bluuebunny/crossref_metadata_2025 huggingface dataset:
Biologic and Abiotic Factors Regulate Dissolved Organic Nitrogen With Low and High Nutrient Concentrations on Tibetan Plateau, Respectively
Authors: Li Shaoyu , Sun Jian , Zhou Tiancai , Zhao Mengli , Cong Nan , Zhang Lin
Published: July 2021

Although dissolved organic nitrogen (DON) plays an important role in the dynamic processes of nitrogen mineralization, fixation, and leaching, the ecological driving forces of DON across the Tibetan Plateau remain largely unknown. Here, we measured climate, soil, plant indicators, and DON concentration on the Tibetan Plateau, and used “change-point” analysis to determine DON patterns. Then correlation analysis was applied to analyze the relationship between DON and each index. Finally, the structural equation modelling (SEM) is used to explain the overall effect between DON and environmental factors. Our results showed that two DON patterns were presented across the Tibetan Plateau, that is, low-DON (5.43 g/mg) and high-DON (16.36 g/mg) patterns. In the low-DON pattern, biologic factors such as microbial carbon, microbial nitrogen, and productivity were the main influencing factors of DON concentration. In the high-DON pattern, DON was strongly governed by hydrothermal synchronization and superior soil environment. This study can help us to have a more comprehensive understanding of the response mechanism of soil soluble nitrogen pool in alpine ecosystems under climate change.
Coupled Source-Sink Habitats Produce Spatial and Temporal Variation of Cancer Cell Molecular Properties as an Alternative to Branched Clonal Evolution and Stem Cell Paradigms
Authors: Cunningham Jessica J. , Bukkuri Anuraag , Brown Joel S. , Gillies Robert J. , Gatenby Robert A.
Published: July 2021

Intratumoral molecular cancer cell heterogeneity is conventionally ascribed to the accumulation of random mutations that occasionally generate fitter phenotypes. This model is built upon the “mutation-selection” paradigm in which mutations drive ever-fitter cancer cells independent of environmental circumstances. An alternative model posits spatio-temporal variation (e.g., blood flow heterogeneity) drives speciation by selecting for cancer cells adapted to each different environment. Here, spatial genetic variation is the consequence rather than the cause of intratumoral evolution. In nature, spatially heterogenous environments are frequently coupled through migration. Drawing from ecological models, we investigate adjacent well-perfused and poorly-perfused tumor regions as “source” and “sink” habitats, respectively. The source habitat has a high carrying capacity resulting in more emigration than immigration. Sink habitats may support a small (“soft-sink”) or no (“hard-sink”) local population. Ecologically, sink habitats can reduce the population size of the source habitat so that, for example, the density of cancer cells directly around blood vessels may be lower than expected. Evolutionarily, sink habitats can exert a selective pressure favoring traits different from those in the source habitat so that, for example, cancer cells adjacent to blood vessels may be suboptimally adapted for that habitat. Soft sinks favor a generalist cancer cell type that moves between the environment but can, under some circumstances, produce speciation events forming source and sink habitat specialists resulting in significant molecular variation in cancer cells separated by small distances. Finally, sink habitats, with limited blood supply, may receive reduced concentrations of systemic drug treatments; and local hypoxia and acidosis may further decrease drug efficacy allowing cells to survive treatment and evolve resistance. In such cases, the sink transforms into the source habitat for resistant cancer cells, leading to treatment failure and tumor progression. We note these dynamics will result in spatial variations in molecular properties as an alternative to the conventional branched evolution model and will result in cellular migration as well as variation in cancer cell phenotype and proliferation currently described by the stem cell paradigm.
Changthangi Pashmina Goat Genome: Sequencing, Assembly, and Annotation
Authors: Bhat Basharat , Ganai Nazir A. , Singh Ashutosh , Mir Rakeeb , Ahmad Syed Mudasir , Majeed Zargar Sajad , Malik Firdose
Published: July 2021

Pashmina goats produce the world's finest and the most costly animal fiber (Pashmina) with an average fineness of 11–13 microns and have more evolved mechanisms than any known goat breed around the globe. Despite the repute of Pashmina goat for producing the finest and most sought-after animal fiber, meager information is available in the public domain about Pashmina genomics and transcriptomics. Here we present a 2.94 GB genome sequence from a male Changthangi white Pashmina goat. We generated 294.8 GB (>100X coverage) of the whole-genome sequence using the Illumina HiSeq 2500 sequencer. All cleaned reads were mapped to the goat reference genome (2,922,813,246 bp) which covers 97.84% of the genome. The Unaligned reads were used for de novo assembly resulting in a total of 882 MB non-reference contigs. De novo assembly analysis presented in this study provides important insight into the adaptation of Pashmina goats to cold stress and helps enhance our understanding of this complex phenomenon. A comparison of the Pashmina goat genome with a wild goat genome revealed a total of 2,823 high impact single nucleotide variations and small insertions and deletions, which may be associated with the evolution of Pashmina goats. The Pashmina goat genome sequence provided in this study may improve our understanding of complex traits found in Pashmina goats, such as annual fiber cycling, defense mechanism against hypoxic, survival secret in extremely cold conditions, and adaptation to a sparse diet. In addition, the genes identified from de novo assembly could be utilized in differentiating Pashmina fiber from other fibers to avoid falsification at marketing practices.
The Genetic Contribution to Drug Response in Spondyloarthritis: A Systematic Literature Review
Authors: Ortolan Augusta , Cozzi Giacomo , Lorenzin Mariagrazia , Galozzi Paola , Doria Andrea , Ramonda Roberta
Published: July 2021

Objective: Spondyloarthritis (SpA) are a group of diseases with a high heritability, whose pathogenesis is strongly determined by an interplay between genetic and environmental factor. Therefore, the aim of our study was to determine whether genetic variants could also influence response to therapy in SpA.

Methods: A systematic literature review (SLR) was conducted in PubMed and Web of Science core collection, without publication-year restrictions (Last search 8th April 2021). The search strategy was formulated according to the PEO format (Population, Exposure, Outcome) for observational studies. The population was adult (≥18 years) patients with SpA. The exposure was inheritable genetic variations of any gene involved in the disease pathogenesis/drug metabolism. The outcome was response to the drug, both as dichotomous (response yes/no) and as continuous outcomes. Exclusion criteria were: (1) languages other than English, (2) case series, case reports, editorials, and reviews, (3) studies reporting genetic contribution to drug response only limited to extra-musculoskeletal features of SpA, (4) epigenetic modifications. Quality of the included study was independently assessed by two authors.

Results: After deduplication, 393 references were screened by two authors, which led to the final inclusion of 26 articles, pertinent with the research question, that were considered for qualitative synthesis. Among these, 10 cohort, one cross-sectional, and five case-control studies were considered of at least good quality according to Newcastle-Ottawa Scale (NOS). In studies about TNF-blockers therapy: (1) polymorphisms of the TNF receptor superfamily 1A/1B (TNFRSF1A/1B) genes were most frequently able to predict response, (2) −238 and −308 polymorphisms of TNFα gene were studied with conflicting results, (3) TNFα polymorphism rs1799724, rs1799964, −857, −1,013, +489 predicted drug response in non-adjusted analysis, (4) PDE3A rs3794271 had a linear relationship with DAS28 reduction after anti-TNFα therapy. DHFR polymorphism +35,289 was able to predict response to methotrexate.

Conclusions: Our SLR highlighted the existence of a genetic component in determining drug response. However, further studies are warranted to better define quantify it.
Expression of MICA in Zero Hour Biopsies Predicts Graft Survival After Liver Transplantation
Authors: Resch Thomas , Hackl Hubert , Esser Hannah , Günther Julia , Schwelberger Hubert , Ritschl Paul Viktor , Ebner Susanne , Maglione Manuel , Mellitzer Vanessa , Biebl Matthias , Öllinger Robert , Zoller Heinz , Schneeberger Stefan , Kotsch Katja
Published: July 2021

In search for novel biomarkers to assess graft quality, we investigated whether defined candidate genes are predictive for outcome after liver transplantation (LT).

Zero-hour liver biopsies were obtained from 88 livers. Gene expression of selected candidate markers was analyzed and correlated with clinical parameters as well as short and long-term outcomes post LT. Whereas both, the calculated Eurotransplant Donor-Risk-Index and the donor body mass index, had either a poor or no predictive value concerning serum levels indicative for liver function (ALT, AST, GGT, bilirubin) after 6 months, chronological donor age was weakly predictive for serum bilirubin (AUC=0.67). In contrast, the major histcompatibility complex class I related chain A (MICA) mRNA expression demonstrated a high predictive value for serum liver function parameters revealing an inverse correlation (e.g. for ALT: 3 months p=0.0332; 6 months p=0.007, 12 months 0.0256, 24 months p=0.0098, 36 months, p=0.0153) and proved significant also in a multivariate regression model. Importantly, high expression of MICA mRNA revealed to be associated with prolonged graft survival (p=0.024; log rank test) after 10 years of observation, whereas low expression was associated with the occurrence of death in patients with transplant related mortality (p=0.031). Given the observed correlation with short and long-term graft function, we suggest MICA as a biomarker for pre-transplant graft evaluation.
Potential Role of CXCL10 in Monitoring Response to Treatment in Leprosy Patients
Authors: Ferreira Helen , Mendes Mayara Abud , de Mattos Barbosa Mayara Garcia , de Oliveira Eliane Barbosa , Sales Anna Maria , Moraes Milton Ozório , Sarno Euzenir Nunes , Pinheiro Roberta Olmo
Published: July 2021

The treatment of multibacillary cases of leprosy with multidrug therapy (MDT) comprises 12 doses of a combination of rifampicin, dapsone and clofazimine. Previous studies have described the immunological phenotypic pattern in skin lesions in multibacillary patients. Here, we evaluated the effect of MDT on skin cell phenotype and on the Mycobacterium leprae-specific immune response. An analysis of skin cell phenotype demonstrated a significant decrease in MRS1 (SR-A), CXCL10 (IP-10) and IFNG (IFN-γ) gene and protein expression after MDT release. Patients were randomized according to whether they experienced a reduction in bacillary load after MDT. A reduction in CXCL10 (IP-10) in sera was associated with the absence of a reduction in the bacillary load at release. Although IFN-γ production in response to M. leprae was not affected by MDT, CXCL10 (IP-10) levels in response to M. leprae increased in cells from patients who experienced a reduction in bacillary load after treatment. Together, our results suggest that CXCL10 (IP-10) may be a good marker for monitoring treatment efficacy in multibacillary patients.
Clinical Features of HIV Arthropathy in Children: A Case Series and Literature Review
Authors: Harrison Michael J. , Brice Nicola , Scott Christiaan
Published: July 2021

Background

HIV infection has been associated with a non-erosive inflammatory arthritis in children, although few published reports exist. This study describes the clinical, laboratory and imaging features of this noncommunicable disease in a series of HIV-infected children in South Africa.

Methods

A database search was conducted to identify HIV-infected children enrolled in a Paediatric Rheumatology service in Cape Town, South Africa between 1 January 2010 and 31 December 2020. Retrospective data were collected from individuals classified with HIV arthropathy, based on a predefined checklist. Demographic, clinical, laboratory, sonographic, therapeutic, and outcomes data were extracted by chart review. Descriptive statistical analysis was performed using R (v4.0.3).

Results

Eleven cases of HIV arthropathy were included in the analysis. Cases predominantly presented in older boys with low CD4+ counts. Median age at arthritis onset was 10.3 years (IQR 6.9 – 11.6) and the male-female ratio was 3.0. The median absolute CD4+ count was 389 cells/uL (IQR 322 – 449). The clinical presentation was variable, with both oligoarthritis and polyarthritis being common. Elevated acute phase reactants were the most consistent laboratory feature, with a median ESR of 126 mL/h (IQR 67 – 136) and median CRP of 36 mg/L (IQR 25 – 68). Ultrasonography demonstrated joint effusions and synovial hypertrophy. Response to therapy was slower than has generally been described in adults, with almost all cases requiring more than one immunosuppressive agent. Five children were discharged in established remission after discontinuing immunotherapy, however outcomes data were incomplete for the remaining six cases.

Conclusions

In this case series, HIV arthropathy was associated with advanced immunosuppression. Therapeutic modalities included immunomodulators and antiretroviral therapy, which consistently induced disease remission although data were limited by a high rate of attrition. Prospective studies are needed to define and understand this HIV-associated noncommunicable disease.
Principles and Methods of Counteracting Harmful Salmon–Arthropod Interactions in Salmon Farming: Addressing Possibilities, Limitations, and Future Options
Authors: Guragain Prashanna , Tkachov Max , Båtnes Anna Solvang , Olsen Yngvar , Winge Per , Bones Atle M.
Published: July 2021

The arthropod salmon louse (Lepeophtheirus salmonis) is a major threat to Atlantic salmon aquaculture and wild salmonids. Essentially like in monoculture, very high concentrations of susceptible hosts may result in high reproduction and severe production of waves of pests. Pest management is crucial both for fish health and protection of wild fish populations from aquaculture influence. Various methods have been utilized to control salmon lice infestations, such as pesticide use, physical treatments, construction modifications, fallowing, breeding, vaccination, and biological control. Most of the methods are partially successful, but none completely fulfills the necessary pest control strategy. Like in agriculture, lice/pest management is an arms race, but the marine environment makes it even more difficult to precisely hit the target pest and avoid unintended negative effects on general wildlife. In this study, we provide an overview of the methods and principles of salmon lice management and address current possibilities and limitations. We also highlight the potential of emerging strategies and enabling technologies, like genome editing, RNA interference, and machine learning, in arthropod management in aquaculture.
Electroacupuncture Regulates Pain Transition Through Inhibiting PKCε and TRPV1 Expression in Dorsal Root Ganglion
Authors: Fang Junfan , Wang Sisi , Zhou Jie , Shao Xiaomei , Sun Haiju , Liang Yi , He Xiaofen , Jiang Yongliang , Liu Boyi , Jin Xiaoming , Fang Jianqiao , Du Junying
Published: July 2021

Many cases of acute pain can be resolved with few side effects. However, some cases of acute pain may persist beyond the time required for tissue injury recovery and transit to chronic pain, which is hard to treat. The mechanisms underlying pain transition are not entirely understood, and treatment strategies are lacking. In this study, the hyperalgesic priming model was established on rats to study pain transition by injection of carrageenan (Car) and prostaglandin E2 (PGE2). The expression levels of protein kinase C epsilon (PKCε) and transient receptor potential vanilloid 1 (TRPV1) in the L4–L6 dorsal root ganglion (DRG) were investigated. Electroacupuncture (EA) is a form of acupuncture in which a small electric current is passed between a pair of acupuncture needles. EA was administrated, and its effect on hyperalgesia and PKCε and TRPV1 expression was investigated. The PKCε–TRPV1 signaling pathway in DRG was implicated in the pain transition. EA increased the pain threshold of model animals and regulated the high expression of PKCε and TRPV1. Moreover, EA also regulated hyperalgesia and high TRPV1 expression induced by selective PKCε activation. We also found that EA partly increased chronic pain threshold, even though it was only administered between the Car and PGE2 injections. These findings suggested that EA could prevent the transition from acute to chronic pain by inhibiting the PKCε and TRPV1 expression in the peripheral nervous system.
Altered Spontaneous Neural Activity and Functional Connectivity in Parkinson’s Disease With Subthalamic Microlesion
Authors: Luo Bei , Lu Yue , Qiu Chang , Dong Wenwen , Xue Chen , Zhang Li , Liu Weiguo , Zhang Wenbin
Published: July 2021

Background

Transient improvement in motor symptoms are immediately observed in patients with Parkinson’s disease (PD) after an electrode has been implanted into the subthalamic nucleus (STN) for deep brain stimulation (DBS). This phenomenon is known as the microlesion effect (MLE). However, the underlying mechanisms of MLE is poorly understood.

Purpose

We utilized resting state functional MRI (rs-fMRI) to evaluate changes in spontaneous brain activity and networks in PD patients during the microlesion period after DBS.

Method

Overall, 37 PD patients and 13 gender- and age-matched healthy controls (HCs) were recruited for this study. Rs-MRI information was collected from PD patients three days before DBS and one day after DBS, whereas the HCs group was scanned once. We utilized the amplitude of low-frequency fluctuation (ALFF) method in order to analyze differences in spontaneous whole-brain activity among all subjects. Furthermore, functional connectivity (FC) was applied to investigate connections between other brain regions and brain areas with significantly different ALFF before and after surgery in PD patients.

Result

Relative to the PD-Pre-DBS group, the PD-Post-DBS group had higher ALFF in the right putamen, right inferior frontal gyrus, right precentral gyrus and lower ALFF in right angular gyrus, right precuneus, right posterior cingulate gyrus (PCC), left insula, left middle temporal gyrus (MTG), bilateral middle frontal gyrus and bilateral superior frontal gyrus (dorsolateral). Functional connectivity analysis revealed that these brain regions with significantly different ALFF scores demonstrated abnormal FC, largely in the temporal, prefrontal cortices and default mode network (DMN).

Conclusion

The subthalamic microlesion caused by DBS in PD was found to not only improve the activity of the basal ganglia-thalamocortical circuit, but also reduce the activity of the DMN and executive control network (ECN) related brain regions. Results from this study provide new insights into the mechanism of MLE.
Chiropractic Spinal Manipulation Prevents Secondary Hyperalgesia Induced by Topical Capsaicin in Healthy Individuals
Authors: Gevers-Montoro Carlos , Provencher Benjamin , Northon Stéphane , Stedile-Lovatel João Paulo , Ortega de Mues Arantxa , Piché Mathieu
Published: July 2021

Background and Aims: Spinal manipulation (SM) is currently recommended for the management of back pain. Experimental studies indicate that the hypoalgesic mechanisms of SM may rely on inhibition of segmental processes related to temporal summation of pain and, possibly, on central sensitization, although this remains unclear. The aim of this study was to determine whether experimental back pain, secondary hyperalgesia, and pain-related brain activity induced by capsaicin are decreased by segmental SM.

Methods: Seventy-three healthy volunteers were randomly allocated to one of four experimental groups: SM at T5 vertebral level (segmental), SM at T9 vertebral level (heterosegmental), placebo intervention at T5 vertebral level, or no intervention. Topical capsaicin was applied to the area of T5 vertebra for 40 min. After 20 min, the interventions were administered. Pressure pain thresholds (PPTs) were assessed outside the area of capsaicin application at 0 and 40 min to examine secondary hyperalgesia. Capsaicin pain intensity and unpleasantness were reported every 4 min. Frontal high-gamma oscillations were also measured with electroencephalography.

Results: Pain ratings and brain activity were not significantly different between groups over time (p > 0.5). However, PPTs were significantly decreased in the placebo and control groups (p < 0.01), indicative of secondary hyperalgesia, while no hyperalgesia was observed for groups receiving SM (p = 1.0). This effect was independent of expectations and greater than placebo for segmental (p < 0.01) but not heterosegmental SM (p = 1.0).

Conclusions: These results indicate that segmental SM can prevent secondary hyperalgesia, independently of expectations. This has implications for the management of back pain, particularly when central sensitization is involved.
The Cost of Excessive Smartphone Use: Guilt Cross the Work-Family Domains
Authors: Liu Yujing , Du Jing , Li Yuan
Published: July 2021

Empirical evidence has accumulated showing that smartphone use at work has the double-edged sword impacts on work-related attitudes and behaviors, but little is known about how its effects transmit and spill over from the workplace to the family domain. Drawing upon compensatory ethics theory, we hypothesize positive associations of employees’ daily private smartphone use at work with their family role performance after work through feeling of guilt. Using an experience sampling methodology, we test our hypotheses in a sample of 101 employees who completed surveys across 10 consecutive workdays. Multilevel path analysis results showed that excessive smartphone use at work triggered experienced guilt, and had a positive indirect effect on family role performance via feeling of guilt. Furthermore, employees with high ability of emotion regulation can be better resolve own painful emotion by engaging in family role performance. Theoretical and practical implications, limitations, and propose future research directions are discussed.
Multiple Mediating Effects of Conflicts With Parents and Self-Esteem on the Relationship Between Economic Status and Depression Among Middle School Students Since COVID-19
Authors: Lee Jaewon , Lim Hyejung , Allen Jennifer , Choi Gyuhyun
Published: July 2021

This study explores associations between perceived economic status and depression among middle school students during COVID-19 in the context of conflict with parents and self-esteem. Data were collected in South Korea in the fall of 2020. A total of 328 middle school students were included, and a multiple mediator model was employed to examine the multiple mediating effects. Middle schoolers’ household economic status was negatively associated with their conflict with parents. Conflict with parents was negatively related to middle school students’ self-esteem. Indirect effects of perceived economic status via conflict with parents were significantly associated with depression. The indirect effect of perceived economic status via both conflict with parents and self-esteem was related to depression. Government subsidies should temporarily be expanded to improve households’ economic status to potentially improve middle school students’ depression and to enhance relationships between children and their parents during the COVID-19 pandemic. Further, extra financial support from the government should be focused on poor households with children in order to address family conflict, self-esteem, and depression among middle school students.
Trends in Psychiatric Emergency Department Visits in Northern Israel During the COVID-19 Outbreak
Authors: Pikkel Igal Yael , Meretyk Irit , Darawshe Aziz , Hayek Samer , Givon Limor , Levy Avi , Sipori Idan , Nuriel Yonatan , Bloch Boaz , Buniak Shraga , Eshel Ron , Fruchter Eyal
Published: July 2021

Background: During the spread of coronavirus disease (COVID-19), mandatory quarantines increased social isolation and anxiety, with inevitable consequences on mental health and health seeking behavior. We wished to estimate those trends.

Methods: We examined all psychiatric visits to the emergency department (ED) during March, April 2020, compared to identical months in 2018, 2019. We evaluated both number and nature of referrals.

Results: Throughout the years, psychiatric referrals comprised about 5% of the total number of ED visits. In March-April 2020, 30% decreases were observed in overall ED visits and in psychiatric referrals in the ED. Compared to 2018–2019, in 2020, the proportions of these diagnoses were higher: anxiety disorders (14.5 vs. 5.4%, p < 0.001), personality disorders (6.7 vs. 3.2%, p = 0.001), psychosis (9.5 vs. 6.7%, p = 0.049), post-traumatic stress disorder (3.2 vs. 1.5%, p = 0.023). Compared to 2018–2019, in 2020, proportions were lower for adjustment disorder (5.8 vs. 8.9%, p = 0.036) and for consultation regarding observation (11.7 vs. 31.6%, p < 0.001). Differences were not observed between 2018-2019 and 2020 in the proportions of other diagnoses including suicide and self-harm disorders. Referrals concerning suicide and self-harm in a rural hospital and community clinic were 30% lower in the COVID-19 lockdown than in the same months in 2018, 2019.

Conclusion: Psychiatric ED visits decreased by the same proportion as overall visits to the ED, apparently driven by fears of COVID-19. Referrals relating suicidality and self-harm shown nominal decrease, but their proportioned share remained constant. Increased anxiety and delayed care may eventually lead to increased mental health needs.
Sustainability of a Motor Control Exercise Intervention: Analysis of Long-Term Effects in a Low Back Pain Study
Authors: Puschmann Anne-Katrin , Lin Chiao-I , Wippert Pia-Maria
Published: July 2021

Development of chronic pain after a low back pain episode is associated with increased pain sensitivity, altered pain processing mechanisms and the influence of psychosocial factors. Although there is some evidence that multimodal therapy (such as behavioral or motor control therapy) may be an important therapeutic strategy, its long-term effect on pain reduction and psychosocial load is still unclear. Prospective longitudinal designs providing information about the extent of such possible long-term effects are missing. This study aims to investigate the long-term effects of a homebased uni- and multidisciplinary motor control exercise program on low back pain intensity, disability and psychosocial variables. 14 months after completion of a multicenter study comparing uni- and multidisciplinary exercise interventions, a sample of one study center (n = 154) was assessed once more. Participants filled in questionnaires regarding their low back pain symptoms (characteristic pain intensity and related disability), stress and vital exhaustion (short version of the Maastricht Vital Exhaustion Questionnaire), anxiety and depression experiences (the Hospital and Anxiety Depression Scale), and pain-related cognitions (the Fear Avoidance Beliefs Questionnaire). Repeated measures mixed ANCOVAs were calculated to determine the long-term effects of the interventions on characteristic pain intensity and disability as well as on the psychosocial variables. Fifty four percent of the sub-sample responded to the questionnaires (n = 84). Longitudinal analyses revealed a significant long-term effect of the exercise intervention on pain disability. The multidisciplinary group missed statistical significance yet showed a medium sized long-term effect. The groups did not differ in their changes of the psychosocial variables of interest. There was evidence of long-term effects of the interventions on pain-related disability, but there was no effect on the other variables of interest. This may be partially explained by participant's low comorbidities at baseline. Results are important regarding costless homebased alternatives for back pain patients and prevention tasks. Furthermore, this study closes the gap of missing long-term effect analysis in this field.
Perspectives of Healthcare Professionals Regarding Factors Associated with Antimicrobial Resistance (AMR) and Their Consequences: A Cross Sectional Study in Eastern Province of Saudi Arabia
Authors: Baraka Mohamed A. , Alboghdadly Amany , Alshawwa Samar , Elnour Asim Ahmed , Alsultan Hassan , Alsalman Taha , Alaithan Hussain , Islam Md. Ashraful , El-Fass Kareem Ahmed , Mohamed Yehia , Alasseri Abdulsalam A. , Fahelelbum Khairi Mustafa
Published: July 2021

Factors reported in the literature associated with inappropriate prescribing of antimicrobials include physicians with less experience, uncertain diagnosis, and patient caregiver influences on physicians’ decisions. Monitoring antimicrobial resistance is critical for identifying emerging resistance patterns, developing, and assessing the effectiveness of mitigation strategies. Improvement in prescribing antimicrobials would minimize the risk of resistance and, consequently, improve patients’ clinical and health outcomes. The purpose of the study is to delineate factors associated with antimicrobial resistance, describe the factors influencing prescriber’s choice during prescribing of antimicrobial, and examine factors related to consequences of inappropriate prescribing of antimicrobial. A cross-sectional study was conducted among healthcare providers (190) in six tertiary hospitals in the Eastern province of Saudi Arabia. The research panel has developed, validated, and piloted survey specific with closed-ended questions. A value of p < 0.05 was considered to be statistically significant. All data analysis was performed using the Statistical Package for Social Sciences (IBM SPSS version 23.0). 72.7% of the respondents have agreed that poor skills and knowledge are key factors that contribute to the inappropriate prescribing of antimicrobials. All of the respondents acknowledged effectiveness, previous experience with the antimicrobial, and reading scientific materials (such as books, articles, and the internet) as being key factors influencing physicians’ choice during antimicrobial prescribing. The current study has identified comprehensive education and training needs for healthcare providers about antimicrobial resistance. Using antimicrobials unnecessarily, insufficient duration of antimicrobial use, and using broad spectrum antimicrobials were reported to be common practices. Furthermore, poor skills and knowledge were a key factor that contributed to the inappropriate use and overuse of antimicrobials, and the use of antimicrobials without a physician’s prescription (i.e., self-medication) represent key factors which contribute to AMR from participants’ perspectives. Furthermore, internal policy and guidelines are needed to ensure that the antimicrobials are prescribed in accordance with standard protocols and clinical guidelines.
Head-Related Transfer Functions for Dynamic Listeners in Virtual Reality
Authors: Rummukainen Olli S. , Robotham Thomas , Habets Emanuël A. P.
Published: July 2021

In dynamic virtual reality, visual cues and motor actions aid auditory perception. With multimodal integration and auditory adaptation effects, generic head-related transfer functions (HRTFs) may yield no significant disadvantage to individual HRTFs regarding accurate auditory perception. This study compares two individual HRTF sets against a generic HRTF set by way of objective analysis and two subjective experiments. First, auditory-model-based predictions examine the objective deviations in localization cues between the sets. Next, the HRTFs are compared in a static subjective (N=8) localization experiment. Finally, the localization accuracy, timbre, and overall quality of the HRTF sets are evaluated subjectively (N=12) in a six-degrees-of-freedom audio-visual virtual environment. The results show statistically significant objective deviations between the sets, but no perceived localization or overall quality differences in the dynamic virtual reality.
Buckling Strength Assessment of Composite Patch Repair Used for the Rehabilitation of Corroded Marine Plates
Authors: Kallitsis Nikos , Anyfantis Konstantinos
Published: July 2021

A common form of damage encountered in marine structures is the accumulation of corrosion in susceptible areas, which leads to material wastage. As a result, the structural strength of the members affected is compromised, endangering their safe operation in design loads. Consequently, structural instabilities may occur, such as buckling due to compressive or/and shear loads. An alternative repair practice for preventing such phenomena, approved for secondary load-carrying members, is the application of composite patches to the damaged area. In this preliminary study, this technique is examined in the scope of developing a framework that can be used to find the optimal solution for restoring the buckling strength of a corroded plate. The methods used to achieve this are based on finite element analysis (FEA) and design of experiments (DoE) to statistically analyze the aforementioned numerical calculations. By introducing the composite patch’s percentage coverage of its metal substrate and number of plies as design parameters, a response surface is generated with respect to the obtained factor of safety (regarding its reference uncorroded buckling strength). This list of data points is then evaluated, and an acceptable surface/list of design parameters’ combinations is generated.
Screening for Fatal Traumatic Brain Injuries in Cerebrospinal Fluid Using Blood-Validated CK and CK–MB Immunoassays
Authors: Zwirner Johann , Anders Sven , Bohnert Simone , Burkhardt Ralph , Da Broi Ugo , Hammer Niels , Pohlers Dirk , Tse Rexson , Ondruschka Benjamin
Published: July 2021

A single, specific, sensitive biochemical biomarker that can reliably diagnose a traumatic brain injury (TBI) has not yet been found, but combining different biomarkers would be the most promising approach in clinical and postmortem settings. In addition, identifying new biomarkers and developing laboratory tests can be time-consuming and economically challenging. As such, it would be efficient to use established clinical diagnostic assays for postmortem biochemistry. In this study, postmortem cerebrospinal fluid samples from 45 lethal TBI cases and 47 controls were analyzed using commercially available blood-validated assays for creatine kinase (CK) activity and its heart-type isoenzyme (CK–MB). TBI cases with a survival time of up to two hours showed an increase in both CK and CK–MB with moderate (CK–MB: AUC = 0.788, p < 0.001) to high (CK: AUC = 0.811, p < 0.001) diagnostic accuracy. This reflected the excessive increase of the brain-type CK isoenzyme (CK–BB) following a TBI. The results provide evidence that CK immunoassays can be used as an adjunct quantitative test aid in diagnosing acute TBI-related fatalities.
Coronavirus Disease 2019 (COVID-19) Diagnostic Tools: A Focus on Detection Technologies and Limitations
Authors: Qasem Ahmad , Shaw Ameera M. , Elkamel Erij , Naser Saleh A.
Published: July 2021

The ongoing coronavirus disease (COVID-19) pandemic caused by severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) poses a severe threat to human health and the global economy and has resulted in overwhelming stress on health care systems worldwide. Despite the global health catastrophe, especially in the number of infections and fatalities, the COVID-19 pandemic has also revolutionized research and discovery with remarkable success in diagnostics, treatments, and vaccine development. The use of many diagnostic methods has helped establish public health guidelines to mitigate the spread of COVID-19. However, limited information has been shared about these methods, and there is a need for the scientific community to learn about these technologies, in addition to their sensitivity, specificity, and limitations. This review article is focused on providing insights into the major methods used for SARS-CoV-2 detection. We describe in detail the core principle of each method, including molecular and serological approaches, along with reported claims about the rates of false negatives and false positives, the types of specimens needed, and the level of technology and the time required to perform each test. Although this study will not rank or prioritize these methods, the information will help in the development of guidelines and diagnostic protocols in clinical settings and reference laboratories.
Bacterial Sub-Species Typing Using Matrix-Assisted Laser Desorption/Ionization Time of Flight Mass Spectrometry: What Is Promising?
Authors: Huber Charlotte A. , Reed Sarah J. , Paterson David L.
Published: July 2021

Matrix-assisted laser desorption ionization–time of flight mass spectrometry (MALDI-TOF MS) is routinely used for bacterial identification. It would be highly beneficial to also be able to use the technology as a fast way to detect clinically relevant clones of bacterial species. However, studies to this aim have often had limited success. The methods used for data acquisition, processing and data interpretation are highly diverse amongst studies on MALDI-TOF MS sub-species typing. In addition to this, feasibility may depend on the bacterial species and strains investigated, making it difficult to determine what methods may or may not work. In our paper, we have reviewed recent research on MALDI-TOF MS typing of bacterial strains. Although we found a lot of variation amongst the methods used, there were approaches shared by multiple research groups. Multiple spectra of the same isolate were often combined before further analysis for strain distinction. Many groups used a protein extraction step to increase resolution in their MALDI-TOF MS results. Peaks at a high mass range were often excluded for data interpretation. Three groups have found ways to determine feasibility of MALDI-TOF MS typing for their set of strains at an early stage of their project.
Solvent-Based Elimination of Organic Matter from Marine-Collected Plastics
Authors: Mendoza Amaia , Kortaberria Galder , Marzo Florencio F. , Mayor Ugo , Basurko Oihane C. , Peña-Rodriguez Cristina
Published: July 2021

The physical-chemical characterization of plastic litter from the marine environment requires the prior removal of the biofouling attached to their surface without causing any degradation in the polymer. The absence of a standardized protocol for digesting biofouling and organic matter of both macro and microplastic samples extracted from seawater has been the main motivation for this research work, which aims to evaluate the effectiveness of different solvents (hydrogen peroxide, ethanol, a commercial enzymatic detergent, and potassium hydroxide) for the digestion of organic matter and biofouling in different samples recovered from the Spanish Atlantic and Mediterranean coast. Moreover, the potential effect of those solvents on the physical-chemical structure of polymers, four virgin plastic reference materials (low-density polyethylene, polyamide, poly(ethylene terephthalate) and polystyrene) without any type of prior degradation has been characterized in terms of Fourier transform infrared spectroscopy (FTIR) and optical microscopy. Results indicate that the hydrogen peroxide at 15% concentration applied for one week at 40 °C is the most effective solvent for organic matter and biofouling removal, without causing any apparent damage on the structure of plastic samples analyzed.
Macro- and Micronutrient Contents in Soils of a Chronosequence of Naturally Regenerated Birch Stands on Abandoned Agricultural Lands in Central Poland
Authors: Gawęda Tomasz , Małek Stanisław , Błońska Ewa , Jagodziński Andrzej M. , Bijak Szymon , Zasada Michał
Published: July 2021

Abandoned agricultural lands in Central and Northern Europe undergo a quite rapid secondary succession of woody species, especially silver birch (Betula pendula Roth.) as a pioneer tree species. Such a process is desirable both from natural and economic point of views, as afforestation involves a change to the entire ecosystem and, in particular, the transformation of anthropogenic habitats typical for agriculture into habitats similar to a natural forest. In the present study, we report the chemical properties of soils under birch stands that naturally regenerated on abandoned agricultural lands and answer the question of whether silver birch modifies the chemical properties of soils over a (relatively short—17 years) time and with depth in the soil profile. The research investigated the natural secondary succession of silver birch on 28 study plots established as a chronosequence in seven locations in Central Poland. The age of the stands ranged from 2 to 17 years. We analysed the contents of selected micro- and macroelements and heavy metals at three depths in the soil profile. The chemical properties of former agricultural soils covered with newly established silver birch stands, taking into account the depth in the soil profile, demonstrated tendencies to change over the time. In the first age class of birch stands, the stock of investigated nutrients in the soil was higher compared to the following age classes. Statistically significant differences were noted in the case of Cu and Cr. Along with the age of birch stands (age class IV), there was a tendency for stock of the analysed nutrients to grow, which can be associated with an increase in aboveground biomass and root system development. The changes in the contents of the macro- and microelements, as well as heavy metals, were characterised by a gradual increase of the elements analysed in the upper layer of the soil that, in the years following the birch influence on the soil, starts having an effect on the deeper layers. In the case of Cu, Pb, Cd, Ni and Cr, there was a statistically significant change in the depth of the soil. Longer chronosequences should be observed to see a clear trajectory in soil chemistry changes with birch stand ages.
Attention-Based CNN-RNN Arabic Text Recognition from Natural Scene Images
Authors: Butt Hanan , Raza Muhammad Raheel , Ramzan Muhammad Javed , Ali Muhammad Junaid , Haris Muhammad
Published: July 2021

According to statistics, there are 422 million speakers of the Arabic language. Islam is the second-largest religion in the world, and its followers constitute approximately 25% of the world’s population. Since the Holy Quran is in Arabic, nearly all Muslims understand the Arabic language per some analytical information. Many countries have Arabic as their native and official language as well. In recent years, the number of internet users speaking the Arabic language has been increased, but there is very little work on it due to some complications. It is challenging to build a robust recognition system (RS) for cursive nature languages such as Arabic. These challenges become more complex if there are variations in text size, fonts, colors, orientation, lighting conditions, noise within a dataset, etc. To deal with them, deep learning models show noticeable results on data modeling and can handle large datasets. Convolutional neural networks (CNNs) and recurrent neural networks (RNNs) can select good features and follow the sequential data learning technique. These two neural networks offer impressive results in many research areas such as text recognition, voice recognition, several tasks of Natural Language Processing (NLP), and others. This paper presents a CNN-RNN model with an attention mechanism for Arabic image text recognition. The model takes an input image and generates feature sequences through a CNN. These sequences are transferred to a bidirectional RNN to obtain feature sequences in order. The bidirectional RNN can miss some preprocessing of text segmentation. Therefore, a bidirectional RNN with an attention mechanism is used to generate output, enabling the model to select relevant information from the feature sequences. An attention mechanism implements end-to-end training through a standard backpropagation algorithm.
Unveiling the Pathogenesis of Psychiatric Disorders Using Network Models
Authors: Zuo Yanning , Wei Don , Zhu Carissa , Naveed Ormina , Hong Weizhe , Yang Xia
Published: July 2021

Psychiatric disorders are complex brain disorders with a high degree of genetic heterogeneity, affecting millions of people worldwide. Despite advances in psychiatric genetics, the underlying pathogenic mechanisms of psychiatric disorders are still largely elusive, which impedes the development of novel rational therapies. There has been accumulating evidence suggesting that the genetics of complex disorders can be viewed through an omnigenic lens, which involves contextualizing genes in highly interconnected networks. Thus, applying network-based multi-omics integration methods could cast new light on the pathophysiology of psychiatric disorders. In this review, we first provide an overview of the recent advances in psychiatric genetics and highlight gaps in translating molecular associations into mechanistic insights. We then present an overview of network methodologies and review previous applications of network methods in the study of psychiatric disorders. Lastly, we describe the potential of such methodologies within a multi-tissue, multi-omics approach, and summarize the future directions in adopting diverse network approaches.
Classification of High-Grade Serous Ovarian Carcinoma by Epithelial-to-Mesenchymal Transition Signature and Homologous Recombination Repair Genes
Authors: Sohn Min-Hwan , Kim Se Ik , Shin Jong-Yeon , Kim Hee Seung , Chung Hyun Hoon , Kim Jae-Weon , Lee Maria , Seo Jeong-Sun
Published: July 2021

High-grade serous ovarian cancer (HGSOC) is one of the deadliest cancers that can occur in women. This study aimed to investigate the molecular characteristics of HGSOC through integrative analysis of multi-omics data. We used fresh-frozen, chemotherapy-naïve primary ovarian cancer tissues and matched blood samples of HGSOC patients and conducted next-generation whole-exome sequencing (WES) and RNA sequencing (RNA-seq). Genomic and transcriptomic profiles were comprehensively compared between patients with germline BRCA1/2 mutations and others with wild-type BRCA1/2. HGSOC samples initially divided into two groups by the presence of germline BRCA1/2 mutations showed mutually exclusive somatic mutation patterns, yet the implementation of high-dimensional analysis of RNA-seq and application of epithelial-to-mesenchymal (EMT) index onto the HGSOC samples revealed that they can be divided into two subtypes; homologous recombination repair (HRR)-activated type and mesenchymal type. Patients with mesenchymal HGSOC, characterized by the activation of the EMT transcriptional program, low genomic alteration and diverse cell-type compositions, exhibited significantly worse overall survival than did those with HRR-activated HGSOC (p = 0.002). In validation with The Cancer Genome Atlas (TCGA) HGSOC data, patients with a high EMT index (≥the median) showed significantly worse overall survival than did those with a low EMT index (<the median) (p = 0.030). In conclusion, through a comprehensive multi-omics approach towards our HGSOC cohorts, two distinctive types of HGSOC (HRR-activated and mesenchymal) were identified. Our novel EMT index seems to be a potential prognostic biomarker for HGSOC.