bluuebunny/crossref_metadata_2025 huggingface dataset:
Flagella are an important virulence factor in the subclinical persistence of Escherichia coli in bovine mammary gland
Authors: Gonçalves Maysa Serpa , Faria Jamila PJ , Silva Juliana R , Custódio Dircéia AC , Ribeiro João B , Guimarães Alessandro de S , Dorneles Elaine MS , Costa Geraldo M
Published: June 2023

We compared the virulence profile and REP-PCR genotypes of Escherichia coli strains isolated from subclinical and clinical mastitis cases and dairy farm environments in Minas Gerais State, Brazil, to determine virulence factors and genotypes potentially associated with subclinical persistence in the udder. The virulence profile was obtained by the search for three virulence genes: lpfA (long polar fimbriae), fliC (flagella), and escN (type III secretion system). Subclinical isolates exhibited mainly the fliC gene (33.33%) and fliC + escN genes (30.30%). Clinical isolates exhibited mainly fliC + escN genes (50%) and environmental isolates the lpfA + escN genes (58.04%). Strains isolated from subclinical mastitis showed 6.75 times more positivity to fliC than environmental isolates. Thirty-four genotypes were observed in the REP-PCR analysis, and clinical mastitis isolates indicated more genetic proximity to dairy farm environment isolates than subclinical mastitis isolates. In conclusion, the results suggested that flagella may be an important virulence factor for mammary persistent E. coli infection in cattle, however, none of the E. coli REP-PCR genotypes were associated with subclinical infection.
Isolation and phase-space energization analysis of the instabilities in collisionless shocks
Authors: Brown C.R. , Juno J. , Howes G.G. , Haggerty C.C. , Constantinou S.
Published: June 2023

We analyse the generation of kinetic instabilities and their effect on the energization of ions in non-relativistic, oblique collisionless shocks using a 3D-3V (three spatial with three velocity components) simulation by dHybridR, a hybrid particle-in-cell code. At sufficiently high Mach number, quasi-perpendicular and oblique shocks can experience rippling of the shock surface caused by kinetic instabilities arising from free energy in the ion velocity distribution due to the combination of the incoming ion beam and the population of ions reflected at the shock front. To understand the role of the ripple on particle energization, we devise a new instability isolation method to identify the unstable modes underlying the ripple and interpret the results in terms of the governing kinetic instability. We generate velocity-space signatures using the field–particle correlation technique to look at energy transfer in phase space from the isolated instability driving the shock ripple, providing a viewpoint on the different dynamics of distinct populations of ions in phase space. Together, the field–particle correlation technique and our new instability isolation method provide a unique viewpoint on the different dynamics of distinct populations of ions in phase space and allow us to completely characterize the energetics of the collisionless shock under investigation.
Early life adversity predicts an accelerated cellular aging phenotype through early timing of puberty
Authors: Hamlat Elissa J. , Neilands Torsten B. , Laraia Barbara , Zhang Joshua , Lu Ake T. , Lin Jue , Horvath Steve , Epel Elissa S.
Published: June 2023

Background

The current study examined if early adversity was associated with accelerated biological aging, and if effects were mediated by the timing of puberty.

Methods

In early mid-life, 187 Black and 198 White (Mage = 39.4, s.d.age = 1.2) women reported on early abuse and age at first menstruation (menarche). Women provided saliva and blood to assess epigenetic aging, telomere length, and C-reactive protein. Using structural equation modeling, we created a latent variable of biological aging using epigenetic aging, telomere length, and C-reactive protein as indicators, and a latent variable of early abuse using indicators of abuse/threat events before age 13, physical abuse, and sexual abuse. We estimated the indirect effects of early abuse and of race on accelerated aging through age at menarche. Race was used as a proxy for adversity in the form of systemic racism.

Results

There was an indirect effect of early adversity on accelerated aging through age at menarche (b = 0.19, 95% CI 0.03–0.44), in that women who experienced more adversity were younger at menarche, which was associated with greater accelerated aging. There was also an indirect effect of race on accelerated aging through age at menarche (b = 0.25, 95% CI 0.04–0.52), in that Black women were younger at menarche, which led to greater accelerated aging.

Conclusions

Early abuse and being Black in the USA may both induce a phenotype of accelerated aging. Early adversity may begin to accelerate aging during childhood, in the form of early pubertal timing.
Grassroots scaling up: Navigating algorithmic scales in a technopolitical landscape
Authors: Zentz Lauren
Published: June 2023

My theoretical aim in this article is to focus on an examination of processual enactments of scale in light of the technological affordances that are currently at the disposal of a significant majority of humans. I offer the terms algorithmic scales and algorithmic scalar affordances to describe one activist's engagement of practical theories of scale—her ‘algorithmic imagination’ (Bucher 2017)—which led her to design her audience in ways intended to algorithmically scale up, or amplify, her activities on Facebook—to enhance their spread numerically, rapidly, and translocally, making use of the algorithmically constructed communicative possibilities or affordances available to her on the site. (Social media, scale, algorithms, audience design, Facebook, activism, nation, politics)
A consensus-based checklist for the critical appraisal of cost-of-illness (COI) studies
Authors: Schnitzler Lena , Roberts Tracy E. , Jackson Louise J. , Paulus Aggie T. G. , Evers Silvia M. A. A.
Published: June 2023

Objectives

To develop a consensus-based checklist that can be used as a minimum standard to appraise the comprehensiveness, transparency and consistency of cost-of-illness (COI) studies. This is important when, for instance, reviewing and assessing COI studies as part of a systematic review or when building an economic model.

Methods

The development process of the consensus-based checklist involved six steps: (i) a scoping review, (ii) an assessment and comparison of the different checklists and their questions, (iii) the development of a (preliminary) checklist, (iv) expert interviews, (v) the finalization of the checklist, and (vi) the development of guidance statements explaining each question.

Results

The result was a consensus-based checklist for the critical appraisal of COI studies, comprising seventeen main questions (and some additional subquestions) across three domains: (i) study characteristics; (ii) methodology and cost analysis; and (iii) results and reporting. Guidance statements were developed describing the purpose and meaning behind each question and listing examples of best practice. The following answer categories were suggested to be applied when answering the questions in the checklist: Yes, Partially, No, Not Applicable, or Unclear.

Conclusions

The consensus-based checklist for COI studies is a first step toward standardizing the critical appraisal of COI studies and is one that could be considered a minimum standard. The checklist can help to improve comprehensiveness, transparency and consistency in COI studies, to address heterogeneity, and to enable better comparability of methodological approaches across international studies.
A high-precision and efficient algorithm for space-based ADS-B signal separation
Authors: Bi Yan , Wu Renbiao , Jia Qiongqiong
Published: June 2023

Space-based automatic dependent surveillance-broadcast (ADS-B) receivers can cover thousands of aircraft, each transmitting 6 ⋅ 2 signals per second. As a result, ADS-B signals are very prone to overlap. When the number of aircraft covered by a receiver reaches 3,000, about 90 % of the signals will be overlapping. Overlapped signals can reduce the decoding accuracy of receivers, so that aircraft information cannot be accurately transmitted to the air traffic control (ATC) surveillance system, hence threatening aviation flight safety. It is necessary to propose signal separation algorithms for space-based ADS-B systems. An orthogonal projection linear constrained minimum variance (OPLCMV) algorithm is proposed, which can separate two signals simultaneously based on the linearly constrained minimum variance algorithm by exploiting the characteristics of overlapped signals. Compared with the state-of-the-art extended projection algorithm and the fast independent component analysis algorithm, the OPLCMV method has a higher decoding accuracy for multiple overlapping signals with a small direction difference of arrival or frequency shift. Moreover, the OPLCMV algorithm has a low computational complexity when the number of overlapped signal sources is less than seven.
The Nitty-Gritty Forces That Shape Planetary Surfaces
Authors: Jackson Brian , Diniega Serina , Titus Timothy , Soto Alejandro , Rivera-Valentin Edgard
Published: June 2023

Scientists are coming up with ingenious ways to compare terrestrial sand dunes, dust storms, and rain with their counterparts on Mars and Titan.
A Transformer‐Based Deep Learning Model for Successful Predictions of the 2021 Second‐Year La Niña Condition
Authors: Gao Chuan , Zhou Lu , Zhang Rong‐Hua
Published: June 2023

A purely data‐driven and transformer‐based model with a novel self‐attention mechanism (3D‐Geoformer) is used to make predictions by adopting a rolling predictive manner similar to that in dynamical coupled models. The 3D‐Geoformer yields a successful prediction of the 2021 second‐year cooling conditions that followed the 2020 La Niña event, including covarying anomalies of surface wind stress and three‐dimensional (3D) upper‐ocean temperature, the reoccurrence of negative subsurface temperature anomalies in the eastern equatorial Pacific and a corresponding turning point of sea surface temperature (SST) evolution in mid‐2021. The reasons for the successful prediction with interpretability are explored comprehensively by performing sensitivity experiments with modulating effects on SST due to wind and subsurface thermal forcings being separately considered in the input predictors for prediction. A comparison is also conducted with physics‐based modeling, illustrating the suitability and effectiveness of 3D‐Geoformer as a new platform for El Niño and Southern Oscillation studies.
Albumosomes formed by cytoplasmic pre-folding albumin maintain mitochondrial homeostasis and inhibit nonalcoholic fatty liver disease
Authors: Ma Boyuan , Ju Anji , Zhang Shaosen , An Qi , Xu Siran , Liu Jie , Yu Li , Fu Yan , Luo Yongzhang
Published: June 2023

Hepatic mitochondrial dysfunction contributes to the progression of nonalcoholic fatty liver disease (NAFLD). However, the factors that maintain mitochondrial homeostasis, especially in hepatocytes, are largely unknown. Hepatocytes synthesize various high-level plasma proteins, among which albumin is most abundant. In this study, we found that pre-folding albumin in the cytoplasm is completely different from folded albumin in the serum. Mechanistically, endogenous pre-folding albumin undergoes phase transition in the cytoplasm to form a shell-like spherical structure, which we call the “albumosome”. Albumosomes interact with and trap pre-folding carnitine palmitoyltransferase 2 (CPT2) in the cytoplasm. Albumosomes control the excessive sorting of CPT2 to the mitochondria under high-fat-diet-induced stress conditions; in this way, albumosomes maintain mitochondrial homeostasis from exhaustion. Physiologically, albumosomes accumulate in hepatocytes during murine aging and protect the livers of aged mice from mitochondrial damage and fat deposition. Morphologically, mature albumosomes have a mean diameter of 4μm and are surrounded by heat shock protein Hsp90 and Hsp70 family proteins, forming a larger shell. The Hsp90 inhibitor 17-AAG promotes hepatic albumosomal accumulation in vitro and in vivo, through which suppressing the progression of NAFLD in mice.
TOPK promotes the growth of esophageal cancer in vitro and in vivo by enhancing YB1/eEF1A1 signal pathway
Authors: Wu Wenjie , Xu Jialuo , Gao Dan , Xie Zhenliang , Chen Wenjing , Li Wenjing , Yuan Qiang , Duan Lina , Zhang Yuhan , Yang Xiaoxiao , Chen Yingying , Dong Ziming , Liu Kangdong , Jiang Yanan
Published: June 2023

T-LAK-originated protein kinase (TOPK), a dual specificity serine/threonine kinase, is up-regulated and related to poor prognosis in many types of cancers. Y-box binding protein 1 (YB1) is a DNA/RNA binding protein and serves important roles in multiple cellular processes. Here, we reported that TOPK and YB1 were both highly expressed in esophageal cancer (EC) and correlated with poor prognosis. TOPK knockout effectively suppressed EC cell proliferation and these effects were reversible by rescuing YB1 expression. Notably, TOPK phosphorylated YB1 at Thr 89 (T89) and Ser 209 (S209) amino acid residues, then the phosphorylated YB1 bound with the promoter of the eukaryotic translation elongation factor 1 alpha 1 (eEF1A1) to activate its transcription. Consequently, the AKT/mTOR signal pathway was activated by up-regulated eEF1A1 protein. Importantly, TOPK inhibitor HI-TOPK-032 suppressed the EC cell proliferation and tumor growth by TOPK/YB1/eEF1A1 signal pathway in vitro and in vivo. Taken together, our study reveals that TOPK and YB1 are essential for the growth of EC, and TOPK inhibitors may be applied to retard cell proliferation in EC. This study highlights the promising therapeutic potential of TOPK as a target for treatment of EC.
Why put all your eggs in one basket? Evolutionary perspectives on the origins of monogenic reproduction
Authors: Baird Robert B. , Mongue Andrew J. , Ross Laura
Published: June 2023

Sexual reproduction is ubiquitous in eukaryotes, but the mechanisms by which sex is determined are diverse and undergo rapid turnovers in short evolutionary timescales. Usually, an embryo’s sex is fated at the moment of fertilisation, but in rare instances it is the maternal genotype that determines the offspring’s sex. These systems are often characterised by mothers producing single-sex broods, a phenomenon known as monogeny. Monogenic reproduction is well documented in Hymenoptera (ants, bees and wasps), where it is associated with a eusocial lifestyle. However, it is also known to occur in three families in Diptera (true flies): Sciaridae, Cecidomyiidae and Calliphoridae. Here we review current knowledge of monogenic reproduction in these dipteran clades. We discuss how this strange reproductive strategy might evolve, and we consider the potential contributions of inbreeding, sex ratio distorters, and polygenic control of the sex ratio. Finally, we provide suggestions on future work to elucidate the origins of this unusual reproductive strategy. We propose that studying these systems will contribute to our understanding of the evolution and turnover of sex determination systems.
Mechanisms of simultaneous linear and nonlinear computations at the mammalian cone photoreceptor synapse
Authors: Grabner Chad P. , Futagi Daiki , Shi Jun , Bindokas Vytas , Kitano Katsunori , Schwartz Eric A. , DeVries Steven H.
Published: June 2023

Neurons enhance their computational power by combining linear and nonlinear transformations in extended dendritic trees. Rich, spatially distributed processing is rarely associated with individual synapses, but the cone photoreceptor synapse may be an exception. Graded voltages temporally modulate vesicle fusion at a cone’s ~20 ribbon active zones. Transmitter then flows into a common, glia-free volume where bipolar cell dendrites are organized by type in successive tiers. Using super-resolution microscopy and tracking vesicle fusion and postsynaptic responses at the quantal level in the thirteen-lined ground squirrel, Ictidomys tridecemlineatus, we show that certain bipolar cell types respond to individual fusion events in the vesicle stream while other types respond to degrees of locally coincident events, creating a gradient across tiers that are increasingly nonlinear. Nonlinearities emerge from a combination of factors specific to each bipolar cell type including diffusion distance, contact number, receptor affinity, and proximity to glutamate transporters. Complex computations related to feature detection begin within the first visual synapse.
Single cell profiling of female breast fibroadenoma reveals distinct epithelial cell compositions and therapeutic targets
Authors: Chen Zhigang , Zhang Yi , Li Wenlu , Gao Chenyi , Huang Fengbo , Cheng Lu , Jin Menglei , Xu Xiaoming , Huang Jian
Published: June 2023

Fibroadenomas (FAs) are the most common breast tumors in women. No pharmacological agents are currently approved for FA intervention owing to its unclear mechanisms and a shortage of reproducible human models. Here, using single-cell RNA sequencing of human FAs and normal breast tissues, we observe distinct cellular composition and epithelial structural changes in FAs. Interestingly, epithelial cells exhibit hormone-responsive functional signatures and synchronous activation of estrogen-sensitive and hormone-resistant mechanisms (ERBB2,BCL2andCCND1pathways). We develop a human expandable FA organoid system and observe that most organoids seem to be resistant to tamoxifen. Individualized combinations of tamoxifen with ERBB2, BCL2 or CCND1 inhibitors could significantly suppress the viability of tamoxifen-resistant organoids. Thus, our study presents an overview of human FA at single-cell resolution that outlines the structural and functional differences between FA and normal breast epithelium and, in particular, provides a potential therapeutic strategy for breast FAs.
Tyrosine residues initiated photopolymerization in living organisms
Authors: Zhu Mei , Wang Shengliang , Li Zhenhui , Li Junbo , Xu Zhijun , Liu Xiaoman , Huang Xin
Published: June 2023

Towards intracellular engineering of living organisms, the development of new biocompatible polymerization system applicable for an intrinsically non-natural macromolecules synthesis for modulating living organism function/behavior is a key step. Herein, we find that the tyrosine residues in the cofactor-free proteins can be employed to mediate controlled radical polymerization under 405 nm light. A proton-coupled electron transfer (PCET) mechanism between the excited-state TyrOH* residue in proteins and the monomer or the chain transfer agent is confirmed. By using Tyr-containing proteins, a wide range of well-defined polymers are successfully generated. Especially, the developed photopolymerization system shows good biocompatibility, which can achieve in-situ extracellular polymerization from the surface of yeast cells for agglutination/anti-agglutination functional manipulation or intracellular polymerization inside yeast cells, respectively. Besides providing a universal aqueous photopolymerization system, this study should contribute a new way to generate various non-natural polymers in vitro or in vivo to engineer living organism functions and behaviours.
Synaptic mechanisms underlying onset and progression of memory deficits caused by hippocampal and midbrain synucleinopathy
Authors: Iemolo Attilio , De Risi Maria , Giordano Nadia , Torromino Giulia , Somma Cristina , Cavezza Diletta , Colucci Martina , Mancini Maria , de Iure Antonio , Granata Rocco , Picconi Barbara , Calabresi Paolo , De Leonibus Elvira
Published: June 2023

Cognitive deficits, including working memory, and visuospatial deficits are common and debilitating in Parkinson’s disease. α-synucleinopathy in the hippocampus and cortex is considered as the major risk factor. However, little is known about the progression and specific synaptic mechanisms underlying the memory deficits induced by α-synucleinopathy. Here, we tested the hypothesis that pathologic α-Synuclein (α-Syn), initiated in different brain regions, leads to distinct onset and progression of the pathology. We report that overexpression of human α-Syn in the murine mesencephalon leads to late onset memory impairment and sensorimotor deficits accompanied by reduced dopamine D1 expression in the hippocampus. In contrast, human α-Syn overexpression in the hippocampus leads to early memory impairment, altered synaptic transmission and plasticity, and decreased expression of GluA1 AMPA-type glutamate receptors. These findings identify the synaptic mechanisms leading to memory impairment induced by hippocampal α-synucleinopathy and provide functional evidence of the major neuronal networks involved in disease progression.
Average power and burst analysis revealed complementary information on drug-related changes of motor performance in Parkinson’s disease
Authors: Torrecillos Flavie , He Shenghong , Kühn Andrea A. , Tan Huiling
Published: June 2023

In patients with Parkinson’s disease (PD), suppression of beta and increase in gamma oscillations in the subthalamic nucleus (STN) have been associated with both levodopa treatment and motor functions. Recent results suggest that modulation of the temporal dynamics of theses oscillations (bursting activity) might contain more information about pathological states and behaviour than their average power. Here we directly compared the information provided by power and burst analyses about the drug-related changes in STN activities and their impact on motor performance within PD patients. STN local field potential (LFP) signals were recorded from externalized patients performing self-paced movements ON and OFF levodopa. When normalised across medication states, both power and burst analyses showed an increase in low-beta oscillations in the dopamine-depleted state during rest. When normalised within-medication state, both analyses revealed that levodopa increased movement-related modulation in the alpha and low-gamma bands, with higher gamma activity around movement predicting faster reaches. Finally, burst analyses helped to reveal opposite drug-related changes in low- and high-beta frequency bands, and identified additional within-patient relationships between high-beta bursting and movement performance. Our findings suggest that although power and burst analyses share a lot in common they also provide complementary information on how STN-LFP activity is associated with motor performance, and how levodopa treatment may modify these relationships in a way that helps explain drug-related changes in motor performance. Different ways of normalisation in the power analysis can reveal different information. Similarly, the burst analysis is sensitive to how the threshold is defined – either for separate medication conditions separately, or across pooled conditions. In addition, the burst interpretation has far-reaching implications about the nature of neural oscillations – whether the oscillations happen as isolated burst-events or are they sustained phenomena with dynamic amplitude variations? This can be different for different frequency bands, and different for different medication states even for the same frequency band.
Rapid analysis of meat floss origin using a supervised machine learning-based electronic nose towards food authentication
Authors: Putri Linda Ardita , Rahman Iman , Puspita Mayumi , Hidayat Shidiq Nur , Dharmawan Agus Budi , Rianjanu Aditya , Wibirama Sunu , Roto Roto , Triyana Kuwat , Wasisto Hutomo Suryo
Published: June 2023

Authentication of meat floss origin has been highly critical for its consumers due to existing potential risks of having allergic diseases or religion perspective related to pork-containing foods. Herein, we developed and assessed a compact portable electronic nose (e-nose) comprising gas sensor array and supervised machine learning with a window time slicing method to sniff and to classify different meat floss products. We evaluated four different supervised learning methods for data classification (i.e., linear discriminant analysis (LDA), quadratic discriminant analysis (QDA), k-nearest neighbors (k-NN), and random forest (RF)). Among them, an LDA model equipped with five-window-extracted feature yielded the highest accuracy values of >99% for both validation and testing data in discriminating beef, chicken, and pork flosses. The obtained e-nose results were correlated and confirmed with the spectral data from Fourier-transform infrared (FTIR) spectroscopy and gas chromatography–mass spectrometry (GC-MS) measurements. We found that beef and chicken had similar compound groups (i.e., hydrocarbons and alcohol). Meanwhile, aldehyde compounds (e.g., dodecanal and 9-octadecanal) were found to be dominant in pork products. Based on its performance evaluation, the developed e-nose system shows promising results in food authenticity testing, which paves the way for ubiquitously detecting deception and food fraud attempts.
Linking paranormal and conspiracy beliefs to illusory pattern perception through signal detection theory
Authors: Müller Petra , Hartmann Matthias
Published: June 2023

Previous research indicates that irrational beliefs (Paranormal beliefs & conspiracy theory endorsement) are associated with the perception of patterns in noise, but the previous findings do not conclusively describe this relationship. This study aims to disentangle the underlying parameters of this association by applying a signal detection theory approach, thus allowing to distinguish illusory pattern perception (false alarms) from perceptual sensitivity and response tendencies—while also taking base rate information into account. Results from a large sample (N = 723) indicate that paranormal beliefs relate to a more liberal response bias and a lower perceptual sensitivity, and that this relationship is driven by illusory pattern perception. Such a clear pattern could not be observed for conspiracy beliefs, for which the increase in false alarm rates was moderated by the base rate. The associations between irrational beliefs and illusory pattern perception were however less substantial compared to other sources of variance. Implications are discussed.
Multi-method evaluation of a 2-(1,3,4-thiadiazole-2-yl)pyrrolidine corrosion inhibitor for mild steel in HCl: combining gravimetric, electrochemical, and DFT approaches
Authors: Al-Amiery Ahmed , Isahak Wan Nor Roslam Wan , Al-Azzawi Waleed Khalid
Published: June 2023

The corrosion inhibition properties of 2-(1,3,4-thiadiazole-2-yl)pyrrolidine (2-TP) on mild steel in a 1 M HCl solution were investigated using weight loss, potentiodynamic polarization, electrochemical impedance spectroscopy (EIS) and open circuit potential (OCP) measurements. In addition, DFT calculations were performed on 2-TP. The polarization curves revealed that 2-TP is a mixed-type inhibitor. The results indicate that 2-TP is an effective inhibitor for mild steel corrosion in a 1.0 M HCl solution, with an inhibition efficiency of 94.6% at 0.5 mM 2-TP. The study also examined the impact of temperature, revealing that the inhibition efficiency increases with an increasing concentration of 2-TP and decreases with a rise in temperature. The adsorption of the inhibitor on the mild steel surface followed the Langmuir adsorption isotherm, and the free energy value indicated that the adsorption of 2-TP is a spontaneous process that involves both physical and chemical adsorption mechanisms. The DFT calculations showed that the adsorption of 2-TP on the mild steel surface is mainly through the interaction of the lone pair of electrons on the nitrogen atom of the thiadiazole ring with the metal surface. The results obtained from the weight loss, potentiodynamic polarization, EIS and OCP measurements were in good agreement with each other and confirmed the effectiveness of 2-TP as a corrosion inhibitor for mild steel in 1.0 M HCl solution. Overall, the study demonstrates the potential use of 2-TP as a corrosion inhibitor in acid environments.
HIV status and survival of patients with pulmonary hypertension due to left heart disease: the Pan African Pulmonary Hypertension Cohort
Authors: Katoto Patrick D. M. C. , Mukasa Sandra L. , Sani Mahmoud U. , Karaye Kamilu M. , Mbanze Irina , Damasceno Albertino , Mocumbi Ana O. , Dzudie Anastase , Sliwa Karen , Thienemann Friedrich
Published: June 2023

In sub-Saharan Africa, little is known about pulmonary hypertension in left heart disease (PH-LHD). We used multivariate logistic and cox-hazard proportional regression models to examine factors associated with increased right ventricular systolic pressure (RVSP) and the effect of real-world HIV status scenarios on 6-month survival rate in the Pan African Pulmonary Hypertension Cohort (PAPUCO) study, a prospective cohort from four African countries. Exposure to biomass fuel smoke (aOR, 95%CI 3.07, 1.02–9.28), moderate to severe NYHA/FC III/IV (aOR, 95%CI 4.18, 1.01–17.38), and unknown HIV status (aOR, 95%CI 2.73, 0.96–7.73) predicted moderate to severe RVSP at the time of presentation. Six months later, HIV infection, moderate-to-severe NYHA/FC, and alcohol consumption were associated with decreased survival probabilities. Upon adjusting for HIV infection, it was observed that an incremental rise in RVSP (1 mmHg) and inter-ventricular septal thickness (1 mm) resulted in an 8% (aHR, 95%CI 1.08, 1.02–1.13) and 20% (aHR, 95%CI 1.2, 1.00–1.43) increase in the probability of mortality due to PH-LHD. In contrast, the risk of death from PH-LHD was reduced by 23% for each additional unit of BMI. (aHR, 95%CI 0.77, 0.59–1.00). In conclusion, the present study offers insights into the determinants that are notably linked to unfavorable survival outcomes in patients with pulmonary hypertension due to left heart disease. Certain factors identified in this study are readily evaluable and amenable to modification, even in settings with limited resources.
Deep learning for diffusion in porous media
Authors: Graczyk Krzysztof M. , Strzelczyk Dawid , Matyka Maciej
Published: June 2023

We adopt convolutional neural networks (CNN) to predict the basic properties of the porous media. Two different media types are considered: one mimics the sand packings, and the other mimics the systems derived from the extracellular space of biological tissues. The Lattice Boltzmann Method is used to obtain the labeled data necessary for performing supervised learning. We distinguish two tasks. In the first, networks based on the analysis of the system’s geometry predict porosity and effective diffusion coefficient. In the second, networks reconstruct the concentration map. In the first task, we propose two types of CNN models: the C-Net and the encoder part of the U-Net. Both networks are modified by adding a self-normalization module [Graczyk et al. in Sci Rep 12, 10583 (2022)]. The models predict with reasonable accuracy but only within the data type, they are trained on. For instance, the model trained on sand packings-like samples overshoots or undershoots for biological-like samples. In the second task, we propose the usage of the U-Net architecture. It accurately reconstructs the concentration fields. In contrast to the first task, the network trained on one data type works well for the other. For instance, the model trained on sand packings-like samples works perfectly on biological-like samples. Eventually, for both types of the data, we fit exponents in the Archie’s law to find tortuosity that is used to describe the dependence of the effective diffusion on porosity.
Cost-minimization analysis of oral versus intravenous antibiotic treatment for Klebsiella pneumoniae liver abscess
Authors: Yoong Joanne , Yuen Kah Hung , Molton James S. , Ding Ying , Cher Boon Piang , Chan Monica , Kalimuddin Shirin , Oon Jolene , Young Barnaby , Low Jenny , Salada Brenda M. A. , Lee Tau Hong , Wijaya Li Min , Fisher Dale , Izharuddin Ezlyn , Wei Yuan , Phillips Rachel , Moorakonda Rajesh , Lye David C. , Archuleta Sophia
Published: June 2023

A cost-minimization analysis was conducted for Klebsiella pneumoniae liver abscess (KLA) patients enrolled in a randomized controlled trial which found oral ciprofloxacin to be non-inferior to intravenous (IV) ceftriaxone in terms of clinical outcomes. Healthcare service utilization and cost data were obtained from medical records and estimated from self-reported patient surveys in a non-inferiority trial of oral ciprofloxacin versus IV ceftriaxone administered to 152 hospitalized adults with KLA in Singapore between November 2013 and October 2017. Total costs were evaluated by category and payer, and compared between oral and IV antibiotic groups over the trial period of 12 weeks. Among the subset of 139 patients for whom cost data were collected, average total cost over 12 weeks was $16,378 (95% CI, $14,620–$18,136) for the oral ciprofloxacin group and $20,569 (95% CI, $18,296–$22,842) for the IV ceftriaxone group, largely driven by lower average outpatient costs, as the average number of outpatient visits was halved for the oral ciprofloxacin group. There were no other statistically significant differences, either in inpatient costs or in other informal healthcare costs. Oral ciprofloxacin is less costly than IV ceftriaxone in the treatment of Klebsiella liver abscess, largely driven by reduced outpatient service costs.

Trial registration: ClinicalTrials.gov Identifier NCT01723150 (7/11/2012).
Observations of the delayed-choice quantum eraser using coherent photons
Authors: Kim Sangbae , Ham Byoung S.
Published: June 2023

Quantum superposition is the cornerstone of quantum mechanics, where interference fringes originate in the self-interference of a single photon via indistinguishable photon characteristics. Wheeler’s delayed-choice experiments have been extensively studied for the wave-particle duality over the last several decades to understand the complementarity theory of quantum mechanics. The heart of the delayed-choice quantum eraser is in the mutually exclusive quantum feature violating the cause-effect relation. Here, we experimentally demonstrate the quantum eraser using coherent photon pairs by the delayed choice of a polarizer placed out of the interferometer. Coherence solutions of the observed quantum eraser are derived from a typical Mach–Zehnder interferometer, where the violation of the cause-effect relation is due to selective measurements of basis choice.
Detecting common coccinellids found in sorghum using deep learning models
Authors: Wang Chaoxin , Grijalva Ivan , Caragea Doina , McCornack Brian
Published: June 2023

Increased global production of sorghum has the potential to meet many of the demands of a growing human population. Developing automation technologies for field scouting is crucial for long-term and low-cost production. Since 2013, sugarcane aphid (SCA)Melanaphis sacchari(Zehntner) has become an important economic pest causing significant yield loss across the sorghum production region in the United States. Adequate management of SCA depends on costly field scouting to determine pest presence and economic threshold levels to spray insecticides. However, with the impact of insecticides on natural enemies, there is an urgent need to develop automated-detection technologies for their conservation. Natural enemies play a crucial role in the management of SCA populations. These insects, primary coccinellids, prey on SCA and help to reduce unnecessary insecticide applications. Although these insects help regulate SCA populations, the detection and classification of these insects is time-consuming and inefficient in lower value crops like sorghum during field scouting. Advanced deep learning software provides a means to perform laborious automatic agricultural tasks, including detection and classification of insects. However, deep learning models for coccinellids in sorghum have not been developed. Therefore, our objective was to develop and train machine learning models to detect coccinellids commonly found in sorghum and classify them according to their genera, species, and subfamily level. We trained a two-stage object detection model, specifically, Faster Region-based Convolutional Neural Network (Faster R-CNN) with the Feature Pyramid Network (FPN) and also one-stage detection models in the YOLO (You Only Look Once) family (YOLOv5 and YOLOv7) to detect and classify seven coccinellids commonly found in sorghum (i.e.,Coccinella septempunctata,Coleomegilla maculata,Cycloneda sanguinea,Harmonia axyridis,Hippodamia convergens,Olla v-nigrum, Scymninae). We used images extracted from the iNaturalist project to perform training and evaluation of the Faster R-CNN-FPN and YOLOv5 and YOLOv7 models. iNaturalist is an imagery web server used to publish citizen’s observations of images pertaining to living organisms. Experimental evaluation using standard object detection metrics, such as average precision (AP),AP@0.50, etc., has shown that the YOLOv7 model performs the best on the coccinellid images with anAP@0.50 as high as 97.3, andAPas high as 74.6. Our research contributes automated deep learning software to the area of integrated pest management, making it easier to detect natural enemies in sorghum.
Defining an optimal control for RNAi experiments with adult Schistosoma mansoni
Authors: Moescheid Max F. , Puckelwaldt Oliver , Beutler Mandy , Haeberlein Simone , Grevelding Christoph G.
Published: June 2023

In parasites such as Schistosoma mansoni, gene knockdown by RNA interference (RNAi) has become an indispensable tool for functional gene characterization. To distinguish target-specific RNAi effects versus off-target effects, controls are essential. To date, however, there is still no general agreement about suitable RNAi controls, which limits the comparability between studies. To address this point, we investigated three selected dsRNAs for their suitability as RNAi controls in experiments with adult S.mansoni in vitro. Two dsRNAs were of bacterial origin, the neomycin resistance gene (neoR) and the ampicillin resistance gene (ampR). The third one, the green fluorescent protein gene (gfp), originated from jellyfish. Following dsRNA application, we analyzed physiological parameters like pairing stability, motility, and egg production as well as morphological integrity. Furthermore, using RT-qPCR we evaluated the potential of the used dsRNAs to influence transcript patterns of off-target genes, which had been predicted by si-Fi (siRNA-Finder). At the physiological and morphological levels, we observed no obvious changes in the dsRNA treatment groups compared to an untreated control. However, we detected remarkable differences at the transcript level of gene expression. Amongst the three tested candidates, we suggest dsRNA of the E. coli ampR gene as the most suitable RNAi control.
Antibacterial activity and phytochemical components of leaf extract of Calpurnia aurea
Authors: Wasihun Yared , Alekaw Habteweld Habtemariam , Dires Ayenew Kassahun
Published: June 2023

Local Ethiopians use Calpurnia aurea to treat skin infections. However, there is no adequate scientific confirmation. The aim of this study was to evaluate the antibacterial activities of the crude and the fractionated extracts of C. aurea leaves against different bacterial strains. The crude extract was made by maceration. The Soxhlet extraction method was used to obtain fractional extracts. The antibacterial activity against gram positive and gram negative American Type Culture Collection (ATCC) strains was performed using the agar diffusion technique. The minimum inhibitory concentration was determined through the microtiter broth dilution method. Preliminary phytochemical screening was done using standard techniques. The largest yield was obtained from ethanol fractional extract. Except for chloroform, which provided a relatively low yield when compared to petroleum ether, increasing the polarity of the extracting solvent improved the yield. The crude extract, solvent fractions, and the positive control showed inhibitory zone diameter, while the negative control did not. When used at a concentration of 75 mg/ml, the crude extract had similar antibacterial effects as gentamicin (0.1 mg/ml) and the ethanol fraction. The 2.5 mg/ml crude ethanol extract of C. aurea suppressed the growth of Pseudomonas aeruginosa, Streptococcus pneumoniae, and Staphylococcus aureus, according to the MIC values. The extract of C. aurea was more effective in inhibiting P. aeruginosa than the other gram-negative bacteria. Fractionation enhanced the antibacterial effect of the extract. All fractionated extracts showed the highest inhibition zone diameter against S. aureus. Petroleum ether extract had the greatest inhibition zone diameter against all bacterial strains. The non-polar components were more active compared to the more polar fractions. The phytochemical components discovered in the leaves of C. aurea included alkaloids, flavonoids, saponins, and tannins. Among these, the tannin content was remarkably high. The current results could provide a rational support for the traditional use of C. aurea to treat skin infections.
Impact assessment of increasing renewable energy penetration on voltage instability tendencies of power system buses using a QV-based index
Authors: Adetokun Bukola Babatunde , Muriithi Christopher Maina , Ojo Joseph Olorunfemi , Oghorada Oghenewvogaga
Published: June 2023

This paper presents a QV-based approach called Critical Voltage-Reactive Power Ratio (CVQR) index to assess the voltage instability tendencies of power system buses with increase in renewable energy (RE) penetration within the power system. The buses are thus ranked according to the order in which they are impacted by increase in renewable energy penetration. Simulations were performed using DIgSILENT PowerFactory and result analyses were done with MATLAB. The developed CVQR index has been employed to assess the effect of increasing RE generation on grid voltage stability. This index provides information on the voltage instability tendencies of all non-slack buses of the RE-integrated grid and the buses are ranked from the weakest to the strongest. The rankings obtained from the developed CVQR has been compared with five commonly-used indices and the result of the comparison verifies the accuracy of the proposed index. IEEE 14-bus and IEEE 39-bus New England systems have been used to evaluate the proposed CVQR index and various scenarios of RE system combinations and placements have been considered. Voltage collapse condition is indicated whenever the CVQR index associated with any bus becomes positive (CVQR > 0). This index can as well be applied to other power system networks. The overall ranking of the buses based on the CVQR index can provide insights on the most appropriate location for large inductive loads or compensating devices, which can either absorb or inject reactive power into the power system, thereby influencing the system’s voltage stability.
Proton and alpha radiation-induced mutational profiles in human cells
Authors: Delhomme Tiffany M. , Munteanu Maia , Buonanno Manuela , Grilj Veljko , Biayna Josep , Supek Fran
Published: June 2023

Ionizing radiation is known to be DNA damaging and mutagenic, however less is known about which mutational footprints result from exposures of human cells to different types of radiation. We were interested in the mutagenic effects of particle radiation exposures on genomes of various human cell types, in order to gauge the genotoxic risks of galactic cosmic radiation, and of certain types of tumor radiotherapy. To this end, we exposed cultured cell lines from the human blood, breast and lung to fractionated proton and alpha particle (helium nuclei) beams at doses sufficient to considerably affect cell viability. Whole-genome sequencing revealed that mutation rates were not overall markedly increased upon proton and alpha exposures. However, there were modest changes in mutation spectra and distributions, such as the increases in clustered mutations and of certain types of indels and structural variants. The spectrum of mutagenic effects of particle beams may be cell-type and/or genetic background specific. Overall, the mutational effects of repeated exposures to proton and alpha radiation on human cells in culture appear subtle, however further work is warranted to understand effects of long-term exposures on various human tissues.
The novel Orshina Rhythm in a colonial urochordate signifies the display of recurrent aging/rejuvenation sequels
Authors: Ben-Hamo Oshrat , Izhaki Ido , Ben-Shlomo Rachel , Rinkevich Baruch
Published: June 2023

When it comes to aging, some colonial invertebrates present disparate patterns from the customary aging phenomenon in unitary organisms, where a single senescence phenomenon along ontogeny culminates in their inevitable deaths. Here we studied aging processes in 81 colonies of the marine urochordate Botryllus schlosseri each followed from birth to death (over 720 days). The colonies were divided between three life history strategies, each distinct from the others based on the presence/absence of colonial fission: NF (no fission), FA (fission develops after the colony reaches maximal size), and FB (fission develops before the colony reaches maximal size). The study revealed recurring patterns in sexual reproductive statuses (hermaphroditism and male-only settings), colonial vigor, and size. These recurring patterns, collectively referred to as an Orshina, with one or more 'astogenic segments' on the genotype level. The combination of these segments forms the Orshina rhythm. Each Orshina segment lasts about three months (equivalent to 13 blastogenic cycles), and concludes with either the colonial death or rejuvenation, and is manipulated by absence/existing of fission events in NF/FA/FB strategies. These findings indicate that reproduction, life span, death, rejuvenation and fission events are important scheduled biological components in the constructed Orshina rhythm, a novel aging phenomenon.
The possible role of sodium leakage channel localization factor-1 in the pathophysiology and severity of autism spectrum disorders
Authors: Al-Mazidi Sarah , Al-Ayadhi Laila , Alqahtany Fatmah , Abualnaja Amani , Alzarroug Abdullah , Alharbi Turki , Farhat Karim , AlMnaizel Ahmad , El-Ansary Afaf
Published: June 2023

Autism spectrum disorder (ASD) is a neurodevelopmental disorder characterized by social, stereotypical, and repetitive behaviors. Neural dysregulation was proposed as an etiological factor in ASD. The sodium leakage channel (NCA), regulated by NLF-1 (NCA localization factor-1), has a major role in maintaining the physiological excitatory function of neurons. We aimed to examine the level of NLF-1 in ASD children and correlate it with the severity of the disease. We examined the plasma levels of NLF-1 in 80 ASD and neurotypical children using ELISA. The diagnosis and severity of ASD were based on the Diagnostic and Statistical Manual of Mental Disorders, Fourth Edition (DSM-IV), Childhood Autism Rating Score, Social Responsiveness Scale, and Short Sensory Profile. Then, we compared the levels of NLF-1 with the severity of the disease and behavioral and sensory symptoms. Our results showed a significant decrease in the plasma levels of NLF-1 in ASD children compared to neurotypical children (p < 0.001). Additionally, NLF-1 was significantly correlated with the severity of the behavioral symptoms of ASD (p < 0.05). The low levels of NLF-1 in ASD children potentially affect the severity of their behavioral symptoms by reducing neuron excitability through NCA. These novel findings open a new venue for pharmacological and possible genetic research involving NCA in ASD children.