301 Works

Data from: Parallel pattern of differentiation at a genomic island shared between clinal and mosaic hybrid zones in a complex of cryptic seahorse lineages

Florentine Riquet, Cathy Liautard-Haag, Lucy Woodall, Carmen Bouza, Patrick Louisy, Bojan Hamer, Francisco Otero-Ferrer, Philippe Aublanc, Vickie Béduneau, Olivier Briard, Tahani El Ayari, Sandra Hochscheid, Khalid Belkhir, Sophie Arnaud-Haond, Pierre-Alexandre Gagnaire & Nicolas Bierne
Diverging semi-isolated lineages either meet in narrow clinal hybrid zones, or have a mosaic distribution associated with environmental variation. Intrinsic reproductive isolation is often emphasized in the former and local adaptation in the latter, although both can contribute to isolation. Rarely these two patterns of spatial distribution are reported in the same study system. Here we report that the long-snouted seahorse Hippocampus guttulatus is subdivided into discrete panmictic entities by both types of hybrid zones....

Data from: Feedback between environment and traits under selection in a seasonal environment: consequences for experimental evolution

Dorian Collot, Thibault Nidelet, Johan Ramsayer, Olivier Martin, Sylvie Méléard, Christine Dillmann, Delphine Sicard, Judith Legrand & Olivier C. Martin
Batch cultures are frequently used in experimental evolution. Even though they are generally considered to simply drive a growth rate increase, traits evolution can be more complex. Indeed, recurrent batches form a seasonal environment as different phases repeat periodically and different traits can be under selection in the different seasons. Moreover, during culture the impact of organisms on the environment is important since the system is closed. Thus, the study of adaptation should take into...

Data package from 'Pantropical variability in tree crown allometry' Global Ecology and Biogeography 2021. DOI: 10.1111/geb.13231

Grace Jopaul Loubota Panzou, Adeline Fayolle, Tommaso Jucker, Oliver Phillips, Stephanie Bohlman, Lindsay F. Banin, Simon L. Lewis, Kofi Affum-Baffoe, Luciana F. Alves, Cécile Antin, Eric Arets, Luzmila Arroyo, Timothy R. Baker, Nicolas Barbier, Hans Beeckman, Uta Berger, Yannick Enock Bocko, Frans Bongers, Sam Bowers, Thom Brade, Eduardo S. Brondizio, Arthur Chantrain, Jerome Chave, Halidou Compaore & David Coomes

A genomics resource for genetics, physiology, and breeding of West African sorghum

Jacques Faye, Fanna Maina, Eyanawa Akata, Bassirou Sine, Cyril Diatta, Aissata Mamadou, Sandeep Marla, Sophie Bouchet, Niaba Teme, Jean-Francois Rami, Daniel Fonceka, Ndiaga Cisse & Geoffrey Morris
Local landrace and breeding germplasm is a useful source of genetic diversity for regional and global crop improvement initiatives. Sorghum (Sorghum bicolor L. Moench) in West Africa has diversified across a mosaic of cultures and end-uses, and along steep precipitation and photoperiod gradients. To facilitate germplasm utilization, a West African sorghum association panel (WASAP) of 756 accessions from national breeding programs of Niger, Mali, Senegal, and Togo was assembled and characterized. Genotyping-by-sequencing was used to...

Data from: Submerged macrophytes affect the temporal variability of aquatic ecosystems

Moritz Lürig, Rebecca Best, Vasilis Dakos & Blake Matthews
1. Submerged macrophytes are important foundation species that can strongly influence the structure and functioning of aquatic ecosystems, but only little is known about the temporal variation and the timescales of these effects (i.e. from hourly, daily, to monthly). 2. Here, we conducted an outdoor experiment in replicated mesocosms (1000 L) where we manipulated the presence and absence of macrophytes to investigate the temporal variability of their ecosystem effects. We measured several parameters (chlorophyll-a, phycocyanin,...

North Pacific harbor porpoise SNP and microhaplotype genotypes, mitochondrial control region haplotype sequences

Phillip Morin, Brenna Forester, Karin Forney, Carla Crossman, Brittany Hancock-Hanser, Kelly Robertson, Lance Barrett-Lennard, Robin Baird, John Calambokidis, Pat Gearin, Bradley Hanson, Cassie Schumacher, Timothy Harkins, Michael Fontaine, Barbara Taylor & Kim Parsons
Harbor porpoises in the North Pacific are found in coastal waters from southern California to Japan, but population structure is poorly known outside of a few local areas. We used multiplexed amplicon sequencing of 292 loci and genotyped clusters of SNPs as microhaplotypes (N=271 samples) in addition to mtDNA sequence data (N=413 samples), to examine the genetic structure from samples collected along the Pacific coast and inland waterways from California to southern British Columbia. We...

Data from: Sequential co-infections drive parasite competition and the outcome of infection

Giacomo Zilio & Jacob Koella
1) Co-infections by multiple parasites are common in natural populations. Some of these are likely to be the result of sequential rather than simultaneous infections. The timing of the co-infections may affect their competitive interactions, thereby influencing the success of the parasites and their impact on the host. This may have important consequence for epidemiological and eco-evolutionary dynamics. 2) We examined in two ecological conditions the effect of sequential co-infection on the outcome of infection...

Data from: Wintering bird communities are tracking climate change faster than breeding communities

Aleksi Lehikoinen, Åke Lindström, Andrea Santangeli, Päivi Sirkiä, Lluis Brotons, Vincent Devictor, Jaanus Elts, Ruud P. B. Fobben, Henning Heldbjerg, Sergi Herrando, Marc Herremans, Marie-Anne R. Hudson, Frederic Jiguet, Alison Johnston, Romain Lorrilliere, Emma-Liina Marjakangas, Nicole L. Michel, Charlotte M. Moshøj, Renno Nellis, Jean-Yves Paquet, Adam C. Smith, Tibor Szep & Chris Van Turnhout
1. Global climate change is driving species’ distributions towards the poles and mountain tops during both non-breeding and breeding seasons, leading to changes in the composition of natural communities. However, the degree of season differences in climate-driven community shifts has not been thoroughly investigated at large spatial scales. 2. We compared the rates of change in the community composition during both winter (non-breeding season) and summer (breeding) and their relation to temperature changes. 3. Based...

Parasitism and host dispersal plasticity in an aquatic model system

Giacomo Zilio, Louise Nørgaard, Giovanni Petrucci, Nathalie Zeballos, Claire Gougat-Barbera, Emanuel Fronhofer & Oliver Kaltz
Dispersal is a central determinant of spatial dynamics in communities and ecosystems, and various ecological factors can shape the evolution of constitutive and plastic dispersal behaviours. One important driver of dispersal plasticity is the biotic environment. Parasites, for example, influence the internal condition of infected hosts and define external patch quality. Thus state-dependent dispersal may be determined by infection status and context-dependent dispersal by the abundance of infected hosts in the population. A prerequisite for...

Adaptation and correlated fitness responses over two time scales in Drosophila suzukii populations evolving in different environments

Laure Olazcuaga, Julien Foucaud, Mathieu Gautier, Candice Deschamps, Anne Loiseau, Nicolas Leménager, Benoit Facon, Virginie Ravigné, Ruth A. Hufbauer, Arnaud Estoup & Nicolas O. Rode
The process of local adaptation involves differential changes in fitness over time across different environments. While experimental evolution studies have extensively tested for patterns of local adaptation at a single time point, there is relatively little research that examines fitness more than once during the time course of adaptation. We allowed replicate populations of the fruit pest Drosophila suzukii to evolve in one of eight different fruit media. After five generations, populations with the highest...

Diversity and biogeography of Mediterranean freshwater blennies (Blenniidae, Salaria)

Maximilian Wagner, Stamatis Zogaris, Patrick Berrebi, Jörg Freyhof, Stephan Koblmüller, Pierre Magnan & Martin Laporte
Aim: In the Mediterranean Biodiversity Hotspot freshwater fishes are key biogeographical indicators while their habitats are vulnerable to ongoing anthropogenic pressures. The freshwater blenny is a widespread endemic taxon in this area. However, our understanding of the overall diversity of specific populations and their phylogenetic relationships is sparse. Thus, we aim to investigate the genetic diversity, infer relationships among sampled populations related to major paleoenvironmental changes and suggest insights for future research and conservation targets....

Favoring recruitment as a conservation strategy to improve the resilience of long-lived reptile populations: insights from a population viability analysis

Chloé Warret Rodrigues, Baptiste Angin & Aurélien Besnard
In long-lived species, although adult survival typically has the highest elasticity, temporal variations in less canalized demographic parameters are the main drivers of population dynamics. Targeting recruitment rates may thus be the most effective strategy to manage these species. We analyzed 1136 capture–recapture histories collected over 9 years in an isolated population of the critically endangered Lesser Antillean iguana, using a robust-design Pradel model to estimate adult survival and recruitment rates. From an adult population...

Deep ancestral introgression shapes evolutionary history of dragonflies and damselflies

Anton Suvorov, Celine Scornavacca, M. Stanley Fujimoto, Paul Bodily, Mark Clement, Keith Crandall, Michael Whiting, Daniel Schrider & Seth Bybee
Introgression is arguably one of the most important biological processes in the evolution of groups of related species, affecting at least 10% of the extant species in the animal kingdom. Introgression reduces genetic divergence between species, and in some cases can be highly beneficial, facilitating rapid adaptation to ever-changing environmental pressures. Introgression also significantly impacts inference of phylogenetic species relationships where a strictly binary tree model cannot adequately explain reticulate net-like species relationships. Here we...

French (F) and Swedish (S) Founder (P) and Mutation Accumulation Line (MA) performance in France and Sweden

Charles Fenster, Mao-Lun Weng, Jon Agren, Henning Nottebrock, Eric Imbert & Matthew Rutter
Little is empirically known about the contribution of mutations to fitness in natural environments. However, Fisher's Geometric Model (FGM) provides a conceptual foundation to consider the influence of the environment on mutational effects. To quantify mutational properties in the field, we established eight sets of MA lines (7-10 generations) derived from eight founders collected from natural populations of Arabidopsis thaliana from French and Swedish sites, representing the range margins of the species in Europe. We...

Data from: No evidence of foliar disease impact on crop root functional strategies and soil microbial communities: What does this mean for organic coffee?

Stephanie Gagliardi, Jacques Avelino, Roberta Fulthorpe, Elias De Melo Virginio Filho & Marney Isaac
Global climate change is increasing pest and pathogen pressures on plant communities, deteriorating optimal plant functioning. In plant communities, root functional trait expression and microbial communities are important indicators of plant functioning belowground, and, when confronted with pathogens aboveground, can simultaneously reflect plant defence strategies. Yet, while research is continuing to emerge on the response of root functional traits and microbial processes to pathogens aboveground, little work has investigated these interactions in tree-crops, or the...

Global flyway evolution in red knots Calidris canutus and genetic evidence for a Nearctic refugium

Jesse Conklin, Yvonne Verkuil, Phil Battley, Chris Hassell, Job Ten Horn, James Johnson, Pavel Tomkovich, Allan Baker, Theunis Piersma & Michaël Fontaine
Present-day ecology and population structure are the legacies of past climate and habitat perturbations, and this is particularly true for species that are widely distributed at high latitudes. The red knot, Calidris canutus, is an arctic-breeding, long-distance migratory shorebird with six recognized subspecies defined by differences in morphology, migration behavior, and annual-cycle phenology, in a global distribution thought to have arisen just since the Last Glacial Maximum (LGM). We used nextRAD sequencing of 10,881 single-nucleotide...

Accuracy of clinicians’ ability to predict the need for renal replacement therapy: a prospective multicenter study

Alexandre Sitbon, Michael Darmon, Guillaume Geri, Paul Jaubert, Pauline Lamouche-Wilquin, Clément Monet, Lucie Le Fèvre, Marie Baron, Marie-Line Harlay, Côme Bureau, Olivier Joannes-Boyau, Claire Dupuis, Damien Contou, Virginie Lemiale, Marie Simon, Christophe Vinsonneau, Clarisse Blayau, Frederic Jacobs & Lara Zafrani
Abstract Purpose Identifying patients who will receive renal replacement therapy (RRT) during intensive care unit (ICU) stay is a major challenge for intensivists. The objective of this study was to evaluate the performance of physicians in predicting the need for RRT at ICU admission and at acute kidney injury (AKI) diagnosis. Methods Prospective, multicenter study including all adult patients hospitalized in 16 ICUs in October 2020. Physician prediction was estimated at ICU admission and at...

Additional file 1 of European Headache Federation (EHF) consensus on the definition of effective treatment of a migraine attack and of triptan failure

Simona Sacco, Christian Lampl, Faisal Mohammad Amin, Mark Braschinsky, Christina Deligianni, Derya Uludüz, Jan Versijpt, Anne Ducros, Raquel Gil-Gouveia, Zaza Katsarava, Paolo Martelletti, Raffaele Ornello, Bianca Raffaelli, Deirdre M. Boucherie, Patricia Pozo-Rosich, Margarita Sanchez-del-Rio, Alexandra Sinclair, Antoinette Maassen van den Brink & Uwe Reuter
Additional file 1: Figure S1. PRISMA flowchart of systematic review. Table S1. Pain relief at different timepoints. Table S2. Pain relief and pain-free at 2 hours. Table S3. Headache recurrence within 24 hours. Table S4. Rescue medication. Table S5. Response in triptan non-responders. Table S6. Comparisons of different triptan formulations. Table S7. Comparisons between early and late treatment with triptans. Table S8. Agreement on questions submitted in Round 1. Table S9. Conflicts of interest of...

European Headache Federation (EHF) consensus on the definition of effective treatment of a migraine attack and of triptan failure

Simona Sacco, Christian Lampl, Faisal Mohammad Amin, Mark Braschinsky, Christina Deligianni, Derya Uludüz, Jan Versijpt, Anne Ducros, Raquel Gil-Gouveia, Zaza Katsarava, Paolo Martelletti, Raffaele Ornello, Bianca Raffaelli, Deirdre M. Boucherie, Patricia Pozo-Rosich, Margarita Sanchez-del-Rio, Alexandra Sinclair, Antoinette Maassen van den Brink & Uwe Reuter
Abstract Background Triptans are migraine-specific acute treatments. A well-accepted definition of triptan failure is needed in clinical practice and for research. The primary aim of the present Consensus was to provide a definition of triptan failure. To develop this definition, we deemed necessary to develop as first a consensus definition of effective treatment of an acute migraine attack and of triptan-responder. Main body The Consensus process included a preliminary literature review, a Delphi round and...

Additional file 2 of Genomic characterization of peste des petits ruminants vaccine seed “45G37/35-k”, Russia

Olivier Kwiatek, Geneviève Libeau, Samia Guendouz, Chloé Corbanini, Andrey Gogin, Andrey Lunitsin, Irina Sindryakova, Denis Koblasov & Arnaud Bataille
Additional file 2. Distribution of nucleotide and amino acid differences separating the PPR vaccine strains Nigeria/75/1 (Nig75/1) and 45G37/35-k (FRCVM).

Genomic characterization of peste des petits ruminants vaccine seed “45G37/35-k”, Russia

Olivier Kwiatek, Geneviève Libeau, Samia Guendouz, Chloé Corbanini, Andrey Gogin, Andrey Lunitsin, Irina Sindryakova, Denis Koblasov & Arnaud Bataille
Abstract Production of peste des petits ruminants (PPR) vaccines in Russia is based on two attenuated virus strains (“45G37/35-k” and “ARRIAH”) of common origin. Here, the identity of the strain PPRV/45G37/35-k was investigated using a full genome, Illumina deep sequencing approach. Phylogenomic analysis showed that PPRV/45G37/35-k belongs to the same lineage as the widely used PPRV vaccine strain Nigeria/75/1 (lineage II). However, 248 nucleotide differences separate the genomes of these vaccine strains, indicating that the...

A beneficiary-centred strategy to assess the performance of the cascade of PMTCT_Burkina Faso_Appendix.pdf

Léticia Sakana, Anaïs Mennecier, paulin fao, Souleymane Tassembedo, Jean-Pierre Molès, Dramane Kania, Ajani Ousmane Taofiki, Frank Edgar Kadeba, Ibrahima Diallo, Sabrina Eymard-Duvernay, Morgana D’Ottavi, Nicolas Meda, Beatriz Mosqueira, Philippe Van de Perre & Nicolas Nagot
Cross sectional study questionnaire

A beneficiary-centred strategy to assess the performance of the cascade of PMTCT_Burkina Faso_Appendix.pdf

Léticia Sakana, Anaïs Mennecier, paulin fao, Souleymane Tassembedo, Jean-Pierre Molès, Dramane Kania, Ajani Ousmane Taofiki, Frank Edgar Kadeba, Ibrahima Diallo, Sabrina Eymard-Duvernay, Morgana D’Ottavi, Nicolas Meda, Beatriz Mosqueira, Philippe Van de Perre & Nicolas Nagot
Cross sectional study questionnaire

Hospitalizations for infections in primary Sjögren’s syndrome patients: a nationwide incidence study

Radjiv Goulabchand, Alain Makinson, Jacques Morel, Philine Witkowski-Durand-Viel, Nicolas Nagot, Paul Loubet, Camille Roubille, Danièle Noel, David Morquin, Kim Henry, Thibault Mura & Philippe Guilpain
Primary Sjögren’s syndrome (pSS) is an autoimmune disease with increased risk of infections. Here, we assessed whether pSS patients were at higher risk of hospitalization for community and opportunistic infections. We selected newly hospitalized pSS patients between 2011 and 2018, through a nationwide population-based retrospective study using the French Health insurance database. We compared the incidence of hospitalization for several types of infections (according to International Classification for Disease codes, ICD-10) between pSS patients and...

Cellules souches somatiques et hématopoïèse chez le mollusque

Patricia Cavelier, Julien Cau, Jean Marc Strub, Mohamed Jemaa, Nathalie Morin & Claude Delsert
L’origine du renouvellement des tissus fait débat chez le mollusque car aucune évidence de cellules souches n’a été montrée à ce jour au sein de ce vaste phylum. Cette question est d’autant plus fondamentale que la croissance se fait tout au long de la vie du mollusque et que ce groupe renferme les animaux vivants les plus vieux connus, tels ces spécimens du bivalve Arctica islandica âgés de plus de 500 ans. Par ailleurs, l’origine...

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