Scaling of long bones in ruminants with respect to the scapula

The significance of the scapula for locomotion is becoming more and more established. Studies of locomotion in small and medium‐sized mammals show a considerable amplitude of the scapula and a large contribution to step length. Taking this into account, long bone studies of forelimb movement restricted to the ‘arm’ miss one important segment. A regression model (reduced major axis) was used for analysis of a sample of 77 species of ruminants. This sample was divided according to (1) phylogenetic relationships and (2) habitat. The proximal elements of the limbs, scapula and humerus in the anterior extremity, femur in the hindlimb, show a similar scaling in the different analyses. The changes to limb proportions in the different subsamples are caused by the variability of the distal segments. The anterior extremity scales with a higher coefficient than the hindlimb in all analyses. Concepts like elastic or geometric similarity are inadequate for long bone scaling when the full range of body size in the sample is used. Taking all analyses into account, the differences in limb proportions are due more to phylogenetic relationships than to habitat.     

Efficiency of scat-analysis lab procedures for bear dietary studies: The case of the Apennine brown bear

Bear food habits are often quantified using scat analysis, mainly due to its non-invasiveness and because samples are relatively easy to collect. However, lab processing time can be daunting and may end up competing with other field activities. Sub-sampling a bear scat to analyze its contents may reduce the lab processing time, but the number of subsamples per scat is usually chosen arbitrarily. We investigated the effect of the number of subsamples per bear scat on the estimatation of the diet composition of the Apennine brown bear in the Abruzzo Lazio and Molise National Park. Based on a sample of 328 bear scats collected in 2006, and from 5 to 1 subsamples (10 ml) per scat, dietary analysis showed qualitative and quantitative stability at a decreasing number of subsamples, and only food items of negligible importance were occasionally missed using 1–2 subsamples per scat. We concluded that 2 subsamples can be used without significant loss in accuracy, corresponding to a 60% reduction in lab time, and to more than 50 days of lab work for one operator to process our entire bear scat sample. By assessing the effect of sub-sampling a bear scat for dietary analysis, we also present preliminary data on the seasonal food habits of the Apennine brown bear population.     

A simulation study of sample size for DNA barcoding

For some groups of organisms, DNA barcoding can provide a useful tool in taxonomy, evolutionary biology, and biodiversity assessment. However, the efficacy of DNA barcoding depends on the degree of sampling per species, because a large enough sample size is needed to provide a reliable estimate of genetic polymorphism and for delimiting species. We used a simulation approach to examine the effects of sample size on four estimators of genetic polymorphism related to DNA barcoding: mismatch distribution, nucleotide diversity, the number of haplotypes, and maximum pairwise distance. Our results showed that mismatch distributions derived from subsamples of ≥20 individuals usually bore a close resemblance to that of the full dataset. Estimates of nucleotide diversity from subsamples of ≥20 individuals tended to be bell‐shaped around that of the full dataset, whereas estimates from smaller subsamples were not. As expected, greater sampling generally led to an increase in the number of haplotypes. We also found that subsamples of ≥20 individuals allowed a good estimate of the maximum pairwise distance of the full dataset, while smaller ones were associated with a high probability of underestimation. Overall, our study confirms the expectation that larger samples are beneficial for the efficacy of DNA barcoding and suggests that a minimum sample size of 20 individuals is needed in practice for each population.     

A model of biocomplexity and its application to the analysis of some terrestrial and marsh eukaryotic microbial communities with an emphasis on amoeboid protists

Biocomplexity theory has become increasingly important in understanding ecosystem dynamics as we realize that the interactions among subunits in a multi-component system often produce elaborate states that are not easily explained in terms of the individual parts of the system. A Euclidean geometric model of biocomplexity is presented and illustrated using protistan communities. The model is based on three quantitative biotic dimensions (indices) for small subsamples (0.01 g) taken from each sample core of substratum: (1) richness of morphospecies expressed as mean count per 0.01 g, (2) spatial diversity of protists expressed as then umber of unique morphospecies (i.e. those occurring in only one of the 0.01-g subsamples and not in any of the other subsamples), and (3) patchiness (non-uniform aggregation) of the distribution of protists across the 0.01-g subsamples. These three indices are mapped into a three-dimensional Euclidean space model, and the position of each point and its geometric distance from the origin are used as a general index of biocomplexity. The usefulness of the model is illustrated by applying it to a range of terrestrial and marsh communities. Within the set of 15 samples examined in this study, the marsh rhizosphere samples are among the most complex.     

Variability within the chemical analysis of horticultural substrates

Summary The variability within the chemical analysis of a horticultural substrate is described by the variance components, which are isolated in a hierarchical model, consisting of samples, analysts, subsamples and chemical determinations. It is shown that the samples contribute to the larger part of the total variability, although the variance component due to the analysts should not be neglected and differences between analysts are persistent. The increase of precision in function of the number of samples is shown.     

Are changes in body dimensions of adult females from Italy (Sardinia and Latium) related to secular trend?

This paper presents secular changes in height, weight, sitting height, relative sitting height, BMI and estimated lower limb length in two samples of Italian adult females from Sardinia (Cagliari) and Latium (Rieti). The samples consist of 579 healthy women from the province of Cagliari and 138 from the town of Rieti, aged 20.0-39.9 years, measured in the period 2003-2006. The women were divided into four 5-year age groups. The anthropometric variables were considered according to different socioeconomic status (SES) in the Cagliari sample, while the Rieti sample was considered as a whole, as the SES was homogeneous. ANOVA results suggest that the secular trend was very slow or had come to a halt in the Rieti sample but continues in the Cagliari sample, as shown by the statistically significant differences for estimated lower limb length (p≤0.02), and relative sitting height (p≤0.05). However, these differences disappear after ANCOVA with sibship size and socioeconomic status controlled for, suggesting that they depend mainly on the composition of the Cagliari sample in terms of SES. Therefore, it can be hypothesised that the secular trend might be very slow or has stopped in the Cagliari subsamples homogeneous for SES.     

Computerized morphometric analysis of the chick embryo duodenum organogenesis

A computerized morphometric analysis was performed on histological sections of the proximal and distal limbs of the chick embryo duodenum, from the 8th to the 15th day of incubation, with the aim of evaluating the quantitative aspects of organogenesis. A semiautomatic digital system was used. The areas of total section, of the lumen, of the wall and of its components (subserous stratum, muscle layer, lamina propria, epithelium) and the thickness of the epithelium and muscle layer were measured; the mean +/- S.E.M. of the values obtained was calculated. The percentage of shrinkage, due to the histological procedures, was calculated for each day. The values obtained were added to the measurements of each area and thickness thus giving the true value of each parameter measured. The differences between the mean values of the areas of the proximal and the distal tract were statistically evaluated. Exponential curves and r coefficient were determined to evaluate the general growing pattern of the mean area of the components of the duodenal wall, as a function of age. The main results are the following: the areas of the wall components of the proximal limb are always greater than the corresponding areas of the distal limb of the duodenum. There are some differences between the proximal and the distal limbs of the duodenum in the growing pattern of the intestinal wall components. The anlage of the duodenum also has a different developmental pattern compared with that of the chick embryo ileum.     

Sampling for Regional Monitoring of Nematode Communities in Agricultural Soils

Regional assessment of nematode communities to monitor the condition or ecological health of agricultural soils requires sampling programs with measures of known reliability and the ability to detect differences over time. Numbers of fields sampled in a region, samples taken per field, and subsamples assayed per sample must be balanced with cost to provide the best sampling scheme. We used components of variance from statewide surveys in North Carolina (1992) and Nebraska (1993) to estimate number of (i) fields to be sampled; (ii) 20-core, composite soil samples to be obtained for each field; and (iii) subsamples to be assayed for each composite sample to detect a specified amount of change in index values within a geographic region. Variances for these three components were used to estimate the degree of reliability for five ecologically based indices (four measures of maturity and one of diversity) of nematode communities. Total variance for maturity and diversity indices, based upon communities of free-living nematodes, was greater in North Carolina than in Nebraska; the opposite was true for indices based strictly upon maturity of communities of plant-parasitic nematodes or of all nematodes in soil. Variability within samples was greater in North Carolina than in Nebraska, especially for maturity indices based only upon free-living nematodes. We identified two possible sampling strategies for a regional survey: Option 1, with two independent samples per field and a single subsample assayed per sample, which would provide a reliability ratio value ≥0.6 for most indices; and Option 2, with three independent samples per field and two subsamples assayed per sample, which would provide a reliability ratio value ≥0.7 for several indices. When cost was considered, Option 1 was the better strategy. Number of fields to be sampled within a region or state varied with the index chosen; with specific indices, however, a 10% change in mean index value could be detected with a sample of 50 to 100 fields.     

Convergence of forelimb and hindlimb Natural Pendular Period in baboons (Papio cynocephalus) and its implication for the evolution of primate quadrupedalism

The patterns of muscle mass distribution along the lengths of limbs may have important effects on the mechanics and energetics of quadrupedalism. Specifically, Myers and Steudel (J. Morphol. 234 (1997) 183) have shown that fore- and hindlimb Natural Pendular Periods (NPPs) may affect quadrupedal kinematics and must converge to reduce locomotor energetic costs. This study quantifies patterns of limb mass distribution in a live sample of Papio cynocephalus using limb inertial properties (mass, center of mass, mass moment of inertia, and radius of gyration). These inertial properties are calculated using a geometric modeling technique similar to that of Crompton et al. (Am. J. phys. Anthrop. 99 (1996) 547). The inertial properties in Papio are compared to those of Canis from Myers and Steudel (J. Morphol. 234 (1997) 183). The Papio sample has convergent fore- and hindlimb NPPs. Additionally, these limb NPPs are relatively large compared to those of Canis due to the relatively distally distributed limb mass in the Papio sample (relatively large limb masses, relatively distal centers of mass and radii of gyration, and relatively large limb mass moments of inertia). This relatively distal limb mass appears related to the grasping abilities of their hands and feet. Causal links are explored between limb shape adaptations for grasping hands and feet and the kinematics of primate quadrupedalism. In particular, if primates in general follow Papio's limb mass distribution pattern, then relatively large limb NPPs may lead to the relatively low stride frequencies already documented for primates. The kinematics of primate quadrupedalism appears to have been strongly influenced by both selection for grasping hands and feet and selection for reduced locomotor energetic costs.     

Evaluation of five strategies for obtaining a core subset from a large genetic resource collection of durum wheat

The use of plant genetic resources contained in a large collection may be enhanced by specifying subsamples, called core samples. Five strategies for selecting a core sample from a collection of 3000 durum wheat accessions were applied and evaluated using four qualitative and eight quantitative spike characters. Each of the following strategies generated about 500 accessions for the core sample: random, random-systematic according to chronology of entry of the accessions into the collection, stratified by countryof-origin, stratified by log frequency by country-of-origin, and stratified by canonical variables. The first three strategies produced samples representative of the whole collection, but the remaining two produced the desired effect of increasing frequencies from less-represented countries-of-origin for several characters. The stratified canonical sample increased phenotypic variances. The quality of core samples is dependent upon good passport and evaluation data to partition the collection. The multivariate approach is extremely useful, but requires considerable data from the whole collection. Ecogeographic origin may be used in the absence of evaluation data on several characters to select useful core samples.     

Windsurfer somatotypes.

On the basis of data gathered during a series of Pre-Olympic Trials and the World Championships, both held at Cagliari (Italy) in 1983 and 1986, respectively, the somatotypes of athletes practicing windsurfing were studied. The sample is composed of 79 male athletes: 22 Sardinians, 31 mainland Italians, and 26 Europeans. The Heath-Carter anthropometric method (1967) was used to somatotype the individuals under study. Both the total sample as well as the three subsamples are characterized by almost identical average values of the three components. A subsample of athletes was formed, who had obtained important performances in their carriers (victories in World, European and Italian championships, participation in the Olympic Games etc.). In this group of top athletes it was seen that the best results in windsurfing are obtained when there is an even development of the three components (2.57-2.68-2.97) or a slight ectomorphic predominance.     

Comparative Studies on the Estimation of Genetic Variances by Several Variance Components Estimation Method

Using a quantitative genetic model, this paper compares four different methods for estimating genetic variance components. Given various genetic parameters, data were generated and estimates computed. The number of negative estimates, the sample mean, the sample variance, and the sample mean squared error were computed for each method. It is shown that, if the genetic values are not very small, the traditional MATHER -JINKS method is at least as good as any other method. The ML method might be preferable only if the genetic values are very small and the number of loci large.     

A new method to quantify liner deformation within a prosthetic socket for below knee amputees

Many amputees who wear a leg prosthesis develop significant skin wounds on their residual limb. The exact cause of these wounds is unclear as little work has studied the interface between the prosthetic device and user. Our research objective was to develop a quantitative method for assessing displacement patterns of the gel liner during walking for patients with transtibial amputation. Using a reflective marker system and a custom clear socket, evaluations were conducted with a clear transparent test socket mounted over a plaster limb model and a deformable limb model. Distances between markers placed on the limb were measured with a digital caliper and then compared with data from the motion capture system. Additionally, the rigid plaster set-up was moved in the capture volume to simulate walking and evaluate if inter-marker distances changed in comparison to static data. Dynamic displacement trials were then collected to measure changes in inter-marker distance due to vertical elongation of the gel liner. Static and dynamic inter-marker distances within day and across days confirmed the ability to accurately capture displacements using this new approach. These results encourage this novel method to be applied to a sample of amputee patients during walking to assess displacements and the distribution of the liner deformation within the socket. The ability to capture changes in deformation of the gel liner will provide new data that will enable clinicians and researchers to improve design and fit of the prosthesis so the incidence of pressure ulcers can be reduced.     

Arithmetic or geometric normality of biological variation: an empirical test of theory

Variation of biological populations is required for evolution by natural selection, and variance is a fundamental component in quantitative characterization of evolutionary differences and rates of change. Biological variation is widely understood to be normally distributed because of a general theoretical law of error. The law of error has two forms, and resulting normality may be arithmetic-where equivalent positive and negative deviations from expectation differ by equal amounts, or normality may be geometric-where equivalent deviations differ by equal proportions. Which law of error applies in biology can only be determined empirically, and this is surprisingly difficult. A new likelihood approach is developed here using data from anthropometric surveys of humans in two states in India: Maharashtra and Uttar Pradesh. Each state sample is large, but more importantly, each includes a large number of smaller subsamples. Likelihood support is additive, and subsamples are advantageous because (1) they are more homogeneous, (2) they yield probabilities and support scores in every case, and (3) significance can be evaluated first by tracing signs of the subsample support scores and then by comparing subsample support sums. Sign traces that fluctuate randomly show arithmetic and geometric normality to be indistinguishable. Two of 14 measurement variables studied here have subsample support sign traces differing from random, and one is significant in having a subsample support sum falling outside a 95% prediction interval for the 12 fluctuating traces: geometric normality is favored by a factor of ca. 10(60). Six of 14 index variables have support sign traces differing from random, and all are significant in having subsample support sums falling outside a 95 % prediction interval for the 8 fluctuating traces: geometric normality is favored by factors of 10(8) or more. Arithmetic and geometric normality cannot be distinguished for 21 of 28 variables studied here, but whenever alternatives are distinguishable geometric normality is consistently and strongly favored. This means that the applicable law of errors is proportional. In practical terms, arithmetic measurements must be transformed using logarithms to represent both the geometric normality of biological variation and the relative functional significance of measurements appropriately.     

Perils of parsimony: properties of reduced-rank estimates of genetic covariance matrices

Eigenvalues and eigenvectors of covariance matrices are important statistics for multivariate problems in many applications, including quantitative genetics. Estimates of these quantities are subject to different types of bias. This article reviews and extends the existing theory on these biases, considering a balanced one-way classification and restricted maximum-likelihood estimation. Biases are due to the spread of sample roots and arise from ignoring selected principal components when imposing constraints on the parameter space, to ensure positive semidefinite estimates or to estimate covariance matrices of chosen, reduced rank. In addition, it is shown that reduced-rank estimators that consider only the leading eigenvalues and -vectors of the "between-group" covariance matrix may be biased due to selecting the wrong subset of principal components. In a genetic context, with groups representing families, this bias is inverse proportional to the degree of genetic relationship among family members, but is independent of sample size. Theoretical results are supplemented by a simulation study, demonstrating close agreement between predicted and observed bias for large samples. It is emphasized that the rank of the genetic covariance matrix should be chosen sufficiently large to accommodate all important genetic principal components, even though, paradoxically, this may require including a number of components with negligible eigenvalues. A strategy for rank selection in practical analyses is outlined.     

Status and Reproduction in Humans: New Evidence for the Validity of Evolutionary Explanations on Basis of a University Sample

A strong positive relationship between reproductive success (offspring count) and status (position in the institutional hierarchy) is demonstrated in a contemporary sample of male university employees (n = 2693). Male academics in leading positions have more children than do other male employees. In female university employees (n = 2073), a negative relationship between status and reproductive success was found, but only if childless women were included in the analysis. Although a positive relationship between male status and offspring count has been predicted by evolutionary theory and was found in animal species and ‘traditional’ human societies, in modern societies most of the studies found no or even a negative relationship between status and reproductive success in males. We suggest that status may be a more important dimension for particular subsamples of modern society than for samples representing entire societies, so that associations might actually differ among subsamples. We suggest that analyses on a small and rather uniform level using modern large‐scale hierarchical organizations (such as universities) are candidates for the investigation of appropriate ‘society subsets’. Our results may stress the importance of evolutionary predictions and may be of relevance for theoretical and empirical considerations at the levels of economics and administration.     

Mixture models, robustness, and the weighted likelihood methodology

Problems associated with the analysis of data from a mixture of distributions include the presence of outliers in the sample, the fact that a component may not be well represented in the data, and the problem of biases that occur when the model is slightly misspecified. We study the performance of weighted likelihood in this context. The method produces estimates with low bias and mean squared error, and it is useful in that it unearths data substructures in the form of multiple roots. This in turn indicates multiple potential mixture model fits due to the presence of more components than originally specified in the model. To compute the weighted likelihood estimates, we use as starting values the method of moment estimates computed on bootstrap subsamples drawn from the data. We address a number of important practical issues involving bootstrap sample size selection, the role of starting values, and the behavior of the roots. The algorithm used to compute the weighted likelihood estimates is competitive with EM, and it is similar to EM when the components are not well separated. Moreover, we propose a new statistical stopping rule for the termination of the algorithm. An example and a small simulation study illustrate the above points.     

Scaling of cursoriality in mammals

Data on limb bone lengths from 64 mammalian species were combined with data on 114 bovid species (Scott, '79) to assess the scaling of limb lengths and proportions in mammals ranging from 0.002 to 364 kg. We analyzed log-transformed data using both reduced major axis and least-squares regression to focus on the distribution across mammals of two key traits—limb length and metatarsal/femur ratio—associated with cursorial adaptation. The total lengths of both fore and hindlimbs scale in a manner very close to the M^0.33 predicted by geometric similarity. Thus the relative limb lengths of large mammals, including bovids, generally regarded among the most cursorial of mammals, are very similar to those of the rodents and insectivores in this sample. Metatarsal/femur ratio also shows little change with changing mass, although bovids tend to have relatively longer metapodials than do other families in the sample. We argue that many of the remaining morphological traits associated with cursoriality (e.g., reduction in joint mobility and number of distal limb bone elements) promote cursoriality only at large body sizes. These results lead us to question the general perception that cursoriality is most widespread among large mammals. We also suggest that discussions of cursoriality should focus explicitly on the two partially independent aspects of performance that are otherwise confounded under this general term—speed and the ability to cover substantial distance. © 1993 Wiley-Liss, Inc.     

论二次抽样以矫正多样性统计偏差的经典、发展与应用

稀疏标准化是定量古生物工作中矫正多样性统计偏差的常用方法。相比基于样本大小的传统稀疏化,基于采样充分度的改进能更忠实反映多样性信息。然而一些案例对于稀疏化的适用性不够重视,尤其是改进的方法鲜有国内文献介绍。本文阐述了稀疏化的原理,强调了应用的注意事项和改进方法的优势。稀疏化的原理是从大小不同的样本中二次抽样出彼此“公平”的子样本,以比较其分类单元丰富度。传统方法据样本大小衡量公平,改进的方法据采样充分度评估公平,要求子样本在群落中代表的个体频率总和相等。两种思路均可通过计算机模拟多次重复二次抽样或公式推导来计算,已有PAST和iNext等软件可以实现。采样是否充分代表了古生物群落是有效应用该方法的首要前提。     

A method for subsampling unsorted benthic macroinvertebrates by weight

A simple method for subsampling unsorted benthic macroinvertebrates by weight is described for different types of samples obtained from lentic and lotic environments. It is especially useful for samples containing large amounts of filamentous algae that preclude the use of conventional subsampling methods. The method provided random dispersions of individuals in the original samples. Overall variability of the subsamples was low for artificial substrate and catastrophic drift samples. Variability was higher for regular drift samples, which had the lowest numbers of individuals of the three sample types. The method produced considerable savings in time spent sorting. Subsampling approaches for community level studies are discussed.