42 Works

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: 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...

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: 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...

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: 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: 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: 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: 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: 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...

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: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: 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: 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: Genetic structure and hybridization in the species group of Ficus auriculata: can closely related sympatric Ficus species retain their genetic identity while sharing pollinators?

Zuo-Dong Wei, Noppol Kobmoo, Astrid Cruaud, Finn Kjellberg & Z.-D. Wei
Obligate mutualistic nursery pollination systems between insects and plants have led to substantial co-diversification involving at least some parallel cladogenesis, as documented in Yucca, Ficus and Phyllanthaceae. In such systems pollinators are generally species specific thus limiting hybridization and introgression among interfertile host species. Nevertheless, in the three systems, cases of one insect pollinating several plant species are reported. In most cases host plants sharing pollinators are allopatric. However in the case of the species...

Data from: Cytonuclear discordance among the Southeast Asian Black rats (Rattus rattus complex)

Marie Pagès, Eric Bazin, Maxime Galan, Yannick Chaval, Julien Claude, Vincent Herbreteau, Johan Michaux, Sylvain Piry, Serge Morand & Jean-François Cosson
Black rats are major invasive vertebrate pests with severe ecological, economic and health impacts. Remarkably, their evolutionary history has received little attention, and there is no firm agreement on how many species should be recognized within the black rat complex. This species complex is native to India and Southeast Asia. According to current taxonomic classification, there are three taxa living in sympatry in several parts of Thailand, Cambodia and Lao People's Democratic Republic, where this...

Data from: 16S rRNA amplicon sequencing for epidemiological surveys of bacteria in wildlife

Maxime Galan, Maria Razzauti, Emilie Bard, Maria Bernard, Carine Brouat, Nathalie Charbonnel, Alexandre Dehne-Garcia, Anne Loiseau, Caroline Tatard, Lucie Tamisier, Muriel Vayssier-Taussat, Hélène Vignes & Jean-François Cosson
The human impact on natural habitats is increasing the complexity of human-wildlife interactions and leading to the emergence of infectious diseases worldwide. Highly successful synanthropic wildlife species, such as rodents, will undoubtedly play an increasingly important role in transmitting zoonotic diseases. We investigated the potential for recent developments in 16S rRNA amplicon sequencing to facilitate the multiplexing of the large numbers of samples needed to improve our understanding of the risk of zoonotic disease transmission...

Data from: Genetic structure and inferences on potential source areas for the invasive oriental fruit fly Bactrocera dorsalis (Hendel) based on mitochondrial and microsatellite markers

Wei Shi, Carole Kerdelhué & Hui Ye
Bactrocera dorsalis (Diptera: Tephritidae) is mainly distributed in tropical and subtropical Asia and in the Pacific region. Despite its economic importance, very few studies have addressed the question of the wide genetic structure and potential source area of this species. This pilot study attempts to infer the native region of this pest and its colonization pathways in Asia. Combining mitochondrial and microsatellite markers, we evaluated the level of genetic diversity, genetic structure, and the gene...

Data from: Phylogenetic analyses of mitochondrial and nuclear data in haematophagous flies support the paraphyly of the genus Stomoxys (Diptera: Muscidae)

Najla Dsouli, Frédéric Delsuc, Johan Michaux, Eric De Stordeur, Arnaud Couloux, Michel Veuille & Gérard Duvallet
The genus Stomoxys Geoffroy (Diptera; Muscidae) contains species of parasitic flies that are of medical and economic importance. We conducted a phylogenetic analysis including 10 representative species of the genus including multiple exemplars, together with the closely related genera Prostomoxys Zumpt, Haematobosca Bezzi, and Haematobia Lepeletier & Serville. Phylogenetic relationships were inferred using maximum likelihood and Bayesian methods from DNA fragments from the cytochrome c oxidase subunit I (COI, 753 bp) and cytochrome b (CytB,...

Data from: Are generalist Aphidiinae (Hym. Braconidae) mostly cryptic species complexes?

Stéphane A. P. Derocles, Manuel Plantegenest, Jean-Yves Rasplus, Alexia Marie, Darren M. Evans, David H. Lunt & Anne Le Ralec
Aphidiinae are mostly composed of specialist parasitoids and the few species described as generalist are suspected to be composed of cryptic specialists, almost indistinguishable based on morphological characteristics. The use of molecular markers has proven to be a useful tool for revealing cryptic species complexes and here we use seven mitochondrial and nuclear gene fragments to study possible genetic differentiation among seven Aphidiinae generalists. Maximum likelihood (ML) trees and Bayesian Poisson tree processes (bPTP) models...

Data from: Genetic differentiation of the pine processionary moth at the southern edge of its range: contrasting patterns between mitochondrial and nuclear markers

Mhamed El Mokhefi, Carole Kerdelhué, Christian Burban, Andrea Battisti, Gahdab Chakali & Mauro Simonato
The pine processionary moth (Thaumetopoea pityocampa) is an important pest of coniferous forests at the southern edge of its range in Maghreb. Based on mitochondrial markers, a strong genetic differentiation was previously found in this species between western (pityocampa clade) and eastern Maghreb populations (ENA clade), with the contact zone between the clades located in Algeria. We focused on the moth range in Algeria, using both mitochondrial (a 648 bp fragment of the tRNA-cox2) and...

Data from: Parallel evolution of behaviour during independent host-shifts following maize introduction into Asia and Europe

Vincent Calcagno, Clémentine Mitoyen, Philippe Audiot, Sergine Ponsard, Giu-Zhen Gao, Zhao-Zhi Lu, Zhen-Ying Wang, Kang-Lai He, Denis Bourguet & Gui-Zhen Gao
Maize was introduced into opposite sides of Eurasia 500 years ago, in Western Europe and in Asia. This caused two host-shifts in the phytophagous genus Ostrinia, O. nubilalis (the European corn borer; ECB) and O. furnacalis (the Asian corn borer; ACB) are now major pests of maize worldwide. They originated independently from Dicot-feeding ancestors, similar to O. scapulalis (the Adzuki bean borer; ABB). Unlike other host-plants, maize is yearly harvested, and harvesting practices impose severe...

Data from: Demographic history and genomic diversity and divergence in blue tit populations across heterogeneous environments

Charles Perrier, Quentin Rougemont & Anne Charmantier
Understanding the genomic processes underlying local adaptation is a central aim of modern evolutionary biology. This task requires identifying footprints of local selection but also estimating spatio-temporal variation in population demography and variation in recombination rate and diversity along the genome. Here, we investigated these parameters in blue tit populations inhabiting deciduous versus evergreen forests and insular versus mainland areas, in the context of a previously described strong phenotypic differentiation. Neighboring population pairs of deciduous...

Data from: Genotype-specific interactions between parasitic arthropods

Marion Orsucci, Maria Navajas & Simon Fellous
Despite the ubiquity of coinfection, we know little of the effects of intra-specific genetic variability on coinfection by distinct parasite species. Here we test the hypothesis that parasite multiplication depends on the combination of parasite genotypes that coinfect the host (that is Genotype.parasite × Genotype.parasite interaction). To that aim, we infected tomato leaves with the ecto-parasitic mites Tetranychus urticae and Tetranychus evansi. We tested all possible combinations between four T. urticae and two T. evansi...

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