bluuebunny/crossref_metadata_2025_split huggingface dataset:
Extrachromosomal circular DNA and structural variants highlight genome instability in Arabidopsis epigenetic mutants
Authors: Zhang Panpan , Mbodj Assane , Soundiramourtty Abirami , Llauro Christel , Ghesquière Alain , Ingouff Mathieu , Keith Slotkin R. , Pontvianne Frédéric , Catoni Marco , Mirouze Marie 
Published: August 2023

AbstractAbundant extrachromosomal circular DNA (eccDNA) is associated with transposable element (TE) activity. However, how the eccDNA compartment is controlled by epigenetic regulations and what is its impact on the genome is understudied. Here, using long reads, we sequence both the eccDNA compartment and the genome of Arabidopsis thaliana mutant plants affected in DNA methylation and post-transcriptional gene silencing. We detect a high load of TE-derived eccDNA with truncated and chimeric forms. On the genomic side, on top of truncated and full length TE neo-insertions, we detect complex structural variations (SVs) notably at a disease resistance cluster being a natural hotspot of SV. Finally, we serendipitously identify large tandem duplications in hypomethylated plants, suggesting that SVs could have been overlooked in epigenetic mutants. We propose that a high eccDNA load may alter DNA repair pathways leading to genome instability and the accumulation of SVs, at least in plants.
Plasmodium falciparum resistant to artemisinin and diagnostics have emerged in Ethiopia
Authors: Fola Abebe A. , Feleke Sindew M. , Mohammed Hussein , Brhane Bokretsion G. , Hennelly Christopher M. , Assefa Ashenafi , Crudal Rebecca M. , Reichert Emily , Juliano Jonathan J. , Cunningham Jane , Mamo Hassen , Solomon Hiwot , Tasew Geremew , Petros Beyene , Parr Jonathan B. , Bailey Jeffrey A. 
Published: August 2023

AbstractDiagnosis and treatment of Plasmodium falciparum infections are required for effective malaria control and are pre-requisites for malaria elimination efforts; hence we need to monitor emergence, evolution and spread of drug- and diagnostics-resistant parasites. We deep sequenced key drug-resistance mutations and 1,832 SNPs in the parasite genomes of 609 malaria cases collected during a diagnostic-resistance surveillance study in Ethiopia. We found that 8.0% (95% CI 7.0–9.0) of malaria cases were caused by P. falciparum carrying the candidate artemisinin partial-resistance kelch13 (K13) 622I mutation, which was less common in diagnostic-resistant parasites mediated by histidine-rich proteins 2 and 3 (pfhrp2/3) deletions than in wild-type parasites (P = 0.03). Identity-by-descent analyses showed that K13 622I parasites were significantly more related to each other than to wild type (P < 0.001), consistent with recent expansion and spread of this mutation. Pfhrp2/3-deleted parasites were also highly related, with evidence of clonal transmissions at the district level. Of concern, 8.2% of K13 622I parasites also carried the pfhrp2/3 deletions. Close monitoring of the spread of combined drug- and diagnostic-resistant parasites is needed.
A new approach for simulating inhomogeneous chemical kinetics
Authors: Bradshaw Georgia , O’Leary Mel , Purser Arthur S. F. , Villagomez-Bernabe Balder , Wyett Cyrus , Currell Frederick , Webb Marcus 
Published: August 2023

AbstractIn this paper, inhomogeneous chemical kinetics are simulated by describing the concentrations of interacting chemical species by a linear expansion of basis functions in such a manner that the coupled reaction and diffusion processes are propagated through time efficiently by tailor-made numerical methods. The approach is illustrated through modelling $$\alpha$$
α
- and $$\gamma$$
γ
-radiolysis in thin layers of water and at their solid interfaces from the start of the chemical phase until equilibrium was established. The method’s efficiency is such that hundreds of such systems can be modelled in a few hours using a single core of a typical laptop, allowing the investigation of the effects of the underlying parameter space. Illustrative calculations showing the effects of changing dose-rate and water-layer thickness are presented. Other simulations are presented which show the approach’s capability to solve problems with spherical symmetry (an approximation to an isolated radiolytic spur), where the hollowing out of an initial Gaussian distribution is observed, in line with previous calculations. These illustrative simulations show the generality and the computational efficiency of this approach to solving reaction-diffusion problems. Furthermore, these example simulations illustrate the method’s suitability for simulating solid-fluid interfaces, which have received a lot of experimental attention in contrast to the lack of computational studies.
Performance of Bayesian EWMA control chart with measurement error under ranked set sampling schemes with application in industrial engineering
Authors: Wang Yuzhen , Khan Imad , Noor-ul-Amin Muhammad , Javaid Amjad , Khan Dost Muhammad , Alshanbari Huda M. 
Published: August 2023

AbstractThe objective of this study is to investigate the behavior of the Bayesian exponentially weighted moving average (EWMA) control chart in the presence of measurement error (ME). It explores the impact of different ranked set sampling designs and loss functions on the performance of the control chart when ME is present. The analysis incorporates a covariate model, multiple measurement methods, and a conjugate prior to account for ME. The performance evaluation of the proposed Bayesian EWMA control chart with ME includes metrics such as average run length and standard deviation of run lengths. The findings, obtained through Monte Carlo simulation and real data application, indicated that ME significantly affects the performance of the Bayesian EWMA control chart when RSS schemes are employed. Particularly noteworthy is the superior performance of the median RSS scheme compared to the other two schemes in the presence of ME.
Impact of the COVID-19 pandemic on severe non-SARS-CoV-2 community-acquired pneumonia in Reunion Island: a multicenter retrospective observational study, 2016–2021
Authors: Combe Agathe , Kovacs David , de Mangou Axel , Miltgen Guillaume , Traversier Nicolas , Belmonte Olivier , Simon Olivier , Vidal Charles , Coolen-Allou Nathalie , Allyn Jérôme , Allou Nicolas 
Published: August 2023

AbstractThe Coronavirus 2019 (COVID-19) pandemic has had a considerable impact on the incidence of severe community-acquired pneumonia (CAP) worldwide. The aim of this study was to assess the early impact of the COVID-19 pandemic in the Reunion Island. This multicenter retrospective observational study was conducted from 2016 to 2021 in the hospitals of Reunion Island. The incidence of severe non-SARS-CoV-2 CAP, microorganisms, characteristics and outcomes of patients hospitalized in intensive care unit were compared between the pre-COVID-19 period (January 1, 2016 to February 29, 2020) and the early COVID-19 period (March 1, 2020 to October 31, 2021). Over the study period, 389 patients developed severe non-SARS-CoV-2 CAP. The incidence of severe non-SARS-CoV-2 CAP significantly decreased between the two periods (9.16 vs. 4.13 cases per 100,000 person-years). The influenza virus was isolated in 43.5% patients with severe non-SARS-CoV-2 CAP in the pre-COVID-19 period and in none of the 60 patients in the early COVID-19 period (P < 0.0001). The only virus that did not decrease was rhinovirus. Streptococcus pneumoniae was the most frequently isolated bacterial microorganism, with no significant difference between the two periods. In Reunion Island, the COVID-19 pandemic led to a significant decrease in the incidence of influenza, which likely explains the observed decrease in the incidence of severe non-SARS-CoV-2 CAP. The pandemic had no impact on the incidence of other viral and bacterial severe non-SARS-CoV-2 CAP. Monitoring influenza incidence is crucial now that COVID-19 control measures have been removed.
Accuracy of Devereux and Teichholz formulas for left ventricular mass calculation in different geometric patterns: comparison with cardiac magnetic resonance imaging
Authors: Sveric Krunoslav Michael , Cansız Barış , Winkler Anna , Ulbrich Stefan , Ende Georg , Heidrich Felix , Kaliske Michael , Linke Axel , Jellinghaus Stefanie 
Published: August 2023

AbstractLeft ventricular (LV) myocardial mass is important in the evaluation of cardiac remodeling and requires accurate assessment when performed on linear measurements in two-dimensional echocardiography (Echo). We aimed to compare the accuracy of the Devereux formula (DEV) and the Teichholz formula (TEICH) in calculating LV myocardial mass in Echo using cardiac magnetic resonance (CMR) as the reference method. Based on preceding mathematical calculations, we identified primarily LV size rather than wall thickness as the main source of bias between DEV and TEICH in a retrospective derivation cohort (n = 1276). Although LV mass from DEV and TEICH were correlated with CMR, TEICH did not show a proportional bias as did DEV (− 2 g/m2 vs. + 22 g/m2). This could be validated in an independent prospective cohort (n = 226) with symptomatic non-ischemic heart failure. DEV systematically overestimated LV mass in all tiers of LV remodeling as compared to TEICH. In conclusion, the TEICH method accounts for the changes in LV geometry with increasing LV mass and thus better reflects the different pattern of LV remodeling than the DEV method. This has important clinical implications, as TEICH may be more appropriate for use in clinical practice, rather than DEV, currently recommended.
Generating high repetition rate X-ray attosecond pulses in a diffraction limited storage ring
Authors: Liu Weihang , Zhao Yu , Jiao Yi , Wang Sheng 
Published: August 2023

AbstractTo steer and track electron motion in atoms, molecules, and nanostructures, light pulses with attosecond duration and high repetition rate are required. In this paper, we use the angular dispersion-induced microbunching scheme and a few-cycle laser within a straight section (a few meters) of a diffraction-limited storage ring to generate a coherent high-flux attosecond pulse in the water window region. Simulation results based on the Southern Advanced Photon Source indicate that the proposed method can generate a chirp-free Fourier transform limited pulse with a minimum duration of 50 as, a maximum repetition rate of a few MHz, and a maximum average flux of about $$4.4\times 10^{11}$$

4.4
×

10
11

photons/s/1%Bw.
Heavy metal exposure linked to metabolic syndrome in Korean male firefighters: FRESH cohort cross-sectional analysis
Authors: Choi Jee Eun , Bae Mun-Joo , Kim Mi-Ji , Oh Sung Soo , Park Ki Soo , Lee Chan Joo , Park Sungha , Koh Sang-Baek , Cho Jaelim , Kim Changsoo 
Published: August 2023

AbstractThis study aimed to identify the relationship between blood lead and Cadmium (Cd) concentrations and metabolic syndromes (MetS), including its components (central obesity, hypertriglyceridemia, low high-density lioioritein, hypertension, and hyperglycemia) among Korean firefighters. A total of 965 firefighters of the Enhancement of Safety and Health cohort were analyzed in this study. MetS was defined according to the 2005 revised National Cholesterol Education Program-Adult Treatment Panel III criteria and the Korean Society for the Study of Obesity criteria for waist circumference. The collected data were analyzed using a logistic regression model. Of the 965 participants, 190 (19.7%) had MetS. After adjusting for age, body mass index, smoking, drinking, exercise, shift duty, and main duty position, the Cd level was significantly associated with an increased risk of MetS in the Korean firefighter population (odds ratio [OR] = 1.62, 95% confidence interval [CI] 1.07, 2.46). This association was significant among non-smokers and ex-smokers (OR = 1.58, 95% CI 1.03, 2.43), non-drinkers and ex-drinkers (OR = 1.77, 95% CI 1.06, 2.94), firefighters aged 40 year or older (OR = 1.77, 95% CI 1.10, 2.86), and office administrators (OR = 3.85, 95% CI 1.42, 10.39). This outcome suggests that exposure to Cd is likely to increase risk of MetS among firefighters.
The yeast guanine nucleotide exchange factor Sec7 is a bottleneck in spatial protein quality control and detoxifies neurological disease proteins
Authors: Babazadeh Roja , Schneider Kara L. , Fischbach Arthur , Hao Xinxin , Liu Beidong , Nystrom Thomas 
Published: August 2023

AbstractER-to-Golgi trafficking partakes in the sorting of misfolded cytoplasmic proteins to reduce their cytological toxicity. We show here that yeast Sec7, a protein involved in proliferation of the Golgi, is part of this pathway and participates in an Hsp70-dependent formation of insoluble protein deposits (IPOD). Sec7 associates with the disaggregase Hsp104 during a mild heat shock and increases the rate of Hsp104 diffusion in an Hsp70-dependent manner when overproduced. Sec7 overproduction increased formation of IPODs from smaller aggregates and mitigated the toxicity of Huntingtin exon-1 upon heat stress while Sec7 depletion increased sensitivity to aẞ42 of the Alzheimer’s disease and α-synuclein of the Parkinson’s disease, suggesting a role of Sec7 in mitigating proteotoxicity.
Image encryption using binary polarization states of light beam
Authors: Shikder Allarakha , Nishchal Naveen K. 
Published: August 2023

AbstractOptical image/data encryption techniques are mostly based on the manipulation of spatial distributions of light's amplitude, phase, and polarization. Information encoding with phase involves complex interferometric set-up and polarization encoding requires Stoke’s parameter measurement. Hence, they create difficulties in optical implementation. Considering the practical limitations, in this study, we demonstrate a method of single-shot intensity recording-based color image encryption by encoding the information in binary polarization states. The proposed method does not require Stoke parameter calculation. As a proof-of-concept, we demonstrated the technique with coherent and partially coherent light sources. Use of partially coherent light overcomes the speckle problem and makes the system cost-effective, useful for practical applications.
Cardioprotective effect of epigallocatechin gallate in myocardial ischemia/reperfusion injury and myocardial infarction: a meta-analysis in preclinical animal studies
Authors: Wei Xin-Yu , Zeng Yi-Fan , Guo Qi-Hao , Liu Ji-Jia , Yin Ni , Liu Yan , Zeng Wen-Jing 
Published: August 2023

AbstractThis meta-analysis aims to determine the efficacy of Epigallocatechin gallate (EGCG) in the treatment of myocardial ischemia–reperfusion injury (MIRI) and summarize the mechanisms involved. Literature from six databases including Web of Science, PubMed, Embase, China National Knowledge Infrastructure (CNKI), Wan-Fang database, and VIP database (VIP) were systematically searched. All the analysis were conducted by R. Twenty-five eligible studies involving 443 animals were included in this meta-analysis. The results indicated that compared to controls, EGCG exerts a cardioprotective effect by reducing myocardial infarct size (SMD = −4.06; 95% CI: −5.17, −2.94; P < 0.01; I2 = 77%). The funnel plot revealed publication bias. Moreover, EGCG significantly improves cardiac function, serum myocardial injury enzyme, and oxidative stress levels in MIRI animal models. This meta-analysis demonstrates that EGCG exhibits therapeutic promise in animal models of MIRI. However, further validation is still needed in large animal models and large clinical studies.
A new interpretable belief rule base model with step-length convergence strategy for aerospace relay health state assessment
Authors: Yin Xiuxian , Xu Bing , Hu Laihong , Li Hongyu , He Wei 
Published: August 2023

AbstractHealth state assessment is an important measure to maintain the safety of aerospace relays. Due to the uncertainty within the relay system, the accuracy of the model assessment is challenged. In addition, the opaqueness of the process and incomprehensibility of the results tend to lose trust in the model, especially in high security fields, so it is crucial to maintain the interpretability of the model. Thus, this paper proposes a new interpretable belief rule base model with step-length convergence strategy (IBRB-Sc) for aerospace relay health state assessment. First, general interpretability criteria for BRB are considered, and strategies for maintaining model interpretability are designed. Second, the evidential reasoning (ER) method is used as the inference machine. Then, optimization is performed based on the Interpretable Projection Covariance Matrix Adaptive Evolution Strategy (IP-CMA-ES). Finally, the validity of the model is verified using the JRC-7M aerospace relay as a case study. Comparative experiments show that the proposed model maintains high accuracy and achieves advantages in interpretability.
Pilot-scale testing of natural gas pipeline monitoring based on phase-OTDR and enhanced scatter optical fiber cable
Authors: Lalam Nageswara , Westbrook Paul , Naeem Khurram , Lu Ping , Ohodnicki Paul , Diemler Nathan , Buric Michael P. , Wright Ruishu 
Published: August 2023

AbstractIn this paper, we present the results of lab and pilot-scale testing of a continuously enhanced backscattering, or Rayleigh enhanced fiber cable that can improve distributed acoustic sensing performance. In addition, the Rayleigh-enhanced fiber is embedded within a tight buffered cable configuration to withstand and be compatible for field applications. The sensing fiber cable exhibits a Rayleigh enhancement of 13 dB compared to standard silica single-mode fiber while maintaining low attenuation of ≤ 0.4 dB/km. We built a phase-sensitive optical time domain reflectometry system to interrogate the enhanced backscattering fiber cable both in lab and pilot-scale tests. In the laboratory experiment, we analyzed the vibration performance of the enhanced backscattering fiber cable and compared it with the standard single-mode telecom fiber. Afterward, we field validated for natural gas pipeline vibration monitoring using a 4-inch diameter steel pipeline operating at a fixed pressure level of 1000 psi, and a flow rate of 5, 10, 15, and 20 ft/s. The feasibility of gas pipeline monitoring with the proposed enhanced backscattering fiber cable shows a substantial increase in vibration sensing performance. The pilot-scale testing results demonstrated in this paper enable pipeline operators to perform accurate flow monitoring, leak detection, third-party intrusion detection, and continuous pipeline ground movement.
Understanding and applying biological resilience, from genes to ecosystems
Authors: Thorogood Rose , Mustonen Ville , Aleixo Alexandre , Aphalo Pedro J. , Asiegbu Fred O. , Cabeza Mar , Cairns Johannes , Candolin Ulrika , Cardoso Pedro , Eronen Jussi T. , Hällfors Maria , Hovatta Iiris , Juslén Aino , Kovalchuk Andriy , Kulmuni Jonna , Kuula Liisa , Mäkipää Raisa , Ovaskainen Otso , Pesonen Anu-Katriina , Primmer Craig R. , Saastamoinen Marjo , Schulman Alan H. , Schulman Leif , Strona Giovanni , Vanhatalo Jarno 
Published: August 2023

AbstractThe natural world is under unprecedented and accelerating pressure. Much work on understanding resilience to local and global environmental change has, so far, focussed on ecosystems. However, understanding a system’s behaviour requires knowledge of its component parts and their interactions. Here we call for increased efforts to understand ‘biological resilience’, or the processes that enable components across biological levels, from genes to communities, to resist or recover from perturbations. Although ecologists and evolutionary biologists have the tool-boxes to examine form and function, efforts to integrate this knowledge across biological levels and take advantage of big data (e.g. ecological and genomic) are only just beginning. We argue that combining eco-evolutionary knowledge with ecosystem-level concepts of resilience will provide the mechanistic basis necessary to improve management of human, natural and agricultural ecosystems, and outline some of the challenges in achieving an understanding of biological resilience.
An Experimental Evaluation of the Capiox 1.6 and 5.4M2 Membrane Oxygenators for Air Removal Efficiency in the Conventional and Inverted Positions
Authors: Berryessa Richard G. , Tyndal Charles M. , Osbourn Devona 
Published: August 2023

Membrane oxygenators do not create bubbles but most will transmit the bubbles which are common in venous reservoir bags. We previously reported the elimination of arterial micro-air in the 0.8m2 Capiox when operated in the inverted position with an open purge line. This same lung failed to eliminate micro-air when operated in the conventional orientation.
The purpose of this study was to test the effectiveness of the Capiox as a bubble trap in lungs with a larger surface area (subgroup a-1.6m2) (subgroup b-5.4m2) and at higher flows.
Two test circuits were constructed for each size lung (Group 1—conventional orientation) (Group 11—inverted). The circuits were primed with dilute, outdated human blood (Hct. 20 ± 2%). Ten injections of air (5ml) were done for each lung in both test positions. A bubble counter on the outlet side of the lung was used to count bubbles passed through the membrane oxygenator following the air challenge.
Thirty second counts were significantly higher (p<.001) in Group I than in Group II for both size lungs. The counts for both groups were:

Group I(alb)
Group II-inverted (alb)
Size

39.4 ± 20.2/30.7 ± 7.8
0.6 ± 0.96/2.0 ± 1.3
(21-30μ),

23.6 ± 11.6/19.6 ± 7.93
0.22 ± 0.6/0.2 ± 0.6
(31-40μ),

18.8 ± 9.13/13.4 ± 4.03
0/0.1 ± 0.3
(41-50μ),

14.5 ± 7.53/21.1 ± 2.99
0/0
(51-60μ),

10.7 ± 6.38/10.1 ± 3.18
0/0
(61-70μ),

8.6 ± 3.47/7.5 ± 3.5
0/0
(71-80μ),

7.9 ± 3.51/5.7 ± 2.91
0/0
(81-90μ)

17.7± 14.67/50.0 ± 4.52
0/0
(>90μ).

The inverted orientation of both the Capiox 1.6 and 5.4 m2 lungs with an open purge line was superior to the conventional orientation for micro-air removal. As a bubble trap, both lungs compare favorably to an arterial filter in air handling characteristics.
(All data reported as mean ± S.D.).
Updates in Robotic Head and Neck Reconstructive Surgery
Authors: Hajek Michael , Yao Christopher M.K.L. 
Published: August 2023

AbstractThe use of robotics in head and neck surgery has drastically increased over the past two decades. Transoral robotic surgery has revolutionized the surgical approach to the upper aerodigestive tract including the oropharynx and supraglottic larynx. The expanded use and improving technology of robotics have allowed for new approaches in both the ablative and reconstructive aspects of head and neck surgery. Here, we discuss the recent updates in robotics in head and neck surgery and future directions the field may turn.
Intracranial MRI Findings in a Patient with FBXO11-Related Disorder
Authors: Chandra Vishal , Aggarwal Anjali , Moen Amanda , Strul Sasha , Özütemiz Can 
Published: August 2023

Abstract
FBXO11-related intellectual developmental disorder with dysmorphic facies and behavioral abnormalities is a rare genetic disorder. Brain magnetic resonance imaging (MRI) findings associated with this disorder have been sparsely described in literature. This case report describes and depicts brain MRI of a patient with FBXO11-related disorder. The radiologic findings within this report aim to improve the knowledge of the radiologists and clinicians in the detection of this rare condition.