bluuebunny/crossref_metadata_2025 huggingface dataset:
Anharmonic Molecular Motion Drives Resonance Energy Transfer in peri-Arylene Dyads
Authors: Sláma Vladislav , Perlík Václav , Langhals Heinz , Walter Andreas , Mančal Tomáš , Hauer Jürgen , Šanda František
Published: November 2020

Spectral and dynamical properties of molecular donor-acceptor systems strongly depend on the steric arrangement of the constituents with exciton coupling J as a key control parameter. In the present work we study two peri-arylene based dyads with orthogonal and parallel transition dipoles for donor and acceptor moieties, respectively. We show that the anharmonic multi-well character of the orthogonal dyad's intramolecular potential explains findings from both stationary and time-resolved absorption experiments. While for a parallel dyad, standard quantum chemical estimates of J at 0 K are in good agreement with experimental observations, J becomes vanishingly small for the orthogonal dyad, in contrast to its ultrafast experimental transfer times. This discrepancy is not resolved even by accounting for harmonic fluctuations along normal coordinates. We resolve this problem by supplementing quantum chemical approaches with dynamical sampling of fluctuating geometries. In contrast to the moderate Gaussian fluctuations of J for the parallel dyad, fluctuations for the orthogonal dyad are found to follow non-Gaussian statistics leading to significantly higher effective J in good agreement with experimental observations. In effort to apply a unified framework for treating the dynamics of optical coherence and excitonic populations of both dyads, we employ a vibronic approach treating electronic and selected vibrational degrees on an equal footing. This vibronic model is used to model absorption and fluorescence spectra as well as donor-acceptor transport dynamics and covers the more traditional categories of Förster and Redfield transport as limiting cases.
Assembly of Lanthanide-Containing Tungstotellurates(VI): Syntheses, Structures, and Catalytic Properties
Authors: Li Jie , Shang Shuxia , Lin Zhengguo , Yao Zishuo , Zhen Ni , Li Zhen , Chi Yingnan , Hu Changwen
Published: November 2020

Lanthanide (Ln)-containing polyoxometalates (POMs) have attracted particular attention owing to their structural diversity and potential applications in luminescence, magnetism, and catalysis. Herein three types of Ln-containing tungstotellurates(VI) (Ln = Dy3+, Ho3+, Er3+, Tm3+, Yb3+, and Lu3+), dimeric (DMAH)n[H22−n{Ln(H2O)3[TeW17O61]}2]·mH2O (abbreviated as {Ln2Te2W34}; DMAH+ = dimethylammonium), mono-substituted (DMAH)7Na2{H2Ln(H2O)4[TeW17O61]}·mH2O (abbreviated as {LnTeW17}), and three-dimensional (3D) inorganic frameworks (DMAH)n{H3−nLn(H2O)4[TeW6O24]}·mH2O (abbreviated as {LnTeW6}), have been synthesized by using simple metal salts and characterized by single-crystal X-ray diffraction and other routine techniques. Interestingly, the assembly of these POMs is pH dependent. Using the same starting materials, {Ln2Te2W34} were obtained at pH 1.7, where two Dawson-like monovacant [TeW17O61]14− are linked by two Ln3+ ions; mono-substituted Dawson-like {LnTeW17} were isolated at pH 1.9, and 3D inorganic framework {LnTeW6} based on Anderson-type [TeW6O24]6− were formed at pH 2.3. It was also found that the assembly of Ln-containing POMs depends on the type of Ln3+ ions. The three types of POMs can be prepared by using Ln3+ ions with a relatively smaller ionic radius, such as Tb3+-Lu3+, while the use of Ln3+ ions (La3+-Eu3+) results in the formation of precipitation or {TeW18O62} clusters. Furthermore, three {LnTeW6} (Ln = Tb3+, Er3+, Lu3+) were used as Lewis acid catalysts for the cyanosilylation of benzaldehydes, and their catalytic activity decreases with the decrease of Ln3+ ionic radius, giving the order: {TbTeW6} > {ErTeW6} > {LuTeW6}. Notably, {TbTeW6} is stable to leaching and can be reused for five cycles without a significant loss of its activity.
Terminal Respiratory Oxidases: A Targetables Vulnerability of Mycobacterial Bioenergetics?
Authors: Bajeli Sapna , Baid Navin , Kaur Manjot , Pawar Ganesh P. , Chaudhari Vinod D. , Kumar Ashwani
Published: November 2020

Recently, ATP synthase inhibitor Bedaquiline was approved for the treatment of multi-drug resistant tuberculosis emphasizing the importance of oxidative phosphorylation for the survival of mycobacteria. ATP synthesis is primarily dependent on the generation of proton motive force through the electron transport chain in mycobacteria. The mycobacterial electron transport chain utilizes two terminal oxidases for the reduction of oxygen, namely thebc1-aa3supercomplex and the cytochromebdoxidase. Thebc1-aa3supercomplex is an energy-efficient terminal oxidase that pumps out four vectoral protons, besides consuming four scalar protons during the transfer of electrons from menaquinone to molecular oxygen. In the past few years, several inhibitors ofbc1-aa3supercomplex have been developed, out of which, Q203 belonging to the class of imidazopyridine, has moved to clinical trials. Recently, the crystal structure of the mycobacterial cytochromebc1-aa3supercomplex was solved, providing details of the route of transfer of electrons from menaquinone to molecular oxygen. Besides providing insights into the molecular functioning, crystal structure is aiding in the targeted drug development. On the other hand, the second respiratory terminal oxidase of the mycobacterial respiratory chain, cytochromebdoxidase, does not pump out the vectoral protons and is energetically less efficient. However, it can detoxify the reactive oxygen species and facilitate mycobacterial survival during a multitude of stresses. Quinolone derivatives (CK-2-63) and quinone derivative (Aurachin D) inhibit cytochromebdoxidase. Notably, ablation of both the two terminal oxidases simultaneously through genetic methods or pharmacological inhibition leads to the rapid death of the mycobacterial cells. Thus, terminal oxidases have emerged as important drug targets. In this review, we have described the current understanding of the functioning of these two oxidases, their physiological relevance to mycobacteria, and their inhibitors. Besides these, we also describe the alternative terminal complexes that are used by mycobacteria to maintain energized membrane during hypoxia and anaerobic conditions.
Influence of the North Pacific Victoria Mode on the Madden–Julian Oscillation
Authors: Wen Tao , Chen Quanliang , Li Jianping , Ding Ruiqiang , Tseng Yu-heng , Hou Zhaolu , Li Xumin
Published: November 2020

Using the observational data and the Coupled Model Intercomparison Project phase 5 (CMIP5) models this study examined the influence of the North Pacific Victoria mode (VM) on the Madden–Julian Oscillation (MJO). The results show that the February–April VM had a significant influence on the development and propagation of the MJO over the equatorial central-western Pacific (ECWP) during spring (March-May) between 1979 and 2017. Specifically, MJO development was favored more by positive VM events than negative VM events. These complicated connections could have been caused by the SST gradient anomalies associated with positive VM events, enhancing the convergence of low-level over the ECWP. When this is combined with warm SST anomalies in the equatorial central Pacific it could have led to a boost in the Kelvin wave anomalies, resulting in enhanced MJO activity over the ECWP. These conclusions indicate that the VM is an important factor in MJO diversity.
Analysis of Immune Responses in Acinetobacter baumannii-Infected Klotho Knockout Mice: A Mouse Model of Acinetobacter baumannii Infection in Aged Hosts
Authors: Sato Yoshinori , Tansho-Nagakawa Shigeru , Ubagai Tsuneyuki , Ono Yasuo
Published: November 2020

Acinetobacter baumannii is an important opportunistic pathogen that primarily afflicts elderly people. To clarify the pathogenicity of A. baumannii in the elderly, we investigated immune responses to A. baumannii ATCC 19606 infection in klotho knockout (KO) mice, the mouse model of aging. Following intravenous inoculation, the mice seldom displayed severe symptoms. However, the survival rate was 56% at 7 days post-infection. Bacteria were detected in the lungs of klotho KO mice but not klotho wildtype (WT) mice at 7 days post-infection. Neutrophils, eosinophils, interstitial macrophages, and monocyte/dendritic cell subset in the lungs of klotho KO mice were transiently induced after infection with A. baumannii. The number of alveolar macrophages in klotho KO mice was lower than that in klotho WT mice, except for 1 day post-infection. CD11b expression on neutrophils and alveolar macrophages in the lungs of klotho KO mice was seldom upregulated by the infection. These results suggested that immune functions eliminating bacteria in the lungs of klotho KO mice were insufficient. CD11blow conventional DC cells hardly increased in klotho KO mice infected with A. baumannii. Additionally, the production of interleukin (IL)-10 in the sera of klotho KO mice was significantly higher than that in klotho WT mice, whereas that production of interferon-gamma was not detected in the sera of klotho KO mice. These results suggested that acquired immune responses were hardly induced in klotho KO mice. IL-1β, CXCL1, CXCL2, and CCL2 expression was significantly higher in the lungs of klotho KO mice infected with A. baumannii than in those of klotho WT mice at 1 day post-infection. These results suggested that pulmonary inflammation was elicited in klotho KO mice during early infection. The expression levels of proinflammatory cytokines significantly correlated with TLR9 expression in the lungs of klotho KO mice. The collective results demonstrate an A. baumannii infection state in aged hosts and suggest that pulmonary inflammation and bacterial burden should be noted in aged hosts even in the absence of severe symptoms of A. baumannii infection.
Structural and Thermodynamic Properties of the High-Entropy Alloy AlCoCrFeNi Based on First-Principles Calculations
Authors: Wu Juefei , Yang Zhen , Xian Jiawei , Gao Xingyu , Lin Deye , Song Haifeng
Published: November 2020

During the past two decades, the high-entropy alloy AlCoCrFeNi has attracted much attention due to its outstanding thermal and mechanical properties under ambient conditions. However, the exploration on the thermodynamic properties of this alloy under high temperatures and high pressures is relatively insufficient. Combining structural modeling with the similar atomic environment (SAE) method and first-principles simulations with the modified mean-field potential (MMFP) approach, we studied the lattice and magnetic structure as well as the thermodynamic properties of the body-centered-cubic AlCoCrFeNi, through supercell simulations. AlCoCrFeNi was found to display a strong local lattice distortion compared with typical 3d high-entropy alloys; the ferromagnetic structure stable at 0 K was predicted to transform to the paramagnetic structure at the Curie temperature TC = 279.75 K, in good agreement with previous calculations; the calculated equilibrium volumes, bulk modulus, and shock Hugoniot all agree well with available experimental data and other theoretical values. These results demonstrate the validity and reliability of our methods used to study the dynamic properties of AlCoCrFeNi, providing a promising scheme for accessing the dynamic properties of sophisticated high-entropy alloys.
Propelling a Course-Based Undergraduate Research Experience Using an Open-Access Online Undergraduate Research Journal
Authors: Sun Evelyn , Graves Marcia L. , Oliver David C.
Published: November 2020

The University of British Columbia has developed a course-based undergraduate research experience (CURE) that engages students in authentic molecular microbiology research. This capstone course is uniquely built around an open-access online undergraduate research journal entitled Undergraduate Journal of Experimental Microbiology and Immunology (UJEMI). Students work in teams to derive an original research question, formulate a testable hypothesis, draft a research proposal, carry out experiments in the laboratory, and publish their results in UJEMI. The CURE operates in a feed forward manner whereby student-authored UJEMI publications drive research questions in subsequent terms of the course. Progress toward submission of an original manuscript is scaffolded using a series of communication assignments which facilitate formative development. We present a periodic model of our CURE that guides students through a research cycle. We review two ongoing course-based projects to highlight how UJEMI publications prime new research questions in the course. A journal-driven CURE represents a broadly applicable pedagogical tool that immerses students in the process of doing science.
Alteration of Membrane Fluidity or Phospholipid Composition Perturbs Rotation of MreB Complexes in Escherichia coli
Authors: Kurita Keisuke , Kato Fumiya , Shiomi Daisuke
Published: November 2020

Gram-negative bacteria such asEscherichia coliare surrounded by inner and outer membranes and peptidoglycan in between, protecting the cells from turgor pressure and maintaining cell shape. The Rod complex, which synthesizes peptidoglycan, is composed of various proteins such as a cytoplasmic protein MreB, a transmembrane protein RodZ, and a transpeptidase PBP2. The Rod complex is a highly motile complex that rotates around the long axis of a cell. Previously, we had reported that anionic phospholipids (aPLs; phosphatidylglycerol and cardiolipin) play a role in the localization of MreB. In this study, we identified that cells lacking aPLs slow down Rod complex movement. We also found that at higher temperatures, the speed of movement increased in cells lacking aPLs, suggesting that membrane fluidity is important for movement. Consistent with this idea, Rod complex motion was reduced, and complex formation was disturbed in the cells depleted of FabA or FabB, which are essential for unsaturated fatty acid synthesis. These cells also showed abnormal morphology. Therefore, membrane fluidity is important for maintaining cell shape through the regulation of Rod complex formation and motility.
Herpes Zoster Radiculomyelitis With Aquaporin-4 Antibodies: A Case Report and Literature Review
Authors: Eguchi Hiroto , Takeshige Haruka , Nakajima Sho , Kanou Masayoshi , Nakajima Asuka , Fuse Atsuto , Fukae Jiro , Miwa Hideto , Shimo Yasushi
Published: November 2020

Background: The relationship between varicella-zoster virus (VZV)-associated myelitis and aquaporin-4 immunoglobulin-G (AQP4-IgG) remains unknown.

Case Report: We report a case of acute radiculomyelitis with longitudinal extensive hyperintensity signals traversing the brainstem until the upper thoracic cord in a 55-year-old healthy woman following herpes zoster infection in the left C4-T3 dermatome. VZV-specific IgG in the cerebrospinal fluid (CSF) and AQP4-IgG positivity on enzyme-linked immunosorbent assay (ELISA) were undetectable. Thus, she was diagnosed with immune-competent VZV radiculomyelitis. Forty-two months later, she experienced a relapse, and AQP4-IgG positivity was detected on ELISA. A cell-based assay (CBA) showed AQP4-IgG positivity not only at the time of recurrence but also retrospectively at 1 month after the initial symptoms. We concluded that AQP4-IgG-positive neuromyelitis optica spectrum disorder (NMOSD) was concurrent with VZV myelitis. After the second attack, she was treated with azathioprine and has had no relapse since then.

Conclusion: We reported a case of VZV radiculomyelitis with confirmed concurrent AQP4-IgG positivity. NMOSD induced by herpes zoster has been recently identified, but distinguishing it from VZV myelitis can be difficult and whether these two diseases aggravate each other is unknown. Awareness of the potentially varied presentation of VZV myelitis can enable earlier recognition and proper treatment.
Caffeine Timing Improves Lower-Body Muscular Performance: A Randomized Trial
Authors: Harty Patrick S. , Zabriskie Hannah A. , Stecker Richard A. , Currier Brad S. , Tinsley Grant M. , Surowiec Kazimierz , Jagim Andrew R. , Richmond Scott R. , Kerksick Chad M.
Published: November 2020

Little is known about the optimal time to consume caffeine prior to exercise to maximize the ergogenic benefits of the substance.

Purpose: To determine the optimal pre-exercise time interval to consume caffeine to improve lower-body muscular performance. A secondary aim was to identify the presence of any sex differences in responses to timed caffeine administration.

Methods: Healthy, resistance-trained males (n = 18; Mean±SD; Age: 25.1 ± 5.7 years; Height: 178.4 ± 7.1 cm; Body mass: 91.3 ± 13.5 kg; Percent body fat: 20.7 ± 5.2; Average caffeine consumption: 146.6 ± 100.3 mg/day) and females (n = 11; Mean ± SD; Age: 20.1 ± 1.6 years; Height: 165.0 ± 8.8 cm; Body mass: 65.8 ± 10.0 kg; Percent bodyfat: 25.8 ± 4.2; Average caffeine consumption: 111.8 ± 91.7 mg/day) participated in this investigation. In a randomized, double-blind, placebo-controlled, crossover fashion, participants consumed 6 mg·kg−1 caffeine or placebo solution at three time points: 2 h prior (2H), 1 h prior (1H), or 30 min prior (30M) to exercise testing. During three visits, caffeine was randomly administered at one time point, and placebo was administered at the other two time points. During one visit, placebo was administered at all three time points. Next, participants performed isometric mid-thigh pulls (IMTP), countermovement vertical jumps (CMVJ), and isometric/isokinetic knee extensor testing (ISO/ISOK).

Results: Caffeine administered at 1H significantly improved absolute CMVJ and ISO performance relative to placebo. Mean CMVJ jump height was significantly higher during 1H compared to 30M. However, only caffeine administered at 30M significantly improved absolute measures of isokinetic performance. Analysis of the pooled caffeine conditions revealed that muscular performance was more consistently augmented by caffeine in males compared to females.

Conclusions: Pre-exercise caffeine timing significantly modulated participant responses to the substance, with 1H exerting the most consistent ergogenic benefits relative to other time points, particularly compared to 2H. Male participants were found to respond more consistently to caffeine compared to female participants. These results suggest that active individuals can maximize the ergogenic effects of caffeine by consuming the substance ~1 h prior to the point when peak muscular performance is desired.
Simultaneous Integrated Boost Intensity-Modulated Radiotherapy for Locally Advanced Drug-Resistant Gastrointestinal Stromal Tumors: A Feasibility Study
Authors: Li Longhao , Yi Xin , Cui Haixia , Zhao Xuemei , Dang Jun , Jiang Qingfeng , Li Ying
Published: November 2020

Background

As an emerging clinical problem, locally advanced drug-resistant gastrointestinal stromal tumors (LADRGISTs) has relatively few therapeutic schemes. Although radiotherapy is not often considered for GISTs, it could be a valuable contributing modality. The aim of our study is to explore a safe and effective radiation regimen for LADR-GISTs.

Methods

Three patients with LADR-GISTs were treated with simultaneous integrated boost intensity-modulated radiation therapy (SIB-IMRT) plans. In the SIB-IMRT plans, gross target volume (GTV) was divided into GTV-outer, GTV-mid, and GTV-center. And the prescribed dose of planning gross target volume (PGTV) and GTV-outer were both set to 50.4 Gy in 28 fractions. GTV-mid and GTV-center were simultaneously boosted to 60–62 Gy and 62–64 Gy respectively. For comparison purposes, conventional IMRT (Con-IMRT) plans with uniform dose distribution were generated for same optimization objectives without a dose boost to GTV-mid and GTV-center. All plans were optimized to make sure that deliver at least 95% of the prescription dose was delivered to PGTV. Isodose distribution, dose profiles, conformity indexes (CIs), monitor units (MUs), and dose volume histogram (DVH) was evaluated for each individual patient. After the three patients were treated with SIB-IMRT plans, the relative changes in the tumor size and CT values by CT scanning were also tracked.

Results

Compared with Con-IMRT plans, SIB-IMRT plans saw a significant increase from D95 to D2 of the GTV. With steeper dose gradients in the dose profiles, SIB-IMRT plans had GTV-mid and GTV-center accumulated with higher dose mainly by delivering extra 93 MUs in average. However, there was no significant difference in CIs and organs at risks (OARs) DVH. The relative changes in tumor size and CT values of the three patients in follow up were up to the Choi criteria and the three patients were all assessed as partial response.

Conclusions

The proposed SIB-IMRT may be a potential technique for achieving objective response and prolonging survival of selected GISTs patients.
Novel Non-Coding Transcript in NR4A3 Locus, LncNR4A3, Regulates RNA Processing Machinery Proteins and NR4A3 Expression
Authors: Congrains Ada , Niemann Fernanda Soares , Duarte Adriana Da Silva Santos , Ferro Karla Priscila Vieira , Olalla-Saad Sara Teresinha
Published: November 2020

NR4A3 is a key tumor suppressor in myeloid malignancy, mice lacking both NR4A1 and family member NR4A3 rapidly develop lethal acute myeloid leukemia (AML). We identified a long non-coding transcript in the NR4A3 locus and pursued the characterization of this anonymous transcript and the study of its role in leukemogenesis. We characterized this novel long non-coding transcript as a sense polyadenylated transcript. Bone marrow cells from AML patients expressed significantly reduced levels of lncNR4A3 compared to healthy controls (controls = 15, MDS= 20, p=0.05., AML= 21, p<0.01). Expression of NR4A3, as previously reported, was also significantly reduced in AML. Interestingly, the expression of both coding and non-coding transcripts was highly correlated (Pearson R = 0.3771, P<0.01). Transient over-expression of LncNR4A3 by nucleofection led to an increase in the RNA and protein level of NR4A3, reduction of proliferation in myeloid cell lines K-562 and KG1 (n=3 and 2 respectively, p<0.05) and reduced colony formation capacity in primary leukemic cells. A mass spectrometry-based quantitative proteomics approach was used to identify proteins dysregulated after lncNR4A3 over-expression in K-562. Enrichment analysis showed that the altered proteins are biologically connected (n=4, p<0.001) and functionally associated to RNA binding, transcription elongation, and splicing. Remarkably, we were able to validate the most significant results by WB. We showed that this novel transcript, lncNR4A3 regulates NR4A3 and we hypothesize this regulatory mechanism is mediated by the modulation of the RNA processing machinery.
Rationale: Photosynthesis of Vascular Plants in Dim Light
Authors: Wang Xiaolin , Wang Yong , Ling Aifeng , Guo Zhen , Asim Muhammad , Song Fupeng , Wang Qing , Sun Yanguo , Khan Rayyan , Yan Huifeng , Shi Yi
Published: November 2020

Light dominates the earth’s climate and ecosystems via photosynthesis, and fine changes of that might cause extensive material and energy alternation. Dim light (typically less than 5 μmol photons m–2 s–1) occurs widely in terrestrial ecosystems, while the frequency, duration, and extent of that are increasing because of climate change and urbanization. Dim light is important for the microorganism in the photosynthetic process, but omitted or unconsidered in the vascular plant, because the photosynthesis in the high-light adapted vascular leaves was almost impossible. In this review, we propose limitations of photosynthesis in vascular plant leaves, then elucidate the possibility and evidence of photosynthesis in terms of energy demand, stomatal opening, photosynthetic induction, and photosynthesis-related physiological processes in dim light. This article highlights the potential and noteworthy influence of dim light on photosynthesis in vascular plant leaves, and the research gap of dim light in model application and carbon accounting.
Which Factors Affect the Occurrence of Off-Target Effects Caused by the Use of CRISPR/Cas: A Systematic Review in Plants
Authors: Modrzejewski Dominik , Hartung Frank , Lehnert Heike , Sprink Thorben , Kohl Christian , Keilwagen Jens , Wilhelm Ralf
Published: November 2020

CRISPR/Cas enables a targeted modification of DNA sequences. Despite their ease and efficient use, one limitation is the potential occurrence of associated off-target effects. This systematic review aims to answer the following research question: Which factors affect the occurrence of off-target effects caused by the use of CRISPR/Cas in plants? Literature published until March 2019 was considered for this review. Articles were screened for relevance based on pre-defined inclusion criteria. Relevant studies were subject to critical appraisal. All studies included in the systematic review were synthesized in a narrative report, but studies rated as high and medium/high validity were reported separately from studies rated as low and medium/low or unclear validity. In addition, we ran a binary logistic regression analysis to verify five factors that may affect the occurrence of off-target effects: (1) Number of mismatches (2) Position of mismatches (3) GC-content of the targeting sequence (4) Altered nuclease variants (5) Delivery methods. In total, 180 relevant articles were included in this review containing 468 studies therein. Seventy nine percentage of these studies were rated as having high or medium/high validity. Within these studies, 6,416 potential off-target sequences were assessed for the occurrence of off-target effects. Results clearly indicate that an increased number of mismatches between the on-target and potential off-target sequence steeply decreases the likelihood of off-target effects. The observed rate of off-target effects decreased from 59% when there is one mismatch between the on-target and off-target sequences toward 0% when four or more mismatches exist. In addition, mismatch/es located within the first eight nucleotides proximal to the PAM significantly decreased the occurrence of off-target effects. There is no evidence that the GC-content significantly affects off-target effects. The database regarding the impact of the nuclease variant and the delivery method is very poor as the majority of studies applied the standard nuclease SpCas9 and the CRISPR/Cas system was stably delivered in the genome. Hence, a general significant impact of these two factors on the occurrence of off-target effects cannot be proved. This identified evidence gap needs to be filled by systematic studies exploring these individual factors in sufficient numbers.
Processing Speaker-Specific Information in Two Stages During the Interpretation of Referential Precedents
Authors: Kronmüller Edmundo , Guerra Ernesto
Published: November 2020

To reduce ambiguity across a conversation, interlocutors reach temporary conventions or referential precedents on how to refer to an entity. Despite their central role in communication, the cognitive underpinnings of the interpretation of precedents remain unclear, specifically the role and mechanisms by which information related to the speaker is integrated. We contrast predictions of one-stage, original two-stage, and extended two-stage models for the processing of speaker information and provide evidence favoring the latter: we show that both stages are sensitive to speaker-specific information. Using an experimental paradigm based on visual-world eye tracking in the context of a referential communication task, we look at the moment-by-moment interpretation of precedents and focus on the temporal profile of the influence of the speaker and linguistic information when facing ambiguity. We find two clearly identifiable moments where speaker-specific information has its effects on reference resolution. We conclude that these two stages reflect two distinct cognitive mechanisms, with different timings, and rely on different representational formats for encoding and accessing information about the speaker: a cue-driven memory retrieval process that mediates language processing and an inferential mechanism based on perspective-taking abilities.
Spatial Mapping of Riverbed Grain-Size Distribution Using Machine Learning
Authors: Ren Huiying , Hou Zhangshuan , Duan Zhuoran , Song Xuehang , Perkins William A. , Richmond Marshall C. , Arntzen Evan V. , Scheibe Timothy D.
Published: November 2020

Recent alluvial sediments in riverbeds play a significant role in controlling hydrologic exchange flows (HEFs) in river systems. The alluvial layer is usually associated with strong heterogeneity in physical properties (e.g., permeability and hydraulic conductivity), which affects local HEFs and therefore biogeochemical processes. The spatial distribution of these physical properties needs to be determined to inform the numerical models used to reveal the realistic hydro-biogeochemical behaviors. Such information can be obtained based on the intrinsic link between sediment grain-size distribution and hydraulic properties where sediment texture information is available. However, grain-size measurements are usually spatially sparse and do not have adequate coverage and resolution, particularly for a relatively large domain such as the Hanford Reach of the Columbia River. In this paper, we adopted machine learning (ML) approaches for categorizing and mapping the spatial distributions of riverbed substrate grain size and filling in missing areas of substrate data using the ML models along the reach. Such ML models for substrate size mapping were trained at 13,372 locations using measured substrate sizes along with observed and simulated attributes, including bathymetric attributes (e.g., elevation, slope, and aspect ratio) from LIDAR and bathymetric surveys, and hydrodynamic properties (e.g., water depth, velocity, shear stress, and their statistical moments). An ensemble bagging-based ML technique, Random Forest, was adopted to identify the most influential factors as predictors to develop the predictive models with over-fitting issues addressed. The models were evaluated with respect to each individual substrate size class and the lumped group, and then used to generate the final substrate size maps covering all the grid cells in the numerical modeling domain.
The Impact of Hogget and Mature Flock Reproductive Success on Sheep Farm Productivity
Authors: Farrell Lydia J. , Kenyon Paul R. , Morris Stephen T. , Tozer Peter R.
Published: November 2020

Breeding hoggets (ewe lambs aged four to 16 months) at 8 to 9 months of age has a number of potential benefits, including increased lamb production and profitability. However, the majority of hoggets in New Zealand are not bred due to producer concerns regarding their variable reproductive success and increased feed demand. Simulation modelling was used to quantify effects of hogget breeding on sheep numbers, lamb production, sheep feed demand, and sheep enterprise cash operating surplus (COS) compared with a flock not breeding hoggets. Hogget weaning rate (HWR) was modelled at 0%, 60%, 80%, and 100% and combined with mature ewe flock weaning rates (FWR) of 132% and 150%, while maintaining total annual sheep feed demand. For each FWR, increased HWR reduced total sheep numbers, increased the proportion of sheep feed demand for lamb production, increased total numbers of lambs weaned, and increased COS. Therefore, achieving even a relatively low HWR of 60% can improve sheep enterprise profitability for a given FWR. However, COS was lower with FWR = 132% and HWR = 100% than with FWR = 150% and HWR = 0%. The results indicate farmers who do not currently breed their hoggets may wish to improve their FWR before considering HWRs.
Physiological and Phytochemical Responses of Spinach Baby Leaves Grown in a PFAL System with LEDs and Saline Nutrient Solution
Authors: Bantis Filippos , Fotelli Mariangela , Ilić Zoran S. , Koukounaras Athanasios
Published: November 2020

Spinach is a leafy vegetable containing a plethora of bioactive compounds. Our study aimed to evaluate the physiological (i.e., JIP-test) and phytochemical response of spinach baby leaves grown with regular or mildly saline (40 mM NaCl) nutrient solution and irradiated by four light-emitting diodes (LEDs) with broad spectra. T1 (highest red and far-red, low blue) and T3 (high red, balanced blue, green and far-red) led to a better developed photosynthetic apparatus compared to T2 (red peak in 631 nm) and T4 (highest blue and green), highlighted by PIABS and its structural components: RC/ABS, φP0, ψE0, and ΔVIP. Elevated salinity only affected the latter parameter. T1 induced the maximum yield production but also the highest nitrate content which was far below the maximum level permitted by European legislation. Regardless of salinity level, T3 enhanced total phenol, chlorophyll, and carotenoid content. T2 and T4 led to inferior nutritional quality. Non-saline nutrient solution promoted the chlorophyll and carotenoid contents and the antioxidant potential, regardless of light treatment. By contrast, soluble sugar content was enhanced by saline nutrient solution. Our study shows that physiology and nutritional quality of spinach baby leaves can be manipulated by small interplays in the light spectra and salinity level.
Correction: Przywara, A., et al. Experimental Study of Disc Fertilizer Spreader Performance. Agriculture 2020, 10, 467
Authors: Przywara Artur , Santoro Francesco , Kraszkiewicz Artur , Pecyna Anna , Pascuzzi Simone
Published: November 2020

The authors unintentionally missed the citation of the chapter by Hofstee J. W., Speelman L., Scheufler B. [...]
Impact Analysis of Environmental Conditions on Odour Dispersion Emitted from Pig House with Complex Terrain Using CFD
Authors: Yeo Uk-Hyeon , Decano-Valentin Cristina , Ha Taehwan , Lee In-Bok , Kim Rack-Woo , Lee Sang-Yeon , Kim Jun-Gyu
Published: November 2020

With the rise in livestock production, the odour concentration emitted from livestock facilities has significantly increased. For this reason, odour complaints have become a major issue. The dispersion of the odour into the atmosphere is affected by various factors (wind speed, wind direction, atmospheric stability, terrain condition, ventilation type, and so on). Thus, a thorough analysis on the factor influencing odour dispersion is necessary to establish regulations and policies for odour management. Therefore, this research aimed to evaluate odour dispersion generated from a pig house with complex terrain using computational fluid dynamics (CFD) and to statistically determine the key factor for odour dispersion. By comparing CFD-computed results with field-measured data, an appropriate grid size, time step, and turbulence model of the CFD model were determined. Considering various factors, case studies were performed using the validated CFD model. The CFD-computed results showed that odour dispersion distance at the level of 1 OU m−3 ranged from 129.7 to 1488.1 m. The prediction of odour dispersion distance varies with the change of factor being analysed. Finally, the statistical analysis showed that the most influential factor that affected odour dispersion distance was the wind speed with a t-value: −9.057.
Legume Ecotypes and Commercial Cultivars Differ in Performance and Potential Suitability for Use as Permanent Living Mulch in Mediterranean Vegetable Systems
Authors: Leoni Federico , Lazzaro Mariateresa , Carlesi Stefano , Moonen Anna-Camilla
Published: November 2020

Weed control in organic conservative vegetable systems is extremely challenging and the use of legume permanent living mulches (pLM) presents an interesting opportunity. The successful use of pLM is largely determined by the choice of appropriate legumes which are able to combine adequate weed control with a marginal competitive effect on the cash crop(s). However, the availability of legumes for such systems is limited and their characterization based on growth traits can support the selection of suitable legumes for conservation organic vegetable systems. The current study investigated weed control capacity and variability in morphological and phenological traits relevant in inter-plant competition among a range of 11 commercial cultivars of legumes and seven ecotypes of Medicago polymorpha (bur medic). For commercial cultivars, Lotus corniculatus (bird’s-foot trefoil) and Trifolium repens (white clover) showed the best weed control capacity, while Trifolium subterraneum (subterranean clover) and Medicago polymopha had more suitable characteristics for a rapid and complete establishment of the pLM. Overall, legume mulches appear more effective in dicotyledonous than in monocotyledonous weed control. Trifolium subterraneum cv. Antas and T. repens cv. Haifa were identified as the potentially most suitable legumes for use as pLM and their use in mixtures could be a promising solution. In addition, the ecotypes of Medicago polymorpha Manciano and Talamone proved to be well adapted for local environmental conditions and they showed a better weed suppression than the commercial cultivars of Medicago polymorpha.
Influence of Nitrogen Management Regimes on Milling Recovery and Grain Quality of Aromatic Rice in Different Rice Production Systems
Authors: Ishfaq Muhammad , Akbar Nadeem , Zulfiqar Usman , Hussain Saddam , Murtza Khadija , Batool Zarina , Ashraf Umair , Alyemeni Mohammed Nasser , Ahmad Parvaiz
Published: November 2020

To examine the effect of nitrogen (N) management regimes on rice quality in different rice production systems, a field experiment was conducted in 2017 and 2018. The experimental treatments comprised of two production systems (transplanted rice: TPR and dry direct-seeded rice: DDSR) and six N management treatments (0, 50, 100, and 150 kg N ha−1 as basal, and 100 and 150 kg N ha−1 in three splits which were regarded as N1, N2, N3, N4, N5, and N6, respectively). The results revealed that the rice quality attributes, i.e., broken rice recovery, abortive kernel, bursting, and curling were increased by 8%, 14%, 8%, and 14%, respectively, under DDSR than TPR. In the case of N management, split application of N reduced the chalky kernel (44%), abortive kernel (23%), opaque kernel (31%), bursting (24%), and curling (31%), while kernel protein contents, water absorption ratio, cooked grain length, and elongation ratio were increased by 41%, 88%, 25%, and 26%, respectively, as compared to the basal application of N. In short, DDSR cultivation reduced the appearance and cooking quality traits but white head rice recovery and nutritional quality were comparable to TPR. However, N application in splits either in DDSR or in TPR potentially improved the grain quality of rice compared with the basal application.
Haemoparasites—Challenging and Wasting Infections in Small Ruminants: A Review
Authors: Stuen Snorre
Published: November 2020

Haemoparasites include bacteria, mycoplasma, protozoa and flagellates inhabiting the bloodstream of living hosts. These infections occur worldwide and are transmitted by vectors, especially ticks and tsetse flies. Geographical distribution varies due to movements of animals and vectors between geographical areas, and even between countries and continents. These changes may be caused by climate change, directly and indirectly, and have a huge effect on the epidemiology of these microbes. Active and ongoing surveillance is necessary to obtain reliable maps concerning the distribution of these infections in order to do proper risk assessment and efficient prophylactic treatment. Genera Anaplasma, Ehrlichia, Mycoplasma, Babesia, Theileria and Trypanosoma include common haemoparasite species in small ruminants causing a variety of clinical manifestations from high fatality rates to more subclinical infections, depending on the species or strain involved. These infections may also cause ill-thift or long-lasting wasting conditions. Life-long infections are a common feature of these pathogens. The present review will focus on haemoparasites in small ruminants, especially related to challenging and wasting infections.
Time Trends and Factors Associated with Antibiotic Prescribing in Swiss Primary Care (2008 to 2020)
Authors: Martínez-González Nahara Anani , Di Gangi Stefania , Pichierri Giuseppe , Neuner-Jehle Stefan , Senn Oliver , Plate Andreas
Published: November 2020

Antibiotic resistance (ABR) is a major threat to public health, and the majority of antibiotics are prescribed in the outpatient setting, especially in primary care. Monitoring antibiotic consumption is one key measure in containing ABR, but Swiss national surveillance data are limited. We conducted a retrospective cross-sectional study to characterise the patterns of antibiotic prescriptions, assess the time trends, and identify the factors associated with antibiotic prescribing in Swiss primary care. Using electronic medical records data, we analysed 206,599 antibiotic prescriptions from 112,378 patients. Based on 27,829 patient records, respiratory (52.1%), urinary (27.9%), and skin (4.8%) infections were the commonest clinical indications for antibiotic prescribing. The most frequently prescribed antibiotics were broad-spectrum penicillins (BSP) (36.5%), fluoroquinolones (16.4%), and macrolides/lincosamides (13.8%). Based on the WHO AWaRe classification, antibiotics were 57.9% Core-Access and 41.7% Watch, 69% of which were fluoroquinolones and macrolides. Between 2008 and 2020, fluoroquinolones and macrolides/lincosamides prescriptions significantly declined by 53% and 51%; BSP prescriptions significantly increased by 54%. Increasing patients’ age, volume, and employment level were significantly associated with antibiotic prescribing. Our results may inform future antibiotic stewardship interventions to improve antibiotic prescribing.
Inhibition of Osteoclast Differentiation by Carotenoid Derivatives through Inhibition of the NF-κB Pathway
Authors: Odes-Barth Shlomit , Khanin Marina , Linnewiel-Hermoni Karin , Miller Yifat , Abramov Karina , Levy Joseph , Sharoni Yoav
Published: November 2020

The bone protective effects of carotenoids have been demonstrated in several studies, and the inhibition of RANKL-induced osteoclast differentiation by lycopene has also been demonstrated. We previously reported that carotenoid oxidation products are the active mediators in the activation of the transcription factor Nrf2 and the inhibition of the NF-κB transcription system by carotenoids. Here, we demonstrate that lycopene oxidation products are more potent than intact lycopene in inhibiting osteoclast differentiation. We analyzed the structure–activity relationship of a series of dialdehyde carotenoid derivatives (diapocarotene-dials) in inhibiting osteoclastogenesis. We found that the degree of inhibition depends on the electron density of the carbon atom that determines the reactivity of the conjugated double bond in reactions such as Michael addition to thiol groups in proteins. Moreover, the carotenoid derivatives attenuated the NF-κB signal through inhibition of IκB phosphorylation and NF-κB translocation to the nucleus. In addition, we show a synergistic inhibition of osteoclast differentiation by combinations of an active carotenoid derivative with the polyphenols curcumin and carnosic acid with combination index (CI) values < 1. Our findings suggest that carotenoid derivatives inhibit osteoclast differentiation, partially by inhibiting the NF-κB pathway. In addition, carotenoid derivatives can synergistically inhibit osteoclast differentiation with curcumin and carnosic acid.
A Novel Assisted Artificial Neural Network Modeling Approach for Improved Accuracy Using Small Datasets: Application in Residual Strength Evaluation of Panels with Multiple Site Damage Cracks
Authors: Hijazi Ala , Al-Dahidi Sameer , Altarazi Safwan
Published: November 2020

An artificial neural network (ANN) extracts knowledge from a training dataset and uses this acquired knowledge to forecast outputs for any new set of inputs. When the input/output relations are complex and highly non-linear, the ANN needs a relatively large training dataset (hundreds of data points) to capture these relations adequately. This paper introduces a novel assisted-ANN modeling approach that enables the development of ANNs using small datasets, while maintaining high prediction accuracy. This approach uses parameters that are obtained using the known input/output relations (partial or full relations). These so called assistance parameters are included as ANN inputs in addition to the traditional direct independent inputs. The proposed assisted approach is applied for predicting the residual strength of panels with multiple site damage (MSD) cracks. Different assistance levels (four levels) and different training dataset sizes (from 75 down to 22 data points) are investigated, and the results are compared to the traditional approach. The results show that the assisted approach helps in achieving high predictions’ accuracy (<3% average error). The relative accuracy improvement is higher (up to 46%) for ANN learning algorithms that give lower prediction accuracy. Also, the relative accuracy improvement becomes more significant (up to 38%) for smaller dataset sizes.
Concentrated Growth Factors vs. Leukocyte-and-Platelet-Rich Fibrin for Enhancing Postextraction Socket Healing. A Longitudinal Comparative Study
Authors: Mozzati Marco , Gallesio Giorgia , Tumedei Margherita , Del Fabbro Massimo
Published: November 2020

Platelet concentrates (PCs) have been used for over 20 years in dentistry, as an adjunct to oral surgery procedures, to improve hard and soft tissue healing and control postoperative symptoms. Among various PCs, Leukocyte and Platelet-Rich Fibrin (L-PRF) has become very popular due to its excellent cost-effectiveness ratio, and to the simple preparation protocol, but comparative clinical studies with other PCs are lacking. The aim of this split-mouth cohort study was to evaluate the effect of Concentrated Growth Factors (CGF), a recently introduced PC, as compared to L-PRF for enhancing post-extraction socket healing. Methods: Patients in need of bilateral tooth extractions were included. Each side was treated with either CGF or L-PRF. Pain, socket closure and healing index were the main outcomes. Results: Forty-five patients (24 women), aged 60.52 ± 11.75 years (range 37–87 years) were treated. No significant difference in outcomes was found, except for Pain at day 1 (p < 0.001) and socket closure in the vestibulo-palatal/lingual dimension at day 7 post-extraction (p = 0.04), both in favor of CGF. Conclusions: based on the present results, CGF proved to be as effective and safe as L-PRF, representing a valid alternative option for improving alveolar socket healing and reducing postoperative discomfort.
Automating Jellyfish Species Recognition through Faster Region-Based Convolution Neural Networks
Authors: Gauci Adam , Deidun Alan , Abela John
Published: November 2020

In recent years, citizen science campaigns have provided a very good platform for widespread data collection. Within the marine domain, jellyfish are among the most commonly deployed species for citizen reporting purposes. The timely validation of submitted jellyfish reports remains challenging, given the sheer volume of reports being submitted and the relative paucity of trained staff familiar with the taxonomic identification of jellyfish. In this work, hundreds of photos that were submitted to the “Spot the Jellyfish” initiative are used to train a group of region-based, convolution neural networks. The main aim is to develop models that can classify, and distinguish between, the five most commonly recorded species of jellyfish within Maltese waters. In particular, images of the Pelagia noctiluca, Cotylorhiza tuberculata, Carybdea marsupialis, Velella velella and salps were considered. The reliability of the digital architecture is quantified through the precision, recall, f1 score, and κ score metrics. Improvements gained through the applicability of data augmentation and transfer learning techniques, are also discussed. Very promising results, that support upcoming aspirations to embed automated classification methods within online services, including smart phone apps, were obtained. These can reduce, and potentially eliminate, the need for human expert intervention in validating citizen science reports for the five jellyfish species in question, thus providing prompt feedback to the citizen scientist submitting the report.