bluuebunny/crossref_metadata_2025_split huggingface dataset:
Lycium barbarum polysaccharide modulates gut microbiota to alleviate rheumatoid arthritis in a rat model
Authors: Lai Wenjia , Wang Chunyan , Lai Renfa , Peng Xichun , Luo Jianming 
Published: July 2022

AbstractRheumatoid arthritis (RA) seriously impairs the quality of life of sufferers. It has been shown that Lycium barbarum polysaccharide (LBP), a natural active indigestible ingredient with medicinal and edible functions, can effectively relieve RA, however, whether this effect is related to gut microbiota is not known. This study aimed to explore the RA alleviating mechanism of LBP mediated by gut microbiota using a collagen-induced arthritis rat model. The results showed that LBP significantly changed the gut microflora structure accompanied with the RA alleviation. Specifically, a LBP intervention reduced the relative abundance of Lachnospiraceae_NK4A136_group and uncultured_bacterium_f_Ruminococcaceae and significantly increased the abundance of Romboutsia, Lactobacillus, Dubosiella and Faecalibaculum. The mRNA contents of several colonic epithelial genes including Dpep3, Gstm6, Slc27a2, Col11a2, Sycp2, SNORA22, Tnni1, Gpnmb, Mypn and Acsl6, which are potentially associated to RA, were down-regulated due to the DNA hypermethylation, possibly caused by the elevating content of a bacterial metabolite S-adenosyl methionine (SAM). In conclusion, our current study suggests that LBP alleviated RA by reshaping the composition of intestinal microflora which may generate SAM, inducing DNA hypermethylation of RA-related genes in the host intestinal epithelium and subsequently reducing their expression.
Structure of the metastatic factor P-Rex1 reveals a two-layered autoinhibitory mechanism
Authors: Chang Yong-Gang , Lupton Christopher J. , Bayly-Jones Charles , Keen Alastair C. , D’Andrea Laura , Lucato Christina M. , Steele Joel R. , Venugopal Hari , Schittenhelm Ralf B. , Whisstock James C. , Halls Michelle L. , Ellisdon Andrew M. 
Published: July 2022

AbstractP-Rex (PI(3,4,5)P3-dependent Rac exchanger) guanine nucleotide exchange factors potently activate Rho GTPases. P-Rex guanine nucleotide exchange factors are autoinhibited, synergistically activated by Gβγ and PI(3,4,5)P3 binding and dysregulated in cancer. Here, we use X-ray crystallography, cryogenic electron microscopy and crosslinking mass spectrometry to determine the structural basis of human P-Rex1 autoinhibition. P-Rex1 has a bipartite structure of N- and C-terminal modules connected by a C-terminal four-helix bundle that binds the N-terminal Pleckstrin homology (PH) domain. In the N-terminal module, the Dbl homology (DH) domain catalytic surface is occluded by the compact arrangement of the DH-PH-DEP1 domains. Structural analysis reveals a remarkable conformational transition to release autoinhibition, requiring a 126° opening of the DH domain hinge helix. The off-axis position of Gβγ and PI(3,4,5)P3 binding sites further suggests a counter-rotation of the P-Rex1 halves by 90° facilitates PH domain uncoupling from the four-helix bundle, releasing the autoinhibited DH domain to drive Rho GTPase signaling.
The Multilingual Picture Database
Authors: Duñabeitia Jon Andoni , Baciero Ana , Antoniou Kyriakos , Antoniou Mark , Ataman Esra , Baus Cristina , Ben-Shachar Michal , Çağlar Ozan Can , Chromý Jan , Comesaña Montserrat , Filip Maroš , Đurđević Dušica Filipović , Dowens Margaret Gillon , Hatzidaki Anna , Januška Jiří , Jusoh Zuraini , Kanj Rama , Kim Say Young , Kırkıcı Bilal , Leminen Alina , Lohndal Terje , Yap Ngee Thai , Renvall Hanna , Rothman Jason , Royle Phaedra , Santesteban Mikel , Sevilla Yamila , Slioussar Natalia , Vaughan-Evans Awel , Wodniecka Zofia , Wulff Stefanie , Pliatsikas Christos 
Published: July 2022

AbstractThe growing interdisciplinary research field of psycholinguistics is in constant need of new and up-to-date tools which will allow researchers to answer complex questions, but also expand on languages other than English, which dominates the field. One type of such tools are picture datasets which provide naming norms for everyday objects. However, existing databases tend to be small in terms of the number of items they include, and have also been normed in a limited number of languages, despite the recent boom in multilingualism research. In this paper we present the Multilingual Picture (Multipic) database, containing naming norms and familiarity scores for 500 coloured pictures, in thirty-two languages or language varieties from around the world. The data was validated with standard methods that have been used for existing picture datasets. This is the first dataset to provide naming norms, and translation equivalents, for such a variety of languages; as such, it will be of particular value to psycholinguists and other interested researchers. The dataset has been made freely available.
Modelling the interplay of SARS-CoV-2 variants in the United Kingdom
Authors: Barreiro N. L. , Govezensky T. , Ventura C. I. , Núñez M. , Bolcatto P. G. , Barrio R. A. 
Published: July 2022

AbstractMany COVID-19 vaccines are proving to be highly effective to prevent severe disease and to diminish infections. Their uneven geographical distribution favors the appearance of new variants of concern, as the highly transmissible Delta variant, affecting particularly non-vaccinated people. It is important to device reliable models to analyze the spread of the different variants. A key factor is to consider the effects of vaccination as well as other measures used to contain the pandemic like social behaviour. The stochastic geographical model presented here, fulfills these requirements. It is based on an extended compartmental model that includes various strains and vaccination strategies, allowing to study the emergence and dynamics of the new COVID-19 variants. The model conveniently separates the parameters related to the disease from the ones related to social behavior and mobility restrictions. We applied the model to the United Kingdom by using available data to fit the recurrence of the currently prevalent variants. Our computer simulations allow to describe the appearance of periodic waves and the features that determine the prevalence of certain variants. They also provide useful predictions to help planning future vaccination boosters. We stress that the model could be applied to any other country of interest.
Proteins, possibly human, found in World War II concentration camp artifact
Authors: Yang Heyi , Butler Erin , Monier Samantha A. , Siegel Donald 
Published: July 2022

AbstractMuseums displaying artifacts of the human struggle against oppression are often caught in their own internal struggle between presenting factual and unbiased descriptions of their collections, or relying on testament of survivors. Often this quandary is resolved in favor of what can be verified, not what is remembered. However, with improving instrumentation, methods and informatic approaches, science can help uncover evidence able to reconcile memory and facts. Following World War II, thousands of small, cement-like disks with numbers impressed on one side were found at concentration camps throughout Europe. Survivors claimed these disks were made of human cremains; museums erred on the side of caution—without documentation of the claims, was it justifiable to present them as fact? The ability to detect species relevant biological material in these disks could help resolve this question. Proteomic mass spectrometry of five disks revealed all contained proteins, including collagens and hemoglobins, suggesting they were made, at least in part, of animal remains. A new protein/informatics approach to species identification showed that while human was not always identified as the top contributor, human was the most likely explanation for one disk. To our knowledge, this is the first demonstration of protein recovery from cremains. Data are available via ProteomeXchange with identifier PXD035267.
A joint learning approach for genomic prediction in polyploid grasses
Authors: Aono Alexandre Hild , Ferreira Rebecca Caroline Ulbricht , Moraes Aline da Costa Lima , Lara Letícia Aparecida de Castro , Pimenta Ricardo José Gonzaga , Costa Estela Araujo , Pinto Luciana Rossini , Landell Marcos Guimarães de Andrade , Santos Mateus Figueiredo , Jank Liana , Barrios Sanzio Carvalho Lima , do Valle Cacilda Borges , Chiari Lucimara , Garcia Antonio Augusto Franco , Kuroshu Reginaldo Massanobu , Lorena Ana Carolina , Gorjanc Gregor , de Souza Anete Pereira 
Published: July 2022

AbstractPoaceae, among the most abundant plant families, includes many economically important polyploid species, such as forage grasses and sugarcane (Saccharumspp.). These species have elevated genomic complexities and limited genetic resources, hindering the application of marker-assisted selection strategies. Currently, the most promising approach for increasing genetic gains in plant breeding is genomic selection. However, due to the polyploidy nature of these polyploid species, more accurate models for incorporating genomic selection into breeding schemes are needed. This study aims to develop a machine learning method by using a joint learning approach to predict complex traits from genotypic data. Biparental populations of sugarcane and two species of forage grasses (Urochloa decumbens,Megathyrsus maximus) were genotyped, and several quantitative traits were measured. High-quality markers were used to predict several traits in different cross-validation scenarios. By combining classification and regression strategies, we developed a predictive system with promising results. Compared with traditional genomic prediction methods, the proposed strategy achieved accuracy improvements exceeding 50%. Our results suggest that the developed methodology could be implemented in breeding programs, helping reduce breeding cycles and increase genetic gains.
The impact of preoperative oral nutrition supplementation on outcomes in patients undergoing gastrointestinal surgery for cancer in low- and middle-income countries: a systematic review and meta-analysis
Authors: Knight Stephen R. , Qureshi Ahmad U. , Drake Thomas M. , Lapitan Marie Carmela M. , Maimbo Mayaba , Yenli Edwin , Tabiri Stephen , Ghosh Dhruva , Kingsley Pamela A. , Sundar Sudha , Shaw Catherine , Valparaiso Apple P. , Bhangu Aneel , Brocklehurst Peter , Magill Laura , Morton Dion G. , Norrie John , Roberts Tracey E. , Theodoratou Evropi , Weiser Thomas G. , Burden Sorrel , Harrison Ewen M. 
Published: July 2022

AbstractMalnutrition is an independent predictor for postoperative complications in low- and middle-income countries (LMICs). We systematically reviewed evidence on the impact of preoperative oral nutrition supplementation (ONS) on patients undergoing gastrointestinal cancer surgery in LMICs. We searched EMBASE, Cochrane Library, Web of Science, Scopus, WHO Global Index Medicus, SciELO, Latin American and Caribbean Health Sciences Literature (LILACS) databases from inception to March 21, 2022 for randomised controlled trials evaluating preoperative ONS in gastrointestinal cancer within LMICs. We evaluated the impact of ONS on all postoperative outcomes using random-effects meta-analysis. Seven studies reported on 891 patients (446 ONS group, 445 control group) undergoing surgery for gastrointestinal cancer. Preoperative ONS reduced all cause postoperative surgical complications (risk ratio (RR) 0.53, 95% CI 0.46–0.60, P < 0.001, I2 = 0%, n = 891), infection (0.52, 0.40–0.67, P = 0.008, I2 = 0%, n = 570) and all-cause mortality (0.35, 0.26–0.47, P = 0.014, I2 = 0%, n = 588). Despite heterogeneous populations and baseline rates, absolute risk ratio (ARR) was reduced for all cause (pooled effect −0.14, −0.22 to −0.06, P = 0.006; number needed to treat (NNT) 7) and infectious complications (−0.13, −0.22 to −0.06, P < 0.001; NNT 8). Preoperative nutrition in patients undergoing gastrointestinal cancer surgery in LMICs demonstrated consistently strong and robust treatment effects across measured outcomes. However additional higher quality research, with particular focus within African populations, are urgently required.
Role of phosphorus as micro alloying element and its effect on corrosion characteristics of steel rebars in concrete environment
Authors: Hussain Raja Rizwan , Alhozaimy Abdulrahman , Al-Negheimish Abdulaziz , Singh D. D. N. 
Published: July 2022

AbstractThis communication reports the effect of phosphorus (P) added in micro concentration range in steel on kinetics, mechanism and growth of passive film in contact of chloride contaminated concrete. Electrochemical impedance spectroscopy, direct-current polarization, mass loss and Raman spectroscopic techniques were used to arrive at the findings. The results showed that an intentional addition of P in steel (0.064%) makes it more prone to uniform and localized corrosion (about 1.1 and 1.7 times) than the steel having low phosphorus (< 0.016%, present as tramp element) exposed under wet/dry conditions in simulated pore solution added with chloride and in the absence of this ion. A similar effect is also noted for the rebars embedded in mortars. Identification of corrosion products formed on steel rebars surface by Raman spectroscopy reveals thermodynamically stable maghemite and goethite phases on the surface of low P content steel. Unstable phase of lepidocrocite is recorded on the surface of higher phosphorus steel rebars. The findings are discussed with experimental evidence and taking clues from the published literature to arrive at plausible mechanism for this behaviour.
Prevention of bleomycin-induced pulmonary fibrosis by a RANKL peptide in mice
Authors: Ju Nan , Hayashi Hiroki , Shimamura Munehisa , Baba Satoshi , Yoshida Shota , Morishita Ryuichi , Rakugi Hiromi , Nakagami Hironori 
Published: July 2022

AbstractDespite the recent therapeutic developments for the treatment of pulmonary fibrosis, its prognosis is still not well controlled, and a novel therapeutic agent is needed. Recently, the critical role of Toll-like receptors (TLRs) in the pathophysiology of pulmonary fibrosis has been reported; however, the effects of multiple TLR signaling inhibition are still unknown. Here, we examined how the inhibition of multiple TLRs affects pulmonary fibrosis using a novel synthetic receptor activator of nuclear factor κB ligand (RANKL) partial peptide, MHP1-AcN, which could suppress TLR2, 3, 4, 7, and 9 signaling through CD14 and RANK. When MHP1-AcN was administered in the bleomycin-induced lung fibrosis model, reduced collagen deposition was observed, with suppressed fibrosis-related gene expression including Col1a1, Col1a2, Acta2, Tgfb1 and Tgfbr2. MHP1-AcN also decreased proinflammatory M1 and profibrotic M2 macrophage marker expression. Furthermore, MHP1-AcN treatment inhibited transforming growth factor (TGF-β)-induced Smad2/3 phosphorylation and myofibroblast differentiation in human fetal lung fibroblast (MRC-5) cells. This effect was associated with decreased TGF-β receptor levels and the upregulated Bmp7 and Smad7 expression. These findings suggest that MHP1-AcN protects mice against bleomycin-induced pulmonary fibrosis. MHP1-AcN might provide a novel therapeutic strategy for the pulmonary fibrosis.
Peripheral blood DNA methylation profiles predict future development of B-cell Non-Hodgkin Lymphoma
Authors: Espín-Pérez Almudena , Brennan Kevin , Ediriwickrema Asiri Saumya , Gevaert Olivier , Lossos Izidore S. , Gentles Andrew J. 
Published: July 2022

AbstractLack of accurate methods for early lymphoma detection limits the ability to cure patients. Since patients with Non-Hodgkin lymphomas (NHL) who present with advanced disease have worse outcomes, accurate and sensitive methods for early detection are needed to improve patient care. We developed a DNA methylation-based prediction tool for NHL, based on blood samples collected prospectively from 278 apparently healthy patients who were followed for up to 16 years to monitor for NHL development. A predictive score was developed using machine learning methods in a robust training/validation framework. Our predictive score incorporates CpG DNA methylation at 135 genomic positions, with higher scores predicting higher risk. It was 85% and 78% accurate for identifying patients at risk of developing future NHL, in patients with high or low epigenetic mitotic clock respectively, in a validation cohort. It was also sensitive at detecting active NHL (96.3% accuracy) and healthy status (95.6% accuracy) in additional independent cohorts. Scores optimized for specific NHL subtypes showed significant but lower accuracy for predicting other subtypes. Our score incorporates hyper-methylation of Polycomb andHOXgenes, which have roles in NHL development, as well asPAX5- a master transcriptional regulator of B-cell fate. Subjects with higher risk scores showed higher regulatory T-cells, memory B-cells, but lower naïve T helper lymphocytes fractions in the blood. Future prospective studies will be required to confirm the utility of our signature for managing patients who are at high risk for developing future NHL.
Human–machine teaming is key to AI adoption: clinicians’ experiences with a deployed machine learning system
Authors: Henry Katharine E. , Kornfield Rachel , Sridharan Anirudh , Linton Robert C. , Groh Catherine , Wang Tony , Wu Albert , Mutlu Bilge , Saria Suchi 
Published: July 2022

AbstractWhile a growing number of machine learning (ML) systems have been deployed in clinical settings with the promise of improving patient care, many have struggled to gain adoption and realize this promise. Based on a qualitative analysis of coded interviews with clinicians who use an ML-based system for sepsis, we found that, rather than viewing the system as a surrogate for their clinical judgment, clinicians perceived themselves as partnering with the technology. Our findings suggest that, even without a deep understanding of machine learning, clinicians can build trust with an ML system through experience, expert endorsement and validation, and systems designed to accommodate clinicians’ autonomy and support them across their entire workflow.
Seed choice in ground beetles is driven by surface-derived hydrocarbons
Authors: Ali Khaldoun A. , Mori Boyd A. , Prager Sean M. , Willenborg Christian J. 
Published: July 2022

AbstractGround beetles (Coleoptera: Carabidae) are among the most prevalent biological agents in temperate agroecosystems. Numerous species function as omnivorous predators, feeding on both pests and weed seeds, yet the sensory ecology of seed perception in omnivorous carabids remains poorly understood. Here, we explore the sensory mechanisms of seed detection and discrimination in four species of omnivorous carabids:Poecilus corvus,Pterostichus melanarius,Harpalus amputatus, andAmara littoralis. Sensory manipulations and multiple-choice seed feeding bioassays showed olfactory perception of seed volatiles as the primary mechanism used by omnivorous carabids to detect and distinguish among seeds ofBrassica napus,Sinapis arvensis, andThlaspi arvense(Brassicaceae). Seed preferences differed among carabid species tested, but the choice of desirable seed species was generally guided by the olfactory perception of long chain hydrocarbons derived from the seed coat surface. These olfactory seed cues were essential for seed detection and discrimination processes to unfold. Disabling the olfactory appendages (antennae and palps) of carabid beetles by ablation left them unable to make accurate seed choices compared to intact beetles.
Time management governs climate resilience and productivity in the coupled rice–wheat cropping systems of eastern India
Authors: McDonald Andrew J. , Balwinder-Singh  , Keil Alwin , Srivastava Amit , Craufurd Peter , Kishore Avinash , Kumar Virender , Paudel Gokul , Singh Sudhanshu , Singh A. K. , Sohane R. K. , Malik R. K. 
Published: July 2022

AbstractIndia will need to produce 30% more wheat by 2050, and these gains must principally come from intensification in eastern India where low productivity is common. Through a dense network of on-farm surveys for the rice–wheat system in this region, we show that contemporary wheat sowing dates have a central influence on achieved and attainable yields, superseding all other crop management, soil and varietal factors. We estimate that untapped wheat production potential will increase by 69% with achievable adjustments to wheat sowing dates without incurring undesirable trade-offs with rice productivity, irrigation requirements or profitability. Our findings also indicate that transformative gains in wheat yields are only possible in eastern India if rice and wheat are managed as a coupled system. Steps taken to ‘keep time’ through better management of the annual cropping calendar will pay dividends for food security, profitability and climate resilience now and as a foundation for adaptation to progressive climate change.
Prädiktoren für erfolgreiche Lebertransplantationen und Risikofaktoren
Authors: Riediger Carina , Schweipert Johannes , Weitz Jürgen 
Published: July 2022

ZusammenfassungDie Lebertransplantation ist die einzige kurative Therapieoption einer chronischen Leberinsuffizienz im Endstadium. Daneben stellen onkologische Lebererkrankungen wie das HCC eine weitere
Indikation für die Lebertransplantation dar, ebenso wie das akute Leberversagen.Seit der ersten erfolgreichen Lebertransplantation durch Professor Thomas E. Starzl im Jahr 1967 haben sich nicht nur die chirurgischen, immunologischen und anästhesiologischen Techniken
und Möglichkeiten geändert, sondern auch die Indikationen und das Patientengut. Hinzu kommt, dass die Empfänger ein zunehmendes Lebensalter und damit einhergehend mehr Begleiterkrankungen
aufweisen.Die Zahl an Lebertransplantationen ist weltweit weiter ansteigend. Es benötigen aber mehr Menschen eine Lebertransplantation, als Organe zur Verfügung stehen. Dies liegt am zunehmenden
Bedarf an Spenderorganen bei gleichzeitig weiter rückläufiger Zahl postmortaler Organspenden.Diese Diskrepanz zwischen Spenderorganen und Empfängern kann nur zu einem kleinen Teil durch Split-Lebertransplantationen oder die Leberlebendspende kompensiert werden.Um den Spenderpool zu erweitern, werden zunehmend auch marginale Organe, die nur die erweiterten Spenderkriterien („extended donor criteria [EDC]“) erfüllen, allokiert. In manchen Ländern
zählen hierzu auch die sogenannten DCD-Organe (DCD: „donation after cardiac death“), d. h. Organe, die erst nach dem kardiozirkulatorischen Tod des Spenders entnommen werden.Es ist bekannt, dass marginale Spenderorgane mit einem erhöhten Risiko für ein schlechteres Transplantat- und Patientenüberleben nach Lebertransplantation einhergehen.Um die Qualität marginaler Spenderorgane zu verbessern, hat sich eine rasante Entwicklung der Techniken der Organkonservierung über die letzten Jahre gezeigt. Mit der maschinellen
Organperfusion besteht beispielsweise die Möglichkeit, die Organqualität deutlich zu verbessern. Insgesamt haben sich die Risikokonstellationen von Spenderorgan und Transplantatempfänger
deutlich geändert.Aus diesem Grunde ist es von großer Bedeutung, spezifische Prädiktoren für eine erfolgreiche Lebertransplantation sowie die entsprechenden Risikofaktoren für einen schlechten postoperativen
Verlauf zu kennen, um das bestmögliche Transplantat- und Patientenüberleben nach Lebertransplantation zu ermöglichen.Diese Einflussfaktoren, inklusive möglicher Risiko-Scores, sollen hier ebenso wie die neuen technischen Möglichkeiten in der Lebertransplantation beleuchtet werden.