19 Works

Evidence for synergistic cumulative impacts of marking and hunting in a wildlife species.

Frédéric LeTourneux, Gilles Gauthier, Roger Pradel, Josée Lefebvre & Pierre Legagneux
Non-additive effects from multiple interacting stressors can have unpredictable outcomes on wildlife. Stressors that initially have negligible impacts may become significant if they act in synergy with novel stressors. Wildlife markers can be a source of physiological stress for animals and are ubiquitous in ecological studies. Their potential impacts on vital rates may vary over time, particularly when changing environments impose new stressors. In this study, we evaluated the temporal changes in the combined impact...

Estimating the extended and hidden species diversity from environmental DNA in hyper-diverse regions

Jean-Baptiste Juhel, Virginie Marques, Rizkie Utama, Indra Vimono, Hagi Sugeha, Kadarusman Kadarusman, Christophe Cochet, Tony Dejean, Andrew Hoey, David Mouillot, Régis Hocdé & Laurent Pouyaud
Species inventories are the building blocks of our assessment of biodiversity patterns and human impact. Yet, historical inventories based on visual observations are often incomplete impairing subsequent analyses of ecological mechanisms, extinction risk and management success. Environmental DNA (eDNA) metabarcoding is an emerging tool that can provide wider biodiversity assessments than classical visual-based surveys. However, eDNA-based inventories remain limited by sampling effort and reference database incompleteness. In this study, we propose a new framework coupling...

Long distance migration is a major factor driving local adaptation at continental scale in a Pacific Salmon

Quentin Rougemont
Inferring the genomic basis of local adaptation is a long-standing goal of evolutionary biology. Beyond its fundamental evolutionary implications, such knowledge can guide conservation decisions for populations of conservation and management concern. Here, we investigated the genomic basis of local adaptation in the Coho salmon (Oncorhynchus kisutch) across its entirety North American range. We hypothesized that extensive spatial variation in environmental conditions and the species’ homing behavior may promote the establishment of local adaptation. We...

The quantitative genetics of fitness in a wild seabird

Maria Moiron, Anne Charmantier & Sandra Bouwhuis
Additive genetic variance in fitness is a prerequisite for adaptive evolution, as a trait must be genetically correlated with fitness to evolve. Despite its relevance, additive genetic variance in fitness has not often been estimated in nature. Here, we investigate additive genetic variance in lifetime and annual fitness components in common terns (Sterna hirundo). Using 28 years of data comprising ca. 6000 pedigreed individuals, we find that additive genetic variances in the Zero-inflated and Poisson...

Trade-off between deep learning for species identification and inference about predator-prey co-occurrence

Olivier Gimenez, Maëlis Kervellec, Jean-Baptiste Fanjul, Anna Chaine, Lucile Marescot, Yoann Bollet & Christophe Duchamp
Deep learning is used in computer vision problems with important applications in several scientific fields. In ecology for example, there is a growing interest in deep learning for automatizing repetitive analyses on large amounts of images, such as animal species identification. However, there are challenging issues toward the wide adoption of deep learning by the community of ecologists. First, there is a programming barrier as most algorithms are written in Python while most ecologists are...

Data for: Testing for fitness epistasis in a transplant experiment identifies a candidate adaptive locus in Timema stick insects

Romain Villoutreix, Clarissa Ferreira De Carvalho, Zachariah Gompert, Thomas L. Parchman, Jeffrey L. Feder & Patrik Nosil
Identifying the genetic basis of adaptation is a central goal of evolutionary biology. However, identifying genes and mutations affecting fitness remains challenging because a large number of traits and variants can influence fitness. Selected phenotypes can also be difficult to know a priori, complicating top-down genetic approaches for trait mapping that involve crosses or genome-wide association studies. In such cases, experimental genetic approaches, where one maps fitness directly and attempts to infer the traits involved...

Mandrill mothers associate with infants who look like their own offspring using phenotype matching

Marie Charpentier, Clémence Poirotte, Berta Roura-Torres, Paul Amblard-Rambert, Eric Willaume, Peter Kappeler, François Rousset & Julien Renoult
Behavioral discrimination of kin is a key process structuring social relationships in animals. In this study, we provide a first example of discrimination towards non-kin by third-parties through a mechanism of phenotype matching. In mandrills, we recently demonstrated increased facial resemblance among paternally-related juvenile and adult females indicating adaptive opportunities for paternal kin recognition. Here, we hypothesize that mothers use offspring’s facial resemblance with other infants to guide offspring’s social opportunities towards similarly-looking ones. Using...

Script and data used in: A lot of convergence, a bit of divergence: environment and interspecific interactions shape body color patterns in Lissotriton newts

Thomas De Solan
Coexistence with related species poses evolutionary challenges to which populations may react in diverse ways. When exposed to similar environments, sympatric populations of two species may adopt similar phenotypic trait values. However, selection may also favor trait divergence as a way to reduce competition for resources or mates. The characteristics of external body parts, such as coloration and external morphology, are involved to varying degrees in intraspecific signaling as well as in the adaptation to...

Data and code from: Experimental evolution of environmental tolerance, acclimation, and physiological plasticity in a randomly fluctuating environment

Rescan Marie & Luis-Miguel Chevin
Environmental tolerance curves, representing absolute fitness against the environment, are an empirical assessment of the fundamental niche, and emerge from the phenotypic plasticity of underlying phenotypic traits. Dynamic plastic responses of these traits can lead to acclimation effects, whereby recent past environments impact current fitness. Theory predicts that higher levels of phenotypic plasticity should evolve in environments that fluctuate more predictably, but there have been few experimental tests of these predictions. Specifically, will still lack...

Plasticity across levels: relating epigenomic, transcriptomic, and phenotypic responses to osmotic stress in a halotolerant microalga

Christelle Leung, Daphne Grulois & Luis-Miguel Chevin
Phenotypic plasticity, the ability of a given genotype to produce alternative phenotypes in response to its environment of development, is an important mechanism for coping with variable environments. While the mechanisms underlying phenotypic plasticity are diverse, their relative contributions need to be investigated quantitatively to better understand the evolvability of plasticity across biological levels. This requires relating plastic responses of the epigenome, transcriptome, and organismal phenotype, and investigating how they vary with the genotype. Here...

Data and code from: The functional trait distinctiveness of plant species is scale dependent

Pierre Gauzere, Pierre Gaüzère, Benjamin Blonder, Pierre Denelle, Bertrand Fournier, Matthias Grenié, Leo Delalandre, Tamara Munkemuller, François Munoz, Cyrille Violle & Wilfried Thuiller
Beyond the local abundance of species, their functional trait distinctiveness is now recognized as a key driver of community dynamics and ecosystem functioning. Yet, since the functional distinctiveness of a species is always relative to a given species pool, a species distinct at the regional scale might not necessarily be distinct at the local or community scale, and reciprocally. To assess the importance of scale (i.e the definition of a species pool) when quantifying the...

Individual-based eco-evolutionary models for understanding adaptation in changing seas

Amanda Xuereb, Quentin Rougemont, Peter Tiffin, Huijie Xue & Megan Phifer-Rixey
As climate change threatens species’ persistence, predicting the potential for species to adapt to rapidly changing environments is imperative for the development of effective conservation strategies. Eco-evolutionary individual-based models (IBMs) can be useful tools for achieving this objective. We performed a literature review to identify studies that apply these tools in marine systems. Our survey suggested that this is an emerging area of research fueled in part by developments in modeling frameworks that allow simulation...

Datafiles and code for Covas et al: The oxidative cost of helping and its minimisation in a cooperative breeder

Rita Covas, Sophie Lardy, Liliana Silva, Benjamin Rey, André Ferreira, Franck Theron, Arnaud Tognetti, Bruno Faivre & Claire Doutrelant
Cooperative actions are beneficial to the group, but presumably costly to the individual co-operators. In cooperatively breeding species, helping to raise young is thought to involve important energetic costs, which could lead to elevated exposure to reactive oxygen species, resulting in oxidative stress. However, identifying such costs can be difficult if individuals adjust their investment in helping in relation to environmental conditions or their own physiological condition. Experimental approaches are therefore required to quantify the...

Processed 12S fish eDNA sequences

Laetitia Mathon
This dataset contains fish eDNA sequences from the 12S mitochondrial gene. eDNA has been collected in 100 stations, 25 sites, in 5 tropical marine regions. Data collection was performed between 2017 and 2020. Raw sequences have been processed through a bioinformatic pipeline, merged, demultiplexed, dereplicated, clustered as OTUs (operational taxonomic units) and assigned to a taxa. The codes to analyse the data can be found at : https://github.com/virginiemarques/Global_eDNA. The data are used to study the...

Root traits, root diameter distribution and soil parameters at the community level along a mediterranean successional gradient

Amandine Erktan, Catherine Roumet & Francois Munoz
The data correspond to average root traits at the community level, and parameters describing the root diameter distribution at the community level. Soil parameters are also indicated. All measurements were conducted along a successional gradient on roadsides in the Mediterranean region (Montpellier, France, 43°6′N, 3°8′E). These data were used in the article entitled "Dissecting fine root diameter distribution at the community level captures root morpological diversity" from Erktan, A., Roumet, C., Munoz, F (in press)...

Guadeloupe Snails Metacommunity

Maxime Dubart, Jean-Pierre Pointier, Philippe Jarne & Patrice David
Metacommunity structure reflects the interplay of various processes, including niche filtering, extinction/colonization, and interspecific interactions. Spatial patterns of species distributions are often analyzed to infer these processes. However, such inferences rely on often unrealistic equilibrium assumptions, and remain ambiguous, as different processes can produce similar patterns. Temporal data may improve these inferences. For example, stochastic species turnover may occur in local communities, while, on the long run, temporal changes are kept within limits set by...

Evolution of female colors in birds: The role of female cost of reproduction and paternal care

Amélie Fargevieille, Arnaud Grégoire, Doris Gomez & Claire Doutrelant
Female ornamentation is frequently observed in animal species and is sometimes found as more evolutionarily labile than male ornamentation. A complex array of factors may explain its presence and variation. Here we assessed the role of female cost of reproduction and paternal care. Both factors have been pinpointed as important by theoretical studies but have not been investigated yet in detail at the interspecific level. We worked on 133 species of North temperate Passeriformes bird...

Data from: Nitrogen availability and plant-plant interactions drive leaf silicon concentration in wheat genotypes

Félix De Tombeur, Taïna Lemoine, Cyrille Violle, Hélène Fréville, Sarah Thorne, Sue Hartley, Hans Lambers & Florian Fort
Estimating plasticity of leaf silicon (Si) in response to abiotic and biotic factors underpins our comprehension of plant defences and stress resistance in natural and agroecosystems. However, how nitrogen (N) addition and intraspecific plant-plant interactions affect Si accumulation remains unclear. We grew 19 durum wheat genotypes (Triticum turgidum ssp. durum) in pots, either alone, or in intra- or intergenotypic cultures of two individuals, and with or without N. Aboveground biomass, plant height and leaf [Si]...

Diet quality impairs male and female reproductive performance and affects the opportunity for selection in an insect model

Lennart Winkler & Tim Janicke
Environmental factors can have profound effects on the strength and direction of selection and recent studies suggest that such environment-dependent selection can be sex-specific. Sexual selection theory predicts that male fitness is more condition dependent compared to female fitness, suggesting that male fitness is more sensitive to environmental stress. However, our knowledge about the effect of environmental factors on sex-specific reproductive performance and on sex differences in the opportunity for selection is still very limited....

Registration Year

  • 2022

Resource Types

  • Dataset
  • Journal Article


  • Centre d'Ecologie Fonctionnelle et Evolutive
  • Institut des Sciences de l'Evolution de Montpellier
  • University of Göttingen
  • Université Laval
  • Centre d'Écologie Fonctionnelle et Évolutive
  • Fundação de Apoio à Universidade Federal de São Paulo
  • Utah State University
  • University of Minnesota
  • University of Maine
  • University of California, Berkeley