42 Works

Data from: Landscape genetics highlights the role of bank vole metapopulation dynamics in the epidemiology of Puumala hantavirus

Emmanuel Guivier, Maxime Galan, Yannick Chaval, Anne Xuéreb, Alexis Ribas Salvador, Marie-Lazzarine Poulle, Liina Voutilainen, Heikki Henttonen, Nathalie Charbonnel & Jean François Cosson
Rodent host dynamics and dispersal are thought to be critical for hantavirus epidemiology as they determine pathogen persistence and transmission within and between host populations. We used landscape genetics to investigate how the population dynamics of the bank vole Myodes glareolus, the host of Puumala hantavirus (PUUV), vary with forest fragmentation and influence PUUV epidemiology. We sampled vole populations within the Ardennes, a French PUUV endemic area. We inferred demographic features such as population size,...

Data from: Genetic, morphological and acoustic evidence reveals lack of diversification in the colonization process in an island bird

Juan Carlos Illera, Ana M. Palmero, Paola Laiolo, Felipe Rodríguez, Ángel C. Moreno & Miguel Navascués
Songbirds with recently (i.e. early Holocene) founded populations are suitable models for studying incipient differentiation in oceanic islands. On such systems each colonization event represents a different evolutionary episode that can be studied by addressing sets of diverging phenotypic and genetic traits. We investigate the process of early differentiation in the spectacled warbler (Sylvia conspicillata) in 14 populations separated by sea barriers from three Atlantic archipelagos and from continental regions spanning from tropical to temperate...

Data from: Long live the alien: is high genetic diversity a pivotal aspect of crested porcupine (Hystrix cristata) long-lasting and successful invasion?

Emiliano Trucchi, Benoit Facon, Paolo Gratton, Emiliano Mori, Nils Chr. Stenseth & Sissel Jentoft
Studying the evolutionary dynamics of an alien species surviving and continuing to expand after several generations can provide fundamental information on the relevant features of clearly successful invasions. Here, we tackle this task by investigating the dynamics of the genetic diversity in invasive crested porcupine (Hystrix cristata) populations, introduced to Italy about 1500 years ago, which are still growing in size, distribution range and ecological niche. Using genome-wide RAD markers, we describe the structure of...

Data from: Assessing the distribution of disease-bearing rodents in human-modified tropical landscapes

Serge Morand, Frédéric Bordes, Kim Blasdell, Shai Pilosof, Jean-François Cornu, Kittipong Chaisiri, Yannick Chaval, Jean-François Cosson, Julien Claude, Tristan Feyfant, Vincent Herbreteau, Stéphane Dupuy & Annelise Tran
1. We tested how habitat structure and fragmentation affect the spatial distribution of common murine rodents inhabiting human-dominated landscapes in southeast Asia. The spatial distribution patterns observed for each rodent species were then used to assess how changes in habitat structure may potentially affect the risk of several major rodent-borne diseases. 2. For this analysis, we used an extensive geo-referenced database containing details of rodents trapped from seven sites in Thailand, Cambodia and Lao PDR....

Data from: The effects of climate change on a mega-diverse country: predicted shifts in mammalian species richness and turnover in continental Ecuador.

Paula Iturralde-Pólit, Olivier Dangles, Santiago F. Burneo & Christine N. Meynard
Ecuador is one of 17 nations with the greatest diversity in the world, sheltering lowland and mountain regions that are considered global biodiversity hotspots. While these regions are projected to be highly impacted by climate change, it is not clear what would be the consequences for faunal diversity and conservation. To address this issue, we used an ensemble of 8 species distribution models (SDM) to determine future shifts and identify areas of high changes in...

The interacting effect of habitat amount, habitat diversity and fragmentation on insect diversity along elevational gradients.

Enric Frago, Niry T. Dianzinga, Marie-Ludders Moutoussamt, Joëlle Sadeyen & Lala Ravaomanarivo
Aim: Elevational gradients are a useful approach to evaluate how environmental factors affect animal diversity. Decades of studies on the elevation-diversity gradient have revealed that this gradient varies greatly with taxa and geographic regions. One potential explanation for this may be the dependence of the relationship on landscape features. We explore the impact of fragmentation, habitat diversity and habitat amount on insect diversity (alpha and beta) and abundance along elevational gradients. We hypothesize that insect...

Data from: Host-parasite network structure is associated with community-level immunogenetic diversity

Shai Pilosof, Miguel A. Fortuna, Jean-François Cosson, Maxime Galan, Chaisiri Kittipong, Alexis Ribas, Eran Segal, Boris R. Krasnov, Serge Morand & Jordi Bascompte
Genes of the major histocompatibility complex (MHC) encode proteins that recognize foreign antigens and are thus crucial for immune response. In a population of a single host species, parasite-mediated selection drives MHC allelic diversity. However, in a community-wide context, species interactions may modulate selection regimes because the prevalence of a given parasite in a given host may depend on its prevalence in other hosts. By combining network analysis with immunogenetics, we show that host species...

Data from: Contrasted invasion processes imprint the genetic structure of an invasive scale insect across southern Europe

Carole Kerdelhué, Thomas Boivin & Christian Burban
Deciphering the colonization processes by which introduced pests invade new areas is essential to limit the risk of further expansion and/or multiple introductions. We here studied the invasion history of the maritime pine bast scale Matsucoccus feytaudi. This host-specific insect does not cause any damage in its native area, but it devastated maritime pine forests of South-Eastern France where it was detected in the 1960s, and since then reached Italy and Corsica. We used population...

Data from: Genetic structure of populations of whale sharks among ocean basins and evidence for their historic rise and recent decline

Thomas M. Vignaud, Jeffrey A. Maynard, Raphael Leblois, Mark G. Meekan, Ricardo Vázquez-Juárez, Dení Ramírez-Macías, Simon J. Pierce, David Rowat, Michael L. Berumen, Champak Beeravolu, Sandra Baksay & Serge Planes
This study presents genetic evidence that whale sharks, Rhincodon typus, are comprised of at least two populations that rarely mix and is the first to document a population expansion. Relatively high genetic structure is found when comparing sharks from the Gulf of Mexico with sharks from the Indo-Pacific. If mixing occurs between the Indian and Atlantic Oceans, it is not sufficient to counter genetic drift. This suggests whale sharks are not all part of a...

Data from: Congruent signals of population history but radically different patterns of genetic diversity between mitochondrial and nuclear markers in a mountain lizard

Anne-Laure Ferchaud, Rémy Eudeline, Véronique Arnal, Marc Cheylan, Gilles Pottier, Raphaël Leblois & Pierre-Andre Crochet
Historical factors, current population size, population connectivity and selective processes at linked loci contribute to shaping contemporary patterns of neutral genetic diversity. It is now widely acknowledged that nuclear and mitochondrial markers react differently to current demography as well as to past history, so the use of both types of markers is often advocated to gain insight on both historical and contemporary processes. We used 12 microsatellite loci genotyped in 13 populations of a mountain...

Data from: Evidence for low-level hybridization between two allochronic populations of the pine processionary moth, Thaumetopoea pityocampa (Lepidoptera: Notodontidae)

Christian Burban, Mathieu Gautier, Raphael Leblois, Julie Landes, Helena Santos, Maria-Rosa Païva, Manuela Branco & Carole Kerdelhué
Divergence between populations sharing the same habitat can be initiated by different reproductive times, leading to allochronic differentiation. A spatially localized allochronic summer population (SP) of the pine processionary moth Thaumetopoea pityocampa, recently discovered in Portugal, occurs in sympatry with the local winter population (WP). We examined the level of genetic differentiation between the two populations and estimated the current gene flow within the spatial framework of their co-occurrence. Mitochondrial data indicated that the two...

Data from: Genetic structure and invasion history of the house mouse (Mus musculus domesticus) in Senegal, West Africa: a legacy of colonial and contemporary times

Cédric Lippens, Arnaud Estoup, Maman H. Karmadini, Anne Loiseau, Caroline Tatard, Ambroise Dalecky, Khalilou Bâ, Mamadou Kane, Mamoudou Diallo, Aliou Sow, Youssoupha Niang, Sylvain Piry, Karine Berthier, Raphaël Lebois, Jean-Marc Duplantier & Carine Brouat
Knowledge of the genetic make-up and demographic history of invasive populations is critical to understand invasion mechanisms. Commensal rodents are ideal models to study whether complex invasion histories are typical of introductions involving human activities. The house mouse Mus musculus domesticus is a major invasive synanthropic rodent originating from South-West Asia. It has been largely studied in Europe and on several remote islands, but the genetic structure and invasion history of this taxon have been...

Data from: Landscape features and helminth co-infection shape bank vole immunoheterogeneity, with consequences for Puumala virus epidemiology

Nathalie Charbonnel, Emmanuel Guivier, Maxime Galan, Heikki Henttonen & Jean-Francois Cosson
Heterogeneity in environmental conditions helps to maintain genetic and phenotypic diversity in ecosystems. As such, it may explain why the capacity of animals to mount immune responses is highly variable. The quality of habitat patches, in terms of resources, parasitism, predation and habitat fragmentation may, for example, trigger trade-offs ultimately affecting the investment of individuals in various immunological pathways. We described spatial immunoheterogeneity in bank vole populations with respect to landscape features and co-infection. We...

Data from: A phylogenetic analysis of the megadiverse Chalcidoidea (Hymenoptera)

John M. Heraty, Roger A. Burks, Astrid Cruaud, Gary A. P. Gibson, Johan Liljeblad, James Munro, Jean-Yves Rasplus, Gerard Delvare, Petr Janšta, Alex Gumovsky, John Huber, James B. Woolley, Lars Krogmann, Steve Heydon, Andrew Polaszek, Stefan Schmidt, D. Chris Darling, Michael W. Gates, Jason Mottern, Elizabeth Murray, Ana Dal Molin, Serguei Triapitsyn, Hannes Baur, John D. Pinto, Simon Van Noort … & Matthew Yoder
Chalcidoidea (Hymenoptera) is extremely diverse with an estimated 500 000 species. We present the first phylogenetic analysis of the superfamily based on both morphological and molecular data. A web-based, systematics workbench mx was used to score 945 character states illustrated by 648 figures for 233 morphological characters for a total of 66 645 observations for 300 taxa. The matrix covers 22 chalcidoid families recognized herein and includes 268 genera within 78 of 83 subfamilies. Morphological...

Data from: Postglacial climate changes and rise of three ecotypes of harbor porpoises, Phocoena phocoena, in western Palearctic waters

Michaël C. Fontaine, Kathleen Roland, Isabelle Calves, Frederic Austerlitz, Friso P. Palstra, Krystal A. Tolley, Sean Ryan, Marisa Ferreira, Thierry Jauniaux, Angela Llavona, Bayram Öztürk, Ayaka A. Öztürk, Vincent Ridoux, Emer Rogan, Ursula Siebert, Marina Sequeira, Gísli A. Vikingsson, Asunción Borrell, Johan R. Michaux & Alex Aguilar
Despite no obvious barriers to gene flow in the marine realm, environmental variation and ecological specializations can lead to genetic differentiation in highly mobile predators. Here, we investigated the genetic structure of the harbor porpoise over the entire species distribution range in western Palearctic waters. Combined analyses of ten microsatellite loci and a 5,085 bases-pairs portion of the mitochondrial genome revealed the existence of three ecotypes, equally divergent at the mitochondrial genome, distributed in the...

Data from: Recent population decline and selection shape diversity of taxol-related genes

Concetta Burgarella, Miguel Navascués, Mario Zabal-Aguirre, Elisa Berganzo, Miquel Riba, María Mayol, Giovanni G. Vendramin & Santiago C. González-Martínez
Taxanes are defensive metabolites produced by Taxus species (yews) and used in anticancer therapies. Despite their medical interest, patterns of natural diversity in taxane related genes are unknown. We examined variation at five main taxol-related genes of T. baccata in the Iberian Peninsula, a region where unique yew genetic resources are endangered. We looked at several gene features and applied complementary neutrality tests, including diversity/divergence tests, tests solely based on site-frequency spectrum and Zeng’s compound...

Data from: Morphometric analysis and taxonomic revision of Anisopteromalus Ruschka (Hymenoptera: Chalcidoidea: Pteromalidae) – an integrative approach

Hannes Baur, Yvonne Kranz-Baltensperger, Astrid Cruaud, Jean-Yves Rasplus, Alexander V. Timokhov & Vladimir E. Gokhman
We use an integrative taxonomic approach to revise the genus Anisopteromalus. In particular, we apply multivariate ratio analysis (MRA), a rather new statistical method based on principal component analysis (PCA) and linear discriminant analysis (LDA), to numerous body measurements and combine the data with those from our molecular analysis of Cytb and ITS2 genetic markers (on a subset of species) and all available published data on morphology, karyology, behavior, host associations, and geographic distribution. We...

Data from: Inferring the origin of populations introduced from a genetically structured native range by approximate Bayesian computation: case study of the invasive ladybird Harmonia axyridis

Eric Lombaert, Thomas Guillemaud, Cathleen E. Thomas, Lori J. Lawson Handley, Jiahui Li, Su Wang, Hong Pang, Irina Goryacheva, Ilya A. Zakharov, Emmanuelle Jousselin, Remy L. Poland, Alain Migeon, Joop Van Lenteren, Patrick De Clercq, Nick Berkvens, Walker Jones & Arnaud Estoup
Correct identification of the source population of an invasive species is a prerequisite for testing hypotheses concerning the factors responsible for biological invasions. The native area of invasive species may be large, poorly known and/or genetically structured. Because the actual source population may not have been sampled, studies based on molecular markers may generate incorrect conclusions about the origin of introduced populations. In this study, we characterized the genetic structure of the invasive ladybird Harmonia...

Data from: Role of propagule pressure in colonization success: disentangling the relative importance of demographic, genetic and habitat effects

Ruth A. Hufbauer, Alexis Rutschmann, Bruno Serrate, Hervé Vermeil De Conchard & Benoît Facon
High propagule pressure is arguably the only consistent predictor of colonization success. More individuals enhance colonization success because they aid in overcoming demographic consequences of small population size (e.g. stochasticity and Allee effects). The number of founders can also have direct genetic effects: with fewer individuals, more inbreeding and thus inbreeding depression will occur, whereas more individuals typically harbour greater genetic variation. Thus, the demographic and genetic components of propagule pressure are interrelated, making it...

Data from:Insight into the durability of plant resistance to aphids from a demo-genetic study of Aphis gossypii in melon crops

Sophie Thomas, Flavie Vanlerberghe-Masutti, Pascale Mistral, Anne Loiseau & Nathalie Boissot
Resistance breakdown has been observed following the deployment of plant cultivars resistant to pests. Assessing the durability of a resistance requires long-term experiments at least at a regional scale. We collected such data for melon resistance conferred by the Vat gene cluster to melon aphids. We examined landscape-level populations of Aphis gossypii collected in 2004–2015, from melon-producing regions with and without the deployment of Vat resistance and with different climates. We conducted demo-genetic analyses of...

Data from: Multilocus phylogeny and ecological differentiation of the “Eupelmus urozonus species group” (Hymenoptera, Eupelmidae) in the West-Palaearctic

Fadel Al Khatib, Astrid Cruaud, Lucian Fusu, Gwenaëlle Genson, Jean-Yves Rasplus, Nicolas Ris & Gérard Delvare
Background: The ecological differentiation of insects with parasitic life-style is a complex process that may involve phylogenetic constraints as well as morphological and/or behavioural adaptations. In most cases, the relative importance of these driving forces remains unexplored. We investigate here this question for the “Eupelmus urozonus species group” which encompasses parasitoid wasps of potential interest in biological control. This was achieved using seven molecular markers, reliable records on 91 host species and a proxy of...

Data from: Invasive Drosophila suzukii facilitates Drosophila melanogaster infestation and sour rot outbreaks in the vineyards

Antoine Rombaut, Robin Guilhot, Anne Xuereb, Laure Benoit, Marie Pierre Chapuis, Patricia Gibert & Simon Fellous
How do invasive pests affect interactions between members of pre-existing agrosystems? The invasive pest Drosophila suzukii is suspected to be involved in the aetiology of sour rot, a grapevine disease that otherwise develops following Drosophila melanogaster infestation of wounded berries. We combined field observations with laboratory assays to disentangle the relative roles of both Drosophila in disease development. We observed the emergence of numerous D. suzukii, but no D. melanogaster flies, from bunches that started...

Data from: Insights into the genetic history of French cattle from dense SNP data on 47 worldwide breeds

Mathieu Gautier, Denis Laloë & Katayoun Moazami-Goudarzi
BACKGROUND: Modern cattle originate from populations of the wild extinct aurochs through a few domestication events which occurred about 8,000 years ago. Newly domesticated populations subsequently spread worldwide following breeder migration routes. The resulting complex historical origins associated with both natural and artificial selection have led to the differentiation of numerous different cattle breeds displaying a broad phenotypic variety over a short period of time. METHODOLOGY/PRINCIPAL FINDINGS: This study gives a detailed assessment of cattle...

Data from: High-throughput microsatellite isolation through 454 GS-FLX Titanium pyrosequencing of enriched DNA libraries

Thibaut Malausa, André Gilles, Emese Meglécz, Hélène Blanquart, Stéphanie Duthoy, Caroline Costedoat, Vincent Dubut, Nicolas Pech, Philippe Castagnone-Sereno, Christophe Délye, Nicolas Feau, Pascal Frey, Philippe Gauthier, Thomas Guillemaud, Laurent Hazard, Valérie Le Corre, Brigitte Lung-Escarmant, Pierre-Jean G Malé, Stéphanie Ferreira & Jean-François Martin
Microsatellites (or SSR: simple sequence repeat) are among the most frequently used DNA markers in many areas of research. The use of microsatellite markers is limited by the difficulties involved in their de novo isolation from species for which no genomic resources are available. We describe here a high-throughput method for isolating microsatellite markers based on coupling multiplex microsatellite enrichment and Next-Generation Sequencing on 454 GS-FLX Titanium platforms. The procedure was calibrated on a model...

Data from: Invasion genetics of the introduced black rat (Rattus rattus) in Senegal, West Africa

Adam Konečný, Arnaud Estoup, Jean-Marc Duplantier, Josef Bryja, Khalilou Ba, Maxime Galan, Caroline Tatard & Jean-François Cosson
An understanding of the evolutionary history and dynamics of invasive species is required for the construction of predictive models of future spread, and the design of biological management measures. The black rat (Rattus rattus) is a major vertebrate invader with a worldwide distribution. Despite the severe ecological, economic and health impacts of this species, its evolutionary history has been little studied. We carried out extensive specimen sampling in Senegal, West Africa, and used microsatellite markers...

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