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Eigenvector Regression (eigenvector + regression)

Distribution by Scientific Domains
Life Sciences100%
Distribution within Life Sciences
Animal Science & Zoology25%

Kinds of Eigenvector Regression

  • phylogenetic eigenvector regression
    		•

    Selected Abstracts

    Microanatomical diversity of the humerus and lifestyle in lissamphibians

    ACTA ZOOLOGICA, Issue 2 2009
    Aurore Canoville
    Abstract A study of body size and the compactness profile parameters of the humerus of 37 species of lissamphibians demonstrates a relationship between lifestyle (aquatic, amphibious or terrestrial) and bone microstructure. Multiple linear regressions and variance partitioning with Phylogenetic eigenVector Regressions reveal an ecological and a phylogenetic signal in some body size and compactness profile parameters. Linear discriminant analyses segregate the various lifestyles (aquatic vs. amphibious or terrestrial) with a success rate of up to 89.2%. The models built from data on the humerus discriminate aquatic taxa relatively well from the other taxa. However, like previous models built from data on the radius of amniotes or on the femur of lissamphibians, the new models do not discriminate amphibious taxa from terrestrial taxa on the basis of body size or compactness profile data. To make our inference method accessible, spreadsheets (see supplementary material on the website), which allow anyone to infer a lissamphibian lifestyle solely from body size and bone compactness parameters, were produced. No such easy implementation of habitat inference models is found in earlier papers on this topic. [source]

    ADAPTIVE CONSTRAINTS AND THE PHYLOGENETIC COMPARATIVE METHOD: A COMPUTER SIMULATION TEST

    EVOLUTION, Issue 1 2002
    Emilia P. Martins
    Abstract Recently, the utility of modern phylogenetic comparative methods (PCMs) has been questioned because of the seemingly restrictive assumptions required by these methods. Although most comparative analyses involve traits thought to be undergoing natural or sexual selection, most PCMs require an assumption that the traits be evolving by less directed random processes, such as Brownian motion (BM). In this study, we use computer simulation to generate data under more realistic evolutionary scenarios and consider the statistical abilities of a variety of PCMs to estimate correlation coefficients from these data. We found that correlations estimated without taking phylogeny into account were often quite poor and never substantially better than those produced by the other tested methods. In contrast, most PCMs performed quite well even when their assumptions were violated. Felsenstein's independent contrasts (FIC) method gave the best performance in many cases, even when weak constraints had been acting throughout phenotypic evolution. When strong constraints acted in opposition to variance-generating (i.e., BM) forces, however, FIC correlation coefficients were biased in the direction of those BM forces. In most cases, all other PCMs tested (phylogenetic generalized least squares, phylogenetic mixed model, spatial autoregression, and phylogenetic eigenvector regression) yielded good statistical performance, regardless of the details of the evolutionary model used to generate the data. Actual parameter estimates given by different PCMs for each dataset, however, were occasionally very different from one another, suggesting that the choice among them should depend on the types of traits and evolutionary processes being considered. [source]

    ESTIMATING PHYLOGENETIC INERTIA IN TITHONIA (ASTERACEAE): A COMPARATIVE APPROACH

    EVOLUTION, Issue 2 2000
    Eduardo Morales
    Abstract., Phylogenetic inertia is a difficult issue in evolutionary biology because we have yet to reach a consensus about how to measure it. In this study a comparative approach is used to evaluate phylogenetic inertia in 14 demographic and morphological characters in 10 species and one subspecies of the genus Tithonia (Asteraceae). Three different methods, autocorrelational analysis, phylogenetic correlograms, and ancestor-state reconstruction, were used to evaluate phylogenetic inertia in these traits. Results were highly dependent on the method applied. Autoregression and phylogenetic eigenvector regression (PVR) methods found more inertia in morphological traits. In contrast, phylogenetic correlograms and ancestor-state reconstruction suggest that morphological characters exhibit less phylogenetic inertia than demographic ones. The differences between results are discussed and methods are compared in an effort to understand phylogenetic inertia more thoroughly. [source]

    Partitioning phylogenetic and adaptive components of the geographical body-size pattern of New World birds

    GLOBAL ECOLOGY, Issue 1 2008
    Lizabeth Ramirez
    ABSTRACT Aim To evaluate seasonal body-size patterns for New World birds in geographical space, to develop environmental models to explain the gradients, and to estimate phylogenetic and adaptive contributions. Location The Western Hemisphere. Methods We used range maps to generate gridded geometric mean body masses. Summer and winter patterns were distinguished based on breeding and non-breeding ranges. We first generated the geographical gradients, followed by phylogenetic eigenvector regression to generate body sizes predicted by the birds' positions in a phylogenetic tree, which were used to generate the expected phylogenetic gradient. Subtracting the expected pattern from the observed pattern isolated the adaptive component. Ordinary least squares multiple-regression models examined factors influencing the phylogenetic, adaptive and combined components of the seasonal body-size patterns, and non-spatial and spatial models were compared. Results Birds are larger in the temperate zones than in the tropics. The gradient is quantitatively stronger in winter than in summer. Regression models explained 66.6% of the variance in summer mass and 45.9% of the variance in winter mass. In summer, phylogenetic and adaptive responses of birds contribute equally to the gradient. In winter, the gradient in North America is much stronger than that expected by taxonomic turnover, and responses of species independent of their family membership drive the overall pattern. Main conclusions We confirm Bergmann's rule in New World birds and conclude that winter temperatures ultimately drive the pattern, exerting selection pressures on birds that overwhelm patterns expected by phylogenetic inertia at the family level. However, in summer, the movement of migratory species into the temperate zone weakens the gradient and generates a pattern more congruent with that expected from the taxonomic composition of the fauna. The analytical method we develop here represents a useful tool for partitioning the phylogenetic and non-phylogenetic components of spatially explicit macroecological data. [source]

    Use of paleontological and molecular data in supertrees for comparative studies: the example of lissamphibian femoral microanatomy

    JOURNAL OF ANATOMY, Issue 2 2009
    Michel Laurin
    Abstract A new method to assemble time-calibrated supertrees is able to incorporate paleontological and molecular dates. This method, along with new branch length transformations, is implemented in the Stratigraphic Tools for Mesquite. It was used here to analyse a dataset on bone microanatomy, body size and habitat of 46 species of lissamphibians through a variety of methods (Felsenstein independent contrasts, variance partition with phylogenetic eigenvector regression, discriminant analyses and simple regressions). Our analyses showed that the new methods can produce adequate standardization for several characters on a tree whose branch lengths can represent evolutionary time. The analyses confirmed previous conclusions about the presence of an ecological signal in bone microanatomical data. [source]

    Phylogenetically structured variance in felid bite force: the role of phylogeny in the evolution of biting performance

    JOURNAL OF EVOLUTIONARY BIOLOGY, Issue 3 2010
    M. SAKAMOTO
    Abstract A key question in evolution is the degree to which morphofunctional complexes are constrained by phylogeny. We investigated the role of phylogeny in the evolution of biting performance, quantified as bite forces, using phylogenetic eigenvector regression. Results indicate that there are strong phylogenetic signals in both absolute and size-adjusted bite forces, although it is weaker in the latter. This indicates that elimination of size influences reduces the level of phylogenetic inertia and that the majority of the phylogenetic constraint is a result of size. Tracing the evolution of bite force through phylogeny by character optimization also supports this notion, in that relative bite force is randomly distributed across phylogeny whereas absolute bite force diverges according to clade. The nonphylogenetically structured variance in bite force could not be sufficiently explained by species-unique morphology or by ecology. This study demonstrates the difficulties in identifying causes of nonphylogenetically structured variance in morphofunctional character complexes. [source]

    Phylogenetic autocorrelation and heritability of geographic range size, shape and position of fiddler crabs, genus Uca (Crustacea, Decapoda)

    JOURNAL OF ZOOLOGICAL SYSTEMATICS AND EVOLUTIONARY RESEARCH, Issue 2 2010
    J. C. Nabout
    Abstract The aim of this study was to evaluate the levels of phylogenetic heritability of the geographical range size, shape and position for 88 species of fiddler crabs of the world, using phylogenetic comparative methods and simulation procedures to evaluate their fit to the neutral model of Brownian motion. The geographical range maps were compiled from literature, and range size was based on the entire length of coastline occupied by each species, and the position of each range was calculated as its latitudinal and longitudinal midpoint. The range shape of each species was based in fractal dimension (box-counting technique). The evolutionary patterns in the geographical range metrics were explored by phylogenetic correlograms using Moran's I autocorrelation coefficients, autoregressive method (ARM) and phylogenetic eigenvector regression (PVR). The correlograms were compared with those obtained by simulations of Brownian motion processes across phylogenies. The distribution of geographical range size of fiddler crabs is right-skewed and weak phylogenetic autocorrelation was observed. On the other hand, there was a strong phylogenetic pattern in the position of the range (mainly along longitudinal axis). Indeed, the ARM and PVR evidenced, respectively, that ca. 86% and 91% of the longitudinal midpoint could be explained by phylogenetic relationships among the species. The strong longitudinal phylogenetic pattern may be due to vicariant allopatric speciation and geographically structured cladogenesis in the group. The traits analysed (geographical range size and position) did not follow a Brownian motion process, thus suggesting that both adaptive ecological and evolutionary processes must be invoked to explain their dynamics, not following a simple neutral inheritance in the fiddler-crab evolution. Resumen El objetivo de este trabajo fue estimar los niveles de herencia filogenética existentes en la posición geográfica, forma y el tamaño de rango geográfico en 88 especies de cangrejo violinista del mundo, mediante simulaciones y métodos comparativos filogenéticos para así evaluar su ajuste al modelo neutro de evolución browniana. Los mapas de rango geográfico se obtuvieron de la literatura. La forma de rango geográfico fue estimada en la dimensión fractal. Los patrones evolutivos en el tamaño y forma del rango geográfico y la posición geográfica fueron explorados mediante correlogramas filogenéticos utilizando el índice I de Moran, coeficientes autorregresivos (ARM) y regressión por autovetores filogenéticos (PVR). Estos correlogramas fueron comparados con aquellos obtenidos mediante la simulación de procesos de evolución browniana en las filogenias. El tamaño y forma de rango geográfico del cangrejo violinista mostró una distribución apuntada hacia la derecha aunque no se encontró autocorrelación filogenética. Por otra parte, se observó un marcado patrón filogenético para la posición geográfica del rango (principalmente a lo largo del eje longitudinal). De hecho, el ARM y PVR evidenció respectivamente que cerca del 86% y 91% de la localización del punto medio longitudinal del rango se puede explicar mediante las relaciones filogenéticas existentes entre las especies. El fuerte patrón filogenético en la longitud podría ser debido a especiación alopátrica y a una cladogénesis estructurada geográficamente para el grupo, tal y como se propuso en las hipótesis. Los rasgos analizados (rango geográfico y posición geográfica) no siguieron un proceso de evolución browniana, sugiriendo pues que tanto los procesos evolutivos como la adaptación ecológica deberían ser tenidos en cuenta para explicar sus dinámicas, ya que el transcurso de la evolución del cangrejo violinista no se explica mediante un simple modelo de herencia neutra. [source]

    Ecological and evolutionary components of body size: geographic variation of venomous snakes at the global scale

    BIOLOGICAL JOURNAL OF THE LINNEAN SOCIETY, Issue 1 2009
    LEVI CARINA TERRIBILE
    Biogeographical patterns of animal body size and the environmental and evolutionary mechanisms that may be driving them have been broadly investigated in macroecology, although just barely in ectotherms. We separately studied two snake clades, Viperidae and Elapidae, and used phylogenetic eigenvector regression and ordinary least squares multiple regression methods to perform a global grid-based analysis of the extent at which the patterns of body size (measured for each species as its log10 -transformed maximum body length) of these groups are phylogenetically structured or driven by current environment trends. Phylogenetic relatedness explained 20% of the across-species size variation in Viperidae, and 59% of that of Elapidae, which is a more recent clade. Conversely, when we analysed spatial trends in mean body size values (calculated for each grid-cell as the average size of its extant species), an environmental model including temperature, precipitation, primary productivity (as indicated by the global vegetation index) and topography (range in elevation) explained 37.6% of the variation of Viperidae, but only 4.5% of that of Elapidae. These contrasted responses of body size patterns to current environment gradients are discussed, taking into consideration the dissimilar evolutionary histories of these closely-related groups. Additionally, the results obtained emphasize the importance of the need to start adopting deconstructive approaches in macroecology. © 2009 The Linnean Society of London, Biological Journal of the Linnean Society, 2009, 98, 94,109. [source]