39 Works

Data from: Comparing van Oosterhout and Chybicki-Burczyk methods of estimating null allele frequencies for inbred populations

Pascal Campagne, Peter E. Smouse, Georges Varouchas, Jean-Francois Silvain, Bruno Le Rü, J.-F. Silvain & B. Leru
In spite of the usefulness of codominant markers in population genetics, the existence of null alleles raises challenging estimation issues in natural populations that are characterized by positive inbreeding coefficients (F > 0). Disregarding the possibility of F > 0 in a population will generally lead to overestimates of null allele frequencies. Conversely, estimates of inbreeding coefficients (F) may be strongly biased upwards (excess homozygotes), in the presence of nontrivial frequencies of null alleles. An...

Data from: Dynamic transmission, host quality and population structure in a multi-host parasite of bumble bees

Mario Xavier Ruiz-González, John Bryden, Yannick Moret, Christine Reber-Funk, Paul Schmid-Hempel & Mark J. F. Brown
The evolutionary ecology of multi-host parasites is predicted to depend upon patterns of host quality and the dynamics of transmission networks. Depending upon the differences in host quality and transmission asymmetries, as well as the balance between intra- and inter-specific transmission, the evolution of specialist or generalist strategies is predicted. Using a trypanosome parasite of bumble bees we ask how host quality and transmission networks relate to parasite population structure across host species, and thus...

Data from: New environmental metabarcodes for analysing soil DNA: potential for studying past and present ecosystems

Laura S. Epp, Sanne Boessenkool, Eva P. Bellemain, James Haile, Alfonso Esposito, Tiayyba Riaz, Christer Erséus, Vladimir I. Gusarov, Mary E. Edwards, Arild Johnsen, Hans K. Stenøien, Kristian Hassel, Håvard Kauserud, Nigel G. Yoccoz, Kari Anne Bråthen, Eske Willerslev, Pierre Taberlet, Eric Coissac & Christian Brochmann
Metabarcoding approaches use total and typically degraded DNA from environmental samples to analyse biotic assemblages and can potentially be carried out for any kinds of organisms in an ecosystem. These analyses rely on specific markers, here called metabarcodes, which should be optimized for taxonomic resolution, minimal bias in amplification of the target organism group and short sequence length. Using bioinformatic tools, we developed metabarcodes for several groups of organisms: fungi, bryophytes, enchytraeids, beetles and birds....

Data from: Artificial selection on allometry: change in elevation but not slope

Camilla K. Egset, Thomas F. Hansen, Arnaud Le Rouzic, Geir H. Bolstad, Gunilla Rosenqvist & Christophe Pélabon
To what extent within-species (static) allometries constitute a constraint on evolution is the subject of a long-standing debate in evolutionary biology. A prerequisite for the constraint hypothesis is that static allometries are hard to change. Several studies have attempted to test this hypothesis with artificial-selection experiments, but their results remain inconclusive due to various methodological issues. Here, we present results from an experiment in which we selected independently on the slope and the elevation of...

Data from: Adaptive radiation driven by the interplay of eco-evolutionary and landscape dynamics

Robin Aguilée, David Claessen & Amaury Lambert
We investigate an individual-based model of adaptive radiation based on the biogeographical changes of the Great African Lakes where cichlid fishes radiated. In our model, the landscape consists of a mosaic of three habitat types which may or may not be separated by geographic barriers. We study the effect of the alternation between allopatry and sympatry called landscape dynamics. We show that landscape dynamics can generate a significantly higher diversity than allopatric or sympatric speciation...

Data from: Pairing context determines condition-dependence of song rate in a monogamous passerine bird

Morgan David, Yannick Auclair, Sasha R. X. Dall & Frank Cézilly
Condition-dependence of male ornaments is thought to provide honest signals on which females can base their sexual choice for genetic quality. Recent studies show that condition-dependence patterns can vary within populations. Although long-term association is thought to promote honest signalling, no study has explored the influence of pairing context on the condition-dependence of male ornaments. In this study, we assessed the influence of natural variation in body condition on song rate in zebra finches (Taeniopygia...

Data from: Mutation rate dynamics in a bacterial population reflect tension between adaptation and genetic load

Sébastien Wielgoss, Jeffrey E. Barrick, Olivier Tenaillon, Michael J. Wiser, W. James Dittmar, Stéphane Cruveiller, Béatrice Chane-Woon-Ming, Claudine Médigue, Richard E. Lenski & Dominique Schneider
Mutations are the ultimate source of heritable variation for evolution. Understanding how mutation rates themselves evolve is thus essential for quantitatively understanding many evolutionary processes. According to theory, mutation rates should be minimized for well-adapted populations living in stable environments, whereas hypermutators may evolve if conditions change. However, the long-term fate of hypermutators is unknown. Using a phylogenomic approach, we found that an adapting Escherichia coli population that first evolved a mutT hypermutator phenotype was...

Data from: Intergametophytic selfing and microgeographic genetic structure shape populations of the intertidal red seaweed Chondrus crispus

Stacy A. Krueger-Hadfield, Denis Roze, Stephane Mauger & Myriam Valero
Understanding how abiotic factors influence the spatial distribution of genetic variation provides insight into microevolutionary processes. The intertidal seascape is characterized by highly heterogeneous habitats which probably influence the partitioning of genetic variation at very small scales. The effects of tidal height on genetic variation in both the haploid (gametophytes) and diploid (tetrasporophytes) stages of the red alga Chondrus crispus were studied. Fronds were sampled every 25 cm within a 5 m × 5 m...

Data from: Stretched to the limit; can a short pelagic larval duration connect adult populations of an Indo-Pacific diadromous fish (Kuhlia rupestris)?

Pierre Feutry, Alan Vergnes, Damien Broderick, Josie Lambourdière, Philippe Keith & Jennifer R. Ovenden
Freshwater species on tropical islands face localized extinction and the loss of genetic diversity. Their habitats can be ephemeral due to variability in freshwater run-off and erosion. Even worse, anthropogenic effects on these ecosystems are intense. Most of these species are amphidromous or catadromous (i.e. their life cycle includes a marine larval phase), which buffers them against many of these effects. A long pelagic larval duration (PLD) was thought to be critical to ensure the...

Data from: Genetic polymorphism in dopamine receptor D4 is associated with early body condition in a large population of greater flamingos, Phoenicopterus roseus

Mark A. F. Gillingham, Arnaud Béchet, Julia Geraci, Remi Wattier, Christine Dubreuil & Frank Cezilly
Body condition is an important determinant of fitness in many natural populations. However, as for many fitness traits, the underlying genes that regulate body condition remain elusive. The dopamine receptor D4 gene (DRD4) is a promising candidate as dopamine is known to play an important role in the regulation of food intake and the metabolism of both glucose and lipids in vertebrates. In this study we take advantage of a large dataset of greater flamingos,...

Data from: Testing the influence of family structure and outbreeding depression on heterozygosity-fitness correlations in small populations

Helene Jourdan-Pineau, Joy Folly, Pierre-André Crochet & Patrice David
Theory predicts that positive Heterozygosity-Fitness Correlations (HFC) arise as a consequence of inbreeding, which is often assumed to have a strong impact in small, fragmented populations. Yet according to empirical data, HFC in such populations seem highly variable and impredictible. We here discuss two overlooked phenomena that may contribute to this variation. First, in a small population, each generation may consist of a few families. This generates random correlations between particular alleles and fitness (AFC,...

Data from: Kin selection, not group augmentation, predicts helping in an obligate cooperatively breeding bird

Lucy E. Browning, Samantha C. Patrick, Lee A. Rollins, Simon C. Griffith & Andrew F. Russell
Kin selection theory has been the central model for understanding the evolution of cooperative breeding, where non-breeders help bear the cost of rearing young. Recently the dominance of this idea has been questioned; particularly in obligate cooperative breeders where breeding without help is uncommon and seldom successful. In such systems, the direct benefits gained through augmenting current group size have been hypothesised to provide a tractable alternative (or addition) to kin selection. However, clear empirical...

Data from: The banana (Musa acuminata) genome and the evolution of monocotyledonous plants

Angelique D'Hont, France Denoeud, Jean-Marc Aury, Franc-Christophe Baurens, Françoise Carreel, Olivier Garsmeur, Benjamin Noel, Stéphanie Bocs, Gaëtan Droc, Mathieu Rouard, Corinne Da Silva, Jabbari Kamel, Céline Cardi, Julie Poulain, Marlène Souquet, Karine Labadie, Cyril Jourda, Juliette Lengellé, Marguerite Rodier-Goud, Adriana Alberti, Maria Bernard, Margot Correa, Saravanaraj Ayyampalayam, Michael R. McKain, Jim Leebens-Mack … & Patrick Wincker
Bananas (Musa spp.), including dessert and cooking types, are giant perennial monocotyledonous herbs of the order Zingiberales, a sister group to the well-studied Poales, which include cereals. Bananas are vital for food security in many tropical and subtropical countries and the most popular fruit in industrialized countries1. The Musa domestication process started some 7,000 years ago in Southeast Asia. It involved hybridizations between diverse species and subspecies, fostered by human migrations2, and selection of diploid...

Data from: Genetic drift and collective dispersal can result in chaotic genetic patchiness

Thomas Broquet, Frédérique Viard & Jonathan M. Yearsley
Chaotic genetic patchiness denotes unexpected patterns of genetic differentiation that are observed at a fine scale and are not stable in time. These patterns have been described in marine species with free-living larvae, but are unexpected because they occur at a scale below the dispersal range of pelagic larvae. At the scale where most larvae are immigrants, theory predicts spatially homogeneous, temporally stable genetic variation. Empirical studies have suggested that genetic drift interacts with complex...

Data from: Mature male parr contribution to the effective size of an anadromous Atlantic salmon (Salmo salar) population over 30 years

Devon L. Johnstone, Michael F. O'Connell, Friso P. Palstra & Daniel E. Ruzzante
We describe temporal changes in the genetic composition of a small anadromous Atlantic salmon (Salmo salar) population from South Newfoundland, an area where salmon populations are considered threatened (COSEWIC 2010). We examined the genetic variability (13 microsatellite loci) in 869 out-migrating smolt and post-spawning kelt samples, collected from 1985 to 2011 for a total of 22 annual collections and a 30 year span of assigned cohorts. We estimated the annual effective number of breeders (Nb)...

Data from: Global genetic analysis reveals the putative native source of the invasive termite, Reticulitermes flavipes, in France

Elfie Perdereau, Anne-Geneviève Bagnères-Urbany, Stephanie Bankhead-Dronnet, Simon Dupont, Marie Zimmermann, Edward L. Vargo & Franck Dedeine
Biological invasions are recognized as a major threat to both natural and managed ecosystems. Phylogeographic and population genetic analyses can provide information about the geographical origins and patterns of introduction and explain the causes and mechanisms by which introduced species have become successful invaders. Reticulitermes flavipes is a North American subterranean termite that has been introduced into several areas, including France where introduced populations have become invasive. To identify likely source populations in the USA...

Data from: Are species’ responses to global change predicted by past niche evolution?

Sébastien Lavergne, Margaret E. K. Evans, Ian J. Burfield, Frederic Jiguet & Wilfried Thuiller
Predicting how and when adaptive evolution might rescue species from global change, and integrating this process into tools of biodiversity forecasting, has now become an urgent task. Here we explored whether recent population trends of species can be explained by their past rate of niche evolution, which can be inferred from increasingly available phylogenetic and niche data. We examined the assemblage of 409 European bird species for which estimates of demographic trends between 1970 and...

Data from: Direct genetic evidence for reproductive philopatry and associated fine-scale migrations in female blacktip reef sharks (Carcharhinus melanopterus) in French Polynesia.

Johann Mourier & Serge Planes
Conservation of top predators has been emphasised as essential in an ecosystem due to their role in trophic chain regulation. Optimization of conservation strategies for these endangered marine top predators requires direct estimates of breeding patterns and connectivity, which are essential to understand their population dynamics. While there have been some attempts to investigate breeding patterns of reef sharks from litter reconstruction using molecular analyses, direct fine-scale migrations of female sharks for parturition as well...

Data from: Testing and quantifying phylogenetic signals and homoplasy in morphometric data

Christian Peter Klingenberg & Nelly A. Gidaszewski
The relationship between morphometrics and phylogenetic analysis has long been controversial. Here we propose an approach that is based on mapping morphometric traits onto phylogenies derived from other data and thus avoids the pitfalls encountered by previous studies. This method treats shape as a single, multidimensional character. We propose a test for the presence of a phylogenetic signal in morphometric data, which simulates the null hypothesis of the complete absence of phylogenetic structure by permutation...

Data from: Adaptive value of phenological traits in stressful environments: predictions based on seed production and laboratory natural selection

Benjamin Brachi, Carla Aimé, Cédric Glorieux, Joel Cuguen & Fabrice Roux
Phenological traits often show variation within and among natural populations of annual plants. Nevertheless, the adaptive value of post-anthesis traits is seldom tested. In this study, we estimated the adaptive values of pre- and post-anthesis traits in two stressful environments (water stress and interspecific competition), using the selfing annual species Arabidopsis thaliana. By estimating seed production and by performing laboratory natural selection (LNS), we assessed the strength and nature (directional, disruptive and stabilizing) of selection...

Data from: Experimental evidence of early costs of reproduction in conspecific viviparous and oviparous lizards

Josefa Bleu, Benoit Heulin, Claudy Haussy, Sandrine Meylan & Manuel Massot
Reproduction entails costs, and disentangling the relative importance of each stage of the reproductive cycle may be important to assess the costs and benefits of different reproductive strategies. We studied the early costs of reproduction in oviparous and viviparous lizard females of the bimodal reproductive species Zootoca vivipara. Egg-retention time in oviparous females is approximately one third of the time in viviparous females. We compared the vitellogenesis and egg-retention stages which are common to both...

Data from: The maintenance of obligate sex in finite, structured populations subject to recurrent beneficial and deleterious mutation

Matthew Hartfield, Sarah P. Otto & Peter David Keightley
Although there is no known general explanation as to why sexual populations resist asexual invasion, previous work has shown that sexuals can outcompete asexuals in structured populations. However, it is currently unknown whether costly sex can be maintained with the weak structure that is commonly observed in nature. We investigate the conditions under which obligate sexuals resist asexual invasion in structured populations subject to recurrent mutation. We determine the level of population structure needed to...

Data from: Migratory constraints on yolk precursors limit yolk androgen deposition and underlie a brood reduction strategy in rockhopper penguins

Glenn T. Crossin, Maud Poisbleau, Laurent Demongin, Olivier Chastel, Tony D. Williams, Marcel Eens & Petra Quillfeldt
Hormonally mediated maternal effects link maternal phenotype and environmental conditions to offspring phenotype. The production of lipid-rich maternal yolk precursors may provide a mechanism by which lipophilic steroid hormones can be transported to developing yolks, thus predicting a positive correlation between yolk precursors in mothers and androgen levels in eggs. Using rockhopper penguins (Eudyptes chrysocome), which produce a two-egg clutch characterized by extreme egg-size dimorphism, reversed hatching asynchrony and brood-reduction, we examined correlations between circulating...

Data from: An experimental test of the transmission−virulence trade-off hypothesis in a plant virus

Juliette Doumayrou, Astrid Avellan, Rémy Froissart & Yannis Michalakis
The transmission–virulence trade-off hypothesis is one of the few adaptive explanations of virulence evolution, and assumes that there is an overall positive correlation between parasite transmission and virulence. The shape of the transmission–virulence relationship predicts whether virulence should evolve toward either a maximum or to an intermediate optimum. A positive correlation between each of these traits and within-host growth is often suggested to underlie the relationship between virulence and transmission. There are few experimental tests...

Data from: Phylogeography, genetic structure and population divergence time of cheetahs in Africa and Asia: evidence for long-term geographic isolates

Pauline Charruau, Carlos Fernandes, Pablo Orozco-TerWengel, Joris Peters, Luke Hunter, H. Ziaie, A. Jourabchian, H. Jowkar, Georges Schaller, Stephane Ostrowski, Paul Vercammen, Thierry Grange, Christian Schlötterer, Antoinette Kotze, Eva-Maria Geigl, Chris Walzer & Pamela A. Burger
The cheetah (Acinonyx jubatus) has been described as a species with low levels of genetic variation. This has been suggested to be the consequence of a demographic bottleneck 10 000–12 000 years ago (ya) and also led to the assumption that only small genetic differences exist between the described subspecies. However, analysing mitochondrial DNA and microsatellites in cheetah samples from most of the historic range of the species we found relatively deep phylogeographic breaks between...

Registration Year

  • 2012

Resource Types

  • Dataset


  • French National Centre for Scientific Research
  • University of Oslo
  • Centre d'Ecologie Fonctionnelle et Evolutive
  • Natural History Museum
  • University of Lausanne
  • University of California, Berkeley
  • Dalhousie University
  • University of Southampton
  • French National Institute for Agricultural Research
  • University of Paris-Sud