bluuebunny/crossref_metadata_2025_split huggingface dataset:
Revisiting COVID-19 vaccine hesitancy around the world using data from 23 countries in 2021
Authors: Lazarus Jeffrey V. , Wyka Katarzyna , White Trenton M. , Picchio Camila A. , Rabin Kenneth , Ratzan Scott C. , Parsons Leigh Jeanna , Hu Jia , El-Mohandes Ayman 
Published: July 2022

AbstractThe COVID-19 pandemic continues to impact daily life, including health system operations, despite the availability of vaccines that are effective in greatly reducing the risks of death and severe disease. Misperceptions of COVID-19 vaccine safety, efficacy, risks, and mistrust in institutions responsible for vaccination campaigns have been reported as factors contributing to vaccine hesitancy. This study investigated COVID-19 vaccine hesitancy globally in June 2021. Nationally representative samples of 1,000 individuals from 23 countries were surveyed. Data were analyzed descriptively, and weighted multivariable logistic regressions were used to explore associations with vaccine hesitancy. Here, we show that more than three-fourths (75.2%) of the 23,000 respondents report vaccine acceptance, up from 71.5% one year earlier. Across all countries, vaccine hesitancy is associated with a lack of trust in COVID-19 vaccine safety and science, and skepticism about its efficacy. Vaccine hesitant respondents are also highly resistant to required proof of vaccination; 31.7%, 20%, 15%, and 14.8% approve requiring it for access to international travel, indoor activities, employment, and public schools, respectively. For ongoing COVID-19 vaccination campaigns to succeed in improving coverage going forward, substantial challenges remain to be overcome. These include increasing vaccination among those reporting lower vaccine confidence in addition to expanding vaccine access in low- and middle-income countries.
Transcription factor paralogs orchestrate alternative gene regulatory networks by context-dependent cooperation with multiple cofactors
Authors: Feng Siqian , Rastogi Chaitanya , Loker Ryan , Glassford William J. , Tomas Rube H. , Bussemaker Harmen J. , Mann Richard S. 
Published: July 2022

AbstractIn eukaryotes, members of transcription factor families often exhibit similar DNA binding properties in vitro, yet orchestrate paralog-specific gene regulatory networks in vivo. The serially homologous first (T1) and third (T3) thoracic legs of Drosophila, which are specified by the Hox proteins Scr and Ubx, respectively, offer a unique opportunity to address this paradox in vivo. Genome-wide analyses using epitope-tagged alleles of both Hox loci in the T1 and T3 leg imaginal discs, the precursors to the adult legs and ventral body regions, show that ~8% of Hox binding is paralog-specific. Binding specificity is mediated by interactions with distinct cofactors in different domains: the Hox cofactor Exd acts in the proximal domain and is necessary for Scr to bind many of its paralog-specific targets, while in the distal leg domain, the homeodomain protein Distal-less (Dll) enhances Scr binding to a different subset of loci. These findings reveal how Hox paralogs, and perhaps paralogs of other transcription factor families, orchestrate alternative downstream gene regulatory networks with the help of multiple, context-specific cofactors.
Separating natural from human enhanced methane emissions in headwater streams
Authors: Zhu Yizhu , Jones J. Iwan , Collins Adrian L. , Zhang Yusheng , Olde Louise , Rovelli Lorenzo , Murphy John F. , Heppell Catherine M. , Trimmer Mark 
Published: July 2022

AbstractHeadwater streams are natural sources of methane but are suffering severe anthropogenic disturbance, particularly land use change and climate warming. The widespread intensification of agriculture since the 1940s has increased the export of fine sediments from land to streams, but systematic assessment of their effects on stream methane is lacking. Here we show that excess fine sediment delivery is widespread in UK streams (n = 236) and, set against a pre-1940s baseline, has markedly increased streambed organic matter (23 to 100 g m−2), amplified streambed methane production and ultimately tripled methane emissions (0.2 to 0.7 mmol CH4 m−2 d−1, n = 29). While streambed methane production responds strongly to organic matter, we estimate the effect of the approximate 0.7 °C of warming since the 1940s to be comparatively modest. By separating natural from human enhanced methane emissions we highlight how catchment management targeting the delivery of excess fine sediment could mitigate stream methane emissions by some 70%.
Molecular dissection of the glutamine synthetase-GlnR nitrogen regulatory circuitry in Gram-positive bacteria
Authors: Travis Brady A. , Peck Jared V. , Salinas Raul , Dopkins Brandon , Lent Nicholas , Nguyen Viet D. , Borgnia Mario J. , Brennan Richard G. , Schumacher Maria A. 
Published: July 2022

AbstractHow bacteria sense and respond to nitrogen levels are central questions in microbial physiology. In Gram-positive bacteria, nitrogen homeostasis is controlled by an operon encoding glutamine synthetase (GS), a dodecameric machine that assimilates ammonium into glutamine, and the GlnR repressor. GlnR detects nitrogen excess indirectly by binding glutamine-feedback-inhibited-GS (FBI-GS), which activates its transcription-repression function. The molecular mechanisms behind this regulatory circuitry, however, are unknown. Here we describe biochemical and structural analyses of GS and FBI-GS-GlnR complexes from pathogenic and non-pathogenic Gram-positive bacteria. The structures show FBI-GS binds the GlnR C-terminal domain within its active-site cavity, juxtaposing two GlnR monomers to form a DNA-binding-competent GlnR dimer. The FBI-GS-GlnR interaction stabilizes the inactive GS conformation. Strikingly, this interaction also favors a remarkable dodecamer to tetradecamer transition in some GS, breaking the paradigm that all bacterial GS are dodecamers. These data thus unveil unique structural mechanisms of transcription and enzymatic regulation.
Mouse pulmonary interstitial macrophages mediate the pro-tumorigenic effects of IL-9
Authors: Fu Yongyao , Pajulas Abigail , Wang Jocelyn , Zhou Baohua , Cannon Anthony , Cheung Cherry Cheuk Lam , Zhang Jilu , Zhou Huaxin , Fisher Amanda Jo , Omstead David T. , Khan Sabrina , Han Lei , Renauld Jean-Christophe , Paczesny Sophie , Gao Hongyu , Liu Yunlong , Yang Lei , Tighe Robert M. , Licona-Limón Paula , Flavell Richard A. , Takatsuka Shogo , Kitamura Daisuke , Sun Jie , Bilgicer Basar , Sears Catherine R. , Yang Kai , Kaplan Mark H. 
Published: July 2022

AbstractAlthough IL-9 has potent anti-tumor activity in adoptive cell transfer therapy, some models suggest that it can promote tumor growth. Here, we show that IL-9 signaling is associated with poor outcomes in patients with various forms of lung cancer, and is required for lung tumor growth in multiple mouse models. CD4+ T cell-derived IL-9 promotes the expansion of both CD11c+ and CD11c− interstitial macrophage populations in lung tumor models. Mechanistically, the IL-9/macrophage axis requires arginase 1 (Arg1) to mediate tumor growth. Indeed, adoptive transfer of Arg1+ but not Arg1- lung macrophages to Il9r−/− mice promotes tumor growth. Moreover, targeting IL-9 signaling using macrophage-specific nanoparticles restricts lung tumor growth in mice. Lastly, elevated expression of IL-9R and Arg1 in tumor lesions is associated with poor prognosis in lung cancer patients. Thus, our study suggests the IL-9/macrophage/Arg1 axis is a potential therapeutic target for lung cancer therapy.
Design, fabrication and testing of 3D printed smartphone-based device for collection of intrinsic fluorescence from human cervix
Authors: Shukla Shivam , Sah Amar Nath , Hatiboruah Diganta , Ahirwar Shikha , Nath Pabitra , Pradhan Asima 
Published: July 2022

AbstractFluorescence spectroscopy has the potential to identify discriminatory signatures, crucial for early diagnosis of cervical cancer. We demonstrate here the design, fabrication and testing of a 3D printed smartphone based spectroscopic device. Polarized fluorescence and elastic scattering spectra are captured through the device using a 405 nm laser and a white LED source respectively. The device has been calibrated by comparison of spectra of standard fluorophores (Flavin adenine dinucleotide, fluorescein, rhodamine, and porphyrin) with the corresponding spectra collected from a commercial spectrometer. A few cervical tissue spectra have also been captured for proof of its applicability as a portable, standalone device for the collection of intrinsic fluorescence spectra from human cervix.
Leaf bacterial microbiota response to flooding is controlled by plant phenology in wheat (Triticum aestivum L.)
Authors: Francioli Davide , Cid Geeisy , Hajirezaei Mohammad-Reza , Kolb Steffen 
Published: July 2022

AbstractLeaf microbiota mediates foliar functional traits, influences plant fitness, and contributes to various ecosystem functions, including nutrient and water cycling. Plant phenology and harsh environmental conditions have been described as the main determinants of leaf microbiota assembly. How climate change may modulate the leaf microbiota is unresolved and thus, we have a limited understanding on how environmental stresses associated with climate change driven weather events affect composition and functions of the microbes inhabiting the phyllosphere. Thus, we conducted a pot experiment to determine the effects of flooding stress on the wheat leaf microbiota. Since plant phenology might be an important factor in the response to hydrological stress, flooding was induced at different plant growth stages (tillering, booting and flowering). Using a metabarcoding approach, we monitored the response of leaf bacteria to flooding, while key soil and plant traits were measured to correlate physiological plant and edaphic factor changes with shifts in the bacterial leaf microbiota assembly. In our study, plant growth stage represented the main driver in leaf microbiota composition, as early and late plants showed distinct bacterial communities. Overall, flooding had a differential effect on leaf microbiota dynamics depending at which developmental stage it was induced, as a more pronounced disruption in community assembly was observed in younger plants.
Individual variability in foraging success of a marine predator informs predator management
Authors: Freeman Grace , Matthews Erin , Stehr Erin , Acevedo-Gutiérrez Alejandro 
Published: July 2022

AbstractThe complexities of trophic dynamics complicate the management of predator populations. Targeted culling campaigns are one management strategy meant to control predation for the benefit of the prey population. In these campaigns, individual predators are often considered “rogue” based on visitation rates to the site of concern. This definition assumes that all predators impact prey equally. However, individual variability in foraging success may compromise this assumption. To examine this hypothesis, we studied harbor seals preying on adult salmonids during the 2014–2019 fall runs in Whatcom Creek, Bellingham, Washington, USA, and recorded visitation rate and foraging success of individual seals from photographs and field observations. We then used Generalized Linear Mixed-Effects Models to model individual foraging success. Models including harbor seal identity better explained foraging success than models based on visitation rate alone. We concluded that considering intraspecific variability and classifying “rogue individuals” based on foraging success is a more accurate protocol for managing predator populations than relying solely on visitation rate of the predators.
Study on the damage characteristics of overburden of mining roof in deeply buried coal seam
Authors: Long Tianwen , Hou Enke , Xie Xiaoshen , Fan Zhigang , Tan Ermin 
Published: July 2022

AbstractThe study of water-conducting fracture zone development height is key to the scientific prevention and control of water damage in mines. Based on the geological conditions of the Wenjiapo coal mine in Binchang, China, this paper investigates the development of water-conducting fracture zone in overlying bedrock during mining under large buried depth and huge thick aquifer by combining on-site well-location microseismic monitoring and laboratory similar material simulation. To overcome the limitation of the " limited outlook " of water-conducting fracture zone investigation, the spatial development characteristics of roof fissures in coal seam mining were determined by on-site " the underground - ground" combined microseismic monitoring and follow-up monitoring, and the development of overlying rock fracture under the large depth of burial was concluded. The fractures were mainly distributed in the upper part of the protective coal pillar on both sides of the working face, but less in the upper part of the working face, and primarily distributed in the protective coal pillar on the side of the working face and the adjacent mining area. To verify the accuracy of the conclusion, the overlying bedrock movement and deformation characteristics and the development process of the hydraulic fracture zone during coal seam mining were analyzed by simulating similar materials in the laboratory, using the monitored area as a prototype. The results show that the development height of the mining fracture zone obtained from microseismic monitoring is basically consistent with the simulation results of similar materials. The research finding have significant implications for the study of fracture distribution characteristics and the evolution law of mining overburden, and provide a foundation for scientific prevention and control of water damage on the roof.
Detection of SARS-CoV-2 in exhaled breath from non-hospitalized COVID-19-infected individuals
Authors: Leding Cæcilie , Skov Julia , Uhrbrand Katrine , Lisby Jan Gorm , Hansen Katrine Pedersbæk , Benfield Thomas , Duncan Louise Katrine 
Published: July 2022

AbstractThe diagnosis of COVID-19 is based on detection of SARS-CoV-2 in oro-/nasopharyngel swabs, but due to discomfort and minor risk during the swab procedure, detection of SARS-CoV-2 has been investigated in other biological matrixes. In this proof-of-concept study, individuals with confirmed SARS-CoV-2 infection performed a daily air sample for five days. Air samples were obtained through a non-invasive electrostatic air sampler. Detection of SARS-CoV-2 RNA was determined with qRT-PCR. The association of positive samples with different exposures was evaluated through mixed-effect models. We obtained 665 air samples from 111 included participants with confirmed SARS-CoV-2 infection. Overall, 52 individuals (46.8%) had at least one positive air sample, and 129 (19.4%) air samples were positive for SARS-CoV-2. Participants with symptoms or a symptom duration ≤ four days had significantly higher odds of having a positive air sample. Cycle threshold values were significantly lower in samples obtained ≤ 4 days from symptom onset. Neither variant of SARS-CoV-2 nor method of air sampling were associated with a positive air sample. We demonstrate that SARS-CoV-2 is detectable in human breath by electrostatic air sampling with the highest detection rate closest to symptom onset. We suggest further evaluation of the air sampling technique to increase sensitivity.
An accurate alignment-free protein sequence comparator based on physicochemical properties of amino acids
Authors: Akbari Rokn Abadi Saeedeh , Abdosalehi Azam Sadat , Pouyamehr Faezeh , Koohi Somayyeh 
Published: July 2022

AbstractBio-sequence comparators are one of the most basic and significant methods for assessing biological data, and so, due to the importance of proteins, protein sequence comparators are particularly crucial. On the other hand, the complexity of the problem, the growing number of extracted protein sequences, and the growth of studies and data analysis applications addressing protein sequences have necessitated the development of a rapid and accurate approach to account for the complexities in this field. As a result, we propose a protein sequence comparison approach, called PCV, which improves comparison accuracy by producing vectors that encode sequence data as well as physicochemical properties of the amino acids. At the same time, by partitioning the long protein sequences into fix-length blocks and providing encoding vector for each block, this method allows for parallel and fast implementation. To evaluate the performance of PCV, like other alignment-free methods, we used 12 benchmark datasets including classes with homologous sequences which may require a simple preprocessing search tool to select the homologous data. And then, we compared the protein sequence comparison outcomes to those of alternative alignment-based and alignment-free methods, using various evaluation criteria. These results indicate that our method provides significant improvement in sequence classification accuracy, compared to the alternative alignment-free methods and has an average correlation of about 94% with the ClustalW method as our reference method, while considerably reduces the processing time.
Das zerebrospinale venöse System
Authors: Flenker Jan 
Published: July 2022

ZUSAMMENFASSUNGVenen sind aufgrund des Niederdrucks und der geringen Wandspannung besonders
vulnerabel. Venenströme verhalten sich invers kompensatorisch.
Wahrscheinlich können sie sich durch normabweichende
Umgebungsstrukturen zu Perfusions- und Druckdysbalancen aufsummieren. Das
zerebrospinale venöse System bildet mit dem Liquor einen
physikalischen Druckregulator. Beide Volumina stehen zueinander in
Druckhierarchie. Ihre Druckgradienten befinden sich in Abhängigkeit
von Thorax, Abdomen und Hydrostatik. Verschiedene Patholgien von Kopf und
Wirbelsäule könnten auf venösen Druckdysbalancen
beruhen.
The Effect of Financial Incentives on Adherence to Glucose Self-Monitoring during Pregnancy among Patients with Insulin-Requiring Diabetes: A Randomized Clinical Trial
Authors: Wernimont Sarah A. , Fleener Diedre , Summers Karen M. , Deonovic Benjamin , Syrop Craig H. , Andrews Janet I. 
Published: July 2022

Objective Glucose self-monitoring is critical for the management of diabetes in pregnancy, and increased adherence to testing is associated with improved obstetrical outcomes. Incentives have been shown to improve adherence to diabetes self-management. We hypothesized that use of financial incentives in pregnancies complicated by diabetes would improve adherence to glucose self-monitoring.
Study Design We conducted a single center, randomized clinical trial from May 2016 to July 2019. In total, 130 pregnant patients, <29 weeks with insulin requiring diabetes, were recruited. Participants were randomized in a 1:1:1 ratio to one of three payment groups: control, positive incentive, and loss aversion. The control group received $25 upon enrollment. The positive incentive group received 10 cents/test, and the loss aversion group received $100 for >95% adherence and “lost” payment for decreasing adherence. The primary outcome was percent adherence to recommended glucose self-monitoring where adherence was reliably quantified using a cellular-enabled glucometer. Adherence, calculated as the number of tests per day divided by the number of recommended tests per day×100%, was averaged from time of enrollment until admission for delivery.
Results We enrolled 130 participants and the 117 participants included in the final analysis had similar baseline characteristics across the three groups. Average adherence rates in the loss aversion, control and positive incentive groups were 69% (SE=5.12), 57% (SE = 4.60), and 58% (SE=3.75), respectively (p=0.099). The loss aversion group received an average of $50 compared with $38 (positive incentive) and $25 (control).
Conclusion In this randomized clinical trial, loss aversion incentives tended toward higher adherence to glucose self-monitoring among patients whose pregnancies were complicated by diabetes, though did not reach statistical significance. Further studies are needed to determine whether use of incentives improve maternal and neonatal outcomes.
Key Points
Reliability of Biomarkers of Physiological Stress at Rest and Post-exertional Heat Stress
Authors: Snape Daniel , Wainwright Barney , Woods David R , O’Hara John Paul 
Published: July 2022

AbstractThe purpose of this study was to assess the reliability of blood biomarkers that can signify exercise-induced heat stress in hot conditions. Fourteen males completed two heat stress tests separated by 5–7 days. Venous blood was drawn pre- and post- heat stress for the concentration of normetanephrine, metanephrine, serum osmolality, copeptin, kidney-injury molecule 1, and neutrophil gelatinase-associated lipocalin. No biomarker, except copeptin, displayed systematic trial order bias (p≥0.05). Normetanephrine, copeptin and neutrophil gelatinase-associated lipocalin presented acceptable reliability (CV range: 0.9–14.3%), while greater variability was present in metanephrine, osmolality and kidney-injury molecule 1 (CV range: 28.6–43.2%). Normetanephrine exhibited the largest increase (p<0.001) in response to heat stress (trial 1=1048±461 pmol. L-1; trial 2=1067±408 pmol. L-1), whilst kidney-injury molecule 1 presented trivial changes (trial 1=–4±20 ng. L-1; trial 2=2 ± 16 ng. L-1, p>0.05). Normetanephrine, copeptin, and neutrophil gelatinase-associated lipocalin demonstrated good reliability and sensitivity to an acute bout of heat stress. These biomarkers may be suitable for application in laboratory and field research to understand the efficacy of interventions that can attenuate the risk of thermal injury whilst exercising in the heat.
Transbronchial Lung Cryobiopsy for Diffuse Parenchymal Lung Disease
Authors: Ronaghi Reza , Oh Scott 
Published: July 2022

AbstractTransbronchial lung cryobiopsy (TBLC) offers a minimally invasive option for the diagnosis of diffuse parenchymal lung diseases, of which interstitial lung diseases comprise the most common diagnoses. It has a high diagnostic yield with prognostic and therapeutic implications. TBLC has a favorable safety profile compared with surgical lung biopsy, but associated complications include pneumothorax and bleeding. However, TBLC techniques remain variable. Here we review the latest techniques described to maximize diagnostic yield and mitigate complications of TBLC as well as how this modality has been incorporated into guidelines.