225 Works

Data from: Approximate Bayesian computation for modular inference problems with many parameters: the example of migration rates

Simon Aeschbacher, Andreas Futschik & Mark A. Beaumont
We propose a two-step procedure for estimating multiple migration rates in an approximate Bayesian computation (ABC) framework, accounting for global nuisance parameters. The approach is not limited to migration, but generally of interest for inference problems with multiple parameters and a modular structure (e.g. independent sets of demes or loci). We condition on a known, but complex demographic model of a spatially subdivided population, motivated by the reintroduction of Alpine ibex (Capra ibex) into Switzerland....

Data from: Function and flexibility of object exploration in kea and New Caledonian crows

Megan L. Lambert, Martina Schiestl, Raoul Schwing, Alex H. Taylor, Gyula K. Gajdon, Katie E. Slocombe & Amanda M. Seed
A range of nonhuman animals frequently manipulate and explore objects in their environment, which may enable them to learn about physical properties and potentially form more abstract concepts of properties such as weight and rigidity. Whether animals can apply the information learned during their exploration to solve novel problems, however, and whether they actually change their exploratory behaviour to seek functional information about objects have not been fully explored. We allowed kea (Nestor notabilis) and...

Data from: Reliability and discriminative ability of a new method for soccer kicking evaluation

Ivan Radman, Barbara Wessner, Norbert Bachl, Lana Ruzic, Markus Hackl, Arnold Baca & Goran Markovic
Radman et al. dataCopy of Radman data.xlsx

Data from: Variation in thermal performance and reaction norms among populations of Drosophila melanogaster

Peter Klepsatel, Martina Galikova, Nicola De Maio, Christian D. Huber, Christian Schlötterer & Thomas Flatt
The major goal of evolutionary thermal biology is to understand how variation in temperature shapes phenotypic evolution. Comparing thermal reaction norms among populations from different thermal environments allows us to gain insights into the evolutionary mechanisms underlying thermal adaptation. Here, we have examined thermal adaptation in six wild populations of the fruit fly (Drosophila melanogaster) from markedly different natural environments by analyzing thermal reaction norms for fecundity, thorax length, wing area and ovariole number under...

Data from: Do pet dogs (Canis familiaris) follow ostensive and non-ostensive human gaze to distant space and to objects?

Charlotte Duranton, Friederike Range & Zsófia Virányi
Dogs are renowned for being skilful at using human-given communicative cues such as pointing. Results are contradictory, however, when it comes to dogs' following human gaze, probably due to methodological discrepancies. Here we investigated whether dogs follow human gaze to one of two food locations better than into distant space even after comparable pre-training. In Experiments 1 and 2, the gazing direction of dogs was recorded in a gaze-following into distant space and in an...

Data from: BMI and WHR are reflected in female facial shape and texture: a geometric morphometric image analysis

Christine Mayer, Sonja Windhager, Katrin Schaefer & Philipp Mitteroecker
Facial markers of body composition are frequently studied in evolutionary psychology and are important in computational and forensic face recognition. We assessed the association of body mass index (BMI) and waist-to-hip ratio (WHR) with facial shape and texture (color pattern) in a sample of young Middle European women by a combination of geometric morphometrics and image analysis. Faces of women with high BMI had a wider and rounder facial outline relative to the size of...

Data from: Covariation between human pelvis shape, stature, and head size alleviates the obstetric dilemma

Barbara Fischer & Philipp Mitteroecker
Compared with other primates, childbirth is remarkably difficult in humans because the head of a human neonate is large relative to the birth-relevant dimensions of the maternal pelvis. It seems puzzling that females have not evolved wider pelvises despite the high maternal mortality and morbidity risk connected to childbirth. Despite this seeming lack of change in average pelvic morphology, we show that humans have evolved a complex link between pelvis shape, stature, and head circumference...

Data from: Patterns of genetic diversity and differentiation in resistance gene clusters of two hybridizing European Populus species

Celine Caseys, Kai N. Stölting, Thelma Barbara, Santiago C. Gonzalez-Martinez & Christian Lexer
Resistance genes (R-genes) are essential for long-lived organisms such as forest trees, which are exposed to diverse herbivores and pathogens. In short-lived model species, R-genes have been shown to be involved in species isolation. Here, we studied more than 400 trees from two natural hybrid zones of the European Populus species Populus alba and Populus tremula for microsatellite markers located in three R-gene clusters, including one cluster situated in the incipient sex chromosome region. The...

Data from: The promiscuous and the chaste: frequent allopolyploid speciation and its genomic consequences in American daisies (Melampodium sect. Melampodium; Asteraceae)

Hanna Weiss-Schneeweiss, Cordula Blöch, Barbara Turner, José L. Villaseñor, Tod F. Stuessy & Gerald M. Schneeweiss
Polyploidy, an important factor in eukaryotic evolution, is especially abundant in angiosperms, where it often acts in concert with hybridization to produce allopolyploids. The application of molecular phylogenetic techniques has identified the origins of numerous allopolyploids, but little is known on genomic and chromosomal consequences of allopolyploidization, despite their important role in conferring divergence of allopolyploids from their parental species. Here, using several plastid and nuclear sequence markers, we clarify the origin of tetra- and...

Data from: Evolution of the locomotory system in eels (Teleostei: Elopomorpha)

Cathrin Pfaff, Roberto Zorzin & Jürgen Kriwet
Background Living anguilliform eels represent a distinct clade of elongated teleostean fishes inhabiting a wide range of habitats. Locomotion of these fishes is highly influenced by the elongated body shape, the anatomy of the vertebral column, and the corresponding soft tissues represented by the musculotendinous system. Up to now, the evolution of axial elongation in eels has been inferred from living taxa only, whereas the reconstruction of evolutionary patterns and functional ecology in extinct eels...

Data from: Habitat disturbance selects against both small and large species across varying climates

Heloise Gibb, Nathan J. Sanders, Robert R. Dunn, Xavier Arnan, Heraldo L. Vasconcellos, David A. Donoso, Alan N. Andersen, Rogerio R. Silva, Tom R. Bishop, Crisanto Gomez, Blair F. Grossman, Kalsum M. Yusah, Sarah H. Luke, Renata Pacheco, Jessica Pearce-Duvet, Javier Retana, Melanie Tista, Catherine L. Parr & H. L. Vasconcelos
Global extinction drivers, including habitat disturbance and climate change, are thought to affect larger species more than smaller species. However, it is unclear if such drivers interact to affect assemblage body size distributions. We asked how these two key global change drivers differentially affect the interspecific size distributions of ants, one of the most abundant and ubiquitous animal groups on earth. We also asked whether there is evidence of synergistic interactions and whether effects are...

Data from: Taxonomic and numerical sufficiency in depth- and salinity-controlled marine paleocommunities

Martin Zuschin, Rafal Nawrot, Mathias Harzhauser, Oleg Mandic & Adam Tomašových
Numerical and taxonomic resolution of compositional datasets affects investigator’s ability to detect and measure relationships between communities and environmental factors. We test whether varying numerical (untransformed, square-root- and fourth-root transformed relative abundance, and presence-absence data) and taxonomic resolutions (species, genera, families) reveal different insights into Lower to Middle Miocene molluscan communities along bathymetric and salinity gradients. The marine subtidal has a more even species-abundance distribution, a higher number of rare species, and a higher species-family...

Data from: Complex models of sequence evolution require accurate estimators as exemplified with the invariable site plus Gamma model

Lam-Tung Nguyen, Arndt Von Haeseler & Bui Quang Minh
The invariable site plus Γ model is widely used to model rate heterogeneity among alignment sites in maximum likelihood and Bayesian phylogenetic analyses. The proof that the invariable site plus continuous Γ model is identifiable (model parameters can be inferred correctly given enough data) has increased the creditability of its application to phylogeny reconstruction. However, most phylogenetic software implement the invariable site plus discrete Γ model, whose identifiability is likely but unproven. How well the...

Data from: Humans recognize emotional arousal in vocalizations across all classes of terrestrial vertebrates: evidence for acoustic universals

Piera Filippi, Jenna V. Congdon, John Hoang, Daniel Liu Bowling, Stephan A. Reber, Andrius Pašukonis, Marisa Hoeschele, Sebastian Ocklenburg, Bart De Boer, Christopher B. Sturdy, Albert Newen & Onur Gunturkun
Writing over a century ago, Darwin hypothesized that vocal expression of emotion dates back to our earliest terrestrial ancestors. If this hypothesis is true, we should expect to find cross-species acoustic universals in emotional vocalizations. Studies suggest that acoustic attributes of aroused vocalizations are shared across many mammalian species, and that humans can use these attributes to infer emotional content. But do these acoustic attributes extend to non-mammalian vertebrates? In this study, we asked human...

Data from: Genomic and functional approaches reveal a case of adaptive introgression from Populus balsamifera (balsam poplar) in P. trichocarpa (black cottonwood)

Adriana Suarez-Gonzalez, Charles Hefer, Camille Christie, Oliver Corea, Christian Lexer, Quentin C. B. Cronk, Carl J. Douglas, Charles A. Hefer & Camille Christe
Natural hybrid zones in forest trees provide systems to study the transfer of adaptive genetic variation by introgression. Previous landscape genomic studies in Populus trichocarpa, a keystone tree species, indicated genomic footprints of admixture with its sister species P. balsamifera and identified candidate genes for local adaptation. Here, we explored patterns of introgression and signals of local adaptation in P. trichocarpa and P. balsamifera, employing genome resequencing data from three chromosomes in pure species and...

Data from: Population assignment in autopolyploids

David L. Field, Linda M. Broadhurst, Carole P. Elliot & Andrew G. Young
Understanding patterns of contemporary gene dispersal within and among populations is of critical importance to population genetics and in managing populations for conservation. In contrast to diploids, there are few studies of gene dispersal in autopolyploids, in part due to complex polysomic inheritance and genotype ambiguity. Here we develop a novel approach for population assignment for codominant markers for autotetraploids and autohexaploids. This method accounts for polysomic inheritance, unreduced gametes and unknown allele dosage. It...

Data from: Environmental drivers of forest structure and stem turnover across Venezuelan tropical forests

Emilio Vilanova, Hirma Ramirez-Angulo, Armando Torres-Lezama, Gerardo Aymard, Luis Gámez, Cristabel Durán, Lionel Hernández, Rafael Herrera, Geertje Van Der Heijden, Oliver L. Phillips & Gregory J. Ettl
Using data from 50 long-term permanent plots from across Venezuelan forests in northern South America, we explored large-scale patterns of stem turnover, aboveground biomass (AGB) and woody productivity (AGWP), and the relationships between them and with potential climatic drivers. We used principal component analysis coupled with generalized least squares models to analyze the relationship between climate, forest structure and stem dynamics. Two major axes associated with orthogonal temperature and moisture gradients effectively described more than...

Data from: Marker development for phylogenomics: the case of Orobanchaceae, a plant family with contrasting nutritional modes

Xi Li, Baohai Hao, Da Pan & Gerald M. Schneeweiss
Phylogenomic approaches, employing next-generation sequencing (NGS) techniques, have revolutionized systematic and evolutionary biology. Target enrichment is an efficient and cost-effective method in phylogenomics and is becoming increasingly popular. Depending on availability and quality of reference data as well as on biological features of the study system, (semi-)automated identification of suitable markers will require specific bioinformatic pipelines. Here, we established a highly flexible bioinformatic pipeline, BaitsFinder, to identify putative orthologous single copy genes (SCGs) and to...

Data from: Onshore-offshore gradient in metacommunity turnover emerges only over macroevolutionary time scales

Adam Tomašových, Stefano Dominici, Martin Zuschin & Didier Merle
Invertebrate lineages tend to originate and become extinct at a higher rate in onshore than in offshore habitats over long temporal durations (more than 10 Myr), but it remains unclear whether this pattern scales down to durations of stages (less than 5 Myr) or even sequences (less than 0.5 Myr). We assess whether onshore–offshore gradients in long-term turnover between the tropical Eocene and the warm-temperate Plio-Pleistocene can be extrapolated from gradients in short-term turnover, using...

Data from: Prevention of ventilator-associated pneumonia in intensive care units: an international online survey

Marie-Laurence Lambert, Mercedes Palomar, Antonella Agodi, Michael Hiesmayr, Alain Lepape, Anne Ingenbleek, Eduardo Palencia Herrejon, Stijn Blot & Uwe Frank
Background: On average 7% of patients admitted to intensive-care units (ICUs) suffer from a potentially preventable ventilator-associated pneumonia (VAP). Our objective was to survey attitudes and practices of ICUs doctors in the field of VAP prevention. Methods: A questionnaire was made available online in 6 languages from April, 1st to September 1st, 2012 and disseminated through international and national ICU societies. We investigated reported practices as regards (1) established clinical guidelines for VAP prevention, and...

Data from: Differences in combinatorial calls among the 3 elephant species cannot be explained by phylogeny

Michael A. Pardo, Joyce H. Poole, Angela S. Stoeger, Peter H. Wrege, Caitlin E. O'Connell-Rodwell, Udaha Kapugedara Padmalal & Shermin De Silva
Understanding why related species combine calls in different ways could provide insight into the selection pressures on the evolution of combinatorial communication. African savannah elephants (Loxodonta africana), African forest elephants (Loxodonta cyclotis), and Asian elephants (Elephas maximus) all combine broadband calls (roars, barks, and cries) and low-frequency calls (rumbles) into single utterances known as “combination calls.” We investigated whether the structure of such calls differs among species and whether any differences are better explained by...

Data from: Flexibility, variability and constraint in energy management strategies across vertebrate taxa revealed by long-term heart rate measurements

Lewis G. Halsey, Jonathan A. Green, Sean D. Twiss, Walter Arnold, Sarah J. Burthe, Patrick J. Butler, Steve J. Cooke, David Gremillet, Thomas Ruf, Olivia Hicks, Katarzyna J. Minta, Tanya S. Prystay, Claudia A.F. Wascher, Vincent Careau, Steven J Cooke, Tania S Prystay & Claudia AF Wascher
1) Animals are expected to be judicious in the use of the energy they gain due to the costs and limits associated with its intake. The management of energy expenditure (EE) exhibited by animals has previously been considered in terms of three patterns: the constrained, independent and performance patterns of energy management. These patterns can be interpreted by regressing daily EE against maintenance EE measured over extended periods. From the multiple studies on this topic,...

Data from: Counting crows: flock structure and subgroup size variation in an urban population of crows

Florian Uhl, Max Ringler, Rachael Miller, Sarah A. Deventer, Thomas Bugnyar & Christine Schwab
Social complexity arises from the formation of social relationships like social bonds and dominance hierarchies. In turn, these aspects may be affected by the degree of fission-fusion dynamics, i.e. changes in group size and composition over time. Whilst fission-fusion dynamics has been studied in mammals, birds have received comparably little attention, despite some species having equally complex social lives. Here, we investigated the influence of environmental factors on aspects of fission-fusion dynamics in a free-ranging...

Data from: Evolution of eye morphology and rhodopsin expression in the Drosophila melanogaster species subgroup

Nico Posnien, Corinna Hopfen, Maarten Hilbrant, Margarita Ramos-Womack, Sophie Murat, Anna Schönauer, Samantha L. Herbert, Maria D. S. Nunes, Saad Arif, Casper J. Breuker, Christian Schlötterer, Philipp Mitteroeker, Alistair P. McGregor & Philipp Mitteroecker
A striking diversity of compound eye size and shape has evolved among insects. The number of ommatidia and their size are major determinants of the visual sensitivity and acuity of the compound eye. Each ommatidium is composed of eight photoreceptor cells that facilitate the discrimination of different colours via the expression of various light sensitive Rhodopsin proteins. It follows that variation in eye size, shape, and opsin composition is likely to directly influence vision. We...

Data from: Not going with the flow: a comprehensive time-calibrated phylogeny of dragonflies (Anisoptera: Odonata: Insecta) provides evidence for the role of lentic habitats on diversification

Harald Letsch, Brigitte Gottsberger & Jessica L. Ware
Ecological diversification of aquatic insects has long been suspected to have been driven by differences in freshwater habitats, which can be classified into flowing (lotic) waters and standing (lentic) waters. The contrasting characteristics of lotic and lentic freshwater systems imply different ecological constraints on their inhabitants. The ephemeral and discontinuous character of most lentic water bodies may encourage dispersal by lentic species in turn reducing geographical isolation among populations. Hence, speciation probability would be lower...

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