Miracle-dz/UniFAR-FTUs huggingface dataset:
Locus of control and coping strategies in older persons with and without depression

Objectives: To compare locus of control and coping strategies in older persons with and without depression. Method: This cross-sectional study included 144 depressed in-patients from seven psychogeriatric hospital units, and 106 community-dwelling older persons without depression. All participants were 60 years and older. Locus of control was assessed by a 17-items self-report questionnaire with six response categories. Coping strategies were assessed by a 26-items self-report questionnaire with five response categories. For analytical purposes, age (<75 years vs. ≥75 years), level of education (<10 years vs. ≥10 years) and general medical health (poor vs. not poor) were categorized. Results: In linear regression analysis, controlling for demographics, health, and social variables, the depressed in-patients showed a higher external locus of control orientation and a less frequent use of problem-focused coping strategies compared with the non-depressed group. No differences in use of emotion-focused strategies were found between the two groups. Conclusion: Compared with the non-depressed old persons, the depressed hospitalized older persons were characterized by perceptions of less personal control, and less use of problem-focused strategies, what also might have brought positive alterations into their situation.
TORC1 signaling exerts spatial control over microtubule dynamics by promoting nuclear export of Stu2

The target of rapamycin complex 1 (TORC1) is a highly conserved multiprotein complex that functions in many cellular processes, including cell growth and cell cycle progression. In this study, we define a novel role for TORC1 as a critical regulator of nuclear microtubule (MT) dynamics in the budding yeast Saccharomyces cerevisiae. This activity requires interactions between EB1 and CLIP-170 plus end–tracking protein (+TIP) family members with the TORC1 subunit Kog1/Raptor, which in turn allow the TORC1 proximal kinase Sch9/S6K1 to regulate the MT polymerase Stu2/XMAP215. Sch9-dependent phosphorylation of Stu2 adjacent to a nuclear export signal prevents nuclear accumulation of Stu2 before cells enter mitosis. Mutants impaired in +TIP–TORC1 interactions or Stu2 nuclear export show increased nuclear but not cytoplasmic MT length and display nuclear fusion, spindle positioning, and elongation kinetics defects. Our results reveal key mechanisms by which TORC1 signaling controls Stu2 localization and thereby contributes to proper MT cytoskeletal organization in interphase and mitosis.
Coping strategies of nursing students for dealing with stress in clinical setting: A qualitative study

Background Nursing students in the clinical setting experience a high level of stress. The understanding of people involved in nursing education, from coping strategies of nursing students with clinical stress, is highly important for any kind of planning in this field Objective To explore the coping strategies of Iranian nursing students with stress in a clinical setting. Methods This qualitative content analysis study was carried out with twenty nursing students who were selected using purposive sampling at the Razi nursing and midwifery school in Kerman, in Iran during a ten-month period in 2016. Data were collected using semi-structured face to face interviews, and analyzed through Graneheim and Lundman’s qualitative content analysis method. Results “Seeking well-being” as the main theme and three categories of “Active confrontation with stress”, “mastering the mind and body” and “avoidance” were obtained from data analysis. Conclusion The exploration of nursing students’ experiences of coping with clinical stressors, increases students’ awareness of their coping strategy. The academic authorities in recognizing the coping strategies of students with stress in clinical setting, can provide necessary training on effective coping strategies for students.
Prophage-Mediated Dynamics of ‘Candidatus Liberibacter asiaticus’ Populations, the Destructive Bacterial Pathogens of Citrus Huanglongbing

Prophages are highly dynamic components in the bacterial genome and play an important role in intraspecies variations. There are at least two prophages in the chromosomes of Candidatus Liberibacter asiaticus’ (Las) Floridian isolates. Las is both unculturable and the most prevalent species of Liberibacter pathogens that cause huanglongbing (HLB), a worldwide destructive disease of citrus. In this study, seven new prophage variants resulting from two hyper-variable regions were identified by screening clone libraries of infected citrus, periwinkle and psyllids. Among them, Types A and B share highly conserved sequences and localize within the two prophages, FP1 and FP2, respectively. Although Types B and C were abundant in all three libraries, Type A was much more abundant in the libraries from the Las-infected psyllids than from the Las-infected plants, and Type D was only identified in libraries from the infected host plants but not from the infected psyllids. Sequence analysis of these variants revealed that the variations may result from recombination and rearrangement events. Conventional PCR results using type-specific molecular markers indicated that A, B, C and D are the four most abundant types in Las-infected citrus and periwinkle. However, only three types, A, B and C are abundant in Las-infected psyllids. Typing results for Las-infected citrus field samples indicated that mixed populations of Las bacteria present in Floridian isolates, but only the Type D population was correlated with the blotchy mottle symptom. Extended cloning and sequencing of the Type D region revealed a third prophage/phage in the Las genome, which may derive from the recombination of FP1 and FP2. Dramatic variations in these prophage regions were also found among the global Las isolates. These results are the first to demonstrate the prophage/phage-mediated dynamics of Las populations in plant and insect hosts, and their correlation with insect transmission and disease development.
Development and validation of robotic cleaning system for fish processing plants

This paper presents the development of a robotic cleaning solution for a fish processing plant. The project is currently at the stage of a first prototype consisting of a serial manipulator, a vertical linear axis and a rotational axis for the vertical axis. The purpose of the prototype is to validate the cleaning quality of a robotic cleaning solution. A cleaning solution will have to spray the equipment and machines in the processing plant with chemicals and water to remove fish residue and bacteria, and special design considerations have to be taken with regards to water proofing and corrosion resistance. In order to validate such a system, a cleaning test was performed on an electric stunner, a machine typically found in salmon slaughterhouses. Results from the cleaning test show that robotic cleaning of fish processing equipment gives promising results. However, several issues related to making a system that can clean a whole plant are not resolved. Further work will require the development of a custom serial manipulator and a custom linear axis for navigating the manipulator. The main purpose of this paper is to present design considerations and investigate the validity of a robotic cleaning solution aimed at fish processing plants. This research is at TRL 5, with validation of technology in relevant environment.
The use of soft robotics in cardiovascular therapy

ABSTRACT Introduction: Robots have been employed in cardiovascular therapy as surgical tools and for automation of hospital systems. Soft robots are a new kind of robot made of soft deformable materials, that are uniquely suited for biomedical applications because they are inherently less likely to injure body tissues and more likely to adapt to biological environments. Awareness of the soft robotic systems under development will help promote clinician involvement in their successful clinical translation. Areas covered: The most advanced soft robotic systems, across the size scale from nano to macro, that have shown the most promise for clinical application in cardiovascular therapy because they offer solutions where a clear therapeutic need still exists. We discuss nano and micro scale technology that could help improve targeted therapy for cardiac regeneration in ischemic heart disease, and soft robots for mechanical circulatory support. Additionally, we suggest where the gaps in the technology currently lie. Expert commentary: Soft robotic technology has now matured from the proof-of-concept phase to successful animal testing. With further refinement in materials and clinician guided application, they will be a useful complement for cardiovascular therapy.
Combinatorial Engineering of 1-Deoxy-D-Xylulose 5-Phosphate Pathway Using Cross-Lapping In Vitro Assembly (CLIVA) Method

The ability to assemble multiple fragments of DNA into a plasmid in a single step is invaluable to studies in metabolic engineering and synthetic biology. Using phosphorothioate chemistry for high efficiency and site specific cleavage of sequences, a novel ligase independent cloning method (cross-lapping in vitro assembly, CLIVA) was systematically and rationally optimized in E. coli. A series of 16 constructs combinatorially expressing genes encoding enzymes in the 1-deoxy-D-xylulose 5-phosphate (DXP) pathway were assembled using multiple DNA modules. A plasmid (21.6 kb) containing 16 pathway genes, was successfully assembled from 7 modules with high efficiency (2.0 x 103 cfu/ µg input DNA) within 2 days. Overexpressions of these constructs revealed the unanticipated inhibitory effects of certain combinations of genes on the production of amorphadiene. Interestingly, the inhibitory effects were correlated to the increase in the accumulation of intracellular methylerythritol cyclodiphosphate (MEC), an intermediate metabolite in the DXP pathway. The overexpression of the iron sulfur cluster operon was found to modestly increase the production of amorphadiene. This study demonstrated the utility of CLIVA in the assembly of multiple fragments of DNA into a plasmid which enabled the rapid exploration of biological pathways.
A universal vector concept for a direct genotyping of transgenic organisms and a systematic creation of homozygous lines

Diploid transgenic organisms are either hemi- or homozygous. Genetic assays are, therefore, required to identify the genotype. Our AGameOfClones vector concept uses two clearly distinguishable transformation markers embedded in interweaved, but incompatible Lox site pairs. Cre-mediated recombination leads to hemizygous individuals that carry only one marker. In the following generation, heterozygous descendants are identified by the presence of both markers and produce homozygous progeny that are selected by the lack of one marker. We prove our concept in Tribolium castaneum by systematically creating multiple functional homozygous transgenic lines suitable for long-term fluorescence live imaging. Our approach saves resources and simplifies transgenic organism handling. Since the concept relies on the universal Cre-Lox system, it is expected to work in all diploid model organisms, for example, insects, zebrafish, rodents and plants. With appropriate adaptions, it can be used in knock-out assays to preselect homozygous individuals and thus minimize the number of wasted animals.
New Contributions to Semipositive and Minimally Semipositive Matrices

Semipositive matrices (matrices that map at least one nonnegative vector to a positive vector) and minimally semipositive matrices (semipositive matrices whose no column-deleted submatrix is semipositive) are well studied in matrix theory. In this article, this notion is revisited and new results are presented. It is shown that the set of all $m \times n$ minimally semipositive matrices contains a basis for the linear space of all $m \times n$ matrices. Apart from considerations involving principal pivot transforms and the Schur complement, results on semipositivity and/or minimal semipositivity for the following classes of matrices are presented: intervals of rectangular matrices, skew-symmetric and almost skew-symmetric matrices, copositive matrices, $N$-matrices, almost $N$-matrices and almost $P$-matrices.
ParallelJS: An Execution Framework for JavaScript on Heterogeneous Systems

JavaScript has been recognized as one of the most widely used script languages. Optimizations of JavaScript engines on mainstream web browsers enable efficient execution of JavaScript programs on CPUs. However, running JavaScript applications on emerging heterogeneous architectures that feature massively parallel hardware such as GPUs has not been well studied. This paper proposes a framework for flexible mapping of JavaScript onto heterogeneous systems that have both CPUs and GPUs. The framework includes a frontend compiler, a construct library and a runtime system. JavaScript programs written with high-level constructs are compiled to GPU binary code and scheduled to GPUs by the runtime. Experiments show that the proposed framework achieves up to 26.8x speedup executing JavaScript applications on parallel GPUs over a mainstream web browser that runs on CPUs.
Dynamics of Interorganizational Public Health Emergency Management Networks: Following the 2015 MERS Response in South Korea

We investigated public health emergency management networks during the recent outbreak of Middle East respiratory syndrome coronavirus that affected more than 17 000 people in South Korea. We administered a survey to 169 organizations in order to map the pattern of communication and response networks during the Middle East respiratory syndrome outbreak. We also conducted 11 semistructured interviews with national, regional, and local government officials to comprehend inhibiting and facilitating factors in risk communication and response to the system. National ministries or agencies play central roles in coordinating and supporting the overall response, and local and regional governments or agencies interact with other governments and agencies. Governmental agencies coordinating and/or supporting the outbreak response had difficulties in communicating with other agencies because of the ambiguity of the nature of the infectious disease, slow information disclosure, differences in the organizational priorities, different information standards, and the limitations of the information system. To better respond to a virus outbreak, government agencies need to improve hierarchical communication among different levels of governments, horizontal communication and cooperation between same types or different types of agencies, and information systems.
Signature of Balancing Selection at the MC1R Gene in Kunming Dog Populations

Coat color in dog breeds is an excellent character for revealing the power of artificial selection, as it is extremely diverse and likely the result of recent domestication. Coat color is generated by melanocytes, which synthesize pheomelanin (a red or yellow pigment) or eumelanin (a black or brown pigment) through the pigment type-switching pathway, and is regulated by three genes in dogs: MC1R (melanocortin receptor 1), CBD103 (β-defensin 103), and ASIP (agouti-signaling protein precursor). The genotypes of these three gene loci in dog breeds are associated with coat color pattern. Here, we resequenced these three gene loci in two Kunming dog populations and analyzed these sequences using population genetic approaches to identify evolutionary patterns that have occurred at these loci during the recent domestication and breeding of the Kunming dog. The analysis showed that MC1R undergoes balancing selection in both Kunming dog populations, and that the Fst value for MC1R indicates significant genetic differentiation across the two populations. In contrast, similar results were not observed for CBD103 or ASIP. These results suggest that high heterozygosity and allelic differences at the MC1R locus may explain both the mixed color coat, of yellow and black, and the difference in coat colors in both Kunming dog populations.
A dimensionless analysis of stress distribution for constrained pressure in an orthotropic plate

The effect of the properties of lamina material on the stress distribution of the orthotropic composite plate containing a circular cut-out under constrained pressure is investigated. Based on the generalised Hooke's law, the generalised plane stress condition and the complex variable method, a dimensionless analysis is used to evaluate the influence of various elastic moduli E1, E2, G12 and ν12 on the stress distribution along the boundary of the cut-out in the composite plate under constrained pressure. The results obtained from this dimensionless analysis provide a set of general design guidelines for structural laminates with high precision requirements in the engineering applications.
Genetic Diversity, Linkage Disequilibrium and Selection Signatures in Chinese and Western Pigs Revealed by Genome-Wide SNP Markers

To investigate population structure, linkage disequilibrium (LD) pattern and selection signature at the genome level in Chinese and Western pigs, we genotyped 304 unrelated animals from 18 diverse populations using porcine 60 K SNP chips. We confirmed the divergent evolution between Chinese and Western pigs and showed distinct topological structures of the tested populations. We acquired the evidence for the introgression of Western pigs into two Chinese pig breeds. Analysis of runs of homozygosity revealed that historical inbreeding reduced genetic variability in several Chinese breeds. We found that intrapopulation LD extents are roughly comparable between Chinese and Western pigs. However, interpopulation LD is much longer in Western pigs compared with Chinese pigs with average r2 0.3 values of 125 kb for Western pigs and only 10.5 kb for Chinese pigs. The finding indicates that higher-density markers are required to capture LD with causal variants in genome-wide association studies and genomic selection on Chinese pigs. Further, we looked across the genome to identify candidate loci under selection using FST outlier tests on two contrast samples: Tibetan pigs versus lowland pigs and belted pigs against non-belted pigs. Interestingly, we highlighted several genes including ADAMTS12, SIM1 and NOS1 that show signatures of natural selection in Tibetan pigs and are likely important for genetic adaptation to high altitude. Comparison of our findings with previous reports indicates that the underlying genetic basis for high-altitude adaptation in Tibetan pigs, Tibetan peoples and yaks is likely distinct from one another. Moreover, we identified the strongest signal of directional selection at the EDNRB loci in Chinese belted pigs, supporting EDNRB as a promising candidate gene for the white belt coat color in Chinese pigs. Altogether, our findings advance the understanding of the genome biology of Chinese and Western pigs.
Why not be Versatile? Applications of the SGNMT Decoder for Machine Translation

SGNMT is a decoding platform for machine translation which allows paring various modern neural models of translation with different kinds of constraints and symbolic models. In this paper, we describe three use cases in which SGNMT is currently playing an active role: (1) teaching as SGNMT is being used for course work and student theses in the MPhil in Machine Learning, Speech and Language Technology at the University of Cambridge, (2) research as most of the research work of the Cambridge MT group is based on SGNMT, and (3) technology transfer as we show how SGNMT is helping to transfer research findings from the laboratory to the industry, eg. into a product of SDL plc.
A survey of Type III restriction-modification systems reveals numerous, novel epigenetic regulators controlling phase-variable regulons; phasevarions

Abstract Many bacteria utilize simple DNA sequence repeats as a mechanism to randomly switch genes on and off. This process is called phase variation. Several phase-variable N6-adenine DNA-methyltransferases from Type III restriction-modification systems have been reported in bacterial pathogens. Random switching of DNA methyltransferases changes the global DNA methylation pattern, leading to changes in gene expression. These epigenetic regulatory systems are called phasevarions — phase-variable regulons. The extent of these phase-variable genes in the bacterial kingdom is unknown. Here, we interrogated a database of restriction-modification systems, REBASE, by searching for all simple DNA sequence repeats in mod genes that encode Type III N6-adenine DNA-methyltransferases. We report that 17.4% of Type III mod genes (662/3805) contain simple sequence repeats. Of these, only one-fifth have been previously identified. The newly discovered examples are widely distributed and include many examples in opportunistic pathogens as well as in environmental species. In many cases, multiple phasevarions exist in one genome, with examples of up to 4 independent phasevarions in some species. We found several new types of phase-variable mod genes, including the first example of a phase-variable methyltransferase in pathogenic Escherichia coli. Phasevarions are a common epigenetic regulation contingency strategy used by both pathogenic and non-pathogenic bacteria.
Enhanced thermoelectric performance in p-type polycrystalline SnSe benefiting from texture modulation

Tin selenide (SnSe) compound has attracted much attention due to its unprecedented high ZT (∼2.6) in single crystals. The polycrystalline SnSe materials were then prepared to improve the mechanical performance for large-scaled application. However, the ZT values of 0.3–0.8 were much lower due to their poor electrical properties. In the present study, the zone melting method is employed to prepare the polycrystalline SnSe samples, which show highly textured structures and strong anisotropic thermoelectric performance. A maximum power factor (S2σ) of 9.8 μW cm−1 K−2 was obtained in the polycrystalline samples, which is comparable with that of SnSe single crystals, resulting in a peak ZT of 0.92 at 873 K. The zone-melted ingot was then pulverized into powders and the bulk material was prepared by the spark plasma sintering (SPS) technique. As a result, the ZT value was enhanced to be over 1.0, owing to the slight reduction of lattice thermal conductivity and maintenance of electrical performance. The present investigation indicates that the TE performance of the SnSe compound can be significantly improved by the texture modulation.