Miracle-dz/UniFAR-FTUs huggingface dataset:
Breakfast Skipping in a Multi-Ethnic Population of Middle-Aged Men and Relationship With Sociodemographic Variables and Weight Status

Background Breakfast eating is regarded to be necessary for maintaining a healthy body weight. On the other hand, breakfast skipping has been linked with obesity incidence. This study was carried out to determine the prevalence of breakfast skipping among a multi-ethnic group of middle-aged men living in Saudi Arabia and the association between breakfast skipping and sociodemographic variables and weight status. Methods This cross-sectional study included 1,800 middle-aged men aged 36–59 years. Participants' sociodemographic information and frequency of breakfast eating were obtained through personal interviews. The body mass index was determined after measuring body weight and height using standardized methods. Results The prevalence of breakfast skipping was 42.1% of the study participants. Nationality was a predictor of breakfast skipping. Bangladeshi participants (N = 100) have the lowest rate of breakfast skipping (9.0%), whilst Saudi participants (N = 161) have the highest rate (73.3%). Weight status was another predictor of breakfast skipping as breakfast skippers had a significantly higher average body mass index (27.1 ± 3.8) than breakfast consumers (26.2 ± 3.5). Overweight/obese participants have a significantly higher breakfast skipping rate (44.9%) than participants with underweight/normal weight (36.6%). Conclusion The rate of breakfast skipping is relatively high among middle-aged men living in Saudi Arabia. The data support a link between breakfast skipping and sociodemographic variables and weight status.
Evaluation of LipL32 and LigA/LigB Knockdown Mutants in Leptospira interrogans Serovar Copenhageni: Impacts to Proteome and Virulence

Leptospirosis is a worldwide zoonosis caused by pathogenic species of the genus Leptospira. The recent application of CRISPR interference (CRISPRi) to Leptospira facilitates targeted gene silencing and provides a new tool to investigate pathogenic mechanisms of leptospirosis. CRISPRi relies on the expression of a catalytically “dead” Cas9 (dCas9) and a single-guide RNA (sgRNA). Previously, our group generated a LipL32 and a double LigA/LigB (LigAB) mutant, which, in the current study, are characterized by whole-cell proteomics in comparison with control leptospires harboring plasmid expressing dCas9 alone. Comparison of control and LigAB mutant leptospires identified 46 significantly differentially expressed (DE) proteins, including 27 proteins that were less abundant and 19 proteins that were more abundant in the LigAB mutant compared with the control. Comparison of the control and LipL32 mutant leptospires identified 243 DE proteins, of which 84 proteins were more abundant and 159 were less abundant in the LipL32 mutant strain. Significantly increased amounts of known virulence impactors and surface membrane receptors, including LipL45, LipL31, LigB, and LipL41, were identified. The virulence of LipL32 and LigAB mutants were evaluated in the hamster model of leptospirosis; the LigAB mutant was unable to cause acute disease although mutant leptospires could still be recovered from target organs, albeit at a significantly lower bacterial burden (<850 and <16-fold in liver and kidney, respectively, in comparison with control), indicating attenuation of virulence and a shift to chronic bacterial persistence. Notably, the LipL32 mutant displayed augmented virulence as evidenced by early onset of clinical symptoms and increased numbers of circulating foamy macrophages. Validation of LipL32 and LigAB mutants recovered from liver and kidney in the presence or absence of antibiotic selection revealed high plasmid stability and, by extension, gene silencing in vivo. Collectively, this work emphasizes the advantages and feasibility of using CRISPRi technology to evaluate and characterize virulence factors of leptospires and their respective host–pathogen interactions in animal models of leptospirosis. Importantly, it also provides insight into the requirements of LigA and LigB for acute disease and explores the impact of silencing expression of lipL32, which resulted in substantial changes in amounts of outer membrane proteins.
Zfp57 Exerts Maternal and Sexually Dimorphic Effects on Genomic Imprinting

Zfp57 has both maternal and zygotic functions in mouse. It maintains genomic imprinting at most known imprinted regions and controls allelic expression of the target imprinted genes in mouse embryos. The DNA methylation imprint at many imprinting control regions (ICRs) is lost when both maternal and zygotic Zfp57 are absent in Zfp57 maternal–zygotic mutant mouse embryos. Interestingly, we found that DNA methylation at a few ICRs was partially lost without maternal Zfp57 in Zfp57 heterozygous mouse embryos derived from Zfp57 homozygous female mice. This suggests that maternal Zfp57 is essential for the maintenance of DNA methylation at a small subset of imprinted regions in mouse embryos. This maternal effect of Zfp57 was applied to allelic expression switch as well as expression levels of the corresponding imprinted genes. It is rather surprising that DNA methylation imprint was affected differently at Rasgrf1 and AK008011 imprinted regions in the female or male Zfp57 maternal–zygotic mutant embryos, with more significant loss of DNA methylation observed in the male mutant embryos. Loss of ZFP57 resulted in gender-specific differences in allelic expression switch and expression level changes of some imprinted genes in female or male mutant embryos. These results indicate maternal and sexually dimorphic effects of ZFP57 on genomic imprinting in mouse.
3D Bioprinting Technology – One Step Closer Towards Cardiac Tissue Regeneration

Cardiovascular diseases are one of the leading causes of death across the globe. Heart transplantation has been used for end stage heart failure patients. However, due to the lack of donors, this treatment option usually depends on multiple variables and the result varies due to immunological issues. 3D bioprinting is an emerging approach for in vitro generation of functional cardiac tissues for drug screening and cardiac regenerative therapy. There are different techniques such as extrusion, inkjet, or laser-based 3D printing that integrate multiple cell lines with different scaffolds for the construction of complex 3D structures. In this review, we discussed the recent progress and challenges in 3D bioprinting strategies for cardiac tissue engineering, including cardiac patches, in vitro cardiac models, valves, and blood vessels.
Sentinel Surveillance Reveals Emerging Daptomycin-Resistant ST736 Enterococcus faecium and Multiple Mechanisms of Linezolid Resistance in Enterococci in the United States

Enterococcus faecalis and faecium with resistance to daptomycin and/or linezolid are emerging globally. We present the genomic characterization of daptomycin- and linezolid-resistant E. faecalis and E. faecium surveillance isolates from the United States, 2013–2016. Daptomycin resistance was low among E. faecalis (2/364, 0.5%) and E. faecium (17/344, 5%). The majority (71%, 12/17) of daptomycin-resistant E. faecium isolates belonged to the emerging ST736 clone and contained mutations in liaFSR and cls previously associated with resistance. However, 1/2 E. faecalis and 3/17 E. faecium did not contain these mutations previously associated with daptomycin resistance. Linezolid resistance was rare among E. faecalis (1/364, 0.3%) and E. faecium (2/344, 0.6%). These two E. faecium isolates, one of which was also resistant to daptomycin and vancomycin, contained the 23S rRNA nucleotide mutation (G2576T) associated with linezolid resistance. Long-read sequencing revealed the linezolid-resistant E. faecalis isolate contained chromosomal- and plasmid-encoded copies of optrA. The chromosomal optrA was located on the recently described Tn6674 multiresistance transposon. The second copy of optrA was encoded on an ∼65 kb mosaic plasmid, with component regions sharing high sequence identity to optrA-encoding multiresistance plasmids of animal origin. The optrA-encoding plasmid contained open reading frames predicted to encode proteins associated with a pheromone-responsive plasmid transfer system, and filter mating experiments confirmed the plasmid was conjugative. Continued surveillance of enterococci is necessary to assess the prevalence and trends of daptomycin and linezolid resistance in the United States, characterize resistance mechanisms and how they transfer, and monitor for emerging sequence types associated with resistance.
Comparative Study on Physiological Responses and Gene Expression of Bud Endodormancy Release Between Two Herbaceous Peony Cultivars (Paeonia lactiflora Pall.) With Contrasting Chilling Requirements

With the global temperature increase, diverse endogenous factors and environmental cues can lead to severe obstacles to bud endodormancy release for important economic plants, such as herbaceous peony (Paeonia lactiflora Pall.). Knowing the underlying mechanism in bud endodormancy release is vital for widely planting herbaceous peony at low latitudes with warm winter climates. A systematic study was carried out between the southern Chinese cultivar ‘Hang Baishao’ with low-chilling requirement (CR) trait and the northern cultivar ‘Zhuguang’ with high-CR trait. Peony buds were sampled at regular intervals under natural cold during the crucial bud endodormancy release stage. Physiology and morphology of the buds were observed, and the roles of reactive oxygen species (ROS) and relevant genes in the regulation of bud endodormancy release were also highlighted, which has been rather rare in previous bud dormancy studies of both herbaceous and tree peonies. The expression of the starch metabolism- and sucrose synthesis-related genes PlAMY PlSPS and PlSUS was lower in the high-CR ‘Zhuguang’ and corresponded to a lower content of soluble sugars. The expression of polyamine oxidase gene PlPAO2 correlated with a higher level of hydrogen peroxide (H2O2) in high-CR ‘Zhuguang’ than in low CR ‘Hang Baishao’ during bud endodormancy. Expression of PlMAPKKK5, an intermediate gene in the abscisic acid (ABA) response to ROS signaling, correlated with ROS levels and ABA content. We present the hypothesis that accumulation of ROS increases ABA content and decreases GA3 content and signal transduction leading to reduced expression of PlSVP and PlSOC1. Reduced cell division and increased cellular damage which probably blocked bud endodormancy release were also observed in high-CR ‘Zhuguang’ through histological observation and related genes expression. This study provides a comparative analysis on physiological responses and gene expression patterns of bud dormancy of geophytes in an increasingly unsuitable environment.
Role of 3D Transesophageal Echocardiography for Transcatheter Mitral Valve Repair—A Mini Review

Edge-to-edge transcatheter mitral valve repair (TMVr) using MitraClip has been evolving rapidly in patients with severe mitral regurgitation (MR) at high surgical risk or having contraindications for surgery. Three-dimensional (3D) echocardiography plays an important role in the management of severe MR. In particular, 3D transesophageal echocardiography (TEE) imaging allows the evaluation of MV geometry and quantification of MR severity with dedicated software. Real-time 3D TEE is also commonly used to guide TMVr and facilitate the procedure. Further development of 3D echocardiography may help achieve safer and more beneficial results. The following article summarizes the current knowledge and the future perspectives of 3D TEE in TMVr.
Hemp Genome Editing—Challenges and Opportunities

Hemp (Cannabis sativa L.) is a multipurpose crop with many important uses including medicine, fibre, food and biocomposites. This plant is currently gaining prominence and acceptance for its valuable applications. Hemp is grown as a cash crop for its novel cannabinoids which are estimated to be a multibillion-dollar downstream market. Hemp cultivation can play a major role in carbon sequestration with good CO2 to biomass conversion in low input systems and can also improve soil health and promote phytoremediation. The recent advent of genome editing tools to produce non-transgenic genome-edited crops with no trace of foreign genetic material has the potential to overcome regulatory hurdles faced by genetically modified crops. The use of Artificial Intelligence - mediated trait discovery platforms are revolutionizing the agricultural industry to produce desirable crops with unprecedented accuracy and speed. However, genome editing tools to improve the beneficial properties of hemp have not yet been deployed. Recent availability of high-quality Cannabis genome sequences from several strains (cannabidiol and tetrahydrocannabinol balanced and CBD/THC rich strains) have paved the way for improving the production of valuable bioactive molecules for the welfare of humankind and the environment. In this context, the article focuses on exploiting advanced genome editing tools to produce non-transgenic hemp to improve the most industrially desirable traits. The challenges, opportunities and interdisciplinary approaches that can be adopted from existing technologies in other plant species are highlighted.
A Meta-Analysis to Determine the State of Biological Control of Aphanomyces Root Rot

The increasing incidence and prevalence of the pathogen Aphanomyces euteiches in various pulse-growing regions worldwide necessitates the development of effective management strategies, including biological control agents. Numerous labs have undertaken research examining biological control methods to evaluate aphanomyces root rot suppression in multistep processes that include isolation of inhibitory organisms, lab assays, growth chamber assays, and field trials. Given the emergence of various biocontrol agents and the need to mitigate aphanomyces yield losses, we have undertaken a meta-analysis approach to analyze the effectiveness of biocontrol agents in relation to application method, biocontrol agent richness, biocontrol agent type, the type of study, and reporting system-oriented moderator variables. An effect size, calculated as a natural log response ratio, resulted in a summary weighted mean of −0.411, suggesting the overall effectiveness of biocontrol agents (p < .001). Aphanomyces root rot suppression using biological treatments showed significant heterogeneity for all moderator variables, confirming that the studies do not share a common effect size and the use of a random effect model was appropriate. Across studies, meta-analyses revealed that soil amendments, biocontrol agent application as a seed coating and suspension, bacterial and fungal biocontrol agents, mixed applications, growth chamber and field studies, and qualitative and quantitative reporting systems were all associated with significantly positive outcomes for aphanomyces root rot suppression. Our findings suggest that there is potential promise for biological control of aphanomyces root rot, and more field trials need to be conducted to demonstrate the efficacy level observed under growth chamber conditions. Moreover, we identified a lack of detailed understanding of the mechanism(s) of biological control of aphanomyces root rot as a research priority.
Chinese Version of the mHealth App Usability Questionnaire: Cross-Cultural Adaptation and Validation

Background Mobile health (mHealth) apps have shown the advantages of improving medication compliance, saving time required for diagnosis and treatment, reducing medical expenses, etc. The World Health Organization (WHO) has recommended that mHealth apps should be evaluated prior to their implementation to ensure their accuracy in data analysis. Objective This study aimed to translate the patient version of the interactive mHealth app usability questionnaire (MAUQ) into Chinese, and to conduct cross-cultural adaptation and reliability and validity tests. Methods The Brislin’s translation model was used in this study. The cross-cultural adaptation was performed according to experts’ comments and the results of prediction test. The convenience sampling method was utilized to investigate 346 patients who used the “Good Doctor” (“Good Doctor” is the most popular mHealth app in China), and the reliability and validity of the questionnaire were evaluated as well. Results After translation and cross-cultural adaptation, there were a total of 21 items and 3 dimensions: usability and satisfaction (8 items), system information arrangement (6 items), and efficiency (7 items). The content validity index was determined to be 0.952, indicating that the 21 items used to evaluate the usability of the Chinese version of the MAUQ were well correlated. The Cronbach’s α coefficient of the total questionnaire was 0.912, which revealed that the questionnaire had a high internal consistency. The values of test-retest reliability and split-half reliability of the Chinese version of the MAUQ were 0.869 and 0.701, respectively, representing that the questionnaire had a good stability. Conclusion The translated questionnaire has good reliability and validity in the context of Chinese culture, and it could be used as a usability testing tool for the patient version of interactive mHealth apps.
CIDS: An Ontology for Representing Social and Environmental Impact

The Common Impact Data Standard (CIDS) is an ontology designed to represent a Social Purpose Organization’s (SPO) impact model (i.e., definition) and the impact (i.e., effect) their implementation has on its stakeholders. It provides a common representation that allows each SPO to flexibly design an impact model that is most relevant to it, and report on its performance. CIDS spans the six dimensions of impact: What (Outcome, Impact), Who (Stakeholders), How (Program, Service, Activity), How Much (i.e., Indicator), Contribution (i.e., ImpactScale, ImpactDepth, ImpactDuration) and Risk (ImpactRisk). CIDS has been evaluated by members of the Common Approach project comprised of over 50 SPOs, grantmakers, etc., and has been implemented in several impact reporting commercial software tools.
The Cantonese substrate in China Coast Pidgin

The “Chinese” character of Chinese Pidgin English, or China Coast Pidgin (CCP) has been debated in previous work. While some Chinese-based features such as the use of piece(e) as a classifier are widely acknowledged, the extent of substrate influence has remained unclear. This paper surveys the role of the Cantonese substrate based on a recently transcribed Chinese text, the Chinese English Instructor. Substrate influence is demonstrated in a wide range of grammatical domains including serial verbs, topiccomment structure, and placement of prepositional phrases. In certain domains such as placement of adverbs and in-situ wh-phrases, the Chinese sources show substrate influence which is rare or absent from the English language sources, a pattern which suggests systematic variation between Sinophone and Anglophone lects within CCP.
Teleophthalmology-­enabled­and­artificial­ intelligence-­ready­referral­pathway­for­ community­optometry­referrals­of­retinal­ disease­(HERMES):­a­Cluster­Randomised­ Superiority­Trial­with­a­linked­Diagnostic­ Accuracy­Study—HERMES­study­report­ 1—study­protocol

Introduction Recent years have witnessed an upsurge of demand in eye care services in the UK. With a large proportion of patients referred to Hospital Eye Services (HES) for diagnostics and disease management, the referral process results in unnecessary referrals from erroneous diagnoses and delays in access to appropriate treatment. A potential solution is a teleophthalmology digital referral pathway linking community optometry and HES. Methods and analysis The HERMES study (Teleophthalmology-enabled and artificial intelligence-ready referral pathway for community optometry referrals of retinal disease: a cluster randomised superiority trial with a linked diagnostic accuracy study) is a cluster randomised clinical trial for evaluating the effectiveness of a teleophthalmology referral pathway between community optometry and HES for retinal diseases. Nested within HERMES is a diagnostic accuracy study, which assesses the accuracy of an artificial intelligence (AI) decision support system (DSS) for automated diagnosis and referral recommendation. A postimplementation, observational substudy, a within-trial economic evaluation and discrete choice experiment will assess the feasibility of implementation of both digital technologies within a real-life setting. Patients with a suspicion of retinal disease, undergoing eye examination and optical coherence tomography (OCT) scans, will be recruited across 24 optometry practices in the UK. Optometry practices will be randomised to standard care or teleophthalmology. The primary outcome is the proportion of false-positive referrals (unnecessary HES visits) in the current referral pathway compared with the teleophthalmology referral pathway. OCT scans will be interpreted by the AI DSS, which provides a diagnosis and referral decision and the primary outcome for the AI diagnostic study is diagnostic accuracy of the referral decision made by the Moorfields-DeepMind AI system. Secondary outcomes relate to inappropriate referral rate, cost-effectiveness analyses and human–computer interaction (HCI) analyses.
Novel configurations for hybrid transmissions using a simple planetary gear train

This paper presents a design approach to systematically synthesize feasible configurations for series-parallel and parallel hybrid transmissions subject to design constraints and required operation modes using a simple planetary gear train (PGT). The configuration synthesis process includes two main steps: 1) assign inputs and output powers to the PGT subject to power constraints by the power arrangement process; and 2) assign clutches and brakes to the obtained systems subject to desired operation modes by the clutch arrangement process. By applying the proposed design approach, nine clutchless and 31 clutched configurations for series-parallel and parallel hybrid systems are synthesized, respectively. For each type of the hybrid systems, we analyzed kinematic and power flow of a new configuration to demonstrate the feasibility of the synthesized systems. The design approach can be used to systematically synthesize future hybrid transmissions with different mechanisms, design constraints, and desired operation modes.Copyright © 2015 by ASME
Interpretation of the magnetic anomalies over the Mid-Atlantic Ocean Ridge using Swarm-A satellite

The procedures and interpretation of the magnetic data measured over the Mid-Atlantic Ocean Ridge by Swarm-A satellite is discussed in this paper. The data processing procedure has four phases after the data format conversion. The first phase is the selecting data whose Kp index is lower than 1. Secondly, the main magnetic field should be subtracted from the measured data for example through the IGRF model. This step is followed by removing trend, related to the satellite trajectory. The final step is eliminating the dipole nature of the magnetic field via Reduction to the Pole (RTP). Nonetheless, the RTP process might cause misinterpretation over the large study area and lower latitudes. Therefore, the amplitude of the analytic signal (AS) is used as an alternative to the RTP. The qualitative interpretation of the magnetic anomaly is conducted via AS anomaly, bathymetry, heat flow and tectonic map. Quantitatively correlation coefficients of bathymetry and heat flow with respect to AS are interpreted.