3,083 research outputs found

    A Krylov subspace algorithm for evaluating the phi-functions appearing in exponential integrators

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    We develop an algorithm for computing the solution of a large system of linear ordinary differential equations (ODEs) with polynomial inhomogeneity. This is equivalent to computing the action of a certain matrix function on the vector representing the initial condition. The matrix function is a linear combination of the matrix exponential and other functions related to the exponential (the so-called phi-functions). Such computations are the major computational burden in the implementation of exponential integrators, which can solve general ODEs. Our approach is to compute the action of the matrix function by constructing a Krylov subspace using Arnoldi or Lanczos iteration and projecting the function on this subspace. This is combined with time-stepping to prevent the Krylov subspace from growing too large. The algorithm is fully adaptive: it varies both the size of the time steps and the dimension of the Krylov subspace to reach the required accuracy. We implement this algorithm in the Matlab function phipm and we give instructions on how to obtain and use this function. Various numerical experiments show that the phipm function is often significantly more efficient than the state-of-the-art.Comment: 20 pages, 3 colour figures, code available from http://www.maths.leeds.ac.uk/~jitse/software.html . v2: Various changes to improve presentation as suggested by the refere

    The effect of pathogens on honeybee learning and foraging behaviour

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    The European honeybee, Apis mellifera, is important economically not just for honey production but also as a pollinator. Bee pollinated plants contribute towards one third of the food eaten worldwide. However, honeybee numbers in some areas are declining. A range of interacting factors are thought to be involved, including pathogens and parasites, loss of forage, pesticide use, bad weather, and limited genetic variability. Pathogens are also known to cause changes in the behaviour of their hosts and these premortality and sublethal effects of disease may well play a role in colony declines and are the focus of this thesis. For individual bees the fungus Metarhizium anisopliae was used as a model pathogen and RT-Q-PCR was used to detect and quantify naturally occurring pathogens. In field colonies the level of infestation of the parasitic mite Varroa destructor was modified as a surrogate for disease load as the amounts of many viruses correlate with mite levels. Survival experiments showed that both disease load and forage availability had an effect on honeybee longevity and feeding the bees pollen increased their survival. Learning experiments showed that both the fungus and some of the bees’ naturally occurring pathogens caused changes in the learning ability of young adult and older forager bees. Young adult bees were better able to learn when infected with the fungus, possibly because it made them more responsive to the sucrose stimulus, whilst older forager bees where less able to learn when infected with the fungus. Harmonic radar was used to show that honeybee flight ability was affected by naturally occurring pathogens, especially deformed wing virus which caused bees to fly shorter distances and for shorter amounts of time than uninfected bees. Observation hives were used to study in-hive behaviour showing that bees with more pathogens were likely to start foraging earlier than healthier bees

    Toxin release by conditional remodelling of ParDE1 from Mycobacterium tuberculosis leads to gyrase inhibition

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    \ua9 The Author(s) 2023. Published by Oxford University Press on behalf of Nucleic Acids Research.Mycobacterium tuberculosis, the causative agent of tuberculosis, is a growing threat to global health, with recent efforts towards its eradication being reversed in the wake of the COVID-19 pandemic. Increasing resistance to gyrase-targeting second-line fluoroquinolone antibiotics indicates the necessity to develop both novel therapeutics and our understanding of M. tuberculosis growth during infection. ParDE toxin–antitoxin systems also target gyrase and are regulated in response to both host-associated and drug-induced stress during infection. Here, we present microbiological, biochemical, structural, and biophysical analyses exploring the ParDE1 and ParDE2 systems of M. tuberculosis H37Rv. The structures reveal conserved modes of toxin–antitoxin recognition, with complex-specific interactions. ParDE1 forms a novel heterohexameric ParDE complex, supported by antitoxin chains taking on two distinct folds. Curiously, ParDE1 exists in solution as a dynamic equilibrium between heterotetrameric and heterohexameric complexes. Conditional remodelling into higher order complexes can be thermally driven in vitro. Remodelling induces toxin release, tracked through concomitant inhibition and poisoning of gyrase activity. Our work aids our understanding of gyrase inhibition, allowing wider exploration of toxin–antitoxin systems as inspiration for potential therapeutic agents

    Measuring pregnancy planning: An assessment of the London Measure of Unplanned Pregnancy among urban, south Indian women

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    Copyright © 2010 Corinne H. Rocca et al. This open-access work is published under the terms of the Creative Commons Attribution NonCommercial License 2.0 Germany, which permits use, reproduction & distribution in any medium for non-commercial purposes, provided the original author(s) and source are given credit. See http:// creativecommons.org/licenses/by-nc/2.0/de/.We evaluated the psychometric properties of the London Measure of Unplanned Pregnancy among Indian women using classical methods and Item Response Modeling. The scale exhibited good internal consistency and internal structure, with overall scores correlating well with each item’s response categories. Items performed similarly for pregnant and non-pregnant women, and scores decreased with increasing parity, providing evidence for validity. Analyses detected small disadvantages, including low endorsement of middle response categories and some evidence of differential item functioning by parity. We conclude that the LMUP is suitable for use in India and recommend steps for improving scale performance for this cultural context.National Institute of Child Health and Human Development and the Levis Strauss Foundation

    Toll-like receptor gene variants and bacterial vaginosis among HIV-1 infected and uninfected African women.

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    Bacterial vaginosis (BV) is a common vaginal syndrome associated with altered microflora that increases the risk of preterm delivery and acquisition of sexually transmitted diseases. The cause of BV is unknown although toll-like receptors (TLRs), that are central to innate immune responses, may be important. We evaluated associations between TLR SNPs and BV among HIV-1 infected and uninfected African women. Logistic regression was used to assess associations between SNPs (N=99) in TLRs 2-4, 7-9 and BV (as classified by Nugent's criteria). Among HIV-1 uninfected women, TLR7 rs5743737 and TLR7 rs1634323 were associated with a decreased risk of BV, whereas TLR7 rs179012 was associated with an increased risk. TLR2 SNP rs3804099 was associated with a decreased risk of BV among HIV-1 infected women. Our findings indicate that there may be differences in TLR association with BV among HIV-1 infected and HIV-1 uninfected women

    Equilibrium configurations of two charged masses in General Relativity

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    An asymptotically flat static solution of Einstein-Maxwell equations which describes the field of two non-extreme Reissner - Nordstr\"om sources in equilibrium is presented. It is expressed in terms of physical parameters of the sources (their masses, charges and separating distance). Very simple analytical forms were found for the solution as well as for the equilibrium condition which guarantees the absence of any struts on the symmetry axis. This condition shows that the equilibrium is not possible for two black holes or for two naked singularities. However, in the case when one of the sources is a black hole and another one is a naked singularity, the equilibrium is possible at some distance separating the sources. It is interesting that for appropriately chosen parameters even a Schwarzschild black hole together with a naked singularity can be "suspended" freely in the superposition of their fields.Comment: 4 pages; accepted for publication in Phys. Rev.

    X-ray spectral study of the hot gas in three Clusters of Galaxies

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    We study the physical properties of three clusters of galaxies, selected from a BeppoSAX Wide Field Camera (WFC) survey. These sources are identified as 1RXS J153934.7-833535, 1RXS J160147.6-754507, and 1RXS J081232.3-571423 in the ROSAT All-Sky Survey catalogue. We obtained XMM-Newton follow-up observations for these three clusters. We fit single and multi-temperature models to spectra obtained from the EPIC-pn camera to determine the temperature, the chemical composition of the gas and their radial distribution. Since two observations are contaminated by a high soft-proton background, we develop a new method to estimate the effect of this background on the data. For the first time, we present the temperature and iron abundance of two of these three clusters. The iron abundance of 1RXS J153934.7-33535 decreases with radius. The fits to the XMM-Newton and Chandra data show that the radial temperature profile within 3' towards the centre either flattens or lowers. A Chandra image of the source suggests the presence of X-ray cavities. The gas properties in 1RXS J160147.6-754507 are consistent with a flat radial distribution of iron and temperature within 2' from the centre. 1RXS J081232.3-571423 is a relatively cool cluster with a temperature of about 3 keV. The radial temperature and iron profiles suggest that 1RXS J153934.7-833535 is a cool core cluster. The Chandra image shows substructure which points toward AGN feedback in the core. The flat radial profiles of the temperature and iron abundance in 1RXS J160147.6-754507 are similar to the profiles of non-cool-core clusters.Comment: Accepted for publication in A&A, 8 pages, 8 figures; corrected typos, added data points on which fig 1 and 2 are based as comment to source file

    "They're Really PD Today": An Exploration of Mental Health Nursing Students' Perceptions of Developing a Therapeutic Relationship With Patients With a Diagnosis of Antisocial Personality Disorder

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    The therapeutic relationship is of particular importance when working with patients with antisocial personality disorder, but despite this, there is a paucity of literature exploring student nurses’ perceptions of developing a therapeutic relationship with such patients. Hence, this qualitative study explored the perceptions of second-year mental health nursing students of developing a therapeutic relationship with this patient group. Student nurses from a University in the Northwest of England participated in two focus groups, to compare the perceptions of a group of student nurses who had experience in secure settings (forensic hospital) with those who had not. Four key themes emerged: diagnosis, safety, engagement, and finally environmental influences. Both groups commented on looking beyond the diagnosis and seeing the person. The student nurses cited other staff in their clinical placement areas as hugely influential in terms of the development of their perceptions of patients with antisocial personality disorder and how to relate to them
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