Habitat estimation through synthesis of species presence/absence information and environmental covariate data

2011 Fall.Includes bibliographical references.This paper investigates the statistical model developed by Foster, et al. (2011) to estimate marine habitat maps based on environmental covariate data and species presence/absence information while treating habitat definition probabilistically. The model assumes that two sites belonging to the same habitat have approximately the same species presence probabilities, and thus both environmental data and species presence observations can help to distinguish habitats at locations across a study region. I develop a computational method to estimate the model parameters by maximum likelihood using a blocked non-linear Gauss-Seidel algorithm. The main part of my work is developing and conducting simulation studies to evaluate estimation performance and to study related questions including the impacts of sample size, model bias and model misspecification. Seven testing scenarios are developed including between 3 and 9 habitats, 15 and 40 species, and 150 and 400 sampling sites. Estimation performance is primarily evaluated through fitted habitat maps and is shown to be excellent for the seven example scenarios examined. Rates of successful habitat classification ranged from 0.92 to 0.98. I show that there is a roughly balanced tradeoff between increasing the number of sites and increasing the number of species for improving estimation performance. Standard model selection techniques are shown to work for selection of covariates, but selection of the number of habitats benefits from supplementing quantitative techniques with qualitative expert judgement. Although estimation of habitat boundaries is extremely good, the rate of probabilistic transition between habitats is shown to be difficult to estimate accurately. Future research should address this issue. An appendix to this thesis includes a comprehensive and annotated collection of R code developed during this project

The Use And Effectiveness Of Coping Mechanisms In Parents Of Children With Type 1 Diabetes

Coping with the responsibility of raising a child with diabetes is a serious challenge for parents. The methods parents use to cope can influence the child\u27s future outcome. Therefore, the purpose of this descriptive study was to identify the use and effectiveness of coping mechanisms among parents of children with Type 1 diabetes. A convenience sample of 4 0 parents with a diabetic child was obtained from a diabetic support group and a pediatric endocrinology clinic in the Southeastern United States. Data were collected using the Jalowiec Coping Scale and the researcher-designed Demographic Survey. Analysis of data was conducted using descriptive statistics to answer the following research questions: What coping mechanisms are most frequently used by parents of children with Type 1 diabetes and what coping mechanisms are most effective for parents of children with Type 1 diabetes? Findings from the data analysis indicated that the most frequently used and most effective coping mechanisms were optimistic and confrontative. Additional coping mechanisms utilized 111 but not specifically included in the research tool were use of spirituality and use of outdoor recreational activities. Based on the findings from this study, several recommendations including discussion and encouragement of the use of effective coping mechanisms in the care of families with diabetic children were made by the researcher. Other recommendations included replication of a similar study using a larger sample from other geographic areas

The corticotropin-releasing factor-like diuretic hormone 44 (DH44) and kinin neuropeptides modulate desiccation and starvation tolerance in Drosophila melanogaster

Malpighian tubules are critical organs for epithelial fluid transport and stress tolerance in insects, and are under neuroendocrine control by multiple neuropeptides secreted by identified neurons. Here, we demonstrate roles for CRF-like diuretic hormone 44 (DH44) and Drosophila melanogaster kinin (Drome-kinin, DK) in desiccation and starvation tolerance. Gene expression and labelled DH44 ligand binding data, as well as highly selective knockdowns and/or neuronal ablations of DH44 in neurons of the pars intercerebralis and DH44 receptor (DH44-R2) in Malpighian tubule principal cells, indicate that suppression of DH44 signalling improves desiccation tolerance of the intact fly. Drome-kinin receptor, encoded by the leucokinin receptor gene, LKR, is expressed in DH44 neurons as well as in stellate cells of the Malpighian tubules. LKR knockdown in DH44-expressing neurons reduces Malpighian tubule-specific LKR, suggesting interactions between DH44 and LK signalling pathways. Finally, although a role for DK in desiccation tolerance was not defined, we demonstrate a novel role for Malpighian tubule cell-specific LKR in starvation tolerance. Starvation increases gene expression of epithelial LKR. Also, Malpighian tubule stellate cell-specific knockdown of LKR significantly reduced starvation tolerance, demonstrating a role for neuropeptide signalling during starvation stress

The cell adhesion molecule Fasciclin2 regulates brush border length and organization in Drosophila renal tubules

Multicellular organisms rely on cell adhesion molecules to coordinate cell–cell interactions, and to provide navigational cues during tissue formation. In Drosophila, Fasciclin 2 (Fas2) has been intensively studied due to its role in nervous system development and maintenance; yet, Fas2 is most abundantly expressed in the adult renal (Malpighian) tubule rather than in neuronal tissues. The role Fas2 serves in this epithelium is unknown. Here we show that Fas2 is essential to brush border maintenance in renal tubules of Drosophila. Fas2 is dynamically expressed during tubule morphogenesis, localizing to the brush border whenever the tissue is transport competent. Genetic manipulations of Fas2 expression levels impact on both microvilli length and organization, which in turn dramatically affect stimulated rates of fluid secretion by the tissue. Consequently, we demonstrate a radically different role for this well-known cell adhesion molecule, and propose that Fas2-mediated intermicrovillar homophilic adhesion complexes help stabilize the brush border

Manchester Clinical Placement Index (MCPI): Conditions for medical students’ learning in hospital and community placements

The drive to quality-manage medical education has created a need for valid measurement instruments. Validity evidence includes the theoretical and contextual origin of items, choice of response processes, internal structure, and interrelationship of a measure’s variables. This research set out to explore the validity and potential utility of an 11-item measurement instrument, whose theoretical and empirical origins were in an Experience Based Learning model of how medical students learn in communities of practice (COPs), and whose contextual origins were in a community-oriented, horizontally integrated, undergraduate medical programme. The objectives were to examine the psychometric properties of the scale in both hospital and community COPs and provide validity evidence to support using it to measure the quality of placements. The instrument was administered twice to students learning in both hospital and community placements and analysed using exploratory factor analysis and a generalizability analysis. 754 of a possible 902 questionnaires were returned (84% response rate), representing 168 placements. Eight items loaded onto two factors, which accounted for 78% of variance in the hospital data and 82% of variance in the community data. One factor was the placement learning environment, whose five constituent items were how learners were received at the start of the placement, people’s supportiveness, and the quality of organisation, leadership, and facilities. The other factor represented the quality of training—instruction in skills, observing students performing skills, and providing students with feedback. Alpha coefficients ranged between 0.89 and 0.93 and there were no redundant or ambiguous items. Generalisability analysis showed that between 7 and 11 raters would be needed to achieve acceptable reliability. There is validity evidence to support using the simple 8-item, mixed methods Manchester Clinical Placement Index to measure key conditions for undergraduate medical students’ experience based learning: the quality of the learning environment and the training provided within it. Its conceptual orientation is towards Communities of Practice, which is a dominant contemporary theory in undergraduate medical education

A realist synthesis of educational interventions to improve nutrition care competencies and delivery by doctors and other healthcare professionals

Objective: To determine what, how, for whom, why, and in what circumstances educational interventions improve the delivery of nutrition care by doctors and other healthcare professionals work. Design: Realist synthesis following a published protocol and reported following Realist and Meta-narrative Evidence Synthesis: Evolving Standards (RAMESES) guidelines. A multidisciplinary team searched MEDLINE, CINAHL, ERIC, EMBASE, PsyINFO, Sociological Abstracts, Web of Science, Google Scholar and Science Direct for published and unpublished (grey) literature. The team identified studies with varied designs; appraised their ability to answer the review question; identified relationships between contexts, mechanisms and outcomes (CMOs); and entered them into a spreadsheet configured for the purpose. The final synthesis identified commonalities across CMO configurations. Results: Over half of the 46 studies from which we extracted data originated from the USA. Interventions that improved the delivery of nutrition care improved skills and attitudes rather than just knowledge; provided opportunities for superiors to model nutrition care; removed barriers to nutrition care in health systems; provided participants with local, practically relevant tools and messages; and incorporated non-traditional, innovative teaching strategies. Operating in contexts where student and qualified healthcare professionals provided nutrition care in developed and developing countries, these interventions yielded health outcomes by triggering a range of mechanisms, which included feeling competent, feeling confident and comfortable, having greater self-efficacy, being less inhibited by barriers in healthcare systems and feeling that nutrition care was accepted and recognised. Conclusions: These findings show how important it is to move education for nutrition care beyond the simple acquisition of knowledge. They show how educational interventions embedded within systems of healthcare can improve patients’ health by helping health students and professionals to appreciate the importance of delivering nutrition care and feel competent to deliver it

Desiccation, thermal stress and associated mortality in Drosophila fruit flies induced by neuropeptide analogue treatment

Drosophila suzukii is a serious pest of soft fruit worldwide. With the global over-dependence on broad-spectrum pesticides, a strong imperative exists for more environmentally friendly and targeted methods of control. One promising avenue involves employing synthetic neuropeptide analogues as insecticidal agents to reduce pest fitness. Neuropeptides, central to the regulation of physiological and behavioural processes, play a vital role in cold and desiccation survival. Building upon this, the current study investigated the effects of biostable kinin, the cardioacceleratory peptide CAP2b and pyrokinin (PK) analogues (the latter of which have previously displayed cross-talk with the capa receptor), on desiccation, starvation and cold stress tolerance of the pest, D. suzukii, and the closely related non-pest, D. melanogaster. Results demonstrated analogues of the superfamily (CAP2b and PK derived) significantly impacted survival of the target insect under conditions of desiccation stress. However, these peptides enhanced desiccation stress survival in relation to controls, suggesting that they may act as antagonists of the capa signalling pathway in the Malpighian tubules. Of particular note was the ability of analogues 1895 (2Abf-Suc-FGPRLa) and 1902 (2Abf-Suc-FKPRLa) to impact D. suzukii but not D. melanogaster. A focus on native Drosophila CAP2b/PK and kinin sequences in analogue development may yield pure agonists with diuretic action that may reduce desiccation stress survival in the pest flies. In highlighting the PRXamide neuropeptide superfamily more generally, and the structures of promising analogues more specifically, this research will feed the evolution of next-generation analogues and drive forward the development of neuropeptidomimetic-based agents

The genetic and biochemical basis of FANCD2 Monoubiquitination

Fanconi anaemia (FA) is a cancer predisposition syndrome characterized by cellular sensitivity to DNA interstrand crosslinkers. The molecular defect in FA is an impaired DNA repair pathway. The critical event in activating this pathway is monoubiquitination of FANCD2. In vivo, a multisubunit FA core complex catalyzes this step, but its mechanism is unclear. Here, we report purification of a native avian FA core complex and biochemical reconstitution of FANCD2 monoubiquitination. This demonstrates that the catalytic FANCL E3 ligase subunit must be embedded within the complex for maximal activity and site specificity. We genetically and biochemically define a minimal subcomplex comprising just three proteins (FANCB, FANCL, and FAAP100) that functions as the monoubiquitination module. Residual FANCD2 monoubiquitination activity is retained in cells defective for other FA core complex subunits. This work describes the in vitro reconstitution and characterization of this multisubunit monoubiquitin E3 ligase, providing key insight into the conserved FA DNA repair pathway