Geometric morphometries and the analysis of higher taxa: a case study based on the metendosternite of the Scarabaeoidea (Coleoptera)

A geometric morphometric analysis of families belonging to the Scarabaeoidea, using landmarks from three two-dimensional views (frontal, dorsal and lateral) of an internally situated rigid structure, the metendosternite, was carried out. Procrustes distances matrices were obtained to produce phenograms from the three analyses. Relative warp analyses were also performed and the first two relative warps for the three data sets plotted against each other. The metendosternite is an internally situated anatomical structure that has largely been neglected in past studies. However, it proved to be useful in geometric morphometric studies, because it is rigid and landmarks can be easily identified. Geometric morphometries is shown to be a powerful tool to identify phenetic relationships between higher level taxa, and the metendosternite is a new structure available for beetle systematisists.     

The robustness of geometric morphometrics in testing the morphological equivalence hypothesis among cichlid species from East African Great Lakes

As part of an ongoing broader investigation into whether similar morphologies among cichlid species from East African Great Lakes are due to common ancestry or convergent evolution, we used geometric morphometrics to quantitatively test the hyphothesis that Lake Tanganyika's Tropheus spp. is morphologically similar to Lake Malawi's Pseudotropheus spp. and Labeotropheus fuelleborni . Landmark-based techniques were used to investigate body shape variation and the results revealed highly significant differences among these genera with the exception of L. fuelleborni vs. Pseudotropheus ( Tropheops ) spp. An ordination of all specimens along the first two canonical variate (CV) axes indicated clear interlake separation, especially along the CV I axis, whereby Tropheus moori showed a dorsoventral expansion of the mid body section with a steeper forehead relative to Lake Malawi species. Pseudotropheus ( Maylandia ) zebra was discriminated from the rest primarily on the basis of its terminally positioned gape, which differed from the inferior subterminal gape that was prevalent in the other species. Thus, the present study reveals a pattern of parallel evolution between L. fuelleborni and Pseudotropheus ( Tropheops ) spp., but does not support an interlake convergent evolution hypothesis. Contrary to previous researchers' assertions, these results emphasize the robustness of geometric morphometrics when testing morphological equivalence hypothesis among cichlid species.  © 2007 The Linnean Society of London, Biological Journal of the Linnean Society , 2007, 91 , 1–9.     

Two-stage functional mixed models for evaluating the effect of longitudinal covariate profiles on a scalar outcome

The Daily Hormone Study, a substudy of the Study of Women's Health Across the Nation (SWAN) consisting of more than 600 pre- and perimenopausal women, includes a scalar measure of total hip bone mineral density (BMD) together with repeated measures of creatinine-adjusted follicle stimulating hormone (FSH) assayed from daily urine samples collected over one menstrual cycle. It is of scientific interest to investigate the effect of the FSH time profile during a menstrual cycle on total hip BMD, adjusting for age and body mass index. The statistical analysis is challenged by several features of the data: (1) the covariate FSH is measured longitudinally and its effect on the scalar outcome BMD may be complex; (2) due to varying menstrual cycle lengths, subjects have unbalanced longitudinal measures of FSH; and (3) the longitudinal measures of FSH are subject to considerable among- and within-subject variations and measurement errors. We propose a measurement error partial functional linear model, where repeated measures of FSH are modeled using a functional mixed effects model and the effect of the FSH time profile on BMD is modeled using a partial functional linear model by treating the unobserved true subject-specific FSH time profile as a functional covariate. We develop a two-stage nonparametric regression calibration method using period smoothing splines. Using the connection between smoothing splines and mixed models, we show that a key feature of our approach is that estimation at both stages can be conveniently cast into a unified mixed model framework. A simple testing procedure for constant functional covariate effect is also proposed. The proposed methods are evaluated using simulation studies and applied to the SWAN data.     

Electronic properties and stability phase diagrams for cubic BN surfaces

This contribution investigates structural and electronic properties as well as stability phase diagrams of surfaces of the cubic boron nitride (c-BN). Our calculated parameters for bulk c-BN agree reasonably well with both experimental and computed values available in the literature. Based on the energies of the three experimentally recognised phases of bulk boron, i.e. α-B₃₆, β-B₁₀₅ and γ-B₂₈, we estimate enthalpy of formation of c-BN to be ?2.8 eV. The c-BN(1?0?0) surface offers separate B and N terminations (denoted as c-BN(1?0?0)_B and c-BN(1?0?0)_N), whereas c-BN(1?1?1) and c-BN(1?1?0) are truncated with combinations of boron and nitrogen atoms (denoted as c-BN(1?1?1)_BN and c-BN(1?1?0)_BN). Optimised geometries of surfaces display interlayer displacements up to the three topmost layers. Downward displacement of surface boron atoms signifies a common geometric feature of all surfaces. Bulk c-BN and its most stable surface c-BN(1?0?0)_N possess no metallic character, with band gaps of 5.46 and 2.7 eV, respectively. We find that, only c-BN(1?0?0)_B configuration exhibits a metallic character. c-BN(1?1?0)_BN and c-BN(1?1?1)_BN surfaces display corresponding band gaps of 2.5 and 3.9 eV and, hence, afford no metallic property.     

Formulation Optimization of an Indomethacin-Containing Photocrosslinked Polyacrylic Acid Hydrogel as an Anti-inflammatory Patch

Photocrosslinked polyacrylic acid hydrogel, made from polyacrylic acid (PAA) modified with 2-hydroxyethyl methacrylate (HEMA), is a promising candidate adhesive for dermatological patches. In this study, we investigated the further availability of hydrogel as an adhesive for dermatological patches using a hydrogel containing indomethacin (IDM) as a model anti-inflammatory patch. From an orthogonal experimental study, we clarified the relationships between formulation factors and characteristics of model formulation. Formulations with a lower degree of swelling were prepared by increasing the degree of HEMA modification and the addition of Tween 80. Apparent permeation rate was increased by addition of l-menthol and Tween 80. A tendency for higher HEMA modification to be accompanied by the prolongation of the lag time of IDM was observed. To obtain an applicable anti-inflammatory patch, we conducted a formulation optimization study using a novel optimization method, a response-surface method incorporating multivariate spline interpolation (RSM-S). Consequently, a highly functional anti-inflammatory patch in terms of its adhesive properties and bioavailability was successfully obtained. Since a wide range of functions can be fully controlled by manipulating the formulation factors, photocrosslinked polyacrylic acid hydrogel is an attractive candidate adhesive for dermatological patches.     

Reducing variability of crossvalidation for smoothing-parameter choice

One of the attractions of crossvalidation, as a tool for smoothing-parameterchoice, is its applicability to a wide variety of estimatortypes and contexts. However, its detractors comment adverselyon the relatively high variance of crossvalidatory smoothingparameters, noting that this compromises the performance ofthe estimators in which those parameters are used. We show thatthe variability can be reduced simply, significantly and reliablyby employing bootstrap aggregation or bagging. We establishthat in theory, when bagging is implemented using an adaptivelychosen resample size, the variability of crossvalidation canbe reduced by an order of magnitude. However, it is arguablymore attractive to use a simpler approach, based for exampleon half-sample bagging, which can reduce variability by approximately50%.     

The effects of interpolation error and location quality on animal track reconstruction

The Global Positioning System (GPS) gives precise estimates of location. However, the investigation of animal movement and behavior often requires interpolation to examine events between such fixes. We obtained 6,288 GPS locations from an electronic tag deployed for 170 d on an adult male gray seal ( Halichoerus grypus ) that ranged freely off the east coast of Scotland, and interpolated between subsamples of these data to investigate the growth of uncertainty within the intervals between observations. Average uncertainty over the path increased linearly as the interval between interpolating locations increased, reaching 12 km in longitude and 6 km in latitude at 2-d separation. The decrease in precision caused by duty-cycling, only collecting data in part of the day, was demonstrated. Adding noise to the GPS locations to simulate data from the ARGOS satellite system had little effect on the total errors for observations separated by more than 12 h. While the rate of growth in interpolation error is likely to vary between species, these results suggest that frequent, and preferably evenly spaced, location fixes are required to take full advantage of the precision of GPS data in the reconstruction of animal tracks.     

Advances in Geometric Morphometrics

Geometric morphometrics is the statistical analysis of form based on Cartesian landmark coordinates. After separating shape from overall size, position, and orientation of the landmark configurations, the resulting Procrustes shape coordinates can be used for statistical analysis. Kendall shape space, the mathematical space induced by the shape coordinates, is a metric space that can be approximated locally by a Euclidean tangent space. Thus, notions of distance (similarity) between shapes or of the length and direction of developmental and evolutionary trajectories can be meaningfully assessed in this space. Results of statistical techniques that preserve these convenient properties—such as principal component analysis, multivariate regression, or partial least squares analysis—can be visualized as actual shapes or shape deformations. The Procrustes distance between a shape and its relabeled reflection is a measure of bilateral asymmetry. Shape space can be extended to form space by augmenting the shape coordinates with the natural logarithm of Centroid Size, a measure of size in geometric morphometrics that is uncorrelated with shape for small isotropic landmark variation. The thin-plate spline interpolation function is the standard tool to compute deformation grids and 3D visualizations. It is also central to the estimation of missing landmarks and to the semilandmark algorithm, which permits to include outlines and surfaces in geometric morphometric analysis. The powerful visualization tools of geometric morphometrics and the typically large amount of shape variables give rise to a specific exploratory style of analysis, allowing the identification and quantification of previously unknown shape features.     

全球陆地保护地60年增长情况分析和趋势预测

保护地建设已成为全球生物多样性保护的第一道防线。掌握其在不同尺度上的发展状况和变化趋势对保护地规划和建设有重要意义。针对已有研究在时间跨度、空间尺度以及结果对比方面的不足, 本文基于世界保护地数据库(World Database of Protected Areas, http://www.protectedplanet.net), 对全球、洲际、地区及国家尺度1950-2013年陆地保护地的增长情况进行描述和短期预测。结果发现: (1)全球保护地增长速率不断加快, 特别是在20世纪90年代以后。(2)洲际和地区保护地发展大致呈现3种增长趋势: 在美洲及大洋洲, 多数地区的保护地增长速率一直在加快; 在亚洲和欧洲, 多数地区的发展高峰出现在20世纪80、90年代; 在非洲, 多数地区的发展高峰为20世纪70年代及21世纪前10年。(3)各国保护地建设存在不平衡性, 仍有近一半国家的陆地保护地比例小于10%, 但这种差距随时间的推移有缩小的趋势。(4)绝大部分保护地增速均匀性低的国家分布在非洲。(5)虽然全球的《爱知生物多样性目标》在2020年预计不能完成, 但包括中国在内的22个国家有望如期达到目标。本文结果为未来保护地规划和建设工作的开展提供了参考依据。