bluuebunny/crossref_metadata_2025_split huggingface dataset:
Evolutionarily recent retrotransposons contribute to schizophrenia
Authors: Modenini Giorgia , Abondio Paolo , Guffanti Guia , Boattini Alessio , Macciardi Fabio 
Published: May 2023

AbstractTransposable elements (TEs) are mobile genetic elements that constitute half of the human genome. Recent studies suggest that polymorphic non-reference TEs (nrTEs) may contribute to cognitive diseases, such as schizophrenia, through a cis-regulatory effect. The aim of this work is to identify sets of nrTEs putatively linked to an increased risk of developing schizophrenia. To do so, we inspected the nrTE content of genomes from the dorsolateral prefrontal cortex of schizophrenic and control individuals and identified 38 nrTEs that possibly contribute to the emergence of this psychiatric disorder, two of them further confirmed with haplotype-based methods. We then performed in silico functional inferences and found that 9 of the 38 nrTEs act as expression/alternative splicing quantitative trait loci (eQTLs/sQTLs) in the brain, suggesting a possible role in shaping the human cognitive genome structure. To our knowledge, this is the first attempt at identifying polymorphic nrTEs that can contribute to the functionality of the brain. Finally, we suggest that a neurodevelopmental genetic mechanism, which involves evolutionarily young nrTEs, can be key to understanding the ethio-pathogenesis of this complex disorder.
Genetic improvement of speed across distance categories in thoroughbred racehorses in Great Britain
Authors: Sharman Patrick , Wilson Alastair J. 
Published: May 2023

AbstractSeveral studies over recent decades have reported a lack of contemporary improvement in thoroughbred racehorse speed, despite apparent additive genetic variance and putatively strong selection. More recently, it has been shown that some phenotypic improvement is ongoing, but rates are low in general and particularly so over longer distances. Here we used pedigree-based analysis of 692,534 records from 76,960 animals to determine whether these phenotypic trends are underpinned by genetic selection responses, and to evaluate the potential for more rapid improvement. We show that thoroughbred speed in Great Britain is only weakly heritable across sprint (h2 = 0.124), middle-distance (h2 = 0.122) and long-distance races (h2 = 0.074), but that mean predicted breeding values are nonetheless increasing across cohorts born between 1995 and 2012 (and racing from 1997 to 2014). For all three race distance categories, estimated rates of genetic improvement are statistically significant and also greater than can be explained by drift. Taken together our results show genetic improvement for thoroughbred speed is ongoing but slow, likely due to a combination of long generation times and low heritabilities. Additionally, estimates of realised selection intensities raises the possibility that the contemporary selection emerging from the collective actions of horse breeders is weaker than previously assumed, particularly over long distances. We suggest that unmodelled common environment effects may have upwardly biased estimates of heritability, and thus expected selection response, previously.
Dielectric tunability of magnetic properties in orthorhombic ferromagnetic monolayer CrSBr
Authors: Rudenko Alexander N. , Rösner Malte , Katsnelson Mikhail I. 
Published: May 2023

AbstractMonolayer CrSBr is a recently discovered semiconducting spin-3/2 ferromagnet with a Curie temperature of around 146 K. In contrast to many other known 2D magnets, the orthorhombic lattice of CrSBr gives rise to spatial anisotropy of magnetic excitations within the 2D plane. Triaxial magnetic anisotropy and considerable magnetic dipolar interactions in CrSBr challenge its theoretical description in terms of spin Hamiltonians. Here, we employ a Green’s function formalism combined with first-principles calculations to study the magnetic properties of monolayer CrSBr in different regimes of surrounding dielectric screening. In the free-standing limit, the system is close to an easy-plane magnet, whose long-range ordering is partially suppressed. On the contrary, in the regime of large external screening, monolayer CrSBr behaves like an easy-axis ferromagnet with more stable magnetic ordering. Our findings suggest that anisotropic layered magnets form a potentially promising platform for studying the effects of substrate screening on magnetic ordering in 2D.
CHQ- SocioEmo: Identifying Social and Emotional Support Needs in Consumer-Health Questions
Authors: Alasmari Ashwag , Kudryashov Luke , Yadav Shweta , Lee Heera , Demner-Fushman Dina 
Published: May 2023

AbstractGeneral public, often called consumers, are increasingly seeking health information online. To be satisfactory, answers to health-related questions often have to go beyond informational needs. Automated approaches to consumer health question answering should be able to recognize the need for social and emotional support. Recently, large scale datasets have addressed the issue of medical question answering and highlighted the challenges associated with question classification from the standpoint of informational needs. However, there is a lack of annotated datasets for the non-informational needs. We introduce a new dataset for non-informational support needs, called CHQ-SocioEmo. The Dataset of Consumer Health Questions was collected from a community question answering forum and annotated with basic emotions and social support needs. This is the first publicly available resource for understanding non-informational support needs in consumer health-related questions online. We benchmark the corpus against multiple state-of-the-art classification models to demonstrate the dataset’s effectiveness.
SRAM-Based PUF Readouts
Authors: Vinagrero Sergio , Martin Honorio , de Bignicourt Alice , Vatajelu Elena-Ioana , Di Natale Giorgio 
Published: May 2023

AbstractLarge-scale parameter characterization of Physical Unclonable Functions (PUFs) is of paramount importance in order to assess the quality and thus the suitability of such PUFs which would then be developed as an industrial-grade solution for hardware root of trust. Carrying out a proper characterization requires a large number of devices that need to be repeatedly sampled at various conditions. These prerequisites make PUF characterization process a very time-consuming and expensive task. Our work presents a dataset for the study of SRAM-based PUFs on microcontrollers; it includes full SRAM readouts along with internal voltage and temperature sensors of 84 microcontrollers of STM32 type. Data has been gathered with a custom-made and open platform designed for the automatic acquisition of SRAM readouts of such devices. This platform also provides possibilities of experimenting aging and reliability properties.
High fibrinogen levels are associated with poor survival in patients with liposarcoma
Authors: Peschek L. S. , Hobusch Gerhard M. , Funovics P. T. , Willegger M. , Schmid M. P. , Amann G. , Lamm W. , Brodowicz Th. , Ay C. , Windhager R. , Panotopoulos J. 
Published: May 2023

AbstractThe aim of this study was to evaluate whether (preoperative) plasma levels of fibrinogen, an essential clotting and acute phase protein, are associated with the prognosis of patients with a liposarcoma, a subtype of sarcoma derived from adipose tissue. We performed a retrospective cohort study of 158 patients with liposarcoma treated at the Department of Orthopaedics of the Medical University of Vienna in Austria from May 1994 to October 2021. Kaplan–Meier curves as well as uni- and multivariable Cox proportional hazard models were performed to evaluate the association between fibrinogen levels and overall survival. Elevated fibrinogen was associated with adverse overall survival in cause specific hazards analysis of mortality (hazard ratio [HR] per 10 mg/dL increase: 1.04; 95% CI 1.02–1.06; p < 0.001). This association prevailed in multivariable analysis after adjustment for AJCC tumor stage (HR 1.03; 95% CI 1.01–1.05; p = 0.013). Increasing levels of fibrinogen, a routinely available and inexpensive parameter, predicts the risk of mortality in patients with liposarcoma.
Sub-inhibitory gentamicin pollution induces gentamicin resistance gene integration in class 1 integrons in the environment
Authors: Sanchez-Cid Concepcion , Ghaly Timothy M. , Gillings Michael R. , Vogel Timothy M. 
Published: May 2023

AbstractAntibiotics at sub-inhibitory concentrations are often found in the environment. Here they could impose selective pressure on bacteria, leading to the selection and dissemination of antibiotic resistance, despite being under the inhibitory threshold. The goal of this study was to evaluate the effects of sub-inhibitory concentrations of gentamicin on environmental class 1 integron cassettes in natural river microbial communities. Gentamicin at sub-inhibitory concentrations promoted the integration and selection of gentamicin resistance genes (GmRG) in class 1 integrons after only a one-day exposure. Therefore, sub-inhibitory concentrations of gentamicin induced integron rearrangements, increasing the mobilization potential of gentamicin resistance genes and potentially increasing their dissemination in the environment. This study demonstrates the effects of antibiotics at sub-inhibitory concentrations in the environment and supports concerns about antibiotics as emerging pollutants.
Improved species level bacterial characterization from rhizosphere soil of wilt infected Punica granatum
Authors: Das Anupam J. , Sarangi Aditya Narayan , Ravinath Renuka , Talambedu Usha , Krishnareddy Prasannakumar Muthukapalli , Nijalingappa Ramesh , Middha Sushil Kumar 
Published: May 2023

AbstractPomegranate crops are prone to wilt complex disease, which is known to severely hamper the crop yield. There have been limited studies that have explored bacteria–plant–host associations in wilt complex disease affecting pomegranate crops. In the present study, wilt infected rhizosphere soil samples (ISI, ASI) in pomegranate were studied in comparison to a healthy control (HSC). The 16S metagenomics sequencing approach using the MinION platform was employed for screening of bacterial communities and predictive functional pathways. Altered physicochemical properties in the soil samples were recorded showing a comparatively acidic pH in the ISI (6.35) and ASI (6.63) soil samples to the HSC soil (7.66), along with higher electrical conductivity in the ISI (139.5 µS/cm), ASI soil (180 µS/cm), HSC soil sample (123.33 µS/cm). While concentration of micronutrients such as Cl and B were significantly higher in the ISI and ASI soil as compared to the HSC, Cu and Zn were significantly higher in the ASI soil. The effectiveness and accuracy of 16S metagenomics studies in identifying beneficial and pathogenic bacterial communities in multi-pathogen–host systems depend on the completeness and consistency of the available 16S rRNA sequence repositories. Enhancing these repositories could significantly improve the exploratory potential of such studies. Thus, multiple 16S rRNA data repositories (RDP, GTDB, EzBioCloud, SILVA, and GreenGenes) were benchmarked, and the findings indicated that SILVA yields the most reliable matches. Consequently, SILVA was chosen for further analysis at the species level. Relative abundance estimates of bacterial species showed variations of growth promoting bacteria, namely, Staphylococcus epidermidis, Bacillus subtilis, Bacillus megatarium, Pseudomonas aeruginosa, Pseudomonas putida, Pseudomonas stutzeri and Micrococcus luteus. Functional profiling predictions employing PICRUSt2 revealed a number of enriched pathways such as transporter protein families involved in signalling and cellular processes, iron complex transport system substrate binding protein, peptidoglycan biosynthesis II (staphylococci) and TCA cycle VII (acetate-producers). In line with past reports, results suggest that an acidic pH along with the bioavailability of micronutrients such as Fe and Mn could be facilitating the prevalence and virulence of Fusarium oxysporum, a known causative pathogen, against the host and beneficial bacterial communities. This study identifies bacterial communities taking into account the physicochemical and other abiotic soil parameters in wilt-affected pomegranate crops. The insights obtained could be instrumental in developing effective management strategies to enhance crop yield and mitigate the impact of wilt complex disease on pomegranate crops.
Theoretical investigation on the linear and nonlinear optical properties of DAPSH crystal
Authors: Valverde Clodoaldo , Medeiros Renato , Franco Leandro R. , Osório Francisco A. P. , Castro Marcos A. , Fonseca Tertius L. 
Published: May 2023

AbstractThe linear polarizability, first and second hyperpolarizabilities of the asymmetric unit of DAPSH crystal are studied and compared with available experimental results. The polarization effects are included using an iterative polarization procedure, which ensures the convergence of the dipole moment of DAPSH embedded within a polarization field generated by the surrounding asymmetric units whose atomic sites are considered as point charges. We estimate macroscopic susceptibilities from the results of the polarized asymmetric units in the unit cell, considering the significant contribution of the electrostatic interactions in crystal packing. The results show that the influence of the polarization effects leads to a marked decrease of the first hyperpolarizability, compared with the respective isolated counterpart, which improves the concordance with the experiment. There is a minor influence of polarization effects on the second hyperpolarizability but our estimated result for the third-order susceptibility, related to the NLO process of the intensity dependent refractive index, is significant as compared with the results for other organic crystals, such as chalcone-derivatives. In addition, supermolecule calculations are conducted for explicit dimers in presence of the electrostatic embedding to illustrate the role played by the electrostatic interactions in the hyperpolarizabilities of the DAPSH crystal.
Psychometric validation for a brand-new tool for the assessment of executive functions using 360° technology
Authors: Borgnis Francesca , Borghesi Francesca , Rossetto Federica , Pedroli Elisa , Meloni Mario , Riva Giuseppe , Baglio Francesca , Cipresso Pietro 
Published: May 2023

AbstractEXecutive-functions Innovative Tool 360° (EXIT 360°) is an original 360° instrument for an ecologically valid and multicomponent evaluation of executive functioning. This work aimed to test the diagnostic efficacy of EXIT 360° in distinguishing executive functioning between healthy controls (HC) and patients with Parkinson’s Disease (PwPD), a neurodegenerative disease in which executive dysfunction is the best-defined cognitive impairment in the early stage. 36 PwPD and 44 HC underwent a one-session evaluation that involved (1) neuropsychological evaluation of executive functionality using traditional paper-and-pencil tests, (2) EXIT 360° session and (3) usability assessment. Our findings revealed that PwPD made significantly more errors in completing EXIT 360° and took longer to conclude the test. A significant correlation appeared between neuropsychological tests and EXIT 360° scores, supporting a good convergent validity. Classification analysis indicated the potential of the EXIT 360° for distinguishing between PwPD and HC in terms of executive functioning. Moreover, indices from EXIT 360° showed higher diagnostic accuracy in predicting PD group membership compared to traditional neuropsychological tests. Interestingly, EXIT 360° performance was not affected by technological usability issues. Overall, this study offers evidence that EXIT 360° can be considered an ecological tool highly sensitive to detect subtle executive deficits in PwPD since the initial phases of the disease.
Targeting long non-coding RNA MALAT1 reverses cancerous phenotypes of breast cancer cells through microRNA-561-3p/TOP2A axis
Authors: Hajibabaei Sara , Nafissi Nahid , Azimi Yasamin , Mahdian Reza , Rahimi-Jamnani Fatemeh , Valizadeh Vahideh , Rafiee Mohammad Hessam , Azizi Masoumeh 
Published: May 2023

AbstractNon-coding RNAs, including Inc-RNA and miRNA, have been reported to regulate gene expression and are associated with cancer progression. MicroRNA-561-3p (miR-561-3p), as a tumor suppressor, has been reported to play a role in preventing cancer cell progression, and MALAT1 (Lnc-RNA) have also been demonstrated to promote malignancy in various cancers, such as breast cancer (BC). In this study, we aimed to determine the correlation between miR-561-3p and MALAT1 and their roles in breast cancer progression. The expression of MALAT1, mir-561-3p, and topoisomerase alpha 2 (TOP2A) as a target of miR-561-3p was determined in BC clinical samples and cell lines via qRT-PCR. The binding site between MALAT1, miR-561-3p, and TOP2A was investigated by performing the dual luciferase reporter assay. MALAT1 was knocked down by siRNA, and cell proliferation, apoptotic assays, and cell cycle arrest were evaluated. MALAT1 and TOP2A were significantly upregulated, while mir-561-3p expression was downregulated in BC samples and cell lines. MALAT1 knockdown significantly increased miR-561-3p expression, which was meaningfully inverted by co-transfection with the miR 561-3p inhibitor. Furthermore, the knockdown of MALAT1 by siRNA inhibited proliferation, induced apoptosis, and arrested the cell cycle at the G1 phase in BC cells. Notably, the mechanistic investigation revealed that MALAT1 predominantly acted as a competing endogenous RNA in BC by regulating the miR-561-3p/TOP2A axis. Based on our results, MALAT1 upregulation in BC may function as a tumor promoter in BC via directly sponging miRNA 561-3p, and MALAT1 knockdown serves a vital antitumor role in BC cell progression through the miR-561-3p/TOP2A axis.
Evaluation of the anti-inflammatory, analgesic, anti-pyretic and anti-ulcerogenic potentials of synthetic indole derivatives
Authors: Siddique Saira , Ahmad Khawaja Raees , Nawaz Syed Kashif , Raza Abdul Rauf , Ahmad Syeda Nadia , Ali Rabiyah , Inayat Iram , Suleman Sadia , Kanwal Muhammad Ali , Usman Muhammad 
Published: May 2023

AbstractA large number of new synthetic compounds are synthesized in the field of heterocyclic chemistry having a variety of biological potentials. In the present study, some synthetic indole derivatives are used to check anti-inflammatory, analgesic, antipyretic and gastroprotective activity in albino mice. Albino mice of either sex of reproductive age were used for each study (n = 5). In anti-inflammatory activity, the negative control (NC) and positive control group animals were treated with normal saline and 10 mg/kg of indomethacin respectively. The treated groups received the twenty four different synthetic chemicals, after 30 min of sub cutaneous injection of carrageenan. In analgesic activity, hot-plate method is used and for each group the latency period was recorded at zero moment of the provision of required dose and after 30, 60, 90, 120 and 180 min. In anti-pyretic activity, Pyrexia was induced by using Brewer's yeast method. Before any treatment and then after duration of 18 h, the rectal temperatures were recorded. Among all the chemicals, only those chemicals which show any potential related to above mentioned activities were selected for gastroprotective activity. The gastroprotective activity was performed to check the gastric ulcers by using 300 mg/kg of single oral dose of indomethacin to animals of all groups except NC group. This study helped to screen out the most potent indole derivatives 3a-II and 4a-II from the 24 synthetic indole derivatives which demonstrated the best biological potential (anti-inflammatory, analgesic, antipyretic, and gastroprotection) as compared to the remaining ones. The micrometric and biochemical results also support the histological findings. Out of the twenty-four novel indole amines tested, 3a-II and 4a-II have shown the effective pharmacological capacity and additionally have not shown any overt and systemic toxicity. Thus these two indole amines need further in-depth pharmacokinetic and pharmacodynamics studies before they are recommended for any pre-clinical trial.
Top-down and bottom-up effects and relationships with local environmental factors in the water frog–helminth systems in Latvia
Authors: Čeirāns Andris , Pupins Mihails , Kirjusina Muza , Gravele Evita , Mezaraupe Ligita , Nekrasova Oksana , Tytar Volodymyr , Marushchak Oleksii , Garkajs Alberts , Petrov Iurii , Skute Arturs , Georges Jean-Yves , Theissinger Kathrin 
Published: May 2023

AbstractSemi-aquatic European water frogs (Pelophylaxspp.) harbour rich helminth infra-communities, whose effects on host population size in nature are poorly known. To study top-down and bottom-up effects, we conducted calling male water frog counts and parasitological investigations of helminths in waterbodies from different regions of Latvia, supplemented by descriptions of waterbody features and surrounding land use data. We performed a series of generalized linear model and zero-inflated negative binomial regressions to determine the best predictors for frog relative population size and helminth infra-communities. The highest-ranked (by Akaike information criterion correction, AICc) model explaining the water frog population size contained only waterbody variables, followed by the model containing only land use within 500 m, while the model containing helminth predictors had the lowest rank. Regarding helminth infection responses, the relative importance of the water frog population size varied from being non-significant (abundances of larval plagiorchiids and nematodes) to having a similar weight to waterbody features (abundances of larval diplostomids). In abundances of adult plagiorchiids and nematodes the best predictor was the host specimen size. Environmental factors had both direct effects from the habitat features (e.g., waterbody characteristics on frogs and diplostomids) and indirect effects through parasite-host interactions (impacts of anthropogenic habitats on frogs and helminths). Our study suggests the presence of synergy between top-down and bottom-up effects in the water frog–helminth system that creates a mutual dependence of frog and helminth population sizes and helps to balance helminth infections at a level that does not cause over-exploitation of the host resource.
Horses (Equus caballus) facial micro-expressions: insight into discreet social information
Authors: Tomberg Claude , Petagna Maxime , de Selliers de Moranville Lucy-Anne 
Published: May 2023

AbstractFacial micro-expressions are facial expressions expressed briefly (less than 500 ms) and involuntarily. Described only in humans, we investigated whether micro-expressions could also be expressed by non-human animal species. Using the Equine Facial action coding system (EquiFACS), an objective tool based on facial muscles actions, we demonstrated that a non-human species, Equus caballus, is expressing facial micro-expressions in a social context. The AU17, AD38 and AD1 were selectively modulated as micro-expression—but not as standard facial expression (all durations included)—in presence of a human experimenter. As standard facial expressions, they have been associated with pain or stress but our results didn’t support this association for micro-expressions which may convey other information. Like in humans, neural mechanisms underlying the exhibit of micro-expressions may differ from those of standard facial expressions. We found that some micro-expressions could be related to attention and involved in the multisensory processing of the ‘fixed attention’ observed in horses’ high attentional state. The micro-expressions could be used by horses as social information in an interspecies relationship. We hypothesize that facial micro-expressions could be a window on transient internal states of the animal and may provide subtle and discreet social signals.