bluuebunny/crossref_metadata_2025_split huggingface dataset:
A new ankylosaurid from the Upper Cretaceous Nemegt Formation of Mongolia and implications for paleoecology of armoured dinosaurs
Authors: Park Jin-Young , Lee Yuong-Nam , Kobayashi Yoshitsugu , Jacobs Louis L. , Barsbold Rinchen , Lee Hang-Jae , Kim Namsoo , Song Kyo-Young , Polcyn Michael J. 
Published: November 2021

AbstractA new ankylosaurid dinosaur,Tarchia tumanovaesp. nov., has been recovered from the Upper Cretaceous Nemegt Formation of Mongolia. It includes a well-preserved skull, dorsal, sacral, caudal vertebrae, sixteen dorsal ribs, ilia, a partial ischium, free osteoderms, and a tail club. The squamosal horns ofT. tumanovaeare divided into two layers, the external dermal layer and the underlying squamosal horn proper. The irregular ventral margin of the base of the upper dermal layer may represent a resorption surface, suggesting that the squamosal horns of some ankylosaurids underwent extreme ontogenetic remodeling. Localized pathologies on the dorsosacral ribs and the tail provide evidence of agonistic behaviour. The tail club knob asymmetry ofT. tumanovaeresulted from restricted bone growth due to tail club strikes. Furthermore,T. tumanovaehad an anteriorly protruded shovel-shaped beak, which is a morphological character of selective feeders. Ankylosaurid diets shifted from low-level bulk feeding to selective feeding during the Baruungoyot and the Nemegt “age” (middle Campanian-lower Maastrichtian). This ankylosaurid niche shifting might have been a response to habitat change and competition with other bulk-feeding herbivores.
Assessing countries’ social-ecological resilience to shifting marine commercial species
Authors: Ojea Elena , Fontán Elena , Fuentes-Santos Isabel , Bueno-Pardo Juan 
Published: November 2021

AbstractClimate change is already impacting fisheries with species moving across fishing areas, crossing institutional borders, and thus creating conflicts over fisheries management. In this scenario, scholars agree that adaptation to climate change requires that fisheries increase their social, institutional, and ecological resilience. The resilience or capacity of a fishery to be maintained without shifting to a different state (e.g., collapse) is at stake under climate change impacts and overexploitation. Despite this urgent need, applying the resilience concept in a spatially explicit and quantitative manner to inform policy remains unexplored. We take a resilience approach and operationalize the concept in industrial fisheries for two species that have been observed to significantly shift distribution in European waters: hake (Merluccius merluccius) and cod (Gadus morhua), in the context of the European Union institutional settings. With a set of resilience factors from the literature and by means of contemporary and historic data, we select indicators that are combined into an index that measures resilience on the ecologic, socioeconomic, and institutional dimensions of the fishery. We find that the resilience index varies among species and countries, with lower resilience levels in the socioeconomic dimension of the fisheries. We also see that resilience largely depends on the overexploitation status of the fishery. The results highlight the need to address social and institutional settings to enhance fisheries adaptation to climate change and allow to inform on climate resilient adaptation pathways for the fisheries.
Genes and regulatory mechanisms associated with experimentally-induced bovine respiratory disease identified using supervised machine learning methodology
Authors: Scott Matthew A. , Woolums Amelia R. , Swiderski Cyprianna E. , Perkins Andy D. , Nanduri Bindu 
Published: November 2021

AbstractBovine respiratory disease (BRD) is a multifactorial disease involving complex host immune interactions shaped by pathogenic agents and environmental factors. Advancements in RNA sequencing and associated analytical methods are improving our understanding of host response related to BRD pathophysiology. Supervised machine learning (ML) approaches present one such method for analyzing new and previously published transcriptome data to identify novel disease-associated genes and mechanisms. Our objective was to apply ML models to lung and immunological tissue datasets acquired from previous clinical BRD experiments to identify genes that classify disease with high accuracy. Raw mRNA sequencing reads from 151 bovine datasets (n = 123 BRD, n = 28 control) were downloaded from NCBI-GEO. Quality filtered reads were assembled in a HISAT2/Stringtie2 pipeline. Raw gene counts for ML analysis were normalized, transformed, and analyzed with MLSeq, utilizing six ML models. Cross-validation parameters (fivefold, repeated 10 times) were applied to 70% of the compiled datasets for ML model training and parameter tuning; optimized ML models were tested with the remaining 30%. Downstream analysis of significant genes identified by the top ML models, based on classification accuracy for each etiological association, was performed within WebGestalt and Reactome (FDR ≤ 0.05). Nearest shrunken centroid and Poisson linear discriminant analysis with power transformation models identified 154 and 195 significant genes for IBR and BRSV, respectively; from these genes, the two ML models discriminated IBR and BRSV with 100% accuracy compared to sham controls. Significant genes classified by the top ML models in IBR (154) and BRSV (195), but not BVDV (74), were related to type I interferon production and IL-8 secretion, specifically in lymphoid tissue and not homogenized lung tissue. Genes identified inMannheimia haemolyticainfections (97) were involved in activating classical and alternative pathways of complement. Novel findings, including expression of genes related to reduced mitochondrial oxygenation and ATP synthesis in consolidated lung tissue, were discovered. Genes identified in each analysis represent distinct genomic events relevant to understanding and predicting clinical BRD. Our analysis demonstrates the utility of ML with published datasets for discovering functional information to support the prediction and understanding of clinical BRD.
The evolution of basal mantle structure in response to supercontinent aggregation and dispersal
Authors: Cao Xianzhi , Flament Nicolas , Bodur Ömer F. , Müller R. Dietmar 
Published: November 2021

AbstractSeismic studies have revealed two Large Low-Shear Velocity Provinces (LLSVPs) in the lowermost mantle. Whether these structures remain stable over time or evolve through supercontinent cycles is debated. Here we analyze a recently published mantle flow model constrained by a synthetic plate motion model extending back to one billion years ago, to investigate how the mantle evolves in response to changing plate configurations. Our model predicts that sinking slabs segment the basal thermochemical structure below an assembling supercontinent, and that this structure eventually becomes unified due to slab push from circum-supercontinental subduction. In contrast, the basal thermochemical structure below the superocean is generally coherent due to the persistence of a superocean in our imposed plate reconstruction. The two antipodal basal thermochemical structures exchange material several times when part of one of the structures is carved out and merged with the other one, similarly to “exotic” tectonic terranes. Plumes mostly rise from thick basal thermochemical structures and in some instances migrate from the edges towards the interior of basal thermochemical structures due to slab push. Our results suggest that the topography of basal structures and distribution of plumes change over time due to the changing subduction network over supercontinent cycles.
Estimating the effective fields of spin configurations using a deep learning technique
Authors: Lee D. B. , Yoon H. G. , Park S. M. , Choi J. W. , Kwon H. Y. , Won C. 
Published: November 2021

AbstractThe properties of complicated magnetic domain structures induced by various spin–spin interactions in magnetic systems have been extensively investigated in recent years. To understand the statistical and dynamic properties of complex magnetic structures, it is crucial to obtain information on the effective field distribution over the structure, which is not directly provided by magnetization. In this study, we use a deep learning technique to estimate the effective fields of spin configurations. We construct a deep neural network and train it with spin configuration datasets generated by Monte Carlo simulation. We show that the trained network can successfully estimate the magnetic effective field even though we do not offer explicit Hamiltonian parameter values. The estimated effective field information is highly applicable; it is utilized to reduce noise, correct defects in the magnetization data, generate spin configurations, estimate external field responses, and interpret experimental images.
Skin irritation and potential antioxidant, anti-collagenase, and anti-elastase activities of edible insect extracts
Authors: Yeerong Kankanit , Sriyab Suwannee , Somwongin Suvimol , Punyoyai Chanun , Chantawannakul Panuwan , Anuchapreeda Songyot , Prommaban Adchara , Chaiyana Wantida 
Published: November 2021

AbstractThis study aimed to investigate antioxidant, anti-aging, and irritation properties of Thai edible insect extracts, including Bombyx mori, Omphisa fuscidentalis, Euconocephalus sp., Patanga succincta, Acheta domesticus, and Lethocerus indicus. Insects were extracted by 2 different methods, including maceration using ethanol or hexane and digestion using DI water. Then the extracts were determined for protein content using bicinchoninic acid assay and antioxidant activities using 2,2′-azinobis (3-ethylbenzothiazoline-6-sulfonic acid), 2,2-diphenyl-1-picrylhydrazyl, ferric reducing antioxidant power, and ferric thiocyanate assays. Anti-aging activities were investigated by determination of collagenase and elastase inhibitory activities using spectrophotometric assay. Maceration by hexane yielded the highest extract content, whereas aqueous extract from digestion possessed the significantly highest protein content and biological activities (p < 0.05). Interestingly, aqueous extracts of A. domesticus possessed the significantly highest biological activities (p < 0.05) with Trolox equivalent antioxidant capacity value of 8.8 ± 0.1 mmol Trolox/mg, DPPH· inhibition of 19.5 ± 3.8%, equivalent concentration of 12.1 ± 0.7 µM FeSO4/mg, lipid peroxidation inhibition of 31.3 ± 2.4%, collagenase inhibition of 60.8 ± 2.1%, elastase inhibition of 17.0 ± 0.1%, and no irritation effect on chorioallantoic membrane and volunteers. Therefore, aqueous extract of A. domesticus would be suggested for further topical product development.
Data-driven identification of diagnostically useful extrastriatal signal in dopamine transporter SPECT using explainable AI
Authors: Nazari Mahmood , Kluge Andreas , Apostolova Ivayla , Klutmann Susanne , Kimiaei Sharok , Schroeder Michael , Buchert Ralph 
Published: November 2021

AbstractThis study used explainable artificial intelligence for data-driven identification of extrastriatal brain regions that can contribute to the interpretation of dopamine transporter SPECT with 123I-FP-CIT in parkinsonian syndromes. A total of 1306 123I-FP-CIT-SPECT were included retrospectively. Binary classification as ‘reduced’ or ‘normal’ striatal 123I-FP-CIT uptake by an experienced reader served as standard-of-truth. A custom-made 3-dimensional convolutional neural network (CNN) was trained for classification of the SPECT images with 1006 randomly selected images in three different settings: “full image”, “striatum only” (3-dimensional region covering the striata cropped from the full image), “without striatum” (full image with striatal region removed). The remaining 300 SPECT images were used to test the CNN classification performance. Layer-wise relevance propagation (LRP) was used for voxelwise quantification of the relevance for the CNN-based classification in this test set. Overall accuracy of CNN-based classification was 97.0%, 95.7%, and 69.3% in the “full image”, “striatum only”, and “without striatum” setting. Prominent contributions in the LRP-based relevance maps beyond the striatal signal were detected in insula, amygdala, ventromedial prefrontal cortex, thalamus, anterior temporal cortex, superior frontal lobe, and pons, suggesting that 123I-FP-CIT uptake in these brain regions provides clinically useful information for the differentiation of neurodegenerative and non-neurodegenerative parkinsonian syndromes.
Solid-state fermented brewer's spent grain enzymatic extract increases in vitro and in vivo feed digestibility in European seabass
Authors: Fernandes Helena , Moyano Francisco , Castro Carolina , Salgado José , Martínez Francisca , Aznar María , Fernandes Nelson , Ferreira Patrícia , Gonçalves Margarida , Belo Isabel , Oliva-Teles Aires , Peres Helena 
Published: November 2021

AbstractBrewer’s spent grain (BSG) is the largest by-product originated from the brewery industry with a high potential for producing carbohydrases by solid-state fermentation. This work aimed to test the efficacy of a carbohydrases-rich extract produced from solid-state fermentation of BSG, to enhance the digestibility of a plant-based diet for European seabass (Dicentrarchus labrax). First, BSG was fermented withA. ibericusto obtain an aqueous lyophilized extract (SSF-BSG extract) and incorporated in a plant-based diet at increasing levels (0—control; 0.1%, 0.2%, and 0.4%). Another diet incorporating a commercial carbohydrases-complex (0.04%; Natugrain; BASF) was formulated. Then, all diets were tested in in vitro and in vivo digestibility assays. In vitro assays, simulating stomach and intestine digestion in European seabass, assessed dietary phosphorus, phytate phosphorus, carbohydrates, and protein hydrolysis, as well as interactive effects between fish enzymes and dietary SSF-BSG extract. After, an in vivo assay was carried out with European seabass juveniles fed selected diets (0—control; 0.1%, and 0.4%). In vitro digestibility assays showed that pentoses release increased 45% with 0.4% SSF-BSG extract and 25% with Natugrain supplemented diets, while amino acids release was not affected. A negative interaction between endogenous fish enzymes and SSF-BSG extract was observed in both diets. The in vivo digestibility assay corroborated in vitro data. Accordingly, the dietary supplementation with 0.4% SSF-BSG increased the digestibility of dry matter, starch, cellulose, glucans, and energy and did not affect protein digestibility. The present work showed the high potential of BSG to produce an added-value functional supplement with high carbohydrases activity and its potential contribution to the circular economy by improving the nutritional value of low-cost and sustainable ingredients that can be included in aquafeeds.
Stress analysis and applicability analysis of the elliptical head
Authors: Wang Zhanhui , Zhang Zhifang , Chen Jinzhong , Bai Jinjun 
Published: November 2021

AbstractAs the main pressure components of pressure vessels, the mechanical performance of cylinders and heads affects the normal operation of pressure vessels. At present, no unified theoretical formula exists for the connection region between an elliptical head and the cylinder. Therefore, the authors consider the standard elliptical head as the research object. First, the theoretical stress calculation formula is deduced according to the deformation continuity equation. Second, the stress is experimentally measured using an internal-pressure thin-walled-vessel stress measurement device, and the theoretical and experimental stress values in the discontinuous region between the elliptical head and cylinder are analysed and compared to verify the accuracy and applicability of the theoretical stress calculation formula. The results show that the theoretical stress calculation formula in the discontinuous region between the elliptical head and cylinder is valid. By comparing and analysing the theoretical and experimental stress values, the accuracy and applicability of the theoretical stress calculation formula in the discontinuous region are verified. The findings can provide guidance for the stress measurement of internal-pressure vessels.
Investigating the Campylobacter enteritis winter peak in Germany, 2018/2019
Authors: Rosner Bettina M. , Gassowski Martyna , Albrecht Stefan , Stark Klaus 
Published: November 2021

AbstractSurveillance of notified Campylobacter enteritis in Germany revealed a recurrent annual increase of cases with disease onset several days after the Christmas and New Year holidays (“winter peak”). We suspected that handling and consumption of chicken meat during fondue and raclette grill meals on the holidays were associated with winter peak Campylobacter infections. The hypothesis was investigated in a case–control study with a case-case design where notified Campylobacter enteritis cases served as case-patients as well as control-patients, depending on their date of disease onset (case-patients: 25/12/2018 to 08/01/2019; control-patients: any other date between 30/11/2018 and 28/02/2019). The study was conducted as an online survey from 21/01/2019 to 18/03/2019. Adjusted odds ratios (aOR) were determined in single-variable logistic regression analyses adjusted for age group and sex. We analysed 182 data sets from case-patients and 260 from control-patients and found associations of Campylobacter infections after the holidays with meat fondue (aOR 2.2; 95% confidence interval (CI) 1.2–3.8) and raclette grill meals with meat (aOR 1.5; 95% CI 1.0–2.4) consumed on the holidays. The associations were stronger when chicken meat was served at these meals (fondue with chicken meat: aOR 2.7; 95% CI 1.4–5.5; raclette grill meal with chicken meat: aOR 2.3; 95% CI 1.3–4.1). The results confirmed our initial hypothesis. To prevent Campylobacter winter peak cases in the future, consumers should be made more aware of the risks of a Campylobacter infection when handling raw meat, in particular chicken, during fondue or raclette grill meals on the holidays.
RNA assay identifies a previous misclassification of BARD1 c.1977A>G variant
Authors: Rofes Paula , Pineda Marta , Feliubadaló Lídia , Menéndez Mireia , de Cid Rafael , Gómez Carolina , Montes Eva , Capellá Gabriel , Brunet Joan , del Valle Jesús , Lázaro Conxi 
Published: November 2021

AbstractCase–control studies have shown an association of BARD1 with hereditary breast and/or ovarian cancer (HBOC) predisposition. BARD1 alternatively spliced isoforms are abundant and some are highly expressed in different cancer types. In addition, a number of BARD1 germline pathogenic variants have been reported among HBOC patients. In previous reports, BARD1 c.1977A>G variant has been classified as pathogenic since it produces a frameshift transcript lacking exons 2 to 9. In the present study, we sought to validate the mRNA splicing results previously published and to contribute with new evidence to refine the classification of this substitution according to ACMG/AMP guidelines. The presence of the variant was screened in patients and controls. RT-PCR was performed in order to compare the transcriptional profiles of two variant carriers and ten non-carrier controls. In addition, allele-specific expression was assessed. No differences in variant frequency were detected between patients and controls. The RNA assay confirmed the presence of the shorter transcript lacking exons 2–9, but it was detected both in carriers and non-carriers. Furthermore, allelic imbalance was discarded and no significant differences in the proportion of full-length and shorter transcript were detected between carriers and controls. The shorter transcript detected corresponds to BARD1 isoform η, constituted by exons 1, 10 and 11. Our results support that this transcript is a constitutive splicing product rather than an aberrant transcript caused by BARD1 c.1977A>G variant, and for this reason this variant should be considered as likely benign following ACMG/AMP guidelines.
A wireless radiofrequency-powered insect-scale flapping-wing aerial vehicle
Authors: Ozaki Takashi , Ohta Norikazu , Jimbo Tomohiko , Hamaguchi Kanae 
Published: November 2021

AbstractInsect-scale aerial vehicles are useful tools for communication, environmental sensing and surveying confined spaces. However, the lack of lightweight high-power-density batteries has limited the untethered flight durations of these micro aerial vehicles. Wireless power transmission using radiofrequency electromagnetic waves could potentially offer transmissivity through obstacles, wave-targeting/focusing capabilities and non-mechanical steering of the vehicles via phased-array antennas. But the use of radiofrequency power transmission has so far been limited to larger vehicles. Here we show that a wireless radiofrequency power supply can be used to drive an insect-scale flapping-wing aerial vehicle. We use a sub-gram radiofrequency power receiver with a power-to-weight density of 4,900 W kg–1, which is five times higher than that of off-the-shelf lithium polymer batteries of similar mass. With this system, we demonstrate the untethered take off of the flapping-wing micro aerial vehicle. Our RF-powered aircraft has a mass of 1.8 g and is more than 25 times lighter than previous radiofrequency-powered micro aerial vehicles.
Pharmacologically controlling protein-protein interactions through epichaperomes for therapeutic vulnerability in cancer
Authors: Joshi Suhasini , Gomes Erica DaGama , Wang Tai , Corben Adriana , Taldone Tony , Gandu Srinivasa , Xu Chao , Sharma Sahil , Buddaseth Salma , Yan Pengrong , Chan Lon Yin L. , Gokce Askan , Rajasekhar Vinagolu K. , Shrestha Lisa , Panchal Palak , Almodovar Justina , Digwal Chander S. , Rodina Anna , Merugu Swathi , Pillarsetty NagaVaraKishore , Miclea Vlad , Peter Radu I. , Wang Wanyan , Ginsberg Stephen D. , Tang Laura , Mattar Marissa , de Stanchina Elisa , Yu Kenneth H. , Lowery Maeve , Grbovic-Huezo Olivera , O’Reilly Eileen M. , Janjigian Yelena , Healey John H. , Jarnagin William R. , Allen Peter J. , Sander Chris , Erdjument-Bromage Hediye , Neubert Thomas A. , Leach Steven D. , Chiosis Gabriela 
Published: November 2021

AbstractCancer cell plasticity due to the dynamic architecture of interactome networks provides a vexing outlet for therapy evasion. Here, through chemical biology approaches for systems level exploration of protein connectivity changes applied to pancreatic cancer cell lines, patient biospecimens, and cell- and patient-derived xenografts in mice, we demonstrate interactomes can be re-engineered for vulnerability. By manipulating epichaperomes pharmacologically, we control and anticipate how thousands of proteins interact in real-time within tumours. Further, we can essentially force tumours into interactome hyperconnectivity and maximal protein-protein interaction capacity, a state whereby no rebound pathways can be deployed and where alternative signalling is supressed. This approach therefore primes interactomes to enhance vulnerability and improve treatment efficacy, enabling therapeutics with traditionally poor performance to become highly efficacious. These findings provide proof-of-principle for a paradigm to overcome drug resistance through pharmacologic manipulation of proteome-wide protein-protein interaction networks.