120 Works

Data from: An R package for analyzing survival using continuous-time open capture-recapture models

David Fouchet, Hugues Santin-Janin, Frank Sauvage, Nigel Gilles Yoccoz & Dominique Pontier
Capture–recapture software packages have proven to be very powerful tools for analysing factors affecting survival in wild populations. However, all such packages are limited to discrete-time protocols. Appropriate survival analysis tools are still lacking for data acquired from continuous-time protocols. We have developed a statistical method and propose an r package for analysing such data based on an extension of classical survival analysis models incorporating an inhomogeneous Poisson process for modelling capture histories. First, data...

Data from: Food availability modulates the effects of maternal antibodies on growth and immunity in young feral pigeons

Ahmad Ismail, Lisa Jacquin, Claudy Haussy, Samuel Perret & Julien Gasparini
It is now widely acknowledged that mothers can transfer their own immune experience to their progeny through the allocation of specific maternal antibodies (hereafter referred as MatAb) that can shape offspring phenotype and affect their fitness. However, the importance of environmental variability in modulating the effects of MatAb on offspring traits is still elusive. Using an experimental approach, we investigated how food availability interacted with MatAb to solve the trade-off between humoral immunity and growth...

Data from: Rapid evolutionary responses of life history traits to different experimentally-induced pollution in Caenorhabditis elegans

Morgan Dutilleul, Jean-Marc Bonzom, Catherine Lecomte, Benoit Goussen, Fabrice Daian, Simon Galas & Denis Réale
Background Anthropogenic disturbances can lead to intense selection pressures on traits and very rapid evolutionary changes. Evolutionary responses to environmental changes, in turn, reflect changes in the genetic structure of the traits, accompanied by a reduction of evolutionary potential of the populations under selection. Assessing the effects of pollutants on the evolutionary responses and on the genetic structure of populations is thus important to understanding the mechanisms that entail specialization to novel environmental conditions or...

Data from: Population density and climate shape early-life survival and recruitment in a long-lived pelagic seabird

Rémi Fay, Henri Weimerskirch, Karine Delord & Christophe Barbraud
1. Our understanding of demographic processes is mainly based on analyses of traits from the adult component of populations. Early-life demographic traits are poorly known mainly for methodological reasons. Yet, survival of juvenile and immature individuals is critical for the recruitment into the population and thus for the whole population dynamic, especially for long-lived species. This bias currently restrains our ability to fully understand population dynamics of long-lived species and life-history theory. 2. The goal...

Data from: Lifespan behavioral and neural resilience in a social insect

Ysabel Milton Giraldo, J. Frances Kamhi, Vincent Fourcassié, Mathieu Moreau, Simon K. A. Robson, Adina Rusakov, Lindsey Wimberly, Alexandria Diloreto, Adrianna Kordek & James F. A. Traniello
Analyses of senescence in social species are important to understanding how group living influences the evolution of ageing in society members. Social insects exhibit remarkable lifespan polyphenisms and division of labour, presenting excellent opportunities to test hypotheses concerning ageing and behaviour. Senescence patterns in other taxa suggest that behavioural performance in ageing workers would decrease in association with declining brain functions. Using the ant Pheidole dentata as a model, we found that 120-day-old minor workers,...

Data from: The genetics of intra- and interspecific competitive response and effect in a local population of an annual plant species

Baron Etienne, Richirt Julien, Villoutreix Romain, Amsellem Laurent, Fabrice Roux & Etienne Baron
While competition is recognized as a major factor responsible for plant community dynamics, the genetics of intra- and interspecific competitive ability of a target species (i.e. level of intra-population genetic variation, identity of phenotypic traits under selection and genetic bases) still deserves a deeper investigation at the local spatial scale by considering both numerous genotypes and several interacting species In this study, we tested whether the genetics of competitive response and effect in Arabidopsis thaliana...

Data from: Brain regions associated with visual cues are important for bird migration

Orsolya Vincze, Csongor I. Vágási, Péter L. Pap, Gergely Osváth & Anders Pape Møller
Long-distance migratory birds have relatively smaller brains than short-distance migrants or residents. Here, we test whether reduction in brain size with migration distance can be generalized across the different brain regions suggested to play key roles in orientation during migration. Based on 152 bird species, belonging to 61 avian families from six continents, we show that the sizes of both the telencephalon and the whole brain decrease, and the relative size of the optic lobe...

Data from: Dispersal as a source of variation in age-specific reproductive strategies in a wild population of lizards

Olivier Cotto, Manuel Massot, Ophélie Ronce & Jean Clobert
Dispersal syndromes describe patterns of covariation of morphological, behavioral and life history traits associated with dispersal. Studying dispersal syndromes is critical to understanding the demographic and genetic consequences of movements. Among studies describing the association of life history traits with dispersal, there is anecdotal evidence suggesting that dispersal syndromes can vary with age. Recent theory also suggests that dispersive and philopatric individuals might have different age-specific reproductive efforts. In a wild population of the common...

Data from: Conservatism and novelty in the genetic architecture of adaptation in Heliconius butterflies

Bárbara Huber, Annabel Whibley, Yann Le Poul, Nicolas Navarro, Arnaud Martin, Simon Baxter, Abhijeet Shah, Benoît Gilles, Thierry Wirth, W. Owen McMillan & Mathieu Joron
Understanding the genetic architecture of adaptive traits has been at the centre of modern evolutionary biology since Fisher; however, evaluating how the genetic architecture of ecologically important traits influences their diversification has been hampered by the scarcity of empirical data. Now, high-throughput genomics facilitates the detailed exploration of variation in the genome-to-phenotype map among closely related taxa. Here, we investigate the evolution of wing pattern diversity in Heliconius, a clade of neotropical butterflies that have...

Data from: Reconstructing long-term human impacts on plant communities: an ecological approach based on lake sediment DNA

Johan Pansu, Charline Giguet-Covex, Gentile Francesco Ficetola, Ludovic Gielly, Frédéric Boyer, Lucie Zinger, Fabien Arnaud, Jérôme Poulenard, Pierre Taberlet, Philipe Choler & Philippe Choler
Paleoenvironmental studies are essential to understand biodiversity changes over long timescales and to assess the relative importance of anthropogenic and environmental factors. Sedimentary ancient DNA (sedaDNA) is an emerging tool in the field of paleoecology and has proven to be a complementary approach to the use of pollen and macroremains for investigating past community changes. SedaDNA-based reconstructions of ancient environments often rely on indicator taxa or expert knowledge, but quantitative ecological analyses might provide more...

Data from: Human circulating antibody-producing B cell as a predictive measure of mucosal immunity to poliovirus

Ayan Dey, Natalie A. Molodecky, Harish Verma, Prashant Sharma, Jae Seung Yang, Giulietta Saletti, Mohammad Ahmad, Sunil K. Bahl, Thomas F. Wierzba, Ranjan K. Nandy, Jagadish M. Deshpande, Roland W. Sutter & Cecil Czerkinsky
Background: The "gold standard" for assessing mucosal immunity after vaccination with poliovirus vaccines consists in measuring virus excretion in stool after challenge with oral poliovirus vaccine (OPV). This testing is time and resource intensive, and development of alternative methods is a priority for accelerating polio eradication. We therefore evaluated circulating antibody-secreting cells (ASCs) as a potential means to evaluate mucosal immunity to poliovirus vaccine. Methods: 199 subjects, aged 10 years, and previously immunized repeatedly with...

Data from: Correlation between the green-island phenotype and Wolbachia infections during the evolutionary diversification of Gracillariidae leaf-mining moths

Florence Gutzwiller, Franck Dedeine, Wilfried Kaiser, David Giron & Carlos Lopez-Vaamonde
Internally feeding herbivorous insects such as leaf miners have developed the ability to manipulate the physiology of their host plants in a way to best meet their metabolic needs and compensate for variation in food nutritional composition. For instance, some leaf miners can induce green-islands on yellow leaves in autumn, which are characterized by photosynthetically active green patches in otherwise senescing leaves. It has been shown that endosymbionts, and most likely bacteria of the genus...

Data from: Differential chromosome conformations as hallmarks of cellular identity revealed by mathematical polymer modeling

Imene Lassadi, Alain Kamgoué, Isabelle Goiffon, Nicolas Tanguy-Le-Gac, Kerstin Bystricky & Imen Lassadi
Inherently dynamic, chromosomes adopt many different conformations in response to DNA metabolism. Models of chromosome organization in the yeast nucleus obtained from genome-wide chromosome conformation data or biophysical simulations provide important insights into the average behavior but fail to reveal features from dynamic or transient events that are only visible in a fraction of cells at any given moment. We developed a method to determine chromosome conformation from relative positions of three fluorescently tagged DNA...

Data from: Local inter-species introgression is the main cause of extreme levels of intra-specific differentiation in mussels

Christelle Fraïsse, Khalid Belkhir, John J. Welch & Nicolas Bierne
Structured populations, and replicated zones of contact between species, are an ideal opportunity to study regions of the genome with unusual levels of differentiation; and these can illuminate the genomic architecture of species isolation, and the spread of adaptive alleles across species ranges. Here, we investigated the effects of gene flow on divergence and adaptation in the Mytilus complex of species, including replicated parental populations in quite distant geographical locations. We used target enrichment sequencing...

Data from: Adaptive plasticity and niche expansion in an invasive thistle

Kathryn G. Turner, Hélène Fréville & Loren H. Rieseberg
Phenotypic differentiation in size and fecundity between native and invasive populations of a species has been suggested as a causal driver of invasion in plants. Local adaptation to novel environmental conditions through a micro-evolutionary response to natural selection may lead to phenotypic differentiation and fitness advantages in the invaded range. Local adaptation may occur along a stress tolerance trade-off, favoring individuals that, in benign conditions, shift resource allocation from stress tolerance to increased vigor and...

Data from: Evidence for an active rare biosphere within freshwater protists community

Didier Debroas, Mylène Hugoni & Isabelle Domaizon
Studies on the active rare biosphere at the RNA level are mainly focused on Bacteria and Archaea and fail to include the protists, which are involved in the main biogeochemical cycles of the earth. In this study, the richness, composition and activity of the rare protistan biosphere were determined from a temporal survey of two lakes by pyrosequencing. In these ecosystems, the always rare OTUs represented 77.2% of the total OTUs and 76.6% of the...

Data from: Long-lasting modification of soil fungal diversity associated with the introduction of rabbits to a remote sub-Antarctic archipelago

Johan Pansu, Richard C. Winkworth, Françoise Hennion, Ludovic Gielly, Pierre Taberlet & Philippe Choler
During the late nineteenth century, Europeans introduced rabbits to many of the sub-Antarctic islands, environments that prior to this had been devoid of mammalian herbivores. The impacts of rabbits on indigenous ecosystems are well studied; notably, they cause dramatic changes in plant communities and promote soil erosion. However, the responses of fungal communities to such biotic disturbances remain unexplored. We used metabarcoding of soil extracellular DNA to assess the diversity of plant and fungal communities...

Data from: Revision of the genus Anasibirites Mojsisovics (Ammonoidea): an iconic and cosmopolitan taxon of the late Smithian (Early Triassic) extinction

Romain Jattiot, Hugo Bucher, Arnaud Brayard, Claude Monnet, James F. Jenks & Michael Hautmann
The family Prionitidae Hyatt represents a major component of ammonoid faunas during the Smithian (Early Triassic), and the genus Anasibirites Mojsisovics is the most emblematic taxon of this family. Its stratigraphical range is restricted to the beginning of the late Smithian (Wasatchites distractus Zone). The genus is also characterized by an unusual cosmopolitan distribution, thus contrasting with most earlier Smithian ammonoid distributions that were typically restricted by latitude. Because the late Smithian witnessed an extinction...

Data from: Relationship between spectral characteristics of spontaneous postural sway and motion sickness susceptibility

Rafael Laboissière, Corinne Cian, Michel Mazzuca & Pierre-Alain Barraud
Motion sickness (MS) usually occurs for a narrow band of frequencies of the imposed oscillation. It happens that this frequency band is close to that which are spontaneously produced by postural sway during natural stance. This study examined the relationship between reported susceptibility to motion sickness and postural control. The hypothesis is that the level of MS can be inferred from the shape of the Power Spectral Density (PSD) profile of spontaneous sway, as measured...

Data from: \"Identification of SNP markers for the endangered Ugandan red colobus (Procolobus rufomitratus tephrosceles) using RAD sequencing\" in Genomic Resources Notes accepted 1 December 2014 to 31 January 2015

Maria Jose Ruiz Lopez, Tony L. Goldberg, Colin A. Chapman, Patrick A. Omeja, James H. Jones, William M. Switzer, Paul D. Etter, Eric A. Johnson & Nelson Ting
Despite dramatic growth in the field of primate genomics over the past decade, studies of primate population and conservation genomics in the wild have been hampered due to the difficulties inherent in studying non-model organisms and endangered species, such as lack of a reference genome and current challenges in de novo primate genome assembly. Here, we used Restriction-site Associated DNA (RAD) sequencing to develop a population-based SNP panel for the Ugandan red colobus (P. rufomitratus...

Data from: Diffantom: whole-brain diffusion MRI phantoms derived from real datasets of the Human Connectome Project

Oscar Esteban, Emmanuel Caruyer, Alessandro Daducci, Meritxell Bach-Cuadra, María J. Ledesma-Carbayo & Andres Santos
Diffantom is a whole-brain diffusion MRI (dMRI) phantom publicly available through the Dryad Digital Repository (doi:10.5061/dryad.4p080). The dataset contains two single-shell dMRI images, along with the corresponding gradient information, packed following the BIDS standard (Brain Imaging Data Structure, Gorgolewski et al., 2015). The released dataset is designed for the evaluation of the impact of susceptibility distortions and benchmarking existing correction methods. In this Data Report we also release the software instruments involved in generating diffantoms,...

Data from: Stoichiometric imbalances between detritus and detritivores are related to shifts in ecosystem functioning

André Frainer, Jérémy Jabiol, Mark O. Gessner, Andreas Bruder, Eric Chauvet, Brendan McKie & Brendan G. McKie
How are resource consumption and growth rates of litter-consuming detritivores affected by imbalances between consumer and litter C:N:P ratios? To address this question, we offered leaf litter as food to three aquatic detritivore species, which represent a gradient of increasing body N:P ratios: a crustacean, a caddisfly and a stonefly. The detritivores were placed in microcosms and submerged in a natural stream. Four contrasting leaf species were offered, both singly and in two-species mixtures, to...

Data from: Anthropogenic and natural drivers of gene flow in a temperate wild fruit tree: a basis for conservation and breeding programs in apples

Amandine Cornille, Alice Feurtey, Uriel Gélin, Jeanne Ropars, Kristine Misvanderbrugge, Pierre Gladieux & Tatiana Giraud
Gene flow is an essential component of population adaptation and species evolution. Understanding of the natural and anthropogenic factors affecting gene flow is also critical for the development of appropriate management, breeding and conservation programs. Here, we explored the natural and anthropogenic factors impacting crop-to-wild and within wild gene flow in apples in Europe using an unprecedented dense sampling of 1,889 wild apple (Malus sylvestris) from European forests and 339 apple cultivars (Malus domestica). We...

Data from: Feed or fight: testing the impact of food availability and intraspecific aggression on the functional ecology of an island lizard

Colin M. Donihue, Kinsey M. Brock, Johannes Foufopoulos & Anthony Herrel
Body size often varies among insular populations relative to continental conspecifics – the ‘island rule’ – and functional, context-dependent morphological differences tend to track this body size variation on islands. Two hypotheses are often proposed as potential drivers of insular population differences in morphology: one relating to diet and the other involving intraspecific competition and aggression. We directly tested whether differences in morphology and maximum bite capacity were explained by interisland changes in hardness of...

Data from: Signal architecture: temporal variability and individual consistency of multiple sexually selected signals

Alexis S. Chaine & Bruce E. Lyon
1. Multiple signals should be favoured when the benefit of additional signals outweigh their costs. Despite increased attention on multiple-signalling systems, few studies have focused on signal architecture to understand the potential information content of multiple signals. 2. To understand the patterns of signal plasticity and consistency over the lifetime of individuals we conducted a longitudinal study of multiple signals known to be under sexual selection in male lark buntings, Calamospiza melanocorys. 3. Within years,...

Registration Year

  • 2015

Resource Types

  • Dataset


  • French National Centre for Scientific Research
  • French National Institute for Agricultural Research
  • University of Toulouse
  • University of Montpellier
  • Centre d'Ecologie Fonctionnelle et Evolutive
  • University of Cambridge
  • Uppsala University
  • Ghent University
  • Stanford University
  • Université Paul-Valéry Montpellier