Physiology based simulation model of triangle shape recognition

The present paper considers the relation between the shape of a triangle and probability of its recognition. An effect of triangle size on perception of its shape is examined in the first experiment. In the second the loci of eye fixations during triangle recognition task are recorded and analysed. A simulation model of the recognition process is proposed. The model is based on two main assumptions: 1. an accuracy of shape processing is related to the cortical magnification factor, 2. a subject's response depends on actual position of eye fixation. The validity of the model is verified by comparing the theoretical and experimental response distributions. Some psychophysiological implications are then discussed.A partial report of this research was given at the Annual Meeting of the Association for Research in Vision and Ophthalmology (Pizlo and Gradus-Pizlo 1986)     

Rapid morpho‐functional changes among insular populations of the greater white‐toothed shrew

Islands are often considered to be natural laboratories where repeated ‘evolutionary experiments’ have taken place. Consequently, islands have been key model systems in our understanding of evolutionary theory. The greater white‐toothed shrew (Crocidura russula) is of interest as it has invaded French Atlantic islands within the last few thousand years and is considered to be morphologically and genetically stable in this area. In this article, we study the shape of the mandible of the greater white‐toothed shrew on four islands and compare it with that of individuals from populations on the mainland to quantify the effects of insularity. The degree of insularity (i.e. island size and distance to the continent) is thought to be linked to differences in ecological characteristics of islands compared with the mainland. We used geometric morphometric analyses to quantify differences in size and shape between populations and employed a simple biomechanical model to evaluate the potential effects of shape differences on bite force. Specimens from island populations are different from continental populations in shape and mechanical potential of the mandible. Among islands, the mandible shows various shapes that are correlated with both the distance from the coast and island area. The shape differences are located on different parts of the mandible, suggesting different ecological constraints on each island. Moreover, these shapes are linked to the ‘mechanical potential’, which is markedly different between islands. Mechanical potential has been suggested to evolve in response to prey size and or mechanical properties. In conclusion, our results show that, in spite of the relatively recent colonization of the Atlantic Islands, the mandible of C. russula possesses a distinct shape. Moreover, the shape differs among islands and is probably linked to the consumption of different prey. © 2012 The Linnean Society of London, Biological Journal of the Linnean Society, 2012, ?? , ??–??.     

Male mate preference for large size overrides species recognition in allopatric flat lizards (<Emphasis Type="Italic"> Platysaurus broadleyi</Emphasis>)

Species recognition and mate preference both influence mate choice but can be in conflict with each other. In such cases the relative importance of the two functions depends on the costs of mating with heterospecifics and the frequency of such interactions. We tested whether male flat lizards (Platysaurus broadleyi) are able to discriminate between conspecific females and females of its allopatric sister species P. capensis. Given a simultaneous choice between equally sized females of both species, males courted conspecific females in 85% of trials. We then tested whether mate preference for large female body size can override species recognition. When offered a choice between a larger heterospecific female and a smaller conspecific, males showed no preference for conspecifics and courted larger heterospecific females in 58% of trials. Comparison of the two sets of trials showed a significant effect of female body size on male mate preference, supporting the hypothesis that mate quality can override species recognition.Communicated by K. Kotrschal     

Sexual dimorphism in the otolith shape of shi drum,Umbrina cirrosa (L.), in the eastern Mediterranean Sea: Fish size–otolith size relationships

Little is known about possible differences in sagitta otolith size and shape between sexes of the shi drum, Umbrina cirrosa, and relationships between their body and otolith size. Thus, this study aimed to fill this knowledge gap via examination of 414 sagittal otoliths from 108 male (total length 13.8–26.8 cm) and 99 female (13.5–26.7 cm) U. cirrosa caught between May 2017 and April 2018 in gillnets set at a depth of ~15 m in Mersin Bay, Eastern Mediterranean Sea. No statistical differences were observed between the shape indices of the left-sided and right-sided sagitta. However, there were significant differences in the size and shape of otoliths between males and females. The slopes of allometric power functions from otolith width × fish sizes gave significant differences between males and females (ANCOVA, P < 0.05). The relationship for length × weight of otoliths from both males and females showed isometric growth, whereas the relationship of otolith width × otolith weight showed positive allometry. Negative allometric growth was observed for the relationship otolith length × otolith width. In summary, this study revealed the presence of sexual dimorphism in the otolith shape of U. cirrosa, and the data on regression relationships of fish-otolith sizes can be used to estimate fish size from U. cirrosa otolith sizes.     

Analytical shape computation of macromolecules: I. molecular area and volume through alpha shape

The size and shape of macromolecules such as proteins and nucleic acids play an important role in their functions. Prior efforts to quantify these properties have been based on various discretization or tessellation procedures involving analytical or numerical computations. In this article, we present an analytically exact method for computing the metric properties of macromolecules based on the alpha shape theory. This method uses the duality between alpha complex and the weighted Voronoi decomposition of a molecule. We describe the intuitive ideas and concepts behind the alpha shape theory and the algorithm for computing areas and volumes of macromolecules. We apply our method to compute areas and volumes of a number of protein systems. We also discuss several difficulties commonly encountered in molecular shape computations and outline methods to overcome these problems. Proteins 33:1–17, 1998. © 1998 Wiley-Liss, Inc.     

A Mechanistic Collective Cell Model for Epithelial Colony Growth and Contact Inhibition

We present a mechanistic hybrid continuum-discrete model to simulate the dynamics of epithelial cell colonies. Collective cell dynamics are modeled using continuum equations that capture plastic, viscoelastic, and elastic deformations in the clusters while providing single-cell resolution. The continuum equations can be viewed as a coarse-grained version of previously developed discrete models that treat epithelial clusters as a two-dimensional network of vertices or stochastic interacting particles and follow the framework of dynamic density functional theory appropriately modified to account for cell size and shape variability. The discrete component of the model implements cell division and thus influences cell size and shape that couple to the continuum component. The model is validated against recent in vitro studies of epithelial cell colonies using Madin-Darby canine kidney cells. In good agreement with experiments, we find that mechanical interactions and constraints on the local expansion of cell size cause inhibition of cell motion and reductive cell division. This leads to successively smaller cells and a transition from exponential to quadratic growth of the colony that is associated with a constant-thickness rim of growing cells at the cluster edge, as well as the emergence of short-range ordering and solid-like behavior. A detailed analysis of the model reveals a scale invariance of the growth and provides insight into the generation of stresses and their influence on the dynamics of the colonies. Compared to previous models, our approach has several advantages: it is independent of dimension, it can be parameterized using classical elastic properties (Poisson’s ratio and Young’s modulus), and it can easily be extended to incorporate multiple cell types and general substrate geometries.     

Egg shape mimicry in parasitic cuckoos

Parasitic cuckoos lay their eggs in nests of host species. Rejection of cuckoo eggs by hosts has led to the evolution of egg mimicry by cuckoos, whereby their eggs mimic the colour and pattern of their host eggs to avoid egg recognition and rejection. There is also evidence of mimicry in egg size in some cuckoo–host systems, but currently it is unknown whether cuckoos can also mimic the egg shape of their hosts. In this study, we test whether there is evidence of mimicry in egg form (shape and size) in three species of Australian cuckoos: the fan‐tailed cuckoo Cacomantis flabelliformis, which exploits dome nesting hosts, the brush cuckoo Cacomantis variolosus, which exploits both dome and cup nesting hosts, and the pallid cuckoo Cuculus pallidus, which exploits cup nesting hosts. We found evidence of size mimicry and, for the first time, evidence of egg shape mimicry in two Australian cuckoo species (pallid cuckoo and brush cuckoo). Moreover, cuckoo–host egg similarity was higher for hosts with open nests than for hosts with closed nests. This finding fits well with theory, as it has been suggested that hosts with closed nests have more difficulty recognizing parasitic eggs than open nests, have lower rejection rates and thus exert lower selection for mimicry in cuckoos. This is the first evidence of mimicry in egg shape in a cuckoo–host system, suggesting that mimicry at different levels (size, shape, colour pattern) is evolving in concert. We also confirm the existence of egg size mimicry in cuckoo–host systems.     

Analysis of coupled bimolecular reaction kinetics and diffusion by two-color fluorescence correlation spectroscopy: enhanced resolution of kinetics by resonance energy transfer

In two-color fluorescence correlation spectroscopy (TCFCS), the fluorescence intensities of two fluorescently-labeled species are cross-correlated over time and can be used to identify static and dynamic interactions. Generally, fluorophore labels are chosen that do not undergo F?rster resonance energy transfer (FRET). Here, a general TCFCS theory is presented that accounts for the possibility of FRET between reactants in the reversible bimolecular reaction, [reaction: see text] where k(f) and k(b) are forward and reverse rate constants, respectively (dissociation constant K(d) = k(b)/k(f)). Using this theory, we systematically investigated the influence on the correlation function of FRET, reaction rates, reactant concentrations, diffusion, and component visibility. For reactants of comparable size and an energy-transfer efficiency of approximately 90%, experimentally measurable cross-correlation functions should be sensitive to reaction kinetics for K(d) > 10(-8) M and k(f) >or= approximately 10(7) M(-1)s(-1). Measured auto-correlation functions corresponding to donor and acceptor labels are generally less sensitive to reaction kinetics, although for the acceptor, this sensitivity increases as the visibility of the donor increases relative to the acceptor. In the absence of FRET or a significant hydrodynamic difference between reactant species, there is little effect of reaction kinetics on the shape of auto- and cross-correlation functions. Our results suggest that a subset of biologically relevant association-dissociation kinetics can be measured by TCFCS and that FRET can be advantageous in enhancing these effects.     

Ontogenetic approaches to sexual dimorphism in anthropoids

Studies of sexual dimorphism have traditionally focused on the static differences in size and shape between adult males and females. In this paper, I suggest that an investigation of the ontogenetic bases of sexual dimorphism can provide new insights and information unobtainable from studies concerned only with adult endpoints. While growth is often viewed as simply the developmental pathway utilized to attain final adult size and shape, we must recognize that it is the entire pattern of sex-differentiated growth, and not merely the adult endpoints, which is adaptive and the target of natural selection. The importance of an ontogenetic approach to the analysis of sexual dimorphism is also demonstrated by the fact that a given morphologicalresult (e.g., a certain degree of adult weight dimorphism) may be attained by very different developmentalprocesses, signalling selection for quite different factors. The need to analyze the ontogenetic bases of sexual dimorphism in size and shape has recently been recognized by Jarman, in his study of dimorphism in large terrestrial herbivores. Here I combine aspects of Jarman’s approach with those of allometry and heterochrony in an analysis of sexual dimorphism in selected anthropoid primates. It is demonstrated that although all dimorphic anthropoids appear to be characterized by somebimaturism, the degree varies significantly. Marked weight dimorphism in certain species is primarily produced by an increased differentiation of female and male growthrates, while in other species the primary change involves differences in thetime or duration of growth between the sexes. These variations are illustrated with anthropoid genera such asMiopithecus, Cercopithecus, Erythrocebus, Macaca, Papio, Pan, andGorilla. It is suggested that additional ontogenetic investigations of other anthropoids will help clarify some of the socioecological bases of this variation in the ways of attaining an adult dimorphic state. This will contribute to our understanding of the complex factors underlying and producing sexual dimorphism in primates and other mammals.     

Species Recognition, Dewlap Function and Faunal Size

Although having a number of functions in reproductive, territorialand aggressive behavior, Anolis dewlaps are only one means ofintraspecific signaling and they are always present in smallanole faunas (e.g., those of one or two species islands) buthere, in contrast to the situation in large faunas, their colorand pattern appear usually very similar and appear to be unimportantfor species (or population) recognition. The latter functionis then performed by such characteristics as adult size andbody color and pattern. Where, however, numerous species abutor overlap, dewlap color and pattern tend to be diverse anddiagnostic (particularly between overlapping forms). Even here,however, adult size, body shape and body color often redundantlyreinforce the species and population recognition function ofeven marked dewlap difference. In certain cases in complex faunas,size and/or body pattern substitute for the species recognitionfunction of reduced or absent dewlaps.     

Pigeons and humans are more sensitive to nonaccidental than to metric changes in visual objects

Humans and macaques are more sensitive to differences in nonaccidental image properties, such as straight vs. curved contours, than to differences in metric properties, such as degree of curvature [Biederman, I., Bar, M., 1999. One-shot viewpoint invariance in matching novel objects. Vis. Res. 39, 2885-2899; Kayaert, G., Biederman, I., Vogels, R., 2003. Shape tuning in macaque inferior temporal cortex. J. Neurosci. 23, 3016-3027; Kayaert, G., Biederman, I., Vogels, R., 2005. Representation of regular and irregular shapes in macaque inferotemporal cortex. Cereb. Cortex 15, 1308-1321]. This differential sensitivity allows facile recognition when the object is viewed at an orientation in depth not previously experienced. In Experiment 1, we trained pigeons to discriminate grayscale, shaded images of four shapes. Pigeons made more confusion errors to shapes that shared more nonaccidental properties. Although the images in that experiment were not well controlled for incidental changes in metric properties, the same results were apparent with better controlled stimuli in Experiment 2: pigeons trained to discriminate a target shape from a metrically changed shape and a nonaccidentally changed shape committed more confusion errors to the metrically changed shape, suggesting that they perceived it to be more similar to the target shape. Humans trained with similar stimuli and procedure exhibited the same tendency to make more errors to the metrically changed shape. These results document the greater saliency of nonaccidental differences for shape recognition and discrimination in a non-primate species and suggest that nonaccidental sensitivity may be characteristic of all shape-discriminating species.     

Digital imaging analysis of size and shape of wheat and pea upon heating under anoxic conditions as a function of the temperature

Three types of experiments were carried out. In the first series of experiments emmer wheat grains (Triticum dicoccum Schübl), var. AR, and peas (Pisum sativum L.), var. RE, were heated at temperatures ranging from 130–700 °C under controlled anoxic conditions for a maximum of 120 min. For each temperature a separate experiment was carried out in a pre-heated tube oven. Image acquisition was carried out on a flat bed scanner with a transparency adapter; for the analysis the image program IMAGE J 1.27 was used. Various size and shape factors are discussed and the definitions of the selected size and shape factors are given. The size and shape were measured and the mean calculated from thirty of the untreated specimens and the charred residues heated at each temperature. The results show a change of size and shape as a function of the temperature. The changes for wheat grains and peas are not identical. It is suggested that the presence of the pericarp enclosing the wheat grains causes this difference. In a second series of experiments it was shown that untreated grains of emmer wheat, bread wheat and macaroni wheat can be separated by measuring the shape, but size varies too much within each species, probably the result of different growing conditions, to be useful for separation purposes. As a result of heating at temperatures higher than 290 °C the shape of the three species becomes identical. This implies that the three species can no longer be separated after being heated, solely on the basis of size and shape. Finally, both emmer wheat grains enclosed by chaff and without chaff were heated under similar conditions. After removal of the chaff from the former, the size and shape of the grains were measured. The results show no significant difference in size and shape between both types.     

Normal and neoplastic lymphocyte maturation

Lymphocytes arc cells that are responsible for processes of specific antigen recognition and for those aspects of the immune response that characterize adaptive immunity. In this respect adaptive immunity can be characterized as antigen-induced immune memory and effector functions as compared to native immunity – the nonspecific phagocytic and humoral protective elements in lower vertebrates. In vertebrates both B and T lymphocytes apparently express self-synthesized receptors that (1) are involved in the recognition of antigens, and (2) mediate the interactions between various important cells in the hematolymphoid system. There are three major subclasses of T lymphocytes – those involved with helper/inducer functions, those involved with suppressor functions, and those involved in direct cytotoxicity of antigenic target cells [1,2].     

Bird predation selects for wing shape and coloration in a damselfly

Wing shape is related to flight performance, which is expected to be under selection for improving flight behaviours such as predator avoidance. Moreover, wing conspicuousness, usually involved in sexual selection processes, is also relevant in terms of predation risk. In this study, we examined how predation by a passerine bird, the white wagtail Motacilla alba, selects wing shape and wing colour patch size in males of the banded demoiselle Calopteryx splendens. The wing colour patch is intra‐ and intersexually selected in the study species. In a field study, we compared wings of live damselflies to wings of predated damselflies which are always discarded after predation. Based on aerodynamic theory and a previous study on wing shape of territorial tactics in damselflies, we predicted an overall short and broad wing, with a concave front margin shape to be selected by predation. This shape would be expected to improve escaping ability. Moreover, we predicted that wing patch size should be negatively selected by predation. We found that selection operated differently on fore‐ and hindwings. In contrast to our predictions, predation favoured a slender general forewing shape. However, the predicted wing shape was favoured in hindwings. We also found selection favouring a narrower wing colour patch. Our results suggest different roles of fore‐ and hindwings in flight, as previously suggested for Calopteryx damselflies and shown for butterflies and moths. Forewings would be more involved in sustained flight and hindwings in flight manoeuvrability. Our results differ somehow from a recently published work in the same study system, but using another population, suggesting that selection can fluctuate across space, despite the simplicity of this predator–prey system.     

Conservation of multivariate female preference functions and preference mechanisms in three species of trilling field crickets

Divergence in mate recognition systems among closely related species is an important contributor to assortative mating and reproductive isolation. Here, we examine divergence in male song traits and female preference functions in three cricket species with songs consisting of long trills. The shape of female preference functions appears to be mostly conserved across species and follows the predictions from a recent model for song recognition. Multivariate preference profiles, combining the pulse and trill parameters, demonstrate selectivity for conspecific pulse rates and high trill duty cycles. The rules for integration across pulse and trill timescales were identical for all three species. Generally, we find greater divergence in male song traits than in associated female preferences. For pulse rate, we find a strong match between divergent male traits and female peak preferences. Preference functions for trill parameters and carrier frequency are similar between species and show less congruence between signal and preference. Differences among traits in the degree of trait–preference (mis)match may reflect the strength of preferences and the potential for linkage disequilibrium, selective constraints and alternative selective pressures, but appear unrelated to selection for mate recognition per se.     

WIDE AND THICK GRAIN 1, which encodes an otubain‐like protease with deubiquitination activity,influences grain size and shape in rice

Grain size and shape are two crucial traits that influence grain yield and grain appearance in rice. Although several factors that affect grain size have been described in rice, the molecular mechanisms underlying the determination of grain size and shape are still elusive. In this study we report that WIDE AND THICK GRAIN 1 (WTG1) functions as an important factor determining grain size and shape in rice. The wtg1‐1 mutant exhibits wide, thick, short and heavy grains and also shows an increased number of grains per panicle. WTG1 determines grain size and shape mainly by influencing cell expansion. WTG1 encodes an otubain‐like protease, which shares similarity with human OTUB1. Biochemical analyses indicate that WTG1 is a functional deubiquitinating enzyme, and the mutant protein (wtg1‐1) loses this deubiquitinating activity. WTG1 is expressed in developing grains and panicles, and the GFP–WTG1 fusion protein is present in the nucleus and cytoplasm. Overexpression of WTG1 results in narrow, thin, long grains due to narrow and long cells, further supporting the role of WTG1 in determining grain size and shape. Thus, our findings identify the otubain‐like protease WTG1 to be an important factor that determines grain size and shape, suggesting that WTG1 has the potential to improve grain size and shape in rice.     

Sample size and sampling error in geometric morphometric studies of size and shape

Geometric morphometric studies are increasingly becoming common in systematics and palaeontology. The samples in such studies are often small, due to the paucity of material available for analysis. However, very few studies have tried to assess the impact of sampling error on analytical results. Here, this issue is addressed empirically using repeated randomized selection experiments to build progressively smaller samples from an original dataset of ∼400 vervet monkey (Cercopithecus aethiops) skulls. Size and shape parameters (including mean size and shape, size and shape variances, angles of allometric trajectories) that are commonly used in geometric morphometric studies, are estimated first in the original sample and then in the random subsamples. Estimates are then compared to give an indication of what is the minimum desirable sample size for each parameter. Mean size, standard deviation of size and variance of shape are found to be fairly accurate even in relatively small samples. In contrast, mean shapes and angles between static allometric trajectories are strongly affected by sampling error. If confirmed in other groups, our findings may have substantial implications for studies of morphological variation in present and fossil species. By performing rarefaction analyses like those presented in our study, morphometricians can be easily provided with important clues on how a simple but crucial factor like sample size can alter results of their studies.     

Dynamic aspects of diversity

Abstract. Ecological diversity is viewed as a measure of information, as the variety of messages compounded with the number of individuals belonging to different species. Two limit situations of diversity are indicated: a chemostat-like system tending to become monospecific, and a Noah's ark or museum situation with an infinite number of species each represented by just one specimen. In a dynamic approach, two differential equations for S, the number of species, and N, the number of individuals, can be considered. A new index of diversity is proposed based on these two equations. The concept of diversity spectrum is proposed for a series of diversity measurements in samples of increasing size and related to the concept of minimal area. Diversity can also be measured on non-taxonomic categories, e.g. size classes. The contrast between the two boundary types, limes convergens (ecotone) and limes divergens (ecocline), is emphasized. The nature of the difference between them is compared with that of tension zones between fluids in contact. Differences between ecosystems can be characterized through differences in the ratio P/B (Production/Biomass) and a boundary situation is imagined including two systems with P/B different values and different diversity levels. Some examples are presented from communities in streams.