Can climate data from METEOSAT improve wildlife distribution models?

Global climate change generated by human activities is likely to affect agroecosystems in several ways: reinforcing intensification in northern and western Europe, and extensification in the Mediterranean countries. If we are to predict the consequences of global warming for wildlife, distribution models have to include climate data. The METEOSAT temporal series from EWBMS offers an attractive alternative to using climatic surfaces derived from ground stations. The aim of this paper is to test whether this climatic satellite data can improve the distribution models obtained previously by Suárez-Seoane et al. using habitat variables for three agro-steppe bird species: great bustard, little bustard and calandra lark in Spain. Rainfall, radiation balance, evapotranspiration and soil moisture images were incorporated together with the other variables used as predictors in the published stepwise GAM models. Changes in the predicted distributions from the habitat only and climate-habitats models were assessed by reference to the CORINE land cover categories. Inclusion of climatic variables from METEOSAT led to statistically superior models for all three species. There were large differences in the climatic variables selected and the original variables dropped among the species. Evapotranspiration variables were the most frequently selected. Maps of the differences between the habitat and climate-habitat models showed very different patterns for the three species. Inclusion of climate variables led to a wider range of land cover types being deemed suitable. Despite the statistical superiority of models, care is needed in deciding whether to use climatic variables because they may emphasize the fundamental rather than the realized niche. Used together, however, habitat and climate models can provide new insights into factors limiting species distributions and how they may respond to climate change.     

Can the modeling for simplification of a dental implant surface affect the accuracy of 3D finite element analysis?

The aim of this study was to assess stress/strain of different implant modeling simplifications by 3D-FEA. Three variation of external hexagon implant (Ø3.75?×?10 mm) supporting one molar crown were simulated: A (no threads); B (slightly threads simplification); C (original design). 200 N (axial) and 100 N (oblique) were applied. Cortical bone was evaluated by maximum principal stress and microstrain qualitatively and quantitatively (ANOVA and Tukey post hoc (p < 0.05)). Higher stress levels (p < 0.05) were observed in model A. Models B and C presented similar stress transmission. It was possible to conclude that slightly simplification should be used for studies evaluating stress transferring for bone tissue.     

Can monitoring data contribute to the biodiversity-ecosystem function debate? Evaluating data from a highly dynamic ecosystem

One of the most controversially discussed topics in current biodiversity-ecosystem function research is the transfer of results from experimental and theoretical studies to natural ecosystems. At the same time, monitoring data on biodiversity are requested as key indicators for the state of an ecosystem in most environmental evaluation frameworks. We analyse two monitoring data sets comprising information on abundance and biomass of macrozoobenthos communities in the German Wadden Sea in order to evaluate how much information monitoring data on biodiversity provide concerning ecosystem functioning and what implications this information (or the lack thereof) has for future monitoring programmes. Our results show a positive correlation between number of species of macrozoobenthos and its standing stock. Despite differences in overall biomass and individual size in different functional groups, this correlation remained consistent for different feeding guilds and therefore is likely to be independent of certain species traits. Moreover, functional turnover analyses indicate that increasing species richness is needed to maintain biomass levels over increasing periods of time. Whereas our data thus corroborate predictions from theory, we could not determine any causal relationships, because monitoring data commonly include only vague proxies for very few functional parameters, in our case standing biomass as a proxy for production. As to the use of diversity as an indicator for ecosystem functioning, we advise that management decisions are to be based on verified causal relationships and therefore strongly suggest the general incorporation of unambiguous proxies for functional parameters in the measuring campaigns of monitoring programmes.     

Can a thermally tolerant symbiont improve the future of Caribbean coral reefs?

The detrimental effect of climate change induced bleaching on Caribbean coral reefs has been widely documented in recent decades. Several studies have suggested that increases in the abundance of thermally tolerant endosymbionts may ameliorate the effect of climate change on reefs. Symbionts that confer tolerance to temperature also reduce the growth rate of their coral host. Here, we show, using a spatial ecosystem model, that an increment in the abundance of a thermally tolerant endosymbiont (D1a) is unlikely to ensure the persistence of Caribbean reefs, or to reduce their rate of decline, due to the concomitant reduction in growth rate under current thermal stress predictive scenarios. Furthermore, our results suggest that given the documented vital rates of D1a‐dominated corals, increasing dominance of D1a in coral hosts may have a detrimental effect by reducing the resilience of Caribbean reefs, and preventing their long‐term recovery. This is because Caribbean ecosystems appear to be highly sensitive to changes in the somatic growth rate of corals. Alternative outcomes might be expected in systems with different community‐level dynamics such as reefs in the Indo‐Pacific, where the ecological costs of reduced growth rate might be far smaller.     

Can generic knee joint models improve the measurement of osteoarthritic knee kinematics during squatting activity?

Knee joint kinematics derived from multi-body optimisation (MBO) still requires evaluation. The objective of this study was to corroborate model-derived kinematics of osteoarthritic knees obtained using four generic knee joint models used in musculoskeletal modelling – spherical, hinge, degree-of-freedom coupling curves and parallel mechanism – against reference knee kinematics measured by stereo-radiography. Root mean square errors ranged from 0.7° to 23.4° for knee rotations and from 0.6 to 9.0 mm for knee displacements. Model-derived knee kinematics computed from generic knee joint models was inaccurate. Future developments and experiments should improve the reliability of osteoarthritic knee models in MBO and musculoskeletal modelling.     

Can molecular dynamics simulations improve the structural accuracy and virtual screening performance of GPCR models?

The determination of G protein-coupled receptor (GPCR) structures at atomic resolution has improved understanding of cellular signaling and will accelerate the development of new drug candidates. However, experimental structures still remain unavailable for a majority of the GPCR family. GPCR structures and their interactions with ligands can also be modelled computationally, but such predictions have limited accuracy. In this work, we explored if molecular dynamics (MD) simulations could be used to refine the accuracy of in silico models of receptor-ligand complexes that were submitted to a community-wide assessment of GPCR structure prediction (GPCR Dock). Two simulation protocols were used to refine 30 models of the D₃ dopamine receptor (D₃R) in complex with an antagonist. Close to 60 μs of simulation time was generated and the resulting MD refined models were compared to a D₃R crystal structure. In the MD simulations, the receptor models generally drifted further away from the crystal structure conformation. However, MD refinement was able to improve the accuracy of the ligand binding mode. The best refinement protocol improved agreement with the experimentally observed ligand binding mode for a majority of the models. Receptor structures with improved virtual screening performance, which was assessed by molecular docking of ligands and decoys, could also be identified among the MD refined models. Application of weak restraints to the transmembrane helixes in the MD simulations further improved predictions of the ligand binding mode and second extracellular loop. These results provide guidelines for application of MD refinement in prediction of GPCR-ligand complexes and directions for further method development.     

How strong is the edge effect in the adsorption of anticancer drugs on a graphene cluster?

The adsorption of nucleobase-analog anticancer drugs (fluorouracil, thioguanine, and mercaptopurine) on a graphene flake (C₅₄H₁₈) was investigated by shifting the site at which adsorption occurs from one end of the sheet to the other end. The counterpoise-corrected M06-2X/cc-pVDZ binding energies revealed that the binding stability decreases in the sequence thioguanine?>?mercaptopurine?>?fluorouracil. We found that adsorption near the middle of the sheet is more favorable than adsorption near the edge due to the edge effect. This edge effect is stronger for the adsorption of thioguanine or mercaptopurine than for fluorouracil adsorption. However, the edge effect reduces the binding energy of the drug to the flake by only a small amount, <5 kcal/mol, depending on the adsorption site and the alignment of the drug at this site.     

Effects of agri-environmental schemes on farmland birds: do food availability measurements improve patterns obtained from simple habitat models?

Studies evaluating agri‐environmental schemes (AES) usually focus on responses of single species or functional groups. Analyses are generally based on simple habitat measurements but ignore food availability and other important factors. This can limit our understanding of the ultimate causes determining the reactions of birds to AES. We investigated these issues in detail and throughout the main seasons of a bird's annual cycle (mating, postfledging and wintering) in a dry cereal farmland in a Special Protection Area for farmland birds in central Spain. First, we modeled four bird response parameters (abundance, species richness, diversity and “Species of European Conservation Concern” [SPEC]‐score), using detailed food availability and vegetation structure measurements (food models). Second, we fitted new models, built using only substrate composition variables (habitat models). Whereas habitat models revealed that both, fields included and not included in the AES benefited birds, food models went a step further and included seed and arthropod biomass as important predictors, respectively, in winter and during the postfledging season. The validation process showed that food models were on average 13% better (up to 20% in some variables) in predicting bird responses. However, the cost of obtaining data for food models was five times higher than for habitat models. This novel approach highlighted the importance of food availability‐related causal processes involved in bird responses to AES, which remained undetected when using conventional substrate composition assessment models. Despite their higher costs, measurements of food availability add important details to interpret the reactions of the bird community to AES interventions and thus facilitate evaluating the real efficiency of AES programs.     

What have we learned from finite element model studies of lumbar intervertebral discs in the past four decades?

Finite element analysis is a powerful tool routinely used to study complex biological systems. For the last four decades, the lumbar intervertebral disc has been the focus of many such investigations. To understand the disc functional biomechanics, a precise knowledge of the disc mechanical, structural and biochemical environments at the microscopic and macroscopic levels is essential. In response to this need, finite element model studies have proven themselves as reliable and robust tools when combined with in vitro and in vivo measurements.     

How does the geometry affect the internal biomechanics of a lumbar spine bi-segment finite element model? Consequences on the validation process

Numerical modelling can provide a thorough understanding of the mechanical influence on the spinal tissues and may offer explanations to mechanically linked pathologies. Such objective might be achieved only if the models are carefully validated. Sensitivity study must be performed in order to evaluate the influence of the approximations inherent to modelling. In this study, a new geometrically accurate L3-L5 lumbar spine bi-segmental finite-element model was acquired by modifying a previously existing model. The effect of changes in bone geometry, ligament fibres distribution, nucleus position and disc height was investigated in flexion and extension by comparison of the results obtained from the model before and after the geometrical update. Additional calculations were performed in axial rotation and lateral bending in order to compare the computed ranges of motion (ROM) with experimental results. It was found that the geometrical parameters affected the stress distribution and strain energy in the zygapophysial joints, the ligaments, and the intervertebral disc, changing qualitatively and quantitatively their relative role in resisting the imposed loads. The predicted ROM were generally in good agreement with the experimental results, independently of the geometrical changes. Hence, although the model update affected its internal biomechanics, no conclusions could be drawn from the experimental data about the validation of a particular geometry. Hence the validation of the lumbar spine model should be based on the relative role of its structural components and not only on its global mobility.     

Does a micro-grooved trunnion stem surface finish improve fixation and reduce fretting wear at the taper junction of total hip replacements? A finite element evaluation

The generation of particulate debris at the taper junction of total hip replacements (THRs), can cause failure of the artificial hip. The taper surfaces of femoral heads and trunnions of femoral stems are generally machined to a certain roughness to enhance fixation. However, the effect of the surface roughness of these surfaces on the fixation, wear and consequently clinical outcomes of the design is largely unknown. In this study, we asked whether a micro-grooved trunnion surface finish (1) improves the fixation and (2) reduces the wear rate at the taper junction of THRs. We used 3D finite element (FE) models of THRs to, firstly, investigate the effect of initial fixation of a Cobalt-Chromium femoral head with a smooth taper surface mated with a Titanium (1) micro-grooved and (2) smooth, trunnion surface finishes. Secondly, we used a computational FE wear model to compare the wear evolution between the models, which was then validated against wear measurements of the taper surface of explanted femoral heads. The fixation at the taper junction was found to be better for the smooth couplings. Over a 7 million load cycle analysis in-silico, the linear wear depth and the total material loss was around 3.2 and 1.4 times higher for the femoral heads mated with micro-grooved trunnions. It was therefore concluded that smooth taper and trunnion surfaces will provide better fixation at the taper junction and reduce the volumetric wear rates.     

Complexity of type 2 diabetes mellitus data sets emerging from nutrigenomic research: a case for dimensionality reduction?

Nutrigenomics promises personalized nutrition and an improvement in preventing, delaying, and reducing the symptoms of chronic diseases such as diabetes. Nutritional genomics is the study of how foods affect the expression of genetic information in an individual and how an individual's genetic makeup affects the metabolism and response to nutrients and other bioactive components in food. The path to those promises has significant challenges, from experimental designs that include analysis of genetic heterogeneity to the complexities of food and environmental factors. One of the more significant complications in developing the knowledge base and potential applications is how to analyze high-dimensional datasets of genetic, nutrient, metabolomic (clinical), and other variables influencing health and disease processes. Type 2 diabetes mellitus (T2DM) is used as an illustration of the challenges in studying complex phenotypes with nutrigenomics concepts and approaches.     

Is the sheep a suitable model to study the mechanical alterations of disc degeneration in humans? A probabilistic finite element model study

Intervertebral disc degeneration is one major source of low back pain, which because of its complex multifactorial nature renders the treatment challenging and thus necessitates extensive research. Experimental animal models have proven valuable in improving our understanding of degenerative processes and potentially promising therapies. Currently, the sheep is the most frequently used large animal in vivo model in intervertebral disc research. However, despite its undoubted value for investigations of the complex biological and cellular aspects, to date, it is unclear whether the sheep is also suited to study the mechanical aspects of disc degeneration in humans.A parametric finite element (FE) model of the L4–5 spinal motion segment was developed. Using this model, the geometry and the material properties of both the human and the ovine spinal segment as well as different appearances of disc degeneration can be depicted. Under pure and combined loads, it was investigated whether degenerative changes to both the human and the ovine model equivalent caused the same mechanical response.Different patterns of degeneration resulted in large variations in the ranges of motion, intradiscal pressure, ligament and facet loads. In the human, but not in the ovine model, all these results differed significantly between different degrees of degeneration.This FE model study highlighted possible differences in the mechanical response to disc degeneration between human and ovine intervertebral discs and indicates the necessity of further, more detailed, investigations.     

Can the assumption of a non‐random search improve our prediction of butterfly fluxes between resource patches?

Abstract. 1. Understanding dispersal patterns that enable small, spatially isolated populations to survive in fragmented landscapes has become an important issue in conservation biology and landscape management. However, for most of the species of interest it is not known whether dispersing individuals navigate or follow systematic search strategies, as opposed to moving randomly. 2. Recently it was shown that individuals of the butterfly species Maniola jurtina do not seek resources by means of random flight. If true, this may be problematic for existing metapopulation models, including those based on the evolution of dispersal rates in metapopulations. 3. The study tested to what extent the non‐random dispersal patterns described in the literature can explain M. jurtina fluxes in its natural habitat. 4. A model based on literature assumptions of M. jurtina movements is presented in the work reported here, and its predictions are compared with 2 years of capture–recapture data on its fluxes in two landscapes. 5. The model provides a good fit to the data and gives better predictions than the model based only on patch sizes and distances between patches. 6. Thus, if data are available about the actual landscape under consideration, the model should be preferred to simpler approaches; however, in general theoretical considerations the simple approach based on patch size and the degree of its isolation will retain its value.     

Do edge effects increase the susceptibility of rainforest fragments to structural damage resulting from a severe tropical cyclone?

Abstract If changes in the structural characteristics of rainforest at edges are caused by wind, then physical damage from a tropical cyclone might be greatest at edges or in small fragments that have a high proportion of edge. We tested whether this was true of a fragmented rainforest landscape impacted by a category 4 severe tropical cyclone in March 2006. Six structural variables (canopy cover, canopy height, cover of ground vegetation, leaf litter, stem density and counts of woody debris) were surveyed at 18 rainforest sites (six small linear remnants, and both edges and interiors of six large remnants) on the Atherton Tableland in north‐eastern Queensland, Australia. Data collected 7 and 12 months after the passage of Cyclone Larry were compared with an identical survey conducted 4 years prior to the cyclone. The cyclone had large effects across many components of forest structure. However, sites within 30 m of forest edges in small and large remnants were not impacted more than the interiors of large remnants. It is likely that the high wind intensity from severe tropical cyclones overrides the modest wind protection provided by surrounding forest. The cyclone's effects were highly patchy at local scales (0.5–1.0 km), leading to an increase in among‐site variation in forest structure and the disappearance of significant spatial autocorrelation among large remnant edge‐interior site pairs which had existed prior to the cyclone. The main effect of Cyclone Larry at these study sites was to increase the spatial heterogeneity of forest structure at local scales.     

Can microbially-generated hydrogen sulfide account for the rates of U(VI) reduction by a sulfate-reducing bacterium?

In situ remediation of uranium contaminated soil and groundwater is attractive because a diverse range of microbial and abiotic processes reduce soluble and mobile U(VI) to sparingly soluble and immobile U(IV). Often these processes are linked. Sulfate-reducing bacteria (SRB), for example, enzymatically reduce U(VI) to U(IV), but they also produce hydrogen sulfide that can itself reduce U(VI). This study evaluated the relative importance of these processes for Desulfovibrio aerotolerans, a SRB isolated from a U(VI)-contaminated site. For the conditions evaluated, the observed rate of SRB-mediated U(VI) reduction can be explained by the abiotic reaction of U(VI) with the microbially-generated H₂S. The presence of trace ferrous iron appeared to enhance the extent of hydrogen sulfide-mediated U(VI) reduction at 5 mM bicarbonate, but had no clear effect at 15 mM. During the hydrogen sulfide-mediated reduction of U(VI), a floc formed containing uranium and sulfur. U(VI) sequestered in the floc was not available for further reduction.     

Can dog-ear formation be decreased when an S-shaped skin resection is used instead of a spindle skin resection? A three-dimensional analysis of skin surgery techniques using the finite element method

Dog-ear formation is often unavoidable with resection and suturing of the skin, including spindle excision. Regarding dog-ear formation after basic spindle skin resection during removal of a round tumor of the skin, we quantitatively analyzed the frequency of dog-ear formation with respect to the following three techniques: previous spindle skin resection, S-shaped skin resection, which has been experientially considered to induce limited deformity, and mosque-shaped skin resection for control. To date, by using paper models or sponges, various techniques of skin resection have been simulated in the field of plastic surgery. In the present study, we performed three-dimensional simulation and analyzed three different techniques of skin resection by using the finite element method. As a result, image simulation demonstrated that the frequency of dog-ear formation was limited by S-shaped, spindle, and mosque-shaped skin resection, in descending order.