146 Works

Data from: Globally, functional traits are weak predictors of juvenile tree growth, and we do not know why

C. E. Timothy Paine, Lucy Amissah, Harald Auge, Christopher Baraloto, Martin Baruffol, Nils Bourland, Helge Bruelheide, Kasso Daïnou, Roland C. De Gouvenain, Jean-Louis Doucet, Susan Doust, Paul V. A. Fine, Claire Fortunel, Josephine Haase, Karen D. Holl, Hervé Jactel, Xuefei Li, Kaoru Kitajima, Julia Koricheva, Cristina Martínez-Garza, Christian Messier, Alain Paquette, Christopher Philipson, Daniel Piotto, Lourens Poorter … & Andy Hector
1. Plant functional traits, in particular specific leaf area (SLA), wood density and seed mass, are often good predictors of individual tree growth rates within communities. Individuals and species with high SLA, low wood density and small seeds tend to have faster growth rates. 2. If community-level relationships between traits and growth have general predictive value, then similar relationships should also be observed in analyses that integrate across taxa, biogeographic regions and environments. Such global...

Data from: Integrative taxonomy resolves the cryptic and pseudo-cryptic Radula buccinifera complex (Porellales: Jungermanniopsida), including two reinstated and five new species

Matt A. M. Renner, Nicolas Devos, Jairo Patiño, Elizabeth A. Brown, Andrew Orme, Michael Elgy, Trevor Wilson, Lindsey J. Gray, Matt J. Von Konrat, Lindsey Gray, Matt Renner, Elizabeth Brown & Matt Von Konrat
Molecular data from three chloroplast markers resolve individuals attributable to Radula buccinifera in six lineages belonging to two subgenera, indicating the species is polyphyletic as currently circumscribed. All lineages are morphologically diagnosable, but one pair exhibits such morphological overlap that they can be considered cryptic. Molecular and morphological data justify the re-instatement of a broadly circumscribed ecologically variable R. strangulata, of R. mittenii, and the description of five new species. Two species Radula mittenii Steph....

Data from: Persistence of the effect of frugivore identity on post-dispersal seed fate: consequences for the assessment of functional redundancy

Ana Paula Lugon, Marion Boutefeu, Emilie Bovy, Fernando Z. Vaz-De-Mello, Marie-Claude Huynen, Mauro Galetti & Laurence Culot
Large frugivores play an important role as seed dispersers and their extinction may affect plant regeneration. The consequences of such extinctions depend on the likelihood of other species being functionally redundant and on how post-dispersal events are affected. We assess the functional redundancy of two seed dispersers of the Atlantic Forest, the muriqui (Brachyteles arachnoides) and the tapir (Tapirus terrestris) through the comparison of their seed dispersal quality, taking into account post-dispersal events. We compare...

Data from: The ‘male escape hypothesis’: sex-biased metamorphosis in response to climatic drivers in a facultatively paedomorphic amphibian

Anthony G.E. Mathiron, Jean-Paul Lena, Sarah Baouch, Mathieu Denoël & Anthony G. E. Mathiron
Paedomorphosis is a major evolutionary process that bypasses metamorphosis and allows reproduction in larvae. In newts and salamanders, it can be facultative with paedomorphs retaining gills and metamorphs dispersing. The evolution of these developmental processes is thought to have been driven by the costs and benefits of inhabiting aquatic versus terrestrial habitats. In this context, we aimed at testing the hypothesis that climatic drivers affect phenotypic transition and the difference across sexes because sex-ratio is...

Data from: Testing the divergent adaptation of two congeneric tree species on a rainfall gradient using eco-physio-morphological traits

Anaïs-Pasiphaé Gorel, Kathy Steppe, Hans Beeckman, Niels J.F. De Baerdemaeker, Jean-Louis Doucet, Gauthier Ligot, Kasso Daïnou & Adeline Fayolle.
In tropical Africa, evidence of widely distributed genera transcending biomes or habitat boundaries has been reported. The evolutionary processes that allowed these lineages to disperse and adapt into new environments are far from being resolved. To better understand these processes, we propose an integrated approach, based on the eco-physio-morphological traits of two sister species with adjacent distributions along a rainfall gradient. We used wood anatomical traits, plant hydraulics (vulnerability to cavitation, wood volumetric water content...

Data from: Maintenance of genetic and morphological identity in two sibling Syrrhopodon species (Calymperaceae, Bryopsida) despite extensive introgression

Marta R. Pereira, Alice Ledent, Patrick Mardulyn, Charles E. Zartman & Alain Vanderpoorten
Bryophytes are a group of land plants wherein the role of hybridization has long been challenged. Using Genotyping by Sequencing to circumvent the lack of molecular variation at selected loci previously used for phylogeny and morphology, we determine the level of genetic and morphological divergence and reproductive isolation between the sibling Syrrhopodon annotinus and S. simmondsii (Calymperaceae, Bryopsida) that occur in sympatry but in different habitats in lowland Amazonian rainforests. A clear morphological differentiation and...

Data from: Multiple glacial refugia and contemporary dispersal shape the genetic structure of an endemic amphibian from the Pyrenees

Federica Lucati, Manon Poignet, Alexandre Miró, Audrey Trochet, Fabien Aubret, Laurent Barthe, Romain Bertrand, Teresa Buchaca, Olivier Calvez, Jenny Caner, Elodie Darnet, Mathieu Denoël, Olivier Guillaume, Hugo Le Chevalier, Albert Martínez-Silvestre, Marc Mossoll-Torres, David O’Brien, Víctor Osorio, Gilles Pottier, Murielle Richard, Ibor Sabás, Jérémie Souchet, Jan Tomàs & Marc Ventura
Historical factors (colonization scenarios, demographic oscillations) and contemporary processes (population connectivity, current population size) largely contribute to shaping species’ present-day genetic diversity and structure. In this study, we use a combination of mitochondrial and nuclear DNA markers to understand the role of Quaternary climatic oscillations and present-day gene flow dynamics in determining the genetic diversity and structure of the newt Calotriton asper (Al. Dugès, 1852), endemic to the Pyrenees. Mitochondrial DNA did not show a...

Tree diversity is key for promoting the diversity and abundance of forest‐associated taxa in Europe

Eric Allan, Evy Ampoorter, Luc Barbaro, Hervé Jactel, Lander Baeten, Johanna Boberg, Monique Carnol, Bastien Castagneyrol, Yohan Charbonnier, Seid Muhie Dawud, Marc Deconchat, Pallieter De Smedt, Hans De Wandeler, Virginie Guyot, Stephan Hättenschwiler, François‐Xavier Joly, Julia Koricheva, Harriet Milligan, Bart Muys, Diem Nguyen, Sophia Ratcliffe, Karsten Raulund‐Rasmussen, Michael Scherer‐Lorenzen, Fons Plas, J. Van Keer … & Lars Vesterdal
Plant diversity is an important driver of diversity at other trophic levels, suggesting that cascading extinctions could reduce overall biodiversity. Most evidence for positive effects of plant diversity comes from grasslands. Despite the fact that forests are hotspots of biodiversity, the importance of tree diversity, in particular its relative importance compared to other management related factors, in affecting forest‐associated taxa is not well known. To address this, we used data from 183 plots, located in...

Highlighting convergent evolution in morphological traits in response to climatic gradient in African tropical tree species: the case of genus Guibourtia Benn

Felicien Tosso, Jean-Louis Doucet, Kasso Daïnou, Adeline Fayolle, Alain Hambuckers, Charles Doumenge, Honoré Agbazahou, Piet Stoffelen & Olivier Hardy
Adaptive evolution is a major driver of organism diversification but the links between phenotypic traits and environmental niche remains little documented in tropical trees. Moreover, trait-niche relationships are complex because a correlation between the traits and environmental niches displayed by a sample of species may result from (1) convergent evolution if different environmental conditions have selected different sets of traits, and/or (2) phylogenetic inertia if niche and morphological differences between species are simply function of...

A closer look at Malaita's lithics. Preliminary results of a functional study of the lithic tools from Apunirereha and Ria, Solomon Islands

Julia Tomasso & Johannes Moser
Journal of Global Archaeology, 2020

Bibliopol@: The Book Market in the Renaissance between France and the Low Countries

Renaud Adam & Chiara Lastraioli

CGRN 1: Fragments of the sacrificial calendar of Corinth

Jan-Mathieu Carbon, Saskia Peels & Vinciane Pirenne-Delforge

Observation on the effect of platelet-rich plasma combined with drugs in the treatment of herpes zoster neuralgia

Zenghua Zhou, Xin Hu, Fangran Yan, Yanhua Zhou, Ruilin He, Xiaolong Ye & Zongbin Jiang
To observe the effect of ultrasound-guided platelet-rich plasma (PRP) injection in the treatment of herpes zoster neuralgia (HZN). Eighty patients with HZN were randomly divided into observation group and control group, with 40 cases in each group. The observation group was treated with ultrasound-guided PRP injection of target nerves combined with drugs. The control group was treated with drugs alone. The pain scores of before treatment (T0), and 1 week (T1), 1 month (T2), 3...

Additional file 13 of An integrated in silico-in vitro approach for identifying therapeutic targets against osteoarthritis

Raphaëlle Lesage, Mauricio N. Ferrao Blanco, Roberto Narcisi, Tim Welting, Gerjo J. V. M. van Osch & Liesbet Geris
Additional file 13: Fig. S4. Decision tree summarizing the variable updating scheme employed in algorithm to simulate the in silico chondrocyte. Each biological component is represented by the gene expression level (slow variable) and the protein activity potential (fast variable). Variables are updated based on the rules stored in the model’s equations. First, fast variables are updated in random order, when a pseudo-stable state is reached and that all fast variables have been updated, the...

An integrated in silico-in vitro approach for identifying therapeutic targets against osteoarthritis

Raphaëlle Lesage, Mauricio N. Ferrao Blanco, Roberto Narcisi, Tim Welting, Gerjo J. V. M. van Osch & Liesbet Geris
Abstract Background Without the availability of disease-modifying drugs, there is an unmet therapeutic need for osteoarthritic patients. During osteoarthritis, the homeostasis of articular chondrocytes is dysregulated and a phenotypical transition called hypertrophy occurs, leading to cartilage degeneration. Targeting this phenotypic transition has emerged as a potential therapeutic strategy. Chondrocyte phenotype maintenance and switch are controlled by an intricate network of intracellular factors, each influenced by a myriad of feedback mechanisms, making it challenging to intuitively...

Additional file 7 of An integrated in silico-in vitro approach for identifying therapeutic targets against osteoarthritis

Raphaëlle Lesage, Mauricio N. Ferrao Blanco, Roberto Narcisi, Tim Welting, Gerjo J. V. M. van Osch & Liesbet Geris
Additional file 7: Table S3. Validation of transcriptional data-inferred regulatory interactions. Transcriptional interactions were inferred from the merged OA dataset. Inference was run with three algorithms and only interactions that were present in the results of the three algorithms (GENIE3, ARACNE, TIGRESS) were considered as additions to the model. An interaction was considered present for one algorithm if it scored higher than a threshold defined as the difference between the mean and standard deviation of...

Additional file 7 of An integrated in silico-in vitro approach for identifying therapeutic targets against osteoarthritis

Raphaëlle Lesage, Mauricio N. Ferrao Blanco, Roberto Narcisi, Tim Welting, Gerjo J. V. M. van Osch & Liesbet Geris
Additional file 7: Table S3. Validation of transcriptional data-inferred regulatory interactions. Transcriptional interactions were inferred from the merged OA dataset. Inference was run with three algorithms and only interactions that were present in the results of the three algorithms (GENIE3, ARACNE, TIGRESS) were considered as additions to the model. An interaction was considered present for one algorithm if it scored higher than a threshold defined as the difference between the mean and standard deviation of...

Additional file 6 of An integrated in silico-in vitro approach for identifying therapeutic targets against osteoarthritis

Raphaëlle Lesage, Mauricio N. Ferrao Blanco, Roberto Narcisi, Tim Welting, Gerjo J. V. M. van Osch & Liesbet Geris
Additional file 6: Data S2. GRN inference and validation. (Microsoft Excel Worksheet). The GRN inference with the 3 algorithms and the consensus matrix are reported. We have set stringent rules and only interactions that were inferred by the 3 algorithms were included in the mechanistic model: those interactions are all reported in Fig. 2D. The validity of the inferred interactions was investigated by searching the GeneCard database. The relevant GeneHancer IDs are reported when supportive...

Additional file 15 of An integrated in silico-in vitro approach for identifying therapeutic targets against osteoarthritis

Raphaëlle Lesage, Mauricio N. Ferrao Blanco, Roberto Narcisi, Tim Welting, Gerjo J. V. M. van Osch & Liesbet Geris
Additional file 15: Fig. S6. Sensitivity analysis: impact of the number of initialization on the canalization results during the Monte Carlo. The percentage of random initialization reaching each attractor is displayed with the Sox9 positive state (healthy) in orange, the Runx2 positive state in blue and the None in grey. Data labels indicate the absolute amount of state reaching the attractors. None of initializations reached an alternative attractor, even for higher amount of random initializations...

Additional file 16 of An integrated in silico-in vitro approach for identifying therapeutic targets against osteoarthritis

Raphaëlle Lesage, Mauricio N. Ferrao Blanco, Roberto Narcisi, Tim Welting, Gerjo J. V. M. van Osch & Liesbet Geris
Additional file 16: Fig. S7. Pseudo-time evolution of variables during simulations. The sequence of variable updating over each time steps after introducing a perturbation from the healthy state was saved as a timeseries and plotted. It shows the discrete behavior of the simulation and that a steady state is reached way before the duration of the perturbation (1000 time steps) is reached in such a way that maintain the perturbation longer would not change the...

Additional file 1 of An integrated in silico-in vitro approach for identifying therapeutic targets against osteoarthritis

Raphaëlle Lesage, Mauricio N. Ferrao Blanco, Roberto Narcisi, Tim Welting, Gerjo J. V. M. van Osch & Liesbet Geris
Additional file 1: Table S1. Definitions. Definitions of technical terms pertaining to biological signaling network modeling with a semi-quantitative additive formalism.

Additional file 10 of An integrated in silico-in vitro approach for identifying therapeutic targets against osteoarthritis

Raphaëlle Lesage, Mauricio N. Ferrao Blanco, Roberto Narcisi, Tim Welting, Gerjo J. V. M. van Osch & Liesbet Geris
Additional file 10: Fig. S2. Effect of ALKs ratio in the influence of inflammation and TGFβ signaling on chondrocyte hypertrophy. Percentage of perturbations remaining in the healthy state (right) or transitioning towards the hypertrophic one (left) during inflammatory pathway activation with TGF-B treatment while changing the ratio between ALK1 and ALK5. The inflammatory and TGF-B profiles that were imposed are the same as in Fig. 4A except that the value imposed for ALK1 and ALK5...

sj-docx-1-jdr-10.1177_00220345221123256 – Supplemental material for TRAF3IP2–IL-17 Axis Strengthens the Gingival Defense against Pathogens

J. Zhang, L. Sun, M.H.H. Withanage, S.M. Ganesan, M.A. Williamson, J.T. Marchesan, Y. Jiao, F.R. Teles, N. Yu, Y. Liu, D. Wu, K.L. Moss, A.K. Mangalam, E. Zeng, Y.L. Lei & S. Zhang
Supplemental material, sj-docx-1-jdr-10.1177_00220345221123256 for TRAF3IP2–IL-17 Axis Strengthens the Gingival Defense against Pathogens by J. Zhang, L. Sun, M.H.H. Withanage, S.M. Ganesan, M.A. Williamson, J.T. Marchesan, Y. Jiao, F.R. Teles, N. Yu, Y. Liu, D. Wu, K.L. Moss, A.K. Mangalam, E. Zeng, Y.L. Lei and S. Zhang in Journal of Dental Research

Quel « manger local » quand on s’approvisionne dans une AMAP nantaise ?

Julien Noël, Sécou Omar Diédhiou & Margetic Christine
AMAP ou Association pour le maintien d’une agriculture paysanne… Cet acronyme s’est progressivement ancré dans le paysage de l’alimentation locale en France. Le mouvement, qui fête ses 20 ans en 2021 avec près de 3000 structures à l’échelle nationale, est particulièrement présent dans l’aire urbaine de Nantes. Soutien solidaire et collectif de «consom’acteurs» à des producteurs paysans via l’achat de paniers de produits de qualité, en quoi les AMAP nantaises sont-elles garantes d’un «manger local»...

Quels impacts socio-écologiques d’une transition agroécologique ?

Fanny Boeraeve
Il était une fois en Belgique, dans l’Ouest du Hainaut, un collectif d’agriculteurs qui s’était donné pour mission de questionner leurs pratiques. Convaincus que l’avenir de l’agriculture ne dépend pas des grands groupes mondiaux, mais que l’innovation se trouve dans les fermes, ces agriculteurs ont décidé de mutualiser leurs connaissances et leurs expériences dans un but d’augmenter la résilience de leurs systèmes et de retrouver leur autonomie. Ces changements, ils les effectuent à diverses échelles,...

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