100 Works

Data from: Historical collections reveal patterns of diffusion of sweet potato in Oceania obscured by modern plant movements and recombination

Caroline Roullier, Laure Benoit, Doyle B. McKey & Vincent Lebot
The history of sweet potato in the Pacific has long been an enigma. Archaeological, linguistic and ethnobotanical data suggest that prehistoric human-mediated dispersal events contributed to the distribution in Oceania of this American domesticate. According to the “tripartite hypothesis”, sweet potato was introduced into Oceania from South America in pre-Columbian times, and was then later newly introduced, and diffused widely across the Pacific, by Europeans via two historically documented routes from Mexico and the Caribbean....

Data from: On the origin of sweet potato (Ipomoea batatas (L.) Lam) genetic diversity in New Guinea, a secondary centre of diversity

Caroline Roullier, Rosa Kambouo, Janet Paofa, Doyle McKey & Vincent Lebot
New Guinea is considered the most important secondary centre of diversity for sweet potato (Ipomoea batatas). We analysed nuclear and chloroplast genetic diversity of 417 New Guinea sweet potato landraces, representing agro-morphological diversity collected throughout the island, and compared this diversity with that in tropical America. The molecular data reveal moderate diversity across all accessions analysed, lower than that found in tropical America. Nuclear data confirm previous results, suggesting that New Guinea landraces are principally...

Data from: Genetic mapping of two components of reproductive isolation between two sibling species of moths, Ostrinia nubilalis and O. scapulalis

Réjane Streiff, Brigitte Courtois, Serge Meusnier & Denis Bourguet
We report the quantitative trait loci (QTL) mapping of reproductive isolation traits between Ostrinia nubilalis (the European corn borer) and its sibling species O. scapulalis (the Adzuki bean borer), focusing on two traits: mating isolation (mi) and pheromone production (Pher). Four genetic maps were generated from two backcross families, with two maps (one chromosomal map and one linkage map) per backcross. We located 165–323 AFLP markers on these four maps, resulting in the identification of...

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: Modeling additive and non-additive effects in a hybrid population using genome-wide genotyping: prediction accuracy implications

Jean-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 plant

Britta 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: Root traits are related to plant water-use among rangeland Mediterranean species

Florian Fort, Florence Volaire, Lydie Guilioni, Karim Barkaoui, Marie-Laure Navas & Catherine Roumet
1. Understanding the water-use of plants is timely under increasing drought stress due to climate change. Despite the crucial role of roots in water uptake, relationships between water-use and root traits are seldom considered. 2. Combining a functional traits-based approach with a water balance model, we tested whether root functional traits are related to spatial and temporal water-use among 12 Mediterranean rangeland species grown in common garden monocultures. Soil water content was monitored for 10...

Data from: Life-history traits of Macrolophus pygmaeus with different prey foods

Serigne Sylla, Karamoko Diarra & Thierry Brévault
Macrolophus pygmaeus Rambur (Hemiptera: Miridae) is a generalist predatory mirid widely used in augmentative biological control of various insect pests in greenhouse tomato production in Europe, including the invasive tomato leafminer, Tuta absoluta (Meyrick) (Lepidoptera, Gelechiidae). However, its biocontrol efficacy often relies on the presence of alternative prey. The present study aimed at evaluating the effect of various prey foods (Ephestia kuehniella eggs, Bemisia tabaci nymphs, Tuta absoluta eggs and Macrosiphum euphorbiae nymphs) on some...

Data from: Fine nurse variations explain discrepancies in the stress-interaction relationship in alpine regions

Fabien Anthelme, Rosa I. Meneses, Nerida N. Huaman Valero, Paola Pozo & Olivier Dangles
Despite a large consensus on increasing facilitation among plants with increasing stress in alpine regions, a number of different outcomes of interaction have been observed, which impedes the generalisation of the ‘stress-gradient hypothesis’ (SGH). With the aim to reconcile the different viewpoints on the stress-interaction relationship in alpine environments we hypothesized that fine nurse variations within a single life form (cushion) may explain this pattern variability To test this hypothesis, we compared the magnitude of...

Data from: Globally consistent impact of tropical cyclones on the structure of tropical and subtropical forests

Thomas Ibanez, Gunnar Keppel, Christophe Menkes, Thomas W. Gillespie, Matthieu Lengaigne, Morgan Mangeas, Gonzalo Rivas-Torres & Philippe Birnbaum
1. Tropical cyclones (TCs) are large-scale disturbances that regularly impact tropical forests. Although long-term impacts of TCs on forest structure have been proposed, a global test of the relationship between forest structure and TC frequency and intensity is lacking. We test on a pantropical scale whether TCs shape the structure of tropical and subtropical forests in the long-term. 2. We compiled forest structural features (stem density, basal area, mean canopy height and maximum tree size)...

Data from: Asymmetric evolutionary responses to sex-specific selection in a hermaphrodite

Nicolás Bonel, Elsa Noël, Tim Janicke, Kevin Sartori, Elodie Chapuis, Adeline Ségard, Stefania Meconcelli, Benjamin Pélissié, Violette Sarda & Patrice David
Sex allocation theory predicts that simultaneous hermaphrodites evolve to an evolutionary stable resource allocation, whereby any increase in investment to male reproduction leads to a disproportionate cost on female reproduction and vice-versa. However, empirical evidence for sexual trade-offs in hermaphroditic animals is still limited. Here, we tested how male and female reproductive traits evolved under conditions of reduced selection on either male or female reproduction for 40 generations in a hermaphroditic snail. This selection favors...

A meta-analysis of biological impacts of artificial light at night

Dirk Sanders, Enric Frago, Rachel Kehoe, Christophe Patterson & Kevin Gaston
This is a database of published studies, that measuered how the exposure to artificial light at night impacts the physiology, daily activity patterns and life-history traits. The data were collected using a systematic review with searches in Web of Science and Scopus. We also provide the R-code that was used to analyse the dataset with meta-analytic models in MCMCglmm.

Estimating heritability in honeybees: comparison of three major methods based on empirical and simulated datasets

Hélène Jourdan-Pineau, Gaëlle Antoine, Julien Galataud, Hélène Delatte, Christophe Simiand & Johanna Clémencet
The genetic contribution to phenotypic variation (namely the heritability) affects the response to selection. In honeybee, the haplodiploid sex determination does not allow the straightforward use of classical quantitative genetics methods to estimate heritability and genetic correlation. Nevertheless, specific methods have been developed for about 40 years. In particular, sibling analyses are frequently used with three main methods: an historical model using the average colony relatedness, a half-sibs/full-sibs model and the more recent animal model....

A worldwide assessment of soil macroinvertebrate communities

Patrick Lavelle, Jerome Mathieu, Alister Spain, George Brown, Carlos Fragoso, Emmanuel Lapied, Adriana De Aquino, Isabelle Barois, Edmundo Barrios, Eleusa Barros, Juan Camilo Bedano, Eric Blanchart, Mark Caulfield, Yamileth Chagueza, Jun Dai, Thibaud Decaens, Anahi Domninquez, Yamileth Dominquez, Alex Feijoo, Patricia Folgaraiti, Steven Fonte, Norma Gorosito, Esperanza Huerta, Juan Jose Jimenez, Courtland Kelly … & Cesar Botero
Soil macroinvertebrate communities have been assessed worldwide using the standard ISO/TSBF sampling procedure. The Macrofauna database currently comprises 3694 sites distributed throughout 41 countries, from 55º S latitude to 57ºN, sea level to over 4000m in elevation, in total annual total rainfall regimes between 500 and >3000mm and 5 to 32ºC mean temperature. These communities are significantly influenced by climatic parameters, soil texture and vegetation cover. Abundance and diversity were highest in tropical rain forests...

Microbiome diversity and reproductive incompatibility induced by the prevalent endosymbiont Arsenophonus in two species of African cassava Bemisia tabaci whiteflies

Hajar El Hamss, Maruthi Gowda, Helene Delatte, Saptarshi Ghosh, M. N. Maruthi, Hélène Delatte & John Colvin
This dataset contains data from two-part experiments described in the paper: “El Hamss, H., Ghosh, S., M. N., M., Delatte, H., & Colvin, J. (2021). Microbiome diversity and reproductive incompatibility induced by the prevalent endosymbiont Arsenophonus in two species of African cassava Bemisia tabaci whiteflies. Ecology and Evolution, 00, 1–10. https://doi.org/10.1002/ece3.840”. The experiment investigates the effects of Arsenophonus on whitefly reproduction and microbiome diversity. In the first experiment (“crossing experiment”), the effect of Arsenophonus is...

Agroecosystem diversification with legumes or non-legumes improves differently soil fertility according to soil type

Marie Sauvadet, Jean Trap, Gaëlle Damour, Claude Plassard, Karel Van Den Meersche, Raphaël Achard, Clémentine Allinne, Patrice Autfray, Isabelle Bertrand, Eric Blanchart, Péninna Deberdt, Séguy Enock, Jean-Daniel Essobo, Grégoire Freschet, Mickaël Hedde, Elias De Melo Virginio Filho, Bodovololona Rabary, Miora Rakotoarivelo, Richard Randriamanantsoa, Béatrice Rhino, Aude Ripoche, Elisabeth Rosalie, Stéphane Saj, Thierry Becquer, Philippe Tixier … & Jean-Michel Harmand
Plant diversification through crop rotation or agroforestry is a promising way to improve sustainability of agroecosystems. Nonetheless, criteria to select the most suitable plant communities for agroecosystems diversification facing contrasting environmental constraints need to be refined. Here, we compared the impacts of 24 different plant communities on soil fertility across six tropical agroecosystems: either on highly weathered Ferralsols, with strong P limitation, or on partially weathered soils derived from volcanic material, with major N limitation....

Data from: Comparison of the genetic determinism of two key phenological traits, flowering and maturity dates, in three Prunus species: peach, apricot and sweet cherry

Patrick Lambert, David Ruiz, Luca Dondini, Eudald Illa, Jean-Marc Audergon, Stefano Tartarini, Philippe Letourmy, Elisabeth Dirlewanger, José Quéro-Garcia, Loïck Le Dantec, Bénédicte Quilot-Turion & Pere Arus
The present study investigates the genetic determinism of flowering and maturity dates, two traits highly affected by global climate change. Flowering and maturity dates were evaluated on five progenies from three Prunus species, peach, apricot and sweet cherry, during three to eight years. Quantitative trait locus (QTL) detection was performed separately for each year and also by integrating data from all years together. High heritability estimates were obtained for flowering and maturity dates. Several QTLs...

Data from: Population sizes and dispersal pattern of tsetse flies: rolling on the river?

Jeremy Bouyer, Thomas Balenghien, Sophie Ravel, Laurence Vial, Sophie Thevenon, Philippe Solano & Thierry De Meeus
The West African trypanosomoses are mostly transmitted by riverine species of tsetse fly . In this study, we estimate the dispersal and population size of tsetse populations located along the Mouhoun River in Burkina Faso where tsetse habitats are experiencing increasing fragmentation caused by human encroachment. Dispersal estimated through direct (mark and recapture) and indirect (genetic isolation by distance) methods appeared consistent with one another. In these fragmented landscapes, tsetse flies displayed localised, small sub-populations...

Data from: Contrasting introduction scenarios among continents in the worldwide invasion of the banana fungal pathogen Mycosphaerella fijiensis

Stephanie Robert, Virginie Ravigné, Marie-Françoise Zapater, Catherine Abadie & Jean Carlier
Reconstructing and characterizing introduction routes is a key step towards understanding the ecological and evolutionary factors underlying successful invasions and disease emergence. Here, we aimed to decipher scenarios of introduction and stochastic demographic events associated with the global spread of an emerging disease of bananas caused by the destructive fungal pathogen Mycosphaerella fijiensis. We analysed the worldwide population structure of this fungus using 21 microsatellites and 8 sequence-based markers on 735 individuals from 37 countries....

Data from: Cryptic diversity and gene flow among three African agricultural pests: Ceratitis rosa, Ceratitis fasciventris and Ceratitis anonae (Diptera, Tephritidae)

Massimiliano Virgilio, Helene Delatte, Serge Quilici, Thierry Backeljau & Marc De Meyer
The ‘Ceratitis FAR complex’ is a species complex of African fruit flies (Diptera, Tephritidae) including the major agricultural pest Ceratitis rosa and the morphologically similar Ceratitis fasciventris and Ceratitis anonae. To resolve their intra- and interspecific genetic relationships and to estimate gene flow within this complex, we surveyed allelic variation at 16 microsatellite loci in 27 African populations of the three morphospecies. Interpopulation genetic distances and individual Bayesian assignments distinguished five genotypic clusters: two involving...

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: Genome mining reveals the genus Xanthomonas to be a promising reservoir for new bioactive non-ribosomally synthesized peptides

Monique Royer, Ralf Koebnik, Mélanie Marguerettaz, Valérie Barbe, Guillaume P. Robin, Chrystelle Brin, Sébastien Carrere, Camila Gomez, Manuela Hügelland, Ginka H. Völler, Julie Noëll, Isabelle Pieretti, Saskia Rausch, Valérie Verdier, Stéphane Poussier, Philippe Rott, Roderich D. Süssmuth & Stéphane Cociancich
Background: Various bacteria can use non-ribosomal peptide synthesis (NRPS) to produce peptides or other small molecules. Conserved features within the NRPS machinery allow the type, and sometimes even the structure, of the synthesized polypeptide to be predicted. Thus, bacterial genome mining via in silico analyses of NRPS genes offers an attractive opportunity to uncover new bioactive non-ribosomally synthesized peptides. Xanthomonas is a large genus of Gram-negative bacteria that cause disease in hundreds of plant species....

Data from: Estimation of the dispersal of a major pest of maize by cline analysis of a temporary contact zone between two invasive outbreaks

Gérald Bermond, Aurélie Blin, Elodie Vercken, Virginie Ravigné, Adrien Rieux, Sophie Mallez, Thibaut Morel-Journel, Thomas Guilllemaud & Thomas Guillemaud
Dispersal is a key factor in invasion, and in the persistence and evolution of species. Despite the importance of estimates of dispersal distance, dispersal measurement remains a real methodological challenge. In this study, we characterized dispersal by exploiting a specific case of biological invasion, in which multiple introductions in disconnected areas lead to secondary contact between two differentiated expanding outbreaks. By applying cline theory to this ecological setting, we estimated σ, the standard deviation of...

Data from: Importance of deep water uptake in tropical eucalypt forest

Mathias Christina, Yann Nouvellon, Jean-Paul Laclau, Jose L. Stape, Jean-Pierre Bouillet, George R. Lambais & Guerric Le Maire
Climate models predict that the frequency, intensity and duration of drought events will increase in tropical regions. Although water withdrawal from deep soil layers is generally considered to be an efficient adaptation to drought, there is little information on the role played by deep roots in tropical forests. Tropical Eucalyptus plantations managed in short rotation cycles are simple forest ecosystems that may provide an insight into the water use by trees in tropical forests. The...

Data from: Spatial structure of above-ground biomass limits accuracy of carbon mapping in rainforest but large scale forest inventories can help to overcome

Stéphane 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...

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