bluuebunny/crossref_metadata_2025_split huggingface dataset:
Fast vs. ultraslow thrombolytic infusion regimens in patients with obstructive mechanical prosthetic valve thrombosis: a pilot randomized clinical trial
Authors: Sadeghipour Parham , Saedi Sedigheh , Saneei Leila , Rafiee Farnaz , Yoosefi Siamak , Parsaee Mozhgan , Siami Rashide , Saberi Milad , Pouraliakbar Hamidreza , Ghadrdoost Behshid , Bakhshandeh Hooman , Peighambari Mohammad Mehdi , Farrashi Melody , Mohebbi Bahram , Naderi Nasim , Amin Ahmad , Maleki Majid , Khajali Zahra , De Caterina Raffaele 
Published: December 2021

Abstract

Aims
Thrombolysis is an alternative to surgery for mechanical prosthetic valve thrombosis (MPVT). Randomized clinical trials have yet to test the safety and efficacy of a proposed ultraslow thrombolytic infusion regimen.

Methods and results
This single-centre, open-label, pilot randomized clinical trial randomized adult patients with acute obstructive MPVT to an ultraslow thrombolytic regimen [25 mg of recombinant tissue-type plasminogen activator (rtPA) infused in 25 h] and a fast thrombolytic regimen (50 mg of rtPA infused in 6 h). If thrombolysis failed, a repeated dose of 25 mg of rtPA for 6 h was administered in both groups up to a cumulative dose of 150 mg or the occurrence of a complication. The primary outcome was a complete MPVT resolution (&gt;75% fall in the obstructive gradient by transthoracic echocardiography, &lt;10° limitation in opening and closing valve motion angles by fluoroscopy, and symptom improvement). The key safety outcome was a Bleeding Academic Research Consortium type III or V major bleeding. Overall, 120 patients, including 63 (52.5%) women, at a mean age of 36.3 ± 15.3 years, were randomized. Complete thrombolysis success was achieved in 51 patients (85.0%) in the ultraslow-regimen group and 47 patients (78.3%) in the fast-regimen group [odds ratio 1.58; 95% confidence interval (CI) 0.25–1.63; P = 0.34]. One case of transient ischaemic attack and three cases of intracranial haemorrhage (absolute risk difference −6.6%; 95%CI −12% −0.3%; P = 0.07) were observed only in the fast-regimen group.

Conclusion
The ultraslow thrombolytic regimen conferred a high thrombosis resolution rate without major complications. Such findings should be replicated in more adequately powered trials.
Outpatient prescription patterns of COVID-19 drugs in the metropolitan area of Mexico City
Authors: Fuentes-Gonzalez Maria F , Ordinola Navarro Alberto , Carmona-Aguilera Zully , Hernández-Jimenez Carlos A , Benitez-Altamirano Gustavo M , Beltran-Ontiveros Luis D , Lopez-Vejar Cesar , Ramirez-Hinojosa Juan P , Vera-Lastra Olga , Lopez Luis Bruno A 
Published: December 2021

Abstract

Background
We aimed to describe the use of drugs with apparent efficacy in ambulatory patients with confirmed COVID-19 and the relationship of Google Trends searches with prescriptions and the total number of COVID-19 cases in Mexico City.

Methods
Between March 2020 and February 2021, we surveyed 350 patients confirmed to have COVID-19 across 3 hospitals in Mexico City for their ambulatory prescriptions. We analysed the correlation between prescription patterns of 4 drugs with apparent efficacy against COVID-19, Google Trends searches for these drugs, and the overall number of confirmed COVID-19 cases in Mexico City.

Results
We included 350 patients, of whom 59% were women with a median age of 38 years (interquartile range, 29–51), and 72% had a bachelor’s degree or higher. There were ambulatory medical prescriptions in 172 (49%) patients, and self-prescriptions were reported in 99 (28%) patients. The prescription rate was high for hydroxychloroquine/azithromycin (19%) and dexamethasone (25%). There was a decrease in the prescription of hydroxychloroquine (P &lt; 0.001) and a strong positive correlation between hydroxychloroquine (r = 0.66; 95% confidence interval, 0.11–0.90; P = 0.02) prescription and online searches for hydroxychloroquine. There was a strong positive correlation between online searches for azithromycin, dexamethasone, ivermectin, and vitamin D and the number of confirmed COVID-19 cases.

Conclusions
During the COVID-19 pandemic, there was a high proportion of prescriptions for hydroxychloroquine/azithromycin and dexamethasone despite their unproven efficacy. Analysis of Google Trends showed a strong correlation between the overall number of confirmed COVID-19 cases and searches for such drugs, suggesting a higher rate of prescriptions. Analysis of online searches could thus help to actively survey public health behaviours in the future.
A remote sensing-guided forest inventory concept using multispectral 3D and height information from ZiYuan-3 satellite data
Authors: Wallner Adelheid , Friedrich Stefan , Geier Emanuel , Meder-Hokamp Christoph , Wei Zillin , Kindu Mengistie , Tian Jiaojiao , Döllerer Martin , Schneider Thomas , Knoke Thomas 
Published: December 2021

AbstractIncreased frequencies of storms and droughts due to climate change are changing central European forests more rapidly than in previous decades. To monitor these changes, multispectral 3D remote sensing (RS) data can provide relevant information for forest management and inventory. In this case study, data of the multispectral 3D-capable satellite system ZiYuan-3 (ZY-3) were used in a RS-guided forest inventory concept to reduce the field sample size compared to the standard grid inventory. We first pre-stratified the forest area via the ZY-3 dataset into coniferous, broadleaved and mixed forest types using object-based image analysis. Each forest type was then split into three height strata using the ZY-3 stereo module-derived digital canopy height model (CHM). Due to limited sample sizes, we reduced the nine to six strata. Then, for each of the six strata, we randomly selected representative segments for inventory plot placement. We then conducted field inventories in these plots. The collected field data were used to calculate forest attributes, such as tree species composition, timber volume and canopy height at plot level (terrestrially measured tree height and height information from ZY-3 CHM). Subsequently, we compared the resulting forest attributes from the RS-guided inventory with the reference data from a grid inventory based only on field plots. The difference in mean timber volumes to the reference was +30.21 m3ha−1 (8.99 per cent) for the RS-guided inventory with terrestrial height and −11.32 m3ha−1 (−3.37 per cent) with height information from ZY-3 data. The relative efficiency (RE) indicator was used to compare the different sampling schemes. The RE as compared to a random reduction of the sample size was 1.22 for the RS-guided inventory with terrestrial height measurements and 1.85 with height information from ZY-3 data. The results show that the presented workflow based on 3D ZY-3 data is suitable to support forest inventories by reducing the sample size and hence potentially increase the inventory frequency.
Survey Deficiencies as Quality Indicators in Oregon Assisted Living Communities
Authors: Tunalilar Ozcan , Lin Sunny , Carder Paula 
Published: December 2021

AbstractBackground and ObjectivesLicense inspection data have commonly been used as a quality measure for nursing homes but have not yet been used to assess the quality of assisted living/residential care (AL/RC) communities. Drawing on resource dependency theory, we test the hypothesis that structural and environmental characteristics influence AL/RC quality as measured by deficiency citations (“deficiencies”) issued during license inspections.Research Design and MethodsUsing data from 526 licensed AL/RC communities in Oregon that received a license inspection visit between 2008 and 2016, we examined the prevalence of deficiencies by type and year. We estimated regression models to identify structural and environmental characteristics associated with the number of deficiencies.ResultsMost (79%) inspections resulted in at least one deficiency. The most common deficiencies concerned medications and treatments (57%), change of condition and monitoring (48%), and resident health services (45%). Structural characteristics associated with higher odds of receiving one or more deficiencies included larger size, memory care designation, shorter administrative tenure, and for-profit status. Environmental characteristics associated with higher odds of receiving one or more deficiencies included rural location, lower unemployment, and market concentration. The number and likelihood of a given community receiving a deficiency decreased over time.Discussion and ImplicationsResource dependency theory constitutes a useful framework to consider the role of structural and environmental factors that affect AL/RC quality, including resident needs, institutional knowledge, resource availability, and market pressure. License inspection data are a viable option for assessing the quality of AL/RC communities.
Analysis of fungal high-mannose structures using CAZymes
Authors: Kołaczkowski Bartłomiej M , Jørgensen Christian I , Spodsberg Nikolaj , Stringer Mary A , Supekar Nitin T , Azadi Parastoo , Westh Peter , Krogh Kristian B R M , Jensen Kenneth 
Published: December 2021

Abstract
Glycoengineering ultimately allows control over glycosylation patterns to generate new glycoprotein variants with desired properties. A common challenge is glycan heterogeneity, which may affect protein function and limit the use of key techniques such as mass spectrometry. Moreover, heterologous protein expression can introduce nonnative glycan chains that may not fulfill the requirement for therapeutic proteins. One strategy to address these challenges is partial trimming or complete removal of glycan chains, which can be obtained through selective application of exoglycosidases. Here, we demonstrate an enzymatic O-deglycosylation toolbox of a GH92 α-1,2-mannosidase from Neobacillus novalis, a GH2 β-galactofuranosidase from Amesia atrobrunnea and the jack bean α-mannosidase. The extent of enzymatic O-deglycosylation was mapped against a full glycosyl linkage analysis of the O-glycosylated linker of cellobiohydrolase I from Trichoderma reesei (TrCel7A). Furthermore, the influence of deglycosylation on TrCel7A functionality was evaluated by kinetic characterization of native and O-deglycosylated forms of TrCel7A. This study expands structural knowledge on fungal O-glycosylation and presents a ready-to-use enzymatic approach for controlled O-glycan engineering in glycoproteins expressed in filamentous fungi.
Interaction of huntingtin with PRMTs and its subsequent arginine methylation affects HTT solubility, phase transition behavior and neuronal toxicity
Authors: Ratovitski Tamara , Jiang Mali , O'Meally Robert N , Rauniyar Priyanka , Chighladze Ekaterine , Faragó Anikó , Kamath Siddhi V , Jin Jing , Shevelkin Alexey V , Cole Robert N , Ross Christopher A 
Published: December 2021

Abstract
Huntington’s disease (HD) is an incurable neurodegenerative disorder caused by a CAG expansion in the huntingtin gene (HTT). Post-translational modifications of huntingtin protein (HTT), such as phosphorylation, acetylation and ubiquitination, have been implicated in HD pathogenesis. Arginine methylation/dimethylation is an important modification with an emerging role in neurodegeneration; however, arginine methylation of HTT remains largely unexplored. Here we report nearly two dozen novel arginine methylation/dimethylation sites on the endogenous HTT from human and mouse brain and human cells suggested by mass spectrometry with data-dependent acquisition. Targeted quantitative mass spectrometry identified differential arginine methylation at specific sites in HD patient-derived striatal precursor cell lines compared to normal controls. We found that HTT can interact with several type I protein arginine methyltransferases (PRMTs) via its N-terminal domain. Using a combination of in vitro methylation and cell-based experiments, we identified PRMT4 (CARM1) and PRMT6 as major enzymes methylating HTT at specific arginines. Alterations of these methylation sites had a profound effect on biochemical properties of HTT rendering it less soluble in cells and affected its liquid–liquid phase separation and phase transition patterns in vitro. We found that expanded HTT 1-586 fragment can form liquid-like assemblies, which converted into solid-like assemblies when the R200/205 methylation sites were altered. Methyl-null alterations increased HTT toxicity to neuronal cells, while overexpression of PRMT 4 and 6 was beneficial for neuronal survival. Thus, arginine methylation pathways that involve specific HTT-modifying PRMT enzymes and modulate HTT biochemical and toxic properties could provide targets for HD-modifying therapies.
Identification of the active site and characterization of a novel sporulation-specific cysteine protease YabG fromBacillus subtilis
Authors: Yamazawa Ryuji , Kuwana Ritsuko , Takeuchi Kenji , Takamatsu Hiromu , Nakajima Yoshitaka , Ito Kiyoshi 
Published: December 2021

AbstractIn order to characterize the probable protease gene yabG found in the genomes of spore-forming bacteria, Bacillus subtilis yabG was expressed as a 35 kDa His-tagged protein (BsYabG) inEscherichia coli cells. During purification using Ni-affinity chromatography, the 35 kDa protein was degraded via several intermediates to form a 24 kDa protein. Furthermore, it was degraded after an extended incubation period. The effect of protease inhibitors, including certain chemical modification reagents, on the conversion of the 35 kDa protein to the 24 kDa protein was investigated. Reagents reacting with sulphhydryl groups exerted significant effects strongly suggesting that the yabG gene product is a cysteine protease with autolytic activity. Site-directed mutagenesis of the conserved Cys and His residues indicated that Cys218 and His172 are active site residues. No degradation was observed in the C218A/S and H172A mutants. In addition to the chemical modification reagents, benzamidine inhibitedGraphical Abstract the degradation of the 24 kDa protein. Determination of the N-terminal amino acid sequences of the intermediates revealed trypsin-like specificity for YabG protease. Based on the relative positions of His172 and Cys218 and their surrounding sequences, we propose the classification of YabG as a new family of clan CD in the MEROPS peptidase database.
Adult height in relation to the risk of colorectal cancer among the Japanese population: an evaluation based on systematic review and meta-analysis
Authors: Shrestha Rachana Manandhar , Mizoue Tetsuya , Sawada Norie , Matsuo Keitaro , Wada Keiko , Tanaka Keitaro , Lin Yingsong , Sugawara Yumi , Takimoto Hidemi , Kimura Takashi , Ito Hidemi , Kitamura Tetsuhisa , Sakata Ritsu , Tanaka Shiori , Inoue Manami ,   for the Research Group for the Development and Evaluation of Cancer Prevention Strategies in Japan
Published: December 2021

Abstract

Objective
The association between adult-attained height and risk of colorectal cancer remains elusive among the Japanese population. We performed a systematic review and meta-analysis of epidemiological studies in Japan.

Methods
We systematically searched the MEDLINE (PubMed) and Ichushi databases and complemented it with manual search to identify eligible studies. We extracted relative risks or odds ratios from the selected studies and conducted meta-analysis to estimate the summary relative risk with 95% confidence interval. We made the final judgment based on a consensus of the research group members considering both epidemiological evidence and biological plausibility.

Results
This systematic review identified four cohort and one case–control studies among the Japanese. The meta-analysis of these five studies showed the summary relative risk of 1.21 (95% confidence interval: 1.07–1.35) of overall colorectal cancer for the highest vs. lowest categories of height. In the analysis by the cancer subsite, the association was significant for colon cancer with a summary relative risk of 1.26 (95% confidence interval: 1.10–1.45) but not for rectal cancer 1.05 (95% confidence interval: 0.71–1.54). In the analysis by sex, tall stature was associated with a significantly increased risk of overall colorectal cancer in both sexes; the summary relative risk was 1.21 (95% confidence interval: 1.04–1.41) in men and 1.20 (95% confidence interval: 1.00–1.44) in women, respectively.

Conclusions
The evidence to support that adult-attained height is associated with increased risk of colorectal cancer (colon cancer) among the Japanese population is ‘probable’.
Bilateral synchronous intravaginal testicular torsion presenting with unilateral testicular pain
Authors: Taheem Muhesh Kumar , Ziada M , Arumugam V , Lamond Z , Almpanis S 
Published: December 2021

AbstractAn adolescent presented with a 5 hour of history of unilateral testicular pain and examination findings in keeping with a unilateral testicular torsion. On scrotal exploration, there was evidence of bilateral testicular torsion and bilateral orchidopexy was subsequently performed. Intravaginal bilateral testicular torsion is scarcely reported in adolescents and adults. Both unilateral and bilateral testicular torsions in adolescents are commonly associated with anatomical anomalies, which were not evident in this case. Despite warming the symptomatic testis for 40 minutes, viability was indeterminate. Guidelines remain equivocal about adequate reperfusion period before considering orchiectomy. Interval sonographic follow-up is recommended to assess testicular atrophy; however, considerable variation exists in practice. This is an atypical case of bilateral synchronous testicular torsion demonstrable by an absence of classical risk-factors, alongside unilateral clinical signs and symptoms. Inconsistency in guidelines for attempted reperfusion could result in orchiectomy where testicular salvage is possible.
Multiwavelength observations of the Blazar 4C  + 28.07
Authors: Zargaryan Davit , Mackey Jonathan , Barnouin Thibault , Aharonian Felix 
Published: December 2021

ABSTRACT
The active galactic nucleus 4C  + 28.07 is a flat-spectrum radio quasar, one of the brightest at γ-ray energies. We study its multiwavelength emission by analysing ∼12.3 yr of Fermi-LAT data in the γ-ray band and Swift-X-Ray Telescope (XRT)/Ultraviolet/Optical Telescope (UVOT) available data in X-ray and optical-to-ultraviolet bands. In the γ-ray band, five flaring periods have been detected, and quasi-simultaneously with these flaring times, the X-ray and UVOT data detected by Swift-XRT/UVOT have also been analysed. In one of the brightest flare periods (Flare 5; observed on 2018 October 12), the γ-ray flux reached (6.7 ± 0.81) × 10−6 photon cm−2 s−1 (∼31 × higher than the mean flux over 12.3 yr) with detection significance of σ = 6.1. The estimated variability time (∼2 h) constrains the γ-ray emitting region size to ≤9 × 1014 cm, which is close to the black hole radius. The spectral energy distributions (SEDs) in the γ-ray band for the ∼12.3 yr of data show an early cut-off at ∼14 GeV; beyond ∼60 GeV, however, the spectrum hardens and is detected up to ∼316 GeV. Similar spectral behaviour is also noticeable for the SEDs of flares, which can be linked to the photon absorption by the emitting region’s internal and external narrow-band radiation fields. In the quiescent period, the γ-ray emission was described by the synchrotron self-Compton scenario, while the external photons contributions from the disc and the broad-line region were required to explain the short-term flaring γ-ray emission. Considering the significance of the obtained results from 4C  + 28.07, we compared the parameters with 3C 279 and M87, to motivate further studies.
Genomic Signatures of Sexual Selection on Pollen-Expressed Genes in Arabis alpina
Authors: Gutiérrez-Valencia Juanita , Fracassetti Marco , Horvath Robert , Laenen Benjamin , Désamore Aurélie , Drouzas Andreas D , Friberg Magne , Kolář Filip , Slotte Tanja 
Published: December 2021

Abstract
Fertilization in angiosperms involves the germination of pollen on the stigma, followed by the extrusion of a pollen tube that elongates through the style and delivers two sperm cells to the embryo sac. Sexual selection could occur throughout this process when male gametophytes compete for fertilization. The strength of sexual selection during pollen competition should be affected by the number of genotypes deposited on the stigma. As increased self-fertilization reduces the number of mating partners, and the genetic diversity and heterozygosity of populations, it should thereby reduce the intensity of sexual selection during pollen competition. Despite the prevalence of mating system shifts, few studies have directly compared the molecular signatures of sexual selection during pollen competition in populations with different mating systems. Here we analyzed whole-genome sequences from natural populations of Arabis alpina, a species showing mating system variation across its distribution, to test whether shifts from cross- to self-fertilization result in molecular signatures consistent with sexual selection on genes involved in pollen competition. We found evidence for efficient purifying selection on genes expressed in vegetative pollen, and overall weaker selection on sperm-expressed genes. This pattern was robust when controlling for gene expression level and specificity. In agreement with the expectation that sexual selection intensifies under cross-fertilization, we found that the efficacy of purifying selection on male gametophyte-expressed genes was significantly stronger in genetically more diverse and outbred populations. Our results show that intra-sexual competition shapes the evolution of pollen-expressed genes, and that its strength fades with increasing self-fertilization rates.
PsrA is a novel regulator contributes to antibiotic synthesis, bacterial virulence, cell motility and extracellular polysaccharides production in Serratia marcescens
Authors: Pan Xuewei , Tang Mi , You Jiajia , Osire Tolbert , Sun Changhao , Fu Weilai , Yi Ganfeng , Yang Taowei , Yang Shang-Tian , Rao Zhiming 
Published: December 2021

Abstract
Serratia marcescens is a Gram-negative bacterium of the Enterobacteriaceae family that can produce numbers of biologically active secondary metabolites. However, our understanding of the regulatory mechanisms behind secondary metabolites biosynthesis in S. marcescens remains limited. In this study, we identified an uncharacterized LysR family transcriptional regulator, encoding gene BVG90_12635, here we named psrA, that positively controlled prodigiosin synthesis in S. marcescens. This phenotype corresponded to PsrA positive control of transcriptional of the prodigiosin-associated pig operon by directly binding to a regulatory binding site (RBS) and an activating binding site (ABS) in the promoter region of the pig operon. We demonstrated that L-proline is an effector for the PsrA, which enhances the binding affinity of PsrA to its target promoters. Using transcriptomics and further experiments, we show that PsrA indirectly regulates pleiotropic phenotypes, including serrawettin W1 biosynthesis, extracellular polysaccharide production, biofilm formation, swarming motility and T6SS-mediated antibacterial activity in S. marcescens. Collectively, this study proposes that PsrA is a novel regulator that contributes to antibiotic synthesis, bacterial virulence, cell motility and extracellular polysaccharides production in S. marcescens and provides important clues for future studies exploring the function of the PsrA and PsrA-like proteins which are widely present in many other bacteria.