186 Works

Introduction des variants

Philippe Colson

Threatened salmon rely on a rare life history strategy in a warming landscape

Flora Cordoleani, Corey Phillis, Anna Sturrock, Alyssa FitzGerald, George Whitman, Anthony Malkassian, Peter Weber & Rachel Johnson
Rare phenotypes and behaviours within a population are often overlooked, yet they may serve a heightened role for species imperilled by rapid warming. In threatened spring-run Chinook salmon spawning at the southern edge of the species range, we show late-migrating juveniles are critical to cohort success in years characterized by droughts and ocean heatwaves. Late migrants rely on cool river temperatures over summer, increasingly rare due to the combined effects of warming and impassable dams....

De l’interdisciplinarité aux disciplines, et réciproquement. Retour sur une expérience pédagogique

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Des débats autour de questions scientifiques socialement vives : quelles conduites argumentatives et compétences cognitives pour des élèves ingénieurs ?

Fatma Saïd Touhami, Céline Besançon, Simon Lanher, Valérie Desjardin & Laurence Dupont
L’intégration de problématiques liées au développement durable dans la formation des futurs ingénieurs amène à traiter des questions scientifiques socialement vives (QSSV) dans le cœur de l’enseignement. Dans la mesure où les QSSV sont interdisciplinaires (Simonneaux, 2008), leur enseignement nécessite la mise en œuvre de dispositifs pédagogiques et didactiques favorisant l’inter et la transdisciplinarité. Des recherches didactiques ont mis l’accent sur la pertinence de deux formes d’enseignement majeurs que sont les projets interdisciplinaires et les...

Emergence and outcome of the SARS-CoV-2 “Marseille-4” variant

Pierre-Edouard Fournier

The War Against Chloroquine

Yanis Roussel, Philippe Gautret & Didier Raoult

DATABASE MALDI TICKS DU VIETNAM

Philippe PAROLA

Hydroxychloroquine and Azithromycin as a Treatment of COVID-19: Results of an Open-Label Non-Randomized Clinical Trial: Response to David Spencer (Elsevier)

Didier RAOULT, Matthieu Million, Philippe Gautret , Jean-Christophe Lagier , Philippe Colson , Philippe Parola & Jean-Marc Rolain

Living SARS-CoV-2 in feces suggesting possible fecal-oral contamination

Bernard La Scola, Valérie Moal & Julie Dergham

Support for the climatic variability hypothesis depends on the type of thermal plasticity: lessons from predation rates

Ying-Jie Wang, Robby Stoks, Arnaud Sentis & Nedim Tüzün
Plastic and evolutionary changes in traits related to biotic interactions are crucial for the local persistence of populations under global warming. Yet, how acute and developmental thermal plasticity evolve and shape predation rates has been poorly studied, especially in the context of latitude-driven thermal evolution. A powerful predictive framework is given by the climatic variability hypothesis (CVH) stating that thermal plasticity and acclimation capacity evolve to be higher in high-latitude populations because these are exposed...

DATA FROM REAL-TIME PCR ASSAY FOR THE DETECTION OF DERMATOPHYTES

Stéphane Ranque

Data from: The more the better – polyandry and genetic similarity are positively linked to reproductive success in a natural population of terrestrial salamanders (Salamandra salamandra)

Barbara A. Caspers, E. Tobias Krause, Ralf Hendrix, Michael Kopp, Oliver Rupp, Katrin Rosentreter & Sebastian Steinfartz
Although classically thought to be rare, female polyandry is wide-spread and may entail significant fitness benefits. If females store sperm over extended periods of time, the consequences of polyandry will depend on the pattern of sperm storage, and some of the potential benefits of polyandry can only be realized if sperm from different males is mixed. Our study aimed to determine patterns and consequences of polyandry in an amphibian species, the fire salamander, under fully...

Data from: Distribution patterns of microbial communities in ultramafic landscape: a metagenetic approach highlights the strong relationships between diversity and environmental traits

Laurent Bordez, Philippe Jourand, Marc Ducousso, Fabian Carriconde, Yvon Cavaloc, Sébastien Santini, Jean M. Claverie, Laurent Wantiez, Antoine Leveau & Hamid Amir
Microbial species richness and assemblages across ultramafic ecosystems were investigated to assess the relationship between their distributional patterns and environmental traits. The structure of microorganism communities in the Koniambo massif, New Caledonia, was investigated using a metagenetic approach correlated with edaphic and floristic factors. Vegetation cover and soil properties significantly shaped the large phylogenetic distribution of operational taxonomic unit within microbial populations, with a mean per habitat of 3.477 (±317) for bacteria and 712 (±43)...

Data from: One-locus-several-primers: a strategy to improve the taxonomic and haplotypic coverage in diet metabarcoding studies

Emmanuel Corse, Christelle Tougard, Gaït Archambaud-Suard, Jean-François Agnèse, Françoise D. Messu Mandeng, Charles F. Bilong Bilong, David Duneau, Lucie Zinger, Rémi Chappaz, Charles C. Y. Xu, Emese Meglécz & Vincent Dubut
In diet metabarcoding analyses, insufficient taxonomic coverage of PCR primer sets generates false negatives that may dramatically distort biodiversity estimates. In this paper, we investigated the taxonomic coverage and complementarity of three cytochrome c oxidase subunit I gene (COI) primer sets based on in silico analyses and we conducted an in vivo evaluation using fecal and spider web samples from different invertivores, environments, and geographic locations. Our results underline the lack of predictability of both...

Data from: Diversity patterns of uncultured Haptophytes unravelled by pyrosequencing in Naples Bay

Lucie Bittner, Angélique Gobet, Stéphane Audic, Sarah Romac, Elianne S. Egge, Sébastien Santini, Hiroyuki Ogata, Ian Probert, Bente Edvardsen & Colomban De Vargas
Haptophytes are a key phylum of marine protists, including ~300 described morphospecies and 80 morphogenera. We used 454 pyrosequencing on large subunit ribosomal DNA (LSU rDNA) fragments to assess the diversity from size-fractioned plankton samples collected in the Bay of Naples. One group-specific primer set targeting the LSU rDNA D1/D2 region was designed to amplify Haptophyte sequences from nucleic acid extracts (total DNA or RNA) of two size fractions (0.8–3 or 3–20 μm) and two...

Data from: How can ten fingers shape a pot? Evidence for equivalent function in culturally distinct motor skills

Enora Gandon, Reinoud J. Bootsma, John A. Endler, Leore Grosman & Alex Mesoudi
Behavioural variability is likely to emerge when a particular task is performed in different cultural settings, assuming that part of human motor behaviour is influenced by culture. In analysing motor behaviour it is useful to distinguish how the action is performed from the result achieved. Does cultural environment lead to specific cultural motor skills? Are there differences between cultures both in the skills themselves and in the corresponding outcomes? Here we analyse the skill of...

Data from: Breakdown of phylogenetic signal: a survey of microsatellite densities in 454 shotgun sequences from 154 non model eukaryote species

Emese Meglécz, Gabriel Nève, Ed Biffin & Michael G. Gardner
Microsatellites are ubiquitous in Eukaryotic genomes. A more complete understanding of their origin and spread can be gained from a comparison of their distribution within a phylogenetic context. Although information for model species is accumulating rapidly, it is insufficient due to a lack of species depth, thus intragroup variation is necessarily ignored. As such, apparent differences between groups may be overinflated and generalizations cannot be inferred until an analysis of the variation that exists within...

Data from: A multispecies approach reveals hot-spots and cold-spots of diversity and connectivity in invertebrate species with contrasting dispersal modes

Abigail E. Cahill, Aurelien De Jode, Sophie Dubois, Zoheir Bouzaza, Didier Aurelle, Emilie Boissin, Olivier Chabrol, Romain David, Emilie Egea, Jean-Baptiste Ledoux, Bastien Merigot, Alexandra Anh-Thu Weber & Anne Chenuil
Genetic diversity is crucial for species’ maintenance and persistence, yet is often overlooked in conservation studies. Species diversity is more often reported due to practical constraints, but it is unknown if these measures of diversity are correlated. In marine invertebrates, adults are often sessile or sedentary and populations exchange genes via dispersal of gametes and larvae. Species with a larval period are expected to have more connected populations than those without larval dispersal. We assessed...

Occurrence of a substitution or deletion of SARS-CoV-2 spike amino acid 677 in various 7 lineages in Marseille, France

Philippe Colson, Jeremy Delerce & Didier Raoult

Supplement: Multicenter validated detection of focal cortical dysplasia using deep learning

Ravnoor S Gill, Hyo M Lee, Benoit Caldairou, Seok-Jun Hong, Carmen Barba, Francesco Deleo, Ludovico D’Incerti, Vanessa C Mendes Coelho, Matteo Lenge, Mira Semmelroch, Dewi Schrader, Fabrice Bartolomei, Maxime Guye, Andreas Schulze-Bonhage, Horst Urbach, Kyoo Ho Cho, Fernando Cendes, Renzo Guerrini, Graeme Jackson, R Edward Hogan, Neda Bernasconi & Andrea Bernasconi
Objective. To test the hypothesis that a multicenter-validated computer deep learning algorithm detects MRI-negative focal cortical dysplasia (FCD). Methods. We used clinically acquired 3D T1-weighted and 3D FLAIR MRI of 148 patients (median age, 23 years [range, 2-55]; 47% female) with histologically verified FCD at nine centers to train a deep convolutional neural network (CNN) classifier. Images were initially deemed as MRI-negative in 51% of cases, in whom intracranial EEG determined the focus. For risk...

Data from: Functional traits, not productivity, predict openness to seedling recruitment in alpine plant communities under climatic warming

Eric Meineri, Kari Klanderud, John Guittar, Deborah Goldberg & Vigdis Vandvik
Understanding the degree to which plant communities are open to seedling recruitment is key to predicting how they will be impacted by climate change. We experimentally assessed whether communities assembled under colder climates were inherently more open to recruitment than warmer-climate communities, after controlling for differences in the current climate under which the communities were growing. We then tested whether variation in openness to recruitment could be explained by community biomass or by the plant...

The impact of estimator choice: Disagreement in clustering solutions across K estimators for Bayesian analysis of population genetic structure across a wide range of empirical datasets

Kathryn Stankiewicz, Kate Vasquez Kuntz, Jean-Baptiste Ledoux, Didier Aurelle, Joaquim Garrabou, Yuichi Nakajima, Mikael Dahl, Yuna Zayasu, Sabri Jaziri, Federica Costantini & Iliana Baums
The software program STRUCTURE is one of the most cited tools for determining population structure. To infer the optimal number of clusters from STRUCTURE output, the ΔK method is often applied. However, a recent study relying on simulated microsatellite data suggested that this method has a downward bias in its estimation of K and is sensitive to uneven sampling. If this finding holds for empirical datasets, conclusions about the scale of gene flow may have...

Data from: Plotting for change: an analytic framework to aid decisions on which lineages are candidate species in phylogenomic species discovery

Arthur Georges, Peter Unmack, Mark Adams, Michael Hammer, Jerald Johnson, Bernd Gruber, André Gilles & Matthew Young
A recent study argued that coalescent-based models of species delimitation mostly delineate population structure not species, and called for the validation of candidate species using biological information additional to the genetic information, such as phenotypic or ecological data. Here we introduce a framework to interrogate genomic datasets and coalescent-based species trees for the presence of candidate species in situations where additional biological data are unavailable, unobtainable, or uninformative. For de novo genomic studies of species...

Data from: Variability of the atmospheric PM10 microbiome in three climatic regions of France

Abdoulaye Samaké, Jean M. F. Martins, Aurélie Bonin, Pierre Taberlet, Sébastien Conil, Olivier Favez, Alexandre Thomasson, Benjamin Chazeau, Nicolas Marchand, Jean-Luc Jaffrezo & Gaëlle Uzu
Air pollution is a major public-health concern and it is recognized that particulate matter causes damage to human health through oxidative-stress, being responsible for several million premature deaths worldwide each year. Recent findings showed that, airborne microorganisms/spores can modulate aerosol toxicity by altering the oxidative potential of PM10. Primary Biogenic Organic Aerosols (PBOA) appears to be produced by only few genera of microorganisms, emitted by surrounding vegetation in the case of a regionally-homogeneous field site....

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