Maximum likelihood estimation of human craniometric heritabilities

This study presents univariate narrow-sense heritability estimates for 33 common craniometric dimensions, calculated using the maximum likelihood variance components method on a skeletal sample of 298 pedigreed individuals from Hallstatt, Austria. Quantitative genetic studies that use skeletal cranial measurements as a basis for inferring microevolutionary processes in human populations usually employ heritability estimates to represent the genetic variance of the population. The heritabilities used are often problematic: most come from studies of living humans, and/or they were calculated using statistical techniques or assumptions violated by human groups. Most bilateral breadth measures in the current study show low heritability estimates, while cranial length and height measures have heritability values ranging between 0.102-0.729. There appear to be differences between the heritabilities calculated from crania and those from anthropometric studies of living humans, suggesting that the use of the latter in quantitative genetic models of skeletal data may be inappropriate. The univariate skeletal heritability estimates seem to group into distinct regions of the cranium, based on their relative values. The most salient group of measurements is for the midfacial/orbital region, with a number of measures showing heritabilities less than 0.30. Several possible reasons behind this pattern are examined. Given the fact that heritabilities calculated on one population should not be applied to others, suggestions are made for the use of the data presented.     

Apportionment of global human genetic diversity based on craniometrics and skin color

A number of analyses of classical genetic markers and DNA polymorphisms have shown that the majority of human genetic diversity exists within local populations (approximately 85%), with much less among local populations (approximately 5%) or between major geographic regions or "races" (approximately 10%). Previous analysis of craniometric variation (Relethford [1994] Am J Phys Anthropol 95:53-62) found that between 11-14% of global diversity exists among geographic regions, with the remaining diversity existing within regions. The methods used in this earlier paper are extended to a hierarchical partitioning of genetic diversity in quantitative traits, allowing for assessment of diversity among regions, among local populations within regions, and within local populations. These methods are applied to global data on craniometric variation (57 traits) and skin color. Multivariate analysis of craniometric variation shows results similar to those obtained from genetic markers and DNA polymorphisms: roughly 13% of the total diversity is among regions, 6% among local populations within regions, and 81% within local populations. This distribution is concordant with neutral genetic markers. Skin color shows the opposite pattern, with 88% of total variation among regions, 3% among local populations within regions, and 9% within local populations, a pattern shaped by natural selection. The apportionment of genetic diversity in skin color is atypical, and cannot be used for purposes of classification. If racial groups are based on skin color, it appears unlikely that other genetic and quantitative traits will show the same patterns of variation.     

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 ).     

Reconstruction of human evolutionary tree using polymorphic autosomal microsatellites

Allelic frequencies of 182 tri- and tetra-autosomal microsatellites were used to examine phylogenetic relationships among 19 extant human populations. In particular, because the languages of the Basques and Hunza Burusho have been suggested to have an ancient relationship, this study sought to explore the genetic relationship between these two major language isolate populations and to compare them with other human populations. The work presented here shows that the microsatellite allelic diversity and the number of unique alleles were highest in sub-Saharan Africans. Neighbor-joining trees based on genetic distances and principal component analyses separated populations from different continents, and are consistent with an African origin for modern humans. For the first time, with biparentally transmitted markers, the microsatellite tree also shows that the San are the first branch of the human tree before the branch leading to all other Africans. In contrast to an earlier study, these results provided no evidence of a genetic relationship among the two language isolate groups. Genetic relationships, as ascertained by these microsatellites, are dictated primarily by geographic proximity rather than by remote linguistic origin, Mantel test, R(0) = 0.484, g = 3.802 (critical g value = 1.645; P = 0.05).     

Population‐specific deviations of global human craniometric variation from a neutral model

Past studies have revealed that much of human craniometric variation follows a neutral model of population relationships. At the same time, there is evidence for the influence of natural selection in having shaped some global diversity in craniometrics. In order to partition these effects, and to explore other potential population‐specific influences, this article analyzes residuals of craniometric distances from a geographically based neutral model of population structure. W.W. Howells' global craniometric data set was used for these analyses, consisting of 57 measurements for 22 populations around the world, excluding Polynesia and Micronesia because of the relatively recent settlement of these regions. Phenotypic and geographic distances were derived between all pairs of populations. Three‐dimensional multidimensional scaling configurations were obtained for both distance matrices, and compared using a Procrustes rotation method to show which populations do not fit the geographic model. This analysis revealed three major deviations: the Buriat, Greenland Inuit, and Peru. The deviations of the Buriat and Greenland Inuit appear to be related to long‐term adaptation to cold environments. The Peruvian sample is more similar to other New World populations than expected based on geographic distance alone. This deviation likely reflects the evolutionarily recent movement of human populations into South America, such that these populations are further from genetic equilibrium. This same pattern is seen in South American populations in a comparative analysis of classical genetic markers, but not in a comparative analysis of STR loci, perhaps reflecting the higher mutation rate for the latter. Am J Phys Anthropol, 2010. © 2009 Wiley‐Liss, Inc.     

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.     

Multivariate analysis of intraspecific responses to UV-B radiation in white clover (Trifolium repens L.)

White clover (Trifolium repens L.) is experiencing increased levels of ultraviolet‐B (UV‐B) radiation in temperate pastures due to the depletion of the stratospheric ozone layer. Based on 17 morphological, morphogenetic and physiological attributes, this study analysed the consequences of enhanced UV‐B on 26 white clover populations using principal components analysis (PCA). After 18 d of exposure to 13·3 kJ m ^{? 2} d ^{? 1} UV‐B in controlled environments, UV‐B significantly decreased above‐ground and below‐ground plant growth attributes, epidermal cell surface area and maximum quantum efficiency of photosystem II photochemistry (F_v/F_m). Aspects of cell division and cell expansion both were negatively affected by UV‐B. Stomatal density, specific leaf mass, root‐to‐shoot ratio and levels of UV‐B‐absorbing compounds increased in response to UV‐B. In the multivariate analysis, the main dimension of UV‐B sensitivity was characterized by changes in plant growth attributes. Alterations in partitioning within and between plant organs constituted a secondary tier of UV‐B responsiveness. Plant characteristics related to UV‐B tolerance included lower growth rate, smaller epidermal cell surface area and higher UV‐B‐induced levels of UV‐B‐absorbing compounds. The results suggest overall UV‐B tolerance for slower‐growing populations from less productive habitats with higher natural UV‐B irradiance.     

甘肃麦积山风景区熊蜂物种多样性调查

熊蜂属昆虫是山区植物的重要传粉者,在保持生物多样性和维护生态系统平衡方面发挥着十分重要的作用。麦积山风景区位于甘肃东南部的西秦岭山区,地处北部温带黄土高原向南部亚热带河谷山地和西部高寒青藏高原过渡的地带,地理位置独特,生物资源丰富。为了探明该景区内熊蜂物种多样性现状,笔者于2007—2010连续4年对该景区的熊蜂属昆虫进行了系统调查。结果表明:2007—2010年,在该景区12个采样点共采集熊蜂属昆虫1 765头,隶属于7亚属20种;在12个采样点中,石门和净土寺的熊蜂种类丰富度最高;在20种熊蜂中,火红熊蜂Bombus pyrosoma、红光熊蜂B.ignitus、疏熊蜂B.remotus、小峰熊蜂B.hypocrita s.l.和重黄熊蜂B.picipes的物种多度较高,依次位居前5位;麦积山风景区熊蜂区系成分以东洋区+古北区共有种为主(55%),其中东洋区成分高于古北区成分;麦积山熊蜂区系成分和南部亚热带湿润气候区的白水江自然保护区以及西部高寒气候区的扎尕那自然保护区比较接近,和北部温带半干旱气候区的崆峒山风景区相距较远。     

Parasite diversity declines with host evolutionary distinctiveness: A global analysis of carnivores

Evolutionarily distinctive host lineages might harbor fewer parasite species because they have fewer opportunities for parasite sharing than hosts having extant close relatives, or because diverse parasite assemblages promote host diversification. We evaluate these hypotheses using data from 930 species of parasites reported to infect free‐living carnivores. We applied nonparametric richness estimators to estimate parasite diversity among well‐sampled carnivore species and assessed how well host evolutionary distinctiveness, relative to other biological and environmental factors, explained variation in estimated parasite diversity. Species richness estimates indicate that the current published literature captures less than 50% of the true parasite diversity for most carnivores. Parasite species richness declined with evolutionary distinctiveness of carnivore hosts (i.e., length of terminal ranches of the phylogeny) and increased with host species body mass and geographic range area. We found no support for the hypothesis that hosts from more diverse lineages support a higher number of generalist parasites, but we did find evidence that parasite assemblages might have driven host lineage diversification through mechanisms linked to sexual selection. Collectively, this work provides strong support for host evolutionary history being an essential predictor of parasite diversity, and offers a simple model for predicting parasite diversity in understudied carnivore species.     

Extinction, ecological opportunity, and the origins of global snake diversity

Snake diversity varies by at least two orders of magnitude among extant lineages, with numerous groups containing only one or two species, and several young clades exhibiting exceptional richness (>700 taxa). With a phylogeny containing all known families and subfamilies, we find that these patterns cannot be explained by background rates of speciation and extinction. The majority of diversity appears to derive from a radiation within the superfamily Colubroidea, potentially stemming from the colonization of new areas and the evolution of advanced venom-delivery systems. In contrast, negative relationships between clade age, clade size, and diversification rate suggest the potential for possible bias in estimated diversification rates, interpreted by some recent authors as support for ecologically mediated limits on diversity. However, evidence from the fossil record indicates that numerous lineages were far more diverse in the past, and that extinction has had an important impact on extant diversity patterns. Thus, failure to adequately account for extinction appears to prevent both rate- and diversity-limited models from fully characterizing richness dynamics in snakes. We suggest that clade-level extinction may provide a key mechanism for explaining negative or hump-shaped relationships between clade age and diversity, and the prevalence of ancient, species-poor lineages in numerous groups.     

Rotifer assemblages: a contribution to the typology of Spanish reservoirs

An extensive survey of 100 reservoirs on the Iberian peninsula was carried out in 1987/88. Based on physical, chemical and biological data, several groups of reservoirs were differentiated. To contribute to the zooplankton component of this typology, we studied the species composition of rotifer communities from each reservoir. Data from all reservoirs were integrated separately (stratification and mixing periods) in a principal components analysis. No distinct communities were evident for the different reservoir types, suggesting that each type contains a series of rotifer assemblages, with gradual changes in species composition occurring in response to changes in environmental conditions.     

全球人类福祉提升的碳强度差异测度：影响因素及空间溢出效应

实现低碳化的人类福祉提升是可持续发展的根本要求，人类福祉提升的碳强度指标是衡量可持续发展程度的新指标。论文使用了人类福祉碳强度指标，应用探索性空间数据分析法分析了全球人类福祉碳强度的时空演进格局，运用空间杜宾模型揭示了全球人类福祉碳强度的影响因素及其空间溢出效应。研究发现：(1)1980—2016年全球人类福祉碳强度明显降低，但在北美洲、欧洲和大洋洲国家与其他区域国家(地区)之间存在显著差距。(2)经济增长、能源消费结构、工业化、资本积累、死亡率等因素提高了全球人类福祉碳强度，贸易依存度则是不断降低全球人类福祉碳强度的主要驱动力。(3)影响全球人类福祉碳强度差异的因素呈现区域异质性，能源消费结构、贸易依存度、工业化、资本积累、死亡率等因素对全球人类福祉碳强度的影响，因其经济发展水平和阶段不同而体现出明显的“南北差异”和不同的空间溢出效应。(4)周边国家的能源消费结构、工业化、资本积累和死亡率等因素会增加本国人类福祉碳强度，但本国人类福祉碳强度也会随着周边国家的经济增长和贸易依存度而降低。     

Evolutionary accounts of human behavioural diversity

Human beings persist in an extraordinary range of ecological settings, in the process exhibiting enormous behavioural diversity, both within and between populations. People vary in their social, mating and parental behaviour and have diverse and elaborate beliefs, traditions, norms and institutions. The aim of this theme issue is to ask whether, and how, evolutionary theory can help us to understand this diversity. In this introductory article, we provide a background to the debate surrounding how best to understand behavioural diversity using evolutionary models of human behaviour. In particular, we examine how diversity has been viewed by the main subdisciplines within the human evolutionary behavioural sciences, focusing in particular on the human behavioural ecology, evolutionary psychology and cultural evolution approaches. In addition to differences in focus and methodology, these subdisciplines have traditionally varied in the emphasis placed on human universals, ecological factors and socially learned behaviour, and on how they have addressed the issue of genetic variation. We reaffirm that evolutionary theory provides an essential framework for understanding behavioural diversity within and between human populations, but argue that greater integration between the subfields is critical to developing a satisfactory understanding of diversity.     

Multivariate analysis of organismal and habitat parameters in two neotropical primate communities

This paper investigates the interrelations of some organismal and habitat parameters in two platyrrhine primate communities in French Guiana and Ecuadorian Amazonia. Fifteen habitat and organismal parameters and body weight were retained after a preliminary analysis, on the basis of frequent use and constraints reflected in anatomical specializations. The 16 parameters for 13 platyrrhine species were used for a series of principal components analyses (PCAs). All PCAs on separate or combined communities provided comparable results. The Atelinae, Ateles, Alouatta, and Lagothrix, were clustered together with Pithecia, associated with canopy, mature forest, frugivory, and (to a lesser degree) climb/suspensory locomotion. On the other hand, the three species of Cebus usually formed a loose cluster, located in the center of the cloud of species. Lastly, the Callitrichinae, involving two species of Saguinus and Cebuella, were relatively dispersed and frequently associated with liana forest, lianas, understory, and faunivory. However, Cebuella was consistently isolated and associated with liana forest, lianas, body weight, understory, and vertical supports. In this way, clusters appeared to conform to the major platyrrhine taxonomic groups, supporting the fact that basic ecological and behavioral adaptations have evolved in a phylogenetic context. In addition, the analyses revealed that body weight, forest type and layer, feeding behavior, and locomotion are the most important variables that have apparently shaped or driven the adaptive zones of extant platyrrhines.     

Massive expansion of human gut bacteriophage diversity

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Molecular diversity of porcine and human isolates of Pasteurella multocida

Aims: To examine the variability among Pasteurella multocida strains isolated from pigs (nasal, tonsil and lung specimens) and humans in France. Methods and Results: The genetic diversity of 117 French isolates of P. multocida, obtained from pigs (n = 101) and humans (n = 16) and three reference strains, was evaluated by pulsed‐field gel electrophoresis (PFGE) after macrorestriction with ApaI. Sixty‐four patterns were detected. The genetic relationships revealed five clusters (Aa1, Aa2, Aa3, Ab and B). The pig isolates obtained from pneumonic lungs and nasal cavities were clustered in groups Ab and Aa1, respectively (P < 0·05). Up to four different PFGE patterns were detected in the same farm. Isolates producing dermonecrotic toxins were clustered only in group Aa1, suggesting that the toxigenic isolates were more genetically homogenous than the others. Conversely, cluster Aa3 was significantly associated with human isolates even if the human isolates are spread over most of the clusters. Conclusions: Pasteurella multocida strains were genetically diverse, but pig and human isolates were significantly clustered in distinct phylogenetic groups. Significance and Impact of the Study: The discrimination index was >0·95 in both populations of human and pig isolates. Therefore, ApaI‐PFGE seems to be a useful tool for epidemiological tracing of P. multocida infections.     

LeafAnalyser: a computational method for rapid and large-scale analyses of leaf shape variation

A comprehensive understanding of leaf shape is important in many investigations in plant biology. Techniques to assess variation in leaf shape are often time-consuming, labour-intensive and prohibited by complex calculation of large data sets. We have developed LeafAnalyser, software that uses image-processing techniques to greatly simplify the measurement of leaf shape variation. LeafAnalyser places a large number of evenly distributed landmarks along leaf margins and records the position of each automatically. We used LeafAnalyser to analyse the variation in 3000 leaves from 400 plants of Antirrhinum majus . We were able to summarise the major trends in leaf shape variation using a principal components (PC) analysis and assess the changes in size, width and tip-to-base asymmetry within our leaf library. We demonstrate how this information can be used to develop a model that describes the range and variation of leaf shape within standard wild-type lines, and illustrate the shape transformations that occur between leaf nodes. We also show that information from LeafAnalyser can be used to identify novel trends in shape variation, as low-variance PCs that only affect a subset of position landmarks. These results provide a high-throughput method to calculate leaf shape variation that allows a large number of leaves to be visualised in higher-dimensional phenotypic space. To illustrate the applicability of LeafAnalyser we also calculated the leaf shape variation in 300 leaves from Arabidopsis thaliana .