346 Works

Data from: Relating fitness to long-term environmental variations in natura

Pascal Milesi, Thomas Lenormand, Christophe Lagneau, Mylène Weill & Pierrick Labbé
Quantifying links between ecological processes and adaptation dynamics in natura remains a crucial challenge. Many studies have documented the strength, form and direction of selection, and its variations in space and time, but only a few managed to link these variations to their proximal causes. This step is, however, crucial, if we are to understand how the variation in selective pressure affects adaptive allele dynamics in natural settings. We used data from a long-term survey...

Data from: How structured is the entangled bank? The surprisingly simple organization of multiplex ecological networks leads to increased persistence and resilience

Sonia Kéfi, Vincent Miele, Evie A. Wieters, Sergio A. Navarrete & Eric L. Berlow
Species are linked to each other by a myriad of positive and negative interactions. This complex spectrum of interactions constitutes a network of links that mediates ecological communities’ response to perturbations, such as exploitation and climate change. In the last decades, there have been great advances in the study of intricate ecological networks. We have, nonetheless, lacked both the data and the tools to more rigorously understand the patterning of multiple interaction types between species...

In situ resistance, not immigration, supports invertebrate community resilience to drought intensification in a Neotropical ecosystem

Camille Bonhomme, Régis Céréghino, Jean-François Carrias, Arthur Compin, Bruno Corbara, Vincent E.J. Jassey, Joséphine Leflaive, Vinicius F. Farjalla, Nicholas A. C. Marino, Thibaut Rota, Diane S. Srivastava & Céline Leroy
While future climate scenarios predict declines in precipitations in many regions of the world, little is known of the mechanisms underlying community resilience to prolonged dry seasons, especially in “naïve” Neotropical rainforests. Predictions of community resilience to intensifying drought are complicated by the fact that the underlying mechanisms are mediated by species’ tolerance and resistance traits, as well as rescue through dispersal from source patches. We examined the contribution of in situ tolerance-resistance and immigration...

Pre-introduction introgression contributes to parallel differentiation and contrasting hybridisation outcomes between invasive and native marine mussels

Iva Popovic, Nicolas Bierne, Federico Gaiti, Miloš Tanurdžić & Cynthia Riginos
Non-native species experience novel selection pressures in introduced environments and may interbreed with native lineages. Species introductions therefore provide opportunities to investigate repeated patterns of adaptation and introgression across replicated contact zones. Here, we investigate genetic parallelism between multiple introduced populations of the invasive marine mussel, Mytilus galloprovincialis, in the absence (South Africa and California) and presence of hybridisation with a native congener (Mytilus planulatus in Batemans Bay and Sydney Harbour, Australia). Repeatability in post-introduction...

Fonio millet genome unlocks African orphan crop diversity for agriculture in a changing climate

Michael Abrouk, Hanin Ibrahim Ahmed, Philippe Cubry, Denisa Šimoníková, Stéphane Cauet, Yveline Pailles, Jan Bettgenhaeuser, Liubov Gapa, Nora Scarcelli, Marie Couderc, Leila Zekraoui, Nagarajan Kathiresan, Jana Čížková, Eva Hřibová, Jaroslav Doležel, Sandrine Arribat, Hélène Bergès, Jan Wieringa, Mathieu Gueye, Ndjido Kane, Christian Leclerc, Sandrine Causse, Sylvie Vancoppenolle, Claire Billot, Thomas Wicker … & Simon Krattinger
Sustainable food production in the context of climate change necessitates diversification of agriculture and a more efficient utilization of plant genetic resources. Fonio millet (Digitaria exilis) is an orphan African cereal crop with a great potential for dryland agriculture. Here, we established high-quality genomic resources to facilitate fonio improvement through molecular breeding. These include a chromosome-scale reference assembly and deep re-sequencing of 183 cultivated and wild Digitaria accessions, enabling insights into genetic diversity, population structure,...

Data from: Population-level dynamics in experimental mixed infections: evidence for competitive exclusion among bacterial parasites of Paramecium caudatum

Alison B. Duncan, Eike Dusi, Martina Schrallhammer, Thomas Berendonk & Oliver Kaltz
Parasites frequently share their host populations with other parasites. However, little is known about how different parasites respond to competition with diverse competitor species in the within-host and between-host environments. We explored the repeatability of competition by simultaneously exposing microcosm populations of the ciliate Paramecium caudatum to pairs of parasites from the Holospora species complex (H. undulata, H. caryophila and H. obtusa) affected the persistence and prevalence of each compared to single infections, across three...

Data from: Effect of pollination strategy, phylogeny and distribution on pollination niches of Euro-Mediterranean orchids

Nina Joffard, Francois Massol, Matthias Grenié, Claudine Montgelard & Bertrand Schatz
1. Pollination niches are important components of ecological niches and have played a major role in the diversification of Angiosperms. In this study, we focused on Euro-Mediterranean orchids, which use diverse pollination strategies and interact with various functional groups of insects. In these orchids, we investigated the determinants of pollination niche breadth and overlap by analysing the orchid-pollinator network and the factors that may have shaped it. 2. We constructed a database reporting 1278 interactions...

Data from: Postcranial anatomy of the extinct terrestrial sloth Simomylodon uccasamamensis (Xenarthra: Mylodontidae) from the Pliocene of the Bolivian Altiplano and its evolutionary implications

Alberto Boscaini, Néstor Toledo, Bernardino Mamani Quispe, Rubén Andrade Flores, Marcos Fernández-Monescillo, Laurent Marivaux, Pierre-Olivier Antoine, Philippe Münch, Timothy Gaudin & François Pujos
Extinct terrestrial sloths are common elements of the late Cenozoic South American fossil record. Among them, Mylodontinae species were particularly abundant in the Americas throughout the Pleistocene epoch, and their anatomy is relatively well known. In contrast, less information is available from the Neogene record and particularly from localities at low latitudes, with an additional and considerable bias in favor of craniodental rather than postcranial remains. In this contribution, we provide comparative descriptions of several...

Data from: Community-wide scan identifies fish species associated with coral reef services across the Indo-Pacific

Eva Maire, Sébastien Villéger, Nicholas A.J. Graham, Andrew S. Hoey, Joshua Cinner, Sebastian C.A. Ferse, Catherine Aliaume, David J. Booth, David A. Feary, Michel Kulbicki, Stuart A. Sandin, Laurent Vigliola, David Mouillot & Sebastian C. A. Ferse
Determining whether many functionally complementary species or only a subset of key species are necessary to maintain ecosystem functioning and services is a critical question in community ecology and biodiversity conservation. Identifying such key species remains challenging, especially in the tropics where many species co-occur and can potentially support the same or different processes. Here, we developed a new community-wide scan (CWS) approach, analogous to the genome-wide scan, to identify fish species that significantly contribute,...

The legacy of recurrent introgression during the radiation of hares

Mafalda S. Ferreira, Matthew R. Jones, Colin M. Callahan, Liliana Farelo, Zelalem Tolesa, Franz Suchentrunk, Pierre Boursot, L. Scott Mills, Paulo C. Alves, Jeffrey M. Good & José Melo-Ferreira
Hybridization may often be an important source of adaptive variation, but the extent and long-term impacts of introgression have seldom been evaluated in the phylogenetic context of a radiation. Hares (Lepus) represent a widespread mammalian radiation of 32 extant species characterized by striking ecological adaptations and recurrent admixture. To understand the relevance of introgressive hybridization during the diversification of Lepus, we analyzed whole exome sequences (61.7 Mb) from 15 species of hares (1- 4 individuals...

Data from: Dry-season decline in tree sapflux is correlated with leaf turgor loss point in a tropical rainforest

Isabelle Maréchaux, Damien Bonal, Megan K. Bartlett, Benoît Burban, Sabrina Coste, Elodie A. Courtois, Maguy Dulormne, Jean-Yves Goret, Eléonore Mira, Ariane Mirabel, Lawren Sack, Clément Stahl & Jerome Chave
1. Water availability is a key determinant of forest ecosystem function and tree species distributions. While droughts are increasing in frequency in many ecosystems, including in the tropics, plant responses to water supply vary with species and drought intensity, and are therefore difficult to model. Based on physiological first principles, we hypothesized that trees with a lower turgor loss point (πtlp), i.e., a more negative leaf water potential at wilting, would maintain water transport for...

Spatial plant-plant associations from a Mediterranean grassland and associated analyses

Alexandre Génin, Thierry Dutoit, Alain Danet, Alice Le Priol & Sonia Kéfi
This dataset contains data documenting plant spatial patterns in a Mediterranean grassland (la Crau, France) along a grazing and nutrient enrichment gradient, along with accessory data documenting soil characteristics. It has been used to compute spatial association networks for plant communties to investigate changes in plant-plant interactions with grazing. Results show that association networks become closer to random expectations as grazing pressure increases.

Data from: Which frugivory‐related traits facilitated historical long‐distance dispersal in the custard apple family (Annonaceae)?

Renske E. Onstein, W. Daniel Kissling, Lars W. Chatrou, Thomas L. P. Couvreur, Hélène Morlon & Hervé Sauquet
Aim Long-distance dispersal has contributed to the disjunct biogeographical distribution of rain forest plants – something that has fascinated biogeographers since Humboldt’s time. However, the dispersal ‘agent’ for these tropical plant lineages remains puzzling. Here, we investigate which frugivory-related traits may have facilitated past intercontinental long-distance dispersal in the custard apple family (Annonaceae), a major vertebrate-dispersed tropical plant family. We hypothesize that long-distance dispersal was associated with the evolution of traits related to dispersal by...

Plant-phenotypic changes induced by parasitoid ichnoviruses enhance the performance of both unparasitized and parasitized caterpillars

Antonino Cusumano, Serge Urbach, Fabrice Legeai, Marc Ravallec, Marcel Dicke, Erik Poelman & Anne-Nathalie Volkoff
There is increasing awareness that interactions between plants and insects can be mediated by microbial symbionts. Nonetheless, evidence showing that symbionts associated with organisms beyond the second trophic level affect plant-insect interactions are restricted to a few cases belonging to parasitoid-associated bracoviruses. Insect parasitoids harbor a wide array of symbionts which, like bracoviruses, can be injected into their herbivorous hosts to manipulate their physiology and behavior. Yet, the function of these symbionts in plant-based trophic...

Both consumptive and non-consumptive effects of predators impact mosquito populations and have implications for disease transmission

Marie C Russell, Catherine M Herzog, Zachary Gajewski, Chloe Ramsay, Fadoua El Moustaid, Michelle V Evans, Trishna Desai, Nicole L Gottdenker, Sara L Hermann, Alison G Power & Andrew C McCall
Predator-prey interactions influence prey traits through both consumptive and non-consumptive effects, and variation in these traits can shape vector-borne disease dynamics. Meta-analysis methods were employed to generate predation effect sizes by different categories of predators and mosquito prey. This analysis showed that multiple families of aquatic predators are effective in consumptively reducing mosquito survival, and that the survival of Aedes, Anopheles, and Culex mosquitoes is negatively impacted by consumptive effects of predators. Mosquito larval size...

The composition of the lower oceanic crust in the Wadi Khafifah section of the southern Samail (Oman) ophiolite

Jill VanTongeren, Peter Kelemen, Carlos Garrido, Marguerite Godard, Karen Hanghoj, Michael Braun & Julian Pearce
The composition of the intrusive gabbroic lower oceanic crust remains poorly characterized in comparison to the extrusive portion of the oceanic crust, especially for intermediate-fast spreading mid-ocean ridges. This is a consequence of limited exposures of extant lower oceanic crust and of ophiolites similar to mid-ocean ridge crust. One of the best analogues for mid-ocean ridge crust is the southern Samail ophiolite that formed during a period of rapid seafloor spreading above a nascent subduction...

Greater functional similarity in mobile compared to sessile assemblages colonizing artificial coastal habitats

Jean-Charles Leclerc, Naily Nashira Figueroa, Antonio Brante & Frédérique Viard
Among anthropogenic habitats built in the marine environment, floating and non-floating structures can be colonized by distinct assemblages. However, there is little knowledge whether these differences are also reflected in the functional structure. This study compared the functional diversity of sessile and mobile invertebrate assemblages that settle over 3 months on floating vs. non-floating artificial habitats, in two Chilean ports. Using morphological, trophic, behavioral, and life history traits, we found differences between mobile and sessile...

Data and scripts from: Microbiome composition is shaped by geography and population structure in the parasitic wasp Asobara japonica, but not in the presence of the endosymbiont Wolbachia

Pina Brinker & Michael C. Fontaine
The microbial community composition is crucial for diverse life-history traits in many organisms. However, we still lack a sufficient understanding of how the host microbiome is acquired and maintained, a pressing issue in times of global environmental change. Here we investigated to what extent host genotype, environmental conditions, and the endosymbiont Wolbachia influence the bacterial communities in the parasitic wasp Asobara japonica. We sampled multiple wasp populations across ten locations in their natural distribution range...

Additional file 1 of Accuracy of clinicians’ ability to predict the need for renal replacement therapy: a prospective multicenter study

Alexandre Sitbon, Michael Darmon, Guillaume Geri, Paul Jaubert, Pauline Lamouche-Wilquin, Clément Monet, Lucie Le Fèvre, Marie Baron, Marie-Line Harlay, Côme Bureau, Olivier Joannes-Boyau, Claire Dupuis, Damien Contou, Virginie Lemiale, Marie Simon, Christophe Vinsonneau, Clarisse Blayau, Frederic Jacobs & Lara Zafrani
Additional file 1: Figure S1. Physician prediction: Visual Likert Scale. Figure S2. PresagEER study timeline. Table S1. Delays between ICU admission, AKI diagnosis and RRT initiation. Table S2. RRT characteristics. Table S3. Characteristics and outcomes of AKI patients (n (%) or median (IQR)). Table S4. Multivariate analysis including variables associated with the risk of requiring RRT (without physician prediction).

Dataset: What makes a teddy bear comforting?

Anne-Sophie Tribot, Nathalie Blanc, Thierry Brassac, François Guilhaumon, Nicolas Casajus & Nicolas Mouquet
This dataset relates to a study intended to identify whether particular physical and sensory characteristics contribute to making a bear more comforting. These data were collected as part of a participatory experiment during the European Researchers' Night, on September 27, 2019, in 13 French cities simultaneously (395 participants). The file "data_teddybears" corresponds to the raw data, whose meaning and coding of each variable is detailed in the file "data_teddybears_metadata". The file "data_teddybears_finals" corresponds to sorted...

Additional file 1 of Association between in-ICU red blood cells transfusion and 1-year mortality in ICU survivors

Alice Blet, Joel B. McNeil, Julie Josse, Bernard Cholley, Raphaël Cinotti, Gad Cotter, Agnès Dauvergne, Beth Davison, Kévin Duarte, Jacques Duranteau, Marie-Céline Fournier, Etienne Gayat, Samir Jaber, Sigismond Lasocki, Thomas Merkling, Katell Peoc’h, Imke Mayer, Malha Sadoune, Pierre-François Laterre, Romain Sonneville, Lorraine Ware, Alexandre Mebazaa & Antoine Kimmoun
Additional file 1: Figures and Tables.

Environmental variation in sex ratios and sexual dimorphism in three wind-pollinated dioecious plant species

Sarah Bürli, John R. Pannell & Jeanne Tonnabel
Variation in plant sex ratios is often attributable to sex-specific mortality in heterogeneous environments that differentially limit male and female plant reproduction. Yet sexual dimorphism and plastic responses to environmental heterogeneity are common and may co-vary with variation in sex ratios. Here, we show that the sex ratio and the degree of sexual dimorphism for a number of plant traits varied along climatic and elevation gradients in three wind-pollinated dioecious species, Rumex lunaria, Urtica dioica...

Size-dependent intraspecific variation in wood traits has little impact on aboveground carbon estimates in a tropical forest landscape

Wirong Chanthorn, Patcharapan Thripob, Claire Fortunel, Maxime Réjou-Méchain & Anuttara Nathalang
There is increasing evidence that intraspecific trait variation plays a role in governing rates of ecosystem functioning. While wood traits such as wood specific gravity (WSG) and wood carbon concentration (WCC) are key drivers of forest aboveground carbon (AGC) stocks, the sources of intraspecific variation in these wood traits and the consequences of this variation on AGC are poorly known, especially in the tropics. Here, we investigated intraspecific variation in wood specific gravity (WSG) and...

Plant pathogens provide clues to the potential origin of bat white-nose syndrome Pseudogymnoascus destructans

Carol Uphoff Meteyer, Julien Y. Dutheil, M. Kevin Keel, Justin G. Boyles & Eva H. Stukenbrock
White-nose syndrome has killed millions of bats, yet both the origins and infection strategy of the causative fungus, Pseudogymnoascus destructans, remain elusive. We provide evidence for a novel hypothesis that P. destructans emerged from plant-associated fungi and retained invasion strategies affiliated with fungal pathogens of plants. We demonstrate that P. destructans invades bat skin in successive biotrophic and necrotrophic stages (hemibiotrophic infection), a mechanism previously only described in plant fungal pathogens. Further, the convergence of...

Plant pathogens provide clues to the potential origin of bat white-nose syndrome Pseudogymnoascus destructans

Carol Uphoff Meteyer, Julien Y. Dutheil, M. Kevin Keel, Justin G. Boyles & Eva H. Stukenbrock
White-nose syndrome has killed millions of bats, yet both the origins and infection strategy of the causative fungus, Pseudogymnoascus destructans, remain elusive. We provide evidence for a novel hypothesis that P. destructans emerged from plant-associated fungi and retained invasion strategies affiliated with fungal pathogens of plants. We demonstrate that P. destructans invades bat skin in successive biotrophic and necrotrophic stages (hemibiotrophic infection), a mechanism previously only described in plant fungal pathogens. Further, the convergence of...

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  • University of Montpellier
  • French National Centre for Scientific Research
  • Charité - University Medicine Berlin
  • University of Pennsylvania
  • Aarhus University
  • Washington University in St. Louis
  • Emory University
  • The University of Texas at Austin
  • Shanghai Jiao Tong University
  • University of Paris-Saclay