Data from: Modeling additive and non-additive effects in a hybrid population using genome-wide genotyping: prediction accuracy implicationsJean-Marc Bouvet, Garel Makouanzi, David Cros & Philippe Vigneron
Hybrids are broadly used in plant breeding and accurate estimation of variance components is crucial for optimizing genetic gain. Genome-wide information may be used to explore models designed to assess the extent of additive and non-additive variance and test their prediction accuracy for the genomic selection. Ten linear mixed models, involving pedigree- and marker-based relationship matrices among parents, were developed to estimate additive (A), dominance (D) and epistatic (AA, AD and DD) effects. Five complementary...
Data from: Distribution and population structure of the anther smut fungus Microbotryum silenes-acaulis parasitizing an arctic-alpine plantBritta Bueker, Chris Eberlein, Pierre Gladieux, Angela Schaefer, Alodie Snirc, Dominic Bennett, Dominik Begerow, Michael Hood, Tatiana Giraud & Dominic J. Bennett
Cold-adapted organisms with current arctic-alpine distributions have persisted during the last glaciation in multiple ice-free refugia, leaving footprints in their population structure that contrast with temperate plants and animals. However, pathogens that live within hosts having arctic-alpine distributions have been little studied. Here, we therefore investigated the geographical range and population structure of a fungus parasitizing an arctic-alpine plant. A total of 1437 herbarium specimens of the plant Silene acaulis were examined, and the anther...
Data from: Microsatellite evolutionary rate and pattern in Schistocerca gregaria inferred from direct observation of germline mutationsMarie-Pierre Chapuis, Christophe Plantamp, Réjane Streiff, Laurence Blondin, Cyril Piou & M.-P. Chapuis
Unravelling variation among taxonomic orders regarding the rate of evolution in microsatellites is crucial for evolutionary biology and population genetics research. The mean mutation rate of microsatellites tends to be lower in arthropods than in vertebrates, but data are scarce and mostly concern accumulation of mutations in model species. Based on parent-offspring segregations and a hierarchical Bayesian model, the mean rate of mutation in the orthopteran insect Schistocerca gregaria was estimated at 2.1e-4 per generation...
Data from: Spatial heterogeneity in landscape structure influences dispersal and genetic structure: empirical evidence from a grasshopper in an agricultural landscapeBertrand Gauffre, Sophie Mallez, Marie-Pierre Chapuis, Leblois Raphael, Isabelle Litrico, Sabrina Delaunay, Isabelle Badenhausser & Raphael Leblois
Dispersal may be strongly influenced by landscape and habitat characteristics that could either enhance or restrict movements of organisms. Therefore, spatial heterogeneity in landscape structure could influence gene flow and the spatial structure of populations. In the past decades, agricultural intensification has led to the reduction in grassland surfaces, their fragmentation and intensification. As these changes are not homogeneously distributed in landscapes, they have resulted in spatial heterogeneity with generally less intensified hedged farmland areas...
Data from: Taxonomic and functional composition of arthropod assemblages across contrasting Amazonian forestsP. A. Greg Lamarre, Bruno Hérault, Paul V. A. Fine, Vincent Vedel, Roland Lupoli, Italo Mesones, Christopher Baraloto & Greg P. A. Lamarre
Arthropods represent most of global biodiversity, with the highest diversity found in tropical rainforests. Nevertheless, we have a very incomplete understanding of how tropical arthropod communities are assembled. We conducted a comprehensive mass-sampling of arthropod communities within three major habitat types of lowland Amazonian rainforest, including terra firme clay, white-sand, and seasonally-flooded forests in Peru and French Guiana. We examined how taxonomic and functional composition (at the family level) differed across these habitat types in...
PREMISE OF THE STUDY: The genome size of a species (C-value) is associated with growth, development and adaptation to environmental changes. Angiosperm C-values range 1200-fold and frequently vary within species, although little is known about the impacts of domestication on genome size. Genome size variation among related species of palms is of evolutionary significance because changes characterize clades and may be associated with polyploidy, transposon amplifications, deletions, or rearrangements. Further knowledge of genome size will...
Data from: Fungal endophytes of Vanilla planifolia across Réunion Island: isolation, distribution and biotransformation.Shahnoo Khoyratty, Joëlle Dupont, Sandrine Lacoste, Tony L. Palama, Young H. Choi, Hye K. Kim, Bertrand Payet, Michel Grisoni, Mireille Fouillaud, Robert Verpoorte & Hippolyte Kodja
Background The objective of the work was to characterize fungal endophytes from aerial parts of Vanilla planifolia. Also, to establish their biotransformation abilities of flavor-related metabolites. This was done in order to find a potential role of endophytes on vanilla flavors. Results Twenty three MOTUs were obtained, representing 6 fungal classes. Fungi from green pods were cultured on mature green pod based media for 30 days followed by 1H NMR and HPLC-DAD analysis. All fungi...
Data from: Comparative genomics of 43 strains of Xanthomonas citri pv. citri reveals the evolutionary events giving rise to pathotypes with different host rangesJonathan L. Gordon, Pierre Lefeuvre, Aline Escalon, Valérie Barbe, Stéphane Cruveiller, Lionel Gagnevin & Olivier Pruvost
Background: The identification of factors involved in the host range definition and evolution is a pivotal challenge in the goal to predict and prevent the emergence of plant bacterial disease. To trace the evolution and find molecular differences between three pathotypes of Xanthomonas citri pv. citri that may explain their distinctive host ranges, 42 strains of X. citri pv. citri and one outgroup strain, Xanthomonas citri pv. bilvae were sequenced and compared. Results: The strains...
Data from: Colonization of the Mediterranean Basin by the vector biting midge species Culicoides imicola: an old storyStephanie Jacquet, Claire Garros, Eric Lombaert, Catherine Walton, Johana Restrepo, Xavier Allene, Thierry Baldet, Catherine Cetre-Sossah, Alexandra Chaskopoulou, Jean-Claude Delecolle, Amelie Desvars, Mouloud Djerbal, Moussa Fall, Laetitia Gardes, Michel De Garine-Wichatitsky, Maria Goffredo, Yuval Gottlieb, Assane Gueye Fall, Muo Kasina, Karien Labuschagne, Youssef Lhor, Javier Lucientes, Thibaud Martin, Bruno Mathieu, Miguel Miranda … & J.-C. Delecolle
Understanding the demographic history and genetic make-up of colonizing species is critical for inferring population sources and colonization routes. This is of main interest for designing accurate control measures in areas newly colonized by vector species of economically important pathogens. The biting midge Culicoides imicola is a major vector of orbiviruses to livestock. Historically, the distribution of this species was limited to the Afrotropical region. Entomological surveys first revealed the presence of C. imicola in...
Data from: Habitat fragmentation alters the properties of a host-parasite network: rodents and their helminths in South-East AsiaFrédéric Bordes, Serge Morand, Shai Pilosof, Julien Claude, Jean-François Cosson, Yannick Chaval, Alexis Ribas, Kittipong Chaisiri, Kim Blasdell, Annelise Tran, Stéphane Dupuy & Boris R. Krasnov
1. While the effects of deforestation and habitat fragmentation on parasite prevalence or richness are well investigated, host–parasite networks are still understudied despite their importance in understanding the mechanisms of these major disturbances. Because fragmentation may negatively impact species occupancy, abundance and co-occurrence, we predict a link between spatiotemporal changes in habitat and the architecture of host–parasite networks. 2. For this, we used an extensive data set on 16 rodent species and 29 helminth species...
Data from: Assessing the distribution of disease-bearing rodents in human-modified tropical landscapesSerge 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: Spatial structure of above-ground biomass limits accuracy of carbon mapping in rainforest but large scale forest inventories can help to overcomeStéphane Guitet, Bruno Hérault, Quentin Molto, Olivier Brunaux & Pierre Couteron
Precise mapping of above-ground biomass (AGB) is a major challenge for the success of REDD+ processes in tropical rainforest. The usual mapping methods are based on two hypotheses: a large and long-ranged spatial autocorrelation and a strong environment influence at the regional scale. However, there are no studies of the spatial structure of AGB at the landscapes scale to support these assumptions. We studied spatial variation in AGB at various scales using two large forest...
Centre de Coopération Internationale en Recherche Agronomique pour le Développement12
French National Institute for Agricultural Research4
French National Centre for Scientific Research3
Centre de Biologie et de Gestion des Populations3
University of La Réunion2
Australian Animal Health Laboratory2
Institut Sophia Agrobiotech2
Ben-Gurion University of the Negev2
Atomic Energy and Alternative Energies Commission1