bluuebunny/crossref_metadata_2025_split huggingface dataset:
Evidence for UV-green dichromacy in the basal hymenopteran Sirex noctilio (Siricidae)
Authors: Guignard Quentin , Spaethe Johannes , Slippers Bernard , Strube-Bloss Martin , Allison Jeremy D. 
Published: August 2021

AbstractA precondition for colour vision is the presence of at least two spectral types of photoreceptors in the eye. The order Hymenoptera is traditionally divided into the Apocrita (ants, bees, wasps) and the Symphyta (sawflies, woodwasps, horntails). Most apocritan species possess three different photoreceptor types. In contrast, physiological studies in the Symphyta have reported one to four photoreceptor types. To better understand the evolution of photoreceptor diversity in the Hymenoptera, we studied the Symphyta Sirex noctilio, which belongs to the superfamily Siricoidea, a closely related group of the Apocrita suborder. Our aim was to (i) identify the photoreceptor types of the compound eye by electroretinography (ERG), (ii) characterise the visual opsin genes of S. noctilio by genomic comparisons and phylogenetic analyses and (iii) analyse opsin mRNA expression. ERG measurements revealed two photoreceptor types in the compound eye, maximally sensitive to 527 and 364 nm. In addition, we identified three opsins in the genome, homologous to the hymenopteran green or long-wavelength sensitive (LW) LW1, LW2 and ultra-violet sensitive (UV) opsin genes. The LW1 and UV opsins were found to be expressed in the compound eyes, and LW2 and UV opsins in the ocelli. The lack of a blue or short-wavelength sensitive (SW) homologous opsin gene and a corresponding receptor suggests that S. noctilio is a UV-green dichromate.
Structure of the master regulator Rns reveals an inhibitor of enterotoxigenic Escherichia coli virulence regulons
Authors: Midgett Charles R. , Talbot Kacey Marie , Day Jessica L. , Munson George P. , Kull F. Jon 
Published: August 2021

AbstractEnteric infections caused by the gram-negative bacteria enterotoxigenic Escherichia coli (ETEC), Vibrio cholerae, Shigella flexneri, and Salmonella enterica are among the most common and affect billions of people each year. These bacteria control expression of virulence factors using a network of transcriptional regulators, some of which are modulated by small molecules as has been shown for ToxT, an AraC family member from V. cholerae. In ETEC the expression of many types of adhesive pili is dependent upon the AraC family member Rns. We present here the 3 Å crystal structure of Rns and show it closely resembles ToxT. Rns crystallized as a dimer via an interface similar to that observed in other dimeric AraC’s. Furthermore, the structure of Rns revealed the presence of a ligand, decanoic acid, that inhibits its activity in a manner similar to the fatty acid mediated inhibition observed for ToxT and the S. enterica homologue HilD. Together, these results support our hypothesis that fatty acids regulate virulence controlling AraC family members in a common manner across a number of enteric pathogens. Furthermore, for the first time this work identifies a small molecule capable of inhibiting the ETEC Rns regulon, providing a basis for development of therapeutics against this deadly human pathogen.
Reliability of self-reported questionnaire for epidemiological investigation of Helicobacter pylori eradication in a population-based cohort study
Authors: Sasaki Yu , Abe Yasuhiko , Shoji Masakuni , Mizumoto Naoko , Takeda Hiroaki , Oizumi Harufumi , Yaoita Takao , Sawada Norie , Yamagishi Kazumasa , Saito Eiko , Watanabe Masafumi , Ishizawa Kenichi , Konta Tsuneo , Kayama Takamasa , Tsugane Shoichiro , Ueno Yoshiyuki , Inoue Manami 
Published: August 2021

AbstractGeneral population-based cohort studies provide solid evidence on mass Helicobacter pylori (HP) eradication effects. Self-reported questionnaires are occasionally used in such studies to ascertain the HP eradication history. However, reports on the reliability of these questionnaires are lacking. This general population-based cohort study included 899 individuals with HP infection at the baseline survey who were reported to have eradicated it at the 5-year follow-up survey. Of these, the medical records of 280 patients were available for investigation, and the HP eradication status of 93 individuals was ascertained. Their medical records were reviewed, and the reliability of the self-reported questionnaire responses was assessed. Of the 91 individuals who successfully eradicated HP based on the medical records, 90 (98.9%) answered the self-reported questionnaire correctly, with an unweighted kappa value of 0.661 (p < 0.001). The difference between the self-reported and medical records age at eradication was within a 1-year range in most participants (86.8%). Similarly, the HP eradication procedure and the outcomes were reasonably matched. In conclusion, the responses to the self-reported HP eradication questionnaire were almost consistent with the medical records. Thus, HP eradication history assessment by a self-reported questionnaire is reliable for an epidemiological study in the general population.
A stacking ensemble deep learning approach to cancer type classification based on TCGA data
Authors: Mohammed Mohanad , Mwambi Henry , Mboya Innocent B. , Elbashir Murtada K. , Omolo Bernard 
Published: August 2021

AbstractCancer tumor classification based on morphological characteristics alone has been shown to have serious limitations. Breast, lung, colorectal, thyroid, and ovarian are the most commonly diagnosed cancers among women. Precise classification of cancers into their types is considered a vital problem for cancer diagnosis and therapy. In this paper, we proposed a stacking ensemble deep learning model based on one-dimensional convolutional neural network (1D-CNN) to perform a multi-class classification on the five common cancers among women based on RNASeq data. The RNASeq gene expression data was downloaded from Pan-Cancer Atlas usingGDCqueryfunction of theTCGAbiolinkspackage in theRsoftware. We used least absolute shrinkage and selection operator (LASSO) as feature selection method. We compared the results of the new proposed model with and without LASSO with the results of the single 1D-CNN and machine learning methods which include support vector machines with radial basis function, linear, and polynomial kernels; artificial neural networks; k-nearest neighbors; bagging trees. The results show that the proposed model with and without LASSO has a better performance compared to other classifiers. Also, the results show that the machine learning methods (SVM-R, SVM-L, SVM-P, ANN, KNN, and bagging trees) with under-sampling have better performance than with over-sampling techniques. This is supported by the statistical significance test of accuracy where thep-values for differences between the SVM-R and SVM-P, SVM-R and ANN, SVM-R and KNN are found to bep = 0.003,p =  < 0.001, andp =  < 0.001, respectively. Also, SVM-L had a significant difference compared to ANNp = 0.009. Moreover, SVM-P and ANN, SVM-P and KNN are found to be significantly different withp-valuesp =  < 0.001 andp =  < 0.001, respectively. In addition, ANN and bagging trees, ANN and KNN were found to be significantly different withp-valuesp =  < 0.001 andp = 0.004, respectively. Thus, the proposed model can help in the early detection and diagnosis of cancer in women, and hence aid in designing early treatment strategies to improve survival.
Evaluation of neurotrophic factors and education level as predictors of cognitive decline in alcohol use disorder
Authors: Requena-Ocaña Nerea , Araos Pedro , Flores María , García-Marchena Nuria , Silva-Peña Daniel , Aranda Jesús , Rivera Patricia , Ruiz Juan Jesús , Serrano Antonia , Pavón Francisco Javier , Suárez Juan , Rodríguez de Fonseca Fernando 
Published: August 2021

AbstractCognitive reserve (CR) is the capability of an individual to cope with a brain pathology through compensatory mechanisms developed through cognitive stimulation by mental and physical activity. Recently, it has been suggested that CR has a protective role against the initiation of substance use, substance consumption patterns and cognitive decline and can improve responses to treatment. However, CR has never been linked to cognitive function and neurotrophic factors in the context of alcohol consumption. The present cross-sectional study aims to evaluate the association between CR (evaluated by educational level), cognitive impairment (assessed using a frontal and memory loss assessment battery) and circulating levels of brain-derived neurotrophic factor (BDNF) and neurotrophin-3 (NT-3) in patients with alcohol use disorder (AUD). Our results indicated that lower educational levels were accompanied by earlier onset of alcohol consumption and earlier development of alcohol dependence, as well as impaired frontal cognitive function. They also suggest that CR, NT-3 and BDNF may act as compensatory mechanisms for cognitive decline in the early stages of AUD, but not in later phases. These parameters allow the identification of patients with AUD who are at risk of cognitive deterioration and the implementation of personalized interventions to preserve cognitive function.
Encapsulation of bacteriophage cocktail into chitosan for the treatment of bacterial diarrhea
Authors: Rahimzadeh Golnar , Saeedi Majid , Moosazadeh Mahmood , Hashemi Seyyed Mohammad Hassan , Babaei Amirhossein , Rezai Mohammad Sadegh , Kamel Kosar , Asare-Addo Kofi , Nokhodchi Ali 
Published: August 2021

AbstractThe therapeutic effectiveness of a chitosan encapsulated bacteriophage cocktail as a smart biocontrol agent was evaluated in this study to be used as a preventative and treatment option for gastrointestinal infections. To evaluate the effect of the bacteriophage formulation on the treatment of gastrointestinal infection, rats were infected with Salmonella enterica, Shigella flexneri, and Escherichia coli. The rats were weighed and their stools cultured. The results showed that the group which had the chitosan encapsulated bacteriophage cocktail did not lose weight after 3 days and had significantly lower group weight changes. Weight loss was significant in the rats that had cefixime administered instead. Positive cultured stools were reduced after 4 days compared to 2 days in the treated group with the chitosan encapsulated bacteriophage cocktail. The chitosan encapsulated bacteriophage cocktail can therefore be effective in the treatment of gastrointestinal infections.
Blood biomarkers of progressive atherosclerosis and restenosis after stenting of symptomatic intracranial artery stenosis
Authors: Haidegger Melanie , Kneihsl Markus , Niederkorn Kurt , Deutschmann Hannes , Mangge Harald , Vetta Christian , Augustin Michael , Wünsch Gerit , Fandler-Höfler Simon , Horner Susanna , Enzinger Christian , Gattringer Thomas 
Published: August 2021

AbstractIn-stent restenosis (ISR) represents a major complication after stenting of intracranial artery stenosis (ICAS). Biomarkers derived from routine blood sampling including C-reactive protein (CRP), neutrophil-to-lymphocyte ratio (NLR), platelet-to-lymphocyte ratio (PLR) and mean platelet volume (MPV) have been associated with progressive atherosclerosis. We investigated the role of CRP, NLR, PLR and MPV on the development of intracranial ISR and recurrent stroke risk. We retrospectively included all patients who had undergone stenting of symptomatic ICAS at our university hospital between 2005 and 2016. ISR (≥ 50% stenosis) was diagnosed by regular Duplex sonography follow-up studies and confirmed by digital subtraction angiography or computed tomography angiography (mean follow-up duration: 5 years). Laboratory parameters were documented before stenting, at the time of restenosis and at last clinical follow-up. Of 115 patients (mean age: 73 ± 13 years; female: 34%), 38 (33%) developed ISR. The assessed laboratory parameters did not differ between patients with ISR and those without (p > 0.1). While ISR was associated with the occurrence of recurrent ischemic stroke (p = 0.003), CRP, NLR, PLR and MPV were not predictive of such events (p > 0.1). Investigated blood biomarkers of progressive atherosclerosis were not predictive for the occurrence of ISR or recurrent ischemic stroke after ICAS stenting during a 5-year follow-up.
Statistical morphological analysis reveals characteristic paraspinal muscle asymmetry in unilateral lumbar disc herniation
Authors: Xiao Yiming , Fortin Maryse , Ahn Joshua , Rivaz Hassan , Peters Terry M. , Battié Michele C. 
Published: August 2021

AbstractGrowing evidence suggests an association of lumbar paraspinal muscle morphology with low back pain (LBP) and lumbar pathologies. Unilateral spinal disorders provide unique models to study this association, with implications for diagnosis, prognosis, and management. Statistical shape analysis is a technique that can identify signature shape variations related to phenotypes but has never been employed in studying paraspinal muscle morphology. We present the first investigation using this technique to reveal disease-related paraspinal muscle asymmetry, using MRIs of patients with a single posterolateral disc herniation at the L5-S1 spinal level and unilateral leg pain. Statistical shape analysis was conducted to reveal disease- and phenotype-related morphological variations in the multifidus and erector spinae muscles at the level of herniation and the one below. With the analysis, shape variations associated with disc herniation were identified in the multifidus on the painful side at the level below the pathology while no pathology-related asymmetry in cross-sectional area (CSA) and fatty infiltration was found in either muscle. The results demonstrate higher sensitivity and spatial specificity for the technique than typical CSA and fatty infiltration measures. Statistical shape analysis holds promise in studying paraspinal muscle morphology to improve our understanding of LBP and various lumbar pathologies.
Assessing the predictability of existing water-to-enamel geolocation models against known human teeth
Authors: Ueda Momoko , Bell Lynne S. 
Published: August 2021

AbstractStable isotope analysis of human tissues has become a valuable tool for mapping human geolocation. This study adds to the existing knowledge of the relationship between oxygen stable isotopes in human enamel and drinking water by presenting enamel oxygen values in clinic-extracted human dental enamel with known provenance. The results from this study indicate that the theoretical isotopic relationship between enamel and drinking water oxygen is weak at the city and country-level. Differences of up to 15‰ were observed between predicted drinking water oxygen values using existing models and observed values, highlighting the complexity of using water/enamel conversion equations. The lower isotopic boundary of enamel oxygen values is now understood for Metro Vancouver at δ18Oc(VPDB) = – 11.0‰ and presents the possibility of using stable isotope analysis as an exclusionary tool where individuals falling below threshold value can be identified as non-local. Overall, this study’s results support the development of geographical reference maps for human enamel oxygen.
Analysis of volatiles from feces of released Przewalski’s horse (Equus przewalskii) in Gasterophilus pecorum (Diptera: Gasterophilidae) spawning habitat
Authors: Zhou Ran , Yang Jianming , Zhang Ke , Qi Yingjie , Ma Wei , Wang Zhenbiao , Ente Make , Li Kai 
Published: August 2021

AbstractThe absolute dominant species that infests wild population of Przewalski’s horse (Equus przewalskii) is Gasterophilus pecorum, and feces of released Przewalski’s horse, a habitat odor, plays an important role in mating and ovipositing locations of G. pecorum. To screen out unique volatiles for attracting G. pecorum, volatiles from fresh feces of released horses at stages of pre-oviposition (PREO), oviposition (OVIP), and post-oviposition (POSO) of G. pecorum, and feces with three different freshness states (i.e., Fresh, Semi-fresh, and Dry) at OVIP were collected by dynamic headspace adsorption and determined by automatic thermal desorption GC–MS. Results show that there were significant differences in fecal volatiles within both test conditions. Of the five most abundant volatiles from the five individual samples, the most important volatile was ammonium acetate at OVIP/Fresh, followed by acetophenone (Semi-fresh), toluene (PREO, OVIP and POSO), butanoic acid (OVIP and Semi-fresh), acetic acid (PREO, POSO and Semi-fresh), 1,6-octadiene,3,7-dimethyl-,(S)- (PREO, OVIP and POSO), 1,5,9-undecatriene,2,6,10-trimethyl-,(Z)- (PREO and Semi-fresh) and caprolactam (all conditions), which seem to be critical substances in oviposition process of G. pecorum. The findings may be beneficial to development of G. pecorum attractants, facilitating prevention and control of infection by G. pecorum to released Przewalski’s horse.
Modeling and analysis of high aspect ratio wing considering random structural parameters
Authors: Fu Bangsheng , Yang Ya , Qi Hui , Xu Jiangtao , Wang Shaobo 
Published: August 2021

AbstractWith the application of advanced composite materials in High-Aspect-Ratio wings (HARW), the randomness of structural parameters, such as elastic modulus and Poisson's ratio, is enhanced. Hence, in order to explore the whole picture of aeroelastic problems, it is of great significance to study the role of random structural parameters in aeroelastic problems. In this paper, the dynamic response of flexible HARW considering random structural parameters is analyzed. An aeroelastic model of a one-dimensional cantilevered Euler–Bernoulli beam considering aerodynamic forces acting on the wing is established based on Hamilton's principle. Adopted the idea of simplifying calculation, the effect of random structural parameters is analyzed. Then, considering the elastic modulus and torsional stiffness as continuously one-dimensional random field functions, and discretized by local method. The first and second order recursive stochastic nonlinear finite element equations of wing are derived by using perturbation method. Based on it, statistical expression of aeroelastic effects of the wing is derived. Monte Carlo method is adopted to verify the effectiveness of the method. Numerical simulations indicate that the method proposed can well mirror the statistical characteristics of aeroelastic response.
Comparison of different approaches to estimate bark volume of industrial wood at disc and log scale
Authors: Berendt Ferréol , de Miguel-Diez Felipe , Wallor Evelyn , Blasko Lubomir , Cremer Tobias 
Published: August 2021

AbstractWithin the wood supply chain, the measurement of roundwood plays a key role due to its high economic impact. While wood industry mainly processes the solid wood, the bark mostly remains as an industrial by-product. In Central Europe, it is common that the wood is sold over bark but that the price is calculated on a timber volume under bark. However, logs are often measured as stacks and, thus, the volume includes not only the solid wood content but also the bark portion. Mostly, the deduction factors used to estimate the solid wood content are based on bark thickness. The aim of this study was to compare the estimation of bark volume from scaling formulae with the real bark volume, obtained by xylometric technique. Moreover, the measurements were performed using logs under practice conditions and using discs under laboratory conditions. The mean bark volume was 6.9 dm3 and 26.4 cm3 for the Norway spruce logs and the Scots pine discs respectively. Whereas the results showed good performances regarding the root mean square error, the coefficient of determination (R2) and the mean absolute error for the volume estimation of the total volume of discs and logs (over bark), the performances were much lower for the bark volume estimations only.
Increased renal function decline in fast metabolizers using extended-release tacrolimus after kidney transplantation
Authors: Thölking Gerold , Filensky Brigitte , Jehn Ulrich , Schütte-Nütgen Katharina , Koch Raphael , Kurschat Christine , Pavenstädt Hermann , Suwelack Barbara , Reuter Stefan , Kuypers Dirk 
Published: August 2021

AbstractFast metabolism of immediate-release tacrolimus (IR-Tac) is associated with decreased kidney function after renal transplantation (RTx) compared to slow metabolizers. We hypothesized, by analogy, that fast metabolism of extended-release tacrolimus (ER-Tac) is associated with worse renal function. We analyzed data from patients who underwent RTx at three different transplant centers between 2007 and 2016 and received an initial immunosuppressive regimen with ER-Tac, mycophenolate, and a corticosteroid. Three months after RTx, a Tac concentration to dose ratio (C/D ratio) < 1.0 ng/ml · 1/mL defined fast ER-Tac metabolism and ≥ 1.0 ng/ml · 1/mL slow metabolism. Renal function (estimated glomerular filtration rate, eGFR), first acute rejection (AR), conversion from ER-Tac, graft and patient survival were observed up to 60-months. 610 RTx patients were divided into 192 fast and 418 slow ER-Tac metabolizers. Fast metabolizers showed a decreased eGFR at all time points compared to slow metabolizers. The fast metabolizer group included more patients who were switched from ER-Tac (p < 0.001). First AR occurred more frequently (p = 0.008) in fast metabolizers, while graft and patient survival rates did not differ between groups (p = 0.529 and p = 0.366, respectively). Calculation of the ER-Tac C/D ratio early after RTx may facilitate individualization of immunosuppression and help identify patients at risk for an unfavorable outcome.
Modulation of salt-induced stress impact in Gladiolus grandiflorus L. by exogenous application of salicylic acid
Authors: Ferdosi Malik Fiaz Hussain , Shoaib Amna , Habib Salma , Khan Kashif Ali 
Published: August 2021

AbstractSalinity is challenging threats to the agricultural system and leading cause of crop loss. Salicylic acid (SA) is an important endogenous signal molecule, which by regulating growth and physiological processes improves the plant ability to tolerate salt stress. Considering the prime importance of Gladiolus grandiflorus (L.) in the world’s cut-flower market, the research work was undertaken to elucidate salinity tolerance in G. grandiflorus by exogenous application of SA irrigated with saline water. Results revealed that increasing salinity (EC: 2, 4 and 6 dS m–1) considerably altered morpho-growth indices (corm morphology and plant biomass) in plants through increasing key antioxidants including proline content and enzymes activity (superoxide dismutase, catalase and peroxidase), while negatively affected the total phenolic along with activity of defense-related enzymes (phenylalanine ammonia lyase, and polyphenol oxidase activity). SA application (50–200 ppm) in non-saline control or saline conditions improved morpho-physiological traits in concentration-dependent manners. In saline conditions, SA minimized salt-stress by enhancing chlorophyll content, accumulating organic osmolytes (glycine betaine and proline content), total phenolic, and boosting activity of antioxidant and defense-related enzymes. Principle component analysis based on all 16 morphological and physiological variables generated useful information regarding the classification of salt tolerant treatment according to their response to SA. These results suggest SA (100 or 150 ppm) could be used as an effective, economic, easily available and safe phenolic agent against salinity stress in G. grandiflorus.