, only 28.7% of this reef complex (mostly shallow areas) are within the existing limits of the marine park’s core zone. Considering the newly recognized importance of MCE, we propose expanding and reshaping the core zone to include the entire reef complex which mostly encompasses MCE with high structural complexity. Our study illustrates the value of semi-portable MBES for marine planning in developing countries and remote poorly studied areas.
Booster Effect of a Natural Extract of Polypodium leucotomos (Fernblock®) That Improves the UV Barrier Function and Immune Protection Capability of Sunscreen Formulations
Authors: Aguilera Jose , Vicente-Manzanares Miguel , de Gálvez María Victoria , Herrera-Ceballos Enrique , Rodríguez-Luna Azahara , González Salvador
Published: June 2021

Background: Novel approaches to photoprotection must go beyond classical MED measurements, as discoveries on the effect of UV radiation on skin paints a more complex and multi-pronged scenario with multitude of skin cell types involved. Of these, photoimmunoprotection emerges as a crucial factor that protects against skin cancer and photoaging. A novel immune parameter is enabled by the precise knowledge of the wavelength and dose of solar radiation that induces photoimmunosupression. Natural substances, that can play different roles in photoprotection as antioxidant, immune regulation, and DNA protection as well as its possible ability as sunscreen are the new goals in cosmetic industry.

Objective: To analyze the effect of a specific natural extract from Polypodium leucotomos (PLE, Fernblock®), as part of topical sunscreen formulations to protect from photoimmunosuppression, as well as other deleterious biological effects of UV radiation.

Methods: The possible sunscreen effect of PLE was analyzed by including 1% (w/w) PLE in four different galenic formulations containing different combinations of UVB and UVA organic and mineral filters. In vitro sun protection factor (SPF), UVA protection factor (UVA-PF), contact hypersensitivity factor (CHS), and human immunoprotection factor (HIF) were estimated following the same protocol as ISO 24443:2012 for in vitro UVA-PF determination.

Results: PLE-containing formulations significantly reduced UV radiation reaching to skin. Combination of UVB and UVA filters with PLE increased SPF and UVAPF significantly. PLE also increased UV immune protection, by elevating the contact hypersensitivity factor and the human immunoprotective factor of the sunscreen formulations.

Conclusion: This study confirms the double role of PLE in photoprotection. Together to the biological activity shown in previous works, the UV absorption properties of PLE confers a booster effect when it is supplemented in topical sunscreens increasing the protection not only at level of erythema and permanent pigment darkening but also against two photoimmunoprotection factors.
Association Between Atopic Keratoconjunctivitis and the Risk of Recurrent Corneal Erosion
Authors: Jan Ren-Long , Weng Shih-Feng , Wang Jhi-Joung , Tseng Sung-Huei , Chang Yuh-Shin
Published: June 2021

Purpose: To investigate the risk of recurrent corneal erosion (RCE) in patients with atopic keratoconjunctivitis (AKC).

Methods: This national, retrospective, matched cohort study enrolled 184,166 newly-diagnosed AKC patients, selected from the Taiwan National Health Insurance Research Database and identified by the International Classification of Diseases, Ninth Revision, Clinical Modification (ICD-9-CM) code 372.05. The control group comprised 184,166 non-AKC patients matched by age, sex, and potential comorbidities and they were selected from the Taiwan Longitudinal Health Insurance Database, 2000. Information from patients was gathered from 1 January 2004 to 31 December 2011, and both groups were traced from the index date until December 2013. The incidence and risk of RCE (ICD-9-CM code 361.42) was compared between the groups. The adjusted hazard ratio (HR) for RCE was obtained by a Cox proportional hazard regression analysis. The Kaplan–Meier analysis was performed to calculate the cumulative incidence of RCE.

Results: In total, 564 AKC patients and 406 non-AKC controls developed RCE during the follow-up span. The incidence of RCE was 1.45 times higher in AKC patients than in controls (95% confidence interval [CI] = 1.27–1.64; P < 0.0001). After adjusting for potential confounders, including diabetes mellitus, keratoconjunctivitis sicca, corneal transplantation, ocular blunt trauma, corneal dystrophy, and band keratopathy, AKC patients were 1.36 times more likely to develop RCE than controls (adjusted HR, 1.36; 95% CI = 1.19–1.54; p < 0.05).

Conclusions: AKC Patients had an increased risk of developing RCE and should be informed of this risk.
Estimating the Time Since Deposition of Saliva Stains With a Targeted Bacterial DNA Approach: A Proof-of-Principle Study
Authors: Díez López Celia , Kayser Manfred , Vidaki Athina
Published: June 2021

Information on the time when a stain was deposited at a crime scene can be valuable in forensic investigations. It can link a DNA-identified stain donor with a crime or provide a post-mortem interval estimation in cases with cadavers. The available methods for estimating stain deposition time have limitations of different types and magnitudes. In this proof-of-principle study we investigated for the first time the use of microbial DNA for this purpose in human saliva stains. First, we identified the most abundant and frequent bacterial species in saliva using publicly available 16S rRNA gene next generation sequencing (NGS) data from 1,848 samples. Next, we assessed time-dependent changes in 15 identified species using de-novo 16S rRNA gene NGS in the saliva stains of two individuals exposed to indoor conditions for up to 1 year. We selected four bacterial species, i.e., Fusobacterium periodonticum, Haemophilus parainfluenzae, Veillonella dispar, and Veillonella parvula showing significant time-dependent changes and developed a 4-plex qPCR assay for their targeted analysis. Then, we analyzed the saliva stains of 15 individuals exposed to indoor conditions for up to 1 month. Bacterial counts generally increased with time and explained 54.9% of the variation (p = <2.2E–16). Time since deposition explained ≥86.5% and ≥88.9% of the variation in each individual and species, respectively (p = <2.2E–16). Finally, based on sample duplicates we built and tested multiple linear regression models for predicting the stain deposition time at an individual level, resulting in an average mean absolute error (MAE) of 5 days (ranging 3.3–7.8 days). Overall, the deposition time of 181 (81.5%) stains was correctly predicted within 1 week. Prediction models were also assessed in stains exposed to similar conditions up to 1 month 7 months later, resulting in an average MAE of 8.8 days (ranging 3.9–16.9 days). Our proof-of-principle study suggests the potential of the DNA profiling of human commensal bacteria as a method of estimating saliva stains time since deposition in the forensic scenario, which may be expanded to other forensically relevant tissues. The study considers practical applications of this novel approach, but various forensic developmental validation and implementation criteria will need to be met in more dedicated studies in the future.
Unraveling the Novel Effect of Patchouli Alcohol Against the Antibiotic Resistance of Helicobacter pylori
Authors: Zhong Yuanzun , Tang Liyao , Deng Qiuhua , Jing Li , Zhang Jiao , Zhang Yao , Yu Feng , Ou Yijun , Guo Shaoju , Huang Bin , Cao Hongying , Huang Ping , Xu Yifei
Published: June 2021

The long-term colonization of Helicobacter pylori can cause various gastrointestinal diseases, and its high genetic variability is prone to antibiotic resistance and leads to failure of clinical treatment. Intracellular survival also contributes to the drug tolerance of H. pylori. Patchouli alcohol (PA) shows a highly efficient activity against H. pylori in vitro and in vivo. And this study aims to explore whether PA can reduce the resistance of H. pylori and determine the underlying mechanism. Checkerboard and time–kill bactericidal curve assay reveal that the combination of PA and clarithromycin (CLR) promoted the inhibition and bactericidal effect against H. pylori. Stimulation of CLR leads to the internalization of H. pylori, but PA can effectively inhibit the invasion induced by CLR. Compared with antibiotics, PA remarkably eradicated the intracellular H. pylori, and this intracellular sterilized ability was further improved in combination with antibiotics (CLR and metronidazole). The expression of H. pylori efflux pump genes (hp0605, hp1327, and hp1489) was dose-dependently downregulated by PA. Digital droplet PCR indicated that the H. pylori mutant of A2143G can be inhibited by PA. Cellular uptake and transport assays showed that PA is rapidly absorbed, which promotes its activity against intracellular bacteria. Therefore, PA can act synergistically with CLR as a candidate treatment against drug-resistant H. pylori.
Non-natural Aldol Reactions Enable the Design and Construction of Novel One-Carbon Assimilation Pathways in vitro
Authors: Mao Yufeng , Yuan Qianqian , Yang Xue , Liu Pi , Cheng Ying , Luo Jiahao , Liu Huanhuan , Yao Yonghong , Sun Hongbing , Cai Tao , Ma Hongwu
Published: June 2021

Methylotrophs utilizes cheap, abundant one-carbon compounds, offering a promising green, sustainable and economical alternative to current sugar-based biomanufacturing. However, natural one-carbon assimilation pathways come with many disadvantages, such as complicated reaction steps, the need for additional energy and/or reducing power, or loss of CO2, resulting in unsatisfactory biomanufacturing performance. Here, we predicted eight simple, novel and carbon-conserving formaldehyde (FALD) assimilation pathways based on the extended metabolic network with non-natural aldol reactions using the comb-flux balance analysis (FBA) algorithm. Three of these pathways were found to be independent of energy/reducing equivalents, and thus chosen for further experimental verification. Then, two novel aldol reactions, condensing D-erythrose 4-phosphate and glycolaldehyde (GALD) into 2R,3R-stereo allose 6-phosphate by DeoC or 2S,3R-stereo altrose 6-phosphate by TalBF178Y/Fsa, were identified for the first time. Finally, a novel FALD assimilation pathway proceeding via allose 6-phosphate, named as the glycolaldehyde-allose 6-phosphate assimilation (GAPA) pathway, was constructed in vitro with a high carbon yield of 94%. This work provides an elegant paradigm for systematic design of one-carbon assimilation pathways based on artificial aldolase (ALS) reactions, which could also be feasibly adapted for the mining of other metabolic pathways.
Bacterial Protein Homeostasis Disruption as a Therapeutic Intervention
Authors: Khodaparast Laleh , Wu Guiqin , Khodaparast Ladan , Schmidt Béla Z. , Rousseau Frederic , Schymkowitz Joost
Published: June 2021

Cells have evolved a complex molecular network, collectively called the protein homeostasis (proteostasis) network, to produce and maintain proteins in the appropriate conformation, concentration and subcellular localization. Loss of proteostasis leads to a reduction in cell viability, which occurs to some degree during healthy ageing, but is also the root cause of a group of diverse human pathologies. The accumulation of proteins in aberrant conformations and their aggregation into specific beta-rich assemblies are particularly detrimental to cell viability and challenging to the protein homeostasis network. This is especially true for bacteria; it can be argued that the need to adapt to their changing environments and their high protein turnover rates render bacteria particularly vulnerable to the disruption of protein homeostasis in general, as well as protein misfolding and aggregation. Targeting bacterial proteostasis could therefore be an attractive strategy for the development of novel antibacterial therapeutics. This review highlights advances with an antibacterial strategy that is based on deliberately inducing aggregation of target proteins in bacterial cells aiming to induce a lethal collapse of protein homeostasis. The approach exploits the intrinsic aggregation propensity of regions residing in the hydrophobic core regions of the polypeptide sequence of proteins, which are genetically conserved because of their essential role in protein folding and stability. Moreover, the molecules were designed to target multiple proteins, to slow down the build-up of resistance. Although more research is required, results thus far allow the hope that this strategy may one day contribute to the arsenal to combat multidrug-resistant bacterial infections.
Bereitschaftspotential in Multiple System Atrophy
Authors: Yang Yi-Chien , Chang Fang-Tzu , Chen Jui-Cheng , Tsai Chon-Haw , Lin Fu-Yu , Lu Ming-Kuei
Published: June 2021

Objective: Multiple system atrophy (MSA) is a neurodegenerative disorder manifesting as parkinsonism, cerebellar ataxia, and autonomic dysfunction. It is categorized into MSA with predominant parkinsonism (MSA-P) and into MSA with predominant cerebellar ataxia (MSA-C). The pathophysiology of motor control circuitry involvement in MSA subtype is unclear. Bereitschaftspotential (BP) is a feasible clinical tool to measure electroencephalographic activity prior to volitional motions. We recorded BP in patients with MSA-P and MSA-C to investigate their motor cortical preparation and activation for volitional movement.

Methods: We included eight patients with MSA-P, eight patients with MSA-C, and eight age-matched healthy controls. BP was recorded during self-paced rapid wrist extension movements. The electroencephalographic epochs were time-locked to the electromyography onset of the voluntary wrist movements. The three groups were compared with respect to the mean amplitudes of early (1,500–500 ms before movement onset) and late (500–0 ms before movement onset) BP.

Results: Mean early BP amplitude was non-significantly different between the three groups. Mean late BP amplitude in the two patient groups was significantly reduced in the parietal area contralateral to the movement side compared with that in the healthy control group. In addition, the late BP of the MSA-C group but not the MSA-P group was significantly reduced at the central parietal area compared with that of the healthy control group.

Conclusions: Our findings suggest that patients with MSA exhibit motor cortical dysfunction in voluntary movement preparation and activation. The dysfunction can be practicably evaluated using late BP, which represents the cerebello-dentato-thalamo-cortical pathway.
Visual Field Test With Gaze Check Tasks: Application in a Homonymous Hemianopic Patient Unaware of the Visual Defects
Authors: Shibuki Katsuei , Yokota Tsuyoshi , Hirasawa Akane , Tamura Daisuke , Hasegawa Shin , Nakajima Takashi
Published: June 2021

Gaze control is required for applying visual stimuli to a particular area of the visual field. We developed a visual field test with gaze check tasks to investigate hemianopia. In this test, participants must report the presence or absence of visual stimuli when a small object at the fixation point vibrates. Trials in the absence of visual stimuli were used as gaze check tasks, since the vibration could be observed only when the gaze was directed at the fixation point. We evaluated the efficacy of our test in four control participants and one patient with homonymous hemianopia who was unaware of the defects in the left visual field. This patient presented hemianopia in the test with gaze check tasks, but not when the gaze check tasks were omitted. The patient showed spontaneous gaze movements from the fixation point to the upper left direction, as well as scanning of the left visual field during the test without gaze check tasks. Thus, we concluded that the visual defects in this patient were compensated in daily life by spontaneous eye movements coordinated with visual information processing. The present results show the usefulness of the visual field test with gaze check tasks.
Brainstem Involvement in Amyotrophic Lateral Sclerosis: A Combined Structural and Diffusion Tensor MRI Analysis
Authors: Li Haining , Zhang Qiuli , Duan Qianqian , Jin Jiaoting , Hu Fangfang , Dang Jingxia , Zhang Ming
Published: June 2021

Introduction

The brainstem is an important component in the pathology of amyotrophic lateral sclerosis (ALS). Although neuroimaging studies have shown multiple structural changes in ALS patients, few studies have investigated structural alterations in the brainstem. Herein, we compared the brainstem structure between patients with ALS and healthy controls.

Methods

A total of 33 patients with ALS and 33 healthy controls were recruited in this study. T1-weighted and diffusion tensor imaging (DTI) were acquired on a 3 Tesla magnetic resonance imaging (3T MRI) scanner. Volumetric and vertex-wised approaches were implemented to assess the differences in the brainstem’s morphological features between the two groups. An atlas-based region of interest (ROI) analysis was performed to compare the white matter integrity of the brainstem between the two groups. Additionally, a correlation analysis was used to evaluate the relationship between ALS clinical characteristics and structural features.

Results

Volumetric analyses showed no significant difference in the subregion volume of the brainstem between ALS patients and healthy controls. In the shape analyses, ALS patients had a local abnormal surface contraction in the ventral medulla oblongata and ventral pons. Compared with healthy controls, ALS patients showed significantly lower fractional anisotropy (FA) in the left corticospinal tract (CST) and bilateral frontopontine tracts (FPT) at the brainstem level, and higher radial diffusivity (RD) in bilateral CST and left FPT at the brainstem level by ROI analysis in DTI. Correlation analysis showed that disease severity was positively associated with FA in left CST and left FPT.

Conclusion

These findings suggest that the brainstem in ALS suffers atrophy, and degenerative processes in the brainstem may reflect disease severity in ALS. These findings may be helpful for further understanding of potential neural mechanisms in ALS.
Comparison of Clinical Efficacy of Alectinib Versus Crizotinib in ALK-Positive Non-Small Cell Lung Cancer: A Meta-Analysis
Authors: Tang Hao , Jin Longyu , Zhang Zhang , Jiang Zhibin , Malik Zeeshan
Published: June 2021

Objective

To systematically evaluate the efficacy and safety of alectinib versus crizotinib in the treatment of anaplastic lymphoma kinase (ALK) positive non-small-cell lung cancer.

Methods

Studies about the efficacy of alectinib versus crizotinib in the treatment of ALK-positive non-small cell lung cancer were searched in PubMed, Scopus, Embase and the Cocharane Library from inception to February 15, 2020. Two reviewers independently screened these studies, extracted the data, assessed the risk of bias in the included studies by using the Cochrane risk assessment tool, and then used review manager 5.3 software for meta-analysis.

Results

Three studies comprising a total of 697 patients with ALK-positive non-small cell lung cancer were included, 380 in the alectinib group and 317 in the crizotinib group. The dose of alectinib (300 mg) in J-ALEX were lower than the approved dose (600 mg), however the crizotinib group in all three studies received the recommended dose (250 mg). Performance bias was high in all three studies whereas, and the attrition bias was high in two studies (Toyoaki Hida 2017 and Solange peters 2017). The results of meta-analysis showed that: the overall response rate [OR = 2.07, 95% CI (1.41, 3.06), P = 0.0002], the progression free survival [HR = 0.34, 95% CI (0.21, 0.55), P <0.0001], the partial response [OR = 1.71, 95% CI (1.19, 2.46), P = 0.003], P = 0.001], in alectinib group were higher than that of crizotinib group. Though the total number of events in complete response and the disease control rate were more in alectinib group than that of crizotinib group, the meta-analysis results shows no significant differences between two drugs in the disease control rate [OR = 2.24, 95% CI (0.56, 8.88), P = 0.25], the complete response [OR = 1.82, 95% CI (0.75, 4.45), P = 0.19]. In addition, the number of events in the stable disease [OR = 0.45, 95% CI (0.28, O.74), P = 0.001], and the adverse events [OR = 0.50, 95% CI (0.23, 0.81), P = <0.0001] in alectinib group were lower than that of crizotinib group.

Conclusion

Alectinib in terms of overall response rate, progression-free survival and partial response is superior to crizotinib in the treatment of ALK-positive non-small cell lung cancer and is well tolerated. Compared with crizotinib, alectinib is more effective than crizotinib and has a lower incidence of total adverse reactions. Meta-analysis results confirm the strong base for alectinib as a first-line treatment for ALK-positive NSCLC.
Discovery of New Potent anti-MERS CoV Fusion Inhibitors
Authors: Kandeel Mahmoud , Yamamoto Mizuki , Park Byoung Kwon , Al-Taher Abdulla , Watanabe Aya , Gohda Jin , Kawaguchi Yasushi , Oh-hashi Kentaro , Kwon Hyung-Joo , Inoue Jun-ichiro
Published: June 2021

Middle East respiratory syndrome coronavirus (MERS-CoV), capable of zoonotic transmission, has been associated with emerging viral pneumonia in humans. In this study, a set of highly potent peptides were designed to prevent MERS-CoV fusion through competition with heptad repeat domain 2 (HR2) at its HR1 binding site. We designed eleven peptides with stronger estimated HR1 binding affinities than the wild-type peptide to prevent viral fusion with the cell membrane. Eight peptides showed strong inhibition of spike-mediated MERS-CoV cell-cell fusion with IC50 values in the nanomolar range (0.25–2.3 µM). Peptides #4–6 inhibited 95–98.3% of MERS-CoV plaque formation. Notably, peptide four showed strong inhibition of MERS-CoV plaques formation with EC50 = 0.302 µM. All peptides demonstrated safe profiles without cytotoxicity up to a concentration of 10 μM, and this cellular safety, combined with their anti-MERS-CoV antiviral activity, indicate all peptides can be regarded as potential promising antiviral agents.
Urban Design and the Role of Placemaking in Mainstreaming Nature-Based Solutions. Learning From the Biblioteca Degli Alberi Case Study in Milan
Authors: Boros Judit , Mahmoud Israa
Published: June 2021

Nature-based solutions' (NBS) relevance for tackling environmental challenges has been on the frontiers of urban regeneration mechanisms since the beginning of the 2010s. There is an increasing interest in applying NBS in urban planning and design to build support and engagement for sustainable urban development. However, NBS's operational use as deliberate design interventions is not widely reflected in the scientific discourse, more evidence is needed on how functional and viable aspects of urban nature can be conceptualized in urban design. This calls to explore the ways urban design can advance their understanding as part of place-specific, designed urban spaces. Through an ex-post analysis, the authors examined the design and implementation process of an exemplary NBS project, the Biblioteca degli Alberi park in Milan, part of one of the largest, recent urban regeneration projects in Europe. In a synthetic analysis, design drivers, enablers, and deficiencies are discussed, which affect the park's performance both from human-centered and nature-based perspectives. The park's case demonstrates design actions and considerations affecting all stages of the life-cycle of an NBS, from the creative design phase to the development, use, and management phases, and how urban design can create conditions for amplifying the multifunctional potential of urban ecosystems. The results highlight the importance of integrating an urban ecology perspective in the entirety of the design process when implementing NBS, consequently for a successful re-scoping of urban design and planning practices to infuse human-centeredness with “nature-basedness.”
Evidence Against the Causal Relationship Between a Putative Cis-Regulatory Variant of MYH3 and Intramuscular Fat Content in Pigs
Authors: Huang Cong , Zhong Liepeng , Zou Xiaoxiao , Huang Yizhong , Cai Liping , Ma Junwu
Published: June 2021

Improving meat quality has become the main goal of modern pig breeding. Intramuscular fat content (IMF) is an important trait influencing meat quality of livestock, but the molecular mechanism behind this trait is still unclear. Recently, Cho et al. reported the discovery of the first causal mutation affecting IMF and red flesh color (a*) in pigs, namely XM_013981330.2:g.−1805_−1810del, a 6-bp deletion variant in the porcine MYH3 promoter region. The objective of this study was to reassess the causality of this mutation for its potential commercial application. By Sanger sequencing, we firstly identified several new variants (including a 4-bp deletion) at or near the 6-bp deletion site, which formed four haplotypes in multiple breeds. Unexpectedly, the 6-bp deletion allele, previously determined as the MYH3 Q allele because of its significantly positive effect on IMF and a*, was found not only in Chinese indigenous breeds, but also in four western commercial breeds with relatively lower IMF levels, including Duroc, Large White, Landrace and Pietrain. More surprisingly, we found that the MYH3 Q allele and the haplotypes harboring it had no significant effects on IMF, marbling and color score in three large-scale divergent pig populations: the heterogeneous F6 and F7 pigs and commercial crossbred Duroc × (Landrace × Yorkshire) pigs. Transient transfection analysis in porcine satellite cells showed that the 6-bp deletion variants had a negligible effect on transcription of reporter gene, but could attenuate the MRF (myogenesis regulatory factors)-induced increase in luciferase activity of the MYH3 promoter vector. The MYH3 protein level in muscle did not differ significantly among the haplotype groups. Therefore, our results cannot support the causal relationship between the 6-bp deletion in MYH3 and IMF trait, suggesting that the causal mutation for the IMF QTL on SSC12 needs to be further identified.
Exploring Suitable Biochar Application Rates with Compost to Improve Upland Field Environment
Authors: Kang Se-Won , Yun Jin-Ju , Park Jae-Hyuk , Cho Ju-Sik
Published: June 2021

A field experiment was carried out to investigate crop productivity, emissions of carbon dioxide (CO2) and nitrous oxide (N2O), and soil quality of an upland field treated with compost and varying rates of biochar (BC) derived from soybean stalks during crop growing periods in a corn and Chinese cabbage rotation system. Compost was supplemented with BC derived from soybean stalks at varying rates of 5, 10, 15, and 20 t ha−1 (BC5, BC10, BC15, and BC20, respectively); the control (BC0) area was untreated. Our results reveal that crop productivity and emissions of CO2 and N2O varied significantly with the biochar application rate. Moreover, irrespective of the biochar application rate, crop productivity was improved after BC application as compared to the control treatment area, by 11.2–29.3% (average 17.0 ± 8.3%) for corn cultivation and 10.3–39.7% (average 27.8 ± 12.7%) for Chinese cabbage cultivation. Peak emissions of CO2 and N2O were mainly observed in the early period of crop cultivation, whereas low CO2 and N2O emissions were determined during the fallow period. Compared to the control area, significant differences were obtained for CO2 emissions produced by the different biochar application rates for both crops. During the two cropping periods, the overall N2O emission was significantly decreased with BC5, BC10, BC15, and BC20 applications as compared to the control, ranging from 11.1 to 13.6%, 8.7 to 15.4%, 23.1 to 26.0%, and 15.0 to 19.6%, respectively (average 16.9% decrease in the corn crop period and 16.3% in the Chinese cabbage crop period). Soil quality results after the final crop harvest show that bulk density, soil organic carbon (SOC), pH, and cation exchange capacity (CEC) were significantly improved by biochar application, as compared to the control. Taken together, our results indicate that compost application supplemented with biochar is potentially an appropriate strategy for achieving high crop productivity and improving soil quality in upland field conditions. In conclusion, appropriate application of biochar with compost has the concomitant advantages of enriching soil quality for long-term sustainable agriculture and reducing the use of inorganic fertilizers.
Potassium and Elemental Sulfur as Factors Determining Nitrogen Management Indices of Soil and Faba Bean (Vicia faba L.)
Authors: Barłóg Przemysław , Łukowiak Remigiusz
Published: June 2021

Faba bean plays a significant role in nitrogen (N) cycling as they fix atmospheric N2 through biological symbiosis (SNF). It has been assumed that soil potential to supply plants with potassium (K) and sulfur (S) is crucial for plant and soil N management indices. The experimental factors were as follows: variable soil K availability content and fertilization (K1, K2, K3, and K4); and elemental S application (0, 25, and 50 kg S ha−1). K treatments had a positive impact on N accumulation in crop residues and SNF. The application of S increased the amount of N in grain and SNF. The most beneficial influence of S on these indices was registered on K-poor soil. The total N increase in soil (NgainT) was relatively constant across the years and ranged between 106 and 124 kg N ha−1. This parameter depended however, on the K and S treatments. The highest NgainT increase (52–54 kg N ha−1) was obtained in soil of a medium K content (K2, K3), and simultaneously fertilized with S. The results indicated that balanced fertilization with K and S guarantees not only a high grain yield but also improved soil potential to supply N to successive plants.
Photo Stimulation of Seminal Doses with Red LED Light from Duroc Boars and Resultant Fertility in Iberian Sows
Authors: Crespo Sara , Martínez Mateo , Gadea Joaquín
Published: June 2021

In pigs, it has been reported that increased farrowing rates and litter size have been induced by photostimulating the seminal doses for artificial insemination with red LED light. As the reproductive characteristics, production system, and outcome parameters of Iberian breed pigs are different from other commercial breeds, the aim of this study was to evaluate the possible effect of illuminating seminal doses from Duroc boars with red LED light and the fertility outcomes of Iberian females. Semen samples were obtained from 38 fertile Duroc boars. Photostimulation of the artificial insemination (AI) seminal doses was carried out by illuminating the samples with a red LED for 10 min, followed by 10 min of darkness, and finally 10 additional minutes of red light. The fertility study was conducted on two commercial farms using multiparous Iberian sows (farm A, n = 824; farm B, n = 2131), that were randomly assigned to LED (L) or control (C) groups. No differences were found between L and C groups in both farms (p > 0.05) for parity, pregnancy rate, duration of pregnancy, farrowing rate, and litter size (total, alive, and stillborn piglets). Farrowing rates in farm A were 88.8% (n = 383) for control and 89.6% (n = 441, p = 0.67) for the LED group. In farm B, farrowing rates were C:90.5% (n = 1030) and L: 90.1% (n = 1101, p = 0.48). In farm A, total born piglets were 8.69 ± 0.11 for C and 8.71 ± 0.11 for L (p = 0.87). In farm B, the results were 8.72 ± 0.7 for C and 8.70 ± 0.06 (p = 0.82) for L. Under the production conditions for the Iberian breed, the photostimulation with red LED light using Duroc pig seminal doses was not effective in improving the fertility of Iberian sows.
Immune Response to SARS-CoV-2 in an Asymptomatic Pediatric Allergic Cohort
Authors: Marsteller Nathan L. , Fregoso Diana J. , Morphew Tricia L. , Randhawa Inderpal S.
Published: June 2021

Disease-specific COVID-19 pediatric comorbidity has not been studied effectively to date. Atopy and food anaphylaxis disease states require improved characterization of SARS-CoV-2 infection risk. To provide the first such characterization, we assessed serum samples of a highly atopic, food anaphylactic, asymptomatic pediatric cohort from across the US during the height of the pandemic. From our biobank, 172 pediatric patient serum samples were characterized specific to atopic, food anaphylactic, and immunologic markers in the US at the beginning of the pandemic, from 1 February to 20 April 2020. Clinical and demographic data were further analyzed in addition to sample analysis for SARS-CoV-2 IgM and IgG ELISA. SARS-CoV-2 antibody results were positive in six patients (4%). Nearly half of the pediatric patients had a history of asthma (49%). Total IgE, total IgG, and IgG1-3 were similar in those positive and negative to SARS-CoV-2. Median total IgG4 in the SARS-CoV-2 positive group was nearly three times (p-value = 0.02) that of the negative group. Atopy controller medications did not confer additional benefit. Our data suggest that food anaphylaxis and highly atopic children are not at increased risk for SARS-CoV-2 seropositivity. This specific population appears either at equal or potentially less risk than the general population. Total and specific IgG4 may be a novel predictor of SARS-CoV-2 infection risk specific to the allergic pediatric population.
Genetic and Pre- and Postharvest Factors Influencing the Content of Antioxidants in Cucurbit Crops
Authors: Martínez Cecilia , Valenzuela Juan Luis , Jamilena Manuel
Published: June 2021

Cucurbitaceae is one of the most economically important plant families, and includes some worldwide cultivated species like cucumber, melons, and squashes, and some regionally cultivated and feral species that contribute to the human diet. For centuries, cucurbits have been appreciated because of their nutritional value and, in traditional medicine, because of their ability to alleviate certain ailments. Several studies have demonstrated the remarkable contents of valuable compounds in cucurbits, including antioxidants such as polyphenols, flavonoids, and carotenoids, but also tannins and terpenoids, which are abundant. This antioxidant power is beneficial for human health, but also in facing plant diseases and abiotic stresses. This review brings together data on the antioxidant properties of cucurbit species, addressing the genetic and pre- and postharvest factors that regulate the antioxidant content in different plant organs. Environmental conditions, management, storage, and pre- and postharvest treatments influencing the biosynthesis and activity of antioxidants, together with the biodiversity of this family, are determinant in improving the antioxidant potential of this group of species. Plant breeding, as well as the development of innovative biotechnological approaches, is also leading to new possibilities for exploiting cucurbits as functional products.
Urinary Spermidine Predicts and Associates with In-Hospital Acute Kidney Injury after Cardiac Surgery
Authors: Martin-Lorenzo Marta , Ramos-Barron Angeles , Gutierrez-Garcia Paula , Martin-Blazquez Ariadna , Santiago-Hernandez Aranzazu , Rodrigo Calabia Emilio , Gomez-Alamillo Carlos , Alvarez-Llamas Gloria
Published: June 2021

Acute Kidney Injury (AKI) affects up to 30% of the patients who undergo cardiac surgery (CVS) and is related to higher mortality. We aim to investigate molecular features associated with in-hospital AKI development and determine the predictive value of these features when analyzed preoperatively. This is a case-control study. From an initial cohort of 110 recruited subjects, a total of 60 patients undergoing cardiac surgery were included: 20 (33%) developed in-hospital AKI (CVS-AKI) and 40 did not (controls, CVS-C). Pre- and post-surgery samples were collected and a prospective study was carried out. A total of 312 serum samples and 258 urine samples were analyzed by nuclear magnetic resonance, mass spectrometry and ELISA. Six features predicted AKI development in pre-surgery samples: urinary kidney functional loss marker kidney injury molecule-1 (uKIM-1), 2-hydroxybutyric acid, 2-hydroxyphenylacetic acid, hippuric acid, phosphoethanolamine and spermidine. Two of them stood out as powerful predictors. Pre-surgery uKIM-1 levels were increased in CVS-AKI vs. CVS-C (AUC = 0.721, p-value = 0.0392) and associated strongly with the outcome (OR = 5.333, p-value = 0.0264). Spermidine showed higher concentration in CVS-AKI (p-value < 0.0001, AUC = 0.970) and had a strong association with the outcome (OR = 69.75, p-value < 0.0001). uKIM-1 and particularly spermidine predict in-hospital AKI associated with CVS in preoperative samples. These findings may aid in preventing postoperative AKI and improve prognosis of CVS.
Sanghuangporus sanghuang Mycelium Prevents Paracetamol-Induced Hepatotoxicity through Regulating the MAPK/NF-κB, Keap1/Nrf2/HO-1, TLR4/PI3K/Akt, and CaMKKβ/LKB1/AMPK Pathways and Suppressing Oxidative Stress and Inflammation
Authors: Jiang Wen-Ping , Deng Jeng-Shyan , Huang Shyh-Shyun , Wu Sheng-Hua , Chen Chin-Chu , Liao Jung-Chun , Chen Hung-Yi , Lin Hui-Yi , Huang Guan-Jhong
Published: June 2021

Liver damage induced by paracetamol overdose is the main cause of acute liver failure worldwide. In order to study the hepatoprotective effect of Sanghuangporus sanghuang mycelium (SS) on paracetamol-induced liver injury, SS was administered orally every day for 6 days in mice before paracetamol treatment. SS decreased serum aminotransferase activities and the lipid profiles, protecting against paracetamol hepatotoxicity in mice. Furthermore, SS inhibited the lipid peroxidation marker malondialdehyde (MDA), hepatic cytochrome P450 2E1 (CYP2E1), and the histopathological changes in the liver and decreased inflammatory activity by inhibiting the production of proinflammatory cytokines in paracetamol-induced acute liver failure. Moreover, SS improved the levels of glutathione (GSH), superoxide dismutase (SOD), glutathione peroxidase (GPx), and catalase in the liver. Significantly, SS diminished mitogen-activated protein kinase (MAPK), Toll-like receptor 4 (TLR4), phosphatidylinositol 3-kinase (PI3K)/protein kinase B (Akt), and the nuclear factor-kappa B (NF-κB) axis, as well as upregulated the Kelch-like ECH-associated protein 1 (Keap1)/erythroid 2-related factor 2 (Nrf2)/heme oxygenase-1 (HO-1) pathway, in paracetamol-induced mice. SS mainly inhibited the phosphorylation of the liver kinase B1 (LKB1), Ca2+/calmodulin-dependent kinase kinase β (CaMKKβ), and AMP-activated protein kinase (AMPK) protein expression. Furthermore, the protective effects of SS on paracetamol-induced hepatotoxicity were abolished by compound C, an AMPK inhibitor. In summary, we provide novel molecular evidence that SS protects liver cells from paracetamol-induced hepatotoxicity by inhibiting oxidative stress and inflammation.
Limitations of Structural Insight into Ultrafast Melting of Solid Materials with X-ray Diffraction Imaging
Authors: Tkachenko Victor , Abdullah Malik M. , Jurek Zoltan , Medvedev Nikita , Lipp Vladimir , Makita Mikako , Ziaja Beata
Published: June 2021

In this work, we analyze the application of X-ray diffraction imaging techniques to follow ultrafast structural transitions in solid materials using the example of an X-ray pump–X-ray probe experiment with a single-crystal silicon performed at a Linac Coherent Light Source. Due to the spatially non-uniform profile of the X-ray beam, the diffractive signal recorded in this experiment included contributions from crystal parts experiencing different fluences from the peak fluence down to zero. With our theoretical model, we could identify specific processes contributing to the silicon melting in those crystal regions, i.e., the non-thermal and thermal melting whose occurrences depended on the locally absorbed X-ray doses. We then constructed the total volume-integrated signal by summing up the coherent signal contributions (amplitudes) from the various crystal regions and found that this significantly differed from the signals obtained for a few selected uniform fluence values, including the peak fluence. This shows that the diffraction imaging signal obtained for a structurally damaged material after an impact of a non-uniform X-ray pump pulse cannot be always interpreted as the material’s response to a pulse of a specific (e.g., peak) fluence as it is sometimes believed. This observation has to be taken into account in planning and interpreting future experiments investigating structural changes in materials with X-ray diffraction imaging.
CYRA: A Model-Driven CYber Range Assurance Platform
Authors: Smyrlis Michail , Somarakis Iason , Spanoudakis George , Hatzivasilis George , Ioannidis Sotiris
Published: June 2021

Digital technologies are facilitating our daily activities, and thus leading to the social transformation with the upcoming 5G communications and the Internet of Things. However, mainstream and sophisticated attacks are remaining a threat, both for individuals and organisations. Cyber Range emerges as a promising solution to effectively train people in cybersecurity aspects. A Training Programme is considered adequate only if it can adapt to the scope of the attacks they cover and if the trainees apply the learning material to the operational system. Therefore, this study introduces the model-driven CYber Range Assurance platform (CYRA). The solution allows a trainee to be trained for known and new cyber-attacks by adapting to the continuously evolving threat landscape and examines if the trainees transfer the acquired knowledge to the working environment. Furthermore, this paper presents a use case on an operational backend ICT system, showing how the CYRA platform was utilised to increase the security posture of the organisation.
Study on the Performance of Optical Lenses under High Fluxes of Solar Radiation
Authors: Rosa Luís Guerra , Pereira José Carlos Garcia , Rahmani Kaveh , Almeida Guilherme De , Santos Luís F.
Published: June 2021

This work compares the performance of optical lenses made of silica glass or borosilicate glass (BK-7) when submitted to high-flux radiation emitted by a xenon arc lamp or provided by a high-concentration solar tower. Each irradiation test lasted for 60 min, with continuous monitoring of the radiation-flux incident on the lenses and the temperature generated in their vicinity. All silica glass lenses showed a good performance with both irradiation sources, xenon arc lamp and natural solar radiation, contrary to what was observed with the lenses made of borosilicate glass which fractured when irradiated with a xenon arc lamp. The negative behavior observed with the borosilicate lenses is attributed to the fact that the radiation spectrum of a xenon arc lamp contains certain wavelengths, in the near ultraviolet (UV) region, that are not present in the natural solar radiation spectrum at sea level.
Development of a Drone’s Vibration, Shock, and Atmospheric Profiles
Authors: Ge Changfeng , Dunno Kyle , Singh Mukul Anand , Yuan Long , Lu Li-Xin
Published: June 2021

Technological advances in unmanned aerial vehicles (UAVs) have made it possible to employ drone deliveries for packaged products, but currently no standards of practice are available to qualify packaged products traveling through this distribution channel. This research proposes a methodology to collect field data from a UAV to develop simulation techniques for use with package testing equipment. This project utilized data recorders to measure the vibration, shock, and atmospheric field data on two models of the DJI drones. The root mean square G value (Grms), the power spectral density (PSD), maximum G-values and shock response spectrum, and atmospheric data were reported in this study. The study found that the general shape of the PSD profile of the drones differed from the PSD air profiles of the aircraft. The overall recorded Grms levels of the drones were also significantly higher than those of the published air profile of the aircraft. Moreover, the study found that the drone’s in-flight vibration intensities in the horizontal level were consistently higher than those in the vertical direction. The major sources of vibration and shock in both drones’ models originated from the two-propeller rotations. Shocks recorded during the flight reached 14 G, took place in the horizontal plane with the drone accelerating as opposed to the vertical plane where the drone is landing.
Hybridization of Intelligent Solutions Architecture for Text Understanding and Text Generation
Authors: Ivaschenko Anton , Krivosheev Arkadiy , Stolbova Anastasia , Golovnin Oleg
Published: June 2021

This study proposes a new logical model for intelligent software architecture devoted to improving the efficiency of automated text understanding and text generation in industrial applications. The presented approach introduces a few patterns that provide a possibility to build adaptable and extensible solutions using machine learning technologies. The main idea is formalized by the concept of expounder hybridization. It summarizes an experience of document analysis and generation solutions development and social media analysis based on artificial neural networks’ practical use. The results of solving the task by the best expounder were improved using the method of aggregating multiple expounders. The quality of expounders’ combination can be further improved by introducing the pro-active competition between them on the basis of, e.g., auctioning algorithm, using several parameters including precision, solution performance and score. Analysis of the proposed approach was carried out using a dataset of legal documents including joint-stock company decision record sheets and protocols. The solution is implemented in an enterprise content management system and illustrated by an example of processing of legal documentation.