bluuebunny/crossref_metadata_2025 huggingface dataset:
Differential transcriptome response of blood brain barrier spheroids to neuroinvasive Neisseria and Borrelia
Authors: Kulkarni Amod , Jozefiaková Jana , Bhide Katarína , Mochnaćová Evelína , Bhide Mangesh
Published: December 2023

Background

The blood-brain barrier (BBB), a highly regulated interface between the blood and the brain, prevents blood-borne substances and pathogens from entering the CNS. Nevertheless, pathogens like Neisseria meningitidis and Borrelia bavariensis can breach the BBB and infect the brain parenchyma. The self-assembling BBB-spheroids can simulate the cross talk occurring between the cells of the barrier and neuroinvasive pathogens.

Methods

BBB spheroids were generated by co-culturing human brain microvascular endothelial cells (hBMECs), pericytes and astrocytes. The BBB attributes of spheroids were confirmed by mapping the localization of cells, observing permeability of angiopep2 and non-permeability of dextran. Fluorescent Neisseria, Borrelia or E. coli (non-neuroinvasive) were incubated with spheroids to observe the adherence, invasion and spheroid integrity. Transcriptome analysis with NGS was employed to investigate the response of BBB cells to infections.

Results

hBMECs were localized throughout the spheroids, whereas pericytes and astrocytes were concentrated around the core. Within 1 hr of exposure, Neisseria and Borrelia adhered to spheroids, and their microcolonization increased from 5 to 24 hrs. Integrity of spheroids was compromised by both Neisseria and Borrelia, but not by E. coli infection. Transcriptome analysis revealed a significant change in the expression of 781 genes (467 up and 314 down regulated) in spheroids infected with Neisseria, while Borrelia altered the expression of 621 genes (225 up and 396 down regulated). The differentially expressed genes could be clustered into various biological pathways like cell adhesion, extracellular matrix related, metallothionines, members of TGF beta, WNT signaling, and immune response. Among the differentially expressed genes, 455 (48%) genes were inversely expressed during Neisseria and Borrelia infection.

Conclusion

The self-assembling spheroids were used to perceive the BBB response to neuroinvasive pathogens - Neisseria and Borrelia. Compromised integrity of spheroids during Neisseria and Borrelia infection as opposed to its intactness and non-adherence of E. coli (non-neuroinvasive) denotes the pathogen dependent fate of BBB. Genes categorized into various biological functions indicated weakened barrier properties of BBB and heightened innate immune response. Inverse expression of 48% genes commonly identified during Neisseria and Borrelia infection exemplifies unique response of BBB to varying neuropathogens.
Smart sensing enabled dynamic spectrum management for cognitive radio networks
Authors: Fraz Muhammad , Muslam Muhana Magboul Ali , Hussain Mudassar , Amin Rashid , Xie Jiang
Published: December 2023

Cognitive Radio Networks (CRNs) have ushered in a transformative era in wireless communication, reshaping the landscape of radio spectrum utilization and management. At the core of CRNs lies the pivotal capability to sense the radio frequency spectrum dynamically and adapt transmission parameters to preemptively address interference and optimize spectrum utilization. This article addresses the escalating challenges associated with Quality of Service (QoS) management in CRNs, exacerbated by their dynamic nature, especially in scenarios characterized by high mobility. Concurrently, the article underscores the critical significance of energy efficiency, given its direct implications on network operational costs and sustainability. To effectively navigate the intricate interplay between QoS and energy management in CRNs, we propose a Smart Sensing Enabled Dynamic Spectrum Management scheme (SSDSM). Within the SSDSM framework, cognitive user energy undergoes intelligent sensing, while QoS is governed through dynamic spectrum management. The proposed scheme optimizes service response time by refining fuzzy-based controllers and curtails energy consumption through periodic sensing triggered by predefined rules. Operationalizing within a centralized paradigm, the entire network is overseen by a central controlling node, tasked with formulating an optimal channel list using the SSDSM scheme and allocating it to cognitive users. The efficacy of the proposed scheme is evaluated and validated through rigorous testing using MATLAB. Results reveal tangible enhancements in system efficiency, encompassing maximized throughput, reduced handoff ratio, and minimized service response delay. This research contributes to the ongoing discourse on advancing the performance metrics of cognitive radio networks in the pursuit of reliable and sustainable wireless communication services.
A review of the risk and precipitating factors for spontaneous coronary artery dissection
Authors: Stanojevic Dragana , Apostolovic Svetlana , Kostic Tomislav , Mitov Vladimir , Kutlesic-Kurtovic Dusanka , Kovacevic Mila , Stanojevic Jelena , Milutinovic Stefan , Beleslin Branko
Published: December 2023

Introduction

Spontaneous coronary artery dissection (SCAD) accounts for 1%–4% of cases of acute coronary syndrome (ACS). SCAD is caused by separation occurring within or between any of the three tunics of the coronary artery wall. This leads to intramural hematoma and/or formation of false lumen in the artery, which leads to ischemic changes or infarction of the myocardium. The incidence of SCAD is higher in women than in men, with a ratio of approximately 9:1. It is estimated that SCAD is responsible for 35% of ACS cases in women under the age of 60. The high frequency is particularly observed during pregnancy and in the peripartum period (first week). Traditional risk factors are rare in patients with SCAD, except for hypertension. Patients diagnosed with SCAD have different combinations of risk factors compared with patients who have atherosclerotic changes in their coronary arteries. We presented the most common so-called “non-traditional” risk factors associated with SCAD patients.

Risk factors and precipitating disorders which are associated with SCAD

In the literature, there are few diseases frequently associated with SCAD, and they are identified as predisposing factors. The predominant cause is fibromuscular dysplasia, followed by inherited connective tissue disorders, systemic inflammatory diseases, pregnancy, use of sex hormones or steroids, use of cocaine or amphetamines, thyroid disorders, migraine, and tinnitus. In recent years, the genetic predisposition for SCAD is also recognized as a predisposing factor. The precipitating factors are also different in women (emotional stress) compared with those in men (physical stress). Women experiencing SCAD frequently describe symptoms of anxiety and depression. These conditions could increase shear stress on the arterial wall and dissection of the coronary artery wall. Despite the advancement of SCAD, we can find significant differences in the clinical presentation between women and men.

Conclusion

When evaluating patients with chest pain or other ACS symptoms who have a low cardiovascular risk, particularly female patients, it is important to consider the possibility of ACS due to SCAD, particularly in conditions often associated with SCAD. This will increase the recognition of SCAD and the timely treatment of affected patients.
Hybrid model of CT-fractional flow reserve, pericoronary fat attenuation index and radiomics for predicting the progression of WMH: a dual-center pilot study
Authors: Hou Jie , Jin Hui , Zhang Yongsheng , Xu Yuyun , Cui Feng , Qin Xue , Han Lu , Yuan Zhongyu , Zheng Guangying , Peng Jiaxuan , Shu Zhenyu , Gong Xiangyang
Published: December 2023

Objective

To develop and validate a hybrid model incorporating CT-fractional flow reserve (CT-FFR), pericoronary fat attenuation index (pFAI), and radiomics signatures for predicting progression of white matter hyperintensity (WMH).

Methods

A total of 226 patients who received coronary computer tomography angiography (CCTA) and brain magnetic resonance imaging from two hospitals were divided into a training set (n = 116), an internal validation set (n = 30), and an external validation set (n = 80). Patients who experienced progression of WMH were identified from subsequent MRI results. We calculated CT-FFR and pFAI from CCTA images using semi-automated software, and segmented the pericoronary adipose tissue (PCAT) and myocardial ROI. A total of 1,073 features were extracted from each ROI, and were then refined by Elastic Net Regression. Firstly, different machine learning algorithms (Logistic Regression [LR], Support Vector Machine [SVM], Random Forest [RF], k-nearest neighbor [KNN] and eXtreme Gradient Gradient Boosting Machine [XGBoost]) were used to evaluate the effectiveness of radiomics signatures for predicting WMH progression. Then, the optimal machine learning algorithm was used to compare the predictive performance of individual and hybrid models based on independent risk factors of WMH progression. Receiver operating characteristic (ROC) curve analysis, calibration and decision curve analysis were used to evaluate predictive performance and clinical value of the different models.

Results

CT-FFR, pFAI, and radiomics signatures were independent predictors of WMH progression. Based on the machine learning algorithms, the PCAT signatures led to slightly better predictions than the myocardial signatures and showed the highest AUC value in the XGBoost algorithm for predicting WMH progression (AUC: 0.731 [95% CI: 0.603–0.838] vs.0.711 [95% CI: 0.584–0.822]). In addition, pFAI provided better predictions than CT-FFR (AUC: 0.762 [95% CI: 0.651–0.863] vs. 0.682 [95% CI: 0.547–0.799]). A hybrid model that combined CT-FFR, pFAI, and two radiomics signatures provided the best predictions of WMH progression [AUC: 0.893 (95%CI: 0.815–0.956)].

Conclusion

pFAI was more effective than CT-FFR, and PCAT signatures were more effective than myocardial signatures in predicting WMH progression. A hybrid model that combines pFAI, CT-FFR, and two radiomics signatures has potential use for identifying WMH progression.
Estimation of left ventricular functions in patients with subclinical hypothyroidism: a meta-analysis
Authors: Li Binyi , Huang Yong , Li Zheng
Published: December 2023

Objective

To evaluate left ventricular (LV) function in patients with subclinical hypothyroidism (ScH) compared to healthy individuals and to provide clinical hints for practitioners.

Methods

PubMed, Embase, Cochrane Library, and Web of Science were systematically searched in this meta-analysis. Studies evaluating LV function in ScH patients were included. Standardized mean difference (SMD) and the 95% confidence intervals (CIs) were calculated as effect size. Heterogeneity and risks of bias of included studies were assessed.

Results

A total of 9 studies were identified as eligible. The SMD for fractional shortening (FS, %) was -0.21 (95% CI: -0.60, 0.17; z = -1.08, p = 0.2788). The pooled SMD for systemic vascular resistance (SVR, dynes/sec·cm-5) was -0.41 (95% CI: -1.31, 0.49; z = -0.89, p = 0.3744). The pooled SMD for early diastolic mitral flow velocity/late diastolic mitral flow velocity (E/A) ratio was -0.74 (95% CI: -1.09, -0.39; z = -4.13, p < 0.001). The pooled SMD for ejection fraction (EF, %) was -0.35 (95% CI: –0.59, -0.12; z = -2.95, p = 0.0032).

Conclusion

ScH patients had significantly worse LV function parameters than healthy controls. These changes in LV function may be involved in the management of ScH.
Machine learning identifies ferroptosis-related gene ANXA2 as potential diagnostic biomarkers for NAFLD
Authors: Qin Jingtong , Cao Peng , Ding Xuexuan , Zeng Zeyao , Deng Liyan , Luo Lianxiang
Published: December 2023

Introduction

Non-alcoholic fatty liver disease (NAFLD), a major cause of chronic liver disease, still lacks effective therapeutic targets today. Ferroptosis, a type of cell death characterized by lipid peroxidation, has been linked to NAFLD in certain preclinical trials, yet the exact molecular mechanism remains unclear. Thus, we analyzed the relationship between ferroptosis genes and NAFLD using high-throughput data.

Method

We utilized a total of 282 samples from five datasets, including two mouse ones, one human one, one single nucleus dataset and one single cell dataset from Gene Expression Omnibus (GEO), as the data basis of our study. To filter robust treatment targets, we employed four machine learning methods (LASSO, SVM, RF and Boruta). In addition, we used an unsupervised consensus clustering algorithm to establish a typing scheme for NAFLD based on the expression of ferroptosis related genes (FRGs). Our study is also the first to investigate the dynamics of FRGs throughout the disease process by time series analysis. Finally, we validated the relationship between core gene and ferroptosis by in vitro experiments on HepG2 cells.

Results

We discovered ANXA2 as a central focus in NAFLD and indicated its potential to boost ferroptosis in HepG2 cells. Additionally, based on the results obtained from time series analysis, ANXA2 was observed to significantly define the disease course of NAFLD. Our results demonstrate that implementing a ferroptosis-based staging method may hold promise for the diagnosis and treatment of NAFLD.

Conclusion

Our findings suggest that ANXA2 may be a useful biomarker for the diagnosis and characterization of NAFLD.
Managing cabin crew fatigue during ultra-long range operations
Authors: van den Berg M. J. , Zaslona J. L. , Muller D. P. , Wu L. , Hughes M. , Johnston B. , Dyer C. , Drane M. , Signal T. L.
Published: December 2023

Introduction

Ultra-long range (ULR) flights have the potential to increase fatigue-related risk for cabin crew, if the extended flight times are associated with extended wakefulness, sleep loss and higher levels of crew fatigue. ULR flights may also require longer opportunities for recovery sleep. This study evaluates the utilization of fatigue risk mitigations for cabin crew operating the Auckland – Chicago ULR route with a two-day layover.

Methods

65 cabin crew (45 women; aged 20–59 years) wore an actigraph and completed a sleep/duty diary for 3 local nights prior to, throughout, and for 3 local nights after a ULR trip. Crewmembers rated their fatigue (Samn-Perelli Crew Status Check), sleepiness (Karolinska Sleepiness Scale), and workload (OW; NASA-TLX) at key times during each flight. Jet lag was rated each day at home and during layover.

Results

Fatigue and sleepiness were highest at top-of-descent and after landing and were higher on the inbound flight than on the outbound flight. For every hour of additional sleep in-flight, top-of-descent fatigue ratings decreased by 0.24 points and top-of-descent sleepiness ratings decreased by 0.38, whereas top-of-descent fatigue and sleepiness ratings increased by 0.24 points with every 10-point increase in OW ratings. Crew slept more in the 24-hours prior to the outbound (M = 8.5 h) and inbound flights (M = 9.1 h) compared to pre-trip baseline days (M = 8.2 h). Post-trip, crew slept more during the first day (M = 9.9 h) compared to baseline, with 95% taking a daytime nap. Jet lag ratings decreased daily on return home but were still higher on the fourth day than on the day of the outbound flight.

Discussion

Cabin crew prepare for ULR flights by obtaining more sleep prior to departure. However, large individual differences in sleep and declining jet lag ratings across pre-trip days suggest that some crewmembers may still be recovering from a previous trip. Further refinement of in-flight sleep strategies and workload mitigations could be considered for managing fatigue risk at top-of-descent. Findings also highlight the importance of a protected period of post-trip rest to facilitate cabin crews' recovery from the effects of sleep restriction and circadian disruption associated with this ULR trip.
Legacy of salmon-derived nutrients on riparian soil chemistry and soil fertility on the Central Coast of British Columbia, Canada
Authors: Larocque Allen , Simard Suzanne Winette
Published: December 2023

Every year, salmon return to their natal streams to spawn. Their return represents an ecosystem subsidy of nutrients and energy from the sea to the land; these materials feed into terrestrial food webs, plant communities, and forest soils. Here we test the long term effects of salmon inputs on soil fertility by sampling soils from Haíɫzaqv (Heiltsuk) Nation territory on the Central Coast of British Columbia, Canada. A total of 20 soil chemical properties were assessed via two sampling methodologies: first, across 23 watersheds representing a regional gradient of salmon density (kg of salmon per meter of stream reach per year); and second, at four sites above and below waterfalls that blocked salmon migration. At each sampling point, soil material at two depths was collected. Multivariate analysis regional gradient showed salmon density, the moss community, and the shrub community to be significant factors related to soil chemistry. Similarly, being above or below the waterfall, the moss community, and the tree community were significant in the waterfall comparison. Generalized linear mixed models along regional salmon density gradient showed an increase in nitrate (NO3−) correlated with salmon inputs (p < 0.05), and moderately significant (p < 0.1) increases in ammonium (NH4+), phosphorus (P), aluminum (Al), and copper (Cu). Net cation exchange capacity (CEC) did not change; however, magnesium (Mg) significantly decreased along these gradients (p < 0.05), while sodium (Na) had a declining tendency and calcium (Ca) had an increasing tendency. Being below salmon-blocking waterfalls or the salmon density below falls was a factor in higher total nitrogen, nitrate, ammonium, phosphorus, total sulfur (S), magnesium, and sodium concentrations; below falls sites also had lower pH and aluminum. Exploratory analysis of the regional gradient data using a random forest model apportioned high importance to soil depth, the moss community, the shrub community, salmon density and distance from the stream. These results show that salmon inputs are correlated with a number of changes in recipient soils, and these are consistent with an interpretation of improved fertility at these sites.
Neutrophil-to-lymphocyte ratio as a predictor of poor outcomes of Mycoplasma pneumoniae pneumonia
Authors: Li Dan , Gu Haiyan , Chen Lei , Wu Ruxi , Jiang Yazhou , Huang Xia , Zhao Deyu , Liu Feng
Published: December 2023

Introduction

Mycoplasma pneumoniae pneumonia (MPP) may lead to various significant outcomes, such as necrotizing pneumonia(NP) and refractory MPP (RMPP). We investigated the potential of the peripheral blood neutrophil-to-lymphocyte ratio (NLR) to predict outcomes in patients with MPP.

Methods and materials

This was a prospective study of patients with MPP who were admitted to our hospital from 2019 to 2021. Demographic and clinical data were collected from patient records and associated with the development of NP and RMPP and other outcome measures.

Results

Of the 1,401 patients with MPP included in the study, 30 (2.1%) developed NP. The NLR was an independent predictor of NP (odds ratio 1.153, 95% confidence interval 1.022–1.300, P=0.021). The probability of NP was greater in patients with a high NLR (≥1.9) than in those with a low NLR (<1.9) (P<0.001). The NLR was also an independent predictor of RMPP (odds ratio 1.246, 95% confidence interval 1.102–1.408, P<0.005). Patients with a high NLR were more likely to develop NP and RMPP and require intensive care, and had longer total fever duration, longer hospital stays, and higher hospitalization expenses than those with a low NLR (all P<0.005).

Discussion

The NLR can serve as a predictor of poor prognosis in patients with MPP. It can predict the occurrence of NP, RMPP, and other poor outcomes. The use of this indicator would allow the simple and rapid prediction of prognosis in the early stages of MPP, enabling the implementation of appropriate treatment strategies.
Diagnostic value of kappa free light chain index in patients with primary progressive multiple sclerosis – a multicentre study
Authors: Hegen Harald , Berek Klaus , Cavalla Paola , Christiansen Mikael , Emeršič Andreja , Di Filippo Massimiliano , Gaetani Lorenzo , Hassler Michaela , Leurs Cyra , Milosavljevic Dejan , van Pesch Vincent , Petersen Thor , Presslauer Stefan , Rosenstein Igal , Rot Uroš , Schnabl Christine , Teunissen Charlotte , Vecchio Domizia , Vercellino Marco , Deisenhammer Florian
Published: December 2023

Background

Kappa free light chains (κ-FLC) in the cerebrospinal fluid (CSF) are an emerging biomarker in multiple sclerosis (MS).

Objective

To investigate whether κ-FLC index has similar diagnostic value in patients with primary progressive multiple sclerosis (PPMS) compared to oligoclonal bands (OCB).

Methods

Patients with PPMS were recruited through 11 MS centres across 7 countries. κ-FLC were measured by immunonephelometry/-turbidimetry. OCB were determined by isoelectric focusing and immunofixation.

Results

A total of 174 patients (mean age of 52±11 years, 51% males) were included. κ-FLC index using a cut-off of 6.1 was positive in 161 (93%) and OCB in 153 (88%) patients.

Conclusion

κ-FLC index shows similar diagnostic sensitivity than OCB in PPMS.
Dietary Qi-Weng-Huangbo powder enhances growth performance, diarrhoea and immune function of weaned piglets by modulating gut health and microbial profiles
Authors: Xiao Chuanpi , Li Kai , Teng Chunran , Wei Zeou , Li Jiaheng , Zhang Shunfeng , Liu Lei , Lv Huiyuan , Zhong Ruqing
Published: December 2023

Introduction

The evolution of nutritional strategies to improve the gut health and microbiota profiles of early-weaned piglets is essential to reduce diarrhoea caused by weaning stress. Therefore, the aim of this study was to determine the effects of dietary supplementation of Qi-Weng-Huangbo powder, a traditional herbal medicine consisting of a mixture of Pulsatilla chinensis, Chinese Schneid and Astragalus extracts (PCE), on the growth performance, diarrhoea rate, immune function and intestinal health of weaned piglets.

Methods

162 piglets were randomly assigned to the CON group (no PCE added), the PCEL group (300 mg/kg PCE) and the PCEH group (500 mg/kg PCE) at the end of the third week post farrowing. There were 9 replicates of each group with 6 pigs per replicate. The experiment lasted for 28 days and sampling was performed on the final day.

Results

The results showed that the PCE diet increased the average daily gain (ADG) and final body weight (BW) compared to the CON group. Both supplemented doses of PCE reduced the faecal scores of piglets, and the diarrhoea rate in the PCEL group was significantly lower than that in the CON group. The application of PCE diets promoted the development of the spleen in piglets and up-regulated serum immunoglobulin concentrations to enhance immune function, which was also reflected in the down-regulated gene expression of the colonic TLR/MyD88/NF-κB pathway. Supplementation with PCE improved intestinal morphology, and all doses of PCE significantly increased villus height (VH) in the ileum, whereas colonic crypt depth (CD) was significantly lower in the PCEH group than in the CON group. The PCEH diet significantly increased the levels of valeric and isovaleric acid in the colon content. Dietary PCEH also improved the colonic microbial community profile, reflected by a significant increase in Shannon’s index compared with CON group. The abundance of Veillonellaceae and Rhodospirillales was significantly increased in the PCEH group at the family level.

Discussion

In conclusion, dietary PCE reduced diarrhoea rates, improved growth performance and enhanced immune function in weaned piglets. These improvements were potentially supported by altered ileum and colonic morphology, elevated colonic VFA levels, and modulation of colonic microbial profiles.
First report of Mansonella sp. and Dipetalonema gracile in the Amazonian city-dwelling threatened primate, Saguinus bicolor
Authors: Dias Cindy Alves , Silva Túllio Romão Ribeiro da , Gordo Marcelo , Conga David Marcial Fernandez , Lima Natália Aparecida de Souza , Medeiros Aline Souza de Menezes , Costa Edson Rodrigues , Luz Sérgio Luiz Bessa , Costa Carlos Henrique Aguiar , Vicente Ana Carolina Paulo , Nascimento Thaís Pinto , Aguiar-Silva Francisca Helena , Costa da Silva Viviane , Lagroteria Diogo César , Chiesorin Neto Laerzio , Nava Alessandra Ferreira Dales
Published: December 2023

The pied tamarin, or Saguinus bicolor, is a callitrichid that inhabits Amazon Forest fragments encased within the municipalities of Manaus, Rio Preto da Eva, and Itacoatiara and their outskirts. Therefore, this primate lives in great proximity to humans, and is in critical danger of extinction, resulting from ongoing anthropogenic pressures, with habitat fragmentation being the most prominent threat. Greater conservation efforts and more studies concerning public health need to be carried out in this situation, such as the study of infectious diseases that can affect this primate, including those involving helminths. In this study, we combined necropsy, microscopy with blood smears and quick Panoptic stains, and molecular methods like nested polymerase chain reaction (PCR) targeting the internal transcribed spacer-1 (ITS-1) region, Sanger sequencing and shotgun sequencing to detect and identify filarial parasites in 71 S. bicolor samples. We detected 24 adult filarial worms in 6.45% of the thoracic cavities, microfilaria in 6.38% from blood smears, and filarial DNA in 28.57% positive blood samples via PCR. We identified eight of the adult worms as being from the Onchocercidae family using Sanger sequencing and one specifically as Dipetalonema gracile, using shotgun sequencing. For the positive blood samples, 70.58% of them were for Mansonella sp., 17.64% for Dipetalonema sp., and 11.76% could only be identified as belonging to the Onchocercidae family. There was an event of coinfection that involved Dipetalonema sp. adult worm and Mansonella sp. microfilaria. This is the first report of the detection of Dipetalonema gracile and the genus Mansonella in S. bicolor, as well as an event of coinfection, pointing out this primate as a new host. It is also another step to understand the situation of filarial infections occurring in Amazonian Regions and its municipalities.
Study of the origin and correction of compass measurement errors in Doppler current meters
Authors: Le Menn Marc , Lefevre Dominique , Schroeder Katrin , Borghini Mireno
Published: December 2023

Surface and subsurface currents are two of the Essential Climate Variables (ECVs) defined by the Global Climate Observing System (GCOS). In situ current measurements can be made by Eulerian methods with instruments on moorings fixed in space. These methods require the determination of two metrological quantities: the speed and the direction of the motion. Their measurement and calibration require the determination of reference velocities and the measure of the angular movement of seawater in relation to the measuring device, as well as of the measuring device in relation to a reference direction given by the magnetic North. This reference direction is determined by electronic compasses integrated into current meters and current profilers. Compasses are sensitive to their magnetic environment, and, therefore, to the objects and instruments that surround them. This publication describes experiments conducted with current meters and current profilers to measure the influence of different devices on the accuracy of their compass measurements. It gives some explanations about the origin of measurement errors and proposes solutions to correct or attenuate the defaults in direction measurements and the measured deviations. Correction formulas are given that can be applied to measured data. They allow the reduction of errors of several tens of degrees for data to be within the instrument’s specifications.
A novel assay based on DNA melting temperature for multiplexed identification of SARS-CoV-2 and influenza A/B viruses
Authors: Gao Peng , Fan Yanyan , Kong Xiaomu , Zhang Rui , Chen Lida , Jiang Yongwei , Liu Yi , Zhao Meimei , Deng Guoxiong , Cao Yongtong , Ma Liang
Published: December 2023

Introduction

The severe acute respiratory syndrome coronavirus-2 (SARS-CoV-2) and influenza viruses can cause respiratory illnesses with similar clinical symptoms, making their differential diagnoses challenging. Additionally, in critically ill SARS-CoV-2–infected patients, co-infections with other respiratory pathogens can lead to severe cytokine storm and serious complications. Therefore, a method for simultaneous detection of SARS-CoV-2 and influenza A and B viruses will be clinically beneficial.

Methods

We designed an assay to detect five gene targets simultaneously via asymmetric PCR-mediated melting curve analysis in a single tube. We used specific probes that hybridize to corresponding single-stranded amplicons at low temperature and dissociate at high temperature, creating different detection peaks representing the targets. The entire reaction was conducted in a closed tube, which minimizes the risk of contamination. The limit of detection, specificity, precision, and accuracy were determined.

Results

The assay exhibited a limit of detection of <20 copies/μL for SARS-CoV-2 and influenza A and <30 copies/μL for influenza B, with high reliability as demonstrated by a coefficient of variation for melting temperature of <1.16% across three virus concentrations. The performance of our developed assay and the pre-determined assay showed excellent agreement for clinical samples, with kappa coefficients ranging from 0.98 (for influenza A) to 1.00 (for SARS-CoV-2 and influenza B). No false-positive, and no cross-reactivity was observed with six common non-influenza respiratory viruses.

Conclusion

The newly developed assay offers a straightforward, cost-effective and nucleic acid contamination-free approach for simultaneous detection of the SARS-CoV-2, influenza A, and influenza B viruses. The method offers high analytical sensitivity, reliability, specificity, and accuracy. Its use will streamline testing for co-infections, increase testing throughput, and improve laboratory efficacy.
The fermentation optimization for alkaline protease production by Bacillus subtilis BS-QR-052
Authors: Sun Biao , Zou Kai , Zhao Yingqing , Tang Yinfang , Zhang Fuming , Chen Weijing , Tang Xiaoting , Chang Chenran , Zheng Yan
Published: December 2023

Introduction

Proteases exhibit a wide range of applications, and among them, alkaline proteases have become a prominent area of research due to their stability in highly alkaline environments. To optimize the production yield and activity of alkaline proteases, researchers are continuously exploring different fermentation conditions and culture medium components.

Methods

In this paper, the fermentation conditions of the alkaline protease (EC 3.4.21.14) production by Bacillus subtilis BS-QR-052 were optimized, and the effect of different nutrition and fermentation conditions was investigated. Based on the single-variable experiments, the Plackett–Burman design was used to explore the significant factors, and then the optimized fermentation conditions, as well as the interaction between these factors, were evaluated by response surface methodology through the Box–Behnken design.

Results and discussion

The results showed that 1.03% corn syrup powder, 0.05% MgSO4, 8.02% inoculation volume, 1:1.22 vvm airflow rate, as well as 0.5% corn starch, 0.05% MnSO4, 180 rpm agitation speed, 36°C fermentation temperature, 8.0 initial pH and 96 h incubation time were predicted to be the optimal fermentation conditions. The alkaline protease enzyme activity was estimated to be approximately 1787.91 U/mL, whereas subsequent experimental validation confirmed it reached 1780.03 U/mL, while that of 500 L scale-up fermentation reached 1798.33 U/mL. This study optimized the fermentation conditions for alkaline protease production by B. subtilis through systematic experimental design and data analysis, and the activity of the alkaline protease increased to 300.72% of its original level. The established model for predicting alkaline protease activity was validated, achieving significantly higher levels of enzymatic activity. The findings provide valuable references for further enhancing the yield and activity of alkaline protease, thereby holding substantial practical significance and economic benefits for industrial applications.
Assessing causal associations between neurodegenerative diseases and neurological tumors with biological aging: a bidirectional Mendelian randomization study
Authors: Zhang Zhiyun , Liu Ningfang , Pan Xuyang , Zhang Chuyi , Yang Yifan , Li Xinyun , Shao Ying
Published: December 2023

Background

Aging is a significant risk factor for many neurodegenerative diseases and neurological tumors. Previous studies indicate that the frailty index, facial aging, telomere length (TL), and epigenetic aging clock acceleration are commonly used biological aging proxy indicators. This study aims to comprehensively explore potential relationships between biological aging and neurodegenerative diseases and neurological tumors by integrating various biological aging proxy indicators, employing Mendelian randomization (MR) analysis.

Methods

Two-sample bidirectional MR analyses were conducted using genome-wide association study (GWAS) data. Summary statistics for various neurodegenerative diseases and neurological tumors, along with biological aging proxy indicators, were obtained from extensive meta-analyses of GWAS. Genetic single-nucleotide polymorphisms (SNPs) associated with the exposures were used as instrumental variables, assessing causal relationships between three neurodegenerative diseases (Alzheimer’s disease, Parkinson’s disease, amyotrophic lateral sclerosis), two benign neurological tumors (vestibular schwannoma and meningioma), one malignant neurological tumor (glioma), and four biological aging indicators (frailty index, facial aging, TL, and epigenetic aging clock acceleration). Sensitivity analyses were also performed.

Results

Our analysis revealed that genetically predicted longer TL reduces the risk of Alzheimer’s disease but increases the risk of vestibular schwannoma and glioma (All Glioma, GBM, non-GBM). In addition, there is a suggestive causal relationship between some diseases (PD and GBM) and DNA methylation GrimAge acceleration. Causal relationships between biological aging proxy indicators and other neurodegenerative diseases and neurological tumors were not observed.

Conclusion

Building upon prior investigations into the causal relationships between telomeres and neurodegenerative diseases and neurological tumors, our study validates these findings using larger GWAS data and demonstrates, for the first time, that Parkinson’s disease and GBM may promote epigenetic age acceleration. Our research provides new insights and evidence into the causal relationships between biological aging and the risk of neurodegenerative diseases and neurological tumors.
Burden of liver cancer due to hepatitis C from 1990 to 2019 at the global, regional, and national levels
Authors: Wei Jie , Ouyang Guoqing , Huang Guozhen , Wang Yong , Li Shuangjiang , Liu Jiaping , Zhang Yanhong , Yuan Guandou , He Songqing
Published: December 2023

Background

Liver cancer due to hepatitis C (LCDHC) is one of the leading causes of cancer-related deaths worldwide, and the burden of LCDHC is increasing. We aimed to report the burden of LCDHC at the global, regional, and national levels in 204 countries from 1990 to 2019, stratified by etiology, sex, age, and Sociodemographic Index.

Methods

Data on LCDHC were available from the Global Burden of Disease, Injuries, and Risk Factors (GBD) study 2019. Numbers and age-standardized mortality, incidence, and disability-adjusted life year (DALY) rates per 100,000 population were estimated through a systematic analysis of modeled data from the GBD 2019 study. The trends in the LCDHC burden were assessed using the annual percentage change.

Results

Globally, in 2019, there were 152,225 new cases, 141,810 deaths, and 2,878,024 DALYs due to LCDHC. From 1990 to 2019, the number of incidences, mortality, and DALY cases increased by 80.68%, 67.50%, and 37.20%, respectively. However, the age-standardized incidence, mortality, and DALY rate had a decreasing trend during this period. In 2019, the highest age-standardized incidence rates (ASIRs) of LCDHC were found in high-income Asia Pacific, North Africa and the Middle East, and Central Asia. At the regional level, Mongolia, Egypt, and Japan had the three highest ASIRs in 2019. The incidence rates of LCDHC were higher in men and increased with age, with a peak incidence in the 95+ age group for women and the 85–89 age group for men in 2019. A nonlinear association was found between the age-standardized rates of LCDHC and sociodemographic index values at the regional and national levels.

Conclusions

Although the age-standardized rates of LCDHC have decreased, the absolute numbers of incident cases, deaths, and DALYs have increased, indicating that LCDHC remains a significant global burden. In addition, the burden of LCDHC varies geographically. Male and older adult/s individuals have a higher burden of LCDHC. Our findings provide insight into the global burden trend of LCDHC. Policymakers should establish appropriate methods to achieve the HCV elimination target by 2030 and reducing the burden of LCDHC.
Transcriptomic meta-analysis and functional validation identify genes linked to adaptation and involved in high-light acclimation in Synechocystis sp. PCC 6803
Authors: Abdel-Salam Eslam M. , Figueroa-Gonzalez Theo , Leister Dario
Published: December 2023

Several mechanisms of high light (HL) acclimation have been identified in Synechocystis sp. PCC 6803. However, there are still gaps in understanding of the complex regulatory networks and molecular interactions involved. This study aims to investigate the molecular mechanisms underlying HL acclimation in Synechocystis by performing a meta-analysis of transcriptomic data. A total of 411 differentially expressed genes (DEGs) were identified in the meta-analysis, of which 179 were unique to the meta-analysis. These findings indicate a coordinated response of the Synechocystis transcriptome to HL, with specific genes being activated or suppressed to cope with the challenging conditions. Of all the DEGs, 307 were related to primary metabolism, 52 were involved in photosynthesis and light-harvesting processes, and 52 genes had no known function or were not properly annotated. Gene ontology and KEGG pathway enrichment analyses revealed the involvement of DEGs in various biological processes and pathways, including photosynthesis, energy metabolism and oxidative stress response. Comparison with previous HL adaptive laboratory evolution (ALE) experiments revealed 17 DEGs that had acquired adaptive mutations after HL ALE. Three of these adaptive mutations which lead to amino acid exchanges in the corresponding proteins (sll0267L1189P, sll0355F254S, and slr1855D200G) were selected to test their impact on HL acclimation in Synechocystis. The laboratory validation of strains carrying these three mutations, showed that each mutation had a positive effect on HL acclimation when reconstructed in the Synechocystis laboratory type (LT) background. The three mutants reached higher cell densities at the end of cultivation, showed comparable levels of chlorophyll fluorescence when exposed to incremental red-orange light, and at least one of the three mutations may alter gene function rather than suppress it. These findings offer valuable insight into the HL acclimation and adaptation of Synechocystis and contribute to a more comprehensive understanding of the molecular mechanisms that underlie its adaptation to HL. These results may direct future studies seeking to enhance the adaptability of cyanobacteria and related species to HL.
Light blocking film in a glasshouse impacts Capsicum annuum L. yield differentially across planting season
Authors: Maier Chelsea R. , Chavan Sachin G. , Klause Norbert , Liang Weiguang , Cazzonelli Christopher I. , Ghannoum Oula , Chen Zhong-Hua , Tissue David T.
Published: December 2023

High energy costs are a barrier to producing high-quality produce at protected cropping facilities. A potential solution to mitigate high energy costs is film technology, which blocks heat-producing radiation; however, the alteration of the light environment by these films may impact crop yield and quality. Previous studies have assessed the impact of ULR 80 [i.e., light-blocking film (LBF)] on crop yield and photosynthetically active radiation (PAR); however, an assessment of the spectral environment over different seasons is important to understand potential crop impacts through different developmental phases. In this study, two varieties (red and orange) of Capsicum annuum were grown across two crop cycles: one cycle with primary crop growth in the autumn (i.e., autumn experiment [AE]) and the other with primary crop growth in the summer (i.e., summer experiment [SE]). LBF reduced PAR (roof level: 26%–30%, plant canopy level: 8%–25%) and net radiation (36%–66%). LBF also reduced total diffuse PAR (AE: 8%, SE: 15%), but the diffuse fraction of PAR increased by 7% and 9% for AE and SE, respectively, potentially resulting in differential light penetration throughout the canopy across treatments. LBF reduced near-infrared radiation (700 nm–2,500 nm), including far-red (700 nm–780 nm) at mid- and lower-canopy levels. LBF significantly altered light quantity and quality, which determined the amount of time that the crop grew under light-limited (<12 mol m−2 d−1) versus sufficient light conditions. In AE, crops were established and grown under light-limited conditions for 57% of the growing season, whereas in SE, crops were established and grown under sufficient light conditions for 66% of the growing season. Overall, LBF significantly reduced the yield in SE for both varieties (red: 29%; orange: 16%), but not in AE. The light changes in different seasons in response to LBF suggest that planting time is crucial for maximizing fruit yield when grown under a film that reduces light quantity. LBF may be unsuitable for year-round production of capsicum, and additional development of LBF is required for the film to be beneficial for saving energy during production and sustaining good crop yields in protected cropping.
Optimizing window size and directional parameters of GLCM texture features for estimating rice AGB based on UAVs multispectral imagery
Authors: Liu Jikai , Zhu Yongji , Song Lijuan , Su Xiangxiang , Li Jun , Zheng Jing , Zhu Xueqing , Ren Lantian , Wang Wenhui , Li Xinwei
Published: December 2023

Aboveground biomass (AGB) is a crucial physiological parameter for monitoring crop growth, assessing nutrient status, and predicting yield. Texture features (TFs) derived from remote sensing images have been proven to be crucial for estimating crops AGB, which can effectively address the issue of low accuracy in AGB estimation solely based on spectral information. TFs exhibit sensitivity to the size of the moving window and directional parameters, resulting in a substantial impact on AGB estimation. However, few studies systematically assessed the effects of moving window and directional parameters for TFs extraction on rice AGB estimation. To this end, this study used Unmanned aerial vehicles (UAVs) to acquire multispectral imagery during crucial growth stages of rice and evaluated the performance of TFs derived with different grey level co-occurrence matrix (GLCM) parameters by random forest (RF) regression model. Meanwhile, we analyzed the importance of TFs under the optimal parameter settings. The results indicated that: (1) the appropriate window size for extracting TFs varies with the growth stages of rice plant, wherein a small-scale window demonstrates advantages during the early growth stages, while the opposite holds during the later growth stages; (2) TFs derived from 45° direction represent the optimal choice for estimating rice AGB. During the four crucial growth stages, this selection improved performance in AGB estimation with R2 = 0.76 to 0.83 and rRMSE = 13.62% to 21.33%. Furthermore, the estimation accuracy for the entire growth season is R2 =0.84 and rRMSE =21.07%. However, there is no consensus regarding the selection of the worst TFs computation direction; (3) Correlation (Cor), Mean, and Homogeneity (Hom) from the first principal component image reflecting internal information of rice plant and Contrast (Con), Dissimilarity (Dis), and Second Moment (SM) from the second principal component image expressing edge texture are more important to estimate rice AGB among the whole growth stages; and (4) Considering the optimal parameters, the accuracy of texture-based AGB estimation slightly outperforms the estimation accuracy based on spectral reflectance alone. In summary, the present study can help researchers confident use of GLCM-based TFs to enhance the estimation accuracy of physiological and biochemical parameters of crops.
Harsh parenting among veterans: parents' military-related PTSD, mentalization, and pre-military trauma
Authors: Wang Xiafei , Liu Qingyang , Merrin Gabriel J. , Keller Amanda , Yoon Dalhee , Henderson Ava
Published: December 2023

Objectives

Veteran parents experiencing posttraumatic stress disorder (PTSD) may resort to harsh parenting. The indirect pathway from parental military-related PTSD to harsh parenting, and the moderating role of parents' pre-military trauma histories, has been less explored. Informed by mentalization theory, as well as trauma-sensitive and posttraumatic growth perspectives, we aim to explore the associations between veteran parents' military-related PTSD, mentalization, harsh parenting, and prior trauma before military service.

Methods

Data were collected from an online research panel of 509 veteran parents with children under 10. We employed Structural Equation Models to test indirect and moderating effects.

Results

We identified an indirect effect of parental pre-mentalization from military PTSD to harsh parenting [corporal punishment: b = 0.35, p < 0.001, 95% CI (0.23, 0.46); psychological aggression: b = 0.14, p < 0.001, 95% CI (0.09, 0.19)]. Multi-group analysis on four parent groups (parents with only pre-military physical trauma, parents with only pre-military psychological trauma, parents with both pre-military physical and psychological trauma, and parents with no pre-military physical or psychological trauma) highlighted differences in these associations, particularly between parents with only pre-military physical trauma and those without any physical and psychological trauma. The military-related PTSD effects on psychological aggression, corporal punishment, and pre-mentalization were all significantly higher for parents without pre-military physical and psychological trauma.

Conclusion

Modifying parents' interpretation of their child's mental states can potentially counteract the effects of veterans' military PTSD on harsh parenting. Family-based programs should be created considering veteran parents' pre-military trauma histories.