When do young birds disperse? : Tests from studies of golden eagles in Scotland

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The Common Shrew (Sorex araneus): A neglected host of tick-borne infections?

Although the importance of rodents as reservoirs for a number of tick-borne infections is well established, comparatively little is known about the potential role of shrews, despite them occupying similar habitats. To address this, blood and tick samples were collected from common shrews (Sorex araneus) and field voles (Microtus agrestis), a known reservoir of various tick-borne infections, from sites located within a plantation forest in northern England over a 2-year period. Of 647 blood samples collected from shrews, 121 (18.7%) showed evidence of infection with Anaplasma phagocytophilum and 196 (30.3%) with Babesia microti. By comparison, of 1505 blood samples from field voles, 96 (6.4%) were positive for A. phagocytophilum and 458 (30.4%) for Ba. microti. Both species were infested with the ticks Ixodes ricinus and Ixodes trianguliceps, although they had different burdens: on average, shrews carried almost six times as many I. trianguliceps larvae, more than twice as many I. ricinus larvae, and over twice as many nymphs (both tick species combined). The finding that the nymphs collected from shrews were almost exclusively I. trianguliceps highlights that this species is the key vector of these infections in this small mammal community. These findings suggest that common shrews are a reservoir of tick-borne infections and that the role of shrews in the ecology and epidemiology of tick-borne infections elsewhere needs to be comprehensively investigated

Age and sex-selective predation moderate the overall impact of predators

© 2014 The Authors. Journal of Animal Ecology published by John Wiley & Sons Ltd on behalf of British Ecological Society. Acknowledgements: Thanks to J. Reid, S. Redpath, A. Beckerman and an anonymous reviewer for their helpful comments on a previous version of the manuscript. This work was partly funded by a Natural Environment Research Council studentship NE/J500148/1 to SH and a grant NE/F021402/1 to XL and by Natural Research Limited. Forest Research funded all the fieldwork on goshawks, tawny owls and field voles during 1973–1996. We thank B. Little, P. Hotchin, D. Anderson and all field assistants for their help with data collection and Forest Enterprise, T. Dearnley and N. Geddes for allowing and facilitating work in Kielder Forest. In addition, we are grateful to English Nature and the BTO for kindly issuing licences annually visit goshawk nest sites. Data accessibility: All data associated with the study which have not already been given in the text are available from the Dryad Digital Repository: http://doi.org/10.5061/dryad.h1289 (Hoy et al. 2014).Peer reviewedPublisher PD

Exploiting the noise: improving biomarkers with ensembles of data analysis methodologies.

BackgroundThe advent of personalized medicine requires robust, reproducible biomarkers that indicate which treatment will maximize therapeutic benefit while minimizing side effects and costs. Numerous molecular signatures have been developed over the past decade to fill this need, but their validation and up-take into clinical settings has been poor. Here, we investigate the technical reasons underlying reported failures in biomarker validation for non-small cell lung cancer (NSCLC).MethodsWe evaluated two published prognostic multi-gene biomarkers for NSCLC in an independent 442-patient dataset. We then systematically assessed how technical factors influenced validation success.ResultsBoth biomarkers validated successfully (biomarker #1: hazard ratio (HR) 1.63, 95% confidence interval (CI) 1.21 to 2.19, P = 0.001; biomarker #2: HR 1.42, 95% CI 1.03 to 1.96, P = 0.030). Further, despite being underpowered for stage-specific analyses, both biomarkers successfully stratified stage II patients and biomarker #1 also stratified stage IB patients. We then systematically evaluated reasons for reported validation failures and find they can be directly attributed to technical challenges in data analysis. By examining 24 separate pre-processing techniques we show that minor alterations in pre-processing can change a successful prognostic biomarker (HR 1.85, 95% CI 1.37 to 2.50, P < 0.001) into one indistinguishable from random chance (HR 1.15, 95% CI 0.86 to 1.54, P = 0.348). Finally, we develop a new method, based on ensembles of analysis methodologies, to exploit this technical variability to improve biomarker robustness and to provide an independent confidence metric.ConclusionsBiomarkers comprise a fundamental component of personalized medicine. We first validated two NSCLC prognostic biomarkers in an independent patient cohort. Power analyses demonstrate that even this large, 442-patient cohort is under-powered for stage-specific analyses. We then use these results to discover an unexpected sensitivity of validation to subtle data analysis decisions. Finally, we develop a novel algorithmic approach to exploit this sensitivity to improve biomarker robustness

Experimental evidence that livestock grazing intensity affects cyclic vole population regulation processes

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Genetic markers validate using the natural phenotypic characteristics of shed feathers to identify individual northern goshawks Accipiter gentilis

Acknowledgements We are grateful to S. Piertney for allowing access to laboratory facilities and to M. Wenzel, R. Ogden and G. Murray-Dickson for their advice on genetic methods. This research was partly funded by a Natural Environment Research Council studentship NE/J500148/1 to SH and by Natural Research Limited.Peer reviewedPublisher PD

van der Waals coupling in atomically doped carbon nanotubes

We have investigated atom-nanotube van der Waals (vdW) coupling in atomically doped carbon nanotubes (CNs). Our approach is based on the perturbation theory for degenerated atomic levels, thus accounting for both weak and strong atom-vacuum-field coupling. The vdW energy is described by an integral equation represented in terms of the local photonic density of states (DOS). By solving it numerically, we demonstrate the inapplicability of standard weak-coupling-based vdW interaction models in a close vicinity of the CN surface where the local photonic DOS effectively increases, giving rise to an atom-field coupling enhancement. An inside encapsulation of atoms into the CN has been shown to be energetically more favorable than their outside adsorption by the CN surface. If the atom is fixed outside the CN, the modulus of the vdW energy increases with the CN radius provided that the weak atom-field coupling regime is realized (i.e., far enough from the CN). For inside atomic position, the modulus of the vdW energy decreases with the CN radius, representing a general effect of the effective interaction area reduction with lowering the CN curvature.Comment: 15 pages, 5 figure

Spontaneous decay dynamics in atomically doped carbon nanotubes

We report a strictly non-exponential spontaneous decay dynamics of an excited two-level atom placed inside or at different distances outside a carbon nanotube (CN). This is the result of strong non-Markovian memory effects arising from the rapid variation of the photonic density of states with frequency near the CN. The system exhibits vacuum-field Rabi oscillations, a principal signature of strong atom-vacuum-field coupling, when the atom is close enough to the nanotube surface and the atomic transition frequency is in the vicinity of the resonance of the photonic density of states. Caused by decreasing the atom-field coupling strength, the non-exponential decay dynamics gives place to the exponential one if the atom moves away from the CN surface. Thus, atom-field coupling and the character of the spontaneous decay dynamics, respectively, may be controlled by changing the distance between the atom and CN surface by means of a proper preparation of atomically doped CNs. This opens routes for new challenging nanophotonics applications of atomically doped CN systems as various sources of coherent light emitted by dopant atoms.Comment: 10 pages, 4 figure