Transcriptome-wide analysis reveals different categories of response to a standardised immune challenge in a wild rodent

Individuals vary in their immune response and, as a result, some are more susceptible to infectious disease than others. Little is known about the nature of this individual variation in natural populations, or which components of immune pathways are most responsible, but defining this underlying landscape of variation is an essential first step to understanding the drivers of this variation and, ultimately, predicting the outcome of infection. We describe transcriptome-wide variation in response to a standardised immune challenge in wild field voles. We find that markers can be categorised into a limited number of types. For the majority of markers, the response of an individual is dependent on its baseline expression level, with significant enrichment in this category for conventional immune pathways. Another, moderately sized, category contains markers for which the responses of different individuals are also variable but independent of their baseline expression levels. This category lacks any enrichment for conventional immune pathways. We further identify markers which display particularly high individual variability in response, and could be used as markers of immune response in larger studies. Our work shows how a standardised challenge performed on a natural population can reveal the patterns of natural variation in immune response

Genetic diversity in cytokines associated with immune variation and resistance to multiple pathogens in a natural rodent population

Pathogens are believed to drive genetic diversity at host loci involved in immunity to infectious disease. To date, studies exploring the genetic basis of pathogen resistance in the wild have focussed almost exclusively on genes of the Major Histocompatibility Complex (MHC); the role of genetic variation elsewhere in the genome as a basis for variation in pathogen resistance has rarely been explored in natural populations. Cytokines are signalling molecules with a role in many immunological and physiological processes. Here we use a natural population of field voles (Microtus agrestis) to examine how genetic diversity at a suite of cytokine and other immune loci impacts the immune response phenotype and resistance to several endemic pathogen species. By using linear models to first control for a range of non-genetic factors, we demonstrate strong effects of genetic variation at cytokine loci both on host immunological parameters and on resistance to multiple pathogens. These effects were primarily localized to three cytokine genes (Interleukin 1 beta (Il1b), Il2, and Il12b), rather than to other cytokines tested, or to membrane-bound, non-cytokine immune loci. The observed genetic effects were as great as for other intrinsic factors such as sex and body weight. Our results demonstrate that genetic diversity at cytokine loci is a novel and important source of individual variation in immune function and pathogen resistance in natural populations. The products of these loci are therefore likely to affect interactions between pathogens and help determine survival and reproductive success in natural populations. Our study also highlights the utility of wild rodents as a model of ecological immunology, to better understand the causes and consequences of variation in immune function in natural populations including humans

Statistical mechanics and stability of a model eco-system

We study a model ecosystem by means of dynamical techniques from disordered systems theory. The model describes a set of species subject to competitive interactions through a background of resources, which they feed upon. Additionally direct competitive or co-operative interaction between species may occur through a random coupling matrix. We compute the order parameters of the system in a fixed point regime, and identify the onset of instability and compute the phase diagram. We focus on the effects of variability of resources, direct interaction between species, co-operation pressure and dilution on the stability and the diversity of the ecosystem. It is shown that resources can be exploited optimally only in absence of co-operation pressure or direct interaction between species.Comment: 23 pages, 13 figures; text of paper modified, discussion extended, references adde

An endemic hantavirus in field voles in northern England

We report a PCR survey of hantavirus infection in the extensive field vole (Microtus agrestis) populations occurring in the Kielder Forest, northern England. A Tatenale virus-like lineage was frequently detected (~ 15% prevalence) in liver tissue. Such lineages are likely to be endemic in northern England

Grazing Vertebrates Promote Invasive Swamp Stonecrop (Crassula helmsii) Abundance

The macrophyte Australian swamp stonecrop has invaded a wide range of wetland habitats across Europe. An experiment was conducted within an invaded fen habitat, which tested whether the presence of grazing disturbance affected the relative abundance of swamp stonecrop, and whether any detected effect was suppressive or facilitative. The abundance of swamp stonecrop and co-occurring resident plants was monitored within fenced grazing exclosures and in adjacent unfenced plots. Swamp stonecrop abundance was higher in the unfenced plots compared to the fenced exclosures (t(87) = 28.974, p < 0.001), whereas the abundance of co-occurring plants was higher in the fenced exclosures compared to the unfenced plots (t(87) = 6.264, p < 0.001). These results indicate that the presence of large vertebrates could facilitate a higher abundance of swamp stonecrop in situations where competitive resident plant species were selectively removed by these grazing animals

A high-temperature superconducting weak-link defined by ferroelectric field-effect

In all-oxide ferroelectric (FE) - superconductor (S) bilayers, due to the low carrier concentration of oxides compared to transition metals, the FE interfacial polarization charges induce an accumulation (or depletion) of charge carriers in the S. This leads either to an enhancement or a depression of its critical temperature depending on FE polarization direction.Here we exploit this effect at a local scale to define planar weak-links in high-temperature superconducting wires. This is realized in BiFeO3(FE)/YBa2Cu3O7(S)bilayers in which the remnant FE domain structure is written at will by locally applying voltage pulses with a conductive-tip atomic force microscope. In this fashion, the FE domain pattern defines a spatial modulation of superconductivity. This allows us to write a device whose electrical transport shows different temperature regimes and magnetic field matching effects that are characteristic of Josephson coupled weak-links. This illustrates the potential of the ferroelectric approach for the realization of high-temperature superconducting devices

Incorporating fine-scale environmental heterogeneity into broad-extent models

A key aim of ecology is to understand the drivers of ecological patterns, so that we can accurately predict the effects of global environmental change. However, in many cases, predictors are measured at a finer resolution than the ecological response. We therefore require data aggregation methods that avoid loss of information on fine-grain heterogeneity. We present a data aggregation method that, unlike current approaches, reduces the loss of information on fine-grain spatial structure in environmental heterogeneity for use with coarse-grain ecological datasets. Our method contains three steps: (a) define analysis scales (predictor grain, response grain, scale-of-effect); (b) use a moving window to calculate a measure of variability in environment (predictor grain) at the process-relevant scale (scale-of-effect); and (c) aggregate the moving window calculations to the coarsest resolution (response grain). We show the theoretical basis for our method using simulated landscapes and the practical utility with a case study. Our method is available as the grainchanger r package. The simulations show that information about spatial structure is captured that would have been lost using a direct aggregation approach, and that our method is particularly useful in landscapes with spatial autocorrelation in the environmental predictor variable (e.g. fragmented landscapes) and when the scale-of-effect is small relative to the response grain. We use our data aggregation method to find the appropriate scale-of-effect of land cover diversity on Eurasian jay Garrulus glandarius abundance in the UK. We then model the interactive effect of land cover heterogeneity and temperature on G. glandarius abundance. Our method enables us quantify this interaction despite the different scales at which these factors influence G. glandarius abundance. Our data aggregation method allows us to integrate variables that act at varying scales into one model with limited loss of information, which has wide applicability for spatial analyses beyond the specific ecological context considered here. Key ecological applications include being able to estimate the interactive effect of drivers that vary at different scales (such as climate and land cover), and to systematically examine the scale dependence of the effects of environmental heterogeneity in combination with the effects of climate change on biodiversity

Roadmap on ferroelectric hafnia- and zirconia-based materials and devices

Ferroelectric hafnium and zirconium oxides have undergone rapid scientific development over the last decade, pushing them to the forefront of ultralow-power electronic systems. Maximizing the potential application in memory devices or supercapacitors of these materials requires a combined effort by the scientific community to address technical limitations, which still hinder their application. Besides their favorable intrinsic material properties, HfO2–ZrO2 materials face challenges regarding their endurance, retention, wake-up effect, and high switching voltages. In this Roadmap, we intend to combine the expertise of chemistry, physics, material, and device engineers from leading experts in the ferroelectrics research community to set the direction of travel for these binary ferroelectric oxides. Here, we present a comprehensive overview of the current state of the art and offer readers an informed perspective of where this field is heading, what challenges need to be addressed, and possible applications and prospects for further development

Effects of Noise on Ecological Invasion Processes: Bacteriophage-mediated Competition in Bacteria

Pathogen-mediated competition, through which an invasive species carrying and transmitting a pathogen can be a superior competitor to a more vulnerable resident species, is one of the principle driving forces influencing biodiversity in nature. Using an experimental system of bacteriophage-mediated competition in bacterial populations and a deterministic model, we have shown in [Joo et al 2005] that the competitive advantage conferred by the phage depends only on the relative phage pathology and is independent of the initial phage concentration and other phage and host parameters such as the infection-causing contact rate, the spontaneous and infection-induced lysis rates, and the phage burst size. Here we investigate the effects of stochastic fluctuations on bacterial invasion facilitated by bacteriophage, and examine the validity of the deterministic approach. We use both numerical and analytical methods of stochastic processes to identify the source of noise and assess its magnitude. We show that the conclusions obtained from the deterministic model are robust against stochastic fluctuations, yet deviations become prominently large when the phage are more pathological to the invading bacterial strain.Comment: 39 pages, 7 figure