57 Works

Data from: Rapid diversification rates in Amazonian Chrysobalanaceae inferred from plastid genome phylogenetics

Jerome Chave
We studied the evolutionary history of Chrysobalanaceae with phylogenetic analyses of complete plastid genomes from 156 species to assess the tempo of diversification in the Neotropics and help to unravel the causes of Amazonian plant diversification. These plastid genomes had a mean length of 162,204 base pairs, and the nearly complete DNA sequence matrix, with reliable fossils, was used to estimate a phylogenetic tree. Chrysobalanaceae diversified from 38.9 Mya (95% highest posterior density, 95%HPD: 34.2-43.9...

Sex-specific patterns of senescence in artificial insect populations varying in sex-ratio to manipulate reproductive effort

Charly Jehan, Manon Chogne, Thierry Rigaud & Yannick Moret
Background: The disposable soma theory of ageing assumes that organisms optimally trade-off limited resources between reproduction and longevity to maximize fitness. Early reproduction should especially trade-off against late reproduction and longevity because of reduced investment into somatic protection, including immunity. Moreover, as optimal reproductive strategies of males and females differ, sexually dimorphic patterns of senescence may evolve. In particular, as males gain fitness through mating success, sexual competition should be a major factor accelerating male...

Using aerobic exercise to evaluate sub-lethal tolerance of acute warming in fishes

David McKenzie
We investigated whether fatigue from sustained aerobic swimming provides a sublethal endpoint to define tolerance of acute warming in fishes, as an alternative to loss of equilibrium (LOE) during a critical thermal maximum protocol (CTmax). Two species were studied, Nile tilapia Oreochromis niloticus and pacu Piaractus mesopotamicus. Each fish underwent an incremental swim test to determine gait transition speed (UGT), where it first engaged the unsteady anaerobic swimming mode that preceded fatigue. After suitable recovery...

La multiplication des évènements de courses à pied, un véritable phénomène de société

François Madoré & Stéphane LORET
La course à pied est en plein développement en France depuis quelques décennies, à l’image des tronçons nantais des bords de l’Erdre ou des autres cours d’eau qui traversent l’agglomération, dont les chemins sont largement appropriés par les runners le week-end. Cette pratique s’accompagne d’une multiplication des évènements sportifs dans de nombreux territoires, avec pas moins d’un quart des communes de l’aire urbaine de Nantes qui ont organisé une épreuve en 2017.

Translation Inhibitory Elements from Hoxa3 and Hoxa11 mRNAs use uORFs for translation inhibition

Franck Martin, Fatima Alghoul, Laure Schaeffer & Gilbert Eriani
During embryogenesis, Hox mRNA translation is tightly regulated by a sophisticated molecular mechanism that combines two RNA regulons located in their 5’UTR. First, an Internal Ribosome Entry Site (IRES) enables cap-independent translation. The second regulon is a Translation Inhibitory Element or TIE, which ensures concomitant cap-dependent translation inhibition. In this study, we deciphered the molecular mechanisms of mouse Hoxa3 and a11 TIE elements. Both TIEs possess an upstream Open Reading Frame (uORF) that is critical...

Les femmes et les hommes dans la ville : la parité au quotidien

Julie Vallée
Le mouvement #MeToo ainsi que l’épidémie de la Covid19 (au cours de laquelle les femmes ont davantage été en « première ligne » que les hommes) ont récemment participé à rendre plus visible dans le débat public la question des inégalités de genre. Cette question renvoie aussi à celle de la cohabitation des femmes et des hommes dans la ville, qui varie selon les heures de la journée. Directement liée aux déplacements quotidiens, les quartiers...

Les mutations de la géographie des prix de l’immobilier résidentiel

Mericskay Boris, Jean Rivière & Stéphane LORET
La question de l’augmentation du coût des logements est au cœur des débats sur les effets (et la pertinence) des politiques qui visent à rendre les métropoles toujours plus attractives. Depuis le début des années 2000 et au même titre que d’autres grandes villes françaises dynamiques, l’aire urbaine de Nantes connaît une forte hausse des prix d’achat des appartements comme des maisons. Cette augmentation n’est toutefois pas homogène dans l’espace métropolitain, et cette planche permet...

Data from: Cryptic differences in colour among Müllerian mimics: how can the visual capacities of predators and prey shape the evolution of wing colours?

Violaine Llaurens, Mathieu Joron & Marc Théry
Antagonistic interactions between predators and prey often lead to co-evolution. In the case of toxic prey, aposematic colours act as warning signals for predators and play a protective role. Evolutionary convergence in colour patterns among toxic prey evolves due to positive density-dependent selection and the benefits of mutual resemblance in spreading the mortality cost of educating predators over a larger prey assemblage. Comimetic species evolve highly similar colour patterns, but such convergence may interfere with...

Ancient tropical extinctions at high latitudes contributed to the latitudinal diversity gradient

Andrea Sánchez Meseguer & Fabien Condamine
Global biodiversity currently peaks at the equator and decreases toward the poles. Growing fossil evidence suggest this hump-shaped latitudinal diversity gradient (LDG) has not been persistent through time, with similar diversity across latitudes flattening out the LDG during past greenhouse periods. However, when and how diversity declined at high latitudes to generate the modern LDG remains an open question. Although diversity-loss scenarios have been proposed, they remain mostly undemonstrated. We outline the ‘asymmetric gradient of...

Data from: Dendritic connectivity shapes spatial patterns of genetic diversity: a simulation-based study

Ivan Paz-Vinas & Simon Blanchet
Landscape features notoriously affect spatial patterns of biodiversity. For instance, in dendritic ecological networks (such as river basins), dendritic connectivity has been proposed to create unique spatial patterns of biodiversity. Here, we compared genetic datasets simulated under a lattice-like, a dendritic and a circular landscape to test the influence of dendritic connectivity on neutral genetic diversity. The circular landscape had a level of connectivity similar to that of the dendritic landscape, so as to isolate...

Data from: Mechanisms of reciprocity and diversity in social networks: a modelling and comparative approach

Ivan Puga-Gonzalez, Julia Ostner, Oliver Schülke, Sebastian Sosa, Bernard Thierry & Cedric Sueur
Three mechanisms have been proposed to underlie reciprocation of social behaviors in gregarious animals: ‘calculated reciprocity’, ‘emotional bookkeeping’ and ‘symmetry-based reciprocity’. Among these explanations, emotional book-keeping has received the broadest support from experimental and observational studies. On the other hand, three individual-based models have shown that reciprocation may emerge via ‘symmetry-based reciprocity’, ‘emotional bookkeeping’, or a combination of both mechanisms. Here we use these three models to assess their relative fit with empirical data on...

Data from: The representational dynamics of perceived voice emotions evolve from categories to dimensions

Bruno L. Giordano, Caroline Whiting, Nikolaus Kriegeskorte, Sonja A. Kotz, Joachim Gross & Pascal Belin
Long-standing affective science theories conceive the perception of emotional stimuli either as discrete categories (for example, an angry voice) or continuous dimensional attributes (for example, an intense and negative vocal emotion). Which position provides a better account is still widely debated. Here we contrast the positions to account for acoustics-independent perceptual and cerebral representational geometry of perceived voice emotions. We combined multimodal imaging of the cerebral response to heard vocal stimuli (using functional magnetic resonance...

Scale-dependent shifts in functional and phylogenetic structure of Mediterranean island plant communities over two centuries

Chunhui Zhang, Marc William Cadotte, Alessandro Chiarucci, Michel Loreau, Charles Willis, Xingfeng Si, Lanping Li & Marcus Cianciaruso
1. Since the Industrial Revolution, the rapid global population and economic expansion has had tremendous impacts on biodiversity across spatial scales, especially for islands. While changes in species richness are easily inferred, the impact of human activity on the underlying community assembly processes has been difficult to ascertain because of lack of long-term community data. 2. Here, we document how the manifestations of plant community assembly have changed over time and space in a Mediterranean...

Pollen records of Miocene thermal maximum

Jean-Pierre Suc, Gonzalo Jiménez-Moreno & Mostefa Bessedik
In order to identify the northern latitudinal limit between mangroves composed of Avicennia only and diversified mangroves during the Cenozoic thermal maxima, a special attention was paid to the Middle Miocene Climatic Optimum (MMCO: 17–14 Ma) in the Mediterranean s.l. region, including the Mediterranean Basin s.s. and its former brackish appendix, the Paratethys (Popescu et al., accepted, Journ. Biogeogr.). Pollen data come from forty-five biostratigraphically well-dated marine samples from 8 locations belonging to the MMCO....

Testing the potential contribution of Wolbachia to speciation when cytoplasmic incompatibility becomes associated with host‐related reproductive isolation

Daniel Bruzzese, Hannes Schuler, Thomas Wolfe, Mary Glover, Joseph Mastroni, Meredith Doellman, Cheyenne Tait, Wee Yee, Juan Rull, Martin Aluja, Glen Hood, Robert Goughnour, Christian Stauffer, Patrik Nosil, Jeffery Feder, Daniel J. Bruzzese, Thomas M. Wolfe, Mary M. Glover, Meredith M. Doellman, Wee L. Yee, Glen R. Hood & Jeffery L. Feder
Endosymbiont induced cytoplasmic incompatibility (CI) may play an important role in arthropod speciation. However, whether CI consistently becomes associated or coupled with other host-related forms of reproductive isolation (RI) to impede the transfer of endosymbionts between hybridizing populations and further the divergence process remains an open question. Here, we show varying degrees of pre- and post-mating RI exist among allopatric populations of two interbreeding cherry-infesting tephritid fruit flies (Rhagoletis cingulata and R. indifferens) across North...

Data from: Can the genomics of ecological speciation be predicted across the divergence continuum from host races to species? A case study in Rhagoletis

Meredith M. Doellman, Peter J. Meyers, Gregory J. Ragland, Glen R. Hood, Scott P. Egan, Thomas H. Q. Powell, Patrik Nosil & Jeffrey L. Feder
Studies assessing the predictability of evolution typically focus on short-term adaptation within populations or the repeatability of change among lineages. A missing consideration in speciation research is to determine whether natural selection predictably transforms standing genetic variation within populations into differences between species. Here, we test whether host-related selection on diapause timing anticipates genome-wide differentiation during ecological speciation by comparing ancestral hawthorn and newly formed apple-infesting host races of Rhagoletis pomonella to their sibling species...

Data from: Diet quality in a wild grazer declines under the threat of an ambush predator

Florian Barnier, Marion Valeix, Patrick Duncan, Simon Chamaillé-Jammes, Philippe Barre, Andrew J. Loveridge, David W. Macdonald, Hervé Fritz & S. Chamaille-Jammes
Predators influence prey populations not only through predation itself, but also indirectly through prompting changes in prey behaviour. The behavioural adjustments of prey to predation risk may carry nutritional costs, but this has seldom been studied in the wild in large mammals. Here, we studied the effects of an ambush predator, the African lion (Panthera leo), on the diet quality of plains zebras (Equus quagga) in Hwange National Park, Zimbabwe. We combined information on movements...

Data from: Metagenomic chromosome conformation capture (meta3C) unveils the diversity of chromosome organization in microorganisms

Martial Marbouty, Axel Cournac, Jean-Francois Flot, Herve Marie-Nelly, Julien Mozziconacci & Romain Koszul
Genomic analyses of microbial populations in their natural environment remain limited by the difficulty to assemble full genomes of individual species. Consequently, the chromosome organization of microorganisms has been investigated in a few model species, but the extent to which the features described can be generalized to other taxa remains unknown. Using controlled mixes of bacterial and yeast species, we developed meta3C, a metagenomic chromosome conformation capture approach that allows characterizing individual genomes and their...

Data from: Deep-sea, deep-sequencing: metabarcoding extracellular DNA from sediments of marine canyons

Magdalena Guardiola, María Jesús Uriz, Pierre Taberlet, Eric Coissac, Owen Simon Wangensteen & Xavier Turon
Marine sediments are home to one of the richest species pools on Earth, but logistics and a dearth of taxonomic work-force hinders the knowledge of their biodiversity. We characterized α- and β-diversity of deep-sea assemblages from submarine canyons in the western Mediterranean using an environmental DNA metabarcoding. We used a new primer set targeting a short eukaryotic 18S sequence (ca. 110 bp). We applied a protocol designed to obtain extractions enriched in extracellular DNA from...

Data from: Sexual harassment induces a temporary fitness cost but does not constrain the acquisition of environmental information in fruit flies

Serafino Teseo, Liisa Veerus, Celine Moreno & Frédéric Mery
Across animals, sexual harassment induces fitness costs for females and males. However, little is known about the cognitive costs involved, i.e. whether it constrains learning processes, which could ultimately affect an individual's fitness. Here we evaluate the acquisition of environmental information in groups of fruit flies challenged with various levels of male sexual harassment. We show that, although high sexual harassment induces a temporary fitness cost for females, all fly groups of both sexes exhibit...

Data from: Plasmid and clonal interference during post-horizontal gene transfer evolution

Stephanie Bedhomme, Danilo Perez-Pantoja & Ignacio G. Bravo
Plasmids are nucleic acid molecules that can drive their own replication in a living cell. They can be transmitted horizontally and can thrive in the host cell to high copy numbers. Plasmid replication and gene expression consume cellular resources and cells carrying plasmids incur fitness costs. But many plasmids carry genes that can be beneficial under certain conditions, allowing the cell to endure in the presence of antibiotics, toxins, competitors or parasites. Horizontal transfer of...

Data from: Geographically distinct patterns of reproductive isolation and hybridisation in two sympatric species of the Jaera albifrons complex (marine isopods)

Ambre Ribardière, Claire Daguin-Thiébaut, Céline Houbin, Jérôme Coudret, Caroline Broudin, Olivier Timsit & Thomas Broquet
Sympatric species that in some populations hybridize and in other populations remain reproductively isolated open interesting research possibilities for the study of hybridization and speciation. Here we test for such a situation in two littoral isopods (Jaera albifrons and J. praehirsuta) that occur in mixed populations and where past morphological descriptions suggested that the two species are generally reproductively isolated except in rare populations where hybridization may be happening. Using field surveys and microsatellite genetic...

Data from: Evolutionary analysis of Old World arenaviruses reveals a major adaptive contribution of the viral polymerase

Chiara Pontremoli, Diego Forni, Rachele Cagliani, Uberto Pozzoli, Stefania Riva, Ignacio G. Bravo, Mario Clerici & Manuela Sironi
The Old World (OW) arenavirus complex includes several species of rodent-borne viruses, some of which (i.e., Lassa virus, LASV and Lymphocytic choriomeningitis virus, LCMV) cause human diseases. Most LCMV and LASV infections are caused by rodent-to-human transmissions. Thus, viral evolution is largely determined by events that occur in the wildlife reservoirs. We used a set of human- and rodent-derived viral sequences to investigate the evolutionary history underlying OW arenavirus speciation, as well as the more...

Data from: A new method for estimating locomotion type in large ground birds

Delphine Angst, Eric Buffetaut, Christophe Lecuyer & Romain Amiot
Estimating the locomotion type of fossil ground birds is necessary for a better understanding of their ecology. Until now, only one method has allowed us to estimate the locomotion of fossil ground birds, but its application is complicated in the majority of fossil cases because it requires data from the three bones from the same hindlimb of one individual. Here, we propose a new method using only the maximum length and minimum width of the...

Data from: Background selection in partially selfing populations

Denis Roze
Self-fertilizing species often present lower levels of neutral polymorphism than their outcrossing relatives. Indeed, selfing automatically increases the rate of coalescence per generation, but also enhances the effects of background selection and genetic hitchhiking by reducing the efficiency of recombination. Approximations for the effect of background selection in partially selfing populations have been derived previously assuming tight linkage between deleterious alleles and neutral loci. However, loosely linked deleterious mutations may have important effects on neutral...

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  • Centre national de la recherche scientifique
  • Centre National de la Recherche Scientifique
  • French National Centre for Scientific Research
  • University of Nantes
  • King's College London
  • University College London
  • The Francis Crick Institute
  • University of Notre Dame
  • Wayne State University
  • University of Toulouse