An eco-morphological explanation of individual variability in the shape of the fish otolith: comparison of the otolith of Hoplostethus atlanticus with other species by depth

Variation in otolith shape (otolith polymorphism) in Hoplostethus atlanticus, Hoplostethus mediterraneus, Paratrichichthys trailli, Pagrus major and Trachurus murphyi , quantified using principal components analysis based on Fourier transform decompositions of outlines of otolith shape, was particularly high among the samples of H. atlanticus from the North Atlantic, New Zealand, Australia and Namibia. The scatter was uniform, however, and did not show any significant differences among regions. The implication drawn from the high variability in otolith shape of H. atlanticus was that otolith shape polymorphism was maintained by some form of balancing selection across many small local environments which may result in k-selection with consequent poor response by H. atlanticus to maximum sustainable yield harvesting strategies. The variation in otolith shape defined by the otolith morphospace of the five species that were measured, showed a decreasing trend in scatter (i.e. decreasing complexity of shape) proceeding from the species with the deepest habitat ( H. atlanticus ) to the most shallow ( T. murphyi ).     

Geometric morphometric study of the regional variation of modern human craniofacial form.

The regional variability of the modern human craniofacial form is of importance to debates about human origins. The study of craniofacial form has generally been carried out either by interlandmark distance measurement and analysis or by observation and character scoring. In this study of four modern human groups (Eskimo/Inuit, African, Australian, and Romano-British), nine craniofacial landmark coordinates were recorded by extraction from laser scans. The coordinates were studied by geometric morphometrics, and a regression analysis was used to investigate the dominant variability in shape within and between groups. Statistical tests of shape difference between groups were carried out. By these methods, the statistical patterns of shape variability and their geometric interpretations were studied on a common basis. The results were found to be in agreement with the classic studies of Howells ([1989:189] Pap Peabody Mus 79), and show the potential of this approach for future research.     

Intraspecific variation in Licuala glabra Griff. (Palmae) in Peninsular Malaysia– a morphometric analysis

We studied vegetative and reproductive characters of 74 herbarium specimens of Licuala glabra Griff. (Palmae) collected from 22 localities throughout Peninsular Malaysia. To test the null hypothesis that there are no distinct groups within the species, cluster analysis (nearest neighbour), principal coordinates and principal components analyses were performed on the set of 43 qualitative and quantitative characters. The results obtained suggested that: (1) there are three infraspeciflc groups within the species, viz., the two published varieties glabra and selangorensis as well as a possible third novel taxon; (2) there is clustering of individuals corresponding to their geographic localities; (3) clusters generated using only reproductive characters indicate a biogeographic distribution of populations correlated with the mountain ranges in the peninsula.     

Primate cranial diversity

Many studies in primate and human evolution focus on aspects of cranial morphology to address issues of systematics, phylogeny, and functional anatomy. However, broad analyses of cranial diversity within Primates as an Order are notably absent. In this study, we present a 3D geometric morphometric analysis of primate cranial morphology, providing a multivariate comparison of the major patterns of cranial shape change during primate evolution and quantitative assessments of cranial diversity among different clades. We digitized a set of 18 landmarks designed to capture overall cranial shape on male and female crania representing 66 genera of living primates. The landmark data were aligned using a Generalized Procrustes Analysis and then subjected to a principal components analysis to identify the major axes of cranial variation. Cranial diversity among clades was compared using multivariate measurements of variance. The first principal component axis reflects differences in cranial flexion, orbit size and orientation, and relative neurocranial volume. In general, it separates strepsirrhines from anthropoids. The second axis reflects differences in relative cranial height and snout length and primarily describes differences among anthropoids. Eulemur, Mandrillus, Pongo, and Homo are among the extremes in cranial shape. Anthropoids, catarrhines, and haplorhines show a higher variance than prosimians or strepsirrhines. Hominoids show the highest variance in cranial shape among extant primate clades, and much of this diversity is driven by the unique cranium of Homo sapiens. Am J Phys Anthropol 142:565–578, 2010. © 2010 Wiley‐Liss, Inc.     

Study of metabolite composition of eccrine sweat from healthy male and female human subjects by 1H NMR spectroscopy

The aim of the study was to evaluate metabolite variability in human eccrine sweat using a metabonomics based approach. Eccrine sweat is a dilute electrolyte solution whose primary function is to control body temperature via evaporative cooling. Although the composition of sweat is primarily water, previous studies have shown that a diverse array of organic and inorganic compounds are also present. Human eccrine sweat samples from 30 female and 30 male subjects were analysed using high-resolution ¹H nuclear magnetic resonance (NMR) spectroscopy in conjunction with statistical pattern recognition. High-resolution ¹H NMR spectroscopy produced spectra of the sweat samples that readily identified and quantified many different metabolites. The major metabolite classes found to be present were lactate, amino acids and lipids, with lactate being by far the most dominant metabolite found in all samples. Principal Components Analysis, Principal Components-Discriminant Analysis and Partial Least Squares-Discriminant Analysis of the eccrine sweat samples, revealed no significant differences in metabolite composition and concentration between female and male subjects. Also, the variation between subjects did not appear to be correlated with any other clinical information provided by the subjects. Overall, the spectra data set demonstrates the large physiological variability in terms of number of metabolites present and concentrations between subjects i.e. human eccrine sweat samples exhibit a high degree of inter-individual variability.     

The multivariate analysis of dermatoglyphics in population systematics

In this paper a multivariate analysis of dermatoglyphics was carried out. The following traits were used: pattern intensity on fingers, average of main line D terminations and frequencies of patterns in the five configurational areas of the palm. Firstly a cluster analysis is produced and completed with a principal components analysis. The results of both studies show clear agreement. The main conclusion is: the multivariate analysis of dermatoglyphics displays several groups of populations, which with the peculiarities pointed out in the paper, are in concordance with the classical racial stocks.     

Principal component analysis of gene frequencies of Chinese populations

Principal components (PCs) were calculated based on gene frequencies of 130 alleles at 38 loci in Chinese populations, and geographic PC maps were constructed. The first PC map of the Han shows the genetic difference between Southern and Northern Mongoloids, while the second PC indicates the gene flow between Caucasoid and Mongoloids. The first PC map of the Chinese ethnic minorities is similar to that of the second PC map of the Han, while their second PC map is similar to the first PC map of the Han. When calculating PC with the gene frequency data from both the Han and ethnic minorities, the first and second PC maps most resemble those of the ethnic minorities alone. The third and fourth PC maps of Chinese populations may reflect historical events that allowed the expansion of the populations in the highly civilized regions. A clear-cut boundary between Southern and Northern Mongoloids in the synthetic map of the Chinese populations was observed in the zone of the Yangtze River. We suggest that the ancestors of Southern and Northern Mongoloids had already separated before reaching Asia. The ancestors of the Southern Mongoloids may result from the initial expansion from Africa or the Middle East, via the south coast of Asia, toward Southeast Asia, and ultimately South China. Upon reaching the Yangtze River, they might even have crossed the river to occupy the nearby regions for a period of time. The ancestors of the Northern Mongoloids probably expanded from Africa via the Northern Pamirs, first went eastward, then towards the south to reach the Yangtze River. The expansion of the Northern Mongoloids toward the south of the Yangtze River happened only in the last 2 or 3 thousand years.     

Principal component analysis of gene frequencies of Chinese populations

Principal components (PCs) were calculated based on gene frequencies of 130 alleles at 38 loci in Chinese populations, and geographic PC maps were constructed. The first PC map of the Han shows the genetic difference between Southern and Northern Mongoloids, while the second PC indicates the gene flow between Caucasoid and Mongoloids. The first PC map of the Chinese ethnic minorities is similar to that of the second PC map of the Han, while their second PC map is similar to the first PC map of the Han. When calculating PC with the gene frequency data from both the Han and ethnic minorities, the first and second PC maps most resemble those of the ethnic minorities alone. The third and fourth PC maps of Chinese populations may reflect historical events that allowed the expansion of the populations in the highly civilized regions. A clear-cut boundary between Southern and Northern Mongoloids in the synthetic map of the Chinese populations was observed in the zone of the Yangtze River. We suggest that the a     

Root exudation and physiological status of a root-colonizing fluorescent pseudomonad in mycorrhizal and non-mycorrhizal pepper (Capsicum annuum L.)

Ultramafic (serpentine) soils from and adjacent to the Dun Mountain Ophiolitic Belt, South Island, New Zealand were analysed for 11 elements in order to establish to what degree edaphic factors influenced the character of the overlying vegetation. Using principal components analysis with a mutual plot of the first two principal components, involving the total elemental concentrations in the soils, it was possible to divide the soils into 6 virtually non-overlapping fields, each of which represented a specific vegetation community. Component 1 was essentially an ultramafic plot with heavy loadings from the elements chromium, cobalt, iron, magnesium, manganese, and nickel. Component 2 was a non ultramafic plot with heavy loadings from aluminium, copper and zinc. For elements extracted from the soils at pH 5.9, discrimination was somewhat poorer but confirmed the great importance of magnesium and nickel as controlling elements for the serpentine vegetation. It was concluded that the results indicated the overriding importance of edaphic factors in controlling the serpentine vegetation.     

Discrimination of normal, inflammatory, premalignant, and malignant oral tissue: a Raman spectroscopy study

Optical spectroscopy methods are fast emerging as potential alternatives for early diagnosis of cancer. A Raman spectroscopy method for discrimination of normal and malignant oral tissues has been developed by us earlier. It is necessary to evaluate and establish the validity of the approach before it can be routinely used. In the present study, our Raman spectroscopy investigations are extended further to evaluate the efficacy of the technique to discriminate between normal, inflammatory, premalignant, and malignant conditions in oral tissue. Spectral profiles of normal, malignant, premalignant, and inflammatory conditions show pronounced differences between one another. Spectra of normal tissues can be attributed mainly to lipids whereas pathological tissue spectra are dominated by proteins. Principal components analysis (PCA) of the spectral data sets belonging to the four different categories showed that scores of factors differentiated between normal and all pathological conditions but gave only poor discrimination among the three pathological states. PCA combined with multiparameter limit tests allow match/mismatch criteria to be applied to test samples when pathologically certified calibration sets are available in each class. It is shown that by this method all the four tissue types could be discriminated and diagnosed correctly. The biochemical differences between normal and pathological conditions of oral tissue are also discussed from spectral differences of the different classes of spectra.     

Morphological Drift Accompanying Nascent Population Differentiation in the Ciliate Euplotes vannus

A rare phenomenon can occur in ciliated protists of the genus Euplotes, which can undergo genetic recombination by the normal outbreeding process of conjugation following mild starvation. Occasionally, the dominant mutation for the autogamy trait arises. Individuals possessing the trait show obligate self-fertilization upon mild starvation. This yields, after normal asexual division, a population of individuals that are reproductively isolated from the parental outbreeding strain. A morphometric analysis of sympatric autogamous and non-autogamous populations of Euplotes vannus from Somalia demonstrates that there has been morphological drift in gross body proportions in the autogamous populations. However, the positional patterns of the locomotory organelles on the ventral surface remain unchanged. The changes in body proportions in the autogamous populations are relevant to the mechanics of the conjugation process, which involves fusion of the oral regions of paired cells belonging to complementary mating types.     

四川蜂桶寨自然保护区毛冠鹿(指名亚种)的春季生境选择

2006年3～4月对四川宝兴县蜂桶寨自然保护区毛冠鹿春季的栖息地进行调查.结果表明:毛冠鹿春季喜欢在离食物与水源地较近,隐蔽条件较好,远离干扰的中低山(海拔1600～2000 m)的向阳面、下位坡、坡度约20°～30°的阔叶林活动.     

Relationships between soil bulk electrical conductivity and the principal component analysis of topography and soil fertility values

Measures of soil electrical conductivity (EC) and elevation are relatively inexpensive to collect and result in dense data sets which allow for mapping with limited interpolation. Conversely, soil fertility information is expensive to collect so that relatively few samples are taken and mapping requires extensive interpolation with large estimation errors, resulting in limited usefulness for site-specific applications in precision agriculture. Principal component (PC) analysis and cokriging can be applied to create meaningful field scale summaries of groups of attributes and to decrease the estimation error of maps of the summarized attributes. Deep (0–90 cm) and shallow (0–30 cm) EC, elevation, and soil fertility attributes were measured in fields under corn (Zea mays L.) and soybean (Glycine max L.) rotations, at two sites in Illinois (IL) and two sites in Missouri (MO). Soil fertility and topography attributes were summarized by PC analysis. The first topography PC (TopoPC1) contrasted flow accumulation against elevation and curvature, to describe the main topographic pattern of the fields. The first soil fertility PC (SoilPC1) consistently grouped together cation exchange capacity (CEC), Ca, Mg, and organic matter (OM). SoilPC1 was well correlated to soil EC for all sites and cokriging with EC had higher r ² in the crossvariogram models compared to ordinary kriging. The second and third soil fertility PCs (SoilPC2 and SoilPC3) were concerned with soil pH and P, and reflected historic land use patterns. Maps of SoilPC2 and SoilPC3 had little relationship to soil EC or topography and so could not be improved by cokriging.     

Be careful with your principal components

Principal components analysis (PCA) is a common method to summarize a larger set of correlated variables into a smaller and more easily interpretable axes of variation. However, the different components need to be distinct from each other to be interpretable otherwise they only represent random directions. This is a fundamental assumption of PCA and, thus, needs to be tested every time. Sample correlation matrices will always result in a pattern of decreasing eigenvalues even if there is no structure. Tests are, therefore, needed to discern real patterns from illusionary ones. Furthermore, the loadings of the vectors need to be larger than expected by random data to be useful in the calculation of PC‐scores. PC‐scores calculated from nondistinct PC's have very large standard errors and cannot be used for biological interpretations. I give a number of examples to illustrate the potential problems with PCA. Robustness of the PC's increases with increasing sample size but not with the number of traits. I review a few simple test statistics appropriate for testing PC's and use a real‐world example to illustrate how this can be done using randomization tests. PCA can be very useful but great care is needed to avoid spurious results.     

子午岭马栏林区主要森林群落的稳定性分析

选用构成群落稳定性指标体系的10项相关指标,采用Godron稳定性测定方法、主成分分析法以及Shan-non-Weiner物种多样性指数研究了子午岭马栏林区主要森林群落的稳定性状况及其与环境和群落生态特征间的关系。结果显示:(1)群落物种的总体多样性是白桦林>天然油松林>辽东栎林;而群落稳定性则表现为辽东栎林>天然油松林>白桦林;(2)各群落中影响主成分的主要因素均包含物种多样性因子和生活史阶段因子。表明物种多样性指数虽然是群落稳定性的重要影响因子,但由于存在其它因子的相互作用,不能单纯以群落物种多样性指数判断某具体群落的稳定性,必须在此基础上结合群落优势种群的年龄结构才能比较真实地评价群落的稳定性状态。     

Ecological morphospace of New World ants

Abstract.  1. Here the quantitative relationships between ecology, taxonomy, and morphology of ant workers are explored. The morphospace for worker ants taken from 112 genera and 12 subfamilies of New World ants is described.
2. Principal components analysis was used to characterise a morphospace based on 10 linear measurements of ant workers. Additionally, strongly covarying measures were removed to generate a simplified morphological space that uses three common and ecologically relevant traits: head size, eye size, and appendage length.
3. These morphological traits are then associated with diet and foraging substrate. For example, workers in predaceous genera tend to be small, with relatively small eyes and limbs; omnivores, while small, have proportionately large eyes and limbs. Ants that forage on surface substrates are larger and have proportionately larger eyes than subterranean foragers.